Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 59 of 325
Found at i:15512977 original size:47 final size:43
Alignment explanation
Indices: 15512866--15513036 Score: 139
Period size: 46 Copynumber: 3.8 Consensus size: 43
15512856 CCAGACAAGG
* ** *
15512866 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGA-GT
1 GCTAGTGTAAGACATGTCT-GGACATGCATCAG-C-TAAGA-GATAT
* * *
15512912 GCCAGAGTAAGACATGTCTGAGACATGCATCGGCCTCGACAGAGATA-
1 GCTAGTGTAAGACATGTCTG-GACATGCATCAG-CT--A-AGAGATAT
* * *
15512959 GCTAGTGTAAGACGTGTCTGGAACACGCATCAGCTAAGAGTTAT
1 GCTAGTGTAAGACATGTCTGG-ACATGCATCAGCTAAGAGATAT
15513003 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC
1 GCTAGTGTAAGACATGTCT-GGACATGCATCAGC
15513037 ACGCATATAT
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 6 0.06
44 30 0.29
45 4 0.04
46 32 0.31
47 29 0.28
48 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (43 bp):
GCTAGTGTAAGACATGTCTGGACATGCATCAGCTAAGAGATAT
Found at i:15514002 original size:47 final size:44
Alignment explanation
Indices: 15513929--15514043 Score: 124
Period size: 44 Copynumber: 2.5 Consensus size: 44
15513919 GAGTGCTAGA
* *
15513929 GTAAGACATGTCTGGGATATGCATCGGCCTCGATAGAGAT-AGCCAGT
1 GTAAGACATGTCTGGGACACGCATCGG-CT--A-AGAGATGAGCCAGT
* * * *
15513976 GTAAGACATGTCTGGGACACGTATCGGCTAAGAGTTGTGCTAGT
1 GTAAGACATGTCTGGGACACGCATCGGCTAAGAGATGAGCCAGT
*
15514020 GTAAGACATGTCTGGGACATGCAT
1 GTAAGACATGTCTGGGACACGCAT
15514044 AGCACGCATA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
43 5 0.08
44 28 0.47
46 2 0.03
47 24 0.41
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (44 bp):
GTAAGACATGTCTGGGACACGCATCGGCTAAGAGATGAGCCAGT
Found at i:15520715 original size:20 final size:19
Alignment explanation
Indices: 15520690--15520727 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
15520680 CATGGATGTA
*
15520690 TTTATGTAAAATTCTGAGTT
1 TTTATGGAAAATT-TGAGTT
15520710 TTTATGGAAAATTTGAGT
1 TTTATGGAAAATTTGAGT
15520728 CCTAGTTGTG
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:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (19 bp):
TTTATGGAAAATTTGAGTT
Found at i:15528954 original size:47 final size:46
Alignment explanation
Indices: 15528882--15529049 Score: 137
Period size: 46 Copynumber: 3.6 Consensus size: 46
15528872 TGATTTGTGC
* * *
15528882 GCCAGTGTAAGATATGTCTGAGACATGCTTCGGCCACACTATGAGA
1 GCCAGTATAAGACATGTCTGGGACATGCTTCGGCCACACTATGAGA
* * *
15528928 GCCAGTATAAGACAATGTCTGGGACATGGCATCGGCATCCAGAC-A--AGG
1 GCCAGTATAAGAC-ATGTCTGGGACAT-GCTTCGG---CCACACTATGAGA
* * * * * *
15528976 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGT
1 GCCAGTATAAGACATGTCTGGGACATGCTTCGGCCACACTATGAGA
*
15529022 GCCAG-AGTAAGACATGTCTGGCACATGC
1 GCCAGTA-TAAGACATGTCTGGGACATGC
15529050 ATCAGCCTCG
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
46 42 0.43
47 25 0.26
48 19 0.20
50 1 0.01
51 5 0.05
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (46 bp):
GCCAGTATAAGACATGTCTGGGACATGCTTCGGCCACACTATGAGA
Found at i:15529088 original size:47 final size:45
Alignment explanation
Indices: 15528979--15529146 Score: 153
Period size: 47 Copynumber: 3.7 Consensus size: 45
15528969 GACAAGGGCT
* * ** *
15528979 AGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGA-GTGCC
1 AGTGTAAGACATGTCTGGAACATGCATCAGCC-TAAGA-GATATGCC
* *
15529025 AGAGTAAGACATGTCTGGCACATGCATCAGCCTCGACAGAGATA-GCC
1 AGTGTAAGACATGTCTGGAACATGCATCAGCCT--A-AGAGATATGCC
* * * *
15529072 AGTGTAAGACGTGTCTGGAACACGCATCAG-CTAAGAGTTATGCT
1 AGTGTAAGACATGTCTGGAACATGCATCAGCCTAAGAGATATGCC
* *
15529116 AGTGTAAGACATGTCTGGGACATGCACCAGC
1 AGTGTAAGACATGTCTGGAACATGCATCAGC
15529147 ACGCATATAT
Statistics
Matches: 100, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 29 0.29
45 1 0.01
46 31 0.31
47 32 0.32
48 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGAACATGCATCAGCCTAAGAGATATGCC
Found at i:15529131 original size:44 final size:46
Alignment explanation
Indices: 15528979--15529133 Score: 133
Period size: 46 Copynumber: 3.4 Consensus size: 46
15528969 GACAAGGGCT
* * * *
15528979 AGTGTAAGACATGTCTGGGACATGCTTCAGCCAT-ATTATGAG-T-GCC
1 AGTGTAAGACATGTCTGGAACACGCATCAGCC-TCA-CA-GAGATAGCC
* * *
15529025 AGAGTAAGACATGTCTGGCACATGCATCAGCCTCGACAGAGATAGCC
1 AGTGTAAGACATGTCTGGAACACGCATCAGCCTC-ACAGAGATAGCC
* * *
15529072 AGTGTAAGACGTGTCTGGAACACGCATCAG-CT-A-AGAGTTATGCT
1 AGTGTAAGACATGTCTGGAACACGCATCAGCCTCACAGAGATA-GCC
15529116 AGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGG
15529134 GACATGCACC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
44 20 0.22
45 4 0.04
46 33 0.35
47 30 0.32
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGAACACGCATCAGCCTCACAGAGATAGCC
Found at i:15533300 original size:46 final size:46
Alignment explanation
Indices: 15533233--15533325 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
15533223 GTAAAAGAAT
15533233 AAAGCATACGCAATCTCTCCATAGGTAGGAAAGAGATTTTTATCAA
1 AAAGCATACGCAATCTCTCCATAGGTAGGAAAGAGATTTTTATCAA
15533279 AAAGCATACGCAATCTCTCCATAGGTAGGAAAGAGATTTTTATCAA
1 AAAGCATACGCAATCTCTCCATAGGTAGGAAAGAGATTTTTATCAA
15533325 A
1 A
15533326 TCAATTTTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (46 bp):
AAAGCATACGCAATCTCTCCATAGGTAGGAAAGAGATTTTTATCAA
Found at i:15533489 original size:28 final size:28
Alignment explanation
Indices: 15533449--15533504 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
15533439 ATAAATAAAG
15533449 GAATTCATTAGTGTAGTTGGAAGTTTTT
1 GAATTCATTAGTGTAGTTGGAAGTTTTT
15533477 GAATTCATTAGTGTAGTTGGAAGTTTTT
1 GAATTCATTAGTGTAGTTGGAAGTTTTT
15533505 ATGTTTTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (28 bp):
GAATTCATTAGTGTAGTTGGAAGTTTTT
Found at i:15535658 original size:19 final size:20
Alignment explanation
Indices: 15535627--15535665 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
15535617 ACACTTATTA
15535627 TTTAAAAATATTAT-TTTTG
1 TTTAAAAATATTATATTTTG
15535646 TTTAATAAA-ATTATATTTTG
1 TTTAA-AAATATTATATTTTG
15535666 AAAGTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTAAAAATATTATATTTTG
Found at i:15541859 original size:18 final size:18
Alignment explanation
Indices: 15541836--15541878 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
15541826 CAAGTACTCT
15541836 AAGAATTGTACCCTTGGG
1 AAGAATTGTACCCTTGGG
15541854 AAGAATTGTACCCTTGGG
1 AAGAATTGTACCCTTGGG
*
15541872 GAGAATT
1 AAGAATT
15541879 ATTGGCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (18 bp):
AAGAATTGTACCCTTGGG
Found at i:15545969 original size:25 final size:25
Alignment explanation
Indices: 15545932--15545979 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
15545922 TTTTTTGGCT
* *
15545932 TTTTGTTTCTTTTTCCTTTTATTTCC
1 TTTTATTTCTTTTTAC-TTTATTTCC
15545958 TTTTATTT-TTTTTACTTTATTT
1 TTTTATTTCTTTTTACTTTATTT
15545980 TAATTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 6 0.30
26 7 0.35
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTATTTCTTTTTACTTTATTTCC
Found at i:15546351 original size:16 final size:16
Alignment explanation
Indices: 15546316--15546365 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
15546306 TCTATAATTC
*
15546316 ATATTATAATTTAAATA
1 ATATAATAA-TTAAATA
*
15546333 ATATAATAATTATATA
1 ATATAATAATTAAATA
*
15546349 ATATAATAATTTAATA
1 ATATAATAATTAAATA
15546365 A
1 A
15546366 AGTAAGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 21 0.72
17 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATAATAATTAAATA
Found at i:15549988 original size:12 final size:13
Alignment explanation
Indices: 15549964--15549992 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15549954 GGGCTATAAC
15549964 TATTGCATTTATT
1 TATTGCATTTATT
15549977 TATTGC-TTTATT
1 TATTGCATTTATT
15549989 TATT
1 TATT
15549993 CATATATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:15550599 original size:15 final size:16
Alignment explanation
Indices: 15550579--15550616 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
15550569 TAATTAATGA
15550579 TATATAAATAT-AATT
1 TATATAAATATGAATT
15550594 TATAT-AATATGAATT
1 TATATAAATATGAATT
15550609 TATGATAA
1 TAT-ATAA
15550617 TTAAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.25
15 12 0.60
16 2 0.10
17 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
TATATAAATATGAATT
Found at i:15550602 original size:14 final size:13
Alignment explanation
Indices: 15550565--15550626 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 13
15550555 TGTTTTAAAG
*
15550565 TATATAATTAATGA
1 TATATAATTAAT-T
15550579 TATATAAATATAATT
1 TATAT-AAT-TAATT
15550594 TATATAATATGAATT
1 TATATAAT-T-AATT
*
15550609 TATGATAATTAAAT
1 TAT-ATAATTAATT
15550623 TATA
1 TATA
15550627 ATGATATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
13 1 0.02
14 16 0.38
15 16 0.38
16 9 0.21
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (13 bp):
TATATAATTAATT
Found at i:15558015 original size:17 final size:18
Alignment explanation
Indices: 15557995--15558030 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
15557985 AAATAGAAAA
*
15557995 AAGGATTAAA-TTGAATT
1 AAGGATAAAAGTTGAATT
15558012 AAGGATAAAAGTTGAATT
1 AAGGATAAAAGTTGAATT
15558030 A
1 A
15558031 TAGAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (18 bp):
AAGGATAAAAGTTGAATT
Found at i:15558168 original size:15 final size:16
Alignment explanation
