Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 356 of 438
Found at i:111083435 original size:19 final size:19
Alignment explanation
Indices: 111083394--111083437 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
111083384 ATGCAAGAAG
*
111083394 GTCGAGTTGTAGCTTATAG
1 GTCGAGTTGTAGCTTATAC
*
111083413 GTCGAGTTGTAGCTTATTC
1 GTCGAGTTGTAGCTTATAC
111083432 GTCGAG
1 GTCGAG
111083438 GCAACTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.14, G:0.32, T:0.36
Consensus pattern (19 bp):
GTCGAGTTGTAGCTTATAC
Found at i:111091454 original size:27 final size:27
Alignment explanation
Indices: 111091424--111091504 Score: 137
Period size: 27 Copynumber: 3.0 Consensus size: 27
111091414 CTCATATCTA
111091424 TAGGGTAGAATTACTGAAATGCCCTTG
1 TAGGGTAGAATTACTGAAATGCCCTTG
111091451 TAGGGTAGAATTACTGAAATGCCAC-TG
1 TAGGGTAGAATTACTGAAATGCC-CTTG
*
111091478 TAGGGTAGAATTACTGAAATACCCTTG
1 TAGGGTAGAATTACTGAAATGCCCTTG
111091505 GTTTACAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
26 1 0.02
27 49 0.96
28 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATGCCCTTG
Found at i:111091776 original size:27 final size:27
Alignment explanation
Indices: 111091486--111091772 Score: 242
Period size: 27 Copynumber: 10.7 Consensus size: 27
111091476 TGTAGGGTAG
* **
111091486 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACTGAAATACCCTTGATTTGTAA
* *
111091513 AATTACTG-AATACCGTAG-TTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
111091538 AATTACTGAAATACCCTTGATTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
** ** * *
111091565 AATTACCAAAATACCCCCGATTTATGA
1 AATTACTGAAATACCCTTGATTTGTAA
* * *
111091592 AATTACCGAACTACCCTCGATTTGTAA
1 AATTACTGAAATACCCTTGATTTGTAA
* ** * *
111091619 AGTTACCAAAATACCCCTGATTTGGAA
1 AATTACTGAAATACCCTTGATTTGTAA
* * *
111091646 AATTACCGAAATACCCTAGATTTGGAA
1 AATTACTGAAATACCCTTGATTTGTAA
* * **
111091673 AATTACAGAAATACCCCTGATTTACAA
1 AATTACTGAAATACCCTTGATTTGTAA
*
111091700 AATTA-TAGAAATACCCTTGACTTT-CAA
1 AATTACT-GAAATACCCTTGA-TTTGTAA
* *
111091727 AATTA-TAGAAATACCATTGGTTTGTAA
1 AATTACT-GAAATACCCTTGATTTGTAA
*
111091754 AATCACTGAAATACCCTTG
1 AATTACTGAAATACCCTTG
111091773 GTTTATAGAT
Statistics
Matches: 215, Mismatches: 39, Indels: 12
0.81 0.15 0.05
Matches are distributed among these distances:
25 13 0.06
26 19 0.09
27 179 0.83
28 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGATTTGTAA
Found at i:111091916 original size:27 final size:27
Alignment explanation
Indices: 111091830--111091921 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
111091820 ACCCCTAATA
* * *
111091830 GATAAAAAGATCGTAAGGCCCCTGTAG
1 GATAAAATGACCGTAAAGCCCCTGTAG
*
111091857 GGTAAAATGACCGTAAAGCCCCTGTAG
1 GATAAAATGACCGTAAAGCCCCTGTAG
* * *
111091884 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GATAAAATGACCGTAA-AGCCCCTGTAG
*
111091911 TATAAAATGAC
1 GATAAAATGAC
111091922 AATTTTGCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (27 bp):
GATAAAATGACCGTAAAGCCCCTGTAG
Found at i:111092120 original size:27 final size:27
Alignment explanation
Indices: 111092090--111092141 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
111092080 ATTCGCTGTT
111092090 ACTGGTAGCTATGCCACAATTACTGAA
1 ACTGGTAGCTATGCCACAATTACTGAA
* * *
111092117 ACTGGTGGCTTTGCCACATTTACTG
1 ACTGGTAGCTATGCCACAATTACTG
111092142 TTTCTAGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (27 bp):
ACTGGTAGCTATGCCACAATTACTGAA
Found at i:111092346 original size:33 final size:33
Alignment explanation
Indices: 111092309--111092379 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
111092299 ACTGTATTGT
*
111092309 TACTGAATAGGGCTTTGGCCCAGACTGTACTAA
1 TACTGAATAGGGCTTTGGCCCAAACTGTACTAA
*
111092342 TACTGAATAGGGCTTTGGCCCAAACTGTACTGA
1 TACTGAATAGGGCTTTGGCCCAAACTGTACTAA
111092375 TACTG
1 TACTG
111092380 TGTTATTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (33 bp):
TACTGAATAGGGCTTTGGCCCAAACTGTACTAA
Found at i:111095271 original size:50 final size:49
Alignment explanation
Indices: 111095196--111095372 Score: 202
Period size: 48 Copynumber: 3.7 Consensus size: 49
111095186 GATGCCGACA
* *
111095196 CCATGTCCTAGACATGGTCTTACACTGGCTCTTATATATCG-GTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTC-TATATATCGAGTG-CGATG
*
111095246 CCATGTCCCAGACATGGTCTTACACTAGCTCT-TATAT-GAATGCTGAT-
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTATATATCGAGTGC-GATG
* * * * *
111095293 CCATGTTCCAAACATGGTCTTACACTGGCTC-ACATATCGAGGGCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTATATATCGAGTGCGATG
**
111095341 CCATGTCCTGGACATGGTCTTACACTAGCTCT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCT
111095373 CATAACCCTA
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
47 37 0.35
48 40 0.37
49 1 0.01
50 29 0.27
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (49 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTATATATCGAGTGCGATG
Found at i:111095315 original size:47 final size:48
Alignment explanation
Indices: 111095196--111095372 Score: 159
Period size: 47 Copynumber: 3.7 Consensus size: 48
111095186 GATGCCGACA
* *
111095196 CCATG-TCCTAGACATGGTCTTACACTGGCTCTTATAT--ATCGGTGTCGATG
1 CCATGTTCC-AGACATGGTCTTACACTAGCTCTTATATGAAT--G-CT-GATG
*
111095246 CCATGTCCCAGACATGGTCTTACACTAGCTCTTATATGAATGCTGAT-
1 CCATGTTCCAGACATGGTCTTACACTAGCTCTTATATGAATGCTGATG
* * ** **
111095293 CCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGGC-GATG
1 CCATGTTCCAGACATGGTCTTACACTAGCTCTTATAT-GAATGCTGATG
*
111095341 CCATG-TCCTGGACATGGTCTTACACTAGCTCT
1 CCATGTTCC-AGACATGGTCTTACACTAGCTCT
111095373 CATAACCCTA
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
47 38 0.36
48 31 0.29
49 1 0.01
50 33 0.31
51 2 0.02
52 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (48 bp):
CCATGTTCCAGACATGGTCTTACACTAGCTCTTATATGAATGCTGATG
Found at i:111104907 original size:50 final size:50
Alignment explanation
Indices: 111104832--111105017 Score: 233
Period size: 48 Copynumber: 3.8 Consensus size: 50
111104822 AAGGGTAAGA
* *
111104832 TGTCGACGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATATCAG
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATATATCAG
*
111104882 TGTCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTTATATGA--A-
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATAT-ATCAG
* * *
111104930 TG-CTGATGCCATGTTCCAAACATGGTCTTACACTAGCTC--ACATATCAAG
1 TGTC-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATATATC-AG
*
111104979 -GGCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT
111105018 CCTAACCCTA
Statistics
Matches: 119, Mismatches: 9, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
45 1 0.01
46 3 0.03
47 1 0.01
48 69 0.58
49 2 0.02
50 42 0.35
51 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (50 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATATATCAG
Found at i:111105005 original size:96 final size:97
Alignment explanation
Indices: 111104839--111105017 Score: 272
Period size: 96 Copynumber: 1.8 Consensus size: 97
111104829 AGATGTCGAC
* * * *
111104839 GCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATATCAGTGTCGATGCCATGTCCCAGACA
1 GCCATGTCCCAAACATGGTCTTACACTAGCTC-TACATATCAGTGGCGATGCCATGTCCCAGACA
111104904 TGGTCTTACACAAGCTCTTATATGAATGCTGAT
65 TGGTCTTACACAAGCTCTTATATGAATGCTGAT
*
111104937 GCCATGTTCCAAACATGGTCTTACACTAGCTC-ACATATCAAG-GGCGATGCCATGTCCCAGACA
1 GCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATC-AGTGGCGATGCCATGTCCCAGACA
*
111105000 TGGTCTTACACTAGCTCT
65 TGGTCTTACACAAGCTCT
111105018 CCTAACCCTA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
96 43 0.58
97 2 0.03
98 29 0.39
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (97 bp):
GCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATCAGTGGCGATGCCATGTCCCAGACAT
GGTCTTACACAAGCTCTTATATGAATGCTGAT
Found at i:111106185 original size:12 final size:12
Alignment explanation
Indices: 111106170--111106214 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 12
111106160 AATTTGTGGT
111106170 AGAATATGAACG
1 AGAATATGAACG
111106182 AGAATATGAACGTG
1 AGAATATGAAC--G
111106196 ACAGAATATGAACG
1 --AGAATATGAACG
111106210 AGAAT
1 AGAAT
111106215 TCGTGAGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 16 0.55
14 2 0.07
16 11 0.38
ACGTcount: A:0.49, C:0.09, G:0.24, T:0.18
Consensus pattern (12 bp):
AGAATATGAACG
Found at i:111112846 original size:21 final size:22
Alignment explanation
Indices: 111112822--111112873 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
111112812 AGCGACTTAT
* *
111112822 CCCGAAAGAACATG-CACTACA
1 CCCGAAAGAACATGAAAATACA
111112843 CCCGAAA-AA-ATGAAAATACA
1 CCCGAAAGAACATGAAAATACA
111112863 CCC-AAAGAACA
1 CCCGAAAGAACA
111112874 CAAAGAATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 6 0.23
20 12 0.46
21 8 0.31
ACGTcount: A:0.52, C:0.29, G:0.12, T:0.08
Consensus pattern (22 bp):
CCCGAAAGAACATGAAAATACA
Found at i:111113522 original size:46 final size:46
Alignment explanation
Indices: 111113469--111113771 Score: 196
Period size: 46 Copynumber: 6.6 Consensus size: 46
111113459 TGAGAGCTAG
*
111113469 TGTAAGACATGTCTGGGACATGCATCAGCTTAAAGAAGTAAACCAA
1 TGTAAGACATGTCTGGGACATGCATCAGCTTAGAGAAGTAAACCAA
* * * * ** *
111113515 TGTAAGACACGTCTGAGACATGCATCAAC-TACGAGATGT--GTCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCTTA-GAGAAGTAAACCAA
* * * * *
111113559 TGTAAGACCATGTCTGGGACATGGCATCGGCATT-GAGATG-AGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCAGC-TTAGAGAAGTA-AACCAA
* *
111113607 TGTAAGACATGTCTGGGACATGCATCGGCTTCGAGAAGTAAACCAA
1 TGTAAGACATGTCTGGGACATGCATCAGCTTAGAGAAGTAAACCAA
* * * * * ** *
111113653 TGTAAGACACGTTTGAGACATGCATCAAC-TACGAGATGT--GTCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCTTA-GAGAAGTAAACCAA
* *
111113697 TGTAAGACCATGTCTGGGACATGGCAT-TGTCTT-GAGATA-TAAACCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCAG-CTTAGAGA-AGTAAACCAA
111113744 TGTAAGACTATGTCTGGGACATGGCATC
1 TGTAAGAC-ATGTCTGGGACAT-GCATC
111113772 GACATTTTAC
Statistics
Matches: 201, Mismatches: 36, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
44 18 0.09
45 33 0.16
46 95 0.47
47 44 0.22
48 11 0.05
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCAGCTTAGAGAAGTAAACCAA
Found at i:111113642 original size:92 final size:93
Alignment explanation
Indices: 111113414--111113771 Score: 238
Period size: 92 Copynumber: 3.8 Consensus size: 93
111113404 AGGTTATTAT
*
111113414 GAGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATT-GAGATGAGAGCTAGTGTAAGACA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TTCGAGATGAGAGCTAGTGTAAGACA
111113478 TGTCTGGGACATGCATCAGCTTAAAGAAGTA
