Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 114 of 290
Found at i:38785970 original size:122 final size:122
Alignment explanation
Indices: 38785746--38785989 Score: 416
Period size: 122 Copynumber: 2.0 Consensus size: 122
38785736 GCATATTGGA
* *
38785746 GCAAAAATTATCAATCAAACAACCTTTGTACTCAATACTTCCATACTTCTCTTGTACACACTTAT
1 GCAAAAATTATCAATCAAACAACCTTTGTACTCAATACTTCCACAATTCTCTTGTACACACTTAT
* * *
38785811 GAGCTCTTATCGTCTTTCTTTTGCTTAAGTGTGTTCTTGTCTATTTGTGCTTAATTG
66 GAGCTCTTATCGTCTTTCTTTTGCTCAAGTGTATTCTTGTCTACTTGTGCTTAATTG
*
38785868 GCAAAAATTATCAATCAAACAACCTTTGTACTCAATACTTCCACAATTCTCTTGTACACACTTGT
1 GCAAAAATTATCAATCAAACAACCTTTGTACTCAATACTTCCACAATTCTCTTGTACACACTTAT
* *
38785933 GAGCTCTTATTGTCTTTCTTTTGCTCAAGTTTATTCTTGTCTACTTGTGCTTAATTG
66 GAGCTCTTATCGTCTTTCTTTTGCTCAAGTGTATTCTTGTCTACTTGTGCTTAATTG
38785990 ACAGACATTT
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
122 114 1.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (122 bp):
GCAAAAATTATCAATCAAACAACCTTTGTACTCAATACTTCCACAATTCTCTTGTACACACTTAT
GAGCTCTTATCGTCTTTCTTTTGCTCAAGTGTATTCTTGTCTACTTGTGCTTAATTG
Found at i:38787759 original size:26 final size:26
Alignment explanation
Indices: 38787730--38787837 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
38787720 TGGTACAAAT
*
38787730 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
38787756 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38787782 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38787808 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38787834 TGAT
1 TGAT
38787838 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38794858 original size:26 final size:26
Alignment explanation
Indices: 38794829--38794936 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
38794819 TGGTACAAAT
* *
38794829 TGATAATGGGTTTGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
38794855 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38794881 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38794907 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38794933 TGAT
1 TGAT
38794937 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38803698 original size:18 final size:18
Alignment explanation
Indices: 38803663--38803699 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38803653 TTCTTGGTTC
**
38803663 TCTTTTCTTTTTTTTTTT
1 TCTTTTCTTTTTACTTTT
38803681 TCTTTTCTTTTTACTTTT
1 TCTTTTCTTTTTACTTTT
38803699 T
1 T
38803700 ACTGTATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.84
Consensus pattern (18 bp):
TCTTTTCTTTTTACTTTT
Found at i:38806458 original size:51 final size:51
Alignment explanation
Indices: 38806393--38806569 Score: 240
Period size: 51 Copynumber: 3.6 Consensus size: 51
38806383 CAACTCCTGT
* * *
38806393 TTACAAGTATAAGTCTCCACCACCTCCACCACCATCACCACCCAAGCATCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
* * *
38806444 TTACAAGTACAAGTCCCCACCACCACCACCACCATCACCACCTAAACACCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
*
38806495 CTACAAGTACAAG--TCC-CCA-C-CC-CCACCATCACCACCCAAGCACCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
*
38806540 TTACAAGTACAAGTCTCCACCCCCACCACC
1 TTACAAGTACAAGTCTCCACCACCACCACC
38806570 TCCAGTTTAC
Statistics
Matches: 108, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
45 33 0.31
46 2 0.02
47 4 0.04
48 5 0.05
49 3 0.03
50 2 0.02
51 59 0.55
ACGTcount: A:0.32, C:0.49, G:0.06, T:0.14
Consensus pattern (51 bp):
TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
Found at i:38806500 original size:45 final size:44
Alignment explanation
Indices: 38806466--38806567 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 44
38806456 GTCCCCACCA
*
38806466 CCACCACCACCATCACCACCTAAACACCCCTACAAGTACAAGTCC
1 CCACCACCACCATCACCACCCAAACACCCCTACAAGTACAAG-CC
* * * *
38806511 CCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCT
1 CCACCACCACCATCACCACCCAAACACCCCTACAAGTACAAG-CC
*
38806556 CCACCCCCACCA
1 CCACCACCACCA
38806568 CCTCCAGTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.32, C:0.52, G:0.05, T:0.11
Consensus pattern (44 bp):
CCACCACCACCATCACCACCCAAACACCCCTACAAGTACAAGCC
Found at i:38806580 original size:36 final size:36
Alignment explanation
Indices: 38806540--38806608 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
38806530 CCAAGCACCC
*
38806540 TTACAAGTACAAGTCTCCACCCCCACCACCTCCAGT
1 TTACAAGTACAAGTCTCCACCACCACCACCTCCAGT
* *
38806576 TTACAAGTATAAGTCTCCACCACCTCCACCTCC
1 TTACAAGTACAAGTCTCCACCACCACCACCTCC
38806609 GTCACCACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.28, C:0.43, G:0.07, T:0.22
Consensus pattern (36 bp):
TTACAAGTACAAGTCTCCACCACCACCACCTCCAGT
Found at i:38806627 original size:87 final size:87
Alignment explanation
Indices: 38806523--38806734 Score: 415
Period size: 87 Copynumber: 2.4 Consensus size: 87
38806513 ACCCCCACCA
38806523 TCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCACCTCCAGTTTACAAGTATAA
1 TCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCACCTCCAGTTTACAAGTATAA
38806588 GTCTCCACCACCTCCACCTCCG
66 GTCTCCACCACCTCCACCTCCG
38806610 TCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCACCTCCAGTTTACAAGTATAA
1 TCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCACCTCCAGTTTACAAGTATAA
38806675 GTCTCCACCACCTCCACCTCCG
66 GTCTCCACCACCTCCACCTCCG
*
38806697 TCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACC
1 TCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACC
38806735 ACCTCAACCA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 124 1.00
ACGTcount: A:0.28, C:0.46, G:0.08, T:0.17
Consensus pattern (87 bp):
TCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCACCTCCAGTTTACAAGTATAA
GTCTCCACCACCTCCACCTCCG
Found at i:38806667 original size:36 final size:36
Alignment explanation
Indices: 38806627--38806695 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
38806617 CCAAGCACCC
*
38806627 TTACAAGTACAAGTCTCCACCCCCACCACCTCCAGT
1 TTACAAGTACAAGTCTCCACCACCACCACCTCCAGT
* *
38806663 TTACAAGTATAAGTCTCCACCACCTCCACCTCC
1 TTACAAGTACAAGTCTCCACCACCACCACCTCC
38806696 GTCACCACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.28, C:0.43, G:0.07, T:0.22
Consensus pattern (36 bp):
TTACAAGTACAAGTCTCCACCACCACCACCTCCAGT
Found at i:38806704 original size:51 final size:49
Alignment explanation
Indices: 38806663--38806788 Score: 117
Period size: 51 Copynumber: 2.5 Consensus size: 49
38806653 CACCTCCAGT
* * * * * *
38806663 TTACAAGTATAAGTCTCCACCACCTCCACCTCCGTCACCACCCAAGCACCC
1 TTACAAGTACAAGTCCCCACCACCTCAACCACCATCACCA-CC-ACCACCC
* *
38806714 TTACAAGTACAAGTCCCCACCACCTCAACCACCATCACCACCAAAGCATCC
1 TTACAAGTACAAGTCCCCACCACCTCAACCACCATCACCACC--ACCACCC
* * *
38806765 TTATAAGTACAGGTCTCCACCACC
1 TTACAAGTACAAGTCCCCACCACC
38806789 ACCACNNNNN
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
50 2 0.03
51 63 0.97
ACGTcount: A:0.31, C:0.44, G:0.08, T:0.17
Consensus pattern (49 bp):
TTACAAGTACAAGTCCCCACCACCTCAACCACCATCACCACCACCACCC
Found at i:38810885 original size:27 final size:27
Alignment explanation
Indices: 38810826--38810888 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
38810816 AAATATTTAT
* * *
38810826 AAATTTTAATATATATATTTATTATTA
1 AAATATTAATATAAATATTTATTAATA
38810853 AAATATTAATATAAATATTT-TTCAATA
1 AAATATTAATATAAATATTTATT-AATA
*
38810880 ATATATTAA
1 AAATATTAA
38810889 AAATATGATC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
AAATATTAATATAAATATTTATTAATA
Found at i:38816173 original size:19 final size:19
Alignment explanation
Indices: 38816130--38816174 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
38816120 ATAAACAAGC
*
38816130 ATAAAATAACATAAAATCA
1 ATAAAATAACATAAAATAA
*
38816149 ATAATAT-ACATAAAA-AA
1 ATAAAATAACATAAAATAA
38816166 ATAAAATAA
1 ATAAAATAA
38816175 AAGGAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 7 0.32
18 9 0.41
19 6 0.27
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAAAATAACATAAAATAA
Found at i:38817998 original size:31 final size:32
Alignment explanation
Indices: 38817963--38818027 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 32
38817953 TTATTAAAAG
* * *
38817963 ATATAATAATAAATAATATTTAAA-TAATTTA
1 ATATAATAATAAATAAAATATAAATTAATCTA
* *
38817994 ATATAATGATATATAAAATATAAATTAATCTA
1 ATATAATAATAAATAAAATATAAATTAATCTA
38818026 AT
1 AT
38818028 TTTTATATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (32 bp):
ATATAATAATAAATAAAATATAAATTAATCTA
Found at i:38819583 original size:11 final size:11
Alignment explanation
Indices: 38819567--38819591 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38819557 AGTGAGTTAG
38819567 TATTTTATGTT
1 TATTTTATGTT
38819578 TATTTTATGTT
1 TATTTTATGTT
38819589 TAT
1 TAT
38819592 AGAGTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (11 bp):
TATTTTATGTT
Found at i:38820945 original size:20 final size:20
Alignment explanation
Indices: 38820867--38820954 Score: 61
Period size: 20 Copynumber: 4.3 Consensus size: 20
38820857 GCTTGTACGG
* *
38820867 GTTTGCACTTTGGTGCATTT
1 GTTTGCACTTTGGTGCCTCT
*** *
38820887 GTTTGCACTTCAATGCCTTT
1 GTTTGCACTTTGGTGCCTCT
* ** *
38820907 GATTGCA-TATTCCTTCCTCT
1 GTTTGCACT-TTGGTGCCTCT
38820927 GTTTGCACTTTGGTGCCTCT
1 GTTTGCACTTTGGTGCCTCT
38820947 GTTATGCA
1 GTT-TGCA
38820955 TCATTGAGTA
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.88
21 5 0.10
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45
Consensus pattern (20 bp):
GTTTGCACTTTGGTGCCTCT
Found at i:38823416 original size:38 final size:38
Alignment explanation
Indices: 38823365--38823441 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
38823355 TAATTTTGAC
*
38823365 ATTCTTCTCATCACGGTGACTTTTGTTTTTGAAAACTT
1 ATTCTTCTCATCACAGTGACTTTTGTTTTTGAAAACTT
*
38823403 ATTCTTCTCATCACAGTGACTTTTTTTTTTGAAAACTT
1 ATTCTTCTCATCACAGTGACTTTTGTTTTTGAAAACTT
38823441 A
1 A
38823442 GTTAATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.48
Consensus pattern (38 bp):
ATTCTTCTCATCACAGTGACTTTTGTTTTTGAAAACTT
Found at i:38828551 original size:17 final size:18
Alignment explanation
Indices: 38828518--38828551 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38828508 TTTTCCTCAT
38828518 TTTAATTTCGACAATTTA
1 TTTAATTTCGACAATTTA
38828536 TTTAATTTCG-CAATTT
1 TTTAATTTCGACAATTT
38828552 CAATTCCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTAATTTCGACAATTTA
Found at i:38837683 original size:17 final size:17
Alignment explanation