Indices: 15558148--15558185 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
15558138 TAATTAATGA
15558148 TATATAAATAT-AATT
1 TATATAAATATGAATT
15558163 TATAT-AATATGAATT
1 TATATAAATATGAATT
15558178 TATGATAA
1 TAT-ATAA
15558186 TTAAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.25
15 12 0.60
16 2 0.10
17 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
TATATAAATATGAATT
Found at i:15558194 original size:29 final size:28
Alignment explanation
Indices: 15558128--15558195 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
15558118 TTTATTTGTT
15558128 TTAAATTATATAATTAATGATATATAAA
1 TTAAATTATATAATTAATGATATATAAA
* *
15558156 TATAATTTATATAA-T-ATGAATTTATGATAA
1 T-TAAATTATATAATTAATG-ATATAT-A-AA
15558186 TTAAATTATA
1 TTAAATTATA
15558196 ATGATATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 3 0.09
28 7 0.21
29 20 0.61
30 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TTAAATTATATAATTAATGATATATAAA
Found at i:15558555 original size:14 final size:14
Alignment explanation
Indices: 15558516--15558548 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15558506 AATATAAAAC
*
15558516 AAATAAATTAAATT
1 AAATAAATTAAAGT
15558530 AAATAAATTAAAGT
1 AAATAAATTAAAGT
15558544 AAATA
1 AAATA
15558549 GAATAAAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
AAATAAATTAAAGT
Found at i:15568808 original size:22 final size:22
Alignment explanation
Indices: 15568783--15568829 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
15568773 CTAGAATCCA
15568783 AGTTTTGCAATTTATTCAATTT
1 AGTTTTGCAATTTATTCAATTT
15568805 AGTTTTGCAATTTATTCAATTT
1 AGTTTTGCAATTTATTCAATTT
15568827 AGT
1 AGT
15568830 CCCTAATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.53
Consensus pattern (22 bp):
AGTTTTGCAATTTATTCAATTT
Found at i:15569440 original size:50 final size:50
Alignment explanation
Indices: 15569382--15569481 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
15569372 AAATTGTGGA
* *
15569382 CTCAGTTTACCTTTTTGAACAAATCTTAATACCTTTCTCCATGGAGATAC
1 CTCAGTTTACCGTTTTGAACAAATCTCAATACCTTTCTCCATGGAGATAC
*
15569432 CTCAGTTTACCGTTTTGAACAAATCTCAATATCTTTCTCCATGGAGATAC
1 CTCAGTTTACCGTTTTGAACAAATCTCAATACCTTTCTCCATGGAGATAC
15569482 TTTCAAGAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (50 bp):
CTCAGTTTACCGTTTTGAACAAATCTCAATACCTTTCTCCATGGAGATAC
Found at i:15581061 original size:33 final size:32
Alignment explanation
Indices: 15580920--15581065 Score: 96
Period size: 33 Copynumber: 4.4 Consensus size: 32
15580910 ATAACTCAGT
*
15580920 TATGGTCTTATCATCAGAATGCCATAGCCCAGC
1 TATGGTCTTA-CATCAGAATGCCATAGCCCAAC
* * * * *
15580953 TATGATCTTACATATAAACACTGTCATGGCCCAAC
1 TATGGTCTTACAT-CAGA-A-TGCCATAGCCCAAC
* * * * * * *
15580988 CACGGTCTTACGTTCATAGTGCCATA-ACCAAT
1 TATGGTCTTAC-ATCAGAATGCCATAGCCCAAC
* *
15581020 TATAGTCTTATCATCAGAATGTCATAGCCCAAC
1 TATGGTCTTA-CATCAGAATGCCATAGCCCAAC
15581053 TATGGTCTTACAT
1 TATGGTCTTACAT
15581066 TCTTACATAT
Statistics
Matches: 80, Mismatches: 27, Indels: 13
0.67 0.22 0.11
Matches are distributed among these distances:
32 27 0.34
33 30 0.38
34 1 0.01
35 21 0.26
36 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (32 bp):
TATGGTCTTACATCAGAATGCCATAGCCCAAC
Found at i:15586690 original size:21 final size:20
Alignment explanation
Indices: 15586652--15586688 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15586642 AAATTTTTTT
15586652 AAATTCAAAATATTTATAAA
1 AAATTCAAAATATTTATAAA
*
15586672 AAATTCTAAA-ATTTATA
1 AAATTCAAAATATTTATA
15586689 TATATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTCAAAATATTTATAAA
Found at i:15589320 original size:78 final size:77
Alignment explanation
Indices: 15589181--15589323 Score: 216
Period size: 78 Copynumber: 1.8 Consensus size: 77
15589171 TAAAACACAC
* *
15589181 AAATTTGGCACCCAGTGCCTCATCGAATAATTCAAAGTAATAAATTGACACCCAATGTCTCATCG
1 AAATTTGGCACCCAGTACCTCATCGAATAATCCAAAGTAATAAATTGACACCCAATGTCTCATCG
15589246 GCCATGCCAAAG
66 GCCATGCCAAAG
* * *
15589258 AAATTTGGTACCCAGTACCTCATCGAATTTATCCGAAGTAAT-AATGTGACACCCAATGTCTCAT
1 AAATTTGGCACCCAGTACCTCATCGAA-TAATCCAAAGTAATAAAT-TGACACCCAATGTCTCAT
15589322 CG
64 CG
15589324 ACTCGAAGTC
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
77 28 0.47
78 31 0.53
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (77 bp):
AAATTTGGCACCCAGTACCTCATCGAATAATCCAAAGTAATAAATTGACACCCAATGTCTCATCG
GCCATGCCAAAG
Found at i:15590168 original size:17 final size:17
Alignment explanation
Indices: 15590148--15590206 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
15590138 ATTTCTCCTT
15590148 TTTCTTTCTTTCTTTCC
1 TTTCTTTCTTTCTTTCC
* * *
15590165 TTTCTTTGTTTCGTCCC
1 TTTCTTTCTTTCTTTCC
** *
15590182 CCTCTTTCTTTCTTTTC
1 TTTCTTTCTTTCTTTCC
15590199 TATTCTTT
1 T-TTCTTT
15590207 TTCTTTTTTT
Statistics
Matches: 30, Mismatches: 11, Indels: 1
0.71 0.26 0.02
Matches are distributed among these distances:
17 25 0.83
18 5 0.17
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTCTTTCTTTCTTTCC
Found at i:15590266 original size:5 final size:5
Alignment explanation
Indices: 15590256--15590396 Score: 257
Period size: 5 Copynumber: 28.0 Consensus size: 5
15590246 ATTATTAAAC
15590256 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA T-A-ATA TAATA TAATA
15590308 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
15590358 TAATA TAATA TAATA -AATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
15590397 CTAAGTAATA
Statistics
Matches: 133, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.03
5 123 0.92
6 2 0.02
7 4 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:15596353 original size:20 final size:20
Alignment explanation
Indices: 15596330--15596379 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
15596320 AAATCCAAAT
*
15596330 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAAGA
* *
15596350 TAAAATCCTAAAATTTAAGA
1 TAAAATACTAAAATTCAAGA
15596370 TAAGAATACT
1 TAA-AATACT
15596380 GATGTGGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAAGA
Found at i:15599522 original size:52 final size:52
Alignment explanation
Indices: 15599460--15599559 Score: 191
Period size: 52 Copynumber: 1.9 Consensus size: 52
15599450 AATTATATAT
*
15599460 TAAAAAGAAACCTGCTCTCAAAGACATTTAGATATGTGTCTAAATCAATTAG
1 TAAAAAGAAACCTGCTCTCAAAGACATTTAGATACGTGTCTAAATCAATTAG
15599512 TAAAAAGAAACCTGCTCTCAAAGACATTTAGATACGTGTCTAAATCAA
1 TAAAAAGAAACCTGCTCTCAAAGACATTTAGATACGTGTCTAAATCAA
15599560 CTATAACGGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (52 bp):
TAAAAAGAAACCTGCTCTCAAAGACATTTAGATACGTGTCTAAATCAATTAG
Found at i:15600195 original size:58 final size:58
Alignment explanation
Indices: 15600091--15600201 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
15600081 ATATCATTAT
** * * *
15600091 TTTTTTTTTCAAATTGACATTTAAATTTTTTTTTGTCACAAGTGGTATTTAAACTATA
1 TTTTTTTTTCAAATTGACACCTAAATTTTTTTGTGTCAAAAGTGGTACTTAAACTATA
* *
15600149 TTTTTTTTTCAATTTGACACCTAAATGTTTTTTGT-TCAAAATTGGTACTTAAA
1 TTTTTTTTTCAAATTGACACCTAAAT-TTTTTTGTGTCAAAAGTGGTACTTAAA
15600202 TTGTACTCAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 38 0.84
59 7 0.16
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (58 bp):
TTTTTTTTTCAAATTGACACCTAAATTTTTTTGTGTCAAAAGTGGTACTTAAACTATA
Found at i:15605091 original size:47 final size:48
Alignment explanation
Indices: 15605018--15605143 Score: 134
Period size: 49 Copynumber: 2.6 Consensus size: 48
15605008 TACGATGTCG
* * *
15605018 ATGCCATGTTCCAAACATGGTCTTACACTAG-CTCTCACATCTA-AGT-CA
1 ATGCCATGTCCCAGACA-GGTCTTACACTAGACT-T-ACATATATAGTGCA
* *
15605066 ATGCCATGTCCCAGATAGGTCTTACACT-GACTTACATATATCGTGGCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTAGACTTACATATATAGT-G-CA
15605115 ATGCCATGTCCCAGACAGGTCTTACACTA
1 ATGCCATGTCCCAGACAGGTCTTACACTA
15605144 ACACGCCTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
45 6 0.09
46 4 0.06
47 13 0.20
48 14 0.21
49 29 0.44
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACAGGTCTTACACTAGACTTACATATATAGTGCA
Found at i:15606193 original size:93 final size:93
Alignment explanation
Indices: 15606081--15606252 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
15606071 GCCCATAAGT
* *
15606081 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15606146 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* *
15606174 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
15606239 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
15606253 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:15606245 original size:46 final size:46
Alignment explanation
Indices: 15606073--15606242 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
15606063 TGTAACCCGC
* * *
15606073 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCAT
* *
15606119 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGA---C-ATTTGCAT
* *
15606169 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCAT
15606212 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
15606243 TTCGGATGCC
Statistics
Matches: 105, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 59 0.56
47 28 0.27
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCAT
Found at i:15606267 original size:46 final size:46
Alignment explanation
Indices: 15606078--15606267 Score: 160
Period size: 46 Copynumber: 4.1 Consensus size: 46
15606068 CCCGCCCATA