63 TGTCTGGGACATGCATCAGCTTAAAGAAGTA
* * * * ** * * *
111113509 -AACCAATGTAAGACACGTCTGAGACATGCATCAACTACGAGATGTG-TC-AGTGTAAGACCATG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATGAGAGCTAGTGTAAGA-CATG
* * *
111113571 TCTGGGACATGGCATCGGCATT-GAGATG-A
65 TCTGGGACAT-GCATCAGC-TTAAAGAAGTA
* * * * * *
111113600 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGAAGTA-AACCAATGTAAGACACG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATG-AGAGCTAGTGTAAGACATG
* * * *
111113664 TTTGAGACATGCATCAAC-T-ACG-AG-A
65 TCTGGGACATGCATCAGCTTAAAGAAGTA
* * * * * * *
111113689 TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATTGTCTT-GAGAT-ATAAACCAGTGTAAGAC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTCGAGATGA-GAGCTAGTGTAAGAC
111113752 TATGTCTGGGACATGGCATC
62 -ATGTCTGGGACAT-GCATC
111113772 GACATTTTAC
Statistics
Matches: 205, Mismatches: 43, Indels: 32
0.73 0.15 0.11
Matches are distributed among these distances:
89 3 0.01
90 22 0.11
91 48 0.23
92 83 0.40
93 30 0.15
94 19 0.09
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (93 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATGAGAGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCTTAAAGAAGTA
Found at i:111113670 original size:138 final size:138
Alignment explanation
Indices: 111113418--111113772 Score: 579
Period size: 138 Copynumber: 2.6 Consensus size: 138
111113408 TATTATGAGC
*
111113418 CAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCT
*
111113483 GGGACATGCATCAGCTTAAAGAAGTAAACCAATGTAAGACACGTCTGAGACATGCATCAACTACG
66 GGGACATGCATCGGCTTAAAGAAGTAAACCAATGTAAGACACGTCTGAGACATGCATCAACTACG
111113548 AGATGTGT
131 AGATGTGT
111113556 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCT
** *
111113621 GGGACATGCATCGGCTTCGAGAAGTAAACCAATGTAAGACACGTTTGAGACATGCATCAACTACG
66 GGGACATGCATCGGCTTAAAGAAGTAAACCAATGTAAGACACGTCTGAGACATGCATCAACTACG
111113686 AGATGTGT
131 AGATGTGT
* * * * *
111113694 CAGTGTAAGACCATGTCTGGGACATGGCATTGTC-TTGAGAT-ATAAACCAGTGTAAGACTATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA-GAGCTAGTGTAAGAC-ATGT
111113757 CTGGGACATGGCATCG
64 CTGGGACAT-GCATCG
111113773 ACATTTTACC
Statistics
Matches: 204, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
136 1 0.00
137 19 0.09
138 178 0.87
139 6 0.03
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (138 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCT
GGGACATGCATCGGCTTAAAGAAGTAAACCAATGTAAGACACGTCTGAGACATGCATCAACTACG
AGATGTGT
Found at i:111123961 original size:40 final size:40
Alignment explanation
Indices: 111123853--111123993 Score: 99
Period size: 40 Copynumber: 3.4 Consensus size: 40
111123843 CCATAACAAT
* *
111123853 CTCACACACTTAGTGCCATTTCAATAAACCGAAGCTA-TCTCAA
1 CTCACACACTTAGTGCCATTT--GT-AGCCGAAGCTATTC-CAA
* ** *
111123896 TATCGTACACTTAGTGCC-TCATGTAGCCGAAGCTATTCCAA
1 -CTCACACACTTAGTGCCAT-TTGTAGCCGAAGCTATTCCAA
*** *
111123937 CTCACACACTTAGTGCCATTTGTAGTTAAAGCTATTTCGAA
1 CTCACACACTTAGTGCCATTTGTAGCCGAAGCTA-TTCCAA
*
111123978 C-CGCACACTTAGTGCC
1 CTCACACACTTAGTGCC
111123994 GAACTTAATC
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
40 39 0.50
41 20 0.26
42 3 0.04
43 1 0.01
44 15 0.19
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (40 bp):
CTCACACACTTAGTGCCATTTGTAGCCGAAGCTATTCCAA
Found at i:111133674 original size:20 final size:20
Alignment explanation
Indices: 111133649--111133690 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
111133639 TCTACTGAAA
111133649 TTGTAAATATATCGAACCCC
1 TTGTAAATATATCGAACCCC
111133669 TTGTAAATATATCGAACCCC
1 TTGTAAATATATCGAACCCC
111133689 TT
1 TT
111133691 AGGCAAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (20 bp):
TTGTAAATATATCGAACCCC
Found at i:111135696 original size:20 final size:20
Alignment explanation
Indices: 111135671--111135712 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
111135661 TCTACTGAAA
111135671 TTGTAAATATATCGAACCCC
1 TTGTAAATATATCGAACCCC
*
111135691 TTGTAAATATATTGAACCCC
1 TTGTAAATATATCGAACCCC
111135711 TT
1 TT
111135713 AGGCAAGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
TTGTAAATATATCGAACCCC
Found at i:111143167 original size:68 final size:68
Alignment explanation
Indices: 111143058--111143194 Score: 274
Period size: 68 Copynumber: 2.0 Consensus size: 68
111143048 GGCACTTACG
111143058 ATTTAACCAACTTCCTCCATAAAAAGCCTTCCCACATAATTAAACCCTTAGTGAACCCCCTTTAG
1 ATTTAACCAACTTCCTCCATAAAAAGCCTTCCCACATAATTAAACCCTTAGTGAACCCCCTTTAG
111143123 CCT
66 CCT
111143126 ATTTAACCAACTTCCTCCATAAAAAGCCTTCCCACATAATTAAACCCTTAGTGAACCCCCTTTAG
1 ATTTAACCAACTTCCTCCATAAAAAGCCTTCCCACATAATTAAACCCTTAGTGAACCCCCTTTAG
111143191 CCT
66 CCT
111143194 A
1 A
111143195 CTAACTCTTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.33, C:0.34, G:0.06, T:0.28
Consensus pattern (68 bp):
ATTTAACCAACTTCCTCCATAAAAAGCCTTCCCACATAATTAAACCCTTAGTGAACCCCCTTTAG
CCT
Found at i:111153340 original size:15 final size:15
Alignment explanation
Indices: 111153301--111153380 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
111153291 GTATCTTGGG
*
111153301 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
111153316 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
111153331 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
111153346 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
111153361 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
111153375 TTTCTT
1 TTTCTT
111153381 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:111153370 original size:30 final size:30
Alignment explanation
Indices: 111153292--111153379 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
111153282 CATAGTATCG
* * *
111153292 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
111153322 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
111153352 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
111153380 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:111159327 original size:665 final size:667
Alignment explanation
Indices: 111158018--111159353 Score: 2541
Period size: 665 Copynumber: 2.0 Consensus size: 667
111158008 CTCAAAATCA
*
111158018 CTTTACAAAACATGTATATCAAGCACTAAGCTTTCATAATTCATCATTAAACATCATAAAACACA
1 CTTTACAAAACATATATATCAAGCACTAAGCTTTCATAATTCATCATTAAACATCATAAAACACA
111158083 TGATTCATCAATGCCATTTTTCAAAATCATCAACCAATTCAAAAATTAGGGCATGGGCTTGATAG
66 TGATTCATCAATGCCATTTTTCAAAATCATCAACCAATTCAAAAATTAGGGCATGGGCTTGATAG
111158148 ATTACTAAGCAACGATCTCAAAAAACATAAAAATCATCAAAAACCAAGCTCAAAACATACCTTAA
131 ATTACTAAGCAACGATCTCAAAAAACATAAAAATCATCAAAAACCAAGCTCAAAACATACCTTAA
* *
111158213 TCACCAATCTACTTGGCCGAACCCTAGCTTAAGCTTTATTTTCTTTTCCTCTTGTATTTTCGACT
196 TCACCAATCTACTTGACCGAACCCTAACTTAAGCTTTATTTTCTTTTCCTCTTGTATTTTCGACT
*
111158278 AACAGGGATGAATAAATCATCCATTAACATATTTTCTTTTTATTATAACACATATTAATAATAAT
261 AACAAGGATGAATAAATCATCCATTAACATATTTTCTTTTTATTATAACACATATTAATAATAAT
111158343 TTCCAATTATAACCTTTATTAAACCATATAAAAATCACTTAATAGATAGTCATTAATGTCCATTA
326 TTCCAATTATAACCTTTATTAAACCATATAAAAATCACTTAATAGATAGTCATTAATGTCCATTA
111158408 ACCTTAGTTATTGTCTAATTGCATCATAAGGACCTCTCCTTTAATAAGACATAGCAAATAGGCAC
391 ACCTTAGTTATTGTCTAATTGCATCATAAGGACCTCTCCTTTAATAAGACATAGCAAATAGGCAC
*
111158473 TTTAACAATTAGAAGGCCGATTTTATATTTTACGTGATTAGGTCCTTTTATCAAATTAAGCACAC
456 TTTAACAATTAGAAGGCCAATTTTATATTTTACGTGATTAGGTCCTTTTATCAAATTAAGCACAC
111158538 AAATGATAAAATTTTCATACGAAATGATGATCGTGTAACTAACTAAAAATTTGACTTAAGGCAAG
521 AAATGATAAAATTTTCATACGAAATGATGATCGTGTAACTAACTAAAAATTTGACTTAAGGCAAG
*
111158603 TGCACCTATCGAACAGAAGTATAGTTATGGTGAGATCGAAAATATCGTATCCACGAGGACTAAAA
586 TGCACCTATCGAACAGAAGTATAGTTATGGTGAGACCGAAAATATCGTATCCACGAGGACTAAAA
111158668 GTACTAGTAATTACTAT
651 GTACTAGTAATTACTAT
*
111158685 CTTTACGAAACATATATATCAAGCACTAAGCTTTCAT-ATTCATCATTAAACATCATAAAACACA
1 CTTTACAAAACATATATATCAAGCACTAAGCTTTCATAATTCATCATTAAACATCATAAAACACA
*
111158749 TGATTCATTAATGCCATTTTTCAAAATCATCAACCAATTCAAAAATTAGGGCATGGGCTTGATAG
66 TGATTCATCAATGCCATTTTTCAAAATCATCAACCAATTCAAAAATTAGGGCATGGGCTTGATAG
* *
111158814 ATTACTAAGCAACGATCTTAAAAAACATAAAAATCATCAAAAACCAAGCTCAAAGCATACCTTAA
131 ATTACTAAGCAACGATCTCAAAAAACATAAAAATCATCAAAAACCAAGCTCAAAACATACCTTAA
*
111158879 TCACCAATCTACTTGACCGAACCCTAACTTAAGCTTTATTTTCTTTTCCTTTTGTATTTTCGACT
196 TCACCAATCTACTTGACCGAACCCTAACTTAAGCTTTATTTTCTTTTCCTCTTGTATTTTCGACT
111158944 AACAAGGATGAATAAATCATCCATTAACATATTTTC-TTTTATTATAACACATATTAATAATAAT
261 AACAAGGATGAATAAATCATCCATTAACATATTTTCTTTTTATTATAACACATATTAATAATAAT
111159008 TTCCAATTATAACCTTTATTAAACCATATAAAAATCACTTAATAGATAGTCATTAATGTCCATTA
326 TTCCAATTATAACCTTTATTAAACCATATAAAAATCACTTAATAGATAGTCATTAATGTCCATTA
111159073 ACCTTAGTTATTGTCTAATTGCATCATAAGGACCTCTCCTTTAATAAGACATAGCAAATAGGCAC
391 ACCTTAGTTATTGTCTAATTGCATCATAAGGACCTCTCCTTTAATAAGACATAGCAAATAGGCAC
*
111159138 TTTAACAATTAGAAGGCCAATTTTATATTTTACGTGATTAGGTCTTTTTATCAAATTAAGCACAC
456 TTTAACAATTAGAAGGCCAATTTTATATTTTACGTGATTAGGTCCTTTTATCAAATTAAGCACAC
111159203 AAATGATAAAATTTTCATACGAAATGATGATCGTGTAACTAACTAAAAATTTGACTTAAGGCAAG
521 AAATGATAAAATTTTCATACGAAATGATGATCGTGTAACTAACTAAAAATTTGACTTAAGGCAAG
*
111159268 TGCACCTATCGAACAGTAGTATAGTTATGGTGAGACCGAAAATATCGTATCCACGAGGACTAAAA
586 TGCACCTATCGAACAGAAGTATAGTTATGGTGAGACCGAAAATATCGTATCCACGAGGACTAAAA
111159333 GTACTAGTAATTACTAT
651 GTACTAGTAATTACTAT
111159350 CTTT
1 CTTT
111159354 TTATTATCTA
Statistics
Matches: 656, Mismatches: 13, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
665 370 0.56
666 251 0.38
667 35 0.05
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (667 bp):
CTTTACAAAACATATATATCAAGCACTAAGCTTTCATAATTCATCATTAAACATCATAAAACACA
TGATTCATCAATGCCATTTTTCAAAATCATCAACCAATTCAAAAATTAGGGCATGGGCTTGATAG
ATTACTAAGCAACGATCTCAAAAAACATAAAAATCATCAAAAACCAAGCTCAAAACATACCTTAA
TCACCAATCTACTTGACCGAACCCTAACTTAAGCTTTATTTTCTTTTCCTCTTGTATTTTCGACT
AACAAGGATGAATAAATCATCCATTAACATATTTTCTTTTTATTATAACACATATTAATAATAAT
TTCCAATTATAACCTTTATTAAACCATATAAAAATCACTTAATAGATAGTCATTAATGTCCATTA
ACCTTAGTTATTGTCTAATTGCATCATAAGGACCTCTCCTTTAATAAGACATAGCAAATAGGCAC
TTTAACAATTAGAAGGCCAATTTTATATTTTACGTGATTAGGTCCTTTTATCAAATTAAGCACAC
AAATGATAAAATTTTCATACGAAATGATGATCGTGTAACTAACTAAAAATTTGACTTAAGGCAAG
TGCACCTATCGAACAGAAGTATAGTTATGGTGAGACCGAAAATATCGTATCCACGAGGACTAAAA
GTACTAGTAATTACTAT
Found at i:111161020 original size:40 final size:40
Alignment explanation
Indices: 111160912--111161121 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
111160902 CGGGATTTAA
* * * * *
111160912 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
111160952 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
111160992 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
111161032 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
