Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 163 of 228
Found at i:48932018 original size:22 final size:22
Alignment explanation
Indices: 48931993--48932036 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
48931983 TAGTGCCGTT
* *
48931993 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAGACCTA
48932015 AAAAAACGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAGACCTA
48932037 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAGACCTA
Found at i:48932166 original size:12 final size:13
Alignment explanation
Indices: 48932134--48932164 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
48932124 ATACATGTTA
48932134 AATATTTAAATTT
1 AATATTTAAATTT
48932147 AA-ATTTAAATTT
1 AATATTTAAATTT
48932159 AATATT
1 AATATT
48932165 AATTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATATTTAAATTT
Found at i:48935677 original size:28 final size:26
Alignment explanation
Indices: 48935602--48935679 Score: 129
Period size: 26 Copynumber: 2.9 Consensus size: 26
48935592 TTTGGGGTCA
48935602 CACGGTTCCCCACACGGTGTGTGTCC
1 CACGGTTCCCCACACGGTGTGTGTCC
48935628 CACGGTTCCCCACACGGTGTGTGTCC
1 CACGGTTCCCCACACGGTGTGTGTCC
*
48935654 CACGGTTGGCCCACACGGTCGTGTGT
1 CACGGTT-CCCCACACGGT-GTGTGT
48935680 TGCTATAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 33 0.67
27 10 0.20
28 6 0.12
ACGTcount: A:0.12, C:0.36, G:0.29, T:0.23
Consensus pattern (26 bp):
CACGGTTCCCCACACGGTGTGTGTCC
Found at i:48939853 original size:17 final size:17
Alignment explanation
Indices: 48939831--48939864 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48939821 TTCTAAGTTA
48939831 TGAAGGAGAATTATTCT
1 TGAAGGAGAATTATTCT
48939848 TGAAGGAGAATTATTCT
1 TGAAGGAGAATTATTCT
48939865 AACACATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (17 bp):
TGAAGGAGAATTATTCT
Found at i:48944332 original size:22 final size:23
Alignment explanation
Indices: 48944305--48944357 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
48944295 TATAAAATTT
48944305 TATAAATA-AAAAATAAAAA-AA
1 TATAAATACAAAAATAAAAATAA
* *
48944326 TATTAAATACTAAATTAAAAATAA
1 TA-TAAATACAAAAATAAAAATAA
48944350 TATAAATA
1 TATAAATA
48944358 TATTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 6 0.22
23 15 0.56
24 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (23 bp):
TATAAATACAAAAATAAAAATAA
Found at i:48944383 original size:28 final size:29
Alignment explanation
Indices: 48944336--48944390 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
48944326 TATTAAATAC
*
48944336 TAAATTAAAAATAATATAAATATATTTTT
1 TAAATTAAAAATAATATAAATAAATTTTT
48944365 TAAATT-AAAAT-ATAATAAATAAATTT
1 TAAATTAAAAATAAT-ATAAATAAATTT
48944391 AAAGTTTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 2 0.08
28 16 0.67
29 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
TAAATTAAAAATAATATAAATAAATTTTT
Found at i:48951709 original size:14 final size:15
Alignment explanation
Indices: 48951690--48951718 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48951680 ATAGTGTTTT
48951690 AAATATTT-TATTAA
1 AAATATTTATATTAA
48951704 AAATATTTATATTAA
1 AAATATTTATATTAA
48951719 TATTTTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATATTTATATTAA
Found at i:48951893 original size:29 final size:29
Alignment explanation
Indices: 48951860--48951919 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
48951850 CCAGCTCCAT
48951860 ATATCACTATATACTCATATAAACTTCAA
1 ATATCACTATATACTCATATAAACTTCAA
48951889 ATATCACTATATACTCATATAAACTTCAA
1 ATATCACTATATACTCATATAAACTTCAA
48951918 AT
1 AT
48951920 TAAATATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (29 bp):
ATATCACTATATACTCATATAAACTTCAA
Found at i:48961966 original size:13 final size:14
Alignment explanation
Indices: 48961933--48961976 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
48961923 ATATGTGAAG
*
48961933 AATATTATT-TAAA
1 AATATTATTATTAA
*
48961946 AATATTATTTTTAA
1 AATATTATTATTAA
48961960 AAT-TTATTATTAA
1 AATATTATTATTAA
48961973 AATA
1 AATA
48961977 AAATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:48961967 original size:16 final size:16
Alignment explanation
Indices: 48961935--48961974 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
48961925 ATGTGAAGAA
48961935 TATTATTTAAAAATAT
1 TATTATTTAAAAATAT
48961951 TATT-TTT-AAAAT-T
1 TATTATTTAAAAATAT
48961964 TATTA-TTAAAA
1 TATTATTTAAAA
48961975 TAAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 7 0.32
14 8 0.36
15 3 0.14
16 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTATTTAAAAATAT
Found at i:48962004 original size:20 final size:20
Alignment explanation
Indices: 48961979--48962040 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
48961969 TTAAAATAAA
48961979 ATTAAAATATTAAATAATTT
1 ATTAAAATATTAAATAATTT
*
48961999 ATTAAAATA--ACA-AATTAT
1 ATTAAAATATTAAATAATT-T
*
48962017 ATTAATTATATT-AATAATTT
1 ATTAA-AATATTAAATAATTT
48962037 ATTA
1 ATTA
48962041 TATGACTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
17 4 0.12
18 8 0.24
19 3 0.09
20 15 0.44
21 4 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAAATATTAAATAATTT
Found at i:48974663 original size:21 final size:21
Alignment explanation
Indices: 48974621--48974663 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
48974611 CTGATTCTGG
*
48974621 TGTGGGTGCATCTAGCTTTGT
1 TGTGGGTGCATCTAGCTGTGT
*
48974642 TGTGGTTGCATCTAAG-TGTGT
1 TGTGGGTGCATCT-AGCTGTGT
48974663 T
1 T
48974664 AATTGTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.12, C:0.12, G:0.33, T:0.44
Consensus pattern (21 bp):
TGTGGGTGCATCTAGCTGTGT
Found at i:48975987 original size:16 final size:17
Alignment explanation
Indices: 48975968--48976001 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
48975958 AAATATTATG
48975968 AAATAAAAAT-AAACAA
1 AAATAAAAATCAAACAA
*
48975984 AAATAAACATCAAACAA
1 AAATAAAAATCAAACAA
48976001 A
1 A
48976002 CGCCATTCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATAAAAATCAAACAA
Found at i:48977530 original size:10 final size:9
Alignment explanation
Indices: 48977507--48977577 Score: 63
Period size: 9 Copynumber: 7.7 Consensus size: 9
48977497 ATATAAATTC
48977507 AAAAAAT-A
1 AAAAAATAA
*
48977515 AGAAAATAA
1 AAAAAATAA
48977524 ATAAAAATAA
1 A-AAAAATAA
48977534 AAATAAATATA
1 AAA-AAATA-A
* * **
48977545 TATAAATCC
1 AAAAAATAA
48977554 AAAAAATAA
1 AAAAAATAA
48977563 AAAAAATAA
1 AAAAAATAA
48977572 AAAAAA
1 AAAAAA
48977578 GGGTTTGGGG
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
8 6 0.12
9 24 0.49
10 17 0.35
11 2 0.04
ACGTcount: A:0.79, C:0.03, G:0.01, T:0.17
Consensus pattern (9 bp):
AAAAAATAA
Found at i:48977550 original size:47 final size:45
Alignment explanation
Indices: 48977465--48977575 Score: 138
Period size: 47 Copynumber: 2.4 Consensus size: 45
48977455 AAAAAAGCAT
* *
48977465 AATAAAAAATACATAATAAAATAAAATAAAAGATATAAATTCAAAA
1 AATAAAAAATAAATAA-AAAATAAAATAAAAGATATAAATCCAAAA
*
48977511 AATAAGAAAATAAAT-AAAAATAAAAATAAATATATATAAATCCAAAA
1 AATAA-AAAATAAATAAAAAAT-AAAATAAA-AGATATAAATCCAAAA
48977558 AAT-AAAAA-AAATAAAAAA
1 AATAAAAAATAAATAAAAAA
48977576 AAGGGTTTGG
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
44 4 0.07
45 14 0.24
46 15 0.26
47 25 0.43
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (45 bp):
AATAAAAAATAAATAAAAAATAAAATAAAAGATATAAATCCAAAA
Found at i:48978014 original size:20 final size:21
Alignment explanation
Indices: 48977967--48978017 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
48977957 TTTGATAAAG
*
48977967 GTATCGATACCTTAGGCTTAA
1 GTATCGATACCTTAGCCTTAA
48977988 GTATCGATACC-TAGCCTTCAA
1 GTATCGATACCTTAGCCTT-AA
48978009 -TATCGATAC
1 GTATCGATAC
48978018 AAATGTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (21 bp):
GTATCGATACCTTAGCCTTAA
Found at i:48978318 original size:20 final size:20
Alignment explanation
Indices: 48978295--48978343 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
48978285 TTTCATATAG
*
48978295 AACCAAAATACTTCAAGTAA
1 AACCAAAATACCTCAAGTAA
48978315 AACCAAAATACCTCAAGTAA
1 AACCAAAATACCTCAAGTAA
48978335 AACCAAAAT
1 AACCAAAAT
48978344 GGATAGAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.57, C:0.22, G:0.04, T:0.16
Consensus pattern (20 bp):
AACCAAAATACCTCAAGTAA
Found at i:48980757 original size:23 final size:22
Alignment explanation
Indices: 48980723--48980769 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
48980713 GCAAATTAAT
*
48980723 AGAAAAAGAAGAAAGAAAAGAA
1 AGAAAAAAAAGAAAGAAAAGAA
48980745 AGAAAAATAAAGAAAGAAAAGAA
1 AGAAAAA-AAAGAAAGAAAAGAA
48980768 AG
1 AG
48980770 GAGACCGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (22 bp):
AGAAAAAAAAGAAAGAAAAGAA
Found at i:48984724 original size:113 final size:113
Alignment explanation
Indices: 48984543--48984789 Score: 449
Period size: 113 Copynumber: 2.2 Consensus size: 113
48984533 AATACATGTA
* * *
48984543 AAGGATGTATTGGTACATCTCATAAAAGTAGTTGTTGGTGACTATATTGACACCCATGTATCGAT
1 AAGGATGTATCGATACATCTCATAAAAGTAGTTGTTGGTGACTATATTGACACCCATGTATAGAT
*
48984608 ACATATAGTCATGTATTGGTACATCTAAGGGATGTACCAATATTTCTC
66 ACATATAGTCATGTATTGGTACATCTAAGGGATGTACCAATACTTCTC
*
48984656 AAGGATGTATCGATACATCTCATAAAAGTTGTTGTTGGTGACTATATTGACACCCATGTATAGAT
1 AAGGATGTATCGATACATCTCATAAAAGTAGTTGTTGGTGACTATATTGACACCCATGTATAGAT
48984721 ACATATAGTCATGTATTGGTACATCTAAGGGATGTACCAATACTTCTC
66 ACATATAGTCATGTATTGGTACATCTAAGGGATGTACCAATACTTCTC
48984769 AAGGATGTATCGATACATCTC
1 AAGGATGTATCGATACATCTC
48984790 TTTCCATTAT