* * *
15606078 AGTGAACTCGGACTCAACTCAACGAGCTCAG--GCGT-TCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAT-ACATCC-T
*
15606123 AAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTA--TACATC-CT
* * * *
15606173 --CGAACTCGGACTCAACTCAACGAGTTCAGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTATACATCC-T
* * *
15606216 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTATACATCCT
15606263 AGTGA
1 AGTGA
15606268 CATGTCACTT
Statistics
Matches: 118, Mismatches: 14, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
42 1 0.01
43 6 0.05
45 2 0.02
46 64 0.54
47 29 0.25
48 9 0.08
50 5 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTATACATCCT
Found at i:15608675 original size:15 final size:15
Alignment explanation
Indices: 15608649--15608704 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
15608639 CAAGGAAACC
15608649 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
15608664 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
15608679 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
15608694 GAATAAAGAAA
1 GAATAAAGAAA
15608705 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:15611808 original size:46 final size:46
Alignment explanation
Indices: 15611642--15611815 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
15611632 TGTAACCCGC
* *
15611642 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
15611686 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
15611736 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
15611779 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
15611816 TGCCCAAACA
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 15 0.14
45 21 0.19
46 29 0.26
47 28 0.25
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:15611815 original size:93 final size:91
Alignment explanation
Indices: 15611650--15611819 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 91
15611640 GCCCATAAGT
*
15611650 GAACTCGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
1 GAACTCGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
15611715 AGCTCGGATGCCTAGTTACATCTCTC
66 AGCTCGGATGCCTAGTTACATCTCTC
* *
15611741 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
15611806 CGAGTTCGGATGCC
64 CGAGCTCGGATGCC
15611820 CAAACATCCT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 6 0.08
92 20 0.27
93 47 0.64
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (91 bp):
GAACTCGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGCTCGGATGCCTAGTTACATCTCTC
Found at i:15611834 original size:46 final size:46
Alignment explanation
Indices: 15611691--15611834 Score: 152
Period size: 46 Copynumber: 3.1 Consensus size: 46
15611681 CGCATCCATA
*
15611691 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * *
15611740 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
15611783 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
15611830 AGTGA
1 AGTGA
15611835 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 34 0.44
47 29 0.37
48 6 0.08
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:15616346 original size:22 final size:20
Alignment explanation
Indices: 15616302--15616339 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15616292 TATCATCATC
* *
15616302 TTCTTGCATTTCATATACTA
1 TTCTTCCATGTCATATACTA
15616322 TTCTTCCATGTCATATAC
1 TTCTTCCATGTCATATAC
15616340 ACTATTCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.47
Consensus pattern (20 bp):
TTCTTCCATGTCATATACTA
Found at i:15616762 original size:20 final size:18
Alignment explanation
Indices: 15616725--15616767 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
15616715 ATATATCAAC
15616725 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
15616742 TCACAGATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
15616762 TTACAA
1 TCACAA
15616768 ACTTTACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:15618170 original size:27 final size:27
Alignment explanation
Indices: 15618132--15618189 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
15618122 TCAAAAGTAA
*
15618132 ACTCATTCTGAACTTATTTAGGTTACC
1 ACTCACTCTGAACTTATTTAGGTTACC
*
15618159 ACTCACTCTGAACTTGTTTAGGTTACC
1 ACTCACTCTGAACTTATTTAGGTTACC
15618186 ACTC
1 ACTC
15618190 GCTATATATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (27 bp):
ACTCACTCTGAACTTATTTAGGTTACC
Found at i:15622780 original size:49 final size:49
Alignment explanation
Indices: 15622721--15622895 Score: 167
Period size: 49 Copynumber: 3.6 Consensus size: 49
15622711 ATCTAAGTCA
* * *
15622721 ATGCCTTGTCCCAGATAGGTCTTACACTAACTTAAATACATCGAGGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTAAATACATCGAGGCTG
* * * * * * * *
15622770 ATGACATGTCCTAGACAGGTCTTACACTGGCTCTCACT-TATCTG-TGTTG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCT-TAAATACATC-GAGGCTG
* ** *
15622819 ATGCCATGTCCCAGACAGGTCTTACACTAGCGTGCATATC-TTGAGGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTTAAATA-CATCGAGGCTG
15622868 ATGCCATGTCCCAGACAGGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
15622896 GGCTCTCACT
Statistics
Matches: 99, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
48 3 0.03
49 92 0.93
50 4 0.04
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTAGCTTAAATACATCGAGGCTG
Found at i:15622865 original size:98 final size:98
Alignment explanation
Indices: 15622721--15622943 Score: 313
Period size: 98 Copynumber: 2.3 Consensus size: 98
15622711 ATCTAAGTCA
* * *
15622721 ATGCCTTGTCCCAGATAGGTCTTACACTAACTTAAATACATCGAGGCTGATGACATGTCCTAGAC
1 ATGCCTTGTCCCAGACAGGTCTTACACTAACGTAAATACATCGAGGCTGATGACATGTCCCAGAC
*
15622786 AGGTCTTACACTGGCTCTCACTTATCTGTGTTG
66 AGGTCTTACACTGGCTCTCACTTATCTGTGTCG
* * ** * *
15622819 ATGCCATGTCCCAGACAGGTCTTACACTAGCGTGCATATC-TTGAGGCTGATGCCATGTCCCAGA
1 ATGCCTTGTCCCAGACAGGTCTTACACTAACGTAAATA-CATCGAGGCTGATGACATGTCCCAGA
15622883 CAGGTCTTACACTGGCTCTCACTTATCTGTGTCG
65 CAGGTCTTACACTGGCTCTCACTTATCTGTGTCG
* *
15622917 ATGCCGTTGTCTCTGACAGGTCTTACA
1 ATGCC-TTGTCCCAGACAGGTCTTACA
15622944 TTGACAGACA
Statistics
Matches: 110, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
98 91 0.83
99 19 0.17
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.30
Consensus pattern (98 bp):
ATGCCTTGTCCCAGACAGGTCTTACACTAACGTAAATACATCGAGGCTGATGACATGTCCCAGAC
AGGTCTTACACTGGCTCTCACTTATCTGTGTCG
Found at i:15622920 original size:49 final size:49
Alignment explanation
Indices: 15622769--15622943 Score: 203
Period size: 49 Copynumber: 3.6 Consensus size: 49
15622759 CATCGAGGCT
* * *
15622769 GATGACATGTCCTAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTT
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTC
* * * *
15622818 GATGCCATGTCCCAGACAGGTCTTACACTAGCGT-GCA--TATCTTGAGGC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGC-TCTCACTTATC-TGTGTC
15622866 TGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTC
1 -GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTC
* * *
15622916 GATGCCGTTGTCTCTGACAGGTCTTACA
1 GATGCC-ATGTCCCAGACAGGTCTTACA
15622944 TTGACAGACA
Statistics
Matches: 105, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
47 4 0.04
48 4 0.04
49 70 0.67
50 23 0.22
51 4 0.04
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTC
Found at i:15626770 original size:13 final size:12
Alignment explanation
Indices: 15626754--15626788 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
15626744 CCCAAAATAG
15626754 ATACAGAAAACAA
1 ATACA-AAAACAA
15626767 ATACAAAAAACAA
1 ATAC-AAAAACAA
15626780 ATACAAAAA
1 ATACAAAAA
15626789 TAACAGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 15 0.71
14 1 0.05
ACGTcount: A:0.74, C:0.14, G:0.03, T:0.09
Consensus pattern (12 bp):
ATACAAAAACAA
Found at i:15639168 original size:57 final size:59
Alignment explanation
Indices: 15639040--15639175 Score: 140
Period size: 57 Copynumber: 2.4 Consensus size: 59
15639030 ACATATGTTG
* * * * *
15639040 CAGATAGAATTTAGCCCGGACGGGTAATTCTAATGTAAGCCCTCTTGAGCTTAGATTGTA
1 CAGATAGGATTTAGCCCGGACAGGTAATCCTAATGTAAGCCCTCTAGAGC-TACATTGTA
*
15639100 -A-ATTGGATTTAGCCCGGACAGGTAATCC-ATAT-TAAGCCCTCTAGAGC-ACA-TGCTA
1 CAGATAGGATTTAGCCCGGACAGGTAATCCTA-ATGTAAGCCCTCTAGAGCTACATTG-TA
*
15639155 CAGATAGGATTTAGCCTGGAC
1 CAGATAGGATTTAGCCCGGAC
15639176 TAGTAATTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
54 2 0.03
55 4 0.06
56 1 0.02
57 31 0.48
58 25 0.39
59 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (59 bp):
CAGATAGGATTTAGCCCGGACAGGTAATCCTAATGTAAGCCCTCTAGAGCTACATTGTA
Found at i:15639974 original size:23 final size:23
Alignment explanation
Indices: 15639931--15639975 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15639921 TATGTTTGTG
*
15639931 AGTTTTGGTGCAGAAAAAAGGTA
1 AGTTTTGGTGCACAAAAAAGGTA
*
15639954 AGTTTTGGGTG-ACAAATAAGGT
1 AGTTTT-GGTGCACAAAAAAGGT
15639976 TAGGAAATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.36, C:0.04, G:0.31, T:0.29
Consensus pattern (23 bp):
AGTTTTGGTGCACAAAAAAGGTA
Found at i:15647424 original size:7 final size:7
Alignment explanation
Indices: 15647409--15647438 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
15647399 GATAAAAGTG
15647409 AAAAT-A
1 AAAATAA
15647415 AAAATAA
1 AAAATAA
15647422 AAAATAA
1 AAAATAA
15647429 AAAATAA
1 AAAATAA
15647436 AAA
1 AAA