Indices: 38837662--38837701 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
38837652 GGGAATCTCT
*
38837662 ATTTGGCGAACTCCAGG
1 ATTTGGCGAACTCAAGG
* *
38837679 TTTTGGTGAACTCAAGG
1 ATTTGGCGAACTCAAGG
38837696 ATTTGG
1 ATTTGG
38837702 AGGGCTTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (17 bp):
ATTTGGCGAACTCAAGG
Found at i:38842886 original size:12 final size:13
Alignment explanation
Indices: 38842869--38842906 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
38842859 ATCCTGGAAT
38842869 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
38842881 ATTAAGAACACATA
1 ATTAAGAACA-AGA
38842895 ATTAAGAACAAG
1 ATTAAGAACAAG
38842907 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:38854580 original size:21 final size:21
Alignment explanation
Indices: 38854556--38854597 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
38854546 TATATAACAA
*
38854556 AATGGTAACAGACTAATAGAG
1 AATGGTAACAGACTAACAGAG
38854577 AATGGTAACAGACTAACAGAG
1 AATGGTAACAGACTAACAGAG
38854598 TCTATACTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.17
Consensus pattern (21 bp):
AATGGTAACAGACTAACAGAG
Found at i:38855733 original size:19 final size:18
Alignment explanation
Indices: 38855702--38855740 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
38855692 TTTGAAACAA
38855702 TTTTTTTTATTAAGAATT
1 TTTTTTTTATTAAGAATT
* *
38855720 TTTTTTATTTTTAATAATT
1 TTTTTT-TTATTAAGAATT
38855739 TT
1 TT
38855741 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTTTTATTAAGAATT
Found at i:38857783 original size:48 final size:48
Alignment explanation
Indices: 38857745--38858314 Score: 574
Period size: 51 Copynumber: 11.6 Consensus size: 48
38857735 CAGCTCCTGT
* * *
38857745 TTACAAGTATAAGTCCCCACCACCTCCTCCATCACCACCCAAGCATCC
1 TTACAAGTACAAGTCCCCACCACCACCACCATCACCACCCAAGCATCC
*
38857793 TTACAAGTACAAGTCTCCTCCACCTCCACCACCATCACCACCCAAGCATCC
1 TTACAAGTACAAG--TCC-CCACCACCACCACCATCACCACCCAAGCATCC
* *
38857844 TTACAAGTACAAGTCCCCACCACCACCACCACCATCACCACCCAAACACCC
1 TTACAAGTACAAGT--CC-CCACCACCACCACCATCACCACCCAAGCATCC
* * *
38857895 CTACAAGTACAAGTCCCCACCCCCACCCCCACCATCACCACCCAAGCACCC
1 TTACAAGTACAAGTCCCCA---CCACCACCACCATCACCACCCAAGCATCC
* *
38857946 TTACAAGTACAAGTCTCCA-C-CC-CCACCAT---C-TCC-AG--T--
1 TTACAAGTACAAGTCCCCACCACCACCACCATCACCACCCAAGCATCC
* * * *
38857982 TTACAAGTATAAGTCTCCACCACCTCCACCGCCATCACCACCCAAGCACCC
1 TTACAAGTACAAG--TCC-CCACCACCACCACCATCACCACCCAAGCATCC
*
38858033 TTACAAGTACAAGTCCCCACCACCTCCACCACCATCACCACCCAAGCACCC
1 TTACAAGTACAAGTCCCCACCA---CCACCACCATCACCACCCAAGCATCC
*
38858084 TTACAAGTACAAGTCCCCACCTCCACCACCATCACC-CCCAAAGCATCC
1 TTACAAGTACAAGTCCCCACCACCACCACCATCACCACCC-AAGCATCC
* * * *
38858132 TTATAAGTACAAGTCTCCACCACCACCACCATCACCTCCAAAGCATCC
1 TTACAAGTACAAGTCCCCACCACCACCACCATCACCACCCAAGCATCC
38858180 TTACAAGTACAAGTCTCCACCACCACCACCACCACCATCACCACCCAAGCATCC
1 TTACAAGTACAAG--T---CC-CCACCACCACCACCATCACCACCCAAGCATCC
* * *
38858234 CTACAAGTACAAGTCTCCC-CCACCACCACCTCTATCCCCACCCAAGCACCC
1 TTACAAGTACAAGTC-CCCACCACCACCA-C-C-ATCACCACCCAAGCATCC
* *
38858285 TTACAAGTACAAGTCTCCACCCCCACCACC
1 TTACAAGTACAAGTCCCCACCACCACCACC
38858315 TCCGGTTTAC
Statistics
Matches: 444, Mismatches: 39, Indels: 77
0.79 0.07 0.14
Matches are distributed among these distances:
36 12 0.03
38 2 0.00
39 3 0.01
40 3 0.01
41 4 0.01
42 7 0.02
45 8 0.02
46 4 0.01
47 6 0.01
48 103 0.23
49 13 0.03
50 9 0.02
51 226 0.51
52 1 0.00
53 1 0.00
54 42 0.09
ACGTcount: A:0.31, C:0.48, G:0.06, T:0.15
Consensus pattern (48 bp):
TTACAAGTACAAGTCCCCACCACCACCACCATCACCACCCAAGCATCC
Found at i:38857987 original size:138 final size:142
Alignment explanation
Indices: 38857745--38858261 Score: 565
Period size: 138 Copynumber: 3.6 Consensus size: 142
38857735 CAGCTCCTGT
* * * *
38857745 TTACAAGTATAAGT--CC-CCACCACCTCCTCCATCACCACCCAAGCATCCTTACAAGTACAAGT
1 TTACAAGTACAAGTCCCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAG-
38857807 CTCCTCCACCTCCACCACCATCACCACCCAAGCATCCTTACAAGTACAAGTCCCCACCACCACCA
65 -T-CTCCA-C-CCACCACCAT--CC-CCCAAG-AT-CTTACAAGTACAAGT-CCCACCACCACCA
38857872 CCACCATCACCACCCAAACACCC
120 CCACCATCACCACCCAAACACCC
* * *
38857895 CTACAAGTACAAGTCCCCACCCCCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
1 TTACAAGTACAAGTCCCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
* * * *
38857960 CTCCACCC-CCACCAT-CTCC-AG-T-TTACAAGTATAAGTCTCCACCACCTCCACCGCCATCAC
66 CTCCACCCACCACCATCCCCCAAGATCTTACAAGTACAAGTC-CCACCACCACCACCACCATCAC
*
38858020 CACCCAAGCACCC
130 CACCCAAACACCC
*
38858033 TTACAAGTACAAGTCCCCACCACCTCCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
1 TTACAAGTACAAGTCCCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
* * *
38858098 CCCCACCTCCACCACCATCACCCCCAAAGCATCCTTATAAGTACAAGT--CTCCACCACCACCAC
66 CTCCA-C-CCACCACCAT--CCCCC-AAG-AT-CTTACAAGTACAAGTCCCACCACCACCACCAC
* *
38858161 CATCACC-TCCAAAGCATCC
124 CATCACCACCCAAA-CACCC
38858180 TTACAAGTACAAGTCTCCACCACCACCACCACCACCATCACCACCCAAGCATCCC-TACAAGTAC
1 TTACAAGTACAAG--TCC-CCACCACCACCACCACCATCACCACCCAAGCA-CCCTTACAAGTAC
38858244 AAGTCTCC-CCCACCACCA
62 AAGTCTCCACCCACCACCA
38858262 CCTCTATCCC
Statistics
Matches: 319, Mismatches: 27, Indels: 45
0.82 0.07 0.12
Matches are distributed among these distances:
137 1 0.00
138 110 0.34
139 1 0.00
140 3 0.01
141 7 0.02
142 2 0.01
143 2 0.01
144 4 0.01
146 6 0.02
147 52 0.16
148 4 0.01
149 4 0.01
150 76 0.24
151 4 0.01
152 2 0.01
153 41 0.13
ACGTcount: A:0.31, C:0.48, G:0.06, T:0.15
Consensus pattern (142 bp):
TTACAAGTACAAGTCCCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
CTCCACCCACCACCATCCCCCAAGATCTTACAAGTACAAGTCCCACCACCACCACCACCATCACC
ACCCAAACACCC
Found at i:38857989 original size:189 final size:195
Alignment explanation
Indices: 38857745--38858311 Score: 724
Period size: 189 Copynumber: 2.9 Consensus size: 195
38857735 CAGCTCCTGT
* * * * *
38857745 TTACAAGTATAAGTCCCCACCACCTCCTCCATCACCACCCAAGCATCCTTACAAGTACAAGTCTC
1 TTACAAGTACAAGTCTCCACCACCACCACCAT--CC-TCCAAG-AT-CTTACAAGTACAAGTCTC
*
38857810 CTCCACCTCCACCACCATCACCACCCAAGCATCCTTACAAGTACAAGTCCCCACCACCACCACCA
61 CACCACCTCCACCACCATCACCACCCAAGCATCCTTACAAGTACAAGTCCCCACCACCACCACCA
* *
38857875 CCATCACCACCCAAACACCCCTACAAGTACAAGTCCCCACCCCCACCCCCACCATCACCACCC-A
126 CCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCCCCA-CCCCACCATCACC-CCCAA
38857939 AGCACCC
189 AGCACCC
*
38857946 TTACAAGTACAAGTCTCCA-C-CC-CCACCAT-CTCC-AG-T-TTACAAGTATAAGTCTCCACCA
1 TTACAAGTACAAGTCTCCACCACCACCACCATCCTCCAAGATCTTACAAGTACAAGTCTCCACCA
* * *
38858004 CCTCCACCGCCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCACCTCCACCACCATC
66 CCTCCACCACCATCACCACCCAAGCATCCTTACAAGTACAAGTCCCCACCACCACCACCACCATC
* *
38858069 ACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCTCCA--CCACCATCACCCCCAAAGCATCC
131 ACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCCCCACCCCACCATCACCCCCAAAGCACCC
*
38858132 TTATAAGTACAAGTCTCCACCACCACCACCATCACCTCCAAAGCATCCTTACAAGTACAAGTCTC
1 TTACAAGTACAAGTCTCCACCACCACCACCAT--CCTCC-AAG-AT-CTTACAAGTACAAGTCT-
* *
38858197 CACCACCACCACCACCACCATCACCACCCAAGCATCCCTACAAGTACAAGTCTCCC-CCACCACC
60 --CCACCACCTCCACCACCATCACCACCCAAGCATCCTTACAAGTACAAGTC-CCCACCACCACC
* * * *
38858261 ACCTCTATCCCCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACC
122 ACCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCCCCACC
38858312 ACCTCCGGTT
Statistics
Matches: 322, Mismatches: 25, Indels: 36
0.84 0.07 0.09
Matches are distributed among these distances:
185 3 0.01
186 36 0.11
187 1 0.00
188 2 0.01
189 126 0.39
191 1 0.00
192 4 0.01
193 2 0.01
194 4 0.01
195 1 0.00
196 1 0.00
198 21 0.07
199 2 0.01
200 1 0.00
201 114 0.35
202 3 0.01
ACGTcount: A:0.31, C:0.48, G:0.06, T:0.15
Consensus pattern (195 bp):
TTACAAGTACAAGTCTCCACCACCACCACCATCCTCCAAGATCTTACAAGTACAAGTCTCCACCA
CCTCCACCACCATCACCACCCAAGCATCCTTACAAGTACAAGTCCCCACCACCACCACCACCATC
ACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCCCCACCCCACCATCACCCCCAAAGCACCC
Found at i:38858326 original size:30 final size:32
Alignment explanation
Indices: 38858292--38858377 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 32
38858282 CCCTTACAAG
*
38858292 TACAAGTCTCCACCCCCACCACCTCC-G-GTT
1 TACAAGTCTCCACCTCCACCACCTCCTGCGTT
* * *
38858322 TACAAGTAT-AAGTCTCCACCACCTCCTGCCGTT
1 TACAAGTCTCCA-CCTCCACCACCTCCTG-CGTT
*
38858355 TACAAGTCTCCTCCTCCACCACC
1 TACAAGTCTCCACCTCCACCACC
38858378 ACCCCATTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
29 1 0.02
30 20 0.47
31 1 0.02
33 21 0.49
ACGTcount: A:0.22, C:0.45, G:0.09, T:0.23
Consensus pattern (32 bp):
TACAAGTCTCCACCTCCACCACCTCCTGCGTT
Found at i:38858338 original size:189 final size:187
Alignment explanation
Indices: 38857680--38858344 Score: 655
Period size: 189 Copynumber: 3.5 Consensus size: 187
38857670 GGTCTACTCT
* * * * * * * *
38857680 CCACCACCACCACCACCACACAAGAAGCCTTACAAGTACAAATCTCCTCCCCCA-CCAGCTCC--
1 CCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCCCCACCCACCTCCAG
* * * * *
38857742 TGTTTACAAGTATAAGTCCCCACCACCTCCTCCATCACCACCCAAGCATCCTTACAAGTACAAGT
66 CGTTTACAAGTACAAGTCTCCACCACC-CCACCATCACC-TCCAAGCATCCTTACAAGTACAAGT
* *
38857807 CTCCTCCACCTCCACCACCATCACCACCCAAGCATCCTTACAAGTACAAGTCCCCACCA
129 CTCCACCACCTCCACCACCATCACCACCCAAGCATCCCTACAAGTACAAGTCCCCACCA
* *
38857866 CCACCACCACCATCACCACCCAAACACCCCTACAAGTACAAGTCCCCACCCCCACCCCCACCATC
1 CCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCCCCA--CCCACC-T-
**
38857931 ACCACCCAAGCACCCTTACAAGTACAAGTCTCCA-C-CCCCACCAT---CTCC-AG--T--TTAC
62 -----CC-AG--CGTTTACAAGTACAAGTCTCCACCACCCCACCATCACCTCCAAGCATCCTTAC
* *
38857986 AAGTATAAGTCTCCACCACCTCCACCGCCATCACCACCCAAGCA-CCCTTACAAGTACAAGTCCC
119 AAGTACAAGTCTCCACCACCTCCACCACCATCACCACCCAAGCATCCC-TACAAGTACAAGTCCC
38858050 CACCA
183 CACCA
*
38858055 CCTCCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCTCCACCACCATCACC
1 CCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCA-C-CC-CCACC--CACC
* * *
38858120 CCCAAAGCATCCTTATAAGTACAAGTCTCCACCACCACCACCATCACCTCCAAAGCATCCTTACA
61 TCC--AGCGT--TTACAAGTACAAGTCTCCACCACC-CCACCATCACCTCC-AAGCATCCTTACA
*
38858185 AGTACAAGTCTCCACCACCACCACCACCACCATCACCACCCAAGCATCCCTACAAGTACAAGTCT
120 AGTACAAGTCT---CCACCACCTCCACCACCATCACCACCCAAGCATCCCTACAAGTACAAGTC-
38858250 CCC-CCA
181 CCCACCA
* * * *
38858256 CCACCACCTCTATCCCCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCA-CCACCTCC-G
1 CCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCCCCACCCACCTCCAG
*
38858319 -GTTTACAAGTATAAGTCTCCACCACC
66 CGTTTACAAGTACAAGTCTCCACCACC