111161072 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
111161112 CCGGATATAT
1 CCGGATATAT
111161122 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:111169156 original size:40 final size:40
Alignment explanation
Indices: 111169048--111169257 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
111169038 CGGGATTTAA
* * * * *
111169048 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
111169088 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
111169128 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
111169168 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
111169208 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
111169248 CCGGATATAT
1 CCGGATATAT
111169258 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:111178860 original size:29 final size:29
Alignment explanation
Indices: 111178675--111178852 Score: 308
Period size: 29 Copynumber: 6.2 Consensus size: 29
111178665 GTGACGAGAT
111178675 TGGCACTAAGTGTGCATGCTGG-AA-ATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
111178702 TGGCACTAA-TGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
111178730 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
111178759 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
111178788 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
111178817 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
111178846 CGGCACT
1 TGGCACT
111178853 TGGTGTGCGA
Statistics
Matches: 144, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
26 12 0.08
27 11 0.08
28 11 0.08
29 110 0.76
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:111178877 original size:87 final size:87
Alignment explanation
Indices: 111178676--111178889 Score: 292
Period size: 87 Copynumber: 2.5 Consensus size: 87
111178666 TGACGAGATT
* *
111178676 GGCACTAAGTGTGCATGCT-GGAA-ATATGGCACTAA-TGTGCATGCTGGAAAAATATGGCACTG
1 GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTA
*
111178738 AGTGTGCATGCTGGAAATATAT
66 AGTGTGCATGCTGGAAATATAC
* * *
111178760 GGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTA
1 GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTA
111178825 AGTGTGCATGCTGGAAATATAC
66 AGTGTGCATGCTGGAAATATAC
** * * *
111178847 GGCACTTGGTGTGCGA-GCTCGAAGGGTATGGCACTATGTGTGC
1 GGCACTAAGTGTGC-ATGCTCGAAAGATATGGCACTAAGTGTGC
111178890 GGGCTTAAAT
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
84 19 0.17
85 3 0.03
86 12 0.10
87 80 0.70
88 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.26
Consensus pattern (87 bp):
GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTA
AGTGTGCATGCTGGAAATATAC
Found at i:111178907 original size:87 final size:87
Alignment explanation
Indices: 111178676--111178918 Score: 271
Period size: 87 Copynumber: 2.8 Consensus size: 87
111178666 TGACGAGATT
* * * * *
111178676 GGCACTAAGTGTGCATGCT-GGAA-ATATGGCACTAA-TGTGCATGCTGGAAAAATATGGCACTG
1 GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCAGGCTGGAAATACATGGCACTA
*
111178738 AGTGTGCATGCTGGAAATATAT
66 AGTGTGCATGCTGGAAATATAC
* * * *
111178760 GGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTA
1 GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCAGGCTGGAAATACATGGCACTA
111178825 AGTGTGCATGCTGGAAATATAC
66 AGTGTGCATGCTGGAAATATAC
** * * * * * *
111178847 GGCACTTGGTGTGCGA-GCTCGAAGGGTATGGCACTATGTGTGCGGGCT-TAAATCGCATGGCAC
1 GGCACTAAGTGTGC-ATGCTCGAAAGATATGGCACTAAGTGTGCAGGCTGGAAAT-ACATGGCAC
111178910 TAAGTGTGC
64 TAAGTGTGC
111178919 GAAATCGAGT
Statistics
Matches: 138, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
84 19 0.14
85 3 0.02
86 16 0.12
87 99 0.72
88 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (87 bp):
GGCACTAAGTGTGCATGCTCGAAAGATATGGCACTAAGTGTGCAGGCTGGAAATACATGGCACTA
AGTGTGCATGCTGGAAATATAC
Found at i:111178958 original size:2 final size:2
Alignment explanation
Indices: 111178953--111178985 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
111178943 GTGCGTACTC
111178953 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111178986 CTCTGATCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111181259 original size:5 final size:5
Alignment explanation
Indices: 111181249--111181281 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
111181239 TATCATGCCA
111181249 CATGT CATGT CATGT CATGT CATGT CATGT CAT
1 CATGT CATGT CATGT CATGT CATGT CATGT CAT
111181282 AATATTATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (5 bp):
CATGT
Found at i:111181369 original size:27 final size:27
Alignment explanation
Indices: 111181336--111181510 Score: 253
Period size: 27 Copynumber: 6.5 Consensus size: 27
111181326 TATAAAAATA
*
111181336 TATCACAT-AGAGGCAAAACAGTCATTT
1 TATCACATAAG-GGCAAAATAGTCATTT
* *
111181363 TACCACATAAGGGCAAAATAATCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
* * *
111181390 TACCACATGAGGGCAAAACAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
*
111181417 TATCACATAAGGGCAAATTAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
* *
111181444 TATCACATAAGGGAAAAATAATCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
111181471 TATCACATAAGGGCAAAATAGTCATTT
1 TATCACATAAGGGCAAAATAGTCATTT
111181498 TATCACATAAGGG
1 TATCACATAAGGG
111181511 GTTCTAGTGT
Statistics
Matches: 132, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 130 0.98
28 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (27 bp):
TATCACATAAGGGCAAAATAGTCATTT
Found at i:111186189 original size:8 final size:8
Alignment explanation
Indices: 111186178--111186212 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
111186168 CTTTCTAACT
111186178 TTTCAGCC
1 TTTCAGCC
*
111186186 TTTCAGCT
1 TTTCAGCC
*
111186194 TTTCAGCT
1 TTTCAGCC
111186202 TTTCAGCC
1 TTTCAGCC
111186210 TTT
1 TTT
111186213 GTAGTTTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.11, C:0.29, G:0.11, T:0.49
Consensus pattern (8 bp):
TTTCAGCC
Found at i:111187508 original size:69 final size:69
Alignment explanation
Indices: 111187427--111187565 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
111187417 TAATTTCCTC
*
111187427 CCATCCATCTCTTCAAATTTTGCTAACAACAACCCTATTCAAATCTGTTCAAACTCTTGTTGTTT
1 CCATCCATCTCTTCAAATTTTGCTAACAACAACCCTATTCAAATCTGTTCAAACTCTTGTTATTT
111187492 CGGT
66 CGGT
111187496 CCATCCATCTCTTCAAATTTTGCTAACAACAACCCTATTCAAATCTGTTCAAACTCTTGTTATTT
1 CCATCCATCTCTTCAAATTTTGCTAACAACAACCCTATTCAAATCTGTTCAAACTCTTGTTATTT
111187561 CGGT
66 CGGT
111187565 C
1 C
111187566 AAACACAACT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.37
Consensus pattern (69 bp):
CCATCCATCTCTTCAAATTTTGCTAACAACAACCCTATTCAAATCTGTTCAAACTCTTGTTATTT
CGGT
Found at i:111193688 original size:14 final size:14
Alignment explanation
Indices: 111193669--111193700 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
111193659 ATTTAAACAT
111193669 CTCATAAAATATAA
1 CTCATAAAATATAA
111193683 CTCATAAAATATAA
1 CTCATAAAATATAA
111193697 CTCA
1 CTCA
111193701 ATTTCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (14 bp):
CTCATAAAATATAA
Found at i:111194578 original size:46 final size:45
Alignment explanation
Indices: 111194435--111194565 Score: 124
Period size: 47 Copynumber: 2.8 Consensus size: 45
111194425 CCCGCCCATA
* *
111194435 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-C
* * * * *
111194483 --TCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-A
1 AGT-GAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCATACATCC
111194528 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
111194566 AATATCCCAG
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
44 5 0.07
45 1 0.01
46 27 0.40
47 30 0.44
48 1 0.01
49 4 0.06
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
Found at i:111208609 original size:42 final size:42
Alignment explanation
Indices: 111208450--111208597 Score: 190
Period size: 42 Copynumber: 3.5 Consensus size: 42
111208440 AGTCCAATGT
* * * * *
111208450 CATATCCCAAATATGGTCTTACATGTAA-TCTCGTATCGATAAC
1 CATATCCCAGATATGGTCTTACACG-AAGTCTCATATTGAT-GC
* * *
111208493 AATAGCCCAGCTATGGTCTTACACGAAGTCTCATATTGATGC
1 CATATCCCAGATATGGTCTTACACGAAGTCTCATATTGATGC
111208535 CATATCCCAGATATGGTCTTACACGAAGTCTCATATTGATGC
1 CATATCCCAGATATGGTCTTACACGAAGTCTCATATTGATGC
*
111208577 CATATCCTAGATATGGTCTTA
1 CATATCCCAGATATGGTCTTA
111208598 TACGTAATCT
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
42 62 0.67
43 30 0.33
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAGTCTCATATTGATGC
Found at i:111212043 original size:43 final size:43
Alignment explanation
Indices: 111211953--111212064 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 43
111211943 ACAGAGATGT
* * *
111211953 GATTACATGTAAGACTATGTCTGGGACATTGGCATTGTATTAA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAGTAA
* * *
111211996 GATTACATGTAAGACCATGTATGGGACATTGGGATCGTTAGT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAGTAA
* *
111212039 GATTACGTGTAAGACCCTGTCTGGGA
1 GATTACATGTAAGACCATGTCTGGGA
111212065 TAGTGTAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 56 0.95
44 3 0.05
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAGTAA
Found at i:111213757 original size:49 final size:49
Alignment explanation
Indices: 111213591--111213815 Score: 263
Period size: 49 Copynumber: 4.5 Consensus size: 49
111213581 TGAGGTCGCA
* * ** * * *
111213591 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAA-T-TGGTCACG
** *
111213642 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-GATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGGATAATT-GGTCACG
111213692 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATTGGTCACG
* * * * *
111213741 TGTGTAGTACTAAGTGCAGCCTACTACGTTTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATTGGTCACG
*
111213790 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
111213816 TGCGTACCAG
Statistics
Matches: 154, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
49 77 0.50
50 44 0.29
51 32 0.21
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATTGGTCACG
Found at i:111216295 original size:30 final size:30
Alignment explanation
Indices: 111216260--111216356 Score: 176
Period size: 30 Copynumber: 3.2 Consensus size: 30
111216250 GTGTTACAGG
* *
111216260 ACACACGGCCGTGTAACAAGACTGTGTGTC
1 ACACACGACCATGTAACAAGACTGTGTGTC
111216290 ACACACGACCATGTAACAAGACTGTGTGTC
1 ACACACGACCATGTAACAAGACTGTGTGTC
111216320 ACACACGACCATGTAACAAGACTGTGTGTC
1 ACACACGACCATGTAACAAGACTGTGTGTC
111216350 ACACACG
1 ACACACG
111216357 GTTGAGGCAC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.32, C:0.28, G:0.22, T:0.19
Consensus pattern (30 bp):
ACACACGACCATGTAACAAGACTGTGTGTC
Found at i:111224410 original size:25 final size:25