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 129 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (113 bp):
AAGGATGTATCGATACATCTCATAAAAGTAGTTGTTGGTGACTATATTGACACCCATGTATAGAT
ACATATAGTCATGTATTGGTACATCTAAGGGATGTACCAATACTTCTC
Found at i:48984784 original size:21 final size:21
Alignment explanation
Indices: 48984740--48984789 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
48984730 CATGTATTGG
48984740 TACATCT-AAGGGATGTACCAA
1 TACATCTCAA-GGATGTACCAA
* * *
48984761 TACTTCTCAAGGATGTATCGA
1 TACATCTCAAGGATGTACCAA
48984782 TACATCTC
1 TACATCTC
48984790 TTTCCATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (21 bp):
TACATCTCAAGGATGTACCAA
Found at i:48991158 original size:84 final size:83
Alignment explanation
Indices: 48991024--48991210 Score: 293
Period size: 84 Copynumber: 2.2 Consensus size: 83
48991014 CTTAAGCCAT
* * * *
48991024 AAAATGGTACTTAAACTATATTGTTTTTTTTCAAGTTTGTATTTCAACTTTTATTTGGTCGAGTG
1 AAAATGGTACTTAAATTATATTCTTTTTTTTCAAGTTGGTATTTCAACTTTTATTTGGACGAGTG
48991089 GTACCTAAACTATACCAC
66 GTACCTAAACTATACCAC
*
48991107 AAAATGGTACTTAAATTATATCTCTTTTTTTTCAAGTTGGTATTTCAACTTTTTTTTGGACGAGT
1 AAAATGGTACTTAAATTATAT-TCTTTTTTTTCAAGTTGGTATTTCAACTTTTATTTGGACGAGT
* *
48991172 GGTGCCTAAATTATACCAC
65 GGTACCTAAACTATACCAC
*
48991191 AAAATGGTACCTAAATTATA
1 AAAATGGTACTTAAATTATA
48991211 AAAAATTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 20 0.21
84 75 0.79
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (83 bp):
AAAATGGTACTTAAATTATATTCTTTTTTTTCAAGTTGGTATTTCAACTTTTATTTGGACGAGTG
GTACCTAAACTATACCAC
Found at i:48996377 original size:44 final size:44
Alignment explanation
Indices: 48996314--48996402 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
48996304 AGGAACCACT
48996314 TTCTCAACAAAAATAAATTAAAATGCAAAAGTAGATGATATCTA
1 TTCTCAACAAAAATAAATTAAAATGCAAAAGTAGATGATATCTA
48996358 TTCTCAACAAAAATAAATTAAAATGCAAAAGTAGATGATATCTA
1 TTCTCAACAAAAATAAATTAAAATGCAAAAGTAGATGATATCTA
48996402 T
1 T
48996403 GTTTCTTGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (44 bp):
TTCTCAACAAAAATAAATTAAAATGCAAAAGTAGATGATATCTA
Found at i:49000758 original size:18 final size:17
Alignment explanation
Indices: 49000712--49000765 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
49000702 TTTCCAATTC
*
49000712 TCAATTCAAATTGACTT
1 TCAATTCAAATTCACTT
* *
49000729 TCATTTCAAAATTTACTT
1 TCAATTC-AAATTCACTT
49000747 TCAATATCAAATTCACTT
1 TCAAT-TCAAATTCACTT
49000765 T
1 T
49000766 TTCATTTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 6 0.19
18 23 0.74
19 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (17 bp):
TCAATTCAAATTCACTT
Found at i:49000843 original size:2 final size:2
Alignment explanation
Indices: 49000836--49000870 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
49000826 TAACAATAGA
49000836 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
49000871 TAATATCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:49002016 original size:18 final size:17
Alignment explanation
Indices: 49001989--49002042 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
49001979 TAAAAATGAA
49001989 AAAGTGAATTTGATATTG
1 AAAGTGAATTTGA-ATTG
* *
49002007 AAAGTAAATTTTGAAATG
1 AAAGTGAA-TTTGAATTG
49002025 AAAGTGAATTTGAATTG
1 AAAGTGAATTTGAATTG
49002042 A
1 A
49002043 GAATTGGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 9 0.29
18 17 0.55
19 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.35
Consensus pattern (17 bp):
AAAGTGAATTTGAATTG
Found at i:49002767 original size:66 final size:66
Alignment explanation
Indices: 49002656--49002783 Score: 170
Period size: 66 Copynumber: 1.9 Consensus size: 66
49002646 GCAGTATAGA
* * * *
49002656 TACAAATGTAAGACCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAATTGGATTATGACA
1 TACAAATGTAAGACCATAGCAGGGCCATGGCATACTGATGATAAGACCATAATTGGACTATGACA
49002721 T
66 T
* *
49002722 TACAAATGTAAGACCATGGCAGGGCCATGGCAATACATG-TG-TAAGACCATAGTTGGACTATG
1 TACAAATGTAAGACCATAGCAGGGCCATGGC-ATAC-TGATGATAAGACCATAATTGGACTATG
49002784 GCACAAAAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
66 47 0.87
67 5 0.09
68 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (66 bp):
TACAAATGTAAGACCATAGCAGGGCCATGGCATACTGATGATAAGACCATAATTGGACTATGACA
T
Found at i:49002785 original size:33 final size:33
Alignment explanation
Indices: 49002662--49002786 Score: 92
Period size: 33 Copynumber: 3.8 Consensus size: 33
49002652 TAGATACAAA
* *
49002662 TGTAAGACCATAGCTGGGCTATGGC-ATTC-TG
1 TGTAAGACCATAGCTGGACTATGGCAATACATG
** * * * **
49002693 ATGATAAGACCATAATTGGATTATGACATTACAAA
1 -TG-TAAGACCATAGCTGGACTATGGCAATACATG
* * * *
49002728 TGTAAGACCATGGCAGGGCCATGGCAATACATG
1 TGTAAGACCATAGCTGGACTATGGCAATACATG
*
49002761 TGTAAGACCATAGTTGGACTATGGCA
1 TGTAAGACCATAGCTGGACTATGGCA
49002787 CAAAAAGGAC
Statistics
Matches: 65, Mismatches: 25, Indels: 5
0.68 0.26 0.05
Matches are distributed among these distances:
32 2 0.03
33 59 0.91
34 4 0.06
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (33 bp):
TGTAAGACCATAGCTGGACTATGGCAATACATG
Found at i:49006378 original size:39 final size:39
Alignment explanation
Indices: 49006334--49006408 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
49006324 TGTTTTCGAA
*
49006334 TATTGTGACATATGCTTAAATGTTATGTGATTATATGAG
1 TATTGTGACATATGCTTAAATGTTAGGTGATTATATGAG
* **
49006373 TATTGTGATATATGCTTTTATGTTAGGTGATTATAT
1 TATTGTGACATATGCTTAAATGTTAGGTGATTATAT
49006409 AGGTCGTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (39 bp):
TATTGTGACATATGCTTAAATGTTAGGTGATTATATGAG
Found at i:49006421 original size:39 final size:39
Alignment explanation
Indices: 49006343--49006428 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
49006333 ATATTGTGAC
* * *
49006343 ATATGCTTAAATGTTATGTGATTATATGAGTATTGTGAT
1 ATATGCTTAAATGTTAGGTGATTATATGAGTAGTATGAT
** *
49006382 ATATGCTTTTATGTTAGGTGATTATAT-AGGTCGTATGAT
1 ATATGCTTAAATGTTAGGTGATTATATGA-GTAGTATGAT
49006421 ATATGCTT
1 ATATGCTT
49006429 GAAACTGAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
38 1 0.03
39 39 0.98
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.47
Consensus pattern (39 bp):
ATATGCTTAAATGTTAGGTGATTATATGAGTAGTATGAT
Found at i:49012305 original size:50 final size:50
Alignment explanation
Indices: 49012214--49012308 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
49012204 ATTTGTCACA
*
49012214 TAGGCCTTTCAAATAACTCCCCACAAGGACTTTCTTAATAATATGCCATG
1 TAGGCCTTTCAAATAACTCCCCACAAGGACTTTCTCAATAATATGCCATG
* *
49012264 TAGGCCTTTCAGATAACTCGCCACAAAGG-CTTT-TCAGATAATATG
1 TAGGCCTTTCAAATAACTCCCCAC-AAGGACTTTCTCA-ATAATATG
49012309 TCACGTGGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
49 2 0.05
50 34 0.85
51 4 0.10
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (50 bp):
TAGGCCTTTCAAATAACTCCCCACAAGGACTTTCTCAATAATATGCCATG
Found at i:49012333 original size:76 final size:76
Alignment explanation
Indices: 49012244--49012398 Score: 202
Period size: 76 Copynumber: 2.0 Consensus size: 76
49012234 CCACAAGGAC
* * * *
49012244 TTTCTTAATAATATGCCATGTAGGCCTTTCAGATAACTCGCCACAAAGGCTTTTCAGATAATATG
1 TTTCTAAATAATATGCCATATAAGCCTTTCAGATAACTCACCACAAAGGCTTTTCAGATAATATG
* * *
49012309 TCACGTGGGCT
66 CCACATAGGCT
* * * * *
49012320 TTTCTAAATAATATGCCATATAAGTCTTTCTGATAACTTACCACAAATGCTTTTTAGATAATATG
1 TTTCTAAATAATATGCCATATAAGCCTTTCAGATAACTCACCACAAAGGCTTTTCAGATAATATG
49012385 CCACATAGGCT
66 CCACATAGGCT
49012396 TTT
1 TTT
49012399 TAGATAACTC
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (76 bp):
TTTCTAAATAATATGCCATATAAGCCTTTCAGATAACTCACCACAAAGGCTTTTCAGATAATATG
CCACATAGGCT
Found at i:49012379 original size:25 final size:26
Alignment explanation
Indices: 49012351--49012407 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
49012341 AAGTCTTTCT
*
49012351 GATAACT-TACCACAAATGCTTTTTA
1 GATAACTATACCACAAAGGCTTTTTA
* *
49012376 GATAA-TATGCCACATAGGCTTTTTA
1 GATAACTATACCACAAAGGCTTTTTA
49012401 GATAACT
1 GATAACT
49012408 CGTCATAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 25 0.93
26 1 0.04
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (26 bp):
GATAACTATACCACAAAGGCTTTTTA
Found at i:49013740 original size:16 final size:16
Alignment explanation
Indices: 49013721--49013752 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49013711 TTTCTTCCTC
49013721 AAGCGTACTCTTTCTT
1 AAGCGTACTCTTTCTT
*
49013737 AAGCGTAGTCTTTCTT
1 AAGCGTACTCTTTCTT
49013753 CACTTGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.44
Consensus pattern (16 bp):
AAGCGTACTCTTTCTT
Found at i:49018013 original size:85 final size:85
Alignment explanation
Indices: 49017860--49018059 Score: 294
Period size: 85 Copynumber: 2.4 Consensus size: 85
49017850 ATCCATTACT
* * * * *
49017860 CGGTGGATTCAGCATTTAGCAACCACC-TTAAATTTAGTGATACGGGGAATCAGCACATAGCAAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGAGAAATCAGCACATAGCAAA
**
49017924 CCCTTTCACGGTCAAATATA
66 CCCTTTCACAATCAAATATA
* * * *
49017944 GGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGAGAAATCAGCACATAGCCAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGAGAAATCAGCACATAGCAAA
49018009 CCCTTTCACAATCAAATATA
66 CCCTTTCACAATCAAATATA
49018029 CGGTGGAATCAGCACTTAGCAACCACCTTTA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTA
49018060 GAATCGATAA
Statistics
Matches: 103, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 24 0.23
85 79 0.77
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGAGAAATCAGCACATAGCAAA
CCCTTTCACAATCAAATATA
Found at i:49018030 original size:42 final size:43
