Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002765.1 Hibiscus syriacus cultivar Beakdansim tig00005702_pilon, whole genome shotgun sequence
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: 164046
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:10979 original size:27 final size:27
Alignment explanation
Indices: 10923--10981 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
10913 CTAAATTAAT
* * *
10923 TTTTTTCAAGTTCGAGGGTCAAATTGA
1 TTTTTTAAAGTTCAAGGGTCAAATTCA
*
10950 TTTTTTAAAGTTCAAGGG-CACATTTCA
1 TTTTTTAAAGTTCAAGGGTCA-AATTCA
10977 TTTTT
1 TTTTT
10982 AAAATACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (27 bp):
TTTTTTAAAGTTCAAGGGTCAAATTCA
Found at i:17326 original size:24 final size:24
Alignment explanation
Indices: 17296--17344 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
17286 GCTAGAGGCC
17296 CCTAGAGTTTAGGGATATCAATGG
1 CCTAGAGTTTAGGGATATCAATGG
17320 CCTAGAGTTTAGGGATATCAATGG
1 CCTAGAGTTTAGGGATATCAATGG
17344 C
1 C
17345 AAGGTCATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (24 bp):
CCTAGAGTTTAGGGATATCAATGG
Found at i:24989 original size:20 final size:20
Alignment explanation
Indices: 24943--24991 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
24933 TCCTCAAGGA
* *
24943 GTATCGATACTCATGGTCTG
1 GTATCGATACTCAAGGGCTG
* * *
24963 CTCTCGATACTCAAGGGGTG
1 GTATCGATACTCAAGGGCTG
24983 GTATCGATA
1 GTATCGATA
24992 TCGGTGGCAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (20 bp):
GTATCGATACTCAAGGGCTG
Found at i:27577 original size:17 final size:14
Alignment explanation
Indices: 27532--27582 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 14
27522 AGCATTGTAA
27532 AAAGAAAAT-AATG
1 AAAGAAAATAAATG
27545 AAAGAAAATAAA-G
1 AAAGAAAATAAATG
27558 AAAGAAAGATGAAGATG
1 AAAGAAA-AT-AA-ATG
27575 AAAGAAAA
1 AAAGAAAA
27583 GTATAACTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
13 17 0.52
14 4 0.12
15 2 0.06
16 2 0.06
17 8 0.24
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.10
Consensus pattern (14 bp):
AAAGAAAATAAATG
Found at i:29537 original size:17 final size:17
Alignment explanation
Indices: 29511--29544 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29501 CAGTATTATT
*
29511 TTTATTTTATTTTTTTA
1 TTTATATTATTTTTTTA
29528 TTTATATTATTTTTTTA
1 TTTATATTATTTTTTTA
29545 AAAATCCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATATTATTTTTTTA
Found at i:32736 original size:29 final size:29
Alignment explanation
Indices: 32694--32782 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 29
32684 TACCGGGGGT
32694 AGGTCGCCATGCACGCCTGACGACCTACC
1 AGGTCGCCATGCACGCCTGACGACCTACC
* ***
32723 AGGTCGCCATGCACGCC-CAGCGACCTGGT
1 AGGTCGCCATGCACGCCTGA-CGACCTACC
*
32752 AGGTCGCCATGCATGCCCTG-CGACCTACC
1 AGGTCGCCATGCACG-CCTGACGACCTACC
32781 AG
1 AG
32783 CCAACGACCT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 1 0.02
29 45 0.94
30 2 0.04
ACGTcount: A:0.19, C:0.39, G:0.27, T:0.15
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCTGACGACCTACC
Found at i:32812 original size:10 final size:10
Alignment explanation
Indices: 32797--32822 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
32787 CGACCTCCAT
32797 GCCCATGCAC
1 GCCCATGCAC
32807 GCCCATGCAC
1 GCCCATGCAC
32817 GCCCAT
1 GCCCAT
32823 CTCGCCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.50, G:0.19, T:0.12
Consensus pattern (10 bp):
GCCCATGCAC
Found at i:32860 original size:33 final size:33
Alignment explanation
Indices: 32811--32876 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
32801 ATGCACGCCC
*
32811 ATGCACGCCCATCTCGCCAAAGGTCACCATGCA
1 ATGCACGCCCAGCTCGCCAAAGGTCACCATGCA
*
32844 ATGCACGTCCAGCTCGCCAAAGGTCACCATGCA
1 ATGCACGCCCAGCTCGCCAAAGGTCACCATGCA
32877 GTCCATGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.38, G:0.20, T:0.15
Consensus pattern (33 bp):
ATGCACGCCCAGCTCGCCAAAGGTCACCATGCA
Found at i:33087 original size:12 final size:11
Alignment explanation
Indices: 33067--33102 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
33057 GAAATCAACT
33067 GCATTATTGCA
1 GCATTATTGCA
*
33078 GCACTTATTGCT
1 GCA-TTATTGCA
33090 GCATTATTGCA
1 GCATTATTGCA
33101 GC
1 GC
33103 CCGTGAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:33432 original size:28 final size:27
Alignment explanation
Indices: 33393--33445 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
33383 ATATTAAAAA
33393 AATAATTAATTAGTGTGTTAGTTAGTCT
1 AATAATTAATTAGTGTG-TAGTTAGTCT
* *
33421 AATATTTAATTAGTTTGTAGTTAGT
1 AATAATTAATTAGTGTGTAGTTAGT
33446 TAAATAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (27 bp):
AATAATTAATTAGTGTGTAGTTAGTCT
Found at i:33451 original size:27 final size:29
Alignment explanation
Indices: 33392--33456 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
33382 TATATTAAAA
33392 AAATAATTAATTAGTGTGTTAGTTAGTCT
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
* *
33421 -AATATTTAATTAGTTTG-TAGTTAGT-T
1 AAATAATTAATTAGTGTGTTAGTTAGTCT
*
33447 AAATAGTTAA
1 AAATAATTAA
33457 GTTATACTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 16 0.50
28 15 0.47
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (29 bp):
AAATAATTAATTAGTGTGTTAGTTAGTCT
Found at i:33549 original size:34 final size:36
Alignment explanation
Indices: 33481--33550 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 36
33471 GTTGAATTTA
33481 TATTATATAAAAATTAGTTTATTAGTAGTTTAAGTTT
1 TATTATATAAAAATTAGTTTATTA-TAGTTTAAGTTT
33518 TATTATAATAAAAA-TAGTTTA-T-TAGTTTAAGTT
1 TATTAT-ATAAAAATTAGTTTATTATAGTTTAAGTT
33551 ATATAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
34 11 0.34
36 1 0.03
37 13 0.41
38 7 0.22
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (36 bp):
TATTATATAAAAATTAGTTTATTATAGTTTAAGTTT
Found at i:33593 original size:18 final size:18
Alignment explanation
Indices: 33570--33624 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
33560 AATAATTATT
33570 TAAATTAGTTTATTGTTA
1 TAAATTAGTTTATTGTTA
33588 TAAATTA--TTA--G-T-
1 TAAATTAGTTTATTGTTA
*
33600 T-AATTAGTTTATTATTA
1 TAAATTAGTTTATTGTTA
33617 TAAATTAG
1 TAAATTAG
33625 GGTAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 4 0.14
14 1 0.03
16 4 0.14
17 1 0.03
18 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
TAAATTAGTTTATTGTTA
Found at i:33677 original size:21 final size:21
Alignment explanation
Indices: 33652--33691 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
33642 GTTAATTAGT
33652 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
33673 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
33692 CATATAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:33938 original size:30 final size:30
Alignment explanation
Indices: 33871--33943 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 30
33861 ATGAGTTAAT
*
33871 TAGTTT-TTAGTAGTAAATTATAATTAAAAA
1 TAGTTTATTAGT-TTAAATTATAATTAAAAA
*
33901 TCA-TTTATTAGTTTAATTTAT-ATTAAAGAA
1 T-AGTTTATTAGTTTAAATTATAATTAAA-AA
33931 TAGTTTATTAGTT
1 TAGTTTATTAGTT
33944 GTTTAAGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 7 0.19
30 24 0.65
31 6 0.16
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.49
Consensus pattern (30 bp):
TAGTTTATTAGTTTAAATTATAATTAAAAA
Found at i:36269 original size:14 final size:14
Alignment explanation
Indices: 36250--36297 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
36240 TTCAAGTCGT
36250 AAATCATTACTATC
1 AAATCATTACTATC
36264 AAATCATTAC--T-
1 AAATCATTACTATC
*
36275 AAATCATTAATATC
1 AAATCATTACTATC
36289 AAATCATTA
1 AAATCATTA
36298 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:36331 original size:48 final size:49
Alignment explanation
Indices: 36269--36500 Score: 187
Period size: 60 Copynumber: 4.3 Consensus size: 49
36259 CTATCAAATC
*
36269 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATT
1 ATTACT-AATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
* *