Alignment explanation
Indices: 111224371--111224419 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
111224361 TTTTATTATA
*
111224371 ACATATATTAACTTATTATTTAATT
1 ACATATATTAACTTATTATATAATT
111224396 ACATAT-TTAACCTTATTATATAAT
1 ACATATATTAA-CTTATTATATAAT
111224420 ATGATTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (25 bp):
ACATATATTAACTTATTATATAATT
Found at i:111232224 original size:21 final size:22
Alignment explanation
Indices: 111232200--111232244 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
111232190 TCATATTATT
* *
111232200 CATAATATAACATA-ATTAAAA
1 CATAATACAACATATATCAAAA
*
111232221 CATAATCCAACATATATCAAAA
1 CATAATACAACATATATCAAAA
111232243 CA
1 CA
111232245 AATTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (22 bp):
CATAATACAACATATATCAAAA
Found at i:111237968 original size:25 final size:25
Alignment explanation
Indices: 111237929--111237977 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
111237919 TTTTATTATA
111237929 ACATATATTAACTTATAATTTAATT
1 ACATATATTAACTTATAATTTAATT
*
111237954 ACATAT-TTAACCTTATTATTTAAT
1 ACATATATTAA-CTTATAATTTAAT
111237978 ACGATTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (25 bp):
ACATATATTAACTTATAATTTAATT
Found at i:111243060 original size:25 final size:25
Alignment explanation
Indices: 111243026--111243075 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
111243016 AGCATGATAG
111243026 TATGATTGTGTGAAAATTTAGTTAA
1 TATGATTGTGTGAAAATTTAGTTAA
*
111243051 TATGATTGTGTGAATATTTAGTTAA
1 TATGATTGTGTGAAAATTTAGTTAA
111243076 GGAATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (25 bp):
TATGATTGTGTGAAAATTTAGTTAA
Found at i:111246919 original size:19 final size:19
Alignment explanation
Indices: 111246887--111246932 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
111246877 ACAACATATT
* * *
111246887 ATAATGTCACATTATTTAC
1 ATAATATCAAATTATTCAC
111246906 ATAATATCAAATTATTCAC
1 ATAATATCAAATTATTCAC
111246925 ATATATAT
1 ATA-ATAT
111246933 ACTTAAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATATCAAATTATTCAC
Found at i:111248829 original size:39 final size:39
Alignment explanation
Indices: 111248723--111248932 Score: 312
Period size: 39 Copynumber: 5.4 Consensus size: 39
111248713 CTTTGGGACA
* ** * **
111248723 TAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CT
* * * *
111248763 TAACCCGGATATCACAATTTGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
*
111248802 TAGCCCGGATATCATAACTCGCCCAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
111248841 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
111248880 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
111248919 TAGCCCGGATATCA
1 TAGCCCGGATATCA
111248933 CTCGAACATT
Statistics
Matches: 154, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 127 0.82
40 27 0.18
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
Found at i:111262610 original size:15 final size:15
Alignment explanation
Indices: 111262590--111262618 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
111262580 ATGCTTCACA
111262590 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
111262605 CACCGTGTTATCAA
1 CACCGTGTTATCAA
111262619 GCAACAATTC
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:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:111272559 original size:45 final size:45
Alignment explanation
Indices: 111272496--111272635 Score: 200
Period size: 43 Copynumber: 3.2 Consensus size: 45
111272486 CCAAAACATG
* * * *
111272496 TGTCAC-TATATCACGAACTCAAACCACTACTCAATGAGTTCGGA
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
111272540 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
*
111272585 T-T-ACATAGATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
111272628 --TCACATAT
1 TGTCACATAT
111272636 TTCCTAGTGA
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
42 1 0.01
43 45 0.51
44 7 0.08
45 35 0.40
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (45 bp):
TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:111272568 original size:22 final size:21
Alignment explanation
Indices: 111272543--111272611 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
111272533 GTTCGGATGT
111272543 CACATATATCATGAACTCAGAC
1 CACATA-ATCATGAACTCAGAC
* ** *
111272565 CACA-ACTCAATGAGTTCAGAT
1 CACATAATC-ATGAACTCAGAC
*
111272586 TACATAGATCATGAACTCAGAC
1 CACATA-ATCATGAACTCAGAC
111272608 CACA
1 CACA
111272612 ACTCAATGAG
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
20 2 0.06
21 13 0.38
22 17 0.50
23 2 0.06
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.22
Consensus pattern (21 bp):
CACATAATCATGAACTCAGAC
Found at i:111272626 original size:21 final size:21
Alignment explanation
Indices: 111272559--111272632 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
111272549 TATCATGAAC
111272559 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
** * **
111272580 TCAGATTACATAGATC-ATGAAC
1 TCAGACCACA-A-CTCAATGAGT
111272602 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
111272623 TCAGATCACA
1 TCAGACCACA
111272633 TATTTCCTAG
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
20 2 0.05
21 22 0.56
22 13 0.33
23 2 0.05
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:111277141 original size:33 final size:33
Alignment explanation
Indices: 111277104--111277171 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
111277094 GTTGCTGCCG
111277104 AAAATTGCTCTCCTCCATAGCTAGGGTTTCTTC
1 AAAATTGCTCTCCTCCATAGCTAGGGTTTCTTC
111277137 AAAATTGCTCTCCTCCATAGCTAGGGTTTCTTC
1 AAAATTGCTCTCCTCCATAGCTAGGGTTTCTTC
111277170 AA
1 AA
111277172 CTTTCAAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (33 bp):
AAAATTGCTCTCCTCCATAGCTAGGGTTTCTTC
Found at i:111277801 original size:2 final size:2
Alignment explanation
Indices: 111277794--111277824 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
111277784 TATTTCAGCC
111277794 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111277825 TAGCTGATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111278044 original size:68 final size:67
Alignment explanation
Indices: 111277998--111278155 Score: 262
Period size: 68 Copynumber: 2.3 Consensus size: 67
111277988 ATACTATATA
111277998 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGGTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGGTACG-GAGAGATA
111278063 AAT
65 AAT
* *
111278066 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTATGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGGTACG-GAGAGATA
111278131 AAT
65 AAT
* *
111278134 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
111278156 TCCAAGTGAA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 86 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGGTACGGAGAGATAA
AT
Found at i:111278229 original size:66 final size:67
Alignment explanation
Indices: 111278032--111278229 Score: 174
Period size: 68 Copynumber: 2.9 Consensus size: 67
111278022 GGGATGTATC
* * * *
111278032 CCATGTAGACAAGAGAGGTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTA---GAGAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
111278094 TGTATC-
62 AGGA-CA
*
111278100 CCATGTAGACAAGAGAGCTATGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTA---GAGAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
111278165 AGGACA
62 AGGACA
* * *
111278171 CCATGTAGACAAGAGAGCTA-CGAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTAGAGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
111278230 TTCACCATGT
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
66 24 0.21
67 9 0.08
68 53 0.47
69 1 0.01
70 1 0.01
71 25 0.22
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTAGAGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:111280768 original size:26 final size:26
Alignment explanation
Indices: 111280735--111280794 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
111280725 TGAATTATTC
111280735 TTTTATTTCCATTATCTTCATTCCTA
1 TTTTATTTCCATTATCTTCATTCCTA
111280761 TTTTATTTCCATTATCTTCATTCCTA
1 TTTTATTTCCATTATCTTCATTCCTA
111280787 TTTTATTT
1 TTTTATTT
111280795 AAAACTCTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTATTTCCATTATCTTCATTCCTA
Found at i:111284050 original size:40 final size:40
Alignment explanation
Indices: 111283858--111284043 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
111283848 TCGAATGATG
* * *
111283858 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
111283898 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
111283938 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
111283978 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
111284019 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
111284044 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:111285938 original size:28 final size:28
Alignment explanation
Indices: 111285892--111285960 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
111285882 TTTAAAACCC
*
111285892 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
111285919 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
111285947 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
111285961 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:111287610 original size:20 final size:20
Alignment explanation
Indices: 111287587--111287624 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
111287577 CACATCCAAA
*
111287587 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
111287607 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
111287625 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:111293935 original size:28 final size:28
Alignment explanation
Indices: 111293889--111293957 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
111293879 TTTAAAACCC
*
111293889 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
111293916 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
111293944 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
111293958 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:111298549 original size:40 final size:40
Alignment explanation
Indices: 111298475--111298615 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
111298465 CCGCACCAAG
* * * * * *
111298475 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
111298515 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
111298555 GCCTTCGGGTCTT-GCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
111298594 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
111298616 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 33 0.39
40 52 0.61