Alignment explanation
Indices: 49017899--49018058 Score: 148
Period size: 43 Copynumber: 3.7 Consensus size: 43
49017889 AAATTTAGTG
* * **
49017899 ATACGGGGAATCAGCACATAGCAAAC-CCTTTCACGGTCAAAT
1 ATACGTGGAATCAGCACATAGCAACCACCTTTCACAATCAAAT
* * * * *
49017941 ATAGGGTGGAATCAGCACTTAGCAACCACCTTT-ATATTC-AGT
1 ATA-CGTGGAATCAGCACATAGCAACCACCTTTCACAATCAAAT
* * *
49017983 GATACGAGAAATCAGCACATAGCCACC-CCTTTCACAATCAAAT
1 -ATACGTGGAATCAGCACATAGCAACCACCTTTCACAATCAAAT
*
49018026 ATACGGTGGAATCAGCACTTAGCAACCACCTTT
1 ATAC-GTGGAATCAGCACATAGCAACCACCTTT
49018059 AGAATCGATA
Statistics
Matches: 91, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
41 5 0.05
42 31 0.34
43 45 0.49
44 10 0.11
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
ATACGTGGAATCAGCACATAGCAACCACCTTTCACAATCAAAT
Found at i:49018111 original size:25 final size:26
Alignment explanation
Indices: 49018073--49018122 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
49018063 TCGATAATTT
49018073 GGGGAATCAGCACTTAAC-ACCCCTC
1 GGGGAATCAGCACTTAACGACCCCTC
*
49018098 GGGGAATCTA-CACTTAGCGACCCCT
1 GGGGAATC-AGCACTTAACGACCCCT
49018123 TTTTATCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.26, C:0.34, G:0.22, T:0.18
Consensus pattern (26 bp):
GGGGAATCAGCACTTAACGACCCCTC
Found at i:49018494 original size:30 final size:30
Alignment explanation
Indices: 49018459--49018516 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
49018449 TCCTTAACTC
49018459 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
49018489 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTGGCAAAATTACAATTTTGCCC
49018517 TAAGCTCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:49023862 original size:11 final size:11
Alignment explanation
Indices: 49023846--49023890 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
49023836 CTTAATAACT
49023846 TTAATATTAAA
1 TTAATATTAAA
49023857 TTAATA-TAAA
1 TTAATATTAAA
* *
49023867 TATTATATTAAT
1 T-TAATATTAAA
49023879 TTAATATTAAA
1 TTAATATTAAA
49023890 T
1 T
49023891 CTCATTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 5 0.18
11 19 0.68
12 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:49023882 original size:5 final size:6
Alignment explanation
Indices: 49023846--49023888 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
49023836 CTTAATAACT
*
49023846 TTAATA TTAA-A TTAATA TAAATA TT-ATA TTAAT- TTAATA TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAA
49023889 ATCTCATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 15 0.47
6 17 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TTAATA
Found at i:49024098 original size:23 final size:23
Alignment explanation
Indices: 49024064--49024111 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
49024054 CAACCATCGC
* **
49024064 CAGCCACTGGAACGTCGCTGTTG
1 CAGCCACCGGAACACCGCTGTTG
49024087 CAGCCACCGGAACACCGCTGTTG
1 CAGCCACCGGAACACCGCTGTTG
49024110 CA
1 CA
49024112 CCCATCGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.35, G:0.27, T:0.17
Consensus pattern (23 bp):
CAGCCACCGGAACACCGCTGTTG
Found at i:49028080 original size:68 final size:68
Alignment explanation
Indices: 49028008--49028153 Score: 181
Period size: 68 Copynumber: 2.1 Consensus size: 68
49027998 GGGTAAGAAT
* *
49028008 CCATGTTTAATGTCTTGGCGAACT-C-TATATGTATCCAAATGT-GAGCTATGATCTTACACATT
1 CCATGTTTAATGTCCTAGCGAACTCCATATAT-TAT-CAAA-GTCGAGCTATGATCTTACACATT
49028070 TTAACC
63 TTAACC
* * * * *
49028076 CCATGTTTAATGTCCTAGTGAACTCCATATATTGTCATAGTCGAGTTATGGTCTTACACATTTTA
1 CCATGTTTAATGTCCTAGCGAACTCCATATATTATCAAAGTCGAGCTATGATCTTACACATTTTA
49028141 ACC
66 ACC
49028144 CCATGTTTAA
1 CCATGTTTAA
49028154 CACCCTTGCG
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
67 2 0.03
68 58 0.85
69 3 0.04
70 5 0.07
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (68 bp):
CCATGTTTAATGTCCTAGCGAACTCCATATATTATCAAAGTCGAGCTATGATCTTACACATTTTA
ACC
Found at i:49041219 original size:28 final size:28
Alignment explanation
Indices: 49041187--49041240 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
49041177 CAGTAACAGT
*
49041187 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTAAGCCCAATACAGAA
49041215 ACAGTGTGGGCCTAAGCCCAATACAG
1 ACAGTGTGGGCCTAAGCCCAATACAG
49041241 TATCAGTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.17
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCAATACAGAA
Found at i:49041247 original size:28 final size:27
Alignment explanation
Indices: 49041182--49041247 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 27
49041172 CTTAACAGTA
*
49041182 ACAGTACAGTGTGGGCCTTAGCCCAAT
1 ACAGTACAGTGTGGGCCTAAGCCCAAT
*
49041209 ACAGAAACAGTGTGGGCCTAAGCCCAAT
1 ACAG-TACAGTGTGGGCCTAAGCCCAAT
49041237 ACAGTATCAGT
1 ACAGTA-CAGT
49041248 ATGGTGCAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 5 0.15
28 29 0.85
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (27 bp):
ACAGTACAGTGTGGGCCTAAGCCCAAT
Found at i:49041566 original size:64 final size:64
Alignment explanation
Indices: 49041457--49041615 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 64
49041447 TAATTTGATT
* * *
49041457 GGCACAAAGCCATCAG-AAGCAGTGATATGACCGACACGCAGCCATCAGTAACGGTAACATGAAC
1 GGCACAAAGCCATCAGTAA-CAGTGATATGATCGACACACAACCATCAGTAACGGTAACATGAAC
** * * * **
49041521 GGCACAAAGCCATCAGTAACAGTGATATGATCGGTACACAACCATCAGTAATGGTGATATGATT
1 GGCACAAAGCCATCAGTAACAGTGATATGATCGACACACAACCATCAGTAACGGTAACATGAAC
* * * *
49041585 GGCACACAGCCATCGGTAATAGTAATATGAT
1 GGCACAAAGCCATCAGTAACAGTGATATGAT
49041616 TGGAAAAAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
64 78 0.98
65 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (64 bp):
GGCACAAAGCCATCAGTAACAGTGATATGATCGACACACAACCATCAGTAACGGTAACATGAAC
Found at i:49041604 original size:32 final size:32
Alignment explanation
Indices: 49041452--49041618 Score: 138
Period size: 32 Copynumber: 5.2 Consensus size: 32
49041442 TTCAGTAATT
* *
49041452 TGATTGGCACAAAGCCATCAG-AAGCAGTGATA
1 TGATTGGCACACAGCCATCAGTAA-TAGTGATA
** * * ** * *
49041484 TGACCGACACGCAGCCATCAGTAACGGTAACA
1 TGATTGGCACACAGCCATCAGTAATAGTGATA
** * *
49041516 TGAACGGCACAAAGCCATCAGTAACAGTGATA
1 TGATTGGCACACAGCCATCAGTAATAGTGATA
* * * *
49041548 TGATCGGTACACAACCATCAGTAATGGTGATA
1 TGATTGGCACACAGCCATCAGTAATAGTGATA
* *
49041580 TGATTGGCACACAGCCATCGGTAATAGTAATA
1 TGATTGGCACACAGCCATCAGTAATAGTGATA
49041612 TGATTGG
1 TGATTGG
49041619 AAAAAATCTA
Statistics
Matches: 107, Mismatches: 27, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
32 105 0.98
33 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (32 bp):
TGATTGGCACACAGCCATCAGTAATAGTGATA
Found at i:49042295 original size:26 final size:27
Alignment explanation
Indices: 49042013--49042288 Score: 283
Period size: 27 Copynumber: 10.4 Consensus size: 27
49042003 TTACCTTATT
* * * *
49042013 AGGGTATTTCGATAATTTTATCCTTTG
1 AGGGTATTTCAATAATTTTACCCATCG
* * *
49042040 GGGGTATTTCGATAATTTTACCTATCG
1 AGGGTATTTCAATAATTTTACCCATCG
* ** *
49042067 TGGGTATTTTGATAATTTTACCCATCA
1 AGGGTATTTCAATAATTTTACCCATCG
* *
49042094 AGGGTATTTCAATAATTTTACACTTCG
1 AGGGTATTTCAATAATTTTACCCATCG
* * *
49042121 ACGGTATTTCAATAATTTTACCTATAG
1 AGGGTATTTCAATAATTTTACCCATCG
* ** *
49042148 AAGGTATTTCGGTAATTTTACCCATCA
1 AGGGTATTTCAATAATTTTACCCATCG
* *
49042175 AGGGTATTTCAGTAA-TTTACCCATTG
1 AGGGTATTTCAATAATTTTACCCATCG
*
49042201 AGGGTATTTCAATAA-TTTACCCATTG
1 AGGGTATTTCAATAATTTTACCCATCG
49042227 AGGGTATCTT-AATAA-TTTACCCATCG
1 AGGGTAT-TTCAATAATTTTACCCATCG
* *
49042253 AGGGTATTTCAGTAA-TTTACCCATCA
1 AGGGTATTTCAATAATTTTACCCATCG
49042279 AGGGTATTTC
1 AGGGTATTTC
49042289 GGTAATTCAG
Statistics
Matches: 213, Mismatches: 34, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
25 2 0.01
26 87 0.41
27 124 0.58
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAATAATTTTACCCATCG
Found at i:49045775 original size:16 final size:16
Alignment explanation
Indices: 49045751--49045781 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49045741 TAATTCTGAG
*
49045751 CATGGCATACTGCATA
1 CATGACATACTGCATA
49045767 CATGACATACTGCAT
1 CATGACATACTGCAT
49045782 GGGGTTGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (16 bp):
CATGACATACTGCATA
Found at i:49046851 original size:28 final size:28
Alignment explanation
Indices: 49046800--49046853 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
49046790 CAGTAACAGT
* *
49046800 ACAGTGTGGGCCTTAGCCTAATACAGAA
1 ACAGTGTGGGCCTAAGCCCAATACAGAA
*
49046828 ACAGTGTGGGCCTAAGCCCGATACAG
1 ACAGTGTGGGCCTAAGCCCAATACAG
49046854 TATCAGTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.24, G:0.28, T:0.19
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCAATACAGAA
Found at i:49046860 original size:28 final size:27
Alignment explanation
Indices: 49046795--49046860 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
49046785 TTTAACAGTA
* *
49046795 ACAGTACAGTGTGGGCCTTAGCCTAAT
1 ACAGTACAGTGTGGGCCTAAGCCCAAT
* *
49046822 ACAGAAACAGTGTGGGCCTAAGCCCGAT
1 ACAG-TACAGTGTGGGCCTAAGCCCAAT
49046850 ACAGTATCAGT
1 ACAGTA-CAGT
49046861 ATGGTGCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (27 bp):
ACAGTACAGTGTGGGCCTAAGCCCAAT
Found at i:49047100 original size:32 final size:32
Alignment explanation
Indices: 49047057--49047154 Score: 115
Period size: 32 Copynumber: 3.1 Consensus size: 32
49047047 GCCATAACTA
* *
49047057 CAGTAATATGATTGGTACAAAGCCATCAGTAG
1 CAGTAATATGATAGGCACAAAGCCATCAGTAG
* * * *
49047089 CAGTGATATGATCGGCACACAGCCATCAGTAA