38858345 TCCTGCCGTT
Statistics
Matches: 398, Mismatches: 40, Indels: 79
0.77 0.08 0.15
Matches are distributed among these distances:
184 1 0.00
185 2 0.01
186 66 0.17
187 1 0.00
188 4 0.01
189 144 0.36
190 4 0.01
191 4 0.01
192 12 0.03
193 2 0.01
194 4 0.01
195 7 0.02
196 3 0.01
197 1 0.00
198 24 0.06
199 4 0.01
200 2 0.01
201 107 0.27
202 6 0.02
ACGTcount: A:0.31, C:0.48, G:0.07, T:0.15
Consensus pattern (187 bp):
CCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCCCCACCCACCTCCAG
CGTTTACAAGTACAAGTCTCCACCACCCCACCATCACCTCCAAGCATCCTTACAAGTACAAGTCT
CCACCACCTCCACCACCATCACCACCCAAGCATCCCTACAAGTACAAGTCCCCACCA
Found at i:38858356 original size:33 final size:34
Alignment explanation
Indices: 38858285--38858361 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 34
38858275 CCAAGCACCC
38858285 TTACAAGTACAAGTCTCCACCCCCACCACCTCCGGT
1 TTACAAGTACAAGTCTCCA--CCCACCACCTCCGGT
* *
38858321 TTACAAGTATAAGTCTCCA-CCACCTCCTGCC-GT
1 TTACAAGTACAAGTCTCCACCCACCACCT-CCGGT
38858354 TTACAAGT
1 TTACAAGT
38858362 CTCCTCCTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
33 18 0.47
34 2 0.05
36 18 0.47
ACGTcount: A:0.26, C:0.38, G:0.12, T:0.25
Consensus pattern (34 bp):
TTACAAGTACAAGTCTCCACCCACCACCTCCGGT
Found at i:38859610 original size:40 final size:39
Alignment explanation
Indices: 38859547--38859622 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
38859537 TGATACACTT
*
38859547 TTAAATTATAACAAAATGCAAAAAAAAATCTAAAAATCC
1 TTAAATTATAACAAAATGCAAAAAAAAATATAAAAATCC
*
38859586 TTAAACTTATAA-AAAATTCAAAAAAAAATATAAAAAT
1 TTAAA-TTATAACAAAATGCAAAAAAAAATATAAAAAT
38859623 TAAGTTTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 28 0.82
40 6 0.18
ACGTcount: A:0.64, C:0.09, G:0.01, T:0.25
Consensus pattern (39 bp):
TTAAATTATAACAAAATGCAAAAAAAAATATAAAAATCC
Found at i:38863668 original size:15 final size:15
Alignment explanation
Indices: 38863648--38863681 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38863638 TAATTTGAAT
38863648 ATACAATTGGCGTAA
1 ATACAATTGGCGTAA
**
38863663 ATACAATTGTTGTAA
1 ATACAATTGGCGTAA
38863678 ATAC
1 ATAC
38863682 CTTTTTGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (15 bp):
ATACAATTGGCGTAA
Found at i:38865027 original size:28 final size:29
Alignment explanation
Indices: 38864972--38865027 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
38864962 TCCGTATTTT
* * *
38864972 TGACCTAATTTGATCAATTTTGGAAAAAC
1 TGACCTAATCTGATCAATTATCGAAAAAC
*
38865001 TGACCTAATCTGAT-AATTATCTAAAAA
1 TGACCTAATCTGATCAATTATCGAAAAA
38865028 AATTGTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (29 bp):
TGACCTAATCTGATCAATTATCGAAAAAC
Found at i:38869415 original size:22 final size:22
Alignment explanation
Indices: 38869388--38869455 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
38869378 TTGGTTTGAT
38869388 TTTAATTTCATCCTTTAGTTCA
1 TTTAATTTCATCCTTTAGTTCA
*** *
38869410 TTTAA-TT-AAGGTTT-GAT--
1 TTTAATTTCATCCTTTAGTTCA
38869427 TTTAATTTCATCCTTTAGTTCA
1 TTTAATTTCATCCTTTAGTTCA
38869449 TTTAATT
1 TTTAATT
38869456 AATTTTTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
17 5 0.15
18 2 0.06
19 6 0.18
20 6 0.18
21 2 0.06
22 12 0.36
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (22 bp):
TTTAATTTCATCCTTTAGTTCA
Found at i:38869423 original size:39 final size:39
Alignment explanation
Indices: 38869380--38869457 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
38869370 CTCGGGTTTT
38869380 GGTTTGATTTTAATTTCATCCTTTAGTTCATTTAATTAA
1 GGTTTGATTTTAATTTCATCCTTTAGTTCATTTAATTAA
38869419 GGTTTGATTTTAATTTCATCCTTTAGTTCATTTAATTAA
1 GGTTTGATTTTAATTTCATCCTTTAGTTCATTTAATTAA
38869458 TTTTTTTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (39 bp):
GGTTTGATTTTAATTTCATCCTTTAGTTCATTTAATTAA
Found at i:38869511 original size:21 final size:23
Alignment explanation
Indices: 38869487--38869539 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
38869477 GGAGTTCCTC
*
38869487 TATTATTTAT-TTTAAGT-TATA
1 TATTATTTATATATAAGTATATA
* * *
38869508 TATTGTATATATATATGTATATA
1 TATTATTTATATATAAGTATATA
38869531 TATTATTTA
1 TATTATTTA
38869540 CCTAATATCT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 8 0.33
22 5 0.21
23 11 0.46
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (23 bp):
TATTATTTATATATAAGTATATA
Found at i:38869528 original size:12 final size:11
Alignment explanation
Indices: 38869504--38869534 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
38869494 TATTTTAAGT
38869504 TATATATTGTA
1 TATATATTGTA
38869515 TATATATATGTA
1 TATATAT-TGTA
38869527 TATATATT
1 TATATATT
38869535 ATTTACCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
TATATATTGTA
Found at i:38871907 original size:19 final size:20
Alignment explanation
Indices: 38871867--38871910 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
38871857 GTTTCTTTTG
* *
38871867 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
38871886 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
38871905 GCATTA
1 GCATTA
38871911 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:38876182 original size:86 final size:86
Alignment explanation
Indices: 38876037--38876300 Score: 393
Period size: 86 Copynumber: 3.1 Consensus size: 86
38876027 AGTAAAAATT
* * * *
38876037 GAAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
38876102 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * * *
38876123 GAAGACAAACCTCGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
* *
38876188 GCACTGACAGCGAAGTAGATC
66 GCATTGACAGCGAAGCAGATC
* *
38876209 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTAGTTGAAGATATCAGATCTTGCTTTCCT
1 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
* *
38876274 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
38876296 GAAGA
1 GAAGA
38876301 TGGCAGATTT
Statistics
Matches: 157, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 137 0.87
87 20 0.13
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (86 bp):
GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:38877652 original size:46 final size:46
Alignment explanation
Indices: 38877463--38877695 Score: 147
Period size: 46 Copynumber: 5.2 Consensus size: 46
38877453 ATAACTCTAT
* **
38877463 CTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAGATCTTGT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
** * * * * *
38877509 CTTTCTGTATTTGGCAG-CGAAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
* * * * * ** * * *
38877555 CTCCCTG-A-CT-ACAGAGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
38877597 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * * * *
38877643 CTTCCTGTATTTGGCAG-CGAAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
38877689 CTCCCTG
1 CTCCCTG
38877696 ACTACAGTGG
Statistics
Matches: 134, Mismatches: 44, Indels: 18
0.68 0.22 0.09
Matches are distributed among these distances:
41 3 0.02
42 10 0.07
43 11 0.08
44 4 0.03
45 22 0.16
46 80 0.60
47 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:38877677 original size:134 final size:134
Alignment explanation
Indices: 38877437--38877763 Score: 573
Period size: 134 Copynumber: 2.4 Consensus size: 134
38877427 NNNNNNNNNN
*
38877437 GAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTAAAGATTGCAG
1 GAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAG
* *
38877502 ATCTTGTCTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTAC
66 ATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTAC
38877567 AGAG
131 AGAG
38877571 GAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAG
1 GAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAG
38877636 ATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTAC
66 ATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTAC
*
38877701 AGTG
131 AGAG
* * * * *
38877705 GAGTGCATTGAAGCCGATAACTCTATCTCCCTATGTTTGGCAGTAGAATAGAGTGAAGA
1 GAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
38877764 AAACCAGATC
Statistics
Matches: 184, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
134 184 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (134 bp):
GAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAG
ATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGACTAC
AGAG
Found at i:38877879 original size:44 final size:41
Alignment explanation
Indices: 38877763--38877885 Score: 151
Period size: 44 Copynumber: 2.9 Consensus size: 41
38877753 TAGAGTGAAG
38877763 AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGGAGCAGATC
1 AAAACCAGATCTTATCTCCCTAAGCAGTAGT-GGAGCAGATC
* * *
38877805 ACATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-C
1 AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
38877844 GAAAGAAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
1 ---A-AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
38877886 GTCGAAGATG
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.01
40 8 0.12
41 22 0.32
42 6 0.09
43 4 0.06
44 28 0.41
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (41 bp):
AAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:38878020 original size:130 final size:130
Alignment explanation
Indices: 38877853--38878273 Score: 659
Period size: 130 Copynumber: 3.2 Consensus size: 130
38877843 CGAAAGAAAC
*
38877853 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCCGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAAGTCGAAGATGGCGGATTTTACCTCCCCGATTA
* *
38877918 CGATGGAGTACATTAAAGCCAGTAGTTCTATCTCTCTGGGCAACAGTGGAATAGA-TCAAAGATT
66 CGATGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGT-GAAGATT
38877982 A
130 A
* * *
38877983 CAGATCTTATCTCCTTAAGCAATAGTGAAACAAGTCGAAGATGGCGGATTTTACCTCCCCGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAAGTCGAAGATGGCGGATTTTACCTCCCCGATTA
38878048 C-AGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCT-GGCAACAGTGGAATAGAGTGAAGATT
66 CGA-TGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATT
38878111 A
130 A
* *
38878112 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAAGTCGAAGATGGTGGATTTTACCTCCCTGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAAGTCGAAGATGGCGGATTTTACCTCCCCGATTA
* * ** * **
38878177 CGGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGAGCAACAGTGGAATAGAGTGAAGAGCA
66 CGATGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
*
38878242 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCA
38878274 GACTAAAAAC
Statistics
Matches: 268, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