36318 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
* * *
36367 ATTACTAATCATTACTAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATT
1 ATTACTAATCATTA--ATATCA--A--ATC--AT--TA-AAAATTAATAATAAATTCATT
*
36427 ATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATC---A-T---T-A--A-TATCAAATCATTAAAAATTAATAATAAATTCATT
36487 ATTACTAATCATTA
1 ATTACTAATCATTA
36501 CTAAGTCATT
Statistics
Matches: 153, Mismatches: 9, Indels: 39
0.76 0.04 0.19
Matches are distributed among these distances:
48 36 0.24
49 23 0.15
51 4 0.03
52 1 0.01
53 2 0.01
55 3 0.02
56 1 0.01
57 3 0.02
59 2 0.01
60 60 0.39
61 2 0.01
63 3 0.02
64 1 0.01
65 3 0.02
67 2 0.01
68 3 0.02
69 4 0.03
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTAATATCAAATCATTAAAAATTAATAATAAATTCATT
Found at i:36391 original size:21 final size:21
Alignment explanation
Indices: 36367--36633 Score: 63
Period size: 21 Copynumber: 13.3 Consensus size: 21
36357 TAATTTCATT
36367 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
36388 ATTACT-ATCA-AATCATACATA
1 ATTACTAATCATTA-C-TAAATC
* * * *
36409 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
36427 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
36448 ATTACT-ATCAAATCATTAAA-A
1 ATTACTAATC--ATTACTAAATC
* * * *
36469 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
*
36487 ATTACTAATCATTACTAAGTC
1 ATTACTAATCATTACTAAATC
* * *
36508 ATTACT-ATCA-AATCATACATA
1 ATTACTAATCATTA-C-TAAATC
* * * *
36529 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
36547 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
36568 ATTACT-ATCAAATCATTAAA-A
1 ATTACTAATC--ATTACTAAATC
* * *
36589 ATTA-TAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
36606 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
36627 ATTACTA
1 ATTACTA
36634 TCAAATCATA
Statistics
Matches: 171, Mismatches: 46, Indels: 58
0.62 0.17 0.21
Matches are distributed among these distances:
16 1 0.01
17 6 0.04
18 47 0.27
19 6 0.04
20 23 0.13
21 66 0.39
22 22 0.13
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:36393 original size:60 final size:60
Alignment explanation
Indices: 36318--36744 Score: 699
Period size: 60 Copynumber: 7.2 Consensus size: 60
36308 ATAAATTATT
36318 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
36377 ATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATC
36437 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* *
36497 ATTACTAAGTCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATC
36557 ATTACTAAATCATTACTATCAAATCATTAAAAATT-ATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
36616 ATTACTAAATCATTACTATCAAATCA-TACATAATTAATAATAATTTCATTATTACT-ATC
1 ATTACTAAATCATTACTATCAAATCATTA-AAAATTAATAATAATTTCATTATTACTAATC
* * *
36675 ATTACT--ATCAATTACTATTAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
1 ATTACTAAATC-ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
36734 ATTACTAAATC
1 ATTACTAAATC
36745 TTATAAATAC
Statistics
Matches: 345, Mismatches: 11, Indels: 22
0.91 0.03 0.06
Matches are distributed among these distances:
57 3 0.01
58 40 0.12
59 85 0.25
60 210 0.61
61 7 0.02
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:36466 original size:120 final size:119
Alignment explanation
Indices: 36318--36744 Score: 770
Period size: 120 Copynumber: 3.6 Consensus size: 119
36308 ATAAATTATT
36318 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
1 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
36383 AAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
66 AAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
36437 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
*
36502 TAAGTCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
65 TAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
36557 ATTACTAAATCATTACTATCAAATCATTAAAAATT-ATAATAATTTCATTATTACTAATCATTAC
1 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
36621 TAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACT-ATC
65 TAAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
* * *
36675 ATTACT-ATCAATTACTATTAAATCATTAAATATTAATAATAATTTCATCATTACTAATCATTAC
1 ATTACTAATC-ATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTAC
36739 TAAATC
65 TAAATC
36745 TTATAAATAC
Statistics
Matches: 300, Mismatches: 5, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
116 3 0.01
117 22 0.07
118 43 0.14
119 85 0.28
120 147 0.49
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (119 bp):
ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT
AAATCATTACTATCAAATCATACATAATTAATAATAATTTCATTATTACTAATC
Found at i:39827 original size:28 final size:28
Alignment explanation
Indices: 39796--39849 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
39786 ATAATCTAAT
*
39796 ATATAACTTAAACTAACAAATTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
39824 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAACAAACTAATA
39850 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:39856 original size:28 final size:28
Alignment explanation
Indices: 39792--39856 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
39782 TTATATAATC
*
39792 TAATATATAACTTAAACTAACAAATTAA
1 TAATATATAACTTAAACTAACAAACTAA
39820 T-ATAATATAACTTAAACTAACAAACTAA
1 TAAT-ATATAACTTAAACTAACAAACTAA
*
39848 TAATTTATA
1 TAATATATA
39857 CTAACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (28 bp):
TAATATATAACTTAAACTAACAAACTAA
Found at i:39859 original size:21 final size:21
Alignment explanation
Indices: 39826--39874 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
39816 TTAATATAAT
39826 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
39847 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
39868 ATTAACT
1 A-TAACT
39875 AAATTTCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:40556 original size:30 final size:30
Alignment explanation
Indices: 40516--40838 Score: 320
Period size: 30 Copynumber: 11.1 Consensus size: 30
40506 TTTGGCGAGC
40516 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
* * *
40546 TGGCCGTGCATGGAGGTCGTTGGACGTGCC
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
*
40576 TGGGCATGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
40606 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
* *
40636 TGGGCGTTGC-TGGTAGGTCGTAGGGCATGCA
1 TGGGCG-TGCATGG-AGGTCGTTGGGCGTGCA
* * *
40667 TGGTGACCT--TTGGCGAG-C--TGGGC--G--
1 TGG-G-CGTGCATGGAG-GTCGTTGGGCGTGCA
40691 T--GC----ATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
* * *
40715 TGGCCGTGCATGGAGGTCGTTGGACGTGCC
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
*
40745 TGGGCATGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
40775 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
1 TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
** *
40805 TGGGCGTTGC-TGGTAGGTCGCAGGGCATGCA
1 TGGGCG-TGCATGG-AGGTCGTTGGGCGTGCA
40836 TGG
1 TGG
40839 CGACCTACCA
Statistics
Matches: 246, Mismatches: 26, Indels: 41
0.79 0.08 0.13
Matches are distributed among these distances:
17 1 0.00
18 5 0.02
20 6 0.02
21 1 0.00
22 1 0.00
24 2 0.01
26 2 0.01
28 4 0.02
30 176 0.72
31 45 0.18
32 2 0.01
33 1 0.00
ACGTcount: A:0.11, C:0.18, G:0.47, T:0.24
Consensus pattern (30 bp):
TGGGCGTGCATGGAGGTCGTTGGGCGTGCA
Found at i:40586 original size:60 final size:60
Alignment explanation
Indices: 40515--40809 Score: 355
Period size: 60 Copynumber: 5.1 Consensus size: 60
40505 CTTTGGCGAG
*
40515 CTGGGCGTGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGC
1 CTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGC
* *
40575 CTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGTCGTTGGGCGTGC
1 CTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGC
* * * * * * *
40635 ATGGGCGTTGC-TGGTAGGTCGTAGGGCATGCAT----G-G--T-GA--CCTTTGG-CGAG-
1 CTGGGC-ATGCATGG-AGGTCGTTGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGC
*
40684 CTGGGCGTGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGC
1 CTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGC
* *
40744 CTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGTCGTTGGGCGTGC
1 CTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGC
*
40804 ATGGGC
1 CTGGGC
40810 GTTGCTGGTA
Statistics
Matches: 199, Mismatches: 21, Indels: 30
0.80 0.08 0.12
Matches are distributed among these distances:
48 19 0.10
49 8 0.04
50 3 0.02
51 5 0.03
52 1 0.01
53 3 0.02
54 1 0.01
55 1 0.01
56 3 0.02
57 1 0.01
58 5 0.03
59 3 0.02
60 127 0.64
61 19 0.10
ACGTcount: A:0.11, C:0.19, G:0.47, T:0.24
Consensus pattern (60 bp):
CTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGC
Found at i:40611 original size:10 final size:10
Alignment explanation
Indices: 40596--40642 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
40586 TGGAGGTCGT
40596 TGGGCGTGCA
1 TGGGCGTGCA
40606 TGGGCGTGCA
1 TGGGCGTGCA
*
40616 TGGAG-GT-CGT
1 TGG-GCGTGC-A
40626 TGGGCGTGCA
1 TGGGCGTGCA
40636 TGGGCGT
1 TGGGCGT
40643 TGCTGGTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 2 0.06
10 27 0.87
11 2 0.06
ACGTcount: A:0.09, C:0.17, G:0.51, T:0.23
Consensus pattern (10 bp):
TGGGCGTGCA
Found at i:40697 original size:109 final size:108
Alignment explanation
Indices: 40575--40777 Score: 318
Period size: 109 Copynumber: 1.9 Consensus size: 108
40565 TTGGACGTGC
* *
40575 CTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGTCGTTGGGCGTGCATGGG
1 CTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGCATGGG
*
40640 CGTTGC-TGGTAGGTCGTAGGGCATGCATGGTGACCTTTGGCGAG
66 C-ATGCATGG-AGGTCGTAGGGCATGCATGGTGACCTTTGGCGAG
* *
40684 CTGGGCGTGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGCCTGGG
1 CTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGCATGGG
* *
40749 CATGCATGGAGGTCGTTGGGCGTGCATGG
66 CATGCATGGAGGTCGTAGGGCATGCATGG
40778 GCGTGCATGG
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 21 0.24
109 65 0.76
ACGTcount: A:0.11, C:0.18, G:0.46, T:0.24
Consensus pattern (108 bp):
CTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGGAGGTCGTTGGACGTGCATGGG
CATGCATGGAGGTCGTAGGGCATGCATGGTGACCTTTGGCGAG
Found at i:40773 original size:169 final size:169
Alignment explanation
Indices: 40494--40844 Score: 684
Period size: 169 Copynumber: 2.1 Consensus size: 169
40484 AAGCATGGAC
40494 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGG
1 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGG
40559 AGGTCGTTGGACGTGCCTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGTC
66 AGGTCGTTGGACGTGCCTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGTC
*
40624 GTTGGGCGTGCATGGGCGTTGCTGGTAGGTCGTAGGGCA
131 GTTGGGCGTGCATGGGCGTTGCTGGTAGGTCGCAGGGCA
40663 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGG
1 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGG
40728 AGGTCGTTGGACGTGCCTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGTC
66 AGGTCGTTGGACGTGCCTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGTC
40793 GTTGGGCGTGCATGGGCGTTGCTGGTAGGTCGCAGGGCA
131 GTTGGGCGTGCATGGGCGTTGCTGGTAGGTCGCAGGGCA
*
40832 TGCATGGCGACCT
1 TGCATGGTGACCT
40845 ACCAGGTCGA
Statistics
Matches: 180, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 180 1.00
ACGTcount: A:0.11, C:0.19, G:0.46, T:0.24
Consensus pattern (169 bp):
TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCATGGCCGTGCATGG
AGGTCGTTGGACGTGCCTGGGCATGCATGGAGGTCGTTGGGCGTGCATGGGCGTGCATGGAGGTC
GTTGGGCGTGCATGGGCGTTGCTGGTAGGTCGCAGGGCA
Found at i:40780 original size:10 final size:10
Alignment explanation
Indices: 40765--40811 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
40755 TGGAGGTCGT
40765 TGGGCGTGCA
1 TGGGCGTGCA
40775 TGGGCGTGCA
1 TGGGCGTGCA
*
40785 TGGAG-GT-CGT
1 TGG-GCGTGC-A
40795 TGGGCGTGCA
1 TGGGCGTGCA
40805 TGGGCGT
1 TGGGCGT
40812 TGCTGGTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 2 0.06
10 27 0.87
11 2 0.06
ACGTcount: A:0.09, C:0.17, G:0.51, T:0.23
Consensus pattern (10 bp):
TGGGCGTGCA
Found at i:40859 original size:29 final size:28
Alignment explanation
Indices: 40819--40905 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 28
40809 CGTTGCTGGT
*
40819 AGGTCGCAGGGCATGCATGGCGACCTACC
1 AGGTCG-AGGGCGTGCATGGCGACCTACC
***
40848 AGGTCGATGGGCGTGCATGGCGACCTGGT
1 AGGTCGA-GGGCGTGCATGGCGACCTACC
*
40877 AGGTCGCCGGGCGTGCATGGCGACCTACC
1 AGGTCG-AGGGCGTGCATGGCGACCTACC
40906 CCCGGTACTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 1 0.02
29 47 0.98
ACGTcount: A:0.16, C:0.29, G:0.39, T:0.16
Consensus pattern (28 bp):
AGGTCGAGGGCGTGCATGGCGACCTACC
Found at i:40896 original size:58 final size:60
Alignment explanation
Indices: 40788--40905 Score: 177
Period size: 58 Copynumber: 2.0 Consensus size: 60
40778 GCGTGCATGG
* **
40788 AGGTCGTTGGGCGTGCATGGGCGTTGCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
1 AGGTCGATGGGCGTGCATGGGCGTACCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
* *
40848 AGGTCGATGGGCGTGCAT-GGCG-ACCTGGTAGGTCGCCGGGCGTGCATGGCGACCTACC
1 AGGTCGATGGGCGTGCATGGGCGTACCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
40906 CCCGGTACTG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
58 32 0.60
59 4 0.08
60 17 0.32
ACGTcount: A:0.14, C:0.25, G:0.42, T:0.19
Consensus pattern (60 bp):
AGGTCGATGGGCGTGCATGGGCGTACCTGGTAGGTCGCAGGGCATGCATGGCGACCTACC
Found at i:48063 original size:57 final size:57
Alignment explanation
Indices: 47975--48089 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
47965 ATTACCTAAA
*
47975 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
1 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCGTGGTTTTGCTGCAGAGGTGCT
*
48032 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCGTGGTTTTGCTGCAGAGGTGCT
1 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCGTGGTTTTGCTGCAGAGGTGCT
48089 G
1 G
48090 AAGGTTCCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (57 bp):
GGATCTTCACAAGATCTTGGACCAGGATCAGATTCGTGGTTTTGCTGCAGAGGTGCT
Found at i:57036 original size:22 final size:22
Alignment explanation
Indices: 56991--57037 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
56981 GAAGGTAATA
*
56991 ATTTCTAGGGAAAGAATATTTT
1 ATTTCTAGGGAAAGAATATATT
*
57013 ATTTTTAGGGAAAGAA-AGTATT
1 ATTTCTAGGGAAAGAATA-TATT
57035 ATT
1 ATT
57038 ATTATTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (22 bp):
ATTTCTAGGGAAAGAATATATT
Found at i:61138 original size:16 final size:16
Alignment explanation
Indices: 61119--61152 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
61109 TAAAGTTATT
61119 TATC-TTTAGGGTAAGA
1 TATCTTTTAGGG-AAGA
61135 TATCTTTTAGGGAAGA
1 TATCTTTTAGGGAAGA
61151 TA
1 TA
61153 AAGATGCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (16 bp):
TATCTTTTAGGGAAGA
Found at i:61313 original size:15 final size:15
Alignment explanation
Indices: 61274--61307 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
61264 CAGAACCTCG
61274 TACTCCTCAAGCTTC
1 TACTCCTCAAGCTTC
61289 TACTCCTCAAGCTTC
1 TACTCCTCAAGCTTC
61304 TACT
1 TACT
61308 TTTCAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.35
Consensus pattern (15 bp):
TACTCCTCAAGCTTC
Found at i:63355 original size:24 final size:24
Alignment explanation
Indices: 63328--63377 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
63318 AAGGCCTAGG
63328 CTTGTATAAATAATTGTAAGCTTC
1 CTTGTATAAATAATTGTAAGCTTC
*
63352 CTTGTATATATAATTGTAAGCTTC
1 CTTGTATAAATAATTGTAAGCTTC
63376 CT
1 CT
63378 ACACATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (24 bp):
CTTGTATAAATAATTGTAAGCTTC
Found at i:64100 original size:29 final size:29
Alignment explanation
Indices: 64066--64128 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
64056 ATCCCAATGC
64066 AGTATATTGTAAATGAATATATCTCATGA
1 AGTATATTGTAAATGAATATATCTCATGA
64095 AGTATATTGTAAATGAATATATCTCATGA
1 AGTATATTGTAAATGAATATATCTCATGA
64124 AGTAT
