Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 206 of 290
Found at i:70920033 original size:33 final size:33
Alignment explanation
Indices: 70919988--70920053 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
70919978 CCACACGGTT
*
70919988 GCACACATGGACATCTGCTAGGCCATGTAGCCA
1 GCACACACGGACATCTGCTAGGCCATGTAGCCA
70920021 GCACACACGGACATCTGCTAGGCCATGTAGCCA
1 GCACACACGGACATCTGCTAGGCCATGTAGCCA
70920054 AGTCAATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.32, G:0.24, T:0.17
Consensus pattern (33 bp):
GCACACACGGACATCTGCTAGGCCATGTAGCCA
Found at i:70923092 original size:40 final size:40
Alignment explanation
Indices: 70923037--70923179 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
70923027 TGGATGATAA
* * *
70923037 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
70923077 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
70923117 CTGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
70923157 CCGGGCTATGTCCCGATGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
70923180 CGAGTAAGTA
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 93 0.99
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:70923195 original size:80 final size:79
Alignment explanation
Indices: 70923038--70923214 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 79
70923028 GGATGATAAC
* * * *
70923038 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTGGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTCGA
*
70923103 GCGAGTTACTATAT
66 GCAAGTTACTATAT
* * * *
70923117 CTGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-TATCCGGGCTATGTCCCGATGGCATTC
1 C-GGGCTAAGTCCCGAAGGCATTGGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTC
*
70923181 GAGTAAG-TAGCTATAT
64 GAGCAAGTTA-CTATAT
* * *
70923197 CCGGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
70923215 TACTTGGCTT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
79 18 0.22
80 64 0.78
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTGGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTCGA
GCAAGTTACTATAT
Found at i:70926408 original size:43 final size:43
Alignment explanation
Indices: 70926361--70926517 Score: 101
Period size: 43 Copynumber: 3.7 Consensus size: 43
70926351 AACATATACA
*
70926361 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCTAGACGTGGTCTTACAAGTAATCAAACATCG
* * * * *
70926404 ATGCC-ACTATCCTAGACAG-GGTCTTAGACG-AAGTCAGATA-CG
1 ATGCCAAC-GTCCTAGAC-GTGGTCTTACAAGTAA-TCAAACATCG
* * * * * *
70926446 ATGTCGATGTCCAAGACATGGTCTTACAAGTAA--AACAGGAGTCG
1 ATGCCAACGTCCTAGACGTGGTCTTACAAGTAATCAA-A-CA-TCG
*
70926490 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCTAGACGTGGTCTTACA
70926518 CGAATTCACA
Statistics
Matches: 85, Mismatches: 19, Indels: 19
0.69 0.15 0.15
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 27 0.32
43 30 0.35
44 26 0.31
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCTAGACGTGGTCTTACAAGTAATCAAACATCG
Found at i:70933926 original size:42 final size:43
Alignment explanation
Indices: 70933826--70933981 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
70933816 AACATATACA
* *
70933826 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGAAATCAAACATCG
* * * *
70933869 ATGCCACTATCCCAGACATGGTCTTATATGAAATCAGATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACATGAAATCAAACATCG
* * *
70933911 ATGTCGA-TGTCCCAGACATGGTCTTACAGTAAAAT-AGAA-GTCG
1 ATG-CCACTGTCCCAGACATGGTCTTACA-TGAAATCA-AACATCG
*
70933954 ATGCCAAC-GTCCCAGACGTGGTCTTACA
1 ATGCC-ACTGTCCCAGACATGGTCTTACA
70933982 CGAATTCACA
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
42 28 0.30
43 64 0.70
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGAAATCAAACATCG
Found at i:70935974 original size:43 final size:43
Alignment explanation
Indices: 70935809--70935976 Score: 196
Period size: 43 Copynumber: 3.9 Consensus size: 43
70935799 AAGCTCGTAC
* * * * *
70935809 AATGCC-ATATCCCAGATATGGTCTTACATGTTATTA-TATAT