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:111306662 original size:40 final size:40
Alignment explanation
Indices: 111306588--111306728 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
111306578 CCGCACCAAG
* * * * * *
111306588 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
111306628 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
111306668 GCCTTCGGGTCTT-GCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
111306707 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
111306729 GTATTCAGCA
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 33 0.39
40 52 0.61
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:111306710 original size:39 final size:39
Alignment explanation
Indices: 111306588--111306767 Score: 152
Period size: 40 Copynumber: 4.6 Consensus size: 39
111306578 CCGCACCAAG
* * * * * * *
111306588 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATAT-ACTACTAGCACAATT
* * *
111306628 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATAT-ACTACTAGCAC-AATT
111306668 GCCTTCGGGTCTT-GCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATA-CTACTAGCACAATT
* * * *
111306707 GCCTTCGGGTCTTAACCCGGATGTA-TTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATACTACTAGCACAATT
* *
111306744 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
111306768 CATTCAATTT
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
37 28 0.24
38 5 0.04
39 31 0.26
40 52 0.44
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATACTACTAGCACAATT
Found at i:111319080 original size:43 final size:42
Alignment explanation
Indices: 111318975--111319084 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
111318965 GATTTGAGAT
* *
111318975 TTACATGTAAGACCATGTCTGGGACATCAGCATCATATCTGA
1 TTACATGTAAGACCACGTCTGGGACATCAGAATCATATCTGA
* * *
111319017 TTTCGTGTAAGACC-CTGTCTGGGACA-GAGGAATCGATA-CTGAA
1 TTACATGTAAGACCAC-GTCTGGGACATCA-GAATC-ATATCTG-A
111319060 TTACATGTAAGACCACGTCTGGGAC
1 TTACATGTAAGACCACGTCTGGGAC
111319085 GTCGGCATTA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.02
42 29 0.52
43 25 0.45
44 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACATCAGAATCATATCTGA
Found at i:111336116 original size:40 final size:40
Alignment explanation
Indices: 111336057--111336243 Score: 194
Period size: 40 Copynumber: 4.7 Consensus size: 40
111336047 CAATTGAATG
* * *
111336057 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAATT
* * * * *
111336097 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAATT
* * * **
111336137 ACATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAATT
* * * * **
111336177 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAATT
*
111336217 CTATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
111336244 CGTGCATGTG
Statistics
Matches: 121, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAATT
Found at i:111336249 original size:40 final size:39
Alignment explanation
Indices: 111336057--111336264 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
111336047 CAATTGAATG
* * ** ** *
111336057 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * *
111336097 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
* * *
111336137 ACATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
111336177 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
111336217 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
111336257 ATATCCGG
1 ATATCCGG
111336265 TCGTATTCCG
Statistics
Matches: 139, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
39 4 0.03
40 130 0.94
41 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:111336263 original size:80 final size:78
Alignment explanation
Indices: 111336058--111336264 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 78
111336048 AATTGAATGA
* * * * *
111336058 TATCCGGGCTAAGTCCCGAAGACATTTATGC-TGGTAATTATATCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCAT-GTAGTTATATCCGGGCTAAGACCCGAAGGCA
*
111336122 ATTGTGCTAGTGAC
65 ATTGTGCAAGTGAC
* * *
111336136 TACATCCGGGCTAAGACCCGAAGGCATTCATGCGA-GTTGTTAAATCCGGGCTAATACCCGAAGG
1 T--ATCCGGGCTAAGACCCGAAGGCATTCATGC-ATGTAGTTATATCCGGGCTAAGACCCGAAGG
* *
111336200 CATTTGTGCAAGTCGTTC
63 CAATTGTGCAAGT-G-AC
* *
111336218 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCATGCATGTAGTTATATCCGG
111336265 TCGTATTCCG
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
78 1 0.01
79 1 0.01
80 103 0.95
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (78 bp):
TATCCGGGCTAAGACCCGAAGGCATTCATGCATGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTGAC
Found at i:111352477 original size:49 final size:49
Alignment explanation
Indices: 111352417--111352921 Score: 838
Period size: 49 Copynumber: 10.3 Consensus size: 49
111352407 GTATGAGATA
111352417 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
111352466 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
111352515 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
111352564 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
111352613 TATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 ----TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
111352666 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
111352715 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
111352764 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
111352813 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * * * *
111352860 TATATATGTGATAGGGCCGAGTGGTCAAAGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
111352907 TATAAATGTGATAAG
1 TATATATGTGATAAG
111352922 TCCCGAAAGG
Statistics
Matches: 438, Mismatches: 14, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
47 55 0.13
49 334 0.76
53 49 0.11
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:111352757 original size:200 final size:197
Alignment explanation
Indices: 111352413--111352921 Score: 857
Period size: 200 Copynumber: 2.6 Consensus size: 197
111352403 ATATGTATGA
111352413 GATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGAT
1 GATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGAT
*
111352478 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
66 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGA
111352543 TGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
131 TGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
111352608 GTGT
196 --GT
111352612 GTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGA
1 G-ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGA
111352677 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCG
65 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCG
111352742 ATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
130 ATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
111352807 AGT
195 AGT
*
111352810 G-TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA--GTGTATATATGTGAT
1 GATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGAT
* * * * * * * * *
111352872 AGGGCCGAGTGGTCAAAGTGATGGATGTGGAA--GTGTATAAATGTGATAAG
66 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAG
111352922 TCCCGAAAGG
Statistics
Matches: 298, Mismatches: 11, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
192 17 0.06
194 39 0.13
196 45 0.15
198 3 0.01
199 1 0.00
200 193 0.65
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (197 bp):
GATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGAT
AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGA
TGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GT
Found at i:111361992 original size:43 final size:42
Alignment explanation
Indices: 111361937--111362099 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 42
111361927 TTTGAGATAT
* *
111361937 GATTCGTGTAAGACCACGTCTGGGACGTTGGCATCAATTTGA
1 GATTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTGA
*** ** * *
111361979 GATATCGTGTAAGACTGTGTCTGAAACACTGGCATCGATTAGA
1 GAT-TCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTGA
* * *
111362022 GATTTCGTTGT-AGACCATGTCTGGGACAATGGCATCGATATGTA
1 GA-TTCG-TGTAAGACCACGTCTGGGACATTGGCATCGATTTG-A
* *
111362066 -ATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATT-CGTGTAAGACCACGTCTGGGACATTGGCAT
111362100 TGTATGATAT
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 8 0.08
43 82 0.86
44 5 0.05
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (42 bp):
GATTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTGA
Found at i:111372292 original size:25 final size:25
Alignment explanation
Indices: 111372260--111372307 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
111372250 ATAATTAAAC
* *
111372260 CCTAAGGGCATAATGGTCATTTTTA
1 CCTAAGGGCAAAATAGTCATTTTTA
*
111372285 CCTAAGGGTAAAATAGTCATTTT
1 CCTAAGGGCAAAATAGTCATTTT
111372308 CATATTCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (25 bp):
CCTAAGGGCAAAATAGTCATTTTTA
Found at i:111372720 original size:47 final size:47
Alignment explanation
Indices: 111372651--111373081 Score: 655
Period size: 47 Copynumber: 9.2 Consensus size: 47
111372641 TTACCTGTTC
*
111372651 CATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATT
** *
111372698 CATCACATTTTCCATTCGGCCTTATCACATATGTGCATGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATT
*
111372745 CATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATT
* *
111372792 CATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACCTT
1 CATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATT
* *
111372839 CATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATT
* * *
111372886 CATCACATTTGCCATTCGGCCTTAGCTCATATATGCATGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATT
* * *
111372933 CATCATATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACCTT
1 CATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATT
*
111372980 CATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATT
** * * * **
111373027 CATCACATTTTCCATTCGGCCTTAGCTCATATATACACATTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATT
111373074 CATCACAT
1 CATCACAT
111373082 AAAATCCTAA
Statistics
Matches: 350, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 350 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (47 bp):
CATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATT
Found at i:111375400 original size:13 final size:13
Alignment explanation
Indices: 111375382--111375407 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111375372 ATTTTTATTT
111375382 TTAACATAAAATA
1 TTAACATAAAATA
111375395 TTAACATAAAATA
1 TTAACATAAAATA
111375408 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:111377316 original size:28 final size:27