15647439 GTTTTTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:15651970 original size:29 final size:29
Alignment explanation
Indices: 15651931--15652046 Score: 232
Period size: 29 Copynumber: 4.0 Consensus size: 29
15651921 ACCCAGTGCG
15651931 TATATTTCCAGCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
15651960 TATATTTCCAGCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
15651989 TATATTTCCAGCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
15652018 TATATTTCCAGCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
15652047 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (29 bp):
TATATTTCCAGCATGCACACTTAGTGCCA
Found at i:15660025 original size:29 final size:29
Alignment explanation
Indices: 15659935--15660094 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
15659925 ACTCGATTTC
* * **
15659935 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
15659964 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
15659992 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
15660022 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
15660051 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
15660080 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
15660095 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:15664332 original size:3 final size:3
Alignment explanation
Indices: 15664326--15664408 Score: 116
Period size: 3 Copynumber: 28.0 Consensus size: 3
15664316 ATCTAAGATT
* * *
15664326 TTA TTA TTA TTA TTAA TTA TTA GTA -TA GTC TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15664370 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15664409 ATTTTAAGTT
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
2 4 0.05
3 66 0.90
4 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:15664591 original size:23 final size:23
Alignment explanation
Indices: 15664564--15664638 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
15664554 GTTACTTAAT
15664564 ATTAAAGTAAAAGATATTTGTTA
1 ATTAAAGTAAAAGATATTTGTTA
** * **
15664587 ATTAAA-TAATTGA-GTTACTTAA
1 ATTAAAGTAAAAGATATTTGTT-A
15664609 TATTAAAGTAAAAGATATTTGTTA
1 -ATTAAAGTAAAAGATATTTGTTA
15664633 ATTAAA
1 ATTAAA
15664639 TAATTAAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
21 4 0.11
22 6 0.16
23 18 0.47
24 6 0.16
25 4 0.11
ACGTcount: A:0.48, C:0.01, G:0.11, T:0.40
Consensus pattern (23 bp):
ATTAAAGTAAAAGATATTTGTTA
Found at i:15664594 original size:46 final size:46
Alignment explanation
Indices: 15664539--15664653 Score: 196
Period size: 46 Copynumber: 2.5 Consensus size: 46
15664529 TGTACACTTG
*
15664539 TAATAAAATAATTAAGTTACTTAATATTAAAGTAAAAGATATTTGT
1 TAATTAAATAATTAAGTTACTTAATATTAAAGTAAAAGATATTTGT
*
15664585 TAATTAAATAATTGAGTTACTTAATATTAAAGTAAAAGATATTTGT
1 TAATTAAATAATTAAGTTACTTAATATTAAAGTAAAAGATATTTGT
*
15664631 TAATTAAATAATTAAATTA-TTAA
1 TAATTAAATAATTAAGTTACTTAA
15664654 AATTCTTGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.06
46 61 0.94
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.41
Consensus pattern (46 bp):
TAATTAAATAATTAAGTTACTTAATATTAAAGTAAAAGATATTTGT
Found at i:15667690 original size:27 final size:27
Alignment explanation
Indices: 15667650--15667844 Score: 215
Period size: 27 Copynumber: 7.2 Consensus size: 27
15667640 AGGAAGCGTC
*
15667650 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
15667677 CTGGTGGCTCTGCCAC-ATATATCT-AT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
15667703 CCTAGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
15667731 CTGGTGGTTCTGCCAC-ATATAT-TCG-T
1 CTGGTGGCTCTGCCACAAT-TATCT-GAT
*
15667757 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
15667785 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
15667812 CTGGTGGCTCTGCCACAA-TATCTGTTT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
15667839 CTGGTG
1 CTGGTG
15667845 ACTTCGTCAC
Statistics
Matches: 145, Mismatches: 10, Indels: 26
0.80 0.06 0.14
Matches are distributed among these distances:
26 16 0.11
27 120 0.83
28 9 0.06
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:15667735 original size:54 final size:54
Alignment explanation
Indices: 15667647--15667844 Score: 310
Period size: 54 Copynumber: 3.7 Consensus size: 54
15667637 TGGAGGAAGC
15667647 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
15667701 ATCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGTTCTGCCACATATAT-T
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
15667754 CGTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 -GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
15667809 GTTCTGGTGGCTCTGCCACAA-TATCTGTTTCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
15667845 ACTTCGTCAC
Statistics
Matches: 132, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
53 7 0.05
54 124 0.94
55 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:15671500 original size:16 final size:17
Alignment explanation
Indices: 15671469--15671501 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15671459 CCCCATAGGT
15671469 ATCAAACATACAGAATA
1 ATCAAACATACAGAATA
*
15671486 ATCAATCAT-CAGAATA
1 ATCAAACATACAGAATA
15671502 CAGTCTGGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.18, G:0.06, T:0.21
Consensus pattern (17 bp):
ATCAAACATACAGAATA
Found at i:15676392 original size:2 final size:2
Alignment explanation
Indices: 15676385--15676418 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15676375 CGTTTCATAG
15676385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15676419 CAAAGTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15679810 original size:50 final size:50
Alignment explanation
Indices: 15679755--15679854 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
15679745 CTTTAAACTT
15679755 GAGGATGCAACATCTCAACATATCCTCAAGTACCTGAATAACACGTTCGG
1 GAGGATGCAACATCTCAACATATCCTCAAGTACCTGAATAACACGTTCGG
15679805 GAGGATGCAACATCTCAACATATCCTCAAGTACCTGAATAACACGTTCGG
1 GAGGATGCAACATCTCAACATATCCTCAAGTACCTGAATAACACGTTCGG
15679855 ATTGATTGTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (50 bp):
GAGGATGCAACATCTCAACATATCCTCAAGTACCTGAATAACACGTTCGG
Found at i:15689871 original size:17 final size:17
Alignment explanation
Indices: 15689849--15689882 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15689839 TTAACTTTTG
15689849 CCTAAATACCAATTTAA
1 CCTAAATACCAATTTAA
*
15689866 CCTAAATAGCAATTTAA
1 CCTAAATACCAATTTAA
15689883 TCTCTAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (17 bp):
CCTAAATACCAATTTAA
Found at i:15690366 original size:5 final size:5
Alignment explanation
Indices: 15690358--15690385 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15690348 TTAGTTTAGT
15690358 TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TAT
15690386 TCTTATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:15693287 original size:43 final size:43
Alignment explanation
Indices: 15693213--15693374 Score: 129
Period size: 43 Copynumber: 3.8 Consensus size: 43
15693203 AATGCCAACA
*** * *
15693213 TCCCAGATGTGGTCTTACATGTAATCGAATATCGATGCCTCTG
1 TCCCAGATGTGGTCTTACACAAAATCAAATATCGATGCCACTG
* *
15693256 TCCCAGATAG-GGTCTTACATAAAATCAAATAT-GATGTCGA-TG
1 TCCCAGAT-GTGGTCTTACACAAAATCAAATATCGATG-CCACTG
** * *
15693298 T-CCAGACATGGTTTTACACATAAATCTCAA-ATCGATGCCAAC-G
1 TCCCAGATGTGGTCTTACACA-AAATC-AAATATCGATGCC-ACTG
*
15693341 TCCCAGATGTGGTCTTACACAAAATCACATATCG
1 TCCCAGATGTGGTCTTACACAAAATCAAATATCG
15693375 GAATCCTATG
Statistics
Matches: 93, Mismatches: 16, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
41 14 0.15
42 16 0.17
43 46 0.49
44 17 0.18
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
TCCCAGATGTGGTCTTACACAAAATCAAATATCGATGCCACTG
Found at i:15709803 original size:48 final size:48
Alignment explanation
Indices: 15709732--15710060 Score: 381
Period size: 48 Copynumber: 6.9 Consensus size: 48
15709722 TACGTGATCA
* * ** *
15709732 CGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATTGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGT
* * * *
15709780 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATATCAAGGA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGT
* * **
15709828 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGT
*
15709876 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTA-ATATCAATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTC-ACATATCAAGGT
* * * * *
15709924 CAATGCCATGTTCCAAACATAGTCTTACACCAGCTCACATATCAAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGT
* * * * * *
15709972 CAATGCCATGTCCTAGACATGGTCTTACAGTAGCTCTCATATCAATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGT
* * * *
15710020 CAATGCCATGTTCCAAACATGGTTTTACACCAGCTCACATA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
15710061 ACCCTAGTAT
Statistics
Matches: 240, Mismatches: 39, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
47 1 0.00
48 238 0.99
49 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGT
Found at i:15709896 original size:96 final size:96
Alignment explanation
Indices: 15709734--15710060 Score: 449
Period size: 96 Copynumber: 3.4 Consensus size: 96
15709724 CGTGATCACG
* *
15709734 ATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATTGAGGCCGATGCCATGTCCCAGACA
1 ATGCCATGTTCCAAACATGGTCTTACACCAGCTCACATATTGAGGCCGATGCCATGTCCCAGACA
* * *
15709799 TGGTCTTACACTGGCTC-ATATATCAAGGACG
