Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 72 of 290
Found at i:21836945 original size:17 final size:17
Alignment explanation
Indices: 21836923--21836957 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
21836913 TTTAAATTTA
21836923 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
21836940 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
21836957 T
1 T
21836958 AATAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:21837004 original size:56 final size:57
Alignment explanation
Indices: 21836857--21837005 Score: 223
Period size: 56 Copynumber: 2.6 Consensus size: 57
21836847 GCGATTAATG
*
21836857 TTAAATTTAACTTACT-AAATACATTACTTACT-AAATAAATTACTTACTAAAATTTGT
1 TTAAATTT-A-TTACTAAAATACATTACTTACTAAAATAAATTACTTAATAAAATTTGT
* *
21836914 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTAC-TAATAAATTTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAATAAAATTTGT
*
21836970 TTAAATTTATTTCTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
21837006 TTGTTTAAAT
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
55 5 0.06
56 63 0.73
57 18 0.21
ACGTcount: A:0.44, C:0.11, G:0.01, T:0.43
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAATAAAATTTGT
Found at i:21837027 original size:39 final size:40
Alignment explanation
Indices: 21836940--21837044 Score: 169
Period size: 39 Copynumber: 2.7 Consensus size: 40
21836930 AATACATTAC
* *
21836940 TTACTAAAATACATTAC-TAATAAATTTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
*
21836979 TTTCTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
21837019 TTAC-AAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
21837045 CACTTACTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 38 0.62
40 23 0.38
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Found at i:21837051 original size:13 final size:13
Alignment explanation
Indices: 21837033--21837057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21837023 AAAATACATT
21837033 ACTTACTAAAATC
1 ACTTACTAAAATC
21837046 ACTTACTAAAAT
1 ACTTACTAAAAT
21837058 TTGTTTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
ACTTACTAAAATC
Found at i:21837061 original size:52 final size:55
Alignment explanation
Indices: 21836994--21837156 Score: 178
Period size: 56 Copynumber: 3.0 Consensus size: 55
21836984 AAAATACATT
21836994 ACTTACTAAAATTTGTTTAAA-T-TTATTAC-AAAATACATTACTTACTAAAATC
1 ACTTACTAAAATTTGTTTAAATTATTATTACTAAAATACATTACTTACTAAAATC
*
21837046 ACTTACTAAAATTTGTTTAAATTTATTATTACTTAAATACATTACTTACTAAAAT-
1 ACTTACTAAAATTTGTTTAAA-TTATTATTACTAAAATACATTACTTACTAAAATC
** * *
21837101 --TTGTTTAAATTT-TTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAAT
1 ACTTACTAAAATTTGTT--T-AAAT-TATTA-TTACTAAAATACATTACTTACTAAAAT
21837157 TTGTTTAAAT
Statistics
Matches: 96, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
52 23 0.24
53 9 0.09
54 3 0.03
55 14 0.15
56 47 0.49
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (55 bp):
ACTTACTAAAATTTGTTTAAATTATTATTACTAAAATACATTACTTACTAAAATC
Found at i:21837075 original size:95 final size:96
Alignment explanation
Indices: 21836879--21837172 Score: 440
Period size: 95 Copynumber: 3.0 Consensus size: 96
21836869 TACTAAATAC
*
21836879 ATTACTTACT-AAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTA-TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
21836943 CTAAAAT-ACATTACTAATAAATTTTGTTTAAATTT
65 CTAAAATCAC-TTACT-A-AAA-TTTGTTTAAATTT
21836978 A-T-TT-CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAC-AAAATACATTACTTAC
1 ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
21837039 TAAAATCACTTACTAAAATTTGTTTAAATTT
66 TAAAATCACTTACTAAAATTTGTTTAAATTT
*
21837070 ATTATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT-TTACTAAAATACATTACTTAC
1 ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
21837134 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
66 TAAAAT-C---ACTTACTAAAATTTGTTTAAATTT
21837169 ATTA
1 ATTA
21837173 CTTAAATATG
Statistics
Matches: 183, Mismatches: 2, Indels: 20
0.89 0.01 0.10
Matches are distributed among these distances:
92 14 0.08
93 4 0.02
94 7 0.04
95 86 0.47
96 42 0.23
98 1 0.01
99 29 0.16
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.45
Consensus pattern (96 bp):
ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
TAAAATCACTTACTAAAATTTGTTTAAATTT
Found at i:21837117 original size:39 final size:42
Alignment explanation
Indices: 21837046--21837139 Score: 149
Period size: 39 Copynumber: 2.3 Consensus size: 42
21837036 TACTAAAATC
*
21837046 ACTTACTAAAATTTGTTTAAATTTATTATTACTTAAATACATT
1 ACTTACTAAAATTTGTTTAAA-TTATTATTACTAAAATACATT
21837089 ACTTACTAAAATTTGTTTAAA-T-TT-TTACTAAAATACATT
1 ACTTACTAAAATTTGTTTAAATTATTATTACTAAAATACATT
21837128 ACTTACTAAAAT
1 ACTTACTAAAAT
21837140 ACATTACTTA
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
39 26 0.52
40 2 0.04
41 1 0.02
43 21 0.42
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (42 bp):
ACTTACTAAAATTTGTTTAAATTATTATTACTAAAATACATT
Found at i:21837135 original size:17 final size:17
Alignment explanation
Indices: 21837113--21837156 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
21837103 GTTTAAATTT
21837113 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
21837130 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
21837147 TTACTAAAAT
1 TTACTAAAAT
21837157 TTGTTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:21837157 original size:56 final size:57
Alignment explanation
Indices: 21837070--21837189 Score: 190
Period size: 56 Copynumber: 2.1 Consensus size: 57
21837060 GTTTAAATTT
*
21837070 ATTA-TTACTTAAATACATTACTTACTAAAATTTGTTTAAATTT-TTACTAAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
* *
21837125 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAT
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
*
21837182 GTTACTTA
1 ATTACTTA
21837190 ATTTATTACT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
55 4 0.07
56 38 0.64
57 17 0.29
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (57 bp):
ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
Found at i:21837179 original size:13 final size:13
Alignment explanation
Indices: 21837161--21837204 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
21837151 TAAAATTTGT
21837161 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
21837174 TTAAATATGTTAC
1 TTAAATTTATTAC
21837187 TT-AATTTATTAC
1 TTAAATTTATTAC
21837199 TTAAAT
1 TTAAAT
21837205 AGATTATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:21837200 original size:12 final size:12
Alignment explanation
Indices: 21837164--21837202 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21837154 AATTTGTTTA
21837164 AATTTATTACTT
1 AATTTATTACTT
* *
21837176 AAATATGTTACTT
1 -AATTTATTACTT
21837189 AATTTATTACTT
1 AATTTATTACTT
21837201 AA
1 AA
21837203 ATAGATTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (12 bp):
AATTTATTACTT
Found at i:21837411 original size:38 final size:38
Alignment explanation
Indices: 21837369--21837486 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 38
21837359 AAAATTGTGG
21837369 AATATTAAAATTGACTATTAAATAAAATGTTATTTATT
1 AATATTAAAATTGACTATTAAATAAAATGTTATTTATT
** * **
21837407 AATA-TATTATT-A-TAATTATAA-AAAA---TATGT-GG
1 AATATTAAAATTGACT-ATTA-AATAAAATGTTATTTATT
21837439 AATATTAAAATTGACTATTAAAATAAAATGTTATTTTATT
1 AATATTAAAATTGACTATT-AAATAAAATGTTA-TTTATT
21837479 AAATATTA
1 -AATATTA
21837487 TTAATATTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 23
0.63 0.11 0.26
Matches are distributed among these distances:
32 4 0.07
33 9 0.16
34 6 0.11
35 7 0.12
36 9 0.16
37 7 0.12
38 6 0.11
39 2 0.04
41 7 0.12
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (38 bp):
AATATTAAAATTGACTATTAAATAAAATGTTATTTATT
Found at i:21837438 original size:70 final size:70
Alignment explanation
Indices: 21837357--21837497 Score: 234
Period size: 71 Copynumber: 2.0 Consensus size: 70
21837347 ATAAAATATA
21837357 AAAAAATTGTGGAATATTAAAATTGACTATT-AAATAAAATGTTA-TTTATTAATATATTATT-A
1 AAAAAATTGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAA-ATATTATTAA
21837419 TAATTAT
65 T-ATTAT
21837426 AAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTAA
1 AAAAAAT-TGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTAA
21837491 TATTAT
65 TATTAT
21837497 A
1 A
21837498 TTAGTAATGT
Statistics
Matches: 68, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
69 7 0.10
70 24 0.35
71 27 0.40
72 10 0.15
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (70 bp):
AAAAAATTGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTAAT
ATTAT
Found at i:21837612 original size:25 final size:26
Alignment explanation
Indices: 21837537--21837925 Score: 333
Period size: 25 Copynumber: 16.0 Consensus size: 26
21837527 TTTATAAGAT
21837537 ATACATAATAACTTACAACTTACATA
1 ATACATAATAACTTACAACTTACATA
*
21837563 ATACAT-TTAA--TACATACTTACATA
1 ATACATAATAACTTACA-ACTTACATA
21837587 ATACATAATAACTTAC-ACTTACATA
1 ATACATAATAACTTACAACTTACATA
*
21837612 ATACAT-TTAACTTACAACTTACATA
1 ATACATAATAACTTACAACTTACATA
* * *
21837637 AT-CAT-TTGACTGAC-A--TA-ATA
1 ATACATAATAACTTACAACTTACATA
*
21837657 CAT---T--TAACTTACAACTTACACA
1 -ATACATAATAACTTACAACTTACATA
*
21837679 ATACATAATAACTTACAAC-TCCATA
1 ATACATAATAACTTACAACTTACATA
*
21837704 ATACATAATAA-TTACAACTTACACA