129 117 0.44
130 151 0.56
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (130 bp):
CAGATCTTATCTCCCTAAGCAATAGTGGAGCAAGTCGAAGATGGCGGATTTTACCTCCCCGATTA
CGATGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
Found at i:38878126 original size:43 final size:43
Alignment explanation
Indices: 38878076--38878257 Score: 118
Period size: 43 Copynumber: 4.2 Consensus size: 43
38878066 CCAGTAGTTC
*
38878076 TATCTCCCTGGCAACAGTGGAATAGAGTGAAGATTACAGATCT
1 TATCTCCCTGGCAACAGTGGAATAGAGTGAAGATGACAGATCT
* * ** *** *
38878119 TATCTCCCTAAGCAATAGTGGAGCA-AGTCGAAGATGGTGGATTT
1 TATCTCCCT-GGCAACAGTGGAATAGAGT-GAAGATGACAGATCT
* *** * * * * * ** *
38878163 TACCTCCCTGATTACGGTGGAGTACATTGAAGCTGGTAGTTC-
1 TATCTCCCTGGCAACAGTGGAATAGAGTGAAGATGACAGATCT
38878205 TATCTCCCTGAGCAACAGTGGAATAGAGTGAAGA-GCACAGATCT
1 TATCTCCCTG-GCAACAGTGGAATAGAGTGAAGATG-ACAGATCT
38878249 TATCTCCCT
1 TATCTCCCT
38878258 AAGCAGTAGT
Statistics
Matches: 99, Mismatches: 34, Indels: 11
0.69 0.24 0.08
Matches are distributed among these distances:
42 10 0.10
43 49 0.49
44 40 0.40
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGGCAACAGTGGAATAGAGTGAAGATGACAGATCT
Found at i:38890702 original size:30 final size:30
Alignment explanation
Indices: 38890666--38890726 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
38890656 GATATACTCT
38890666 TAGATGATGCAGTAGTATCAGAAAAAAAGG
1 TAGATGATGCAGTAGTATCAGAAAAAAAGG
* * *
38890696 TAGATGATGCTGTGGTATCAGGAAAAAAGG
1 TAGATGATGCAGTAGTATCAGAAAAAAAGG
38890726 T
1 T
38890727 GGAAGAGACG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.23
Consensus pattern (30 bp):
TAGATGATGCAGTAGTATCAGAAAAAAAGG
Found at i:38899003 original size:2 final size:2
Alignment explanation
Indices: 38898996--38899034 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
38898986 TTATTTTATA
*
38898996 TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
38899035 TTTCATGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:38901247 original size:78 final size:78
Alignment explanation
Indices: 38901118--38901269 Score: 241
Period size: 78 Copynumber: 1.9 Consensus size: 78
38901108 GAGTCACATC
* * *
38901118 TCATGTAACTGTAGTGAATCAGGATTACATTTTCAAGTCAAATCCTATCCACCTTAGGTTGCCAT
1 TCATGTAACTGTAGCGAATCAGGATTACATTTTCAAGTCAAATCCTATCCACCTTAAGTTACCAT
38901183 AATGAATCATATA
66 AATGAATCATATA
* * *
38901196 TCATGTAACTGTAGCGAATTAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACATTTTCAAGTCAAATCCTATCCACCTTAAGTTACCAT
*
38901261 AGTGAATCA
66 AATGAATCA
38901270 GGAATAAATC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACATTTTCAAGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATATA
Found at i:38901282 original size:40 final size:40
Alignment explanation
Indices: 38901234--38901371 Score: 195
Period size: 40 Copynumber: 3.5 Consensus size: 40
38901224 CTTTTCAGGT
*
38901234 CAAATCCTATCCACCTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * *
38901274 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * **
38901314 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
*
38901354 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
38901372 TATTCTCGAG
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
Found at i:38914946 original size:46 final size:46
Alignment explanation
Indices: 38914821--38914992 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
38914811 ATGCTAATGT
38914821 CATGTCCCAGACATGGTCTTACACTAG--CTCATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCG-AGGCCGATG
* *
38914866 CATGTCCTC-GACATGTCTTACACTGGCT-TACATCTCGAGGCTGATG
1 CATGTCC-CAGACATGTCTTACACTAGCTCT-CATCTCGAGGCCGATG
* * * *
38914912 CATGTCCCAGACATGTCTTACTCTAGCTCTCATCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGCCGATG
* * * *
38914958 CCATATCCCAGACAAGGTCTTACACTGGATCTCAT
1 -CATGTCCCAGAC-ATGTCTTACACTAGCTCTCAT
38914993 AATGTGACTG
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 50 0.48
47 12 0.11
48 17 0.16
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGCCGATG
Found at i:38920374 original size:19 final size:19
Alignment explanation
Indices: 38920352--38920407 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
38920342 TAAACATGAT
38920352 TAAAAATCATAAAAAATAA
1 TAAAAATCATAAAAAATAA
* * * *
38920371 TAAAAATGATATAAACTTA
1 TAAAAATCATAAAAAATAA
* *
38920390 TTAAAATTATAAAAAATA
1 TAAAAATCATAAAAAATA
38920408 TAATTTATTA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAATCATAAAAAATAA
Found at i:38920443 original size:11 final size:9
Alignment explanation
Indices: 38920406--38920457 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
38920396 TTATAAAAAA
38920406 TATAATTTAT
1 TATAATTT-T
*
38920416 TA-GATTTT
1 TATAATTTT
38920424 TATAATTTT
1 TATAATTTT
38920433 TATAACTTTT
1 TATAA-TTTT
*
38920443 TAATAATTTG
1 T-ATAATTTT
38920453 TATAA
1 TATAA
38920458 GTTCATATCA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
8 3 0.08
9 18 0.50
10 11 0.31
11 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (9 bp):
TATAATTTT
Found at i:38920443 original size:20 final size:20
Alignment explanation
Indices: 38920420--38920457 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38920410 ATTTATTAGA
*
38920420 TTTTT-ATAATTTTTATAAC
1 TTTTTAATAATTTGTATAAC
38920439 TTTTTAATAATTTGTATAA
1 TTTTTAATAATTTGTATAA
38920458 GTTCATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTTAATAATTTGTATAAC
Found at i:38928797 original size:42 final size:41
Alignment explanation
Indices: 38928744--38928827 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 41
38928734 ACATTCCTGC
38928744 TGTTGAGGAGAATATAAACAAGGTGAGGTTATCTTCCTGTT
1 TGTTGAGGAGAATATAAACAAGGTGAGGTTATCTTCCTGTT
*
38928785 TNGTTGTGGAGAATATAAACAAGGTGAGGTTATCTTCCTGTT
1 T-GTTGAGGAGAATATAAACAAGGTGAGGTTATCTTCCTGTT
38928827 T
1 T
38928828 ATTGGAACCA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 1 0.02
42 40 0.98
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.36
Consensus pattern (41 bp):
TGTTGAGGAGAATATAAACAAGGTGAGGTTATCTTCCTGTT
Found at i:38933235 original size:9 final size:9
Alignment explanation
Indices: 38933221--38933258 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
38933211 TTGTGTGTTC
38933221 TTTATTTTA
1 TTTATTTTA
38933230 TTTA-TTTA
1 TTTATTTTA
38933238 TTTATTTTA
1 TTTATTTTA
38933247 TTTATTTTA
1 TTTATTTTA
38933256 TTT
1 TTT
38933259 TTTCACACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.29
9 20 0.71
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTTA
Found at i:38933239 original size:13 final size:13
Alignment explanation
Indices: 38933221--38933258 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
38933211 TTGTGTGTTC
38933221 TTTATTTTATTTA
1 TTTATTTTATTTA
38933234 TTTA-TTTATTTTA
1 TTTATTTTA-TTTA
38933247 TTTATTTTATTT
1 TTTATTTTATTT
38933259 TTTCACACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.17
13 15 0.65
14 4 0.17
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:38933703 original size:28 final size:27
Alignment explanation
Indices: 38933663--38933789 Score: 141
Period size: 28 Copynumber: 4.6 Consensus size: 27
38933653 AAAAATTTTC
*
38933663 TCGCACACTTAGTGCTCAATAACCGATT
1 TCGCACACTTAGTGCTCAA-AACCAATT
*
38933691 TCGCACACTTAGTGCTCGGAAATCCAATT
1 TCGCACACTTAGTGCTC--AAAACCAATT
* * *
38933720 T-GCACACTTAGTGCTTAAAATCAACT
1 TCGCACACTTAGTGCTCAAAACCAATT
* *
38933746 T-GCACACTTAGTGCTCAATGACCGATT
1 TCGCACACTTAGTGCTCAA-AACCAATT
38933773 TCGCACACTTAGTGCTC
1 TCGCACACTTAGTGCTC
38933790 GGTATCAAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
26 24 0.29
27 5 0.06
28 46 0.55
29 7 0.08
30 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (27 bp):
TCGCACACTTAGTGCTCAAAACCAATT
Found at i:38933779 original size:54 final size:56
Alignment explanation
Indices: 38933663--38933789 Score: 147
Period size: 54 Copynumber: 2.3 Consensus size: 56
38933653 AAAAATTTTC
* *
38933663 TCGCACACTTAGTGCTCAATAACCGATTTCGCACACTTAGTGCTCGGAAATCCAATT
1 TCGCACACTTAGTGCTCAATAACCAACTTCGCACACTTAGTGCTC-GAAATCCAATT
* * *
38933720 T-GCACACTTAGTGCTTAA-AATCAACTT-GCACACTTAGTGCTC--AATGACCGATT
1 TCGCACACTTAGTGCTCAATAACCAACTTCGCACACTTAGTGCTCGAAAT--CCAATT
38933773 TCGCACACTTAGTGCTC
1 TCGCACACTTAGTGCTC
38933790 GGTATCAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
51 3 0.05
53 6 0.10
54 29 0.48
55 6 0.10
56 16 0.26
57 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (56 bp):
TCGCACACTTAGTGCTCAATAACCAACTTCGCACACTTAGTGCTCGAAATCCAATT
Found at i:38933791 original size:82 final size:81
Alignment explanation
Indices: 38933665--38933814 Score: 246
Period size: 82 Copynumber: 1.8 Consensus size: 81
38933655 AAATTTTCTC
*
38933665 GCACACTTAGTGCTCAATAACCGATTTCGCACACTTAGTGCTCGGAAATCCAATTTGCACACTTA
1 GCACACTTAGTGCTCAATAACCGATTTCGCACACTTAGTGCTCGG-AATCAAATTTGCACACTTA
38933730 GTGCTTAAAATCAACTT
65 GTGCTTAAAATCAACTT
* * **
38933747 GCACACTTAGTGCTCAATGACCGATTTCGCACACTTAGTGCTCGGTATCAAATTTGCACGTTTAG
1 GCACACTTAGTGCTCAATAACCGATTTCGCACACTTAGTGCTCGGAATCAAATTTGCACACTTAG
38933812 TGC
66 TGC
38933815 ATCTCTCAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
81 19 0.30
82 44 0.70
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (81 bp):
GCACACTTAGTGCTCAATAACCGATTTCGCACACTTAGTGCTCGGAATCAAATTTGCACACTTAG
TGCTTAAAATCAACTT
Found at i:38933801 original size:28 final size:27
Alignment explanation
Indices: 38933665--38933814 Score: 135
Period size: 28 Copynumber: 5.5 Consensus size: 27
38933655 AAATTTTCTC
* *
38933665 GCACACTTAGTGCTCAATAACCGATTT
1 GCACACTTAGTGCTCAATATCCAATTT
38933692 CGCACACTTAGTGCTCGGAA-ATCCAATTT
1 -GCACACTTAGTGCTC--AATATCCAATTT
* * *
38933721 GCACACTTAGTGCTTAAAAT-CAACTT
1 GCACACTTAGTGCTCAATATCCAATTT
*
38933747 GCACACTTAGTGCTCAATGA-CCGATTT
1 GCACACTTAGTGCTCAAT-ATCCAATTT
** *
38933774 CGCACACTTAGTGCTCGGTATCAAATTT
1 -GCACACTTAGTGCTCAATATCCAATTT
**
38933802 GCACGTTTAGTGC
1 GCACACTTAGTGC
38933815 ATCTCTCAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 15
0.78 0.11 0.12
Matches are distributed among these distances:
26 23 0.23
27 19 0.19
28 50 0.50
29 7 0.07
30 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (27 bp):
GCACACTTAGTGCTCAATATCCAATTT
Found at i:38935325 original size:28 final size:25
Alignment explanation
Indices: 38935294--38935343 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
38935284 CTTGATACTG
*
38935294 AAGAAAAAATTGTTTTCTAGATATT
1 AAGAAGAAATTGTTTTCTAGATATT
38935319 AAGAAGAAATTGTTTTCTAGATATT
1 AAGAAGAAATTGTTTTCTAGATATT