66 TGGTCTTACACTAGCTCTA-ATATCAATGACA
* * ** * *
15709830 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATTGAGGTCGATGCCATGTCCCAAACA
1 ATGCCATGTTCCAAACATGGTCTTACACCAGCTCACATATTGAGGCCGATGCCATGTCCCAGACA
*
15709895 TGGTCTTACACTAGCTCTAATATCAATGTCA
66 TGGTCTTACACTAGCTCTAATATCAATGACA
* ** * *
15709926 ATGCCATGTTCCAAACATAGTCTTACACCAGCTCACATATCAAGGCCAATGCCATGTCCTAGACA
1 ATGCCATGTTCCAAACATGGTCTTACACCAGCTCACATATTGAGGCCGATGCCATGTCCCAGACA
* * *
15709991 TGGTCTTACAGTAGCTCTCATATCAATGTCA
66 TGGTCTTACACTAGCTCTAATATCAATGACA
*
15710022 ATGCCATGTTCCAAACATGGTTTTACACCAGCTCACATA
1 ATGCCATGTTCCAAACATGGTCTTACACCAGCTCACATA
15710061 ACCCTAGTAT
Statistics
Matches: 205, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 204 1.00
97 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (96 bp):
ATGCCATGTTCCAAACATGGTCTTACACCAGCTCACATATTGAGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTAATATCAATGACA
Found at i:15714057 original size:43 final size:42
Alignment explanation
Indices: 15713994--15714154 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 42
15713984 AGAAAGCTCG
* *
15713994 TACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCGATGTCCCAGACGTGGTCTTACATGTAATCAAA
***
15714036 TATCAATGCCTG-TGTCCCAGACAG-GGTCTTACACAAAATCAAA
1 TA-CAATGCC-GATGTCCCAGAC-GTGGTCTTACATGTAATCAAA
* *
15714079 TACAATGTCGATGTCCCAGACATGGTCTTACATGTAAATCTCAAA
1 TACAATGCCGATGTCCCAGACGTGGTCTTACATGT-AA--TCAAA
* * * *
15714124 T-CGATTCCAACGTCCCAGACGTGGTCTTACA
1 TACAATGCCGATGTCCCAGACGTGGTCTTACA
15714155 CAAAATCACA
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 36 0.38
44 25 0.26
45 6 0.06
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
TACAATGCCGATGTCCCAGACGTGGTCTTACATGTAATCAAA
Found at i:15717011 original size:17 final size:17
Alignment explanation
Indices: 15716989--15717024 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15716979 GAACTTGTCA
15716989 TCACTCTTTTACCTAAT
1 TCACTCTTTTACCTAAT
15717006 TCACTCTTTTACCTAAT
1 TCACTCTTTTACCTAAT
15717023 TC
1 TC
15717025 TTTTCTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (17 bp):
TCACTCTTTTACCTAAT
Found at i:15720358 original size:5 final size:5
Alignment explanation
Indices: 15720350--15720423 Score: 148
Period size: 5 Copynumber: 14.8 Consensus size: 5
15720340 TTAGTTTAGT
15720350 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
15720400 TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATA
15720424 CTAATATGCT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 69 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:15722963 original size:13 final size:13
Alignment explanation
Indices: 15722945--15722972 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15722935 CACGCCTATA
15722945 TATCTAGCCCATG
1 TATCTAGCCCATG
15722958 TATCTAGCCCATG
1 TATCTAGCCCATG
15722971 TA
1 TA
15722973 CCTTTCGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (13 bp):
TATCTAGCCCATG
Found at i:15724026 original size:43 final size:42
Alignment explanation
Indices: 15723979--15724073 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
15723969 TCCCAAACGT
* * * *
15723979 GGTCTTACATATATTCAAATGTCGATGC-CACTGTCCTAGACAG
1 GGTCTTACACAAAATCAAATAT-GATGCTCA-TGTCCTAGACAG
* * *
15724022 GGTCTGACACAAAATCAAATATGATGCTGATGTCCTAGACAT
1 GGTCTTACACAAAATCAAATATGATGCTCATGTCCTAGACAG
15724064 GGTCTTACAC
1 GGTCTTACAC
15724074 GTAAATCTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
42 25 0.58
43 18 0.42
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (42 bp):
GGTCTTACACAAAATCAAATATGATGCTCATGTCCTAGACAG
Found at i:15729138 original size:16 final size:16
Alignment explanation
Indices: 15729112--15729144 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15729102 ATATTAAGCA
15729112 AAGTGTCGATTGAGTAT
1 AAGTGTCGATTGA-TAT
15729129 AAGT-TCGATTGATAT
1 AAGTGTCGATTGATAT
15729144 A
1 A
15729145 GATATTGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (16 bp):
AAGTGTCGATTGATAT
Found at i:15729301 original size:25 final size:26
Alignment explanation
Indices: 15729272--15729323 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
15729262 TATGTATATT
15729272 GTTAAAAAT-AAAAAAAGAATTAAGC
1 GTTAAAAATAAAAAAAAGAATTAAGC
15729297 GTTAAAAATAAAAAAAAAGAATTAAGC
1 GTTAAAAAT-AAAAAAAAGAATTAAGC
15729324 AAAGCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 9 0.36
27 16 0.64
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.19
Consensus pattern (26 bp):
GTTAAAAATAAAAAAAAGAATTAAGC
Found at i:15732442 original size:19 final size:19
Alignment explanation
Indices: 15732420--15732457 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15732410 TAATTTTAGT
15732420 TTTTTTTAGTATAAGACAA
1 TTTTTTTAGTATAAGACAA
15732439 TTTTTTTAGTATAAGACAA
1 TTTTTTTAGTATAAGACAA
15732458 AATACCTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (19 bp):
TTTTTTTAGTATAAGACAA
Found at i:15732524 original size:19 final size:19
Alignment explanation
Indices: 15732491--15732533 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
15732481 AAACATGGGT
15732491 TTTTACAATGAAAAACCTAA
1 TTTTACAATGAAAAA-CTAA
* *
15732511 TTTTA-AATGGAAAATTAA
1 TTTTACAATGAAAAACTAA
15732529 TTTTA
1 TTTTA
15732534 TATTTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (19 bp):
TTTTACAATGAAAAACTAA
Found at i:15732957 original size:31 final size:30
Alignment explanation
Indices: 15732922--15732995 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
15732912 GACATATAAT
*
15732922 TAAAATCAAAATTATTTTTAATAAAAATACC
1 TAAAAT-AAAATTATTTTTAACAAAAATACC
* * * *
15732953 TAAAATAAATATAATTTTTAACAACAATGCT
1 TAAAATAAA-ATTATTTTTAACAAAAATACC
15732984 TAAAATAAAATT
1 TAAAATAAAATT
15732996 TTTATTTTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.35
Consensus pattern (30 bp):
TAAAATAAAATTATTTTTAACAAAAATACC
Found at i:15735837 original size:2 final size:2
Alignment explanation
Indices: 15735830--15735854 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15735820 ATATTTTCAA
15735830 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15735855 AATTACATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15744852 original size:25 final size:25
Alignment explanation
Indices: 15744824--15744877 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
15744814 CGTTTGTAAT
15744824 TGAAACATCGAGCATAGTTCTAAAG
1 TGAAACATCGAGCATAGTTCTAAAG
15744849 TGAAACATCGAGCATAGTTCTAAAG
1 TGAAACATCGAGCATAGTTCTAAAG
15744874 TGAA
1 TGAA
15744878 CTCTAGATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (25 bp):
TGAAACATCGAGCATAGTTCTAAAG
Found at i:15746268 original size:26 final size:26
Alignment explanation
Indices: 15746166--15746252 Score: 174
Period size: 26 Copynumber: 3.3 Consensus size: 26
15746156 GTCAGTATTG
15746166 CACATGGCCTGTGGCCACGCCCATGC
1 CACATGGCCTGTGGCCACGCCCATGC
15746192 CACATGGCCTGTGGCCACGCCCATGC
1 CACATGGCCTGTGGCCACGCCCATGC
15746218 CACATGGCCTGTGGCCACGCCCATGC
1 CACATGGCCTGTGGCCACGCCCATGC
15746244 CACATGGCC
1 CACATGGCC
15746253 ACATCGCACG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.16, C:0.43, G:0.26, T:0.15
Consensus pattern (26 bp):
CACATGGCCTGTGGCCACGCCCATGC
Found at i:15746268 original size:52 final size:52
Alignment explanation
Indices: 15746166--15746268 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
15746156 GTCAGTATTG
** *
15746166 CACATGGCCTGTGGCCACGCCCATGCCACATGGCCTGTGGCCACGCCCATGC
1 CACATGGCCTGTGGCCACGCCCATGCCACATGGCCCATCGCCACGCCCATGC
*
15746218 CACATGGCCTGTGGCCACGCCCATGCCACATGGCCACATCG-CACGGCCATG
1 CACATGGCCTGTGGCCACGCCCATGCCACATGGCC-CATCGCCACGCCCATG
15746269 TGGTGCTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 44 0.96
53 2 0.04
ACGTcount: A:0.17, C:0.42, G:0.26, T:0.15
Consensus pattern (52 bp):
CACATGGCCTGTGGCCACGCCCATGCCACATGGCCCATCGCCACGCCCATGC
Found at i:15746477 original size:13 final size:13
Alignment explanation
Indices: 15746459--15746483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15746449 GACCGTGTAA
15746459 CTTCCACGGCCGC
1 CTTCCACGGCCGC
15746472 CTTCCACGGCCG
1 CTTCCACGGCCG
15746484 TGGTGATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.52, G:0.24, T:0.16
Consensus pattern (13 bp):
CTTCCACGGCCGC
Found at i:15751669 original size:19 final size:19
Alignment explanation
Indices: 15751645--15751684 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
15751635 ACAAAACAAG
15751645 AGATATCATTCCTCATTTT
1 AGATATCATTCCTCATTTT
15751664 AGATATCATTCCTCATTTT
1 AGATATCATTCCTCATTTT
15751683 AG
1 AG
15751685 CCGTTTTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (19 bp):
AGATATCATTCCTCATTTT
Found at i:15751824 original size:40 final size:40
Alignment explanation
Indices: 15751769--15751848 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
15751759 GATAATAAGT
15751769 TCAACCACTGTTTAGTCTTATTCCTCAATAAAAAGGGAAA
1 TCAACCACTGTTTAGTCTTATTCCTCAATAAAAAGGGAAA
* *
15751809 TCAACTACTGTTTAGTCTTATTCCTCAATGAAAAGGGAAA
1 TCAACCACTGTTTAGTCTTATTCCTCAATAAAAAGGGAAA
15751849 AACCAAAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (40 bp):
TCAACCACTGTTTAGTCTTATTCCTCAATAAAAAGGGAAA
Found at i:15753195 original size:49 final size:50
Alignment explanation
Indices: 15753118--15753263 Score: 195
Period size: 49 Copynumber: 2.9 Consensus size: 50
15753108 TAGCCAAAGC
* *