1 ATACATAATAACTTACAACTTACATA
21837729 ATACATAATAACTTACAACTTAC-TA
1 ATACATAATAACTTACAACTTACATA
21837754 AT--ATAATATACTTACAAAC-TACATA
1 ATACATAATA-ACTTAC-AACTTACATA
* *
21837779 ATACATTAT-ACTTGCAACTTACATCA
1 ATACATAATAACTTACAACTTACAT-A
*
21837805 ATAAATAAT-A-TTAC-ACTTACATA
1 ATACATAATAACTTACAACTTACATA
21837828 ATA-ATCAATAACTTA-AACTTA-ATA
1 ATACAT-AATAACTTACAACTTACATA
* *
21837852 ATACAT-TTAACTTACAATTTACA-A
1 ATACATAATAACTTACAACTTACATA
* *
21837876 ATACTTTAATCA-TT-CAACTTACAATA
1 ATAC-ATAATAACTTACAACTTAC-ATA
21837902 ATACATAAT-ACTTACAACTTACAT
1 ATACATAATAACTTACAACTTACAT
21837926 TTAACTTACA
Statistics
Matches: 301, Mismatches: 25, Indels: 75
0.75 0.06 0.19
Matches are distributed among these distances:
18 6 0.02
19 2 0.01
20 3 0.01
21 8 0.03
22 4 0.01
23 25 0.08
24 86 0.29
25 108 0.36
26 52 0.17
27 7 0.02
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (26 bp):
ATACATAATAACTTACAACTTACATA
Found at i:21837685 original size:92 final size:91
Alignment explanation
Indices: 21837558--21837726 Score: 254
Period size: 92 Copynumber: 1.8 Consensus size: 91
21837548 CTTACAACTT
* *
21837558 ACATAATACATTTAATACATACTTACATAATACATAATAACTTAC-ACTTACATAATACAT-TTA
1 ACATAATACATTTAATACATACTTACACAATACATAATAACTTACAAC-TACATAATACATAATA
21837621 ACTTACAACTTACATAATCATTTGACTG
65 A-TTACAACTTACATAATCATTTGACTG
*
21837649 ACATAATACATTTAACTTACA-ACTTACACAATACATAATAACTTACAACTCCATAATACATAAT
1 ACATAATACATTTAA--TACATACTTACACAATACATAATAACTTACAACTACATAATACATAAT
21837713 AATTACAACTTACA
64 AATTACAACTTACA
21837727 CAATACATAA
Statistics
Matches: 71, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
91 15 0.21
92 47 0.66
93 9 0.13
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (91 bp):
ACATAATACATTTAATACATACTTACACAATACATAATAACTTACAACTACATAATACATAATAA
TTACAACTTACATAATCATTTGACTG
Found at i:21837895 original size:31 final size:34
Alignment explanation
Indices: 21837850--21837914 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 34
21837840 TTAAACTTAA
* *
21837850 TAATACATTTAACTTACAAT-TTACA-AATACTT
1 TAATACATTCAACTTACAATAATACATAATACTT
21837882 TAAT-CATTCAACTTACAATAATACATAATACTT
1 TAATACATTCAACTTACAATAATACATAATACTT
21837915 ACAACTTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 8 0.28
33 7 0.24
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (34 bp):
TAATACATTCAACTTACAATAATACATAATACTT
Found at i:21837943 original size:17 final size:17
Alignment explanation
Indices: 21837921--21837954 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21837911 ACTTACAACT
21837921 TACATTTAAC-TTACATA
1 TACA-TTAACTTTACATA
21837938 TACATTAACTTTACATA
1 TACATTAACTTTACATA
21837955 ACTTACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (17 bp):
TACATTAACTTTACATA
Found at i:21843351 original size:21 final size:21
Alignment explanation
Indices: 21843325--21843395 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
21843315 CTACAACTTA
* *
21843325 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
21843346 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
21843367 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
21843388 AAGCAGAG
1 AAGCAGAG
21843396 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:21843633 original size:14 final size:14
Alignment explanation
Indices: 21843614--21843647 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
21843604 ATTGCTATTG
21843614 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
21843628 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
21843642 TTTGCT
1 GTTGCT
21843648 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:21843864 original size:42 final size:40
Alignment explanation
Indices: 21843713--21844084 Score: 368
Period size: 42 Copynumber: 8.9 Consensus size: 40
21843703 TTTTGTATAA
* * **
21843713 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAA
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTT-TATT
** * ** **
21843754 AAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAAAA
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TT--TTATT
* *
21843797 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCATT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTT--ATT
21843839 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTT-TT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTATT
* * * *
21843878 CCAAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTT
1 ---AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTATT
* *
21843921 ACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
1 --AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTAT-T
* *
21843965 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTAT-T
* *
21844006 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTAT-T
* *
21844048 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTT
21844085 TGTTTGTAAA
Statistics
Matches: 292, Mismatches: 27, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
39 2 0.01
41 75 0.26
42 173 0.59
43 41 0.14
44 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (40 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTATT
Found at i:21843938 original size:126 final size:125
Alignment explanation
Indices: 21843713--21844084 Score: 460
Period size: 126 Copynumber: 3.0 Consensus size: 125
21843703 TTTTGTATAA
* * * ** ** * *
21843713 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCAAAGCGCCGCTAAAGAACATGATCT
***** *
21843778 TTAGCGGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCAT-T
66 TTAGCGGC-ATTTTTTTACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-CATCT
*
21843839 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGGTC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTT-CAAAGCGCCGCTAAAGAACATGATC
* * **
21843904 TTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCATTTTTTTACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCATCT
* *
21843965 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCAAAGCGCCGCTAAAGAACATGATCT
* * * *
21844030 TTAGCGGCGTTTTTTT-CTAAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTT
66 TTAGCGGCATTTTTTTAC-AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
21844085 TGTTTGTAAA
Statistics
Matches: 216, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
124 1 0.00
125 73 0.34
126 114 0.53
127 28 0.13
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (125 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCAAAGCGCCGCTAAAGAACATGATCT
TTAGCGGCATTTTTTTACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCATCT
Found at i:21844031 original size:83 final size:83
Alignment explanation
Indices: 21843713--21844085 Score: 435
Period size: 84 Copynumber: 4.5 Consensus size: 83
21843703 TTTTGTATAA
* * * * *** ** *
21843713 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGTTCT
*******
21843778 TTAGCGGCGATTAGAAAAA
66 TTAGCGGCG-TTTTTTTCT
* *
21843797 AAACGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCATTAAGCGCCGCTAAAGAACATGTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC--TAAGCGCCGCTAAAGAACATGTT
* *
21843861 CTTTAGCGGCGTTTTTTCCA
64 CTTTAGCGGCGTTTTTTTCT
* * * *
21843881 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTT-TACAAACGCCGCTAAAGAACATGTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCT--AAGCGCCGCTAAAGAACATGTT
21843945 CTTTAGCGGCGTTTTTTTCT
64 CTTTAGCGGCGTTTTTTTCT
*
21843965 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGTTCT
21844030 TTAGCGGCGTTTTTTTCT
66 TTAGCGGCGTTTTTTTCT
* *
21844048 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
21844086 GTTTGTAAAC
Statistics
Matches: 251, Mismatches: 32, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
82 1 0.00
83 79 0.31
84 136 0.54
85 35 0.14
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (83 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGTTCT
TTAGCGGCGTTTTTTTCT
Found at i:21844085 original size:42 final size:42
Alignment explanation
Indices: 21843800--21844085 Score: 425
Period size: 42 Copynumber: 6.8 Consensus size: 42
21843790 AGAAAAAAAA
**
21843800 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCAT-TAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTTCTAAG
* * *
21843842 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCAAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* * * *
21843884 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAG
*
21843926 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
21843968 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
21844009 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
21844051 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
21844086 GTTTGTAAAC
Statistics
Matches: 223, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
41 42 0.19
42 180 0.81
43 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.32
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:21854437 original size:48 final size:48
Alignment explanation
Indices: 21854367--21854464 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
21854357 ATCGTCTATT
*
21854367 TATTCTCACTTTCGCAATTAACGATTTCTGTAAATCCACACATACCGC
1 TATTCTCACTTTCGCAATTAACGATTTCTATAAATCCACACATACCGC
21854415 TATTCTCACTTTCGCAATTAACGATTTCTATAAATCCACACATACCGC
1 TATTCTCACTTTCGCAATTAACGATTTCTATAAATCCACACATACCGC
21854463 TA
1 TA