1 CAGTAATATGATAGGCACAAAGCCATCAGTAG
* * *
49047121 CGGTAATATGATAGACACAAAGCTATCAGTAG
1 CAGTAATATGATAGGCACAAAGCCATCAGTAG
49047153 CA
1 CA
49047155 TCGTAGCAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (32 bp):
CAGTAATATGATAGGCACAAAGCCATCAGTAG
Found at i:49047201 original size:27 final size:27
Alignment explanation
Indices: 49047169--49047232 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
49047159 AGCAAAGCTG
*
49047169 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
*
49047196 CTAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
49047223 CCAGT-ACAGT
1 CCAGTAACAGT
49047233 ACTTCCTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 7 0.22
27 23 0.72
28 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:49047329 original size:24 final size:23
Alignment explanation
Indices: 49047297--49047355 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
49047287 CCATGCTTAG
49047297 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATTCAAA-CACAGACA
* *
49047321 AATCAGTCATACCAAACATAGACA
1 AATCAGTCAT-TCAAACACAGACA
49047345 AATCAGTCATT
1 AATCAGTCATT
49047356 TGACCTCGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.46, C:0.24, G:0.08, T:0.22
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:49047433 original size:27 final size:27
Alignment explanation
Indices: 49047395--49047626 Score: 293
Period size: 27 Copynumber: 8.6 Consensus size: 27
49047385 CCACCAGGAC
*
49047395 ATTACAGTTATTTTACCCTACAGGGGT
1 ATTACGGTTATTTTACCCTACAGGGGT
* * *
49047422 ATTACTGTTATTTTAACCTACAGGGGC
1 ATTACGGTTATTTTACCCTACAGGGGT
49047449 ATTACGGTTATTTTACCCTACAGGGGT
1 ATTACGGTTATTTTACCCTACAGGGGT
* * *
49047476 ATTATGGTTATTTTACCCTACAGAGGC
1 ATTACGGTTATTTTACCCTACAGGGGT
* *
49047503 ATTACGGTCATTTTACCATACAGGGGT
1 ATTACGGTTATTTTACCCTACAGGGGT
* *
49047530 ATTACGGTTATTTTACCCTACAAGGGC
1 ATTACGGTTATTTTACCCTACAGGGGT
* * **
49047557 ATTACGGTCATTTTATCCTACAGCAGT
1 ATTACGGTTATTTTACCCTACAGGGGT
* * *
49047584 ACTACGGTCATTTTACCCTACAGGGTT
1 ATTACGGTTATTTTACCCTACAGGGGT
*
49047611 ATTACGGTCATTTTAC
1 ATTACGGTTATTTTAC
49047627 AACCTTTCCG
Statistics
Matches: 175, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 175 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
ATTACGGTTATTTTACCCTACAGGGGT
Found at i:49048637 original size:32 final size:32
Alignment explanation
Indices: 49048587--49048733 Score: 132
Period size: 32 Copynumber: 4.6 Consensus size: 32
49048577 TTTAGTAATG
* * * *
49048587 TGATTGGCACAAAACCATCAGTAGCAGTGATA
1 TGATCGGCACACAGCCATCAGTAACAGTGATA
* * *
49048619 TGATCGGCACACAGCCATCAGTAACGGTAACA
1 TGATCGGCACACAGCCATCAGTAACAGTGATA
* * * *
49048651 TGATCGGCATAAAGCCATCAGTAGCAGGGATA
1 TGATCGGCACACAGCCATCAGTAACAGTGATA
* * * **
49048683 TGACCAGCACACAGCCATCGGTAATGGTGATA
1 TGATCGGCACACAGCCATCAGTAACAGTGATA
* *
49048715 TGACCGGCACACATCCATC
1 TGATCGGCACACAGCCATC
49048734 GATAAAGGTA
Statistics
Matches: 90, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 90 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.18
Consensus pattern (32 bp):
TGATCGGCACACAGCCATCAGTAACAGTGATA
Found at i:49048683 original size:64 final size:64
Alignment explanation
Indices: 49048587--49048725 Score: 179
Period size: 64 Copynumber: 2.2 Consensus size: 64
49048577 TTTAGTAATG
* * * *
49048587 TGATTGGCACAAAACCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACA
1 TGATCGGCACAAAACCATCAGTAGCAGGGATATGACCAGCACACAGCCATCAGTAACGGTAACA
* * * * * *
49048651 TGATCGGCATAAAGCCATCAGTAGCAGGGATATGACCAGCACACAGCCATCGGTAATGGTGATA
1 TGATCGGCACAAAACCATCAGTAGCAGGGATATGACCAGCACACAGCCATCAGTAACGGTAACA
*
49048715 TGACCGGCACA
1 TGATCGGCACA
49048726 CATCCATCGA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (64 bp):
TGATCGGCACAAAACCATCAGTAGCAGGGATATGACCAGCACACAGCCATCAGTAACGGTAACA
Found at i:49048734 original size:32 final size:31
Alignment explanation
Indices: 49048587--49048757 Score: 123
Period size: 32 Copynumber: 5.4 Consensus size: 31
49048577 TTTAGTAATG
* * *
49048587 TGATTGGCACAAAACCATCAGT-AGCAGTGATA
1 TGATCGGCACACAGCCATCAGTAAG--GTGATA
* *
49048619 TGATCGGCACACAGCCATCAGTAACGGTAACA
1 TGATCGGCACACAGCCATCAGTAA-GGTGATA
* *
49048651 TGATCGGCATAAAGCCATCAGTAGCAGG-GATA
1 TGATCGGCACACAGCCATCAGTA--AGGTGATA
* * *
49048683 TGACCAGCACACAGCCATCGGTAATGGTGATA
1 TGATCGGCACACAGCCATCAGTAA-GGTGATA
* * * *
49048715 TGACCGGCACACATCCATC-GATAAAGGTAAAA
1 TGATCGGCACACAGCCATCAG-T-AAGGTGATA
49048747 TGATCGGCACA
1 TGATCGGCACA
49048758 TCCCTCTACA
Statistics
Matches: 112, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
30 1 0.01
31 3 0.03
32 101 0.90
33 5 0.04
34 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (31 bp):
TGATCGGCACACAGCCATCAGTAAGGTGATA
Found at i:49049492 original size:21 final size:21
Alignment explanation
Indices: 49049467--49049506 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49049457 TTATTTGGAC
* *
49049467 TTTTAACCGACACTTATAATT
1 TTTTAACCAACACATATAATT
49049488 TTTTAACCAACACATATAA
1 TTTTAACCAACACATATAA
49049507 CTTATCCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.38
Consensus pattern (21 bp):
TTTTAACCAACACATATAATT
Found at i:49061640 original size:63 final size:61
Alignment explanation
Indices: 49061567--49061744 Score: 185
Period size: 63 Copynumber: 2.8 Consensus size: 61
49061557 CTCAAATATA
* * * * * *
49061567 AACTTAGTGAGTCATACGACCTGGACACAAGTCCATATGTCTCACTCGTGTGACTCTAACATG
1 AACTCAGTGAGTTACACG-CCTGGACACATG-CCGTGTGTCTCACTCGTGTGACTCTAACATG
* * * * **
49061630 AACTCAGTGAGTTACACGGCTCGAACACATGCTCGTGTTTCTCACCCGTGTGACTCTAGTATG
1 AACTCAGTGAGTTACACGCCT-GGACACATGC-CGTGTGTCTCACTCGTGTGACTCTAACATG
*
49061693 AACTCAGTGAGTTACACGGCCTGGACACATGCCCGTGTGTCTCACTTGTGTG
1 AACTCAGTGAGTTACAC-GCCTGGACACATG-CCGTGTGTCTCACTCGTGTG
49061745 GCCCCTACAT
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
62 3 0.03
63 87 0.93
64 4 0.04
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (61 bp):
AACTCAGTGAGTTACACGCCTGGACACATGCCGTGTGTCTCACTCGTGTGACTCTAACATG
Found at i:49074958 original size:4 final size:4
Alignment explanation
Indices: 49074949--49074975 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
49074939 ACTTCATACA
49074949 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
49074976 AGTAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:49079498 original size:37 final size:36
Alignment explanation
Indices: 49079439--49079513 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
49079429 TCAATTTCAC
*
49079439 AATTCTATTGTTCTTAAATATCACAGATTCAACTGAT
1 AATTCTATGGTTCTTAAATATCACAGATTCAA-TGAT
* * *
49079476 AATTTTATGGTTCTTCAGTATCACAGATTCAATGAT
1 AATTCTATGGTTCTTAAATATCACAGATTCAATGAT
49079512 AA
1 AA
49079514 GTGAGGAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
36 6 0.18
37 28 0.82
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (36 bp):
AATTCTATGGTTCTTAAATATCACAGATTCAATGAT
Found at i:49100295 original size:18 final size:19
Alignment explanation
Indices: 49100254--49100295 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
49100244 ATTTTTATAA
*
49100254 ATATTTTTGTTATATAATT
1 ATATTTTTGTTACATAATT
49100273 ATATTTTT-TTACAGTAATT
1 ATATTTTTGTTACA-TAATT
49100292 -TATT
1 ATATT
49100296 GGTGTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
ATATTTTTGTTACATAATT
Found at i:49102496 original size:11 final size:11
Alignment explanation
Indices: 49102482--49102506 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49102472 GAGAACGTCC
49102482 AAAGAAAATAA
1 AAAGAAAATAA
49102493 AAAGAAAATAA
1 AAAGAAAATAA
49102504 AAA
1 AAA
49102507 TCAAAATAAT
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAGAAAATAA
Found at i:49104447 original size:16 final size:16
Alignment explanation
Indices: 49104428--49104458 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49104418 ATATTAATGT
*
49104428 TATTTAATTTTAAAAA
1 TATTTAATATTAAAAA
49104444 TATTTAATATTAAAA
1 TATTTAATATTAAAA
49104459 TAATACAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:49106081 original size:18 final size:18
Alignment explanation
Indices: 49106056--49106114 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
49106046 TATTCATACA
49106056 TTAA-TTCATCAACATAT
1 TTAATTTCATCAACATAT
*
49106073 TTAATTTCAT-AACAAAAT
1 TTAATTTCATCAAC-ATAT
*
49106091 ATAAATTGTCCATCAACATAT
1 -TTAATT-T-CATCAACATAT
49106112 TTA
1 TTA
49106115 GAAGGAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
17 7 0.22
18 8 0.25
19 5 0.16
20 3 0.09
21 6 0.19
22 3 0.09
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (18 bp):
TTAATTTCATCAACATAT
Found at i:49107891 original size:3 final size:3
Alignment explanation
Indices: 49107883--49107971 Score: 117
Period size: 3 Copynumber: 30.0 Consensus size: 3
49107873 TTTATTACTG
* **
49107883 TTA TTA TTA TTA TTA ATA CCA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
49107931 TTA TTA TCA TTA TTA TTA ATA -CA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49107972 AATTATTTTA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
2 1 0.01
3 74 0.99
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:49110392 original size:17 final size:17
Alignment explanation
Indices: 49110365--49110410 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
49110355 CCGATATAAT
* * *
49110365 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
49110382 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
49110399 AAATATTTTTAA
1 AAATATTTTTAA
49110411 AATACTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:49110755 original size:14 final size:14