Alignment explanation
Indices: 111377253--111377322 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
111377243 ATAGTGAGTC
*
111377253 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
111377280 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
111377308 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
111377323 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:111385253 original size:28 final size:27
Alignment explanation
Indices: 111385190--111385259 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
111385180 ATAGTGAGTC
*
111385190 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
111385217 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
111385245 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
111385260 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:111387943 original size:40 final size:40
Alignment explanation
Indices: 111387911--111388258 Score: 518
Period size: 40 Copynumber: 8.7 Consensus size: 40
111387901 CCAGCATGAT
* * * *
111387911 TGCTCTTCGAGACCTAGCCCGGATATAACACCATCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATATAACTCTAGCACGAA
* * *
111387951 TGCTATTCG-GTACTTAACCCTGATATAACTCTAGCACGAA
1 TGCTCTTCGAG-ACTTAGCCCGGATATAACTCTAGCACGAA
111387991 TGTCTCTTCGAGACTTAGCCCGGATATAACTCTAGCACGAA
1 TG-CTCTTCGAGACTTAGCCCGGATATAACTCTAGCACGAA
*
111388032 TGCTCTTCGAGACTTAGCCCGGATATAACTCTAGCACAAA
1 TGCTCTTCGAGACTTAGCCCGGATATAACTCTAGCACGAA
* *
111388072 TGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATATAACTCTAGCACGAA
* * *
111388112 TGCTCTTCGGGACTTACCCCTGATATAACTCTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATATAACTCTAGCACGAA
* *
111388152 TGCTCTTCGAGACTTAACCCGGATATAACTCTGGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATATAACTCTAGCACGAA
* *
111388192 TGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATATAACTCTAGCACGAA
111388232 TGCTCTTCGAGACTTAGCCCGGATATA
1 TGCTCTTCGAGACTTAGCCCGGATATA
111388259 TAACTCTCAA
Statistics
Matches: 278, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.00
40 241 0.87
41 35 0.13
42 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGAGACTTAGCCCGGATATAACTCTAGCACGAA
Found at i:111389841 original size:46 final size:46
Alignment explanation
Indices: 111389751--111389841 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
111389741 TATATATACA
* * * * *
111389751 CATCTCATACATATCTCACATTAGCCATTTGGCTTTATCGCATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* *
111389797 CATCTCATACACATTTCGCATTAACCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
111389842 ATACACTTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:111389884 original size:22 final size:22
Alignment explanation
Indices: 111389858--111389979 Score: 56
Period size: 23 Copynumber: 5.3 Consensus size: 22
111389848 TTCCACGTTC
111389858 ATCACATTGGCCATTCTGACTT
1 ATCACATTGGCCATTCTGACTT
*
111389880 ATCACACATAT-G-CATGT-TCACATTT
1 AT--CACAT-TGGCCAT-TCTGAC--TT
* *
111389905 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGACTT
*
111389927 ATCACATATGTG-CATGT-TCACATT
1 ATCACAT-TG-GCCAT-TCTGAC-TT
* *
111389951 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGACTT
111389974 ATCACA
1 ATCACA
111389980 CATATGCATG
Statistics
Matches: 74, Mismatches: 10, Indels: 32
0.64 0.09 0.28
Matches are distributed among these distances:
22 18 0.24
23 23 0.31
24 21 0.28
25 12 0.16
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGACTT
Found at i:111389909 original size:47 final size:47
Alignment explanation
Indices: 111389821--111390418 Score: 786
Period size: 47 Copynumber: 12.9 Consensus size: 47
111389811 TTCGCATTAA
* * * * *
111389821 CCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCACATTGG
* * * *
111389868 CCATTCTGACTTATCACACATATGCATGTTCACATTTATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
*
111389915 CCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
* **
111389962 CCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTTT
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
*
111390009 CCATT-GG----AT---AT-T-TGCATGTTCACATTCTTCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
*
111390046 CCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
* *
111390093 CCATTCGGCCTTATCACATATGTGCATGTTCACCTTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
* *
111390140 CCATTCGGCCTTATCACATATGTGCATGTTCACCTTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
* **
111390187 CCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTTT
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
* *
111390234 CCATTCGGCCTTAGCTCATATATGCATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
* * *
111390281 CTATTCGGCCTTATCACATATGTGCATGTTCACCTTCATCACATTGG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
* * *
111390328 CCATTCTGCCTTATCACACATATGCATGTTCACATTCATCACATTTG
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
* * * * **
111390375 CCATTTGGCCTTAGCTCATATATACACATTCACATTCATCACAT
1 CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
111390419 AAAATCCTAA
Statistics
Matches: 487, Mismatches: 53, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
37 27 0.06
38 3 0.01
39 1 0.00
42 4 0.01
45 2 0.00
46 4 0.01
47 446 0.92
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
CCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGG
Found at i:111390111 original size:22 final size:22
Alignment explanation
Indices: 111390037--111390204 Score: 123
Period size: 22 Copynumber: 7.2 Consensus size: 22
111390027 TTCACATTCT
111390037 TCACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCGGCCTTA
* *
111390059 TCACATATGTG-CATGTTC-ACATTCA
1 TCACAT-TG-GCCA--TTCGGCCTT-A
111390084 TCACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCGGCCTTA
*
111390106 TCACATATGTG-CATGTTC-ACCTTCA
1 TCACAT-TG-GCCA--TTCGGCCTT-A
111390131 TCACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCGGCCTTA
*
111390153 TCACATATGTG-CATGTTC-ACCTTCA
1 TCACAT-TG-GCCA--TTCGGCCTT-A
111390178 TCACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCGGCCTTA
111390200 TCACA
1 TCACA
111390205 CATATGCATG
Statistics
Matches: 117, Mismatches: 8, Indels: 42
0.70 0.05 0.25
Matches are distributed among these distances:
22 35 0.30
23 26 0.22
24 26 0.22
25 30 0.26
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (22 bp):
TCACATTGGCCATTCGGCCTTA
Found at i:111390299 original size:22 final size:21
Alignment explanation
Indices: 111390271--111390345 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 21
111390261 GTTCACATTC
111390271 ATCACATTGGCTATTCGGCCTT
1 ATCACATTGGCTATTC-GCCTT
* *
111390293 ATCACATATGTGCATGTTCACCTT
1 ATCACAT-TG-GC-TATTCGCCTT
*
111390317 CATCACATTGGCCATTCTGCCTT
1 -ATCACATTGGCTATTC-GCCTT
111390340 ATCACA
1 ATCACA
111390346 CATATGCATG
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
24 8 0.19
25 11 0.26
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (21 bp):
ATCACATTGGCTATTCGCCTT
Found at i:111392735 original size:13 final size:13
Alignment explanation
Indices: 111392717--111392742 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111392707 TATTTTTATT
111392717 TTAACATAAAATA
1 TTAACATAAAATA
111392730 TTAACATAAAATA
1 TTAACATAAAATA
111392743 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:111394175 original size:27 final size:26
Alignment explanation
Indices: 111394137--111394196 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
111394127 ACATATATAT
* *
111394137 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
111394163 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
111394190 ATATCTG
1 ATATCTG
111394197 ACAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:111395945 original size:42 final size:42
Alignment explanation
Indices: 111395898--111396004 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
111395888 TATTGGTCTC
111395898 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
111395940 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
111395982 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
111396005 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:111396069 original size:27 final size:28
Alignment explanation
Indices: 111396012--111396081 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
111396002 AAAATTGTAC
**
111396012 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
111396040 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
111396067 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
111396082 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:111403165 original size:42 final size:42
Alignment explanation
Indices: 111403118--111403224 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
111403108 TATTGGTCTC
111403118 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
111403160 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
111403202 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
111403225 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:111403289 original size:27 final size:28
Alignment explanation
Indices: 111403232--111403301 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
111403222 AAAATTGTAC
**
111403232 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
111403260 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
111403287 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
111403302 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:111405984 original size:27 final size:28
Alignment explanation
Indices: 111405954--111406017 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
111405944 TCCGCACACT
111405954 CTTAGTGCTATATAATC-AACTCGCACA
1 CTTAGTGCTATATAATCAAACTCGCACA
*
111405981 CTTAGTGCTATATGATCAAACTCGCACA
1 CTTAGTGCTATATAATCAAACTCGCACA
111406009 CTTAGTGCT
1 CTTAGTGCT
111406018 GTACAAGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 16 0.46
28 19 0.54
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (28 bp):
CTTAGTGCTATATAATCAAACTCGCACA
Found at i:111415751 original size:38 final size:35
Alignment explanation
Indices: 111415692--111415809 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
111415682 TCAATCATGC
*
111415692 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
111415731 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
111415762 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
111415793 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
111415810 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:111415753 original size:31 final size:31
Alignment explanation