21854465 GTCTTGTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
TATTCTCACTTTCGCAATTAACGATTTCTATAAATCCACACATACCGC
Found at i:21855283 original size:5 final size:5
Alignment explanation
Indices: 21855273--21855297 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21855263 AATAAACCAA
21855273 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
21855298 AACTAAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:21857526 original size:34 final size:34
Alignment explanation
Indices: 21857488--21857553 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
21857478 AAAAGACCTC
*
21857488 TAAACCCTACTTTAAAGAAACAAAACCCTAACAT
1 TAAACCCTAATTTAAAGAAACAAAACCCTAACAT
* *
21857522 TAAACCTTAATTTAAATAAACAAAACCCTAAC
1 TAAACCCTAATTTAAAGAAACAAAACCCTAAC
21857554 CCTTAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.23
Consensus pattern (34 bp):
TAAACCCTAATTTAAAGAAACAAAACCCTAACAT
Found at i:21858014 original size:40 final size:40
Alignment explanation
Indices: 21857970--21858050 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
21857960 AGGTCATATA
**
21857970 CTCATGTTGGAAAAAATCCGGTTTGAAAATAGTTTTCTTG
1 CTCATGTTGGAAAAAATCCAATTTGAAAATAGTTTTCTTG
*
21858010 CTCATGTTGGAAAAAATTCAATTTGAAAATAGTTTTCTTG
1 CTCATGTTGGAAAAAATCCAATTTGAAAATAGTTTTCTTG
21858050 C
1 C
21858051 ACAACGGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (40 bp):
CTCATGTTGGAAAAAATCCAATTTGAAAATAGTTTTCTTG
Found at i:21858891 original size:6 final size:6
Alignment explanation
Indices: 21858880--21858907 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21858870 TTTAGGTCAT
21858880 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
21858908 GGGGAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:21858951 original size:57 final size:58
Alignment explanation
Indices: 21858890--21859012 Score: 151
Period size: 57 Copynumber: 2.1 Consensus size: 58
21858880 TTTTCATTTT
* * *
21858890 CATTTTCATTTTCATTTTGGGGAA-ATTCACATTCATTTCCAAATGATTCC-ATTTCTC
1 CATTTTCATTTTCATTTTGGAGAAGA-CCACAATCATTTCCAAATGATTCCTATTTCTC
* * * * *
21858947 CATTTTCATTTTTATTTTGGATAAGACCATAATCATTTCCAATTGTTTCCTATTTCTC
1 CATTTTCATTTTCATTTTGGAGAAGACCACAATCATTTCCAAATGATTCCTATTTCTC
21859005 CATTTTCA
1 CATTTTCA
21859013 CCATTTCTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 40 0.71
58 16 0.29
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.48
Consensus pattern (58 bp):
CATTTTCATTTTCATTTTGGAGAAGACCACAATCATTTCCAAATGATTCCTATTTCTC
Found at i:21863500 original size:13 final size:13
Alignment explanation
Indices: 21863484--21863546 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
21863474 TTTAAACCAA
21863484 ACTTTTCAAAATC
1 ACTTTTCAAAATC
*
21863497 ACTTCTCAAAATC
1 ACTTTTCAAAATC
*
21863510 ACTTCTT-AAAAGC
1 ACTT-TTCAAAATC
*
21863523 ACTTTTACACAA-C
1 ACTTTT-CAAAATC
*
21863536 ACTTTTTAAAA
1 ACTTTTCAAAA
21863547 GCATTGCTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
12 5 0.12
13 32 0.78
14 4 0.10
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAATC
Found at i:21881940 original size:3 final size:3
Alignment explanation
Indices: 21881916--21881986 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
21881906 AATATCCTTG
* * * **
21881916 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
21881963 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
21881987 GTACGTGTAT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:21881983 original size:23 final size:22
Alignment explanation
Indices: 21881929--21881989 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
21881919 TTTTTATATT
*
21881929 ATTAGTATTATTA-GTATTACC
1 ATTATTATTATTATGTATTACC
**
21881950 ATTATTATTATTATGTATTAGT
1 ATTATTATTATTATGTATTACC
*
21881972 ATATATTTTTATTATGTA
1 AT-TATTATTATTATGTA
21881990 CGTGTATACC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.35
22 8 0.24
23 14 0.41
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (22 bp):
ATTATTATTATTATGTATTACC
Found at i:21881996 original size:23 final size:23
Alignment explanation
Indices: 21881952--21881997 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
21881942 GTATTACCAT
*
21881952 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
21881975 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
21881998 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:21887615 original size:30 final size:30
Alignment explanation
Indices: 21887560--21887621 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
21887550 CTCTAAGCAA
21887560 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
21887589 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
21887620 GT
1 GT
21887622 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:21887810 original size:25 final size:25
Alignment explanation
Indices: 21887773--21887860 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
21887763 GTACATGTAT
* * *
21887773 GCTCATGCAAGCTATAAATCGGTAT
1 GCTCATACGAGCTATAAATCGGTAA
*
21887798 GCTC-TCACGAGCTATGAATCGGTAA
1 GCTCAT-ACGAGCTATAAATCGGTAA
** *
21887823 GCTCATACGAGCTGCAAATCGGGAA
1 GCTCATACGAGCTATAAATCGGTAA
21887848 GCTCATACGAGCT
1 GCTCATACGAGCT
21887861 GTGGTGTATC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.02
25 51 0.96
26 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTATAAATCGGTAA
Found at i:21893752 original size:12 final size:12
Alignment explanation
Indices: 21893711--21893813 Score: 63
Period size: 12 Copynumber: 8.5 Consensus size: 12
21893701 TTATTAAGTC
*
21893711 AAAATTAAAACTT
1 AAAATTACAA-TT
21893724 AAAATATAC-ATT
1 AAAAT-TACAATT
*
21893736 TAAATTACAATT
1 AAAATTACAATT
*
21893748 AAAATTTCACAAAT
1 AAAA-TT-ACAATT
21893762 ATAAA-TAC-ATT
1 A-AAATTACAATT
*
21893773 -AAATTAAAATT
1 AAAATTACAATT
* *
21893784 AAAAATATAATT
1 AAAATTACAATT
21893796 ACAAATTA-AATT
1 A-AAATTACAATT
21893808 AAAATT
1 AAAATT
21893814 CACCAATTTC
Statistics
Matches: 72, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
9 3 0.04
10 2 0.03
11 13 0.18
12 29 0.40
13 14 0.19
14 8 0.11
15 3 0.04
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATTACAATT
Found at i:21893753 original size:6 final size:6
Alignment explanation
Indices: 21893711--21893813 Score: 50
Period size: 6 Copynumber: 16.0 Consensus size: 6
21893701 TTATTAAGTC
* * *
21893711 AAAATT AAAACTT AAAA-T ATACATT TAAATT ACAATT AAAATTT CACAAATAT
1 AAAATT AAAA-TT AAAATT A-AAATT AAAATT AAAATT AAAA-TT -A-AAAT-T
* *
21893764 AAATACATT -AAATT AAAATT AAAAAT ATAATT ACAAATT -AAATT AAAATT
1 -AA-A-ATT AAAATT AAAATT AAAATT AAAATT A-AAATT AAAATT AAAATT
21893814 CACCAATTTC
Statistics
Matches: 74, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
5 10 0.14
6 38 0.51
7 14 0.19
8 3 0.04
9 7 0.09
10 2 0.03
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (6 bp):
AAAATT
Found at i:21893780 original size:30 final size:30
Alignment explanation
Indices: 21893712--21893813 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 30
21893702 TATTAAGTCA
* *
21893712 AAATTAAAACTT-AAAATATACATTTA-AATT
1 AAATTAAAATTTAAAAATATA-A-ATACAATT
*
21893742 ACAATTAAAATTTCACAAATATAAATAC-ATT
1 A-AATTAAAATTT-AAAAATATAAATACAATT
*
21893773 AAATTAAAA-TTAAAAATATAATTACAAATT
1 AAATTAAAATTTAAAAATATAAATAC-AATT
21893803 AAATTAAAATT
1 AAATTAAAATT
21893814 CACCAATTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
28 12 0.20
29 2 0.03
30 21 0.35
31 17 0.28
32 1 0.02
33 7 0.12
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (30 bp):
AAATTAAAATTTAAAAATATAAATACAATT
Found at i:21898861 original size:10 final size:9
Alignment explanation
Indices: 21898846--21898915 Score: 63
Period size: 10 Copynumber: 7.6 Consensus size: 9
21898836 CTAAAAATAT
21898846 AAAATTTCTA
1 AAAATTT-TA
21898856 AAAATTTCTA
1 AAAATTT-TA
*
21898866 TAAATTTTA
1 AAAATTTTA
*
21898875 AAAAATTT-
1 AAAATTTTA
21898883 AAAA-TTTA
1 AAAATTTTA
*
21898891 AAAATATATAA
1 AAAAT-T-TTA
21898902 AAAATTTTA
1 AAAATTTTA
21898911 AAAAT
1 AAAAT
21898916 ATATTTCTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
7 3 0.06
8 8 0.16
9 15 0.29
10 18 0.35
11 7 0.14
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (9 bp):
AAAATTTTA
Found at i:21905250 original size:11 final size:11
Alignment explanation
Indices: 21905234--21905266 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
21905224 CAATATATAT
21905234 AAAATTATAAA
1 AAAATTATAAA
21905245 AAAATT-TCAAA
1 AAAATTAT-AAA
21905256 AAAATTATAAA
1 AAAATTATAAA
21905267 TAATTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:21905704 original size:20 final size:20
Alignment explanation
Indices: 21905660--21905704 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
21905650 AAAAGTTTGC
* * *
21905660 ATTTTATTAATTTTTAATAT
1 ATTTTATTAATTTTCAAAAG
21905680 ATTTTATTAATTTTCAAAAG
1 ATTTTATTAATTTTCAAAAG
*
21905700 GTTTT
1 ATTTT
21905705 TAGAAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
ATTTTATTAATTTTCAAAAG
Found at i:21905870 original size:21 final size:21
Alignment explanation
Indices: 21905846--21905887 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
21905836 ACATGATGCA
21905846 TTCTAATAGGCTTCATGTGTC
1 TTCTAATAGGCTTCATGTGTC
21905867 TTCTAATAGGCTTCATGTGTC
1 TTCTAATAGGCTTCATGTGTC
21905888 GGGTTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (21 bp):
TTCTAATAGGCTTCATGTGTC
Found at i:21914842 original size:30 final size:30