Alignment explanation
Indices: 49110733--49110771 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
49110723 AAACAGTTAA
*
49110733 TTAAATTATTTTAT
1 TTAATTTATTTTAT
*
49110747 TTAATTTATATTAT
1 TTAATTTATTTTAT
49110761 TTAATTATATT
1 TTAATT-TATT
49110772 GTACATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTAATTTATTTTAT
Found at i:49111700 original size:18 final size:18
Alignment explanation
Indices: 49111677--49111748 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
49111667 ACCAGCCTCA
49111677 AATGTATCCTCCTCCACT
1 AATGTATCCTCCTCCACT
*
49111695 AATGTATCACCCACCTCCACCT
1 AATGTAT---CCTCCTCCA-CT
* *
49111717 CACATGTATCCTCCTCCTCA
1 -A-ATGTATCCTCCTCCACT
*
49111737 AATATATCCTCC
1 AATGTATCCTCC
49111749 ATATCAATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
18 17 0.40
19 1 0.02
20 1 0.02
21 15 0.35
22 2 0.05
23 1 0.02
24 6 0.14
ACGTcount: A:0.25, C:0.42, G:0.04, T:0.29
Consensus pattern (18 bp):
AATGTATCCTCCTCCACT
Found at i:49111735 original size:24 final size:22
Alignment explanation
Indices: 49111683--49111735 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
49111673 CTCAAATGTA
49111683 TCCTCCTCCACTAATGTATCAC
1 TCCTCCTCCACTAATGTATCAC
*
49111705 -CCACCTCCACCTCACATGTATC-C
1 TCCTCCTCCA-CT-A-ATGTATCAC
49111728 TCCTCCTC
1 TCCTCCTC
49111736 AAATATATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 8 0.32
22 2 0.08
23 2 0.08
24 13 0.52
ACGTcount: A:0.19, C:0.49, G:0.04, T:0.28
Consensus pattern (22 bp):
TCCTCCTCCACTAATGTATCAC
Found at i:49113561 original size:36 final size:37
Alignment explanation
Indices: 49113498--49113568 Score: 126
Period size: 36 Copynumber: 1.9 Consensus size: 37
49113488 ACATTAACAG
49113498 AACACCATTAACAGCAAAAATCAAAATCACAACCATT
1 AACACCATTAACAGCAAAAATCAAAATCACAACCATT
*
49113535 AACAGCATTAACAGC-AAAATCAAAATCACAACCA
1 AACACCATTAACAGCAAAAATCAAAATCACAACCA
49113569 ACATCAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 19 0.58
37 14 0.42
ACGTcount: A:0.55, C:0.27, G:0.04, T:0.14
Consensus pattern (37 bp):
AACACCATTAACAGCAAAAATCAAAATCACAACCATT
Found at i:49114989 original size:16 final size:16
Alignment explanation
Indices: 49114968--49115000 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49114958 CGTTTGATTC
49114968 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
49114984 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
49115000 G
1 G
49115001 GCATAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:49116298 original size:11 final size:11
Alignment explanation
Indices: 49116281--49116339 Score: 75
Period size: 11 Copynumber: 5.2 Consensus size: 11
49116271 TACTGTTTAT
49116281 TTATATTATTA
1 TTATATTATTA
*
49116292 CTATATTATTA
1 TTATATTATTA
49116303 TTAGT-TTATTA
1 TTA-TATTATTA
49116314 TTATATTATATA
1 TTATATTAT-TA
49116326 TTATAATTATTA
1 TTAT-ATTATTA
49116338 TT
1 TT
49116340 CTTATTTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
10 1 0.02
11 25 0.60
12 11 0.26
13 5 0.12
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (11 bp):
TTATATTATTA
Found at i:49116301 original size:3 final size:3
Alignment explanation
Indices: 49116284--49116345 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
49116274 TGTTTATTTA
* *
49116284 TAT TAT TAC TA- TAT TAT TAT TAG T-T TAT TAT TA- TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
49116327 TAT AAT TAT TAT TCT TAT T
1 TAT TAT TAT TAT TAT TAT T
49116346 TATATATGCG
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
2 5 0.10
3 40 0.83
4 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:49116303 original size:14 final size:14
Alignment explanation
Indices: 49116284--49116329 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
49116274 TGTTTATTTA
49116284 TATTATTACTATAT
1 TATTATTACTATAT
* *
49116298 TATTATTAGTTTAT
1 TATTATTACTATAT
*
49116312 TATTA-TATTATA-
1 TATTATTACTATAT
49116324 TATTAT
1 TATTAT
49116330 AATTATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
14 17 0.63
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (14 bp):
TATTATTACTATAT
Found at i:49119415 original size:21 final size:23
Alignment explanation
Indices: 49119374--49119424 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
49119364 AGGATTTTGA
*
49119374 AAGAAAAAGTGCAGAATTAGA-G
1 AAGAAAAAGAGCAGAATTAGAGG
49119396 AAGAAAATAGAGCA-AA-TAGAGG
1 AAGAAAA-AGAGCAGAATTAGAGG
49119418 AAGAAAA
1 AAGAAAA
49119425 GGTGAATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 4 0.15
22 17 0.65
23 5 0.19
ACGTcount: A:0.61, C:0.04, G:0.25, T:0.10
Consensus pattern (23 bp):
AAGAAAAAGAGCAGAATTAGAGG
Found at i:49123922 original size:24 final size:24
Alignment explanation
Indices: 49123864--49123938 Score: 73
Period size: 26 Copynumber: 3.1 Consensus size: 24
49123854 TTGAGCCAGT
* *
49123864 ATTCTTTCATTCTTTTTCGAGTAATT
1 ATTCTTTTATTCTTTTTC--GTAATC
49123890 ATTCTTTTATTCTTTTTC-TACATC
1 ATTCTTTTATTCTTTTTCGTA-ATC
* *
49123914 ATTCTTTTATT-TATTTCATAATC
1 ATTCTTTTATTCTTTTTCGTAATC
49123937 AT
1 AT
49123939 ATTTTGTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 12 0.27
24 15 0.34
26 17 0.39
ACGTcount: A:0.21, C:0.16, G:0.03, T:0.60
Consensus pattern (24 bp):
ATTCTTTTATTCTTTTTCGTAATC
Found at i:49123937 original size:23 final size:23
Alignment explanation
Indices: 49123885--49123938 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
49123875 CTTTTTCGAG
* *
49123885 TAATTATTCTTTTATTCTTTTTC
1 TAATCATTCTTTTATTCTATTTC
49123908 TACATCATTCTTTTATT-TATTTC
1 TA-ATCATTCTTTTATTCTATTTC
49123931 ATAATCAT
1 -TAATCAT
49123939 ATTTTGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (23 bp):
TAATCATTCTTTTATTCTATTTC
Found at i:49128773 original size:89 final size:89
Alignment explanation
Indices: 49128630--49128965 Score: 257
Period size: 89 Copynumber: 3.8 Consensus size: 89
49128620 TCCCTGAGCA
** * * *
49128630 GCAGTAAAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTTACAGTGAAGCAGATCGAAGA
1 GCAGTAAAGTAGACTGAAAATAGCAGATCTTGCCTTCCTATACTAACAGCGAAGCAGATCGAAGA
49128695 C-CTCAGCCTTGCCTCCCCGAGTTT
66 CAC-CAGCCTTGCCTCCCCGAGTTT
* * *
49128719 GCAGTAGAGTAGACTGAAGATAGCAGATCTTGCCTTCCTATACTAACAGCGAAGCAGATCGAAGG
1 GCAGTAAAGTAGACTGAAAATAGCAGATCTTGCCTTCCTATACTAACAGCGAAGCAGATCGAAGA
*** *
49128784 CACCAGCCTTGCCTCATTGGGTTT
66 CACCAGCCTTGCCTCCCCGAGTTT
* * * * * * * * * ** * *
49128808 GTAGCAGAA-CAGACTGTAGATAGCAGATATTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAG
1 GCAGTA-AAGTAGACTGAAAATAGCAGATCTTGCCTTCCTATACTAACAGCGAAGCAGATCGAAG
* * ** **
49128872 ATACCAGCCTTGTCTCCCTAAG-CA
65 ACACCAGCCTTGCCTCCCCGAGTTT
** ** * * * ***
49128896 G-AGTGGAGTAGGTTGAAAATAGCAGATTTTGCCTTCTTGTACTGGTAGCGAAGCAGATCGAAGA
1 GCAGTAAAGTAGACTGAAAATAGCAGATCTTGCCTTCCTATACTAACAGCGAAGCAGATCGAAGA
49128960 CACCAG
66 CACCAG
49128966 TCTTATCGCC
Statistics
Matches: 194, Mismatches: 50, Indels: 8
0.77 0.20 0.03
Matches are distributed among these distances:
86 1 0.01
87 51 0.26
88 1 0.01
89 139 0.72
90 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (89 bp):
GCAGTAAAGTAGACTGAAAATAGCAGATCTTGCCTTCCTATACTAACAGCGAAGCAGATCGAAGA
CACCAGCCTTGCCTCCCCGAGTTT
Found at i:49129486 original size:124 final size:126
Alignment explanation
Indices: 49129272--49129540 Score: 434
Period size: 124 Copynumber: 2.1 Consensus size: 126
49129262 AATTAAAGAA
* * * * *
49129272 AATAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGGTTAACATCCAGATCTTATCTTTCTGAGGT
1 AATAATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAATCCAGATCTTATCTCTCTGAGAT
*
49129337 TGCAGAGAGCAGATCGCATCAAGTCTTAACTCCCTGAA-TGCAGTGGAGCAGACTAAAGTC
66 TGCAGAGAGCAGATCGCATCAAGTCTTAACTCCCTGAAGTGCAGTGGAGCAGACTAAAGCC
49129397 AATAATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAAT-CAGATCTTATCTCTCTGAGAT
1 AATAATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAATCCAGATCTTATCTCTCTGAGAT
* *
49129461 TGCAGAGAGCAGATCGCATCAAGTCTTAACTCCCTGAAGTTGCAGTGGAGTAGACTGAAGCC
66 TGCAGAGAGCAGATCGCATCAAGTCTTAACTCCCTGAAG-TGCAGTGGAGCAGACTAAAGCC
*
49129523 AATAATCTTATCTCCCTA
1 AATAATCCTATCTCCCTA
49129541 TCTTTAAAGT
Statistics
Matches: 133, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
124 57 0.43
125 40 0.30
126 36 0.27
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (126 bp):
AATAATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAATCCAGATCTTATCTCTCTGAGAT
TGCAGAGAGCAGATCGCATCAAGTCTTAACTCCCTGAAGTGCAGTGGAGCAGACTAAAGCC
Found at i:49129504 original size:40 final size:42
Alignment explanation
Indices: 49129330--49129516 Score: 97
Period size: 42 Copynumber: 4.5 Consensus size: 42
49129320 TCTTATCTTT
* *
49129330 CTGAGGTTGCAG-AGAGCAGA-TCGCATCAAGTCTTAACTCC
1 CTGAAGTTGCAGTAGAGCAGACTAGCATCAAGTCTTAACTCC
* * *
49129370 CTGAA--TGCAGTGGAGCAGACTAAAGTCAAT-AA-TCCTATCTCC
1 CTGAAGTTGCAGTAGAGCAGACT--AG-C-ATCAAGTCTTAACTCC
* * ** * ** * *
49129412 CTAAAGTTGCAGTGGAGTGGATTAAAATC-AGATCTTATCTCT
1 CTGAAGTTGCAGTAGAGCAGACTAGCATCAAG-TCTTAACTCC
*
49129454 CTG-AGATTGCAG-AGAGCAGA-TCGCATCAAGTCTTAACTCC
1 CTGAAG-TTGCAGTAGAGCAGACTAGCATCAAGTCTTAACTCC
* *
49129494 CTGAAGTTGCAGTGGAGTAGACT
1 CTGAAGTTGCAGTAGAGCAGACT
49129517 GAAGCCAATA
Statistics
Matches: 107, Mismatches: 24, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
38 5 0.05
39 7 0.07
40 29 0.27
41 17 0.16
42 31 0.29
43 3 0.03
44 15 0.14
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (42 bp):
CTGAAGTTGCAGTAGAGCAGACTAGCATCAAGTCTTAACTCC
Found at i:49129538 original size:44 final size:42
Alignment explanation