1 AATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATAT
* * * *** *
70935850 CAATGCCACTGTCCCAGATAGGGTCTTACACAAAATCACAATAC
1 -AATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATAT
70935894 AATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATAT
1 AATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATAT
*
70935937 AATGCCAATGTCCTAGACATGGTCTTACATGTAATCACAA
1 AATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
70935977 CTCGATAACC
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
42 6 0.06
43 97 0.92
44 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (43 bp):
AATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATAT
Found at i:70944397 original size:14 final size:14
Alignment explanation
Indices: 70944378--70944413 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
70944368 AAAATTGTGC
70944378 AATTTAATCCTTTT
1 AATTTAATCCTTTT
*
70944392 AATTTAATCTTTTT
1 AATTTAATCCTTTT
70944406 AATTTAAT
1 AATTTAAT
70944414 TTTCTTCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTTAATCCTTTT
Found at i:70947985 original size:42 final size:42
Alignment explanation
Indices: 70947882--70947988 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
70947872 GAATTAAGCA
* * * * *
70947882 ATCCGAGTTCGTTGAGTGGTCCAATTTCATGATATGTATGAT
1 ATCCGAGCTCGTTGAGTGGTCCAAGTTCATGAGATATATGAC
* * * *
70947924 ATTCCGAACTTGTTGAGTGGTCCAAGTTCATGAGATATGTGGC
1 A-TCCGAGCTCGTTGAGTGGTCCAAGTTCATGAGATATATGAC
70947967 ATCCGAGCTCGTTGAGTGGTCC
1 ATCCGAGCTCGTTGAGTGGTCC
70947989 GTGTTCATTA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 20 0.38
43 33 0.62
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (42 bp):
ATCCGAGCTCGTTGAGTGGTCCAAGTTCATGAGATATATGAC
Found at i:70963427 original size:13 final size:13
Alignment explanation
Indices: 70963409--70963461 Score: 88
Period size: 13 Copynumber: 4.1 Consensus size: 13
70963399 CTACACGGCC
70963409 TAGCACACGGGCG
1 TAGCACACGGGCG
*
70963422 TAGCACACAGGCG
1 TAGCACACGGGCG
*
70963435 TAGCACACGGACG
1 TAGCACACGGGCG
70963448 TAGCACACGGGCG
1 TAGCACACGGGCG
70963461 T
1 T
70963462 GTGACTTGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.26, C:0.30, G:0.34, T:0.09
Consensus pattern (13 bp):
TAGCACACGGGCG
Found at i:70963461 original size:26 final size:25
Alignment explanation
Indices: 70963401--70963457 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 25
70963391 TGAATTTCCT
* *
70963401 ACACGGCCTAGCACACGGGCGTAGC
1 ACACGGCGTAGCACACGGACGTAGC
70963426 ACACAGGCGTAGCACACGGACGTAGC
1 ACAC-GGCGTAGCACACGGACGTAGC
70963452 ACACGG
1 ACACGG
70963458 GCGTGTGACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.28, C:0.33, G:0.32, T:0.07
Consensus pattern (25 bp):
ACACGGCGTAGCACACGGACGTAGC
Found at i:70966477 original size:15 final size:15
Alignment explanation
Indices: 70966445--70966487 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
70966435 AAAATGCCTT
*
70966445 AAACCCTAAACC--A
1 AAACCCTAACCCTAA
*
70966458 AAACCTTAACCCTAA
1 AAACCCTAACCCTAA
70966473 AAACCCTAACCCTAA
1 AAACCCTAACCCTAA
70966488 GAGAGAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 10 0.40
15 15 0.60
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (15 bp):
AAACCCTAACCCTAA
Found at i:70974773 original size:19 final size:19
Alignment explanation
Indices: 70974749--70974787 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
70974739 TAAAGTTATT
70974749 ATAATTAAAACAAAACATA
1 ATAATTAAAACAAAACATA
70974768 ATAATTAAAACAAAACATA
1 ATAATTAAAACAAAACATA
70974787 A
1 A
70974788 AACTTCGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (19 bp):
ATAATTAAAACAAAACATA
Found at i:70982059 original size:33 final size:34
Alignment explanation
Indices: 70981969--70982072 Score: 100
Period size: 33 Copynumber: 3.3 Consensus size: 34
70981959 ACATGTCTGC
* * * *
70981969 ACTG-TACTAATACTGAATTGGGCTTAGGCCCAC
1 ACTGTTACTGATACTGAATAGGGCCTAGGCCCAG
70982002 ACTGTTACTG-TA-T--A-A-GG-CTAAGGCCCAG