Alignment explanation
Indices: 21914808--21914870 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
21914798 ACTTATTTTA
*
21914808 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
21914838 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
21914868 TTG
1 TTG
21914871 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.02, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:21922101 original size:6 final size:6
Alignment explanation
Indices: 21922092--21922132 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
21922082 TTTGGGGTGT
21922092 GAATGG GAATGG GAATGG GAATGG GAATGG GAATGG GAATG
1 GAATGG GAATGG GAATGG GAATGG GAATGG GAATGG GAATG
21922133 TAGTAGGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.49, T:0.17
Consensus pattern (6 bp):
GAATGG
Found at i:21925458 original size:21 final size:21
Alignment explanation
Indices: 21925434--21925477 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
21925424 ATAATTTAAG
21925434 AGTGGAATGATCTAGAAACTA
1 AGTGGAATGATCTAGAAACTA
21925455 AGTGGAATGATCTAGAAACTA
1 AGTGGAATGATCTAGAAACTA
21925476 AG
1 AG
21925478 GAAAATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.23
Consensus pattern (21 bp):
AGTGGAATGATCTAGAAACTA
Found at i:21940649 original size:32 final size:32
Alignment explanation
Indices: 21940597--21940658 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
21940587 AATTTTTAGC
*
21940597 ACTTTGGCCTATATACTTTATTTTTGCTATTA
1 ACTTTAGCCTATATACTTTATTTTTGCTATTA
* *
21940629 ACTTTAGCCTTTATATTTTATTTTTGCTAT
1 ACTTTAGCCTATATACTTTATTTTTGCTAT
21940659 ATAAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (32 bp):
ACTTTAGCCTATATACTTTATTTTTGCTATTA
Found at i:21951905 original size:126 final size:126
Alignment explanation
Indices: 21951771--21952001 Score: 302
Period size: 126 Copynumber: 1.8 Consensus size: 126
21951761 GGTCATGCAC
* * * * ** * * **
21951771 AATCGTGCTGGGTTTCGATTTTTCGTTCAACTAAAATACGGAATATTCTTTGGAATTTTCGTCCA
1 AATCGTGCTGGGTTTCAATCTTCCATTCAACTAAAATACAAAATATCCTTTGGAAATTTCACCCA
21951836 TACTTTT-TAAAATTAAAATGAGGCAATATTTCGTATTTGGGGAGTTTGAGAGATCGTGTCT
66 T-CTTTTCTAAAATTAAAATGAGGCAATATTTCGTATTTGGGGAGTTTGAGAGATCGTGTCT
* *
21951897 AATCGTGCTGGGTTTCAATCTTCCATTCGACTAAAATACAAAATATCCTTTTGAAATTTCACCCA
1 AATCGTGCTGGGTTTCAATCTTCCATTCAACTAAAATACAAAATATCCTTTGGAAATTTCACCCA
* * * *
21951962 TGTTTTCTTAAATTAAAATGAGGCAATGTTTTGTATTTGG
66 TCTTTTCTAAAATTAAAATGAGGCAATATTTCGTATTTGG
21952002 AAATTCAATA
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
125 4 0.05
126 84 0.95
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (126 bp):
AATCGTGCTGGGTTTCAATCTTCCATTCAACTAAAATACAAAATATCCTTTGGAAATTTCACCCA
TCTTTTCTAAAATTAAAATGAGGCAATATTTCGTATTTGGGGAGTTTGAGAGATCGTGTCT
Found at i:21963307 original size:64 final size:64
Alignment explanation
Indices: 21963184--21963311 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 64
21963174 CATTCTGCAG
*
21963184 CACATCTAACTAGAAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAACTAGAAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTAGACATAAGCAT
* *
21963248 CACATCTACCTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTCAG-CATAAGCAT
1 CACATCTAACTAGAAGCATTTGATTCATTTTGATCATAGCATCCTAATTATT-AGACATAAGCAT
21963312 AAATACATGA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 59 0.98
65 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (64 bp):
CACATCTAACTAGAAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTAGACATAAGCAT
Found at i:21963665 original size:133 final size:133
Alignment explanation
Indices: 21963485--21963763 Score: 434
Period size: 133 Copynumber: 2.1 Consensus size: 133
21963475 TACCTCTATC
* *
21963485 TATCTACTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
1 TATCTGCTATGGAACAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
*
21963550 AAGATATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGA-AGACTGCAAATTATAGATCTTATCTC
66 AAGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAA-ACAGACTGCAAATTATAGATCTTATCTC
21963614 CATG
130 CATG
* * * *
21963618 TATCTGCTATGGAACAGATTTTAGCCACTAGCCTTATCTCTTTGAGGTAGCAAGAGAGTAGGTTG
1 TATCTGCTATGGAACAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
* * * *
21963683 AGGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGATTGCAAATTATAGATCTTATCTCT
66 AAGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAAACAGACTGCAAATTATAGATCTTATCTCC
21963748 ATG
131 ATG
*
21963751 TATCGGCTATGGA
1 TATCTGCTATGGA
21963764 GCTGATCGAA
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
132 1 0.01
133 132 0.99
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (133 bp):
TATCTGCTATGGAACAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
AAGATACGAGTCTTATCTTCCTAAGGTAGCAAGGAAACAGACTGCAAATTATAGATCTTATCTCC
ATG
Found at i:21963964 original size:45 final size:45
Alignment explanation
Indices: 21963895--21963992 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
21963885 GTAGTAGGGT
* * *
21963895 AACAGACTGAAAATTGCAGATCTTATCTCCATATATCGGCTATGG
1 AACAGATTGAAAATGGCAGATCTTATCTCCATATATCGGCAATGG
*
21963940 AACAGATTGAAAATGGC-GAGTCTTATCTCCATGTATCGGCAATGG
1 AACAGATTGAAAATGGCAGA-TCTTATCTCCATATATCGGCAATGG
*
21963985 AGCAGATT
1 AACAGATT
21963993 TAAGCCATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 2 0.04
45 45 0.96
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (45 bp):
AACAGATTGAAAATGGCAGATCTTATCTCCATATATCGGCAATGG
Found at i:21963968 original size:177 final size:177
Alignment explanation
Indices: 21963605--21964209 Score: 739
Period size: 177 Copynumber: 3.4 Consensus size: 177
21963595 AAATTATAGA
* * * * * *
21963605 TCTTATCTCCATGTATCTGCTATGGAACAGATTTTAGCCACTAGCCTTATCTCTTTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * * * * * * * * * * *
21963670 AGAGAGTAGGTTGAGGATACGAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGATTGCAAATTAT
66 AGAGAGCAGGTTGAAGATACGAGCCTTAACCTCCT-AAGTAGTAGGGTAACAGACTGAAAATTAC
* * *
21963735 AGATCTTATCTCTATGTATCGGCTATGGAGCTGATCGAAAATGGTGAG
130 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGGTGAG
* * * * * * *
21963783 TCTTATCTCTATGTATCAGCTATAGAGCATATTTAAGCTACCGGCCTTATCTCTCTAAGATAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * *
21963848 AGAGAGCAGGTTGAAGATGCGAGCCTTAACCCCCTAAGTAGTAGGGTAACAGACTGAAAATTGCA
66 AGAGAGCAGGTTGAAGATACGAGCCTTAACCTCCTAAGTAGTAGGGTAACAGACTGAAAATTACA
* * *
21963913 GATCTTATCTCCATATATCGGCTATGGAACAGATTGAAAATGGCGAG
131 GATCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGGTGAG
* * * *
21963960 TCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCATCAGTCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * *
21964025 AGAGAGCAGGTTGAAGATACAAGCCTTAACCTCCTAAGCAGTAGGGTAATC-GGCTGAAAATTAC
66 AGAGAGCAGGTTGAAGATACGAGCCTTAACCTCCTAAGTAGTAGGGTAA-CAGACTGAAAATTAC
* * * *
21964089 AGATCTTATCTCCATGTA-CAGACTATGGAGCAGA-TCAGATATGATGAG
130 AGATCTTATCTCCATGTATC-GGCTATGGAGCAGATTGA-AAATGGTGAG
*
21964137 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
21964202 AGAGAGCA
66 AGAGAGCA
21964210 AGTTAAAGTT
Statistics
Matches: 362, Mismatches: 62, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
176 3 0.01
177 277 0.77
178 82 0.23
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (177 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTAAGGTAGCA
AGAGAGCAGGTTGAAGATACGAGCCTTAACCTCCTAAGTAGTAGGGTAACAGACTGAAAATTACA
GATCTTATCTCCATGTATCGGCTATGGAGCAGATTGAAAATGGTGAG
Found at i:21964008 original size:311 final size:310
Alignment explanation
Indices: 21963416--21964026 Score: 657
Period size: 311 Copynumber: 2.0 Consensus size: 310
21963406 TAACAGGCTA
21963416 CAAATTAAAGATCTTATCTCCATGTATCGGATATGGAGTAGATCAGAAATGGCGAGTCTTACCTC
1 CAAATTAAAGATCTTATCTCCATGTATCGGATATGGAGTAGATCAGAAATGGCGAGTCTTACCTC
* * * *
21963481 TATCTATCTACTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAG
66 TATCTATCTACTATAGAGCAGATTTAAGCCACCAACCTTATCTCTCTAAGATAGCAAGAGAGCAG
* * * ** * *
21963546 GTTGAAGATATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGAAGACTGCAAATTATAGATCTTAT
131 GTTGAAGATACGAGCCTTAACCCCCTAAGGTAGCAAGGAAGAAGACTGAAAATTACAGATCTTAT
* * ** * * **
21963611 CTCCATGTATCTGCTATGGAACAGATTTTAGCCACTAGCCTTATCTCTTTGAGGTAGCAAGAGAG
196 CTCCATATATCGGCTATGGAACAGATTAAAACCACGAGCCTTATCTCCATGA-GTAGCAAGAGAG
* * *
21963676 TAGGTTGAGGATACGAGTCTTATCT-TCCTGAGGTAGCAAGGAAACAGATTG
260 CAGGTTAAGCATACGAGTCTTATCTCT-CTGAGGTAGCAAGGAAACAGATTG
* * * * *
21963727 CAAATTATAGATCTTATCTCTATGTATCGGCTATGGAGCT-GATC-GAAAATGGTGAGTCTTATC
1 CAAATTAAAGATCTTATCTCCATGTATCGGATATGGAG-TAGATCAG-AAATGGCGAGTCTTACC
* * * **
21963790 TCTATGTATC-AGCTATAGAGCATATTTAAGCTACCGGCCTTATCTCTCTAAGATAGCAAGAGAG
64 TCTATCTATCTA-CTATAGAGCAGATTTAAGCCACCAACCTTATCTCTCTAAGATAGCAAGAGAG
* * * * *
21963854 CAGGTTGAAGATGCGAGCCTTAACCCCCTAA-GTAGTAGGGTAA-CAGACTGAAAATTGCAGATC
128 CAGGTTGAAGATACGAGCCTTAACCCCCTAAGGTAGCAAGG-AAGAAGACTGAAAATTACAGATC
*** * *
21963917 TTATCTCCATATATCGGCTATGGAACAGATTGAAAATGGCGAGTCTTATCTCCATGTA-TCGGCA
192 TTATCTCCATATATCGGCTATGGAACAGATT-AAAACCACGAGCCTTATCTCCATG-AGT-AGCA
*
21963981 ATG-GAGCAGATTTAAGCCAT-C-AGTCTTATCTCTCTGAGGTAGCAAG
254 A-GAGAGCAG-GTTAAG-CATACGAGTCTTATCTCTCTGAGGTAGCAAG
21964027 AGAGCAGGTT
Statistics
Matches: 246, Mismatches: 43, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
310 55 0.22
311 180 0.73
312 9 0.04