1 AGTAT
64129 CGTTGAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.38
Consensus pattern (29 bp):
AGTATATTGTAAATGAATATATCTCATGA
Found at i:64110 original size:16 final size:15
Alignment explanation
Indices: 64068--64116 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
64058 CCCAATGCAG
64068 TATATTGTAAATGAA
1 TATATTGTAAATGAA
* *
64083 TATA-TCT-CATGAA
1 TATATTGTAAATGAA
64096 GTATATTGTAAATGAA
1 -TATATTGTAAATGAA
64112 TATAT
1 TATAT
64117 CTCATGAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
13 5 0.19
14 6 0.22
15 11 0.41
16 5 0.19
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (15 bp):
TATATTGTAAATGAA
Found at i:70086 original size:18 final size:18
Alignment explanation
Indices: 70063--70103 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
70053 GGATCCTAAA
70063 ATTTTAAAATTATTATAT
1 ATTTTAAAATTATTATAT
* * *
70081 ATTTTAGATTTTTTATAT
1 ATTTTAAAATTATTATAT
70099 ATTTT
1 ATTTT
70104 TATTGAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTAAAATTATTATAT
Found at i:71663 original size:21 final size:23
Alignment explanation
Indices: 71639--71682 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
71629 CTTTTTATGG
71639 TCGATTAAGCCT-AAT-TTTCTT
1 TCGATTAAGCCTAAATGTTTCTT
*
71660 TCGATTAGGCCTAAATGTTTCTT
1 TCGATTAAGCCTAAATGTTTCTT
71683 ACGGGTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 3 0.15
23 6 0.30
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (23 bp):
TCGATTAAGCCTAAATGTTTCTT
Found at i:76478 original size:22 final size:22
Alignment explanation
Indices: 76450--76491 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
76440 AGTCGAGGGT
*
76450 TACATAGGTCCTTCGTGACATA
1 TACATAGGTCCTTCGGGACATA
76472 TACATAGGTCCTTCGGGACA
1 TACATAGGTCCTTCGGGACA
76492 AATTTCACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (22 bp):
TACATAGGTCCTTCGGGACATA
Found at i:83149 original size:2 final size:2
Alignment explanation
Indices: 83142--83167 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
83132 TTTTGATTCA
83142 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
83168 GTTTTTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103012 original size:31 final size:29
Alignment explanation
Indices: 102977--103062 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
102967 CGTCCCCAAC
*
102977 AGGTCGCCATGCATTCCCTAAC-ACCCCTACA
1 AGGTCGCCATGCACTCCC-AACGA--CCTACA
* *
103008 AGGTCGCCAAGCACTCCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCAACGACCTACA
* *
103037 AGGTCTCCATGCACTCCCAGCGACCT
1 AGGTCGCCATGCACTCCCAACGACCT
103063 TGTAGGTCGC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 30 0.61
30 2 0.04
31 17 0.35
ACGTcount: A:0.24, C:0.42, G:0.17, T:0.16
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAACGACCTACA
Found at i:103039 original size:29 final size:29
Alignment explanation
Indices: 103002--103090 Score: 115
Period size: 29 Copynumber: 3.1 Consensus size: 29
102992 CCCTAACACC
103002 CCTACAAGGTCGCCAAGCACTCCCAGCGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
* *
103031 CCTACAAGGTCTCCATGCACTCCCAGCGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
*** * *
103060 CCTTGTAGGTCGCCAAGCAATCCCGGCGA
1 CCTACAAGGTCGCCAAGCACTCCCAGCGA
103089 CC
1 CC
103091 AAGCCTCGAC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.24, C:0.40, G:0.21, T:0.15
Consensus pattern (29 bp):
CCTACAAGGTCGCCAAGCACTCCCAGCGA
Found at i:103162 original size:32 final size:32
Alignment explanation
Indices: 103126--103190 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
103116 ACTTAACCCT
103126 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
1 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
103158 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
1 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
103190 G
1 G
103191 GAGATTCCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.12, C:0.31, G:0.29, T:0.28
Consensus pattern (32 bp):
GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
Found at i:103206 original size:23 final size:23
Alignment explanation
Indices: 103176--103219 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
103166 GTGCATGGGT
103176 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAGCTGGGAGATTCC
103199 TGCATCCATAGCTGGGAGATT
1 TGCATCCATAGCTGGGAGATT
103220 GTAGCCAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (23 bp):
TGCATCCATAGCTGGGAGATTCC
Found at i:103673 original size:27 final size:25
Alignment explanation
Indices: 103643--103698 Score: 94
Period size: 27 Copynumber: 2.2 Consensus size: 25
103633 AATTTAGTTA
103643 ATTAGTTTGTTAGTTTAAGTATATTAT
1 ATTAGTTTGTTAGTTTAAGT-TA-TAT
103670 ATTAGTTTGTTAGTTTAAGTTATAT
1 ATTAGTTTGTTAGTTTAAGTTATAT
103695 ATTA
1 ATTA
103699 TATTATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 7 0.24
26 2 0.07
27 20 0.69
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.55
Consensus pattern (25 bp):
ATTAGTTTGTTAGTTTAAGTTATAT
Found at i:104040 original size:20 final size:20
Alignment explanation
Indices: 103991--104033 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
103981 AAAAAAAATA
103991 TTGTGTTTAAAAATATTTACTG
1 TTGT-TTTAAAAATATTTA-TG
104013 TTGTTTTAAAAATATTT-TG
1 TTGTTTTAAAAATATTTATG
104032 TT
1 TT
104034 TAATTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
21 13 0.62
22 4 0.19
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (20 bp):
TTGTTTTAAAAATATTTATG
Found at i:107186 original size:10 final size:10
Alignment explanation
Indices: 107171--107204 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
107161 TTAGTAATGA
107171 TATATGTATT
1 TATATGTATT
*
107181 TATATGAATT
1 TATATGTATT
*
107191 TCTATGTATT
1 TATATGTATT
107201 TATA
1 TATA
107205 AGATTTAGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (10 bp):
TATATGTATT
Found at i:107267 original size:49 final size:49
Alignment explanation
Indices: 107210--107859 Score: 600
Period size: 60 Copynumber: 12.0 Consensus size: 49
107200 TTATAAGATT
*
107210 TAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A--A--TGAT--T--TGA
107268 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A--A--TG--ATT--TGA
* *
107328 TTTAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
107379 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
107428 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
107477 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A--A--TGAT--T--TGA
*
107535 TTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
107586 TAGTAATGATTTAGTAATTATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGT-A--A--T-G-----ATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
107646 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATAATTTGATAGTAATAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAA-TATT--TAA--TGAT--T--TGA
107704 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATA
1 -TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTG--A
* *
107756 TTAATGATTTATTAATGATTAGTAATAATGAAATTATTACTAATTTTTAATGATTTGA
1 -T-A-G------TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
107814 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTT
107860 AGTAATGATT
Statistics
Matches: 530, Mismatches: 16, Indels: 100
0.82 0.02 0.15
Matches are distributed among these distances:
48 23 0.04
49 181 0.34
50 7 0.01
51 6 0.01
52 9 0.02
53 5 0.01
54 15 0.03
55 9 0.02
56 6 0.01
57 4 0.01
58 9 0.02
59 37 0.07
60 217 0.41
62 2 0.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:107283 original size:21 final size:21
Alignment explanation
Indices: 107206--107346 Score: 68
Period size: 21 Copynumber: 7.0 Consensus size: 21
107196 GTATTTATAA
107206 GATTTAGTAATGATTAGTAAT
1 GATTTAGTAATGATTAGTAAT
* * *
107227 GA--T-GAAATTATTATTAAT
1 GATTTAGTAATGATTAGTAAT
* *
107245 -ATTTAATGATTTGA-TAGTAAT
1 GATTTAGT-A-ATGATTAGTAAT
107266 GATTTAGTAATGATTAGTAAT