1 ACTGTTACTGATACTGAATAGGGCCT-AGGCCCAG
70982030 ACTG-TACTGATACTGAATAGGGCCTAGGCCCAG
1 ACTGTTACTGATACTGAATAGGGCCTAGGCCCAG
70982063 ACTGTTACTG
1 ACTGTTACTG
70982073 CATGCGTTGT
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
27 6 0.11
28 15 0.26
29 1 0.02
30 1 0.02
31 1 0.02
32 2 0.04
33 20 0.35
34 11 0.19
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (34 bp):
ACTGTTACTGATACTGAATAGGGCCTAGGCCCAG
Found at i:70982071 original size:28 final size:28
Alignment explanation
Indices: 70981979--70982072 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 28
70981969 ACTGTACTAA
* * *
70981979 TACTGAATTGGGCTTAGGCCCACACTGT
1 TACTGAATAGGGCCTAGGCCCAGACTGT
* *
70982007 TACTGTATAAGG-CTAAGGCCCAGACTGTACT
1 TACTGAATAGGGCCT-AGGCCCAGACTG---T
70982038 GATACTGAATAGGGCCTAGGCCCAGACTGT
1 --TACTGAATAGGGCCTAGGCCCAGACTGT
70982068 TACTG
1 TACTG
70982073 CATGCGTTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
27 1 0.02
28 25 0.48
30 1 0.02
31 1 0.02
33 22 0.42
34 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (28 bp):
TACTGAATAGGGCCTAGGCCCAGACTGT
Found at i:70983866 original size:39 final size:39
Alignment explanation
Indices: 70983811--70983995 Score: 291
Period size: 39 Copynumber: 4.7 Consensus size: 39
70983801 TTCCAACCCA
* *** *
70983811 AATGCCTTCGGAACTTAGCCCGGATATAACGTCAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
70983850 AATGCCTAT-GGGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCT-TCGGGACTTAGCCCGGATATAATACCAGCACG
70983889 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
* *
70983928 AATGCCTTCGGGACTTAACCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
70983967 AATGCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
70983996 ATCTCACACA
Statistics
Matches: 136, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 1 0.01
39 134 0.99
40 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
Found at i:70984989 original size:16 final size:16
Alignment explanation
Indices: 70984968--70985000 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
70984958 TCATAAGTAA
70984968 TGCCGAATGCCCAATT
1 TGCCGAATGCCCAATT
70984984 TGCCGAATGCCCAATT
1 TGCCGAATGCCCAATT
70985000 T
1 T
70985001 AACCAAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (16 bp):
TGCCGAATGCCCAATT
Found at i:70991941 original size:39 final size:39
Alignment explanation
Indices: 70991886--70992060 Score: 269
Period size: 39 Copynumber: 4.5 Consensus size: 39
70991876 TTCCAACCTA
* * *
70991886 AATGCCTTCGGAACTTAGCCCGGATATAACATCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
70991925 AATGCCTACGGGACTTAGCCCGAATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
70991964 AATGCCTTCGAGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
70992003 AATGCCTTCGGAACTTAACCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
70992042 AATGCCTTCGGGACTTAGC
1 AATGCCTTCGGGACTTAGC
70992061 TTAGATAAAA
Statistics
Matches: 121, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 121 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:71005477 original size:44 final size:43
Alignment explanation
Indices: 71005428--71005583 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
71005418 ATGTGTTATT
*
71005428 GTGTAAGACCATGTCAGGGACGTTGGCATC-AAATTATGATTTAC
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGAAATT-TGATTT-C
* * * * *
71005472 GTGTAAGACAACGTCTGGGATGTTGGCATCGTAA-TTGATTTTT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGAAATTTGA-TTTC
* *
71005515 GTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGATTTC
1 GTGTAAGACCATGTCTGGGAC-GTTGGCATCGAAATTTGATTTC
*
71005558 ATGTAAGA-C--GTCTGGGACGTTGGCAT
1 GTGTAAGACCATGTCTGGGACGTTGGCAT
71005584 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
39 1 0.01
40 15 0.16
42 1 0.01
43 39 0.42
44 35 0.38
45 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCGAAATTTGATTTC
Found at i:71005531 original size:43 final size:43