Indices: 49129275--49129539 Score: 128
Period size: 40 Copynumber: 6.3 Consensus size: 42
49129265 TAAAGAAAAT
* ** *
49129275 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGGTTAA-C-ATCC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATAAGCAAT-C
** * * *
49129317 AGATCTTATCTTTCTGAGGTTGCAG-AGAGCAGAT-CGC-ATC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGCAATC
*
49129357 AAGTCTTAACTCCCTGAA--TGCAGTGGAGCAGACTAAAGTCAAT-
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-AAG-CAATC
* * **
49129400 AATCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAA--AATC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAGCAATC
* * *
49129441 AGATCTTATCTCTCTG-AGATTGCAG-AGAGCAGAT-CGC-ATC
1 A-ATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATAAGCAATC
* *
49129481 AAGTCTTAACTCCCTGAAGTTGCAGTGGAGTAGACTGAAGCCAAT-
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-AAG-CAATC
49129526 AATCTTATCTCCCT
1 AATCTTATCTCCCT
49129540 ATCTTTAAAG
Statistics
Matches: 165, Mismatches: 34, Indels: 46
0.67 0.14 0.19
Matches are distributed among these distances:
38 5 0.03
39 9 0.05
40 39 0.24
41 21 0.13
42 35 0.21
43 24 0.15
44 27 0.16
45 3 0.02
46 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (42 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAGCAATC
Found at i:49130832 original size:25 final size:22
Alignment explanation
Indices: 49130779--49130843 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
49130769 ATTTTTAGTT
* *
49130779 TTTA-TTATATTGTTAATACTG
1 TTTATTTATATTATTATTACTG
49130800 TTTATTTATATTATTATTACTG
1 TTTATTTATATTATTATTACTG
*
49130822 TATTATTTTTAGTTTATTATTA
1 T-TTATTTATA--TTATTATTA
49130844 TATTATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 4 0.11
22 16 0.43
23 8 0.22
25 9 0.24
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (22 bp):
TTTATTTATATTATTATTACTG
Found at i:49130838 original size:22 final size:23
Alignment explanation
Indices: 49130795--49130864 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 23
49130785 ATATTGTTAA
*
49130795 TACTGT-TTATTTATATTATTAT
1 TACTGTATTATTTATAGTATTAT
*
49130817 TACTGTATTATTTTTAGT-TTAT
1 TACTGTATTATTTATAGTATTAT
* * * *
49130839 TATTATATTATATATTGTAATTAT
1 TACTGTATTATTTATAGT-ATTAT
49130863 TA
1 TA
49130865 TACTTATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 23 0.61
23 9 0.24
24 6 0.16
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (23 bp):
TACTGTATTATTTATAGTATTAT
Found at i:49131346 original size:15 final size:15
Alignment explanation
Indices: 49131326--49131357 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49131316 TGTATTAACA
*
49131326 TTTTTAACATATATT
1 TTTTTAAAATATATT
49131341 TTTTTAAAATATATT
1 TTTTTAAAATATATT
49131356 TT
1 TT
49131358 GATTTTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTAAAATATATT
Found at i:49132808 original size:19 final size:19
Alignment explanation
Indices: 49132784--49132820 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49132774 ATAATAATAC
49132784 AAATAATAATATAATTAAT
1 AAATAATAATATAATTAAT
*
49132803 AAATAATAATATTATTAA
1 AAATAATAATATAATTAA
49132821 ATTAATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAATAATATAATTAAT
Found at i:49135909 original size:3 final size:3
Alignment explanation
Indices: 49135901--49135933 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
49135891 TTTTACACTC
49135901 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49135934 AACCATGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:49141411 original size:8 final size:8
Alignment explanation
Indices: 49141400--49141446 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
49141390 TGAATGAATG
49141400 AAATGAAA
1 AAATGAAA
49141408 AAATGAAA
1 AAATGAAA
49141416 AAATG-AA
1 AAATGAAA
49141423 AAATG--A
1 AAATGAAA
*
49141429 AAATAAAA
1 AAATGAAA
49141437 AAATGAAA
1 AAATGAAA
49141445 AA
1 AA
49141447 TGGAAAAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 5 0.14
7 7 0.20
8 23 0.66
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.13
Consensus pattern (8 bp):
AAATGAAA
Found at i:49141414 original size:21 final size:20
Alignment explanation
Indices: 49141375--49141444 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
49141365 TTTGAGTTGT
*
49141375 AAAAT-AAATAAATAATGAA
1 AAAATGAAATAAAAAATGAA
**
49141394 TGAATGAAATGAAAAAATGAA
1 AAAATGAAAT-AAAAAATGAA
*
49141415 AAAATGAAA-AATGAAAATAAA
1 AAAATGAAATAA--AAAATGAA
49141436 AAAATGAAA
1 AAAATGAAA
49141445 AATGGAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 5 0.12
20 4 0.10
21 32 0.78
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (20 bp):
AAAATGAAATAAAAAATGAA
Found at i:49141445 original size:21 final size:22
Alignment explanation
Indices: 49141407--49141453 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
49141397 ATGAAATGAA
*
49141407 AAAATGAAAAAATGAAAAAT-G
1 AAAATAAAAAAATGAAAAATGG
49141428 AAAATAAAAAAATGAAAAATGG
1 AAAATAAAAAAATGAAAAATGG
49141450 AAAA
1 AAAA
49141454 AGTAAAATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (22 bp):
AAAATAAAAAAATGAAAAATGG
Found at i:49141452 original size:8 final size:7
Alignment explanation
Indices: 49141400--49141454 Score: 58
Period size: 8 Copynumber: 7.4 Consensus size: 7
49141390 TGAATGAATG
49141400 AAATGAAA
1 AAATG-AA
49141408 AAATGAAA
1 AAATG-AA
49141416 AAATGAA
1 AAATGAA
49141423 AAATG-A
1 AAATGAA
*
49141429 AAATAAAA
1 AAAT-GAA
49141437 AAATGAA
1 AAATGAA
49141444 AAATGGAA
1 AAAT-GAA
49141452 AAA
1 AAA
49141455 GTAAAATGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
6 5 0.12
7 13 0.31
8 24 0.57
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.13
Consensus pattern (7 bp):
AAATGAA
Found at i:49141461 original size:29 final size:29
Alignment explanation
Indices: 49141374--49141454 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
49141364 CTTTGAGTTG
* *
49141374 TAAAATAAAT-AAATAATGAATGAATG-AAA
1 TAAAA-AAATGAAAAAATGAA-AAATGAAAA
*
49141403 TGAAAAAATGAAAAAATGAAAAATGAAAA
1 TAAAAAAATGAAAAAATGAAAAATGAAAA
49141432 TAAAAAAATG-AAAAATGGAAAAA
1 TAAAAAAATGAAAAAAT-GAAAAA
49141455 GTAAAATGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 14 0.31
29 31 0.69
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.17
Consensus pattern (29 bp):
TAAAAAAATGAAAAAATGAAAAATGAAAA
Found at i:49142713 original size:48 final size:48
Alignment explanation
Indices: 49142657--49142752 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
49142647 CATAATTAGG
*
49142657 TTCATAAAATGGATTATACAGGTCATG-TTCCCTAGAGAATAGATCAGT
1 TTCATAAAATGGATTATACAGGTCATGTTTCCC-AGAGAACAGATCAGT
*
49142705 TTCATAAAATGGATTATACAGGTTATGTTTCCCAGAGAACAGATCAGT
1 TTCATAAAATGGATTATACAGGTCATGTTTCCCAGAGAACAGATCAGT
49142753 GAAGATAGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 40 0.89
49 5 0.11
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (48 bp):
TTCATAAAATGGATTATACAGGTCATGTTTCCCAGAGAACAGATCAGT
Found at i:49142903 original size:89 final size:89
Alignment explanation
Indices: 49142752--49143523 Score: 989
Period size: 89 Copynumber: 8.7 Consensus size: 89
49142742 AACAGATCAG
* *
49142752 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCT
1 TGAAGATAGAAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
* *
49142817 CCCTGGTTTTGTAGCAGAGCAGAC
66 CCCTGGGTTTGCAGCAGAGCAGAC
* *
49142841 TGAAGATAGAAGATCTTACCTTCCTGTACTAACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
1 TGAAGATAGAAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
*
49142906 CCCTAGGTTTGCAGCAGAGCAGAC
66 CCCTGGGTTTGCAGCAGAGCAGAC
* * * *
49142930 TGAAGATAGTAA-ATCTTACCTTCCTGTATTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCC
1 TGAAGATAG-AAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCC
* * *
49142994 TACCTGGGTTTACAGCGGAGCAGAC
65 TCCCTGGGTTTGCAGCAGAGCAGAC
* *
49143019 TGAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
1 TGAAGATAGAAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
* *
49143084 CCCTGGTTTTGTAGCAGAGCAGAC
66 CCCTGGGTTTGCAGCAGAGCAGAC
*
49143108 TGAAGATA-ATAGATCTTGCCTTCTTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCC
1 TGAAGATAGA-AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCC
** * *
49143172 TCATTGGGTTTACAGCAGAGTAGAC
65 TCCCTGGGTTTGCAGCAGAGCAGAC
* * * *
49143197 TGAAGATAGCAA-ATCTTGCCTTCCTATACTGACAGCGAAGCAGATCAAAGATACCAGCCTTGCC
1 TGAAGATAG-AAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCC
* * *
49143261 TCTCTGGGTTTGCAGCGGAACAGAC
65 TCCCTGGGTTTGCAGCAGAGCAGAC
* *
49143286 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGAAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
49143351 CCCTGGGTTTGCAGCAGAGCAGAC
66 CCCTGGGTTTGCAGCAGAGCAGAC
* * * * **
49143375 TGAAGATA-ACAGATCTTGCCTTCTTGTACTGACAACGAAGCAGATCGAAGACATCAGCCTTATC
1 TGAAGATAGA-AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCC
**** * * **
49143439 TCCCT-GAACAGCAGTAGAGTAGGT
65 TCCCTGGGTTTGCAGCAGAGCAGAC
* * * * * *
49143463 TGAAAATAGCAGATCTTGCCTTCCTGTACT-AGCAGAGAAGCAGATTGAGGATACCAGTCTT
1 TGAAGATAGAAGATCTTGCCTTCCTGTACTGA-CAGCGAAGCAGATCGAAGACACCAGTCTT
49143524 ATCGCCTTGA
Statistics
Matches: 597, Mismatches: 77, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
87 1 0.00
88 61 0.10
89 531 0.89
90 3 0.01
91 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (89 bp):
TGAAGATAGAAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
CCCTGGGTTTGCAGCAGAGCAGAC
Found at i:49143232 original size:267 final size:266
Alignment explanation