1 GATTTAGTAATGATTAGTAAT
* * * *
107287 -A-AT-GAAATTATTATTAAT
1 GATTTAGTAATGATTAGTAAT
* * *
107305 -ATTTAATGATTTGA-TATTAAT
1 GATTTAGT-A-ATGATTAGTAAT
107326 GATTTAGTAATGATTAGTAAT
1 GATTTAGTAATGATTAGTAAT
107347 AATAAAATTA
Statistics
Matches: 85, Mismatches: 22, Indels: 26
0.64 0.17 0.20
Matches are distributed among these distances:
17 1 0.01
18 25 0.29
19 4 0.05
20 7 0.08
21 32 0.38
22 16 0.19
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.45
Consensus pattern (21 bp):
GATTTAGTAATGATTAGTAAT
Found at i:107383 original size:39 final size:41
Alignment explanation
Indices: 107340--107704 Score: 133
Period size: 49 Copynumber: 8.2 Consensus size: 41
107330 TAGTAATGAT
107340 TAGTAATAAT-A-AAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATAATAAGAAATTATTATTAATTTTTAATGATTTGA
107379 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAG---T-A--A-TAATAA-GAAATTATTATTAATTTTTAATGATTTGA
*
107428 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAG---T-A--A-TAATAA-GAAATTATTATTAATTTTTAATGATTTGA
* *
107477 TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGA
1 TAG---T-A--A-TAATAA-GAAATTATTATTAATTTTTAATGATTTGA
* * * * * * *
107526 TAGTAATGATTTAGTAATGATTAGTAA----TAATGAAATTGT
1 TAGTAAT-AATAAGAAATTATTATTAATTTTTAATG-ATTTGA
* * * * * * *
107565 TATTAATATTTAATG-ATTTGA-TAGTAATGATTTAGT-AATT-A
1 TAGTAATA-ATAA-GAAATT-ATTATTAAT-TTTTAATGATTTGA
107606 TTAGTAATAAT--GAAATTATTATTAATTTTTAATGATTTGA
1 -TAGTAATAATAAGAAATTATTATTAATTTTTAATGATTTGA
*
107646 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATAATTTGA
1 TAG---T-A--A-TAATAA-GAAATTATTATTAATTTTTAATGATTTGA
107695 TAGTAATAAT
1 TAGTAATAAT
107705 TAGTAATGAT
Statistics
Matches: 267, Mismatches: 24, Indels: 67
0.75 0.07 0.19
Matches are distributed among these distances:
38 13 0.05
39 39 0.15
40 3 0.01
41 1 0.00
42 28 0.10
43 7 0.03
44 3 0.01
45 4 0.01
46 10 0.04
47 1 0.00
49 158 0.59
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (41 bp):
TAGTAATAATAAGAAATTATTATTAATTTTTAATGATTTGA
Found at i:107384 original size:109 final size:109
Alignment explanation
Indices: 107270--107859 Score: 633
Period size: 109 Copynumber: 5.4 Consensus size: 109
107260 AGTAATGATT
107270 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
*
107335 ATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGA
66 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
* *
107379 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
* * * * * ** *
107443 AT-AAT-GAAATTAT--TATTAATATTTAATGATT--TGA-TAG-
66 ATGATTAGTAATAATGAAATTATTA-TTAATTTTTAATGATTTGA
* * * * *
107480 TAATGAT--TA-GTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
* *
107542 ATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGA
66 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
* * * * * * *
107586 TAGTAATGATTTAGTAATTATTAGTAATAATGAAATTATTA-TTAAT-TTTTAATGATT--TGA-
1 TAGTAATGA-TTAGTAA-TAAT-GAAATTAT--TATTAATATTTAATGATTTGAT-ATTAATGAT
*
107646 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATAATTTGATAGTAATAA
60 TTAGTAATGATTAGTAATAATGAAATTATTATTAA-TTTT--TAA--TGAT--T--TGA
*
107704 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTATT
1 -TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGT
*
107769 AATGATTAGTAATAATGAAATTATTACTAATTTTTAATGATTTGA
65 AATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
107814 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTT
107860 AGTAATGATT
Statistics
Matches: 396, Mismatches: 50, Indels: 71
0.77 0.10 0.14
Matches are distributed among these distances:
98 44 0.11
99 9 0.02
100 2 0.01
101 11 0.03
102 9 0.02
103 8 0.02
104 9 0.02
105 9 0.02
106 11 0.03
107 2 0.01
108 33 0.08
109 110 0.28
110 9 0.02
111 6 0.02
112 14 0.04
113 7 0.02
114 20 0.05
115 8 0.02
116 15 0.04
117 6 0.02
118 13 0.03
119 41 0.10
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (109 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:107610 original size:21 final size:20
Alignment explanation
Indices: 107526--107614 Score: 58
Period size: 21 Copynumber: 4.4 Consensus size: 20
107516 AATGATTTGA
*
107526 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATTAT
* * *
107547 TAGTAATA-AT-GAAATTGT
1 TAGTAATATTTAGTAATTAT
* * *
107565 TATTAATATTTAATGATT-T
1 TAGTAATATTTAGTAATTAT
107584 GATAGTAATGATTTAGTAATTAT
1 --TAGTAAT-ATTTAGTAATTAT
107607 TAGTAATA
1 TAGTAATA
107615 ATGAAATTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 13
0.67 0.16 0.17
Matches are distributed among these distances:
18 12 0.24
19 3 0.06
20 5 0.10
21 20 0.40
22 9 0.18
23 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
TAGTAATATTTAGTAATTAT
Found at i:107611 original size:10 final size:10
Alignment explanation
Indices: 107586--107721 Score: 50
Period size: 10 Copynumber: 13.7 Consensus size: 10
107576 AATGATTTGA
*
107586 TAGTAATGATT
1 TAGTAATTA-T
107597 TAGTAATTAT
1 TAGTAATTAT
*
107607 TAGTAA-TAA
1 TAGTAATTAT
*
107616 T-GAAATTAT
1 TAGTAATTAT
* *
107625 TATTAATTTT
1 TAGTAATTAT
* *
107635 TAATGATT-T
1 TAGTAATTAT
*
107644 GATAGTAATGAT
1 --TAGTAATTAT
*
107656 TAGTAA-TAA
1 TAGTAATTAT
*
107665 T-GAAATTAT
1 TAGTAATTAT
* *
107674 TATTAATTTT
1 TAGTAATTAT
*
107684 TAATAATT-T
1 TAGTAATTAT
*
107693 GATAGTAATAAT
1 --TAGTAATTAT
*
107705 TAGTAATGAT
1 TAGTAATTAT
107715 TAGTAAT
1 TAGTAAT
107722 AATGAAATTA
Statistics
Matches: 92, Mismatches: 23, Indels: 21
0.68 0.17 0.15
Matches are distributed among these distances:
8 6 0.07
9 13 0.14
10 52 0.57
11 19 0.21
12 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (10 bp):
TAGTAATTAT
Found at i:107685 original size:267 final size:275
Alignment explanation
Indices: 107209--107830 Score: 983
Period size: 267 Copynumber: 2.2 Consensus size: 275
107199 TTTATAAGAT
*
107209 TTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGT
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGT
*
107274 AATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGA
66 AATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGA
107339 TTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
131 TTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
*
107404 TATTATTAA-TTTT-TAA-TGAT-T-TGA-TAGTAATGATTAGTAATAATGAAATTATTATTAAT
196 TATTATTAATTTTTATAATTGATATATAATTAGTAATGATTAGTAATAATGAAATTATTATTAAT
107463 ATTTAATGATTTG-A
261 ATTTAATGATTTGAA
*
107477 -TAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGT
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGT
* *
107541 AATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATTA
66 AATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGA
*
107606 TTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
131 TTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
107671 TATTATTAATTTTTAATAATTTGATAGTAATAATTAGTAATGATTAGTAATAATGAAATTATTAT
196 TATTATTAATTTTT-ATAA-TTGATA-T-ATAATTAGTAATGATTAGTAATAATGAAATTATTAT
107736 TAATATTTAATGATTTGATA
257 TAATATTTAATGATTTGA-A
* *
107756 TTAATGATTTATTAATGATTAGTAATAATGAAATTATTACTAATTTTTAATGATTTGATAGTAAT
1 TT-A-G------TAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
107821 GA-TTAGTAAT
58 GATTTAGTAAT
107831 AATAATTTAT
Statistics
Matches: 323, Mismatches: 10, Indels: 23
0.91 0.03 0.06
Matches are distributed among these distances:
267 197 0.61
268 4 0.01
270 3 0.01
272 4 0.01
274 1 0.00
276 2 0.01
277 48 0.15
279 1 0.00
280 1 0.00
281 1 0.00
282 1 0.00
287 8 0.02
288 52 0.16
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (275 bp):
TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGT
AATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGA
TTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAAT
TATTATTAATTTTTATAATTGATATATAATTAGTAATGATTAGTAATAATGAAATTATTATTAAT
ATTTAATGATTTGAA
Found at i:107709 original size:59 final size:59
Alignment explanation
Indices: 107646--107830 Score: 298
Period size: 59 Copynumber: 3.1 Consensus size: 59