Alignment explanation
Indices: 71005426--71005556 Score: 115
Period size: 44 Copynumber: 3.0 Consensus size: 43
71005416 ATATGTGTTA
* * * *
71005426 TTGTGTAAGACCATGTCAGGGACGTTGGCATC-AAATTATGATTT
1 TTGTGTAAGACCCTGTCTGGGAAGTTGGCATCGTAA-T-TGATTT
** * *
71005470 ACGTGTAAGACAAC-GTCTGGGATGTTGGCATCGTAATTGATTT
1 TTGTGTAAGAC-CCTGTCTGGGAAGTTGGCATCGTAATTGATTT
*
71005513 TTGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGATTT
1 TTGTGTAAGACCCTGTCTGGGA-AGTTGGCATCG-TAATTGATTT
71005557 CATGTAAGAC
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
42 1 0.01
43 31 0.44
44 36 0.51
45 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
TTGTGTAAGACCCTGTCTGGGAAGTTGGCATCGTAATTGATTT
Found at i:71016460 original size:40 final size:40
Alignment explanation
Indices: 71016386--71016557 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 40
71016376 GATAATCGGA
* * *
71016386 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
* * * * *
71016426 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGAG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGG
*
71016466 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
71016506 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
71016545 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
71016558 ATACTTGGGT
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 96 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
Found at i:71016519 original size:80 final size:79
Alignment explanation
Indices: 71016386--71016557 Score: 249
Period size: 80 Copynumber: 2.2 Consensus size: 79
71016376 GATAATCGGA
* * * *
71016386 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTATGCTA
1 CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
71016451 G-TGATTATATCCGAG
66 GTTG-TTATATCCG-G
* *
71016466 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA
1 CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
71016531 GTTGTTATATCCGG
66 GTTGTTATATCCGG
71016545 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
71016558 ATACTTGGGT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
78 1 0.01
79 12 0.14
80 69 0.82
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
CTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGA
GTTGTTATATCCGG
Found at i:71016825 original size:22 final size:22
Alignment explanation
Indices: 71016785--71016826 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
71016775 GAATGTGCAT
*
71016785 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
71016807 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
71016827 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:71028230 original size:27 final size:28
Alignment explanation
Indices: 71028144--71028241 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
71028134 CATGAGATTG
* * *
71028144 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATACA
71028173 GCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGTTTGATTATACA
*
71028201 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATACA
*
71028228 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
71028242 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.36
28 23 0.36
29 18 0.28
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATACA
Found at i:71028252 original size:27 final size:27
Alignment explanation
Indices: 71028172--71028254 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
71028162 TAAATTGTAC
* * *
71028172 AGCACTAAGTGTGCGAGTTTGATTATAC
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
71028200 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
71028227 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
71028254 A
1 A
71028255 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:71028255 original size:29 final size:27
Alignment explanation
Indices: 71028144--71028255 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
71028134 CATGAGATTG