Indices: 49142752--49143427 Score: 1111
Period size: 267 Copynumber: 2.5 Consensus size: 266
49142742 AACAGATCAG
* *
49142752 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
* * *
49142817 CCCTGGTTTTGTAGCAGAGCAGACTGAAGATAGAAGATCTTACCTTCCTGTACTAACAGCGAAGC
66 CCCTGGTTTTGTAGCAGAGCAGACTGAAGATA-AAGATCTTGCCTTCTTGTACTGACAGCGAAGC
* * *
49142882 AGATCGAAGACACCAGTCTTGCCTCCCTAGGTTTGCAGCAGAGCAGACTGAAGATAGTAAATCTT
130 AGATCGAAGACACCAGTCTTGCCTCACTAGGTTTACAGCAGAGCAGACTGAAGATAGCAAATCTT
* *
49142947 ACCTTCCTGTATTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTAC-CTGGGTTTACAGCG
195 ACCTTCCTATACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT-CTCTGGGTTTACAGCG
*
49143011 GAGCAGAC
259 GAACAGAC
*
49143019 TGAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
49143084 CCCTGGTTTTGTAGCAGAGCAGACTGAAGATAATAGATCTTGCCTTCTTGTACTGACAGCGAAGC
66 CCCTGGTTTTGTAGCAGAGCAGACTGAAGATAA-AGATCTTGCCTTCTTGTACTGACAGCGAAGC
* * *
49143149 AGATCGAAGACACCAGTCTTGCCTCATTGGGTTTACAGCAGAGTAGACTGAAGATAGCAAATCTT
130 AGATCGAAGACACCAGTCTTGCCTCACTAGGTTTACAGCAGAGCAGACTGAAGATAGCAAATCTT
* * *
49143214 GCCTTCCTATACTGACAGCGAAGCAGATCAAAGATACCAGCCTTGCCTCTCTGGGTTTGCAGCGG
195 ACCTTCCTATACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCTCTGGGTTTACAGCGG
49143279 AACAGAC
260 AACAGAC
*
49143286 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
* * *
49143351 CCCTGGGTTTGCAGCAGAGCAGACTGAAGATAACAGATCTTGCCTTCTTGTACTGACAACGAAGC
66 CCCTGGTTTTGTAGCAGAGCAGACTGAAGATAA-AGATCTTGCCTTCTTGTACTGACAGCGAAGC
49143416 AGATCGAAGACA
130 AGATCGAAGACA
49143428 TCAGCCTTAT
Statistics
Matches: 383, Mismatches: 24, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
266 2 0.01
267 381 0.99
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (266 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCT
CCCTGGTTTTGTAGCAGAGCAGACTGAAGATAAAGATCTTGCCTTCTTGTACTGACAGCGAAGCA
GATCGAAGACACCAGTCTTGCCTCACTAGGTTTACAGCAGAGCAGACTGAAGATAGCAAATCTTA
CCTTCCTATACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCTCTGGGTTTACAGCGGA
ACAGAC
Found at i:49143856 original size:100 final size:100
Alignment explanation
Indices: 49143707--49143972 Score: 338
Period size: 100 Copynumber: 2.7 Consensus size: 100
49143697 TTGGCATTAC
* *
49143707 AGTGGAACAGATTGAAGCTATGACGGAAAATCTTGTTTCCCCGACATTGCAGTTAAACAGATTGA
1 AGTGGAACAGATTGAAGCTATGACAGAAAATCTTGTTTCCCCGACATTGCAATTAAACAGATTGA
*
49143772 AGCCACAAC-GACAAATCTTACTTCATTGGAAGTGT
66 AGCCACAACAG-CAAATCTTACTTCACTGGAAGTGT
* * * ** * *
49143807 AGTGGAATAGATTGAAGCTGTGCCAGTGAATCTTGTTTCCCCGGCATTGCAATTAAATAGATTGA
1 AGTGGAACAGATTGAAGCTATGACAGAAAATCTTGTTTCCCCGACATTGCAATTAAACAGATTGA
* * *
49143872 AGCTACAACAGCGAATCTTACTTCCCTGGAAGTGT
66 AGCCACAACAGCAAATCTTACTTCACTGGAAGTGT
* * * * *
49143907 AGTGGAACAGATTGAAGCTACGAC-GACAAATCTTGTTTCCCCGATATTGTAGTTAAATAGATTG
1 AGTGGAACAGATTGAAGCTATGACAGA-AAATCTTGTTTCCCCGACATTGCAATTAAACAGATTG
49143971 AA
65 AA
49143973 TATGGCAAGT
Statistics
Matches: 141, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
99 1 0.01
100 139 0.99
101 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (100 bp):
AGTGGAACAGATTGAAGCTATGACAGAAAATCTTGTTTCCCCGACATTGCAATTAAACAGATTGA
AGCCACAACAGCAAATCTTACTTCACTGGAAGTGT
Found at i:49143888 original size:50 final size:50
Alignment explanation
Indices: 49143735--49143972 Score: 153
Period size: 50 Copynumber: 4.8 Consensus size: 50
49143725 TATGACGGAA
* * * *
49143735 AATCTTGTTTCCCC-GACATTGCAGTTAAACAGATTGAAGCCACAACGACA
1 AATCTTGTTTCCCCGGA-ATTGTAGTTAAATAGATTGAAGCTACAACGACG
** *** * ** * * *
49143785 AATCTTACTTCATTGGAAGTGTAGTGGAATAGATTGAAGCTGTGCCA-G-TG
1 AATCTTGTTTCCCCGGAATTGTAGTTAAATAGATTGAAGC--TACAACGACG
* * *
49143835 AATCTTGTTTCCCCGGCATTGCAATTAAATAGATTGAAGCTACAAC-AGCG
1 AATCTTGTTTCCCCGGAATTGTAGTTAAATAGATTGAAGCTACAACGA-CG
** * * ** * * *
49143885 AATCTTACTTCCCTGGAAGTGTAGTGGAACAGATTGAAGCTACGACGACA
1 AATCTTGTTTCCCCGGAATTGTAGTTAAATAGATTGAAGCTACAACGACG
49143935 AATCTTGTTTCCCC-GATATTGTAGTTAAATAGATTGAA
1 AATCTTGTTTCCCCGGA-ATTGTAGTTAAATAGATTGAA
49143973 TATGGCAAGT
Statistics
Matches: 132, Mismatches: 48, Indels: 16
0.67 0.24 0.08
Matches are distributed among these distances:
48 3 0.02
49 2 0.02
50 121 0.92
51 4 0.03
52 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (50 bp):
AATCTTGTTTCCCCGGAATTGTAGTTAAATAGATTGAAGCTACAACGACG
Found at i:49144077 original size:44 final size:45
Alignment explanation
Indices: 49143977--49144196 Score: 162
Period size: 45 Copynumber: 4.9 Consensus size: 45
49143967 ATTGAATATG
* * * **
49143977 GCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAAGCCA
1 GCAAGTCTTATCTCCCTAAAGTTACAGTCGAGCAGACT-AAAGATA
** * * ** * *
49144022 ATAAG-CCTATCTCCCTGAAGTTACAGTCGAGTGGATTAAAG-TT
1 GCAAGTCTTATCTCCCTAAAGTTACAGTCGAGCAGACTAAAGATA
* *
49144065 GCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATA
1 GCAAGTCTTATCTCCCTAAAGTTACAGTCGAGCAGACTAAAGATA
* * * * *
49144110 GTAAGTCTTATCCCCCTAAAGTTACAG-CGGGGCAGACTGAAGATG
1 GCAAGTCTTATCTCCCTAAAGTTACAGTC-GAGCAGACTAAAGATA
* * * *
49144155 GCGAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
1 GC-AAGTCTTATCTCCCTAAAGTTACAGTCGAGCAGACTAAAG
49144197 CCAATAATCC
Statistics
Matches: 135, Mismatches: 34, Indels: 12
0.75 0.19 0.07
Matches are distributed among these distances:
43 3 0.02
44 58 0.43
45 72 0.53
46 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (45 bp):
GCAAGTCTTATCTCCCTAAAGTTACAGTCGAGCAGACTAAAGATA
Found at i:49144127 original size:45 final size:45
Alignment explanation
Indices: 49143979--49144277 Score: 263
Period size: 44 Copynumber: 6.8 Consensus size: 45
49143969 TGAATATGGC
* ** *
49143979 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAGCCAAT
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGT
* * * ** * *
49144024 AAG-CCTATCTCCCTGAAGTTACAGTCGAGTGGATTAAAG-TTGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGT
* *
49144067 AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGT
* * * * * * * * *
49144112 AAGTCTTATCCCCCTAAAGTTACAGCGGGGCAGACTGAAGATGGCG
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAG-T
** *
49144158 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGT
* *
49144202 AA-TCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAA-ATCAG-
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT-AGT
* *
49144245 -A-TCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
49144278 CGCATCCAGT
Statistics
Matches: 203, Mismatches: 47, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
42 29 0.14
43 3 0.01
44 96 0.47
45 73 0.36
46 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (45 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGT
Found at i:49144216 original size:44 final size:43
Alignment explanation
Indices: 49143982--49144317 Score: 241
Period size: 44 Copynumber: 7.7 Consensus size: 43
49143972 ATATGGCAAG
*
49143982 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAAAGCCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAA
* * * * ** * *
49144026 GCCTATCTCCCTGAAGTTACAGTCGAGTGGATTAAAGTTGCA-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--CCATAA
* * **
49144070 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-TAA
* * * * * * * *
49144114 GTCTTATCCCCCTAAAGTTACAGCGGGGCAGACTGAAGATGGC-GAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCATAA
49144160 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAA
* * ** *
49144204 TCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAATCA-GA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAA
* * *** * *
49144246 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC--AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAA
* *
49144287 TCTTATCTCCCTGAAGTCGTAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
49144318 CAGAAGAAAC
Statistics
Matches: 225, Mismatches: 57, Indels: 23
0.74 0.19 0.08
Matches are distributed among these distances:
41 27 0.12
42 34 0.15
43 2 0.01
44 101 0.45
45 54 0.24
46 5 0.02
47 1 0.00
48 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAA
Found at i:49145647 original size:3 final size:3
Alignment explanation
Indices: 49145639--49145694 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
49145629 TTTTACACTC
* * *
49145639 TAT TAT TAT TAT TAT TAT TAT TAT T-T TA- AAT TAT CAT TAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
49145685 TAT TAA TAT T
1 TAT TAT TAT T
49145695 TTAACCATGT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:49145660 original size:31 final size:32
Alignment explanation
Indices: 49145625--49145696 Score: 74
Period size: 34 Copynumber: 2.2 Consensus size: 32
49145615 AATATCATTT
* * *
49145625 TTATTTTTACACTCT-ATTATTATTATTATTA
1 TTATTTTTAAACTATCATTATTATAATTATTA
*
49145656 TTATTATTTTAAATTATCATTATTATAATTATTA
1 TTA-T-TTTTAAACTATCATTATTATAATTATTA
*
49145690 ATATTTT
1 TTATTTT
49145697 AACCATGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
31 3 0.09
32 4 0.12
33 9 0.27
34 17 0.52
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (32 bp):
TTATTTTTAAACTATCATTATTATAATTATTA
Found at i:49148059 original size:26 final size:27
Alignment explanation
Indices: 49148023--49148085 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
49148013 ATAAAAAATA
49148023 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTTATTT
49148049 ACCAAAATATTATAATTTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTTATTT
49148076 ACCAAAATAT
1 ACCAAAATAT
49148086 ACCAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 15 0.42