38935344 CTCTTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.14, T:0.40
Consensus pattern (25 bp):
AAGAAGAAATTGTTTTCTAGATATT
Found at i:38939785 original size:20 final size:21
Alignment explanation
Indices: 38939752--38939795 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
38939742 GCCATTTTTA
38939752 TTTTTATTGCAATT-TAATTT
1 TTTTTATTGCAATTATAATTT
**
38939772 TTTTTATTTTAATTACTAATTT
1 TTTTTATTGCAATTA-TAATTT
38939794 TT
1 TT
38939796 CTTTTATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
22 8 0.40
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTTATTGCAATTATAATTT
Found at i:38949072 original size:13 final size:13
Alignment explanation
Indices: 38949050--38949082 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38949040 AAGGGTTTGT
38949050 TTAT-TAAACTAA
1 TTATCTAAACTAA
38949062 TTATCTAAACTAA
1 TTATCTAAACTAA
*
38949075 TTAACTAA
1 TTATCTAA
38949083 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:38954958 original size:6 final size:6
Alignment explanation
Indices: 38954943--38955003 Score: 61
Period size: 6 Copynumber: 10.2 Consensus size: 6
38954933 TTTCCATCAG
* * *
38954943 TTTATC TTTATT TTTA-T CTTATCT TTTATT TTTATT TTTATT CTTATT
1 TTTATT TTTATT TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT
**
38954991 TTCCTT TTTATT T
1 TTTATT TTTATT T
38955004 CTACTTTGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
5 4 0.09
6 35 0.80
7 5 0.11
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:38954971 original size:24 final size:25
Alignment explanation
Indices: 38954943--38954989 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
38954933 TTTCCATCAG
38954943 TTTATCTTTATTTTTA-TCTTATCT
1 TTTATCTTTATTTTTATTCTTATCT
*
38954967 TTTATTTTTATTTTTATTCTTAT
1 TTTATCTTTATTTTTATTCTTAT
38954990 TTTCCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTATCTTTATTTTTATTCTTATCT
Found at i:38967809 original size:56 final size:55
Alignment explanation
Indices: 38967746--38967857 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 55
38967736 GTTGAGAGTG
38967746 AACAAAGAATGTTAAAAGCTTAATTTAAAATTCAAATTAACTTTTGATTTTTATTA
1 AACAAAGAATGTTAAAAGCTTAATTTAAAATTCAAATTAACTTTTGATTTTT-TTA
*
38967802 AACAAAGAATGTTAAAAGCTTAATTTAAAATTCAAATTAACTTTTTATTTTTTTA
1 AACAAAGAATGTTAAAAGCTTAATTTAAAATTCAAATTAACTTTTGATTTTTTTA
38967857 A
1 A
38967858 TTAATTCTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 4 0.07
56 51 0.93
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (55 bp):
AACAAAGAATGTTAAAAGCTTAATTTAAAATTCAAATTAACTTTTGATTTTTTTA
Found at i:38970535 original size:13 final size:13
Alignment explanation
Indices: 38970517--38970542 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38970507 TTGGGACATC
38970517 AAAGGACATGTTT
1 AAAGGACATGTTT
38970530 AAAGGACATGTTT
1 AAAGGACATGTTT
38970543 TGCTCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
AAAGGACATGTTT
Found at i:38974000 original size:38 final size:38
Alignment explanation
Indices: 38973949--38974025 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
38973939 GTTCTACACA
38973949 GGTACATCCGGTGATGCAGGATGACACGAGTGGAGGTG
1 GGTACATCCGGTGATGCAGGATGACACGAGTGGAGGTG
*
38973987 GGTACATCCGGTGATGCAGTATGACACGAGTGGAGGTG
1 GGTACATCCGGTGATGCAGGATGACACGAGTGGAGGTG
38974025 G
1 G
38974026 AATGAGCAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.23, C:0.16, G:0.42, T:0.19
Consensus pattern (38 bp):
GGTACATCCGGTGATGCAGGATGACACGAGTGGAGGTG
Found at i:38979024 original size:42 final size:42
Alignment explanation
Indices: 38978977--38979062 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
38978967 AGAGAAGCAA
38978977 ACAACATTACACATGGCCGTGCGACACGACCGTGTGGACCAC
1 ACAACATTACACATGGCCGTGCGACACGACCGTGTGGACCAC
38979019 ACAACATTACACATGGCCGTGCGACACGACCGTGTGGACCAC
1 ACAACATTACACATGGCCGTGCGACACGACCGTGTGGACCAC
38979061 AC
1 AC
38979063 GTCTTAGACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (42 bp):
ACAACATTACACATGGCCGTGCGACACGACCGTGTGGACCAC
Found at i:38981506 original size:6 final size:6
Alignment explanation
Indices: 38981491--38981535 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
38981481 CTGATGATTC
* * *
38981491 TTTATG TTTATT TTTATT TTTATT TTTATC CTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
38981536 CTCTTTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:38981543 original size:18 final size:18
Alignment explanation
Indices: 38981491--38981548 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
38981481 CTGATGATTC
* *
38981491 TTTATGTTTATTTTTATT
1 TTTATTTTTATCTTTATT
*
38981509 TTTATTTTTATCCTTATT
1 TTTATTTTTATCTTTATT
*
38981527 TTTATTTTTCTCTTTATAT
1 TTTATTTTTATCTTTAT-T
38981546 TTT
1 TTT
38981549 GAACTCTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 30 0.88
19 4 0.12
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTATTTTTATCTTTATT
Found at i:38985370 original size:22 final size:23
Alignment explanation
Indices: 38985330--38985374 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
38985320 TAAATTCATG
*
38985330 TGCCAAATTAGGAAAAAATTAAA
1 TGCCAAATTAGAAAAAAATTAAA
38985353 TGCCAAATTA-AAAAAAATTAAA
1 TGCCAAATTAGAAAAAAATTAAA
38985375 ACTCAATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.22
Consensus pattern (23 bp):
TGCCAAATTAGAAAAAAATTAAA
Found at i:38986161 original size:36 final size:36
Alignment explanation
Indices: 38986118--38986191 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
38986108 TCTGTTGATT
*
38986118 TTGACTTTTGCGGTTTTGATGCATGGTAAAACACTC
1 TTGACTTTTGCGGTTTTGATGCATGGTAAAAAACTC
*
38986154 TTGACTTTTGCGGTTTTGATGCATGTTAAAAAACTC
1 TTGACTTTTGCGGTTTTGATGCATGGTAAAAAACTC
38986190 TT
1 TT
38986192 TCTTTGATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (36 bp):
TTGACTTTTGCGGTTTTGATGCATGGTAAAAAACTC
Found at i:38987450 original size:27 final size:27
Alignment explanation
Indices: 38987420--38987472 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
38987410 TGTTGCAGCC
38987420 AAGAAATTCGGTGTTACAGAGTTTGTA
1 AAGAAATTCGGTGTTACAGAGTTTGTA
38987447 AAGAAATTCGGTGTTACAGAGTTTGT
1 AAGAAATTCGGTGTTACAGAGTTTGT
38987473 GAATCCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (27 bp):
AAGAAATTCGGTGTTACAGAGTTTGTA
Found at i:38994128 original size:35 final size:35
Alignment explanation
Indices: 38994089--38994166 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
38994079 ACGATTATAC
* * *
38994089 AAAGAAGCTACAAAGCGATGCCACGACGTTCATTT
1 AAAGAAGCGACAAAGCGATGCCACAACGCTCATTT
* *
38994124 AAAGAAGCGACAAAGGGATGCCACAACGCTCGTTT
1 AAAGAAGCGACAAAGCGATGCCACAACGCTCATTT
38994159 AAAGAAGC
1 AAAGAAGC
38994167 CCAAACAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (35 bp):
AAAGAAGCGACAAAGCGATGCCACAACGCTCATTT
Found at i:38996262 original size:37 final size:37
Alignment explanation
Indices: 38996209--38996290 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
38996199 TTTCAGCGGG
*
38996209 CCCTCAGGAGGGACTATTCCAGCTTCATTGAGTACGAC
1 CCCTC-GGAGGAACTATTCCAGCTTCATTGAGTACGAC
38996247 CCCTCGGAGGAACTATTCCAGCTTCATTGAGTACGAC
1 CCCTCGGAGGAACTATTCCAGCTTCATTGAGTACGAC
38996284 CCCTCGG
1 CCCTCGG
38996291 TATGGGTTGT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 38 0.88
38 5 0.12
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.23
Consensus pattern (37 bp):
CCCTCGGAGGAACTATTCCAGCTTCATTGAGTACGAC
Found at i:38997355 original size:6 final size:6
Alignment explanation
Indices: 38997344--38997398 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
38997334 TTGAGTCTGA
* *
38997344 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTCTTT TTATGT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
38997392 TTATTT T
1 TTATTT T
38997399 GTTTTCCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:39000003 original size:41 final size:44
Alignment explanation
Indices: 38999958--39000049 Score: 127
Period size: 47 Copynumber: 2.1 Consensus size: 44
38999948 GATAGGATGA
38999958 CATAAATCT-A-C-CGGATTAGAGTCAAATCTAATAAGGGAATC
1 CATAAATCTAATCGCGGATTAGAGTCAAATCTAATAAGGGAATC
*
38999999 CATAAATCTAAATCGGTTGGATTAGAGTCAAATCTAATAAGGGAATC
1 CATAAATCT-AATC-G-CGGATTAGAGTCAAATCTAATAAGGGAATC
39000046 CATA
1 CATA
39000050 GATCGAGTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
41 9 0.20
43 1 0.02
44 1 0.02
47 33 0.75
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (44 bp):
CATAAATCTAATCGCGGATTAGAGTCAAATCTAATAAGGGAATC
Found at i:39000519 original size:33 final size:32
Alignment explanation
Indices: 39000460--39000524 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
39000450 CTTTGTCGTG
**
39000460 ATCGTAGTCTAGTTTAGTGATTCATAAAACGAT
1 ATCGTAGTCTAGTTTAGTGAACCAT-AAACGAT
39000493 ATCGTAGTCTAGTTTAGTGAACCATAAACGAT
1 ATCGTAGTCTAGTTTAGTGAACCATAAACGAT
39000525 CATCAGGATC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 7 0.23
33 23 0.77
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (32 bp):
ATCGTAGTCTAGTTTAGTGAACCATAAACGAT
Found at i:39002544 original size:42 final size:42
Alignment explanation
Indices: 39002498--39002577 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
39002488 CTTTGCCAAT
39002498 AGAAGCATTCCAAAACCAAAAAAAAAAAAATTCTCCGGCCCG
1 AGAAGCATTCCAAAACCAAAAAAAAAAAAATTCTCCGGCCCG
39002540 AGAAGCATTCCAAAACCAAAAAAAAAAAAATTCTCCGG
1 AGAAGCATTCCAAAACCAAAAAAAAAAAAATTCTCCGG
39002578 TCGTGCAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.53, C:0.24, G:0.11, T:0.12
Consensus pattern (42 bp):
AGAAGCATTCCAAAACCAAAAAAAAAAAAATTCTCCGGCCCG
Found at i:39004636 original size:63 final size:63
Alignment explanation
Indices: 39004568--39004706 Score: 251
Period size: 63 Copynumber: 2.2 Consensus size: 63
39004558 TTTTAAAAAG
*
39004568 ATTTAATTTTTTTTACGAAAATACCTAAAAGATTACATTTTTAAAAATATAGATTTTGATCAT
1 ATTTAATTTTTTTTACGAAAATAACTAAAAGATTACATTTTTAAAAATATAGATTTTGATCAT
*
39004631 ATTTAATTTTTTTTACGAAAATAACTAAAAGATTACATTTTTAAACATATAGATTTTGATCAT
1 ATTTAATTTTTTTTACGAAAATAACTAAAAGATTACATTTTTAAAAATATAGATTTTGATCAT
*
39004694 ATTTGATTTTTTT
1 ATTTAATTTTTTT
39004707 GATAGAATGT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 73 1.00
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.47
Consensus pattern (63 bp):
ATTTAATTTTTTTTACGAAAATAACTAAAAGATTACATTTTTAAAAATATAGATTTTGATCAT
Found at i:39014634 original size:15 final size:15
Alignment explanation
Indices: 39014614--39014643 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
39014604 TTAGTTGGGA
39014614 AAGTTTATTTGGCAT
1 AAGTTTATTTGGCAT