** * *
71028144 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
71028173 GCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
71028201 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
71028228 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
71028256 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 22 0.31
28 29 0.40
29 21 0.29
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:71030096 original size:44 final size:45
Alignment explanation
Indices: 71030032--71030150 Score: 152
Period size: 44 Copynumber: 2.7 Consensus size: 45
71030022 TATGTGTTAT
*
71030032 CGTGTAAGACCACGTTTGGGACGTTGGCATCAG-CTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCAGACTTATGATTTA
* * *
71030076 CGTGTAAGACCACATCTGGGACGTTGGGAT-TGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCAGACTTATGATTTA
* * * *
71030120 TGTGGAAGACAACGTCTGGGATGTTGGCATC
1 CGTGTAAGACCACGTCTGGGACGTTGGCATC
71030151 GTATTTTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.02
44 62 0.98
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (45 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCAGACTTATGATTTA
Found at i:71034596 original size:46 final size:46
Alignment explanation
Indices: 71034529--71034703 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
71034519 AACCCGCCCC
* * *
71034529 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
* *
71034575 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CCG-AGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCA--TCCA
* * * **
71034621 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
71034668 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
71034704 CTCAACCATC
Statistics
Matches: 105, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 64 0.61
47 31 0.30
48 4 0.04
49 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
Found at i:71034642 original size:93 final size:93
Alignment explanation
Indices: 71034534--71034704 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
71034524 GCCCCTAAGT
* ***
71034534 GAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71034599 CGAGTTCGGATGCCGAGTTACATTTCAC
66 CGAGTTCGGATGCCGAGTTACATTTCAC
* *
71034627 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71034692 CGAGTTCGGATGC
66 CGAGTTCGGATGC
71034705 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCGAGTTACATTTCAC
Found at i:71035155 original size:30 final size:30
Alignment explanation
Indices: 71035121--71035180 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
71035111 ATTTAATACG
71035121 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
71035151 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
71035181 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:71039996 original size:40 final size:40
Alignment explanation
Indices: 71039898--71040122 Score: 199
Period size: 40 Copynumber: 5.7 Consensus size: 40
71039888 TTGAATGCTG
* * * *
71039898 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* * *
71039938 TCCGGATTAAGAT-TCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* * **
71039978 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * **
71040018 TCCAGGTTAAGTCCCGAAGGCATTCGTGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAA
* * *
71040058 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
71040097 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
71040123 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
39 33 0.21
40 111 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:71040140 original size:79 final size:80
Alignment explanation
Indices: 71039973--71040155 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
71039963 GTGCGAGATA
** *
71039973 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCAGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGG
** **
71040038 CATTCGTGCGAATTG
66 CATTCGAACGAAGAG
* * * * *
71040053 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGG
* *
71040117 CATTTGAACGAGGAG
66 CATTCGAACGAAGAG
* *
71040132 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
71040156 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 44 0.52
80 27 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCAGGCTAAGTCCCGAAGG
CATTCGAACGAAGAG
Found at i:71043267 original size:25 final size:23
Alignment explanation
Indices: 71043239--71043296 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
71043229 TTAGGGTTTC
*
71043239 TTTTTTTTTTCATTTTTAGATTTGA
1 TTTTTTTTTT--TTTTTAGATTAGA
*
71043264 TTTTCTCTCTTTTTTTTAGATTAGA
1 TTTT-T-TTTTTTTTTTAGATTAGA
71043289 TTTTTTTT
1 TTTTTTTT
71043297 GTTGTTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 2 0.07
24 1 0.04
25 20 0.71
26 1 0.04
27 4 0.14
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTAGATTAGA
Found at i:71053242 original size:26 final size:26
Alignment explanation
Indices: 71053184--71053242 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
71053174 CTATGGAATG
*
71053184 GGTTTTTGAAAATTTTTCTCAAAATT
1 GGTTTTTCAAAATTTTTCTCAAAATT
* * *
71053210 GGGTTTTCAAAGTTTTTCT-AAACCTT
1 GGTTTTTCAAAATTTTTCTCAAA-ATT
71053236 GGTTTTT
1 GGTTTTT
71053243 TTTAAAGAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (26 bp):
GGTTTTTCAAAATTTTTCTCAAAATT
Found at i:71061846 original size:21 final size:21
Alignment explanation
Indices: 71061822--71061888 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
71061812 ATACACGAAT
71061822 GTGTGGCTAAGAGACACGCCC
1 GTGTGGCTAAGAGACACGCCC
* * * ***
71061843 GTGTGACTGAGATACACAATC
1 GTGTGGCTAAGAGACACGCCC
* * *
71061864 ATGTGGCAAAGGGACACGCCC
1 GTGTGGCTAAGAGACACGCCC
71061885 GTGT
1 GTGT
71061889 AACTGGGGTA
Statistics
Matches: 30, Mismatches: 16, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.31, T:0.18
Consensus pattern (21 bp):
GTGTGGCTAAGAGACACGCCC
Found at i:71061858 original size:42 final size:42
Alignment explanation
Indices: 71061823--71061902 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
71061813 TACACGAATG
* *
71061823 TGTGGCTAAGAGACACGCCCGTGTGACTGAGATACACAATCA
1 TGTGGCAAAGAGACACGCCCGTGTAACTGAGATACACAATCA
* * *
71061865 TGTGGCAAAGGGACACGCCCGTGTAACTGGGGTACACA
1 TGTGGCAAAGAGACACGCCCGTGTAACTGAGATACACA
71061903 GCATTGTGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.30, T:0.17
Consensus pattern (42 bp):
TGTGGCAAAGAGACACGCCCGTGTAACTGAGATACACAATCA
Found at i:71061911 original size:42 final size:42
Alignment explanation
Indices: 71061823--71061912 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
71061813 TACACGAATG
* * *
71061823 TGTGGCTAAGAGACACGCCCGTGTGACTGAGATACACAATCA
1 TGTGGCAAAGAGACACGCCCGTGTAACTGAGATACACAAGCA
* * *
71061865 TGTGGCAAAGGGACACGCCCGTGTAACTGGGGTACAC-AGCA
1 TGTGGCAAAGAGACACGCCCGTGTAACTGAGATACACAAGCA
71061906 TTGTGGC
1 -TGTGGC
71061913 CATACTGTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 3 0.07
42 38 0.93
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (42 bp):
TGTGGCAAAGAGACACGCCCGTGTAACTGAGATACACAAGCA
Found at i:71064738 original size:33 final size:33
Alignment explanation
Indices: 71064700--71064767 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
71064690 TTTACATGTT
* *
71064700 TGTTTTTAAGAAAGAAATATTATAGGTACCATG
1 TGTTTTGAAGAAAGAAAGATTATAGGTACCATG
71064733 TGTTTTGAAGAAAGAAAGATTATAGGTACCATG
1 TGTTTTGAAGAAAGAAAGATTATAGGTACCATG
71064766 TG
1 TG
71064768 ATATGAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (33 bp):
TGTTTTGAAGAAAGAAAGATTATAGGTACCATG
Found at i:71065165 original size:21 final size:21
Alignment explanation
Indices: 71065126--71065180 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
71065116 TGAGCGTGTG
* * *
71065126 GGATAGCCGCACGGGCATGTC
1 GGATAGCCACACAGCCATGTC
71065147 GGATAGCCACACAGCCATGTC
1 GGATAGCCACACAGCCATGTC
* *
71065168 -TAGAGCCACACAG
1 GGATAGCCACACAG
71065181 TCTAGGCTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.27, C:0.31, G:0.29, T:0.13