313 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (310 bp):
CAAATTAAAGATCTTATCTCCATGTATCGGATATGGAGTAGATCAGAAATGGCGAGTCTTACCTC
TATCTATCTACTATAGAGCAGATTTAAGCCACCAACCTTATCTCTCTAAGATAGCAAGAGAGCAG
GTTGAAGATACGAGCCTTAACCCCCTAAGGTAGCAAGGAAGAAGACTGAAAATTACAGATCTTAT
CTCCATATATCGGCTATGGAACAGATTAAAACCACGAGCCTTATCTCCATGAGTAGCAAGAGAGC
AGGTTAAGCATACGAGTCTTATCTCTCTGAGGTAGCAAGGAAACAGATTG
Found at i:21966624 original size:126 final size:126
Alignment explanation
Indices: 21966396--21966703 Score: 361
Period size: 126 Copynumber: 2.5 Consensus size: 126
21966386 AACATAAGGA
* * * * * * * *
21966396 AATATTTCGTGTTTAGG-AGTTCGAGGGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTTCGTTC
1 AATATTTCGTATTTTGGAAGTTCGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTTTCCATTC
** * ** *
21966460 AACTAAAATACGGAATATCCTTTGGAATTTTCGTCCATGCTTTT-TAAAATTAAAATGAGGC
66 AACTAAAATACAAAATATCCTTTGGAAATTTCACCCATG-TTTTCTAAAATTAAAATGAAGC
* *
21966521 AATATTTCGTATTTTGGAAGTTTGAGAGATCGTACCCAGTCGTGCTGGGTTTCGATTTTCCATTC
1 AATATTTCGTATTTTGGAAGTTCGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTTTCCATTC
* * *
21966586 GACTAAAATACAAAATATCCTTTTGAAATTTCACCCATGTTTTCTTAAATTAAAATGAAGC
66 AACTAAAATACAAAATATCCTTTGGAAATTTCACCCATGTTTTCTAAAATTAAAATGAAGC
* * * * * *
21966647 AATGTTTCGTA-TTTGGAAATTCAATAAATCGTACCCAATTGTGCTGGGTTTCGATTT
1 AATATTTCGTATTTTGGAAGTTCGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTT
21966704 ACCGTTGGCT
Statistics
Matches: 154, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
125 58 0.38
126 96 0.62
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (126 bp):
AATATTTCGTATTTTGGAAGTTCGAGAGATCGTACCCAATCGTGCTGGGTTTCGATTTTCCATTC
AACTAAAATACAAAATATCCTTTGGAAATTTCACCCATGTTTTCTAAAATTAAAATGAAGC
Found at i:21970909 original size:75 final size:75
Alignment explanation
Indices: 21970813--21970987 Score: 278
Period size: 75 Copynumber: 2.3 Consensus size: 75
21970803 TGCTGGCCAC
*
21970813 ACAATCGTCGGTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAG
1 ACAATCATCGGTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAG
21970878 GCTCACAATT
66 GCTCACAATT
* * *
21970888 ACAATCATCGGTTAATTCGACTAGCATTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGG
1 ACAATCATCGGTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAG
21970953 GCTCACAATT
66 GCTCACAATT
** * *
21970963 ATTACCATCAGTTAATCCGACTAGC
1 ACAATCATCGGTTAATCCGACTAGC
21970988 GCTGAACGCA
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 91 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (75 bp):
ACAATCATCGGTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAG
GCTCACAATT
Found at i:21977284 original size:20 final size:20
Alignment explanation
Indices: 21977259--21977298 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21977249 TATATATTAG
21977259 ATAGTGGATGGTTTCAATCT
1 ATAGTGGATGGTTTCAATCT
21977279 ATAGTGGATGGTTTCAATCT
1 ATAGTGGATGGTTTCAATCT
21977299 CCTTTATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (20 bp):
ATAGTGGATGGTTTCAATCT
Found at i:21978443 original size:16 final size:17
Alignment explanation
Indices: 21978422--21978455 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21978412 AATGTCTAGA
21978422 AAAATTA-TTAATTGAG
1 AAAATTACTTAATTGAG
21978438 AAAATTATCTTAATTGAG
1 AAAATTA-CTTAATTGAG
21978456 GGGTTAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAATTACTTAATTGAG
Found at i:21979574 original size:50 final size:51
Alignment explanation
Indices: 21979497--21979625 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
21979487 GACCATGGCA
*
21979497 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAA-AAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GAACAAATG
*
21979548 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATAACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
* * *
21979598 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
21979626 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
49 2 0.03
50 45 0.63
51 24 0.34
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
Found at i:21979639 original size:31 final size:31
Alignment explanation
Indices: 21979601--21979780 Score: 254
Period size: 31 Copynumber: 5.8 Consensus size: 31
21979591 ACAAATGACA
21979601 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
21979632 AGTGAAAAGTGGTAGCTTCTGCTAACTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
21979663 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CAGCTACCTGATC
* *
21979694 AGTGAAAAGTGGTAGCTCCAGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * * *
21979725 ATTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
21979756 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
21979781 AAGTGACAAG
Statistics
Matches: 131, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
30 2 0.02
31 128 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:21979884 original size:47 final size:46
Alignment explanation
Indices: 21979798--21979920 Score: 129
Period size: 47 Copynumber: 2.7 Consensus size: 46
21979788 AAGTGATTTC
* * ** *
21979798 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGACATCAGTAAGATATATGATA
* * *
21979844 CTGTATAAGACCATATCTGGGATATGACATTAGTAAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGACATCAGTAAGATATATGATA
* * * *
21979891 CGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGACATC
21979921 GATATATGAA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
46 25 0.40
47 38 0.60
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGACATCAGTAAGATATATGATA
Found at i:21979948 original size:42 final size:43
Alignment explanation
Indices: 21979892--21980006 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
21979882 TATGTGATTC
*
21979892 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
21979934 GTGTAAGACCATAGCTGGGCTATGGCAT-TATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
21979976 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
21980007 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:21980907 original size:21 final size:18
Alignment explanation
Indices: 21980881--21980922 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 18
21980871 GGGATGTTAC
21980881 AGAAATTTGATGATTTTTGCA
1 AGAAATTT-ATG-TTTTTG-A
21980902 AGAAATTTATGTTTTTGA
1 AGAAATTTATGTTTTTGA
21980920 AGA
1 AGA
21980923 TATAATGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.19
19 6 0.29
20 3 0.14
21 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (18 bp):
AGAAATTTATGTTTTTGA
Found at i:21981760 original size:35 final size:35
Alignment explanation
Indices: 21981721--21981832 Score: 84
Period size: 35 Copynumber: 3.1 Consensus size: 35
21981711 TCGAGTAGCA
21981721 CTGGGTGCAAATATTGTTGGTTTATCCAACTAGAG
1 CTGGGTGCAAATATTGTTGGTTTATCCAACTAGAG
* ** ** **
21981756 CTGGGCT-CAAAATTACAATCGTCAGTCAATCTGACTAGCA-
1 CTGGG-TGC-AAA-T---ATTGTTGGTTTATCCAACTAG-AG
21981796 CTGGGTGCAAATATTGTTGGTTTATCCAACTAGAG
1 CTGGGTGCAAATATTGTTGGTTTATCCAACTAGAG
21981831 CT
1 CT
21981833 AGGCTCAAAT
Statistics
Matches: 54, Mismatches: 14, Indels: 18
0.63 0.16 0.21
Matches are distributed among these distances:
34 1 0.02
35 22 0.41
36 4 0.07
37 1 0.02
38 1 0.02
39 4 0.07
40 20 0.37
41 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (35 bp):
CTGGGTGCAAATATTGTTGGTTTATCCAACTAGAG
Found at i:21981818 original size:75 final size:74
Alignment explanation
Indices: 21981716--21981871 Score: 251
Period size: 75 Copynumber: 2.1 Consensus size: 74
21981706 TTAATTCGAG
* *
21981716 TAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCAAAATTACAATCGTCAG
1 TAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTC-AAATTACAACCGTCAG
21981781 -TCAATCTGAC
65 AT-AATCTGAC
**
21981791 TAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTCAAATTATTACCGTCAGA
1 TAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTCAAATTACAACCGTCAGA
21981856 TAATCTGAC
66 TAATCTGAC
21981865 TAGCACT
1 TAGCACT
21981872 TGACACAACT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
74 28 0.37
75 48 0.63
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (74 bp):
TAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTCAAATTACAACCGTCAGA
TAATCTGAC
Found at i:21982298 original size:119 final size:120
Alignment explanation
Indices: 21982099--21982324 Score: 400
Period size: 119 Copynumber: 1.9 Consensus size: 120
21982089 ACTTTAGTGG
* * *
21982099 TTTTCTAATATCAAGTCAAATTCTAACTCGCGTTATTCCTTTATACCCCAATGAAACAACTTTCA
1 TTTTCGAATATCAAGTCAAACTCTAACTCGCATTATTCCTTTATACCCCAATGAAACAACTTTCA
*
21982164 CATCATACTTAAGGAACACCCCAATAAAATTACCTA-CTGCTCACACTTTAGCAA
66 CATCATACTCAAGGAACACCCCAATAAAATTACCTAGCTGCTCACACTTTAGCAA
*
21982218 TTTTCGAATATCAAGTCGAACTCTAACTCGCATTATTCCTTTATACCCCAATGAAACAACTTTCA
1 TTTTCGAATATCAAGTCAAACTCTAACTCGCATTATTCCTTTATACCCCAATGAAACAACTTTCA
21982283 CATCATACTCAAGGAACACCCCAATAAAATTACCTAGCTGCT
66 CATCATACTCAAGGAACACCCCAATAAAATTACCTAGCTGCT
21982325 TTGCCACCAT
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 96 0.95
120 5 0.05
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (120 bp):
TTTTCGAATATCAAGTCAAACTCTAACTCGCATTATTCCTTTATACCCCAATGAAACAACTTTCA
CATCATACTCAAGGAACACCCCAATAAAATTACCTAGCTGCTCACACTTTAGCAA
Found at i:21982823 original size:22 final size:22
Alignment explanation