15753118 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-T
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGT
* * * *
15753167 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAAGT
* * *
15753218 TATCGGGTACGCATAGTAGCCTGCACTTAGCACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
15753264 TCATAATAGA
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 39 0.48
50 4 0.05
51 39 0.48
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (50 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGT
Found at i:15761508 original size:16 final size:18
Alignment explanation
Indices: 15761481--15761513 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15761471 TAGAATTAGG
15761481 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
15761498 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
15761514 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:15763975 original size:19 final size:19
Alignment explanation
Indices: 15763951--15763987 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15763941 ATATCATCAA
*
15763951 AGTAGAAAAGAGAAAGGAG
1 AGTAGAAAAAAGAAAGGAG
15763970 AGTAGAAAAAAGAAAGGA
1 AGTAGAAAAAAGAAAGGA
15763988 AAGGACGGCT
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:0.32, T:0.05
Consensus pattern (19 bp):
AGTAGAAAAAAGAAAGGAG
Found at i:15766347 original size:17 final size:17
Alignment explanation
Indices: 15766308--15766349 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
15766298 CAGCAAATGA
15766308 ATTTAAACTTAAAAAAT
1 ATTTAAACTTAAAAAAT
* *
15766325 AATTAAAGTTAAAAAA-
1 ATTTAAACTTAAAAAAT
15766341 ATTTTAAAC
1 A-TTTAAAC
15766350 CCCTAACTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (17 bp):
ATTTAAACTTAAAAAAT
Found at i:15766923 original size:114 final size:117
Alignment explanation
Indices: 15766762--15766975 Score: 283
Period size: 122 Copynumber: 1.8 Consensus size: 117
15766752 TAGTCACTGT
* * *
15766762 ATATTCAGCCGATATGTTTTAGGGTTCATAAAAAAT--TGTG-TA-ATTTTTTTTATTTTTTTAA
1 ATATTCAGCCGATATGTTTTAGGGTTCATAAAAAATCAAG-GATATATTTTTTTGATATTTTTAA
15766823 TTGGATATTGATGAAACATTTCTTTCCCATGTGTAAAATGTATTTAAGTAAGC
65 TTGGATATTGATGAAACATTTCTTTCCCATGTGTAAAATGTATTTAAGTAAGC
* * * *
15766876 ATATTTAGCCGATTTGTTTTAGGGTTCATAAGAAATCAAGGATTTTTTTTATTTTTTTGATATTT
1 ATATTCAGCCGATATGTTTTAGGGTTCATAAAAAATCAAGGA-----TATATTTTTTTGATATTT
15766941 TTAATTGGATATTGATGAAACATTTCTTTCCCATG
61 TTAATTGGATATTGATGAAACATTTCTTTCCCATG
15766976 CATGAATATT
Statistics
Matches: 84, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
114 33 0.39
115 1 0.01
116 1 0.01
121 1 0.01
122 48 0.57
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (117 bp):
ATATTCAGCCGATATGTTTTAGGGTTCATAAAAAATCAAGGATATATTTTTTTGATATTTTTAAT
TGGATATTGATGAAACATTTCTTTCCCATGTGTAAAATGTATTTAAGTAAGC
Found at i:15769759 original size:62 final size:62
Alignment explanation
Indices: 15769662--15769785 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
15769652 CAAGCCGTAA
15769662 AATTGATTATTTTCTGTCCTTTTGTCAAAAATTGAAAATTTGATTTGAGAAATCATGATTCT
1 AATTGATTATTTTCTGTCCTTTTGTCAAAAATTGAAAATTTGATTTGAGAAATCATGATTCT
15769724 AATTGATTATTTTCTGTCCTTTTGTCAAAAATTGAAAATTTGATTTGAGAAATCATGATTCT
1 AATTGATTATTTTCTGTCCTTTTGTCAAAAATTGAAAATTTGATTTGAGAAATCATGATTCT
15769786 TTTGTTCCAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (62 bp):
AATTGATTATTTTCTGTCCTTTTGTCAAAAATTGAAAATTTGATTTGAGAAATCATGATTCT
Found at i:15772481 original size:19 final size:18
Alignment explanation
Indices: 15772457--15772502 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
15772447 AACGCTTCTT
15772457 TTTGCATTCATTTCATTCA
1 TTTGCATTCATTTCA-TCA
*
15772476 TTTGCATCACATTTCATCA
1 TTTGCAT-TCATTTCATCA
*
15772495 TATGCATT
1 TTTGCATT
15772503 AAATTTCATG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.48
Consensus pattern (18 bp):
TTTGCATTCATTTCATCA
Found at i:15772508 original size:19 final size:19
Alignment explanation
Indices: 15772466--15772511 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
15772456 TTTTGCATTC
* *
15772466 ATTTCATTCATTTGCATCAC
1 ATTTCA-TCATATGCATCAA
*
15772486 ATTTCATCATATGCATTAA
1 ATTTCATCATATGCATCAA
15772505 ATTTCAT
1 ATTTCAT
15772512 GAAAGGGCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.30, C:0.20, G:0.04, T:0.46
Consensus pattern (19 bp):
ATTTCATCATATGCATCAA
Found at i:15772669 original size:12 final size:12
Alignment explanation
Indices: 15772637--15772689 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
15772627 GAAAGATTAA
15772637 AACAGATGCAAG
1 AACAGATGCAAG
** *
15772649 AGGAAATGCAAG
1 AACAGATGCAAG
15772661 AACAGATGC-AG
1 AACAGATGCAAG
*
15772672 ACACAAATGCAAG
1 A-ACAGATGCAAG
15772685 AACAG
1 AACAG
15772690 TTGGCAAAGA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
11 3 0.10
12 25 0.81
13 3 0.10
ACGTcount: A:0.51, C:0.17, G:0.25, T:0.08
Consensus pattern (12 bp):
AACAGATGCAAG
Found at i:15772964 original size:83 final size:83
Alignment explanation
Indices: 15772824--15772976 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
15772814 GGAATCACAA
* *
15772824 TGAAGATCCTCTCTACCCTATGGTTTTACCCCAGTAAATGCTCAAACGCAACACGAGATACACAC
1 TGAAGATCCTCTCTACCCTATGGTTTTACCCCAGCAAATGCTCAAACGCAACACGAGACACACAC
15772889 GCAAAAGCCATCCATTGC
66 GCAAAAGCCATCCATTGC
* * * *
15772907 TGAAGATCCTCTCTACCCTCTGGTTTTA-CCCTGACAAATGCTCAAACGTAACCCGAGACACACA
1 TGAAGATCCTCTCTACCCTATGGTTTTACCCCAG-CAAATGCTCAAACGCAACACGAGACACACA
15772971 CGCAAA
65 CGCAAA
15772977 GGTCGTCCGT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
82 4 0.06
83 59 0.94
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (83 bp):
TGAAGATCCTCTCTACCCTATGGTTTTACCCCAGCAAATGCTCAAACGCAACACGAGACACACAC
GCAAAAGCCATCCATTGC
Found at i:15775182 original size:37 final size:38
Alignment explanation
Indices: 15775082--15775183 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
15775072 ATATATTTGG
15775082 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
15775118 TACATATATATATATGCATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
15775160 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
15775184 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:15775228 original size:13 final size:15
Alignment explanation
Indices: 15775200--15775228 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15775190 TTAGGAAACG
15775200 TACATAAAAAATATA
1 TACATAAAAAATATA
15775215 TACATAAAAAATAT
1 TACATAAAAAATAT
15775229 CCAACAATAA
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:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
TACATAAAAAATATA
Found at i:15775482 original size:39 final size:39
Alignment explanation
Indices: 15775357--15775482 Score: 120
Period size: 39 Copynumber: 3.3 Consensus size: 39
15775347 ATAATTTGAA
*
15775357 ATAATA-ATATATACACAATATGGTATTTAAAAAATATAT--
1 ATAATATATATATA-ACTA-ATGGTA-TTAAAAAATATATAC
* * *
15775396 AT-ATATATATAT-A-TAATAGTATTTAAGAATATATAC
1 ATAATATATATATAACTAATGGTATTAAAAAATATATAC
* * *
15775432 ATAAGAAATATATAACTAATGGCATTAAAAAATATATAC
1 ATAATATATATATAACTAATGGTATTAAAAAATATATAC
15775471 ATAATATATATA
1 ATAATATATATA
15775483 AAATACCTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
34 11 0.16
35 5 0.07
36 3 0.04
37 9 0.13
38 4 0.06
39 37 0.54
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.36
Consensus pattern (39 bp):
ATAATATATATATAACTAATGGTATTAAAAAATATATAC
Found at i:15776007 original size:16 final size:15
Alignment explanation
Indices: 15775988--15776023 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
15775978 TTTTTCTTTT
*
15775988 TTTTTTTGGGGTTAGG
1 TTTTTTTAGGG-TAGG
15776004 TTTTTTTAGGGTAGG
1 TTTTTTTAGGGTAGG
15776019 TTTTT
1 TTTTT
15776024 CTTTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.61
Consensus pattern (15 bp):
TTTTTTTAGGGTAGG
Found at i:15776041 original size:17 final size:17
Alignment explanation
Indices: 15776019--15776054 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
15776009 TTAGGGTAGG
15776019 TTTTTCTTT-TTCTTTTT
1 TTTTTCTTTGTT-TTTTT
15776036 TTTTTCTTTGTTTTTTT
1 TTTTTCTTTGTTTTTTT
15776053 TT
1 TT
15776055 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTCTTTGTTTTTTT
Found at i:15776049 original size:12 final size:11
Alignment explanation
Indices: 15776019--15776052 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
15776009 TTAGGGTAGG
15776019 TTTTTCTTTTTC
1 TTTTT-TTTTTC
15776031 TTTTTTTTTTC
1 TTTTTTTTTTC
15776042 TTTGTTTTTTT
1 TTT-TTTTTTT
15776053 TTGGGTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:15776904 original size:30 final size:30
Alignment explanation
Indices: 15776868--15776929 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
15776858 TTTTGAAAAA
15776868 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
15776898 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
15776928 CA
1 CA
15776930 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:15777046 original size:14 final size:14
Alignment explanation
Indices: 15777023--15777057 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
15777013 TGAGTTGATT
15777023 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
15777036 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
15777050 TTTGAAAA
1 TTTGAAAA
15777058 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:15777251 original size:77 final size:75