Consensus pattern (21 bp):
GGATAGCCACACAGCCATGTC
Found at i:71069736 original size:4 final size:4
Alignment explanation
Indices: 71069727--71069756 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
71069717 CCTGAGAATC
71069727 AATT AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AA
71069757 AGTTTGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:71072046 original size:24 final size:23
Alignment explanation
Indices: 71072010--71072062 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
71072000 TTGGTGCCCT
*
71072010 TGATATTCATGCTATATACA-CCC
1 TGATAATCATGCT-TATACATCCC
* *
71072033 ATGATAATCGTGCTTATGCATCCC
1 -TGATAATCATGCTTATACATCCC
71072057 TGATAA
1 TGATAA
71072063 CTGCACCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (23 bp):
TGATAATCATGCTTATACATCCC
Found at i:71076676 original size:35 final size:35
Alignment explanation
Indices: 71076617--71076699 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 35
71076607 CATGGTTCAT
* *
71076617 TATATCATCACATATGGCCAAATATACAAGTACAA
1 TATATCATCATATATGACCAAATATACAAGTACAA
* * *
71076652 TATATCATCATGTATGACCGAATATACAAGTTCAA
1 TATATCATCATATATGACCAAATATACAAGTACAA
* *
71076687 TAAAACATCATAT
1 TATATCATCATAT
71076700 GTATTAGATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (35 bp):
TATATCATCATATATGACCAAATATACAAGTACAA
Found at i:71084295 original size:70 final size:70
Alignment explanation
Indices: 71084203--71084382 Score: 171
Period size: 70 Copynumber: 2.6 Consensus size: 70
71084193 TACTTACTTG
* * * * * * *
71084203 TATGGCCAAATACACATGGTTCATTATATCATCACATATGGCCGAATATACAAGTATAATCTATC
1 TATGACCAAATATACA-AGTTCAATAAATCATCACATATGGCCGAATATACAAGTATAATATAAC
*
71084268 ATCATG
65 ATCATA
** * * *** * *
71084274 TATGACTGAATATACAAGTTCAATAAAACATCACATGTATTCGAATATTCAAGTTTAATATAACA
1 TATGACCAAATATACAAGTTCAATAAATCATCACATATGGCCGAATATACAAGTATAATATAACA
71084339 TCATA
66 TCATA
* * *
71084344 TGTGCCCAAATATACAAGTTCAATACATCATCACATATG
1 TATGACCAAATATACAAGTTCAATAAATCATCACATATG
71084383 TACATACCTA
Statistics
Matches: 84, Mismatches: 25, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
70 72 0.86
71 12 0.14
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (70 bp):
TATGACCAAATATACAAGTTCAATAAATCATCACATATGGCCGAATATACAAGTATAATATAACA
TCATA
Found at i:71084306 original size:35 final size:34
Alignment explanation
Indices: 71084245--71084368 Score: 90
Period size: 35 Copynumber: 3.6 Consensus size: 34
71084235 CACATATGGC
** *
71084245 CGAATATACAAGTAT-AATCTATCATCATGTATGA
1 CGAATATACAAGT-TCAATAAAACATCATGTATGA
*
71084279 CTGAATATACAAGTTCAATAAAACATCACATGTAT-T
1 C-GAATATACAAGTTCAATAAAACAT--CATGTATGA
* * * * * *
71084315 CGAATATTCAAGTTTAATATAACATCATATGTGCC
1 CGAATATACAAGTTCAATAAAACATCATGTATG-A
*
71084350 CAAATATACAAGTTCAATA
1 CGAATATACAAGTTCAATA
71084369 CATCATCACA
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
33 5 0.07
34 2 0.03
35 56 0.79
36 1 0.01
37 7 0.10
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (34 bp):
CGAATATACAAGTTCAATAAAACATCATGTATGA
Found at i:71084376 original size:35 final size:35
Alignment explanation
Indices: 71084282--71084379 Score: 106
Period size: 35 Copynumber: 2.8 Consensus size: 35
71084272 TGTATGACTG
** *
71084282 AATATACAAGTTCAATAAAACATCACATGTATTCG
1 AATATACAAGTTCAATAAAACATCACATGTACCCA
* * * * *
71084317 AATATTCAAGTTTAATATAACATCATATGTGCCCA
1 AATATACAAGTTCAATAAAACATCACATGTACCCA
* *
71084352 AATATACAAGTTCAATACATCATCACAT
1 AATATACAAGTTCAATAAAACATCACAT
71084380 ATGTACATAC
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (35 bp):
AATATACAAGTTCAATAAAACATCACATGTACCCA
Found at i:71088728 original size:43 final size:43
Alignment explanation
Indices: 71088672--71088753 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
71088662 CACATATATG
* *
71088672 GCATCCATTATGAACTT-GGACCACTCAACAAGCTCGGATGCTC
1 GCATCCATAATGAA-TTCAGACCACTCAACAAGCTCGGATGCTC
* *
71088715 GCATCTATAATGAATTCAGACCACTCAACGAGCTCGGAT