Indices: 21982798--21982847 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
21982788 AAAAGAAAAA
* *
21982798 AAAGAAAAACGTGCTATAAAGC
1 AAAGAAAAACATGCTACAAAGC
* *
21982820 AAAGAAAAGCATGCTACAAAGT
1 AAAGAAAAACATGCTACAAAGC
21982842 AAAGAA
1 AAAGAA
21982848 TAAATTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.58, C:0.12, G:0.18, T:0.12
Consensus pattern (22 bp):
AAAGAAAAACATGCTACAAAGC
Found at i:21987302 original size:15 final size:15
Alignment explanation
Indices: 21987282--21987333 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
21987272 ACTACAAAAC
21987282 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
21987297 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
21987316 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
21987331 ATT
1 ATT
21987334 AATATTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:21987396 original size:16 final size:16
Alignment explanation
Indices: 21987365--21987401 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
21987355 ATGTGAATAA
21987365 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
21987381 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
21987397 TATTA
1 TATTA
21987402 AACTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:22000150 original size:30 final size:30
Alignment explanation
Indices: 22000116--22000178 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
22000106 ACTTATTTTA
22000116 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
22000146 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
22000176 TTG
1 TTG
22000179 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:22000331 original size:12 final size:12
Alignment explanation
Indices: 22000301--22000333 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
22000291 TATATATTTT
22000301 AAAATT-ATATA
1 AAAATTAATATA
22000312 AAAA-TAATATA
1 AAAATTAATATA
22000323 AAAATTAATAT
1 AAAATTAATAT
22000334 GAGCGGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:22000993 original size:23 final size:23
Alignment explanation
Indices: 22000967--22001041 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
22000957 TGATTTTTAA
* *
22000967 ATTTTGAATTATTTACTGATAAT
1 ATTTAGAATTATTTAATGATAAT
*
22000990 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATGATAAT
22001013 ATTTAGAATTATTTAATGATAAT
1 ATTTAGAATTATTTAATGATAAT
22001036 ATTTAG
1 ATTTAG
22001042 GAAAATCTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAATGATAAT
Found at i:22000994 original size:13 final size:12
Alignment explanation
Indices: 22000976--22001040 Score: 57
Period size: 13 Copynumber: 5.5 Consensus size: 12
22000966 AATTTTGAAT
22000976 TATTTACTGATAA
1 TATTTA-TGATAA
*
22000989 TATTTA-GA-AT
1 TATTTATGATAA
22000999 TATTTAGTGATAA
1 TATTTA-TGATAA
*
22001012 TATTTA-GA-AT
1 TATTTATGATAA
22001022 TATTTAATGATAA
1 TATTT-ATGATAA
22001035 TATTTA
1 TATTTA
22001041 GGAAAATCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
10 13 0.31
11 5 0.12
12 5 0.12
13 19 0.45
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (12 bp):
TATTTATGATAA
Found at i:22004257 original size:23 final size:23
Alignment explanation
Indices: 22004213--22004258 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
22004203 AAAGGACAAG
*
22004213 ATGAGGGATGTGGACAATTTTCT
1 ATGAGGGATGTGAACAATTTTCT
*
22004236 ATGAGGGATG-GAACGATATTTCT
1 ATGAGGGATGTGAACAAT-TTTCT
22004259 GTGCGATGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (23 bp):
ATGAGGGATGTGAACAATTTTCT
Found at i:22012504 original size:59 final size:58
Alignment explanation
Indices: 22012439--22012626 Score: 157
Period size: 59 Copynumber: 3.2 Consensus size: 58
22012429 ATTTTATTAA
22012439 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATA-TAATTATATT-AAATTATATTTTATAGT
* * ** * * * ** * * *
22012498 ATCATATATTATGATTTTAGTA-AATTCATATAAGAATATTGATTATTAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTAATATAATTATATT-A-AATTA-TATTTTA-TAGT
* * *
22012558 ATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATAATTATATTAAATTATATTTTATAGT
22012617 ATCATATATT
1 ATCATATATT
22012627 ATGATTTGAG
Statistics
Matches: 93, Mismatches: 29, Indels: 14
0.68 0.21 0.10
Matches are distributed among these distances:
57 5 0.05
58 11 0.12
59 35 0.38
60 26 0.28
61 8 0.09
62 8 0.09
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATATAATTATATTAAATTATATTTTATAGT
Found at i:22012553 original size:119 final size:120
Alignment explanation
Indices: 22012428--22012724 Score: 508
Period size: 119 Copynumber: 2.5 Consensus size: 120
22012418 AATTATTTTA
* *
22012428 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
* *
22012492 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGACTATTAAG
*
22012547 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
22012612 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGACTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGACTATTAAG
*
22012667 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
22012725 ATGATTAAAT
Statistics
Matches: 169, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 109 0.64
120 54 0.32
121 6 0.04
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGACTATTAAG
Found at i:22012574 original size:18 final size:17
Alignment explanation
Indices: 22012548--22012582 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22012538 GATTATTAGA
*
22012548 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
22012565 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
22012583 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:22012684 original size:59 final size:58
Alignment explanation
Indices: 22012502--22012684 Score: 139
Period size: 63 Copynumber: 3.1 Consensus size: 58
22012492 TATAGTATCA
*
22012502 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATT-AGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTGA-TATTAAGAATTTTATTAAAT
* * * * *
22012560 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATGTTAA-ATTATCTTT-TATAGTA
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAAT-ATTGATATTAAGA--AT-TTTAT-TA-AA
22012618 T
58 T
*
22012619 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGACTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTGA-TATTAAGAATTTTATTAAAT
22012680 TATAT
1 TATAT
22012685 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 12, Indels: 37
0.66 0.08 0.26
Matches are distributed among these distances:
55 9 0.10
56 14 0.15
57 10 0.11
58 9 0.10
59 7 0.07
61 6 0.06
62 12 0.13
63 16 0.17
64 10 0.11
65 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (58 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTGATATTAAGAATTTTATTAAAT
Found at i:22012702 original size:16 final size:16
Alignment explanation
Indices: 22012681--22012722 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22012671 TTATTAAATT
*
22012681 ATATATTTTAATTATA
1 ATATATTTTAATAATA
22012697 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
22012712 AT-TATGTTTAA
1 ATATAT-TTTAA
22012723 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:22012707 original size:15 final size:15
Alignment explanation
Indices: 22012672--22012713 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22012662 TTAAGAATTT
*
22012672 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22012686 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22012700 TATTTAATAATAAT
1 TATTTAATTATAAT
22012714 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22012947 original size:45 final size:44
Alignment explanation
Indices: 22012867--22012955 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 44
22012857 ACCTCTATTC
22012867 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* *
22012911 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
22012956 TATCTCTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 1 0.02
44 16 0.39
45 24 0.59
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:22012984 original size:16 final size:16
Alignment explanation
Indices: 22012936--22012984 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
22012926 TTGATTTGCT
22012936 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*** *
22012952 ATTATATCTCTAATCC
1 ATTACGCCTCTATTCC
*
22012968 ATTACGCCTATATTCC
1 ATTACGCCTCTATTCC
22012984 A
1 A
22012985 ATAGTCAAGT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.27, C:0.31, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:22014242 original size:51 final size:51
Alignment explanation
Indices: 22014186--22014286 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
22014176 ACCTCATTCA
* * *
22014186 TTTCAACATAATACAATTATATAATATGTAAAA-ATAATTAAAACGTAACAC
1 TTTCAACATAATACAATTACAAAATATGTAAAAGA-AATTAAAACATAACAC
* * *
22014237 TTTCAACCTAATATAATTACAAAATATGTAAAAGAAATTACAACATAACA
1 TTTCAACATAATACAATTACAAAATATGTAAAAGAAATTAAAACATAACA
22014287 TAAAAGAACA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.30
Consensus pattern (51 bp):
TTTCAACATAATACAATTACAAAATATGTAAAAGAAATTAAAACATAACAC
Found at i:22016437 original size:31 final size:31
Alignment explanation
Indices: 22016401--22016475 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
22016391 AAGTATAAAT
*
22016401 TTTTGGACAAGTTCATGTACCAACTAAGTAC
1 TTTTGGACAAGTTCAAGTACCAACTAAGTAC
*
22016432 TTTTGGATAAGTTCAAGTACCAACTAAGTAC
1 TTTTGGACAAGTTCAAGTACCAACTAAGTAC
*