Alignment explanation
Indices: 15777077--15777416 Score: 361
Period size: 72 Copynumber: 4.5 Consensus size: 75
15777067 ATGTAACCCG
* * * *
15777077 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCT
* *
15777142 CAGTGTGTGATCTGA
63 CA--GCGTGATCTCA
* *
15777157 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA
*
15777221 GCGCATGAGC-CA
65 GCG--TGATCTCA
* * * *
15777233 AGGGTCAACTCACTTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
**
15777297 CGTG-TCTTG
66 CGTGATCTCA
** * * *
15777306 AGGCTCAACTCATTTCTCACAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
* *
15777369 CGTG-TCCCG
66 CGTGATCTCA
15777378 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
15777417 TTTTTTGAAA
Statistics
Matches: 224, Mismatches: 29, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
72 65 0.29
73 30 0.13
74 4 0.02
75 23 0.10
76 12 0.05
77 41 0.18
78 3 0.01
79 45 0.20
80 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
CGTGATCTCA
Found at i:15777365 original size:72 final size:72
Alignment explanation
Indices: 15777036--15777414 Score: 344
Period size: 72 Copynumber: 5.0 Consensus size: 72
15777026 GAAAACAGAA
** * * * *
15777036 TTTGAAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATG
1 TTTG-AAAACAGAAATTGAAAATACCTCAACGTGT--CCCGAGGCTCAACTCACTTCTCGCAATA
15777101 TGAGTTGATTTT
63 TGAGTTGA--TT
* * ** * * * *
15777113 TTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAA
1 TTTG-AAAACAGAAATTG--AAAATACCTCAACGTGT--CCCGAGGCTCAACTCACTTCTCGCAA
15777178 TATGAGTTGATTTT
61 TATGAGTTGA--TT
* * * ** * *
15777192 TTTGAAAGATAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACTTCTCGCAATA
1 TTTGAAA-ACAGAAATTGAAAATACCTCAACG--TGTCCCGAGGCTCAACTCACTTCTCGCAATA
*
15777257 TAAGTTGATTT
63 TGAGTTGA-TT
** * *
15777268 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGA
*
15777333 GTTGAAT
66 GTTGATT
* * *
15777340 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGA
15777405 GTTGATT
66 GTTGATT
15777412 TTT
1 TTT
15777415 TTTTTTTTGA
Statistics
Matches: 251, Mismatches: 46, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
72 68 0.27
73 30 0.12
75 21 0.08
76 10 0.04
77 55 0.22
78 3 0.01
79 64 0.25
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (72 bp):
TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGA
GTTGATT
Found at i:15777559 original size:171 final size:168
Alignment explanation
Indices: 15777272--15777749 Score: 709
Period size: 165 Copynumber: 2.9 Consensus size: 168
15777262 TGATTTTTTG
* * * ** * *
15777272 AAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
15777335 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
15777399 ATATGAGTTGATTTTTTTTTTTTTGAAATGCAGAAATTGA
131 ATATGAGTTGA--TTTTTTTTTTTGAAAGGCAAAAATTGA
*
15777439 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
15777504 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
15777569 AATATGAGTTGA----TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
* * * * *
15777604 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACCAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
15777669 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
15777734 AATATGAGTTGATTTT
130 AATATGAGTTGATTTT
15777750 GAAAAAGTAG
Statistics
Matches: 283, Mismatches: 20, Indels: 14
0.89 0.06 0.04
Matches are distributed among these distances:
165 156 0.55
167 27 0.10
168 1 0.00
169 30 0.11
171 69 0.24
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (168 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
Found at i:15777568 original size:74 final size:75
Alignment explanation
Indices: 15777445--15777606 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 75
15777435 TTGAAAAATG
*
15777445 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
15777510 TTTTGACAACA
65 TTTTGACAACA
* * *
15777521 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
15777584 TTTTGA-AAGGCA
65 TTTTGACAA--CA
*
15777596 AAAATTGAAAA
1 GAAATTGAAAA
15777607 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
73 2 0.03
74 42 0.55
75 12 0.16
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:15777735 original size:74 final size:75
Alignment explanation
Indices: 15777610--15777749 Score: 210
Period size: 74 Copynumber: 1.9 Consensus size: 75
15777600 TTGAAAAACG
* *
15777610 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACCAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACCAGTTGATTT
15777675 TTTTGACAACA
65 TTTTGACAACA
* * **
15777686 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACCAGTTGATTTT
15777750 GAAAAAGTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 36 0.62
76 22 0.38
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACCAGTTGATTTT
TTTGACAACA
Found at i:15777832 original size:13 final size:13
Alignment explanation
Indices: 15777814--15777838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15777804 TGAACAACGT
15777814 AAATTGAAAATAG
1 AAATTGAAAATAG
15777827 AAATTGAAAATA
1 AAATTGAAAATA
15777839 CCTCAGCGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
AAATTGAAAATAG
Found at i:15777948 original size:72 final size:72
Alignment explanation
Indices: 15777814--15777979 Score: 239
Period size: 72 Copynumber: 2.3 Consensus size: 72
15777804 TGAACAACGT
* * * *
15777814 AAATTG-AAAATAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
15777878 TGAGTTG
66 TGAGTTG
*
15777885 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
1 AAATTGAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAAT
15777949 ATGAGTTG
65 ATGAGTTG
**
15777957 ATTTTGAAAAACAAAAATT-AAAA
1 AAATTGAAAAACAAAAATTGAAAA
15777980 GGCTTAACTC
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
71 12 0.14
72 69 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (72 bp):
AAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
TGAGTTG
Found at i:15778122 original size:71 final size:71
Alignment explanation
Indices: 15777979--15778242 Score: 356
Period size: 70 Copynumber: 3.7 Consensus size: 71
15777969 AAAAATTAAA
* * * * *
15777979 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
15778042 GCCCCG
66 GCCCCG
* *
15778048 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
15778113 GTCTTG
66 GCCCCG
* * *
15778119 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
15778182 TGCCCCG
65 TGCCCCG
*
15778189 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
15778243 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 31 0.19
70 61 0.37
71 58 0.35
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:15778200 original size:70 final size:69
Alignment explanation
Indices: 15777979--15778242 Score: 339
Period size: 71 Copynumber: 3.7 Consensus size: 69
15777969 AAAAATTAAA
* ** * * *
15777979 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
15778044 CCCG
66 CCCG
* * *
15778048 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTAAAAACAAAAATTAAAAATACCTCAGCGT
* **
15778113 GTCTTG
64 GCCCCG
* *
15778119 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATTAAAAATACCTCAGCGTG
15778184 CCCCG
65 CCCCG
*
15778189 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-AAAAACAAAAATTAAAA
15778243 GGCTTAACTC
Statistics
Matches: 167, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
69 33 0.20
70 56 0.34
71 60 0.36
72 14 0.08
73 4 0.02
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
CCCG
Found at i:15778223 original size:263 final size:257
Alignment explanation
Indices: 15777817--15778409 Score: 1033
Period size: 257 Copynumber: 2.3 Consensus size: 257
15777807 ACAACGTAAA
* * * * * * *
15777817 TTGAAAATAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
15777882 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
15777947 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
15778012 TTAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
15778077 TGATT
253 TGATT
15778082 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
15778147 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
15778212 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
15778277 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
15778339 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
15778404 TTGATT
66 TTGATT
15778410 TTCCTTGAAA
Statistics
Matches: 319, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
257 130 0.41
258 1 0.00
263 127 0.40
265 61 0.19
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:15781119 original size:195 final size:195
Alignment explanation
Indices: 15780787--15781176 Score: 753
Period size: 195 Copynumber: 2.0 Consensus size: 195
15780777 TTAATCAATT
15780787 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
1 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
15780852 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
66 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
15780917 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
131 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
* *
15780982 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAGTCCTCGTACACC
1 TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
15781047 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
66 TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
*