39014629 AAGTTTATTTGGCAT
1 AAGTTTATTTGGCAT
39014644 CATCATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
AAGTTTATTTGGCAT
Found at i:39018515 original size:20 final size:20
Alignment explanation
Indices: 39018487--39018526 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
39018477 ACGACTAGAA
39018487 AGAGGGTAGGACTCATTTAT
1 AGAGGGTAGGACTCATTTAT
*
39018507 AGAGTGTAGGACTCATTTAT
1 AGAGGGTAGGACTCATTTAT
39018527 CTTTAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.10, G:0.28, T:0.33
Consensus pattern (20 bp):
AGAGGGTAGGACTCATTTAT
Found at i:39019267 original size:22 final size:22
Alignment explanation
Indices: 39019239--39019282 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
39019229 TTGGAAACTA
39019239 CAAACCTCGGTCTGACATTCCT
1 CAAACCTCGGTCTGACATTCCT
39019261 CAAACCTCGGTCTGACATTCCT
1 CAAACCTCGGTCTGACATTCCT
39019283 GCTGTTGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.36, G:0.14, T:0.27
Consensus pattern (22 bp):
CAAACCTCGGTCTGACATTCCT
Found at i:39022108 original size:21 final size:19
Alignment explanation
Indices: 39022084--39022122 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
39022074 AGTAATAATC
39022084 ATAAATTTCATTAAAACAATT
1 ATAAATTT-A-TAAAACAATT
*
39022105 ATAAGTTTATAAAACAAT
1 ATAAATTTATAAAACAAT
39022123 CGCAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 1 0.06
21 7 0.41
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (19 bp):
ATAAATTTATAAAACAATT
Found at i:39022748 original size:30 final size:30
Alignment explanation
Indices: 39022714--39022814 Score: 121
Period size: 30 Copynumber: 3.4 Consensus size: 30
39022704 ATGTACATGA
** *
39022714 GGTGGCGGTGGAGTGATTGGATGGTGGGGT
1 GGTGGCGGTGGAGAAACTGGATGGTGGGGT
* * *
39022744 GGTGGTGATGGAGAAACTGGATGGTGGGGG
1 GGTGGCGGTGGAGAAACTGGATGGTGGGGT
* *
39022774 GGTGGCGGTGGAGAAACTGGATTGTGTGGT
1 GGTGGCGGTGGAGAAACTGGATGGTGGGGT
*
39022804 GGTGGAGGTGG
1 GGTGGCGGTGG
39022815 TGGTGGAGAG
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.15, C:0.04, G:0.57, T:0.24
Consensus pattern (30 bp):
GGTGGCGGTGGAGAAACTGGATGGTGGGGT
Found at i:39025602 original size:40 final size:40
Alignment explanation
Indices: 39025482--39025602 Score: 188
Period size: 40 Copynumber: 3.0 Consensus size: 40
39025472 GGCGTTTGGA
* *
39025482 TAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTT
1 TAAAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTT
* * * *
39025522 CAAAAAACGTCACTATAGGTCGACCACTAGCGGCGCTTTT
1 TAAAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTT
39025562 TAAAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTT
1 TAAAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTT
39025602 T
1 T
39025603 GAAATGTTGC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (40 bp):
TAAAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTT
Found at i:39026142 original size:15 final size:15
Alignment explanation
Indices: 39026122--39026169 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
39026112 ACTATTTTAA
39026122 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
39026137 GGTTTAAGGATTAT-
1 GGTTTATGGATTATG
* *
39026151 AGTTTATGGTTTATG
1 GGTTTATGGATTATG
39026166 GGTT
1 GGTT
39026170 GGGGTTAGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:39026142 original size:22 final size:21
Alignment explanation
Indices: 39026117--39026163 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
39026107 GAGTTACTAT
* *
39026117 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATAGATTAT-GG
*
39026139 TTTAAGGATTATAGTTTATGG
1 TTTAAGGATTATAGATTATGG
39026160 TTTA
1 TTTA
39026164 TGGGTTGGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (21 bp):
TTTAAGGATTATAGATTATGG
Found at i:39027005 original size:15 final size:15
Alignment explanation
Indices: 39026985--39027032 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
39026975 ACTATTTTAA
39026985 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
39027000 GGTTTAAGGATTAT-
1 GGTTTATGGATTATG
* *
39027014 AGTTTATGGTTTATG
1 GGTTTATGGATTATG
39027029 GGTT
1 GGTT
39027033 GGGGTTAGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:39027005 original size:22 final size:21
Alignment explanation
Indices: 39026980--39027026 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
39026970 GAGTTACTAT
* *
39026980 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATAGATTAT-GG
*
39027002 TTTAAGGATTATAGTTTATGG
1 TTTAAGGATTATAGATTATGG
39027023 TTTA
1 TTTA
39027027 TGGGTTGGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (21 bp):
TTTAAGGATTATAGATTATGG
Found at i:39027649 original size:863 final size:863
Alignment explanation
Indices: 39025984--39027826 Score: 3686
Period size: 863 Copynumber: 2.1 Consensus size: 863
39025974 TATGACTGGT
39025984 TATTTTTTAATTTATATATTAAATAATTTTTAATATAATCGTAAAGGAGATAGTATTAATTTTAA
1 TATTTTTTAATTTATATATTAAATAATTTTTAATATAATCGTAAAGGAGATAGTATTAATTTTAA
39026049 AATATTGAATTAATTATTATTATAGTTTAGGGTATATGGTTTAAGGTTTAAACATTAGGAGTTAC
66 AATATTGAATTAATTATTATTATAGTTTAGGGTATATGGTTTAAGGTTTAAACATTAGGAGTTAC
39026114 TATTTTAAGGTTTATGGATTATGGGTTTAAGGATTATAGTTTATGGTTTATGGGTTGGGGTTAGG
131 TATTTTAAGGTTTATGGATTATGGGTTTAAGGATTATAGTTTATGGTTTATGGGTTGGGGTTAGG
39026179 GGTGAGCAAAATCCGATTCGATTCGAAAAACTCTATAAAAAATTTAAATTTTGAATTAAATAGTT
196 GGTGAGCAAAATCCGATTCGATTCGAAAAACTCTATAAAAAATTTAAATTTTGAATTAAATAGTT
39026244 CGAGTTATTTGAGTTAATCAAGTTATTCGGATCAACTTGAATAAAAAATTAAGCTTTTCGGTTTA
261 CGAGTTATTTGAGTTAATCAAGTTATTCGGATCAACTTGAATAAAAAATTAAGCTTTTCGGTTTA
39026309 ACTCAAATATGAATTACACAATTCAAGTTATCCGAAAATTCGAATAAGAAAAGACAAAACTACGT
326 ACTCAAATATGAATTACACAATTCAAGTTATCCGAAAATTCGAATAAGAAAAGACAAAACTACGT
39026374 AGTTATAATAAATGTTTACTTTATTAAAAGTTAAAATTCAAAATAATTAAGTTAAAAGGTAAAAC
391 AGTTATAATAAATGTTTACTTTATTAAAAGTTAAAATTCAAAATAATTAAGTTAAAAGGTAAAAC
39026439 TACGTTGTTTTGATAAATGTTTACTCATTGAGTTAAAAGACTAAATCATTATATTATTCATGTAG
456 TACGTTGTTTTGATAAATGTTTACTCATTGAGTTAAAAGACTAAATCATTATATTATTCATGTAG
39026504 TTAAATAATCTTGTACTTCATCTACTAGTTAAATAATCGGTCCATCTAAACATAACATTAAGTAT
521 TTAAATAATCTTGTACTTCATCTACTAGTTAAATAATCGGTCCATCTAAACATAACATTAAGTAT
39026569 AAATAATAGGATTCGTTAACTCTACTCGATTTGACTCGAAATTTTTTGACTCGATTCGATTCGAT
586 AAATAATAGGATTCGTTAACTCTACTCGATTTGACTCGAAATTTTTTGACTCGATTCGATTCGAT
39026634 TCGAAAAAATTTCAAATTGAGTTTGGTTGCTAAAATAGGATTTGTCAACTCGACTAACTCAAATT
651 TCGAAAAAATTTCAAATTGAGTTTGGTTGCTAAAATAGGATTTGTCAACTCGACTAACTCAAATT
39026699 TTTTACTCGACTCGATCGAATACTCACCCGTAGTTGGGGTTTAAGGTTTAAGGGGTTATGGGTTA
716 TTTTACTCGACTCGATCGAATACTCACCCGTAGTTGGGGTTTAAGGTTTAAGGGGTTATGGGTTA
39026764 AGTGTTAGGGGTTTAGGGTGTATGTTTTATAATTTAGGGTTTATAAGGATATAGGTTAGGGGTTT
781 AGTGTTAGGGGTTTAGGGTGTATGTTTTATAATTTAGGGTTTATAAGGATATAGGTTAGGGGTTT
39026829 AGCGTTTATATTAATTAG
846 AGCGTTTATATTAATTAG
39026847 TATTTTTTAATTTATATATTAAATAATTTTTAATATAATCGTAAAGGAGATAGTATTAATTTTAA
1 TATTTTTTAATTTATATATTAAATAATTTTTAATATAATCGTAAAGGAGATAGTATTAATTTTAA
39026912 AATATTGAATTAATTATTATTATAGTTTAGGGTATATGGTTTAAGGTTTAAACATTAGGAGTTAC
66 AATATTGAATTAATTATTATTATAGTTTAGGGTATATGGTTTAAGGTTTAAACATTAGGAGTTAC
39026977 TATTTTAAGGTTTATGGATTATGGGTTTAAGGATTATAGTTTATGGTTTATGGGTTGGGGTTAGG
131 TATTTTAAGGTTTATGGATTATGGGTTTAAGGATTATAGTTTATGGTTTATGGGTTGGGGTTAGG
39027042 GGTGAGCAAAATCCGATTCGATTCGAAAAACTCTATAAAAAATTTAAATTTTGAATTAAATAGTT
196 GGTGAGCAAAATCCGATTCGATTCGAAAAACTCTATAAAAAATTTAAATTTTGAATTAAATAGTT
39027107 CGAGTTATTTGAGTTAATCAAGTTATTCGGATCAACTTGAATAAAAAATTAAGCTTTTCGGTTTA
261 CGAGTTATTTGAGTTAATCAAGTTATTCGGATCAACTTGAATAAAAAATTAAGCTTTTCGGTTTA
39027172 ACTCAAATATGAATTACACAATTCAAGTTATCCGAAAATTCGAATAAGAAAAGACAAAACTACGT
326 ACTCAAATATGAATTACACAATTCAAGTTATCCGAAAATTCGAATAAGAAAAGACAAAACTACGT
39027237 AGTTATAATAAATGTTTACTTTATTAAAAGTTAAAATTCAAAATAATTAAGTTAAAAGGTAAAAC
391 AGTTATAATAAATGTTTACTTTATTAAAAGTTAAAATTCAAAATAATTAAGTTAAAAGGTAAAAC
39027302 TACGTTGTTTTGATAAATGTTTACTCATTGAGTTAAAAGACTAAATCATTATATTATTCATGTAG
456 TACGTTGTTTTGATAAATGTTTACTCATTGAGTTAAAAGACTAAATCATTATATTATTCATGTAG
39027367 TTAAATAATCTTGTACTTCATCTACTAGTTAAATAATCGGTCCATCTAAACATAACATTAAGTAT
521 TTAAATAATCTTGTACTTCATCTACTAGTTAAATAATCGGTCCATCTAAACATAACATTAAGTAT
39027432 AAATAATAGGATTCGTTAACTCTACTCGATTTGACTCGAAATTTTTTGACTCGATTCGATTCGAT
586 AAATAATAGGATTCGTTAACTCTACTCGATTTGACTCGAAATTTTTTGACTCGATTCGATTCGAT
39027497 TCGAAAAAATTTCAAATTGAGTTTGGTTGCTAAAATAGGATTTGTCAACTCGACTAACTCAAATT
651 TCGAAAAAATTTCAAATTGAGTTTGGTTGCTAAAATAGGATTTGTCAACTCGACTAACTCAAATT
39027562 TTTTACTCGACTCGATCGAATACTCACCCGTAGTTGGGGTTTAAGGTTTAAGGGGTTATGGGTTA
716 TTTTACTCGACTCGATCGAATACTCACCCGTAGTTGGGGTTTAAGGTTTAAGGGGTTATGGGTTA
39027627 AGTGTTAGGGGTTTAGGGTGTATGTTTTATAATTTAGGGTTTATAAGGATATAGGTTAGGGGTTT
781 AGTGTTAGGGGTTTAGGGTGTATGTTTTATAATTTAGGGTTTATAAGGATATAGGTTAGGGGTTT
39027692 AGCGTTTATATTAATTAG
846 AGCGTTTATATTAATTAG
39027710 TATTTTTTAATTTATATATTAAATAATTTTTAATATAATCGTAAAGGAGATAGTATTAATTTTAA
1 TATTTTTTAATTTATATATTAAATAATTTTTAATATAATCGTAAAGGAGATAGTATTAATTTTAA
39027775 AATATTGAATTAATTATTATTATAGTTTAGGGTATATGGTTTAAGGTTTAAA
66 AATATTGAATTAATTATTATTATAGTTTAGGGTATATGGTTTAAGGTTTAAA
39027827 GGTTACCTTT
Statistics
Matches: 980, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
863 980 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (863 bp):
TATTTTTTAATTTATATATTAAATAATTTTTAATATAATCGTAAAGGAGATAGTATTAATTTTAA
AATATTGAATTAATTATTATTATAGTTTAGGGTATATGGTTTAAGGTTTAAACATTAGGAGTTAC
TATTTTAAGGTTTATGGATTATGGGTTTAAGGATTATAGTTTATGGTTTATGGGTTGGGGTTAGG
GGTGAGCAAAATCCGATTCGATTCGAAAAACTCTATAAAAAATTTAAATTTTGAATTAAATAGTT
CGAGTTATTTGAGTTAATCAAGTTATTCGGATCAACTTGAATAAAAAATTAAGCTTTTCGGTTTA
ACTCAAATATGAATTACACAATTCAAGTTATCCGAAAATTCGAATAAGAAAAGACAAAACTACGT
AGTTATAATAAATGTTTACTTTATTAAAAGTTAAAATTCAAAATAATTAAGTTAAAAGGTAAAAC
TACGTTGTTTTGATAAATGTTTACTCATTGAGTTAAAAGACTAAATCATTATATTATTCATGTAG
TTAAATAATCTTGTACTTCATCTACTAGTTAAATAATCGGTCCATCTAAACATAACATTAAGTAT
AAATAATAGGATTCGTTAACTCTACTCGATTTGACTCGAAATTTTTTGACTCGATTCGATTCGAT
TCGAAAAAATTTCAAATTGAGTTTGGTTGCTAAAATAGGATTTGTCAACTCGACTAACTCAAATT
TTTTACTCGACTCGATCGAATACTCACCCGTAGTTGGGGTTTAAGGTTTAAGGGGTTATGGGTTA
AGTGTTAGGGGTTTAGGGTGTATGTTTTATAATTTAGGGTTTATAAGGATATAGGTTAGGGGTTT
AGCGTTTATATTAATTAG
Found at i:39030079 original size:46 final size:46
Alignment explanation
Indices: 39030012--39030384 Score: 318
Period size: 46 Copynumber: 8.2 Consensus size: 46
39030002 TATAAGTGAG
* * *
39030012 GTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCAGCAAATTGAA
1 GTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGCAGCAAATTGAA
*
39030058 GTGTTTAAATGCTGTAAATTGAAGGGTTAAAGTGCTA-CAAATTGAA
1 GTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC-AGCAAATTGAA
** *
39030104 GTG-TTAAATGCTGTAAATTGAAGTGTTTAAA-TGTTGTAAATTGAA
1 GTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCAGCAAATTGAA
* * * * * *
39030149 GTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAAATGAA
1 GTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCAGCAAATTGAA
** * ** *
39030195 GTGTTTAGTTGCTGGAAATTGATA-TGTTTTA-T-C-GCTATAATTGAG
1 GTGTTTAAATGCTGTAAATTGA-AGTGTTAAAGTGCAGC-A-AATTGAA
* * ** * *
39030240 GAGTATAAATATTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAA
1 GTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGCAGCAAATTGAA
39030286 GTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTA-CAAATTGAA
1 GTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC-AGCAAATTGAA
* * * *
39030332 GTGTTTAAATGTTGTAAATTGAAGT-TTCTAAGTACTGCAAATTGAA
1 GTGTTTAAATGCTGTAAATTGAAGTGTT-AAAGTGCAGCAAATTGAA
*
39030378 TTGTTTA
1 GTGTTTA
39030385 GTTGCTTAAA
Statistics
Matches: 265, Mismatches: 44, Indels: 36
0.77 0.13 0.10
Matches are distributed among these distances:
43 3 0.01
44 2 0.01
45 64 0.24
46 186 0.70
47 8 0.03
48 2 0.01
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (46 bp):
GTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCAGCAAATTGAA
Found at i:39030351 original size:137 final size:137
Alignment explanation
Indices: 39030012--39030355 Score: 369
Period size: 137 Copynumber: 2.5 Consensus size: 137
39030002 TATAAGTGAG
* *
39030012 GTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGC-AGCAAATTGAAGTGTTTAAATGCTGTAA
1 GTGTTTAAATGTTGTAAATTGAAG-TGTTAAAGTGCTA-CAAATTGAAGTGTTTAAATGCTGTAA
* * *
39030075 ATTGAAGGGTTAAAGTGCTACAAATTGAAGTGTTAAATGCTGTAAATTGAAGTGTTTAAATGTTG
64 ATTGAAGGGTTAAAGTGCTACAAATTGAAGAGTTAAATACTGTAAATTGAAGTGTTTAAATGCTG
*
39030140 TAAATTGAA
129 CAAATTGAA
* * * * * ** *
39030149 GTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAAATGAAGTGTTTAGTTGCTGGAAAT
1 GTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTAAATGCTGTAAAT
* ** * * * *
39030214 TGATA-TGTTTTA-TCGCTA-TAATTGAGGAGTATAAATATTGTTAATTG-AGATG-TTAAAGTG
66 TGA-AGGGTTAAAGT-GCTACAAATTGAAGAGT-TAAATACTGTAAATTGAAG-TGTTTAAA-TG
39030274 CTGCAAATTGAA
126 CTGCAAATTGAA
* *
39030286 GTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTAAATGTTGTAAAT
1 GTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTAAATGCTGTAAAT
39030351 TGAAG
66 TGAAG
39030356 TTTCTAAGTA
Statistics
Matches: 168, Mismatches: 31, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
136 18 0.11
137 147 0.88
138 3 0.02
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (137 bp):
GTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTAAATGCTGTAAAT
TGAAGGGTTAAAGTGCTACAAATTGAAGAGTTAAATACTGTAAATTGAAGTGTTTAAATGCTGCA
AATTGAA
Found at i:39030373 original size:23 final size:23
Alignment explanation
Indices: 39030028--39030384 Score: 246
Period size: 23 Copynumber: 15.6 Consensus size: 23
39030018 AAATGTTGTT
* *
39030028 AATTG-AGATGTTAAAGTGCAGCA
1 AATTGAAG-TGTTTAAGTGCTGCA
* *
39030051 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
* * *
39030074 AATTGAAGGGTTAAAGTGCTACA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
39030097 AATTGAAGTG-TTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
* * *
39030119 AATTGAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
* * * *
39030142 AATTGAAGTGCTTAAATGTTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
*
39030165 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
39030188 AAATGAAGTGTTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
*
39030211 AATTGATA-TGTTTTA-T-C-GCTA
1 AATTGA-AGTGTTTAAGTGCTGC-A
* * * * ** **
39030232 TAATTGAGGAGTATAAATATTGTT
1 -AATTGAAGTGTTTAAGTGCTGCA
*
39030256 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAGTGCTGCA
* *
39030279 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
39030302 AATTGAAGTGTTAAAGTGCTACA
1 AATTGAAGTGTTTAAGTGCTGCA
* * *
39030325 AATTGAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
*
39030348 AATTGAAGT-TTCTAAGTACTGCA
1 AATTGAAGTGTT-TAAGTGCTGCA
*
39030371 AATTGAATTGTTTA
1 AATTGAAGTGTTTA
39030385 GTTGCTTAAA
Statistics
Matches: 260, Mismatches: 59, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.00
21 2 0.01
22 34 0.13
23 214 0.82
24 8 0.03
25 1 0.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (23 bp):
AATTGAAGTGTTTAAGTGCTGCA
Found at i:39031171 original size:42 final size:41
Alignment explanation
Indices: 39031066--39031369 Score: 189
Period size: 43 Copynumber: 7.1 Consensus size: 41
39031056 TTAGTGACCT
* * * * * *
39031066 TTTTTGGGAAAGCGCGGCTAAAAGTTAAGTTCTTTAGTGGCA
1 TTTTTGGAAAAGCGC-GTTAAAAGTCATGTTCTTTAGCGGCG
* * * *
39031108 TTTGTAGAGAGAGCGCTGTTAAAGGTCATGTTCTTTAGCGGCG
1 TTTTTGGA-AAAGCGC-GTTAAAAGTCATGTTCTTTAGCGGCG
*
39031151 TTTTTGGAAAAGCGCAGTTAAAAGT-TTGGTTCTTTAGCGGCG
1 TTTTTGGAAAAGCGC-GTTAAAAGTCAT-GTTCTTTAGCGGCG
* ** * *
39031193 TTTGTGGAGAAAGAATCGCTAAATGTCATG-TCTTTTAGCGGCG
1 TTTTTGGA-AAAG-CGCGTTAAAAGTCATGTTC-TTTAGCGGCG
* * * *
39031236 TTTTTGGGAAAAGCACTGTTAAATGTCATGTTTTTTAGCGGAG
1 TTTTT-GGAAAAGCGC-GTTAAAAGTCATGTTCTTTAGCGGCG
* ** * * ** *
39031279 TTTTTAAGAAAAGTATCGCTAAAGGTCATGTTCTTTAATGGTG
1 TTTTT-GGAAAAG-CGCGTTAAAAGTCATGTTCTTTAGCGGCG
* * *
39031322 TTTATAGGAAAAGCGCCGTTAAAAGTCATGTTCTATAGCGGCA
1 TTT-TTGGAAAAGCG-CGTTAAAAGTCATGTTCTTTAGCGGCG
39031365 TTTTT
1 TTTTT
39031370 TCACATAAAT
Statistics
Matches: 199, Mismatches: 51, Indels: 24
0.73 0.19 0.09
Matches are distributed among these distances:
41 1 0.01
42 44 0.22
43 146 0.73
44 8 0.04
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (41 bp):
TTTTTGGAAAAGCGCGTTAAAAGTCATGTTCTTTAGCGGCG
Found at i:39031369 original size:86 final size:85
Alignment explanation
Indices: 39031074--39031369 Score: 251
Period size: 86 Copynumber: 3.5 Consensus size: 85
39031064 CTTTTTTGGG
* * * * * * * ** *
39031074 AAAGCGCGGCTAAAAGTTAAGTTCTTTAGTGGCATTTGTAGAGAGAG-CGCTGTTAAAGGTCATG
1 AAAGCGCAGTTAAAAGTCATGTTCTTTAGCGGCATTTTTAGAGAAAGAATC-GCTAAAGGTCATG
*
39031138 TTCTTTAGCGGCGTTTTTGGA
65 TTCTTTAGCGGCGTTTTAGGA
* * * * *
39031159 AAAGCGCAGTTAAAAGT-TTGGTTCTTTAGCGGCGTTTGTGGAGAAAGAATCGCTAAATGTCATG
1 AAAGCGCAGTTAAAAGTCAT-GTTCTTTAGCGGCATTTTTAGAGAAAGAATCGCTAAAGGTCATG
*
39031223 -TCTTTTAGCGGCGTTTTTGGGA
65 TTC-TTTAGCGGCG-TTTTAGGA
* * * * *
39031245 AAAGCACTGTTAAATGTCATGTTTTTTAGCGG-AGTTTTTA-AGAAAAGTATCGCTAAAGGTCAT
1 AAAGCGCAGTTAAAAGTCATGTTCTTTAGCGGCA-TTTTTAGAG-AAAGAATCGCTAAAGGTCAT
** *
39031308 GTTCTTTAATGGTGTTTATAGGA
64 GTTCTTTAGCGGCGTTT-TAGGA
* *
39031331 AAAGCGCCGTTAAAAGTCATGTTCTATAGCGGCATTTTT
1 AAAGCGCAGTTAAAAGTCATGTTCTTTAGCGGCATTTTT
39031370 TCACATAAAT
Statistics
Matches: 169, Mismatches: 32, Indels: 19
0.77 0.15 0.09
Matches are distributed among these distances:
84 2 0.01
85 64 0.38
86 99 0.59
87 4 0.02
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (85 bp):
AAAGCGCAGTTAAAAGTCATGTTCTTTAGCGGCATTTTTAGAGAAAGAATCGCTAAAGGTCATGT
TCTTTAGCGGCGTTTTAGGA
Found at i:39034080 original size:12 final size:12
Alignment explanation
Indices: 39034063--39034087 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39034053 TTTATCCTTA
39034063 GAAAAGCATTTG
1 GAAAAGCATTTG
39034075 GAAAAGCATTTG
1 GAAAAGCATTTG
39034087 G
1 G
39034088 GAGCAAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.28, T:0.24
Consensus pattern (12 bp):
GAAAAGCATTTG
Found at i:39035216 original size:11 final size:11
Alignment explanation
Indices: 39035185--39035226 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
39035175 GTTTAGCCAT
39035185 TTTTTATTTTA
1 TTTTTATTTTA
**
39035196 -TTGCATTTTA
1 TTTTTATTTTA
39035206 TTTTTATTTTA
1 TTTTTATTTTA
*
39035217 GTTTTATTTT
1 TTTTTATTTT
39035227 TAATTACTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:39038508 original size:16 final size:16
Alignment explanation
Indices: 39038463--39038540 Score: 70
Period size: 15 Copynumber: 4.8 Consensus size: 16
39038453 ATCACCCCAA
*
39038463 TTTT-ATTTTATTTAT
1 TTTTAATTTTATATAT
* *
39038478 TATTAATTGT-TATAT
1 TTTTAATTTTATATAT
39038493 TTTTAATTTCTTATATATT
1 TTTTAA-TT-TTATATA-T
39038512 TTTTAATTTATATATAT
1 TTTTAATTT-TATATAT
*
39038529 TTTTATTTTTAT
1 TTTTAATTTTAT
39038541 TTTTCTATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
15 12 0.24
16 9 0.18
17 11 0.22
18 12 0.24
19 7 0.14
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (16 bp):
TTTTAATTTTATATAT
Found at i:39038511 original size:18 final size:17
Alignment explanation
Indices: 39038488--39038533 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
39038478 TATTAATTGT
*
39038488 TATATTTTTAATTTCTTA
1 TATATTTTTAATTT-ATA
39038506 TATATTTTTTAATTTATA
1 TATA-TTTTTAATTTATA
39038524 TATATTTTTA
1 TATATTTTTA
39038534 TTTTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 10 0.38
19 10 0.38
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TATATTTTTAATTTATA
Found at i:39038537 original size:6 final size:6
Alignment explanation
Indices: 39038526--39038564 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
39038516 AATTTATATA
*
39038526 TATTTT TATTTT TATTTTT CTATTTT TATTTC TATTTT T
1 TATTTT TATTTT TA-TTTT -TATTTT TATTTT TATTTT T
39038565 TTCTTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 19 0.66
7 8 0.28
8 2 0.07
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:39038539 original size:18 final size:18
Alignment explanation
Indices: 39038488--39038540 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 18
39038478 TATTAATTGT
39038488 TATATTTTTAATTTCTTATA
1 TATATTTTT-ATTT-TTATA
*
39038508 TAT-TTTTTA-ATTTATA
1 TATATTTTTATTTTTATA
39038524 TATATTTTTATTTTTAT
1 TATATTTTTATTTTTAT
39038541 TTTTCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 8 0.28
17 7 0.24
18 6 0.21
19 5 0.17
20 3 0.10
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TATATTTTTATTTTTATA
Found at i:39038572 original size:20 final size:20
Alignment explanation
Indices: 39038526--39038564 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
39038516 AATTTATATA
*
39038526 TATTTTTATTTTTATTTTTC
1 TATTTTTATTTCTATTTTTC
39038546 TATTTTTATTTCTATTTTT
1 TATTTTTATTTCTATTTTT
39038565 TTCTTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (20 bp):
TATTTTTATTTCTATTTTTC
Found at i:39038699 original size:12 final size:12
Alignment explanation
Indices: 39038624--39038702 Score: 61