22016463 TTCTGGACAAGTT
1 TTTTGGACAAGTT
22016476 AAAAGGGCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (31 bp):
TTTTGGACAAGTTCAAGTACCAACTAAGTAC
Found at i:22018303 original size:16 final size:16
Alignment explanation
Indices: 22018234--22018301 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
22018224 TTTGGTTCGC
22018234 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
22018250 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
22018266 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
22018282 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
22018298 TGTA
1 TGTA
22018302 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:22018336 original size:45 final size:44
Alignment explanation
Indices: 22018282--22018376 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
22018272 GGATTAGAGG
* *
22018282 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
22018327 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
22018371 TGTAAT
1 TGTAAT
22018377 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:22018555 original size:16 final size:16
Alignment explanation
Indices: 22018518--22018559 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22018508 TTAATCATAT
*
22018518 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
22018534 TT-AAATATATTATAA
1 TTAAAATATATTATAA
22018549 TTAAAATATAT
1 TTAAAATATAT
22018560 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:22018566 original size:14 final size:15
Alignment explanation
Indices: 22018527--22018568 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22018517 TTTAAACATA
*
22018527 ATTATTATTAAATAT
1 ATTATAATTAAATAT
22018542 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
22018556 A-TATAATTTAATA
1 ATTATAATTAAATA
22018569 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:22018741 original size:47 final size:46
Alignment explanation
Indices: 22018690--22018850 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
22018680 GATTTAATAA
22018690 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
22018737 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
22018778 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
22018825 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
22018851 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:22023416 original size:19 final size:19
Alignment explanation
Indices: 22023362--22023408 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
22023352 AATGTAGTTC
22023362 GTGCACCAGGTTGCACTTT
1 GTGCACCAGGTTGCACTTT
*
22023381 GTGCACTAGGTTGCACTTT
1 GTGCACCAGGTTGCACTTT
22023400 GTGCACCAG
1 GTGCACCAG
22023409 TATGCACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.30
Consensus pattern (19 bp):
GTGCACCAGGTTGCACTTT
Found at i:22038837 original size:11 final size:11
Alignment explanation
Indices: 22038821--22038846 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22038811 ATTAAATATT
22038821 ATATTTTGGAA
1 ATATTTTGGAA
22038832 ATATTTTGGAA
1 ATATTTTGGAA
22038843 ATAT
1 ATAT
22038847 CCCCAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (11 bp):
ATATTTTGGAA
Found at i:22039070 original size:18 final size:19
Alignment explanation
Indices: 22039047--22039086 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
22039037 TCCTTTGCTG
22039047 TGTTTTTAT-TGTCGCCGT
1 TGTTTTTATGTGTCGCCGT
*
22039065 TGTTTTTGTGGTGTCGCCGT
1 TGTTTTTAT-GTGTCGCCGT
22039085 TG
1 TG
22039087 CTATTGTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.03, C:0.15, G:0.30, T:0.53
Consensus pattern (19 bp):
TGTTTTTATGTGTCGCCGT
Found at i:22039093 original size:20 final size:20
Alignment explanation
Indices: 22039056--22039094 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22039046 GTGTTTTTAT
* *
22039056 TGTCGCCGTTGTTTTTGTGG
1 TGTCGCCGTTGCTATTGTGG
22039076 TGTCGCCGTTGCTATTGTG
1 TGTCGCCGTTGCTATTGTG
22039095 CCCTCTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.18, G:0.33, T:0.46
Consensus pattern (20 bp):
TGTCGCCGTTGCTATTGTGG
Found at i:22042771 original size:21 final size:21
Alignment explanation
Indices: 22042745--22042794 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
22042735 TCCAAATATG
22042745 GAATATTCGTAAGATTGTTGT
1 GAATATTCGTAAGATTGTTGT
22042766 GAATATTCGTAAGATTGTTGT
1 GAATATTCGTAAGATTGTTGT
*
22042787 AAATATTC
1 GAATATTC
22042795 ATCAATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (21 bp):
GAATATTCGTAAGATTGTTGT
Found at i:22043572 original size:23 final size:24
Alignment explanation
Indices: 22043527--22043573 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
22043517 CTTTTTTTTC
**
22043527 TTCCAATTAAACTTTATTTTTAGTT
1 TTCCAATTAAAC-TTATGATTAGTT
22043552 TTCCAATTAAA-TTATGATTAGT
1 TTCCAATTAAACTTATGATTAGT
22043574 GCAGATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
25 11 0.55
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (24 bp):
TTCCAATTAAACTTATGATTAGTT
Found at i:22047460 original size:19 final size:19
Alignment explanation
Indices: 22047436--22047473 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22047426 TAGTATAATA
22047436 ATATGTTTTCCTAAAATGT
1 ATATGTTTTCCTAAAATGT
22047455 ATATGTTTTCCTAAAATGT
1 ATATGTTTTCCTAAAATGT
22047474 GGGCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (19 bp):
ATATGTTTTCCTAAAATGT
Found at i:22050101 original size:5 final size:5
Alignment explanation
Indices: 22050091--22050119 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
22050081 CCAACACTCC
22050091 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
22050120 GAAGAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:22051852 original size:23 final size:23
Alignment explanation
Indices: 22051824--22051874 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
22051814 CCACCTATTA
*
22051824 AAATAAAATTGGACCTATAGTTT
1 AAATAAAATTAGACCTATAGTTT
22051847 AAATAAAATTAGACCTATAGTTT
1 AAATAAAATTAGACCTATAGTTT
22051870 AAATA
1 AAATA
22051875 CTTTACAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (23 bp):
AAATAAAATTAGACCTATAGTTT
Found at i:22053061 original size:17 final size:19
Alignment explanation
Indices: 22053039--22053081 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
22053029 ATGGAAATAT
22053039 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
22053056 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
22053075 AATCTTA
1 AATCTTA
22053082 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:22053071 original size:19 final size:19
Alignment explanation
Indices: 22053047--22053083 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
22053037 ATAATCTTCA
22053047 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
22053066 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
22053084 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:22053109 original size:22 final size:22
Alignment explanation
Indices: 22053047--22053106 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
22053037 ATAATCTTCA
22053047 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
22053066 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
22053088 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
22053107 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:22053397 original size:17 final size:17
Alignment explanation
Indices: 22053373--22053407 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22053363 TGTTTCCCTG
*
22053373 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
22053391 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
22053408 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:22060721 original size:12 final size:12
Alignment explanation
Indices: 22060700--22060730 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22060690 TTTCAATTCA
22060700 TTAT-ATTCAAT
1 TTATCATTCAAT
22060711 TTATCATTCAAT
1 TTATCATTCAAT
22060723 TTATCATT
1 TTATCATT
22060731 TATTTATGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (12 bp):
TTATCATTCAAT
Found at i:22064217 original size:25 final size:25
Alignment explanation
Indices: 22064183--22064236 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
22064173 TTACAAGTGA
22064183 ATAATCTCTCCAATGAATACCTAGG
1 ATAATCTCTCCAATGAATACCTAGG
22064208 ATAATCTCTCCAATGAATACCTAGG
1 ATAATCTCTCCAATGAATACCTAGG
22064233 ATAA
1 ATAA
22064237 CAAAGAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (25 bp):
ATAATCTCTCCAATGAATACCTAGG
Found at i:22080229 original size:2 final size:2
Alignment explanation
Indices: 22080222--22080259 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
22080212 TAGTATATGA
22080222 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22080260 GAGGTTTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22084695 original size:8 final size:7
Alignment explanation
Indices: 22084670--22084704 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
22084660 TATTTTTAAA
22084670 AAAATTT
1 AAAATTT
22084677 AAAATTT
1 AAAATTT
22084684 AAAATTT
1 AAAATTT
*
22084691 AAAAATT
1 AAAATTT
22084698 AATAATT
1 AA-AATT
22084705 AATAATTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 22 0.88
8 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAAATTT
Found at i:22090638 original size:170 final size:170
Alignment explanation
Indices: 22090356--22090698 Score: 623