107636 AATGATTTGA
*
107646 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATAATTTGATAGTAATAAT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATAAT
* * *
107705 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT-AAT
* * *
107765 TATTAATGATTAGTAATAATGAAATTATTACTAATTTTTAATGATTTGATAGTAATGAT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATAAT
107824 TAGTAAT
1 TAGTAAT
107831 AATAATTTAT
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
59 60 0.53
60 54 0.47
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.46
Consensus pattern (59 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATAAT
Found at i:107822 original size:14 final size:14
Alignment explanation
Indices: 107803--107884 Score: 53
Period size: 14 Copynumber: 5.6 Consensus size: 14
107793 TACTAATTTT
107803 TAATGATTTGATAG
1 TAATGATTTGATAG
* *
107817 TAATGATTAG-TAA
1 TAATGATTTGATAG
* *
107830 TAATAATTT-ATTAT
1 TAATGATTTGA-TAG
107844 TAAT-ATTTAATGATTTAG
1 TAATGA-TT--TGA--TAG
107862 TAATGATTTGATAG
1 TAATGATTTGATAG
107876 TAATGATTT
1 TAATGATTT
107885 ACGACTTGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
13 10 0.19
14 29 0.54
16 4 0.07
17 1 0.02
18 9 0.17
19 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:107877 original size:49 final size:48
Alignment explanation
Indices: 107756--107879 Score: 132
Period size: 49 Copynumber: 2.6 Consensus size: 48
107746 TGATTTGATA
* *
107756 TTAATGATTTATTAATGAT--TAGTAATAATGAAATTATTACTAATTT
1 TTAATGATTTAGTAATGATGATAGTAATAATGAAATTATTACTAATAT
* *
107802 TTAATGATTTGATAGTAATGAT--TAGTAATAAT-AATTTATTATTAATAT
1 TTAATGA-TT--TAGTAATGATGATAGTAATAATGAAATTATTACTAATAT
107850 TTAATGATTTAGTAATGATTTGATAGTAAT
1 TTAATGATTTAGTAATGA--TGATAGTAAT
107880 GATTTACGAC
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
45 9 0.13
46 7 0.10
47 5 0.07
48 20 0.30
49 26 0.39
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (48 bp):
TTAATGATTTAGTAATGATGATAGTAATAATGAAATTATTACTAATAT
Found at i:110469 original size:22 final size:21
Alignment explanation
Indices: 110431--110471 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
110421 TTTATGTATA
*
110431 ATATAACTTAAACTAACAATC
1 ATATAACCTAAACTAACAATC
*
110452 ATATAACCCTAAATTAACAA
1 ATATAA-CCTAAACTAACAA
110472 ACTAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.27
Consensus pattern (21 bp):
ATATAACCTAAACTAACAATC
Found at i:110663 original size:26 final size:26
Alignment explanation
Indices: 110617--110674 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
110607 CCCTTTCTTT
*
110617 CTTTC-TCGGCTGCAATTTCTTCTCC
1 CTTTCTTCGGCTGCAATCTCTTCTCC
*
110642 CTTTCTTCTGCTGCAATCTCTTCTCC
1 CTTTCTTCGGCTGCAATCTCTTCTCC
110668 CTTTCTT
1 CTTTCTT
110675 TCTTTTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.07, C:0.36, G:0.09, T:0.48
Consensus pattern (26 bp):
CTTTCTTCGGCTGCAATCTCTTCTCC
Found at i:110752 original size:23 final size:23
Alignment explanation
Indices: 110725--110770 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
110715 TTAGGTGTCA
*
110725 CCGGCTGCTTCAATTATTTCACC
1 CCGGCTGCCTCAATTATTTCACC
110748 CCGGCTGCCTCAATTATTTCACC
1 CCGGCTGCCTCAATTATTTCACC
110771 AATAATTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.37, G:0.13, T:0.33
Consensus pattern (23 bp):
CCGGCTGCCTCAATTATTTCACC
Found at i:111006 original size:29 final size:29
Alignment explanation
Indices: 110930--111011 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
110920 CTTGGTCGTC
* ***
110930 GGGACTGCTTGGCGACCTACAAGGTCGCT
1 GGGAGTGCTTGGCGACCTTGTAGGTCGCT
*
110959 GGGAGTGCATGGCGACCTTGTAGGTCGCT
1 GGGAGTGCTTGGCGACCTTGTAGGTCGCT
110988 GGGAGTGCTTGGCGACCTTGTAGG
1 GGGAGTGCTTGGCGACCTTGTAGG
111012 GGTGTTGGGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.15, C:0.22, G:0.40, T:0.23
Consensus pattern (29 bp):
GGGAGTGCTTGGCGACCTTGTAGGTCGCT
Found at i:114578 original size:2 final size:2
Alignment explanation
Indices: 114573--114617 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
114563 GTGAGAGACC
114573 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
114615 TA T
1 TA T
114618 TACAAGTCTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:114698 original size:19 final size:19
Alignment explanation
Indices: 114674--114712 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
114664 AATCAAACAT
114674 TCCATCTTTTAATTTTAAG
1 TCCATCTTTTAATTTTAAG
114693 TCCATCTTTTAATTTTAAG
1 TCCATCTTTTAATTTTAAG
114712 T
1 T
114713 ATAACTCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.05, T:0.54
Consensus pattern (19 bp):
TCCATCTTTTAATTTTAAG
Found at i:117849 original size:20 final size:20
Alignment explanation
Indices: 117824--117875 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
117814 TGCTAATTAA
*
117824 TATAATTAAATTTTAAATGT
1 TATAATTAAATTTTAAATAT
* * *
117844 TATAATAAAATATTAATTAT
1 TATAATTAAATTTTAAATAT
*
117864 GATAATTAAATT
1 TATAATTAAATT
117876 AATAAATTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
TATAATTAAATTTTAAATAT
Found at i:118014 original size:29 final size:28
Alignment explanation
Indices: 117982--118079 Score: 67
Period size: 29 Copynumber: 3.4 Consensus size: 28
117972 TAATTAATTA
117982 AATTAATTATAATGATTACAAGTTAAAAT
1 AATTAATTATAAT-ATTACAAGTTAAAAT
* * *
118011 AATTTATT-TACAT-TCGACATGCTTAATAA-
1 AATTAATTATA-ATAT-TACAAG-TTAA-AAT
*
118040 AATTAATTATAATCATTAAAAGTTAAAAT
1 AATTAATTATAAT-ATTACAAGTTAAAAT
*
118069 AAGTTATTTAT
1 AA-TTAATTAT
118080 TGAACACGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
27 1 0.02
28 8 0.15
29 28 0.54
30 14 0.27
31 1 0.02
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (28 bp):
AATTAATTATAATATTACAAGTTAAAAT
Found at i:118100 original size:58 final size:57
Alignment explanation
Indices: 117958--118105 Score: 185
Period size: 58 Copynumber: 2.6 Consensus size: 57
117948 ATTAAGTAAT
* * * *
117958 TTATTTATTGAACATAATTAATT-AAATTAATTATAATGATTACAAGTTAAAATAAT
1 TTATTTATTGAACATGATTAATTAAAATTAATTATAATCATTAAAAGTTAAAATAAG
*
118014 TTATTTACATTCG-ACATGCTTAA-TAAAATTAATTATAATCATTAAAAGTTAAAATAAG
1 TTATTT--ATT-GAACATGATTAATTAAAATTAATTATAATCATTAAAAGTTAAAATAAG
*
118072 TTATTTATTGAACACGATTAATTAAAAATTAATT
1 TTATTTATTGAACATGATTAATT-AAAATTAATT
118106 TAAATGTATA
Statistics
Matches: 78, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
55 1 0.01
56 17 0.22
57 2 0.03
58 57 0.73
59 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (57 bp):
TTATTTATTGAACATGATTAATTAAAATTAATTATAATCATTAAAAGTTAAAATAAG
Found at i:119076 original size:17 final size:18
Alignment explanation
Indices: 119028--119077 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
119018 CCTACAAAAT
119028 TAAAATTAAAATCATTAA
1 TAAAATTAAAATCATTAA
119046 TAATCAATTCAAAAT-ATTAA
1 TAA--AATT-AAAATCATTAA
*
119066 TGAAATTAAAAT
1 TAAAATTAAAAT
119078 TAAAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.18
18 7 0.25
20 11 0.39
21 5 0.18
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (18 bp):
TAAAATTAAAATCATTAA
Found at i:121521 original size:55 final size:55
Alignment explanation
Indices: 121437--121575 Score: 152
Period size: 55 Copynumber: 2.5 Consensus size: 55
121427 TCTCGATTAG
* * * * *
121437 AGAAGATGAACAGAGACATAAGCATATGAAGTGTCTCGATTAGATATAGGGTTAA
1 AGAAGATGAACAGAGACAGAAGCAGATGAAGAGCCTCGATTAGATACAGGGTTAA
* * * * * * *
121492 AGAAGATGAACATAGGCAGAAGTAGATGAAGAGCCTTGGTTAGATACAGTGTTAG
1 AGAAGATGAACAGAGACAGAAGCAGATGAAGAGCCTCGATTAGATACAGGGTTAA
* *
121547 AGAAGATGAACAGAGACAAAAGAAGATGA
1 AGAAGATGAACAGAGACAGAAGCAGATGA
121576 TGATAAACAG
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 68 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (55 bp):
AGAAGATGAACAGAGACAGAAGCAGATGAAGAGCCTCGATTAGATACAGGGTTAA
Found at i:121985 original size:103 final size:99
Alignment explanation
Indices: 121754--121987 Score: 285
Period size: 99 Copynumber: 2.3 Consensus size: 99
121744 AAATAGGCTA