Period size: 12 Copynumber: 6.1 Consensus size: 12
39038614 TATCATTGAG
39038624 TTTATTTT-TATT
1 TTTATTTTAT-TT
39038636 TTTATTATTATTTT
1 TTTATT-TTA-TTT
*
39038650 TTTATTTTCTTT
1 TTTATTTTATTT
*
39038662 TTTAATTTTGTTT
1 TTT-ATTTTATTT
*
39038675 TAGTTGTTTTTATTT
1 T--TT-ATTTTATTT
39038690 TTTATTTTATTT
1 TTTATTTTATTT
39038702 T
1 T
39038703 CTTCAACTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
12 21 0.38
13 15 0.27
14 8 0.15
15 11 0.20
ACGTcount: A:0.15, C:0.01, G:0.04, T:0.80
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:39056140 original size:58 final size:58
Alignment explanation
Indices: 39056045--39056156 Score: 197
Period size: 58 Copynumber: 1.9 Consensus size: 58
39056035 GATGAATTGT
* *
39056045 CTTAATTGATCTACACTTGAAACCTTACATTGGCTAATTATATGGAAAACTATACTAC
1 CTTAATTGATCTACACTTGAAACCTTACATTGACTAATTATATGGAAAAATATACTAC
*
39056103 CTTAATTGATCTACACTTGAAACCTTACATTGACTAATTATATGTAAAAATATA
1 CTTAATTGATCTACACTTGAAACCTTACATTGACTAATTATATGGAAAAATATA
39056157 ATCACTTACT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (58 bp):
CTTAATTGATCTACACTTGAAACCTTACATTGACTAATTATATGGAAAAATATACTAC
Found at i:39059198 original size:8 final size:8
Alignment explanation
Indices: 39059143--39059200 Score: 50
Period size: 8 Copynumber: 7.5 Consensus size: 8
39059133 AATATCCGGA
39059143 AATATAAT
1 AATATAAT
39059151 AAT-T-AT
1 AATATAAT
*
39059157 AATATATT
1 AATATAAT
39059165 CAAT-TAAT
1 -AATATAAT
*
39059173 GATATAAT
1 AATATAAT
* *
39059181 GATATGAT
1 AATATAAT
39059189 AATATAAT
1 AATATAAT
39059197 AATA
1 AATA
39059201 GACGTGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
6 5 0.12
7 4 0.10
8 28 0.70
9 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (8 bp):
AATATAAT
Found at i:39060231 original size:15 final size:15
Alignment explanation
Indices: 39060213--39060241 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39060203 ATGGCTTTAT
39060213 AAGAAAAATACAATA
1 AAGAAAAATACAATA
39060228 AAGAAAAATACAAT
1 AAGAAAAATACAAT
39060242 CTTTTTGTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (15 bp):
AAGAAAAATACAATA
Found at i:39070392 original size:39 final size:39
Alignment explanation
Indices: 39070333--39070412 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
39070323 GTCATCTCTA
*
39070333 TCGGGCCCTATGTGAGTCGATTGGCTCGCG-ATTTTGGGC
1 TCGGGCCCTATGTGACTCGATTGGCTCG-GTATTTTGGGC
39070372 TCGGGCCCTATGTGACTCGATTGGCTCGGTATTTTGGGC
1 TCGGGCCCTATGTGACTCGATTGGCTCGGTATTTTGGGC
39070411 TC
1 TC
39070413 CTCAACACGG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 1 0.03
39 38 0.97
ACGTcount: A:0.10, C:0.24, G:0.34, T:0.33
Consensus pattern (39 bp):
TCGGGCCCTATGTGACTCGATTGGCTCGGTATTTTGGGC
Found at i:39082912 original size:45 final size:45
Alignment explanation
Indices: 39082848--39082938 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
39082838 ACGGACGTGT
39082848 CTTTGGCCGTGTGAGACACACGGACCAGCCATACGGGCGTATGTC
1 CTTTGGCCGTGTGAGACACACGGACCAGCCATACGGGCGTATGTC
*
39082893 CTTTGGCCGTGTGAGACACACGGACGAGCCATACGGGCGTATGTC
1 CTTTGGCCGTGTGAGACACACGGACCAGCCATACGGGCGTATGTC
39082938 C
1 C
39082939 CCTTTATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.20, C:0.29, G:0.32, T:0.20
Consensus pattern (45 bp):
CTTTGGCCGTGTGAGACACACGGACCAGCCATACGGGCGTATGTC
Found at i:39083564 original size:28 final size:28
Alignment explanation
Indices: 39083524--39083580 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
39083514 TATTGTTGTC
39083524 GAAACAAAGGTAATTTGTTAAATTACGT
1 GAAACAAAGGTAATTTGTTAAATTACGT
39083552 GAAACAAAGGTAATTTGTTAAATTACGT
1 GAAACAAAGGTAATTTGTTAAATTACGT
39083580 G
1 G
39083581 TAGGTTTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (28 bp):
GAAACAAAGGTAATTTGTTAAATTACGT
Found at i:39093832 original size:138 final size:138
Alignment explanation
Indices: 39093584--39093856 Score: 519
Period size: 138 Copynumber: 2.0 Consensus size: 138
39093574 TAGAACTGCT
*
39093584 TTTAAGACCCTCATAGAGACATCACCATACAAACTCGTTTATGGAAAAAGTTATCATCTACCATT
1 TTTAAGACCCCCATAGAGACATCACCATACAAACTCGTTTATGGAAAAAGTTATCATCTACCATT
39093649 TGAGTTAGAACACAAAGCATTCCGGGCTATAAAATTTTTAAACTTTGATCCCAAACTTGCAAGTG
66 TGAGTTAGAACACAAAGCATTCCGGGCTATAAAATTTTTAAACTTTGATCCCAAACTTGCAAGTG
39093714 AAAACTCG
131 AAAACTCG
*
39093722 TTTAAGACCCCCATAGAGACATCACCATACAGACTCGTTTATGGAAAAAGTTATCATCTACCATT
1 TTTAAGACCCCCATAGAGACATCACCATACAAACTCGTTTATGGAAAAAGTTATCATCTACCATT
*
39093787 TGAGTTAGAACACAAAGCATTCTGGGCTATAAAATTTTTAAACTTTGATCCCAAACTTGCAAGTG
66 TGAGTTAGAACACAAAGCATTCCGGGCTATAAAATTTTTAAACTTTGATCCCAAACTTGCAAGTG
39093852 AAAAC
131 AAAAC
39093857 AGATTAATAC
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 132 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (138 bp):
TTTAAGACCCCCATAGAGACATCACCATACAAACTCGTTTATGGAAAAAGTTATCATCTACCATT
TGAGTTAGAACACAAAGCATTCCGGGCTATAAAATTTTTAAACTTTGATCCCAAACTTGCAAGTG
AAAACTCG
Found at i:39098324 original size:21 final size:21
Alignment explanation
Indices: 39098298--39098338 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
39098288 CTCGAAGTTG
39098298 AACAGAAGCTCGTAAGAGCTT
1 AACAGAAGCTCGTAAGAGCTT
39098319 AACAGAAGCTCGTAAGAGCT
1 AACAGAAGCTCGTAAGAGCT
39098339 AATCTACCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTT
Found at i:39100439 original size:31 final size:31
Alignment explanation
Indices: 39100384--39100473 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
39100374 TGCTAGCAGT
* ** *
39100384 GGTGCCGCTTGACAACGGCTCTCCTCTCC-TA
1 GGTGCCGCATGACAAAAGCCCTCCTC-CCTTA
*
39100415 GGTGCCGTATGACAAAAGCCCTCCTCCCTTA
1 GGTGCCGCATGACAAAAGCCCTCCTCCCTTA
* * *
39100446 GGTGCTGCCTGACAAAAGCTCTCCTCCC
1 GGTGCCGCATGACAAAAGCCCTCCTCCC
39100474 CTTAAAATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
30 2 0.04
31 47 0.96
ACGTcount: A:0.18, C:0.38, G:0.21, T:0.23
Consensus pattern (31 bp):
GGTGCCGCATGACAAAAGCCCTCCTCCCTTA
Found at i:39101059 original size:31 final size:31
Alignment explanation
Indices: 39101024--39101082 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
39101014 ATTTATTTTG
39101024 AAATCTAACATGGTTGTACTAAAATTTACTT
1 AAATCTAACATGGTTGTACTAAAATTTACTT
* *
39101055 AAATCTAACATGGTTGTAGTAAACTTTA
1 AAATCTAACATGGTTGTACTAAAATTTA
39101083 GTGAGTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (31 bp):
AAATCTAACATGGTTGTACTAAAATTTACTT
Found at i:39103422 original size:13 final size:13
Alignment explanation
Indices: 39103406--39103441 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
39103396 ATCTAGTCTG
*
39103406 GTTTATATTATTT
1 GTTTAAATTATTT
39103419 GTTTAAATTATTT
1 GTTTAAATTATTT
39103432 GTTTAAATTA
1 GTTTAAATTA
39103442 AATTACGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (13 bp):
GTTTAAATTATTT
Found at i:39103568 original size:24 final size:24
Alignment explanation
Indices: 39103522--39103566 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
39103512 ATTCTTTTTA
* *
39103522 TTTTATTTTTTAGAAATTTAAATC
1 TTTTACTTTTTAGAAATTAAAATC
39103546 TTTTACTTTTTA-AAATTAAAA
1 TTTTACTTTTTAGAAATTAAAA
39103567 ATTCAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTTACTTTTTAGAAATTAAAATC
Found at i:39104498 original size:28 final size:27
Alignment explanation
Indices: 39104467--39104519 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
39104457 TAAATTCAAG
*
39104467 ATTCAAAGTTTAGAGTTCAAGGTTCACA
1 ATTCAAAGTTTAG-GGTCAAGGTTCACA
*
39104495 ATTCAAAGTTTCGGGTCAAGGTTCA
1 ATTCAAAGTTTAGGGTCAAGGTTCA
39104520 GGGTCAGGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (27 bp):
ATTCAAAGTTTAGGGTCAAGGTTCACA
Found at i:39104579 original size:7 final size:7
Alignment explanation
Indices: 39104567--39104626 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
39104557 TTAGGGTTCA
39104567 AGGTTTG
1 AGGTTTG
* *
39104574 ATGTTTA
1 AGGTTTG
39104581 AGGTTTG
1 AGGTTTG
*
39104588 ACGTTTG
1 AGGTTTG
*
39104595 AGGTTTA
1 AGGTTTG
*
39104602 AGG-TTC
1 AGGTTTG
*
39104608 AAGTTTG
1 AGGTTTG
39104615 AGGTTTG
1 AGGTTTG
*
39104622 GGGTT
1 AGGTT
39104627 CAAAGTTCGA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
6 4 0.10
7 36 0.90
ACGTcount: A:0.18, C:0.03, G:0.35, T:0.43
Consensus pattern (7 bp):
AGGTTTG
Found at i:39104629 original size:20 final size:20
Alignment explanation
Indices: 39104555--39104620 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
39104545 GAGGTCTAAA
* *
39104555 GTTTAGGGTTCAAGGTTTGAT
1 GTTTAAGGTTCAA-GTTTGAG
* *
39104576 GTTTAAGGTTTGACGTTTGAG
1 GTTTAAGG-TTCAAGTTTGAG
39104597 GTTTAAGGTTCAAGTTTGAG
1 GTTTAAGGTTCAAGTTTGAG
39104617 GTTT
1 GTTT
39104621 GGGGTTCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 14 0.37
21 21 0.55
22 3 0.08
ACGTcount: A:0.20, C:0.05, G:0.32, T:0.44
Consensus pattern (20 bp):
GTTTAAGGTTCAAGTTTGAG
Found at i:39104634 original size:27 final size:27
Alignment explanation
Indices: 39104583--39104634 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
39104573 GATGTTTAAG
* *
39104583 GTTTGACGTTTGAGGTTTAAGGTTCAA
1 GTTTGACGTTTGAGGTTCAAAGTTCAA
* *
39104610 GTTTGAGGTTTGGGGTTCAAAGTTC
1 GTTTGACGTTTGAGGTTCAAAGTTC
39104635 GAGATTCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.19, C:0.08, G:0.33, T:0.40
Consensus pattern (27 bp):
GTTTGACGTTTGAGGTTCAAAGTTCAA
Found at i:39107720 original size:16 final size:17
Alignment explanation
Indices: 39107690--39107722 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
39107680 AAAGATAGAC
39107690 TTATACAATAAATATAT
1 TTATACAATAAATATAT
*
39107707 TTATA-AATATATATAT
1 TTATACAATAAATATAT
39107723 ATAAAGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TTATACAATAAATATAT
Found at i:39117724 original size:19 final size:19
Alignment explanation
Indices: 39117677--39117728 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
39117667 AAAATGATAA
39117677 AATCAAGTTAAAATGATTTC
1 AATCAAGTTAAAAT-ATTTC
**
39117697 AATTGAGTTAAAGAT-TTTC
1 AATCAAGTTAAA-ATATTTC
39117716 AATCAAGTTAAAA
1 AATCAAGTTAAAA
39117729 ATGTTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 10 0.37
21 2 0.07
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (19 bp):
AATCAAGTTAAAATATTTC
Found at i:39121125 original size:14 final size:14
Alignment explanation
Indices: 39121106--39121137 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
39121096 CTTTTAATGC
39121106 CAAAATCAAGTGAT
1 CAAAATCAAGTGAT
39121120 CAAAATCAAGTGAT
1 CAAAATCAAGTGAT
39121134 CAAA
1 CAAA
39121138 TTATTGGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (14 bp):
CAAAATCAAGTGAT
Done.