Period size: 170 Copynumber: 2.0 Consensus size: 170
22090346 TTGTTACTTT
22090356 AGGGTTGTATTTAGAGCTATTTTGAAATTGTATAAACTAGTTATTAGATTACCTGATGAGTCAAC
1 AGGGTTGTATTTAGAGCTATTTTGAAATTGTATAAACTAGTTATTAGATTACCTGATGAGTCAAC
*
22090421 TCCTAGTGAAATCAGAAACAATCCAATGTTTTATCCTTATTTTAAAGATTGTATTGGAGCATTAG
66 TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATCCTTATTTTAAAGATTGTATTGGAGCATTAG
* *
22090486 ATGGAACTCATGTTTGTGCATCCGTTCCACTTAGCATTCA
131 ATGGAACTCATATTCGTGCATCCGTTCCACTTAGCATTCA
*
22090526 AGGGTTGTATTTAGAGCTATTTTGAAATTGTATAAGCTAGTTATTAGATTACCTGATGAGTCAAC
1 AGGGTTGTATTTAGAGCTATTTTGAAATTGTATAAACTAGTTATTAGATTACCTGATGAGTCAAC
*
22090591 TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATCTTTATTTTAAAGATTGTATTGGAGCATTAG
66 TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATCCTTATTTTAAAGATTGTATTGGAGCATTAG
* *
22090656 ATGGATCTCATATTCGTGCATCTGTTCCACTTAGCATTCA
131 ATGGAACTCATATTCGTGCATCCGTTCCACTTAGCATTCA
22090696 AGG
1 AGG
22090699 AAGATTTCGT
Statistics
Matches: 166, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
170 166 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.37
Consensus pattern (170 bp):
AGGGTTGTATTTAGAGCTATTTTGAAATTGTATAAACTAGTTATTAGATTACCTGATGAGTCAAC
TCCTAGTGAAATCAGAAACAATCCAAGGTTTTATCCTTATTTTAAAGATTGTATTGGAGCATTAG
ATGGAACTCATATTCGTGCATCCGTTCCACTTAGCATTCA
Found at i:22093354 original size:27 final size:27
Alignment explanation
Indices: 22093319--22093421 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
22093309 ATACGAATAC
* *
22093319 ATTGCGCCTATCTCTGAGGCACGACTA
1 ATTGTGCCTATCTCAGAGGCACGACTA
* * * **
22093346 GTTGAGCCTTTCTCAGAGGCGTGACTA
1 ATTGTGCCTATCTCAGAGGCACGACTA
* *
22093373 ATTGTGCCTATCTCAAAGGCGCGACTA
1 ATTGTGCCTATCTCAGAGGCACGACTA
*
22093400 ATTGTGCCTATCTCGGAGGCAC
1 ATTGTGCCTATCTCAGAGGCAC
22093422 AAATGGTGGG
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.27
Consensus pattern (27 bp):
ATTGTGCCTATCTCAGAGGCACGACTA
Found at i:22093820 original size:19 final size:20
Alignment explanation
Indices: 22093796--22093841 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
22093786 CATCCAAACA
22093796 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
22093815 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
22093835 CCAGAAA
1 CCAGAAA
22093842 TTATTTTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:22094024 original size:60 final size:60
Alignment explanation
Indices: 22093931--22094049 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 60
22093921 ATACTAAACT
* * * * *
22093931 AAACGCAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTAATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
* *
22093991 AAACACAAAAATTAATAACATAATTCTAAATTACTAACAAATTAATTTTAAAATTATTA
1 AAACACAAAAATTAATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
22094050 TAAAAAACAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTAATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:22094729 original size:18 final size:18
Alignment explanation
Indices: 22094703--22094748 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
22094693 GCCTACCTGT
*
22094703 CAGGCGCGACTAGTCGCG
1 CAGGTGCGACTAGTCGCG
22094721 CAGGTGCGACTAGTCGCG
1 CAGGTGCGACTAGTCGCG
22094739 CAGGTGCGAC
1 CAGGTGCGAC
22094749 CCCTTTTCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.30, G:0.39, T:0.13
Consensus pattern (18 bp):
CAGGTGCGACTAGTCGCG
Found at i:22094864 original size:25 final size:25
Alignment explanation
Indices: 22094834--22094883 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
22094824 AATAAAAATA
* *
22094834 AAAAAATAATATTTTATTTAAAAAACC
1 AAAAAA-AAT-TTTAATATAAAAAACC
22094861 AAAAAAAATTTTAATATAAAAAA
1 AAAAAAAATTTTAATATAAAAAA
22094884 AAGTCGCGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 3 0.14
27 6 0.29
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAAAAAATTTTAATATAAAAAACC
Found at i:22097055 original size:16 final size:16
Alignment explanation
Indices: 22097030--22097098 Score: 111
Period size: 16 Copynumber: 4.3 Consensus size: 16
22097020 TTGGTTCGCT
* *
22097030 GTAATAGAATAGAGAC
1 GTAATGGAATAGAGGC
22097046 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
22097062 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
22097078 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
22097094 GTAAT
1 GTAAT
22097099 AGGTAATTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.41, C:0.06, G:0.32, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:22097167 original size:44 final size:46
Alignment explanation
Indices: 22097078--22097168 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
22097068 GAATAGATGC
*
22097078 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
22097124 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
22097168 G
1 G
22097169 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:22097169 original size:39 final size:44
Alignment explanation
Indices: 22097078--22097184 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 44
22097068 GAATAGATGC
*
22097078 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
22097124 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
22097164 G-AATGGAATAGAGGTGTAATA
1 GTAATGGAATAGAGGCGTAATA
22097185 ACATAAGGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 2 0.03
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:22097347 original size:15 final size:15
Alignment explanation
Indices: 22097327--22097365 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
22097317 CATAATTGTT
22097327 ATAAAATATAATTTA
1 ATAAAATATAATTTA
22097342 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
22097359 ATAAAAT
1 ATAAAAT
22097366 TTTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:22097372 original size:17 final size:17
Alignment explanation
Indices: 22097332--22097365 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22097322 TTGTTATAAA
22097332 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22097349 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22097366 TTTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22097582 original size:15 final size:15
Alignment explanation
Indices: 22097562--22097600 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
22097552 CATAATTGTT
22097562 ATAAAATATAATTTA
1 ATAAAATATAATTTA
22097577 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
22097594 ATAAAAT
1 ATAAAAT
22097601 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:22097607 original size:17 final size:17
Alignment explanation
Indices: 22097567--22097600 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22097557 TTGTTATAAA
22097567 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22097584 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22097601 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22097649 original size:117 final size:117
Alignment explanation
Indices: 22097312--22097802 Score: 770
Period size: 117 Copynumber: 4.3 Consensus size: 117
22097302 TTAATCATAT
* * * *
22097312 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
22097377 ATTCTTATATGAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
*
22097429 TTTAAAATAATTATTATTAAATATAAATTAATAAAAATATATAATTTAATAAAATTGTTAATAAA
1 TTTAAAATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTGTTAATAAA
22097494 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
65 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* * *
22097547 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
22097612 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAACATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
*
22097664 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAA---TT-CT---
1 TTTAAAATAATTATTATTAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAA
22097722 TATTCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
65 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC--TAAAATATAA
22097774 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
22097803 TAATCTACTT
Statistics
Matches: 354, Mismatches: 16, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
108 21 0.06
109 26 0.07
110 12 0.03
111 19 0.05
114 1 0.00
115 2 0.01
117 143 0.40
118 130 0.37
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:22097672 original size:20 final size:21
Alignment explanation
Indices: 22097633--22097672 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
22097623 AATTTACTAA
*
22097633 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
22097654 TAAAA-CATAATTTAAAATA
1 TAAAATCATAATATAAAATA
22097673 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:22097752 original size:44 final size:42
Alignment explanation
Indices: 22097651--22097752 Score: 100
Period size: 44 Copynumber: 2.4 Consensus size: 42
22097641 TAATATATAA
22097651 TACTAAAA-CATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATCATAATTTAAAATAATTATTATTAAATATAATT
* * * **
22097692 TAATAATAATATATAATTTAATAA-AATTCTTATTCTTATATGAATT
1 TACTAA-AAT-CATAATTTAA-AATAATTATTATT-AAATAT-AATT
22097738 TACTAAAATCATAAT
1 TACTAAAATCATAAT
22097753 ATATAATACT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
41 5 0.10
42 2 0.04
44 23 0.48
45 9 0.19
46 9 0.19
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (42 bp):
TACTAAAATCATAATTTAAAATAATTATTATTAAATATAATT
Done.