Indices: 111415715--111415809 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
111415705 CCTTTTCATA
*
111415715 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
111415746 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
111415777 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
111415808 TT
1 TT
111415810 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:111416052 original size:24 final size:24
Alignment explanation
Indices: 111416001--111416143 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
111415991 GCTTTATCAT
*
111416001 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
111416026 ATAACTGGGTCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
111416050 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
111416073 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
111416097 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
111416121 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
111416144 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 74 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:111416080 original size:47 final size:48
Alignment explanation
Indices: 111416001--111416142 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
111415991 GCTTTATCAT
* * *
111416001 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGTCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
111416050 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
111416097 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
111416143 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 43 0.50
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:111416101 original size:71 final size:72
Alignment explanation
Indices: 111416000--111416143 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
111415990 TGCTTTATCA
* *
111416000 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGTCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
111416065 GCCCTTT
66 GCCCTTT
* * **
111416072 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
111416135 AGCCCTTT
65 AGCCCTTT
111416143 T
1 T
111416144 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 52 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:111416219 original size:20 final size:20
Alignment explanation
Indices: 111416194--111416253 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
111416184 TATGATTACC
111416194 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
111416214 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
111416234 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
111416254 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:111416224 original size:11 final size:11
Alignment explanation
Indices: 111416194--111416248 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
111416184 TATGATTACC
111416194 TCATGTGCATA
1 TCATGTGCATA
*
111416205 TCA--TACATA
1 TCATGTGCATA
111416214 TCATGTGCATA
1 TCATGTGCATA
* *
111416225 TCA--TACATT
1 TCATGTGCATA
111416234 TCATGTGCATA
1 TCATGTGCATA
111416245 TCAT
1 TCAT
111416249 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:111419684 original size:80 final size:80
Alignment explanation
Indices: 111419600--111419748 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
111419590 TATGGTAACC
* * * *
111419600 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
111419664 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
111419680 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
111419745 CCGG
66 CCGG
111419749 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:111419690 original size:40 final size:38
Alignment explanation
Indices: 111419641--111419748 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
111419631 ATCACGATTT
*
111419641 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
111419681 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
111419721 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
111419749 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:111422009 original size:34 final size:33
Alignment explanation
Indices: 111421944--111422009 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
111421934 AACACAGTGT
**
111421944 CAGTACAATCTGGGCCAAAGCCTTATTCAGTAA
1 CAGTACAATCTGGGCCAAAGCCTTAAACAGTAA
* * *
111421977 CAGTACAGTCTGGGCCTTAGGCCTTAAACAGTA
1 CAGTACAATCTGGGCC-AAAGCCTTAAACAGTA
111422010 GCAATATGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 15 0.56
34 12 0.44
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (33 bp):
CAGTACAATCTGGGCCAAAGCCTTAAACAGTAA
Found at i:111422119 original size:30 final size:31
Alignment explanation
Indices: 111422044--111422125 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 31
111422034 CAGTCTCGAT
*
111422044 ATAT-ACTGGGCCGAAGCCTTTTCATAAATC
1 ATATCACTAGGCCGAAGCCTTTTCATAAATC
111422074 ATATCACTAGGCCGAAGCCTTTTCATAAATC
1 ATATCACTAGGCCGAAGCCTTTTCATAAATC
111422105 ATATCACT-GGCCGAAGCCTTT
1 ATATCACTAGGCCGAAGCCTTT
111422126 ACTGTAAGCG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 17 0.34
31 33 0.66
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (31 bp):
ATATCACTAGGCCGAAGCCTTTTCATAAATC
Found at i:111423875 original size:29 final size:29
Alignment explanation
Indices: 111423821--111423918 Score: 169
Period size: 29 Copynumber: 3.4 Consensus size: 29
111423811 CGAGATTGGT
* *
111423821 ACTAAGTGTGCATGCTGAAAAAATATGGC
1 ACTAAGTGTGCATGCTGGAAATATATGGC
*
111423850 ACTGAGTGTGCATGCTGGAAATATATGGC
1 ACTAAGTGTGCATGCTGGAAATATATGGC
111423879 ACTAAGTGTGCATGCTGGAAATATATGGC
1 ACTAAGTGTGCATGCTGGAAATATATGGC
111423908 ACTAAGTGTGC
1 ACTAAGTGTGC
111423919 GAGCTCGAAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.27
Consensus pattern (29 bp):
ACTAAGTGTGCATGCTGGAAATATATGGC
Found at i:111423934 original size:29 final size:29
Alignment explanation
Indices: 111423844--111423978 Score: 96
Period size: 29 Copynumber: 4.7 Consensus size: 29
111423834 GCTGAAAAAA
* * **
111423844 TATGGCACTGAGTGTGC-ATGCTGGAAATA
1 TATGGCACTAAGTGTGCGA-GCTCGAAACG
* **
111423873 TATGGCACTAAGTGTGC-ATGCTGGAAATA
1 TATGGCACTAAGTGTGCGA-GCTCGAAACG
**
111423902 TATGGCACTAAGTGTGCGAGCTCGAAGGG
1 TATGGCACTAAGTGTGCGAGCTCGAAACG
** * *
111423931 TATGGCACTGTGTGTGCGGGCT-TAAATCG
1 TATGGCACTAAGTGTGCGAGCTCGAAA-CG
*
111423960 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
111423979 AATCGAGTAT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
28 2 0.02
29 86 0.97
30 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAGCTCGAAACG
Found at i:111423947 original size:58 final size:59
Alignment explanation
Indices: 111423813--111423939 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 59
111423803 TACGATGACG
* * * *
111423813 AGAT-TGGTACTAAGTGTGCATGCTGAAAAAATATGGCACTGAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGAAAATATATGGCACTAAGTGTGCGATGCTCGAA
* *
111423870 ATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGAAAATATATGGCACTAAGTGTGCGATGCTCGAA
* *
111423928 GGGTATGGCACT
1 AGATATGGCACT
111423940 GTGTGTGCGG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
57 3 0.05
58 55 0.93
59 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (59 bp):
AGATATGGCACTAAGTGTGCATGCTGAAAATATATGGCACTAAGTGTGCGATGCTCGAA
Found at i:111425557 original size:25 final size:26
Alignment explanation
Indices: 111425529--111425598 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
111425519 CTCTTTTAAT
*
111425529 AACTGGGGCAAAGCCCTTTTTGA-TA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
* *
111425554 AACTGGGGCAAAGCTC-GTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
*
111425579 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
111425599 AGCACTTCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 4 0.11
25 31 0.84
26 2 0.05
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCAGTA
Found at i:111426473 original size:27 final size:27
Alignment explanation
Indices: 111426408--111426473 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
111426398 GGGCATATTT
*
111426408 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCTTACAAGGGTATTACG
* *
111426435 GTCACTTTACCTTACAGGGGCT-TTACG
1 GTCATTTTACCTTACAAGGG-TATTACG
*
111426462 GTCTTTTTACCT
1 GTCATTTTACCT
111426474 ATTAGGGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCTTACAAGGGTATTACG
Found at i:111426556 original size:27 final size:27
Alignment explanation
Indices: 111426526--111426746 Score: 167
Period size: 27 Copynumber: 8.1 Consensus size: 27
111426516 GTAAATCTAC
*
111426526 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
* **
111426553 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCGGTAATTTTGT
* *
111426579 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCGGTAATTTTGT
* * **
111426609 AAATCAGGGGTATTTCGGTAATTTTAC
1 AAACCAAGGGTATTTCGGTAATTTTGT
*** ***
111426636 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCGGTAATTTTGT
* **
111426663 AAACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCGGTAATTTTGT
* * *
111426690 AAACTAGGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
* **
111426717 AAACCAAGAGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
111426744 AAA
1 AAA
111426747 TAGAGGGTAA
Statistics
Matches: 162, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.02
27 132 0.81
28 7 0.04
29 19 0.12
30 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCGGTAATTTTGT
Found at i:111426730 original size:54 final size:54
Alignment explanation
Indices: 111426503--111426741 Score: 230
Period size: 54 Copynumber: 4.4 Consensus size: 54
111426493 TTTCATCCTA
* * * * *
111426503 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAAC
* * * * * *
111426557 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTGTAAAC
* * * * ***
111426613 CAGGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAAC
* *
111426667 C-AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAAC
* *
111426721 CAAGAGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
111426742 GTAAATAGAG
Statistics
Matches: 146, Mismatches: 33, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
53 1 0.01
54 91 0.62
55 18 0.12
56 36 0.25
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAAC
Found at i:111426884 original size:54 final size:55
Alignment explanation
Indices: 111426734--111426890 Score: 221
Period size: 54 Copynumber: 2.9 Consensus size: 55
111426724 GAGTATTTTA
* * * *
111426734 GTAATTTTGTAAATAGAGGGTAAAGCGGTAATTCTATAAATCTA-AGGTAAAACG
1 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGAGGTAAAACG
* *
111426788 GTAATTCTGTAAATTAAGGGTAAAATGGTAATTCTATAAATCGAGA-GTAAAACG