27 21 0.58
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (27 bp):
ACCAAAATATTATAATTTTTTTTATTT
Found at i:49148155 original size:27 final size:27
Alignment explanation
Indices: 49148125--49148176 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
49148115 GGCCAATCAC
49148125 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
*
49148152 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAAAGGTGCCAAAG
49148177 GACTAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.23, G:0.33, T:0.13
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGAG
Found at i:49148716 original size:19 final size:18
Alignment explanation
Indices: 49148692--49148750 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 18
49148682 TCTAATTAAG
49148692 TAATAACTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
* * *
49148711 TAATAAACTATTCTCATT
1 TAATAATCTATTTTAATT
49148729 TAATAATTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
49148748 TAA
1 TAA
49148751 AAAAATCAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATAATCTATTTTAATT
Found at i:49148721 original size:18 final size:19
Alignment explanation
Indices: 49148700--49148750 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
49148690 AGTAATAACT
49148700 CTATTTTAATTTAATAA-A
1 CTATTTTAATTTAATAATA
* * *
49148718 CTATTCTCATTTAATAATT
1 CTATTTTAATTTAATAATA
49148737 CTATTTTAATTTAA
1 CTATTTTAATTTAA
49148751 AAAAATCAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
CTATTTTAATTTAATAATA
Found at i:49148850 original size:19 final size:19
Alignment explanation
Indices: 49148826--49148884 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
49148816 TCTAATTAAG
49148826 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
49148845 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
49148863 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
49148882 TAA
1 TAA
49148885 AAAATTAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:49148917 original size:134 final size:134
Alignment explanation
Indices: 49148677--49148945 Score: 468
Period size: 134 Copynumber: 2.0 Consensus size: 134
49148667 TAAGATACTT
*
49148677 AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAATTCTATT
1 AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
* * *
49148742 TTAATTTAAAAAAATCAAGTAAGCTATTTTAATTTATTTTTTTAAATTAAAATAGAGTTATTAAA
66 TTAATTTAAAAAAATCAAGTAAACTATTTCAATTTAATTTTTTAAATTAAAATAGAGTTATTAAA
49148807 TGAG
131 TGAG
49148811 AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
1 AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
* *
49148876 TTAATTT-AAAAAATTAAGTAAACTATTCTCATTTTAATTTTTTAAATTAAAATAGAGTTATTAA
66 TTAATTTAAAAAAATCAAGTAAACTATT-TCAATTTAATTTTTTAAATTAAAATAGAGTTATTAA
49148940 ATGAG
130 ATGAG
49148945 A
1 A
49148946 ATAGTTTATT
Statistics
Matches: 128, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
133 18 0.14
134 110 0.86
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (134 bp):
AGAATTCTAATTAAGTAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATT
TTAATTTAAAAAAATCAAGTAAACTATTTCAATTTAATTTTTTAAATTAAAATAGAGTTATTAAA
TGAG
Found at i:49148980 original size:18 final size:19
Alignment explanation
Indices: 49148917--49148975 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
49148907 TTTTAATTTT
49148917 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
49148936 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
49148954 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
49148973 TTA
1 TTA
49148976 CTTAATTAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:49149570 original size:27 final size:27
Alignment explanation
Indices: 49149529--49149580 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
49149519 CATTTTAGTC
49149529 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
*
49149556 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
49149581 GTGATTGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.33, G:0.23, T:0.31
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCT
Found at i:49149588 original size:27 final size:27
Alignment explanation
Indices: 49149531--49149589 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
49149521 TTTTAGTCCT
*
49149531 TTGGCACCATTGGTGCCGCCAATCTCT
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * *
49149558 TTGGCACCTTTGGTGCCGCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
49149585 TTGGC
1 TTGGC
49149590 CTGATCAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.14, C:0.29, G:0.27, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:49149656 original size:27 final size:27
Alignment explanation
Indices: 49149622--49149682 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
49149612 TTTTTTTGGT
*
49149622 ATATTTTGGTAAATAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
49149649 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
49149676 ATATTTT
1 ATATTTT
49149683 AGTTATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:49150708 original size:54 final size:54
Alignment explanation
Indices: 49150593--49150699 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
49150583 TTGAAGTTGG
* * * *
49150593 GACACATGGCCGTGTCTCAGCCCGTGTCCTTGCCCGTGTAACTCACTGACTTGA
1 GACACACGGTCGTGTCCCAGCCCGTGTCCTTGCCCGTGTAACTCACTAACTTGA
*
49150647 GACACACGGTCGTGTCCCAGCCCGTGT-CTATGCCCGTGTAACTCTCTAACTTG
1 GACACACGGTCGTGTCCCAGCCCGTGTCCT-TGCCCGTGTAACTCACTAACTTG
49150700 GGTTACACGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 2 0.04
54 45 0.96
ACGTcount: A:0.17, C:0.34, G:0.23, T:0.26
Consensus pattern (54 bp):
GACACACGGTCGTGTCCCAGCCCGTGTCCTTGCCCGTGTAACTCACTAACTTGA
Found at i:49150715 original size:54 final size:54
Alignment explanation
Indices: 49150593--49150716 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 54
49150583 TTGAAGTTGG
* * * *
49150593 GACACATGGCCGTGTCTCAGCCCGTGTCCTTGCCCGTGTAACTCACTGACTTGA
1 GACACACGACCGTGTCCCAGCCCGTGTCCTTGCCCGTGTAACTCACTAACTTGA
** * *
49150647 GACACACGGTCGTGTCCCAGCCCGTGT-CTATGCCCGTGTAACTCTCTAACTTGG
1 GACACACGACCGTGTCCCAGCCCGTGTCCT-TGCCCGTGTAACTCACTAACTTGA
**
49150701 GTTACACGACCGTGTC
1 GACACACGACCGTGTC
49150717 GCAAACCGTG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 2 0.03
54 57 0.97
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (54 bp):
GACACACGACCGTGTCCCAGCCCGTGTCCTTGCCCGTGTAACTCACTAACTTGA
Found at i:49151358 original size:21 final size:21
Alignment explanation
Indices: 49151329--49151370 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
49151319 ACTATAATTT
49151329 AAAATGTAC-CTGAGTATAAC
1 AAAATGTACGCTGAGTATAAC
49151349 AAAATTGTACGCTGAGTATAAC
1 AAAA-TGTACGCTGAGTATAAC
49151371 TCAGAGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 11 0.55
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (21 bp):
AAAATGTACGCTGAGTATAAC
Found at i:49154593 original size:18 final size:18
Alignment explanation
Indices: 49154545--49154608 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 18
49154535 TTCAAGTACA
49154545 TTTTGTTTTCTTCATGTTTAT
1 TTTTGTTTT-TT-A-GTTTAT
49154566 TTTT-TATTTTTAGTTTAT
1 TTTTGT-TTTTTAGTTTAT
49154584 TTTTGTTTTTT-GTTT-T
1 TTTTGTTTTTTAGTTTAT
49154600 GTTTTGTTT
1 -TTTTGTTT
49154609 GCTTGAGGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.03
17 12 0.30
18 15 0.38
19 2 0.05
20 3 0.08
21 7 0.17
ACGTcount: A:0.08, C:0.03, G:0.11, T:0.78
Consensus pattern (18 bp):
TTTTGTTTTTTAGTTTAT
Found at i:49157960 original size:14 final size:14
Alignment explanation
Indices: 49157941--49157970 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49157931 AGTTCATTTG
49157941 TTTATTTCTTGTTA
1 TTTATTTCTTGTTA
*
49157955 TTTATTTCTTTTTA
1 TTTATTTCTTGTTA
49157969 TT
1 TT
49157971 CCTCTTAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTATTTCTTGTTA
Found at i:49159036 original size:42 final size:42
Alignment explanation
Indices: 49158989--49159072 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
49158979 AAGTAAATTA
*
49158989 GAAAAATTCAAAACTAATAGGCCTAAAGGGTCAAAAAAGACT
1 GAAAAATTCAAAACTAATAGGCCTAAAGGGTAAAAAAAGACT
49159031 GAAAAATTCAAAACTAATAGGCCTAAAGGGTAAAAAAAGACT
1 GAAAAATTCAAAACTAATAGGCCTAAAGGGTAAAAAAAGACT
49159073 TAGTAGCAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.54, C:0.13, G:0.17, T:0.17
Consensus pattern (42 bp):
GAAAAATTCAAAACTAATAGGCCTAAAGGGTAAAAAAAGACT
Found at i:49159159 original size:13 final size:13
Alignment explanation
Indices: 49159138--49159175 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
49159128 AAAAAATCAT
49159138 AAAAATTATAAAG
1 AAAAATTATAAAG
*
49159151 AAAATTTATAAAG
1 AAAAATTATAAAG
*
49159164 AAAAGTTATAAA
1 AAAAATTATAAA
49159176 TATTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (13 bp):
AAAAATTATAAAG
Found at i:49165439 original size:11 final size:11
Alignment explanation
Indices: 49165420--49165450 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
49165410 TTTTAATAAG
49165420 GTATCGATATA
1 GTATCGATATA
*
49165431 GTATTGATATA
1 GTATCGATATA
49165442 GTATCGATA
1 GTATCGATA
49165451 CCTAACAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (11 bp):
GTATCGATATA
Found at i:49169351 original size:3 final size:3
Alignment explanation
Indices: 49169343--49169385 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
49169333 GCTCTACATT
49169343 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
49169386 CATCTCAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Done.