15781112 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCTGTCTGGTGATA
131 GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
15781177 CCAGGATTGC
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
195 192 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (195 bp):
TTAAGTCCCTCACTTCTCATTCTCCACGGATTTGGTAAATCACTAGGGCTGAATCCCCGTACACC
TCCAAGATCTTGATGTTTCGTTCGATAGCTGCACGAAGCCCGATGATACAGGCCTCATATTCTGA
GATATTATTGGTACAGAAGAAGTTCAGTCTTGCAGTAAACGGATAATGATTCCCGTCTGGTGATA
Found at i:15788932 original size:34 final size:33
Alignment explanation
Indices: 15788885--15788958 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
15788875 AATAATTTGT
*
15788885 AATA-ATAATATATACACAAT-ATGGTATTTAAA
1 AATATATAATATATACA-AATAATAGTATTTAAA
* * *
15788917 AATATATATATATATATATATAATAGTATTTAAG
1 AATATATA-ATATATACAAATAATAGTATTTAAA
15788951 AATATATA
1 AATATATA
15788959 CATAAGAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 4 0.11
33 5 0.14
34 26 0.74
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (33 bp):
AATATATAATATATACAAATAATAGTATTTAAA
Found at i:15789010 original size:39 final size:39
Alignment explanation
Indices: 15788886--15789010 Score: 127
Period size: 39 Copynumber: 3.3 Consensus size: 39
15788876 ATAATTTGTA
*
15788886 ATAATA-ATATATACACAATATGGTATTTAAAAATATAT--
1 ATAATATATATATA-ACTA-ATGGTATTTAAAAATATATAC
* *
15788924 AT-ATATATATAT-A-TAATAGTATTTAAGAATATATAC
1 ATAATATATATATAACTAATGGTATTTAAAAATATATAC
* * * *
15788960 ATAAGAAATATATAACTAATGGCATTAAAAAATATATAC
1 ATAATATATATATAACTAATGGTATTTAAAAATATATAC
15788999 ATAATATATATA
1 ATAATATATATA
15789011 AAATACCTAA
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
34 17 0.24
35 1 0.01
36 3 0.04
37 11 0.16
38 9 0.13
39 29 0.41
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.36
Consensus pattern (39 bp):
ATAATATATATATAACTAATGGTATTTAAAAATATATAC
Found at i:15789558 original size:16 final size:16
Alignment explanation
Indices: 15789539--15789573 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15789529 TTAGGGTAGG
15789539 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
15789555 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
15789571 TTT
1 TTT
15789574 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:15796332 original size:45 final size:45
Alignment explanation
Indices: 15796283--15796445 Score: 163
Period size: 45 Copynumber: 3.6 Consensus size: 45
15796273 AAGATTGTAG
* *
15796283 ATCTTATC-CCTATGAGGTAGCAATAGAGCAGATCGAAGACGGTGA
1 ATCTTATCTCC-ATGAGGTAGCAATGGAGTAGATCGAAGACGGTGA
* * * **
15796328 ATCTTATCTTCC-TGAGGCAGCAGTGGAGTAG-GCTGAAGATTGT-A
1 ATCTTATC-TCCATGAGGTAGCAATGGAGTAGATC-GAAGACGGTGA
15796372 GATCTTATCTCCATGAGGTAGCAATGGAGTAGATCGAAGACGGTGA
1 -ATCTTATCTCCATGAGGTAGCAATGGAGTAGATCGAAGACGGTGA
* * * *
15796418 ATTTTATCTCCCTAAGGTAGCAAAGGAG
1 ATCTTATCTCCATGAGGTAGCAATGGAG
15796446 CATATTCAAG
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
44 5 0.05
45 86 0.91
46 2 0.02
47 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (45 bp):
ATCTTATCTCCATGAGGTAGCAATGGAGTAGATCGAAGACGGTGA
Found at i:15796377 original size:90 final size:90
Alignment explanation
Indices: 15796254--15796426 Score: 276
Period size: 90 Copynumber: 1.9 Consensus size: 90
15796244 GTCTCCTTGA
*
15796254 GCAGGAGTGGAGCAGACTGAAGATTGTAGATCTTATC-CCTATGAGGTAGCAATAGAGCAGATCG
1 GCAGCAGTGGAGCAGACTGAAGATTGTAGATCTTATCTCC-ATGAGGTAGCAATAGAGCAGATCG
15796318 AAGACGGTGAATCTTATCTTCCTGAG
65 AAGACGGTGAATCTTATCTTCCTGAG
* * * *
15796344 GCAGCAGTGGAGTAGGCTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGTAGATCGA
1 GCAGCAGTGGAGCAGACTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATAGAGCAGATCGA
*
15796409 AGACGGTGAATTTTATCT
66 AGACGGTGAATCTTATCT
15796427 CCCTAAGGTA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
90 74 0.97
91 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (90 bp):
GCAGCAGTGGAGCAGACTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATAGAGCAGATCGA
AGACGGTGAATCTTATCTTCCTGAG
Found at i:15796556 original size:44 final size:43
Alignment explanation
Indices: 15796508--15796756 Score: 229
Period size: 44 Copynumber: 5.6 Consensus size: 43
15796498 GATAGCAGAT
*
15796508 CTTATCTACCTGAAGTTGCAGTTGAGTAGATCGAAGCTACAATC
1 CTTATCT-CCTGAAGTTGCAGTGGAGTAGATCGAAGCTACAATC
* *
15796552 CTTATCTCCCTAAAGTTGCAATGGAGTAGATCGAAGCTACAATC
1 CTTATCT-CCTGAAGTTGCAGTGGAGTAGATCGAAGCTACAATC
* * *
15796596 CTTATCTCTCTGAAGTTGCAGTGGA-TCAGGTTGAA-ATAACAAGT-
1 CTTATCTC-CTGAAGTTGCAGTGGAGT-AGATCGAAGCT-ACAA-TC
* *
15796640 CTTATCTCCCTGAAGTTGTAGTGGAGTAGA-CTGAAGATAGCAGAT-
1 CTTATCT-CCTGAAGTTGCAGTGGAGTAGATC-GAAGCTA-CA-ATC
** *
15796685 CTTATCTCCTTGAAGTTGCAGTGGAGCGGATCGAAGCCACAATC
1 CTTATCTCC-TGAAGTTGCAGTGGAGTAGATCGAAGCTACAATC
* * *
15796729 TTTATCTCTCTAAAGTTGTAGTGGAGTA
1 CTTATCTC-CTGAAGTTGCAGTGGAGTA
15796757 AGATAAAAGT
Statistics
Matches: 169, Mismatches: 22, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
43 5 0.03
44 124 0.73
45 38 0.22
46 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (43 bp):
CTTATCTCCTGAAGTTGCAGTGGAGTAGATCGAAGCTACAATC
Found at i:15796617 original size:133 final size:133
Alignment explanation
Indices: 15796480--15796756 Score: 321
Period size: 133 Copynumber: 2.1 Consensus size: 133
15796470 TCCCTGAGCA
* * *
15796480 GCAGTGAAGTAGGCTAAAGATAGC-AGATCTTATCTACCTGAAGTTGCAGTTGAGTAGA-TCGAA
1 GCAGTGGAGTAGGCTAAA-ATAACAAG-TCTTATCTACCTGAAGTTGCAGTGGAGTAGACT-GAA
* * *
15796543 GCTA-CA-ATCCTTATCTCCCTAAAGTTGCAATGGAGTAGATCGAAGCTACAATCCTTATCTCTC
63 GATAGCAGAT-CTTATCTCCCTAAAGTTGCAATGGAGCAGATCGAAGCCACAATCCTTATCTCTC
*
15796606 TGAAGTT
127 TAAAGTT
* * * *
15796613 GCAGTGGA-TCAGGTTGAAATAACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGA
1 GCAGTGGAGT-AGGCTAAAATAACAAGTCTTATCTACCTGAAGTTGCAGTGGAGTAGACTGAAGA
* * * * *
15796677 TAGCAGATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATCGAAGCCACAATCTTTATCTCTCTAA
65 TAGCAGATCTTATCTCCCTAAAGTTGCAATGGAGCAGATCGAAGCCACAATCCTTATCTCTCTAA
15796742 AGTT
130 AGTT
*
15796746 GTAGTGGAGTA
1 GCAGTGGAGTA
15796757 AGATAAAAGT
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
132 39 0.32
133 79 0.65
134 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (133 bp):
GCAGTGGAGTAGGCTAAAATAACAAGTCTTATCTACCTGAAGTTGCAGTGGAGTAGACTGAAGAT
AGCAGATCTTATCTCCCTAAAGTTGCAATGGAGCAGATCGAAGCCACAATCCTTATCTCTCTAAA
GTT
Found at i:15796782 original size:89 final size:86
Alignment explanation
Indices: 15796518--15796802 Score: 229
Period size: 89 Copynumber: 3.2 Consensus size: 86
15796508 CTTATCTACC
* ** * * *
15796518 TGAAGTTGCAGTTGAGTAGATCGAAGCTACAATCCTTATCTCCCTAAAGTTGCAATGGAGTAGAT
1 TGAAGTTGCAGTGGAGCGGATCGAAGCAACAAT-CTTATCTCCCTAAAGTTGTAGTGGAGTAGAT
* *
15796583 CGAAG-C-TACAATC-CTTATCTCT
65 -GAAGTCGCA-AATCTCTTCTC-CT
* * ** *
15796605 CTGAAGTTGCAGTGGATCAGG-TTGAAATAACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAG
1 -TGAAGTTGCAGTGGAGC-GGATCGAAGCAACAA-TCTTATCTCCCTAAAGTTGTAGTGGAGTAG
* *
15796669 ACTGAAGATAGCAGATCT-TATCTCCT
63 A-TGAAG-TCGCAAATCTCT-TCTCCT
* *
15796695 TGAAGTTGCAGTGGAGCGGATCGAAGCCACAATCTTTATCTCTCTAAAGTTGTAGTGGAGTAAGA
1 TGAAGTTGCAGTGGAGCGGATCGAAGCAACAATC-TTATCTCCCTAAAGTTGTAGTGGAGT-AGA
*
15796760 TAAAAGTCGCAAATCTCTTCTCCT
64 T-GAAGTCGCAAATCTCTTCTCCT
* * *
15796784 TGAAATTACATTGGAGCGG
1 TGAAGTTGCAGTGGAGCGG
15796803 GTTAAAGCAC
Statistics
Matches: 156, Mismatches: 28, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
88 57 0.37
89 82 0.53
90 13 0.08
91 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (86 bp):
TGAAGTTGCAGTGGAGCGGATCGAAGCAACAATCTTATCTCCCTAAAGTTGTAGTGGAGTAGATG
AAGTCGCAAATCTCTTCTCCT
Found at i:15798338 original size:4 final size:4
Alignment explanation
Indices: 15798329--15798355 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15798319 TGTTACTTCA
15798329 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
15798356 GTCTTAGTCT
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:15798430 original size:15 final size:14
Alignment explanation
Indices: 15798410--15798477 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 14
15798400 ATTTATCTTG
15798410 TTTATTTAATCTTTT
1 TTTATTTAAT-TTTT
*
15798425 TTTATTTCA--TTT
1 TTTATTTAATTTTT
15798437 TTTATTATAATTGTTT
1 TTTATT-TAATT-TTT
15798453 TTTATATATATATTTTAT
1 TTTAT-T-TA-ATTTT-T
15798471 TTTATTT
1 TTTATTT
15798478 TATCGTGGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
12 9 0.20
13 2 0.05
15 8 0.18
16 9 0.20
17 7 0.16
18 9 0.20
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (14 bp):
TTTATTTAATTTTT
Found at i:15798473 original size:18 final size:16
Alignment explanation
Indices: 15798434--15798476 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
15798424 TTTTATTTCA
15798434 TTTTTTATTATAATTG
1 TTTTTTATTATAATTG
15798450 TTTTTTATATATATATT-
1 TTTTTTAT-TATA-ATTG
15798467 TTATTTTATT
1 TT-TTTTATT
15798477 TTATCGTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.33
17 7 0.29
18 9 0.38
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTTTTATTATAATTG
Found at i:15798510 original size:3 final size:3
Alignment explanation
Indices: 15798504--15798538 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
15798494 TTTTTTTATG
*
15798504 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15798539 TTAAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Done.