* * ***
121754 GGTTTTGGTTTTGGGTGTTTATAAGGATCAAACAAGGGTTTGAGGATGAATGTGGATGAAAAAGG
1 GGTTTTGGTTTTGGGTGTTTGTAAGGATCAAAAAAGGGTTTGAGGATGAACACGGATGAAAAAGG
* * *
121819 TTTAATTTGGGGTTTGATCTAAAGAAACATATTG
66 TTGAATTTGGGGTTTAATCTAAAGAAAAATATTG
**
121853 GGTTTTGGTTTTGGGTGTTTGTAAGGATCAAAAAAGGGTTTGAGGATGAACACGGATGAACATGG
1 GGTTTTGGTTTTGGGTGTTTGTAAGGATCAAAAAAGGGTTTGAGGATGAACACGGATGAA-AAAG
121918 GTTGAATTTGGGGTGTTTAAT-TGAAA-AAAAATATGTTG
65 GTTGAATTT-GGG-GTTTAATCT-AAAGAAAAATA--TTG
*
121956 GGTTTTAGGTTTT-GGTGTTTGTAAAGATCAAA
1 GGTTTT-GGTTTTGGGTGTTTGTAAGGATCAAA
121988 CGAGGGGTTT
Statistics
Matches: 117, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
99 55 0.47
100 10 0.09
101 10 0.09
102 9 0.08
103 27 0.23
104 6 0.05
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (99 bp):
GGTTTTGGTTTTGGGTGTTTGTAAGGATCAAAAAAGGGTTTGAGGATGAACACGGATGAAAAAGG
TTGAATTTGGGGTTTAATCTAAAGAAAAATATTG
Found at i:127427 original size:2 final size:2
Alignment explanation
Indices: 127415--127861 Score: 267
Period size: 2 Copynumber: 225.5 Consensus size: 2
127405 AACACAATTG
* * *
127415 TA TA GTA TA TA TA TA CA TA TA TA CTA TA TA AA TA -A TT TA TA T-
1 TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
127457 TA -A TA AA CTA TA TA -A CT- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
127498 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
127540 TA TA TA TA TA TA TA TA TA TA T- TA TA TA GTT TA GA CA TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
* * * * *
127583 TA GA TA TA AA CTA TA TA GTT TA CA TA TA -A TT TA TA TA GT- TA
1 TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
127624 TA TA TA GT- TCA TA TA TA CA T- TA TA CA -A TT TA TA TA TA TA TG
1 TA TA TA -TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** * *
127665 TA TA TA T- TA TA TA TA CG TA GT- TT TA TA CA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* *
127705 TA AA T- TA TA TA TA TA TA TA TA GT- TA TA GTT TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* * *
127746 GT- TGC TA TA TA GTT TA TA -A TA TA TA TA -A T- TCA CA TA CTA TA
1 -TA T-A TA TA TA -TA TA TA TA TA TA TA TA TA TA T-A TA TA -TA TA
* * * * * *
127787 TA GTT TA GA TA TA TA TA TA -A TA TA AA T- TG CA TA -A TA CA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127827 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
127862 TATGATTGTT
Statistics
Matches: 344, Mismatches: 57, Indels: 88
0.70 0.12 0.18
Matches are distributed among these distances:
1 24 0.07
2 298 0.87
3 22 0.06
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:127984 original size:16 final size:15
Alignment explanation
Indices: 127963--128011 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
127953 TTTTTTGTTA
127963 TTTAATTTATTTAAAT
1 TTTAATTTATTT-AAT
*
127979 TTTAATTCATTTAAT
1 TTTAATTTATTTAAT
127994 TTTATATTT-TTTCAAT
1 TTTA-ATTTATTT-AAT
128010 TT
1 TT
128012 AGTCCTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 10 0.34
16 19 0.66
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTAATTTATTTAAT
Found at i:137593 original size:31 final size:31
Alignment explanation
Indices: 137558--137656 Score: 189
Period size: 31 Copynumber: 3.2 Consensus size: 31
137548 TTGCCATACA
137558 GTCCCCCAATATTTAGTCTGTTTGCAATATG
1 GTCCCCCAATATTTAGTCTGTTTGCAATATG
137589 GTCCCCCAATATTTAGTCTGTTTGCAATATG
1 GTCCCCCAATATTTAGTCTGTTTGCAATATG
137620 GTCCCCCAATATTTAGTCTGTTTGCAATATG
1 GTCCCCCAATATTTAGTCTGTTTGCAATATG
*
137651 CTCCCC
1 GTCCCC
137657 GACGTAACCG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.37
Consensus pattern (31 bp):
GTCCCCCAATATTTAGTCTGTTTGCAATATG
Found at i:140158 original size:21 final size:21
Alignment explanation
Indices: 140116--140158 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
140106 TTTTCGGGCT
* * *
140116 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
140137 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
140158 A
1 A
140159 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:145066 original size:21 final size:21
Alignment explanation
Indices: 145024--145066 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
145014 TTTTCGGGTT
*
145024 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
145045 AGGGGAA-CTGATACCCCCTCA
1 AGGGGAATC-GATACCCACTCA
145066 A
1 A
145067 CGAATATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:145118 original size:20 final size:20
Alignment explanation
Indices: 145093--145130 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
145083 GAATGCTAGA
145093 GGGGAACCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
145113 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
145131 TGAGAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.37, G:0.32, T:0.08
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:145802 original size:149 final size:149
Alignment explanation
Indices: 145608--145911 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
145598 GGGTAGAGGG
* *
145608 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
145673 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
145738 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
145757 TCTACGTGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
145822 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
145887 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
145906 TCTACG
1 TCTACG
145912 GGGCACTTCG
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:145934 original size:23 final size:23
Alignment explanation
Indices: 145890--145934 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
145880 ATCATTATAT
*
145890 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
145913 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
145935 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:148467 original size:64 final size:62
Alignment explanation
Indices: 148392--148510 Score: 157
Period size: 64 Copynumber: 1.9 Consensus size: 62
148382 ATTGTTTAAG
* * * **
148392 GTGTATCGATGCACATGAAGTGCATCGATGCACTCTTTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCGATGCAAAAGAAGTACATCGATGCAC-CCCTT-AAATAAAAACATCGAATGCCATCA
* *
148456 GTGTATCGATGCAAAAGTAGTACATCGATGCACCCCTTAAATATAAACATCGAAT
1 GTGTATCGATGCAAAAGAAGTACATCGATGCACCCCTTAAATAAAAACATCGAAT
148511 AGGATTTATG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
62 16 0.33
63 3 0.06
64 29 0.60
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (62 bp):
GTGTATCGATGCAAAAGAAGTACATCGATGCACCCCTTAAATAAAAACATCGAATGCCATCA
Found at i:149248 original size:23 final size:21
Alignment explanation
Indices: 149194--149256 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 21
149184 GATAATCTTA
*
149194 TATGGCACTACGGTGCAATTC
1 TATGGCACTTCGGTGCAATTC
*
149215 TATGCGACACTTCGGTGTAATTC
1 TATG-G-CACTTCGGTGCAATTC
149238 TACATGGCACTTCGGTGCA
1 T--ATGGCACTTCGGTGCA
149257 TTTATACGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 4 0.11
22 1 0.03
23 26 0.74
24 1 0.03
25 3 0.09
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (21 bp):
TATGGCACTTCGGTGCAATTC
Found at i:153191 original size:16 final size:16
Alignment explanation
Indices: 153160--153193 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
153150 ATATGTTTGA
*
153160 AAAGAATAAAGCAAGT
1 AAAGAATAAAGAAAGT
*
153176 AAAGAATAAGGAAAGT
1 AAAGAATAAAGAAAGT
153192 AA
1 AA
153194 GGATTTTGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.21, T:0.12
Consensus pattern (16 bp):
AAAGAATAAAGAAAGT
Found at i:156198 original size:23 final size:22
Alignment explanation
Indices: 156164--156222 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
156154 AATCTTATAT
*
156164 GGCACTATGGTGTAATTCTACGC
1 GGCACT-TGGTGCAATTCTACGC
156187 GGCACTTCGGTGCAATTCTACGC
1 GGCACTT-GGTGCAATTCTACGC
156210 GGCACTTGGTGCA
1 GGCACTTGGTGCA
156223 TTTATATGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 7 0.21