1 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGAGGTAAAACG
* *
111426842 GTAATTCTGTAAATTGACGGTAAAACGGTAATTCTGTAAATCGAG-GGTA
1 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGAGGTA
111426891 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
54 90 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (55 bp):
GTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGAGGTAAAACG
Found at i:111426898 original size:81 final size:81
Alignment explanation
Indices: 111426706--111426901 Score: 223
Period size: 81 Copynumber: 2.4 Consensus size: 81
111426696 GGGGTATTTT
* * * * * * * * *
111426706 GGTAATTTTGTAAACCAAGAGTATTTTAGTAATTTTGTAAATAGAGGGTAAAGCGGTAATTCTAT
1 GGTAATTCTGTAAATCAAGGGTAATTTGGTAATTCTATAAATAGAGAGTAAAACGGTAATTCTAT
111426771 AAATCTAAGGTAAAAC
66 AAATCTAAGGTAAAAC
* ** * *
111426787 GGTAATTCTGTAAATTAAGGGTAAAATGGTAATTCTATAAATCGAGAGTAAAACGGTAATTCTGT
1 GGTAATTCTGTAAATCAAGGGTAATTTGGTAATTCTATAAATAGAGAGTAAAACGGTAATTCTAT
*
111426852 AAAT-TGACGGTAAAAC
66 AAATCT-AAGGTAAAAC
* *
111426868 GGTAATTCTGTAAATCGAGGGTACTTTGGTAATT
1 GGTAATTCTGTAAATCAAGGGTAATTTGGTAATT
111426902 TTACAAATTG
Statistics
Matches: 94, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
80 1 0.01
81 93 0.99
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (81 bp):
GGTAATTCTGTAAATCAAGGGTAATTTGGTAATTCTATAAATAGAGAGTAAAACGGTAATTCTAT
AAATCTAAGGTAAAAC
Found at i:111426901 original size:27 final size:27
Alignment explanation
Indices: 111426734--111426890 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
111426724 GAGTATTTTA
* * *
111426734 GTAATTTTGTAAATAGAGGGTAAAGCG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
111426761 GTAATTCTATAAATCTAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
** *
111426788 GTAATTCTGTAAATTAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
111426815 GTAATTCTATAAATCGAGAGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
111426842 GTAATTCTGTAAATTGACGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
111426869 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
111426891 CTTTGGTAAT
Statistics
Matches: 108, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:111431411 original size:47 final size:47
Alignment explanation
Indices: 111431342--111431467 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
111431332 ATCGATAAGA
* * * *
111431342 ACCTATACCATAGCCCGTAGCCAAATGAAGGTAACTTATCCCAAAGT
1 ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAAT
** * *
111431389 ACCTATACCATGGCCCGTAGCCAAATCAAGGTAGGTCCTCTCAAAAT
1 ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAAT
111431436 ACCTATA-CATTGGCCC-TAGCCAAATCAAGGTA
1 ACCTATACCA-TGGCCCGTAGCCAAATCAAGGTA
111431468 TTATTCGCGC
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 18 0.26
47 52 0.74
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (47 bp):
ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAAT
Found at i:111431791 original size:42 final size:42
Alignment explanation
Indices: 111431732--111431817 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
111431722 AGAAACAACA
*
111431732 AAACTAGTCGATTAATCGAGTACTTTGTTCTTGCCTTGATCT
1 AAACTAGTCGATTAATCGAGTACTTTGTTCTTGCCTCGATCT
111431774 AAACTAGTCGATTAATCGAGTACTTTGTTCTTGCCTCGATCT
1 AAACTAGTCGATTAATCGAGTACTTTGTTCTTGCCTCGATCT
111431816 AA
1 AA
111431818 GTCCAAAATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (42 bp):
AAACTAGTCGATTAATCGAGTACTTTGTTCTTGCCTCGATCT
Found at i:111437025 original size:28 final size:28
Alignment explanation
Indices: 111436993--111437049 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
111436983 GAAAAGAGAT
*
111436993 TGAATTTTAGGTGGGTGATAAAGTGTTC
1 TGAATTTCAGGTGGGTGATAAAGTGTTC
111437021 TGAATTTCAGGTGGGTGATAAAGTGTTC
1 TGAATTTCAGGTGGGTGATAAAGTGTTC
111437049 T
1 T
111437050 TCAAGGTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.05, G:0.32, T:0.39
Consensus pattern (28 bp):
TGAATTTCAGGTGGGTGATAAAGTGTTC
Found at i:111437056 original size:24 final size:24
Alignment explanation
Indices: 111437001--111437057 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 24
111436991 ATTGAATTTT
111437001 AGGTGGGTGATAAAGTGTTCTGAATTTC
1 AGGTGGGTGATAAAGTGTTC---A-TTC
111437029 AGGTGGGTGATAAAGTGTTC-TTC
1 AGGTGGGTGATAAAGTGTTCATTC
111437052 AAGGTG
1 -AGGTG
111437058 TCACCATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 3 0.11
24 5 0.18
28 20 0.71
ACGTcount: A:0.25, C:0.07, G:0.35, T:0.33
Consensus pattern (24 bp):
AGGTGGGTGATAAAGTGTTCATTC
Found at i:111438901 original size:64 final size:67
Alignment explanation
Indices: 111438774--111438901 Score: 156
Period size: 71 Copynumber: 1.9 Consensus size: 67
111438764 GGGATGTATC
*
111438774 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC-T--GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
111438839 AGGACA
62 AGGACA
* *
111438845 CCATGTAGACAAGAGAGCTA-T-AGATAAATCG-GCTAGG-CGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACTGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
111438902 TTCACCATGT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
64 17 0.32
65 6 0.11
66 8 0.15
67 1 0.02
69 1 0.02
71 20 0.38
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACTGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:111444546 original size:79 final size:82
Alignment explanation
Indices: 111444406--111444590 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
111444396 TCGAATGATG
* * *
111444406 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
111444470 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
111444486 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
111444548 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
111444566 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
111444591 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:111444598 original size:40 final size:40
Alignment explanation
Indices: 111444407--111444598 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
111444397 CGAATGATGT
* * * * *
111444407 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
111444447 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
111444487 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
111444526 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
111444566 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
111444599 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:111444621 original size:79 final size:79
Alignment explanation
Indices: 111444406--111444623 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
111444396 TCGAATGATG
* * * * ** *
111444406 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
111444469 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
111444486 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
111444551 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
111444566 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
111444624 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:111452534 original size:79 final size:82
Alignment explanation
Indices: 111452394--111452578 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
111452384 TCGAATGATG
* * *
111452394 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
111452458 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
111452474 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
111452536 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
111452554 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
111452579 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:111452586 original size:40 final size:40
Alignment explanation
Indices: 111452395--111452586 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
111452385 CGAATGATGT
* * * * *
111452395 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
111452435 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
111452475 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
111452514 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
111452554 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
111452587 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:111452609 original size:79 final size:79
Alignment explanation
Indices: 111452394--111452611 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
111452384 TCGAATGATG
* * * * ** *
111452394 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
111452457 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
111452474 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
111452539 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
111452554 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
111452612 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:111457522 original size:24 final size:24
Alignment explanation
Indices: 111457472--111457525 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
111457462 AATCGAATTT
*
111457472 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
111457496 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
111457520 GCACAC
1 GCACAC
111457526 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:111460949 original size:9 final size:9
Alignment explanation
Indices: 111460935--111460959 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
111460925 CATAATTCAT
111460935 AAATTCACA
1 AAATTCACA
111460944 AAATTCACA
1 AAATTCACA
111460953 AAATTCA
1 AAATTCA
111460960 ATTCAACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATTCACA
Found at i:111461801 original size:47 final size:47
Alignment explanation
Indices: 111461733--111461998 Score: 196
Period size: 47 Copynumber: 5.7 Consensus size: 47
111461723 TTTGTGAGCT
111461733 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGAACC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGAACC
* *
111461779 AGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACATT---ATGAGAACC
* *
111461827 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTC--GA-GACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGA-G-AA-CC
* * * * * **
111461873 AGTGTAAGACATGTCTGGGACAT-GAATTGGCTACGA-GATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAACC
* ** ***
111461919 AATGTAAGACCATGTCTGGGACATGGCATCAACTTGATATATGAG--CC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACAT-TATGAGAACC
111461966 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
111461999 ACCTTGCCCA
Statistics
Matches: 177, Mismatches: 25, Indels: 35
0.75 0.11 0.15
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 5 0.03
46 56 0.32
47 75 0.42
48 30 0.17
49 7 0.04
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGAACC
Done.