23 27 0.79
ACGTcount: A:0.19, C:0.25, G:0.29, T:0.27
Consensus pattern (22 bp):
GGCACTTGGTGCAATTCTACGC
Found at i:157400 original size:16 final size:15
Alignment explanation
Indices: 157380--157424 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
157370 TATCTTCAAA
157380 CTCTTCTCCCTTCTT
1 CTCTTCTCCCTTCTT
*
157395 CATCTTCTTCTCTTCTT
1 C-TCTTC-TCCCTTCTT
157412 CTCTTCCTCCCTT
1 CTCTT-CTCCCTT
157425 ATCTCCAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 1 0.04
16 14 0.56
17 10 0.40
ACGTcount: A:0.02, C:0.44, G:0.00, T:0.53
Consensus pattern (15 bp):
CTCTTCTCCCTTCTT
Found at i:157410 original size:8 final size:8
Alignment explanation
Indices: 157380--157417 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
157370 TATCTTCAAA
157380 CTCTTC-T
1 CTCTTCTT
*
157387 CCCTTCTT
1 CTCTTCTT
157395 CATCTTCTT
1 C-TCTTCTT
157404 CTCTTCTT
1 CTCTTCTT
157412 CTCTTC
1 CTCTTC
157418 CTCCCTTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 5 0.19
8 15 0.56
9 7 0.26
ACGTcount: A:0.03, C:0.42, G:0.00, T:0.55
Consensus pattern (8 bp):
CTCTTCTT
Found at i:160544 original size:59 final size:58
Alignment explanation
Indices: 160445--160565 Score: 152
Period size: 59 Copynumber: 2.1 Consensus size: 58
160435 CAGCAGGCTG
** * *
160445 CATATTTGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACAACCTTGTGTGT
1 CATATTTGGGAATACACTAAAGGATACCTAGTACAGATGGT-GGCACAACCTTATGTGT
* ** * *
160504 CATATTTGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGCACGACCTTATGTGT
1 CATATTTGGGAATACACTAAAGGATACCTAGTACAGATGGTGGCACAACCTTATGTGT
160562 CATA
1 CATA
160566 CTCGAGATTG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
58 19 0.36
59 34 0.64
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (58 bp):
CATATTTGGGAATACACTAAAGGATACCTAGTACAGATGGTGGCACAACCTTATGTGT
Found at i:160671 original size:20 final size:20
Alignment explanation
Indices: 160631--160672 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
160621 TGTATATTGG
* *
160631 GGCTATTGTCTATTGTTTAT
1 GGCTATTGTCTATGGTATAT
160651 GGCTATTGTCTATGGTATAT
1 GGCTATTGTCTATGGTATAT
160671 GG
1 GG
160673 TTATGGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.26, T:0.48
Consensus pattern (20 bp):
GGCTATTGTCTATGGTATAT
Found at i:160722 original size:44 final size:44
Alignment explanation
Indices: 160673--160906 Score: 363
Period size: 42 Copynumber: 5.4 Consensus size: 44
160663 TGGTATATGG
* *
160673 TTATGGA-ATAATGGCAAGTTTATTGGTAAAATAAGCTTACGAGC
1 TTATGGATA-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
160717 TTATGGATAAATGGTAAG--TATTGGTAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
160759 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTAC-A-A
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
160801 TTATGGATAAATGGTAAGTATAATGGT-AAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
160844 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
160888 TTATGGTATTAAATGGTAA
1 TTATGG-A-TAAATGGTAA
160907 ATATTGAACA
Statistics
Matches: 177, Mismatches: 5, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
41 12 0.07
42 69 0.39
43 27 0.15
44 57 0.32
45 2 0.01
46 10 0.06
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.32
Consensus pattern (44 bp):
TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:160858 original size:85 final size:86
Alignment explanation
Indices: 160673--160912 Score: 371
Period size: 85 Copynumber: 2.8 Consensus size: 86
160663 TGGTATATGG
* *
160673 TTATGGA-ATAATGGCAAGTTTATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTA
1 TTATGGATA-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTA
160737 TTGGTAAAATAAGCTTACGAGC
65 TTGGTAAAATAAGCTTACGAGC
*
160759 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTAC-A-ATTATGGATAAATGGTAAGTAT
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTAT
160822 AATGGT-AAATAAGCTTACGAGC
66 --TGGTAAAATAAGCTTACGAGC
*
160844 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGTATTAAATGGTAAAT
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG-A-TAAATGGTAAGT
160909 ATTG
64 ATTG
160913 AACATATATG
Statistics
Matches: 142, Mismatches: 5, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
84 21 0.15
85 57 0.40
86 41 0.29
87 9 0.06
88 1 0.01
89 13 0.09
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (86 bp):
TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATAAATGGTAAGTAT
TGGTAAAATAAGCTTACGAGC
Found at i:162748 original size:22 final size:22
Alignment explanation
Indices: 162706--162754 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
162696 AGCAGTACTG
*
162706 TAGCAGGGGAATCGGTACCCTA
1 TAGCAGGGGAATCGATACCCTA
*
162728 TAGCAGGGGAATCGATTCCCTA
1 TAGCAGGGGAATCGATACCCTA
*
162750 AAGCA
1 TAGCA
162755 ATCTGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.18
Consensus pattern (22 bp):
TAGCAGGGGAATCGATACCCTA
Found at i:163678 original size:32 final size:32
Alignment explanation
Indices: 163617--163701 Score: 120
Period size: 32 Copynumber: 2.7 Consensus size: 32
163607 AAAAATCGGT
* *
163617 TTTTGAAAGTAT-TATATA-ATTTTGAAAACA
1 TTTTGAAAATATATATATATAATTTGAAAACA
*
163647 TTTTGAAATTATATATATATAATTTGAAAACA
1 TTTTGAAAATATATATATATAATTTGAAAACA
*
163679 TTTTGAAAACATATATATATAAT
1 TTTTGAAAATATATATATATAAT
163702 ATATAGTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.22
31 6 0.12
32 32 0.65
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.44
Consensus pattern (32 bp):
TTTTGAAAATATATATATATAATTTGAAAACA
Found at i:163727 original size:25 final size:25
Alignment explanation
Indices: 163693--163875 Score: 197
Period size: 25 Copynumber: 7.6 Consensus size: 25
163683 GAAAACATAT
163693 ATATATAATATATAGTTTTGAAAAC
1 ATATATAATATATAGTTTTGAAAAC
163718 ATATATAATATATAGTTTTG-AAAC
1 ATATATAATATATAGTTTTGAAAAC
163742 ATATATAATATATAGTTTTGAAAAC
1 ATATATAATATATAGTTTTGAAAAC
163767 ATATATAATATATAGTTTT-AAAA-
1 ATATATAATATATAGTTTTGAAAAC
* * * *
163790 ATATTTTGAAAACATTGTTTTGAAAAC
1 ATA-TAT-AATATATAGTTTTGAAAAC
*
163817 ----ATAA-A-ACA-TTTTGAAAAC
1 ATATATAATATATAGTTTTGAAAAC
163835 ATATATAAATATATAGTTTTTGAAAAC
1 ATATAT-AATATATAG-TTTTGAAAAC
* *
163862 ATTTAAAATATATA
1 ATATATAATATATA
163876 TATATATATC
Statistics
Matches: 134, Mismatches: 10, Indels: 27
0.78 0.06 0.16
Matches are distributed among these distances:
18 10 0.07
19 1 0.01
20 1 0.01
21 2 0.01
22 3 0.02
23 5 0.04
24 31 0.23
25 55 0.41
26 12 0.09
27 14 0.10
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (25 bp):
ATATATAATATATAGTTTTGAAAAC
Found at i:163756 original size:49 final size:50
Alignment explanation
Indices: 163691--163875 Score: 192
Period size: 49 Copynumber: 3.8 Consensus size: 50
163681 TTGAAAACAT
163691 ATATATATAATATATAGTTTTGAAAACATATATAATATATAGTTTTGAAAC
1 ATATATA-AATATATAGTTTTGAAAACATATATAATATATAGTTTTGAAAC
*
163742 ATATAT-AATATATAGTTTTGAAAACATATATAATATATAGTTTT-AAAA
1 ATATATAAATATATAGTTTTGAAAACATATATAATATATAGTTTTGAAAC
* * * *
163790 ATATTTTGAAA-ACATTGTTTTGAAAAC----ATAA-A-ACA-TTTTGAAAAC
1 ATA-TAT-AAATATATAGTTTTGAAAACATATATAATATATAGTTTTG-AAAC
* *
163835 ATATATAAATATATAGTTTTTGAAAACATTTAAAATATATA
1 ATATATAAATATATAG-TTTTGAAAACATATATAATATATA
163876 TATATATATC
Statistics
Matches: 110, Mismatches: 11, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
43 7 0.06
44 8 0.07
45 17 0.15
46 4 0.04
48 6 0.05
49 43 0.39
50 15 0.14
51 10 0.09
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (50 bp):
ATATATAAATATATAGTTTTGAAAACATATATAATATATAGTTTTGAAAC
Found at i:163870 original size:26 final size:27
Alignment explanation
Indices: 163825--163875 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
163815 ACATAAAACA
163825 TTTTGAAAACATATATAAATATATAGT
1 TTTTGAAAACATATATAAATATATAGT
*
163852 TTTTGAAAACATTTA-AAATATATA
1 TTTTGAAAACATATATAAATATATA
163876 TATATATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (27 bp):
TTTTGAAAACATATATAAATATATAGT
Done.