1 GCATCCATAATGAATTCAGACCACTCAACAAGCTCGGAT
71088754 ACTATATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.06
43 32 0.94
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
GCATCCATAATGAATTCAGACCACTCAACAAGCTCGGATGCTC
Found at i:71097068 original size:30 final size:30
Alignment explanation
Indices: 71097034--71097091 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
71097024 TCTATAGTAA
71097034 GGCATAAACACTTGATATCAAATATACTAT
1 GGCATAAACACTTGATATCAAATATACTAT
71097064 GGCATAAACACTTGATATCAAATATACT
1 GGCATAAACACTTGATATCAAATATACT
71097092 TCATAGGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.29
Consensus pattern (30 bp):
GGCATAAACACTTGATATCAAATATACTAT
Found at i:71100501 original size:49 final size:48
Alignment explanation
Indices: 71100397--71100715 Score: 230
Period size: 49 Copynumber: 6.6 Consensus size: 48
71100387 GGATACGATA
* * *
71100397 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCT-C-TCACATCTAA-G
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTGACTCCAT-ACATC-AAGG
* *
71100445 TCGATGCCATGTCCTAGACAGGTCTTACACTGACTTCCATACATCAAGG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGAC-TCCATACATCAAGG
* * * *
71100494 CCGATGCCATGTCCCAGACAGGTTTTACACTGGCTCTCACT-TATC-TGTG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTC-CA-TACATCAAG-G
* * *
71100543 TCAATGCCATGTCCCAGACAGGTCTTACACTGAC-ACAT-C-TCAA-G
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTCCATACATCAAGG
* * *
71100587 CCGATGCTATGTCCCAGACAGGTCTTACACT-AGCTTGCATATC-TCTAGG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGA-C-TCCATA-CATCAAGG
* * * * * ** *
71100636 CCAATGCTATGTCCTAGATAGGTCTTACACTGGCTCTCATTTATC-GGTG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTC-CATACATCAAG-G
*
71100685 CCGATGCCATGTCCCAGACAGGTTTTACACT
1 CCGATGCCATGTCCCAGACAGGTCTTACACT
71100716 AGCACACACA
Statistics
Matches: 217, Mismatches: 36, Indels: 35
0.75 0.12 0.12
Matches are distributed among these distances:
43 1 0.00
44 30 0.14
45 2 0.01
46 4 0.02
47 15 0.07
48 28 0.13
49 135 0.62
50 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTGACTCCATACATCAAGG
Found at i:71100565 original size:98 final size:95
Alignment explanation
Indices: 71100397--71100715 Score: 337
Period size: 93 Copynumber: 3.3 Consensus size: 95
71100387 GGATACGATA
* * * *
71100397 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAC-ATCTAAGTCGATGCCATGTCCTA
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACTATCTATGTCAATGCCATGTCCTA
71100461 GACAGGTCTTACACTGACTTCCATACATCAAGG
65 GACAGGTCTTACACTGAC-TCCAT-CATCAAGG
* * *
71100494 CCGATGCCATGTCCCAGACAGGTTTTACACTGGCTCTCACTTATCTGTGTCAATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAC-TATCTATGTCAATGCCATGTCCTA
*
71100559 GACAGGTCTTACACTGAC-ACATC-TCAA-G
65 GACAGGTCTTACACTGACTCCATCATCAAGG
* * * * *
71100587 CCGATGCTATGTCCCAGACAGGTCTTACACTAGCT-TGCA-TATCTCTAGGCCAATGCTATGTCC
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-CACTA--TCTATGTCAATGCCATGTCC
* * * *
71100650 TAGATAGGTCTTACACTGGCTCTCATTTATC-GGTG
63 TAGACAGGTCTTACACTGACTC-CA-TCATCAAG-G
*
71100685 CCGATGCCATGTCCCAGACAGGTTTTACACT
1 CCGATGCCATGTCCCAGACAGGTCTTACACT
71100716 AGCACACACA
Statistics
Matches: 188, Mismatches: 23, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
91 2 0.01
92 1 0.01
93 68 0.36
94 4 0.02
95 3 0.02
96 23 0.12
97 20 0.11
98 67 0.36
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (95 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTATCTATGTCAATGCCATGTCCTAG
ACAGGTCTTACACTGACTCCATCATCAAGG
Found at i:71100641 original size:93 final size:97
Alignment explanation
Indices: 71100397--71100718 Score: 313
Period size: 98 Copynumber: 3.4 Consensus size: 97
71100387 GGATACGATA
* * * ** * *
71100397 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAC--ATCTAAGTCGATGCCATGTCCT
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCACTTATCTGTGCCAATGCCATGTCCT
*
71100460 AGACAGGTCTTACACTGACTTCCATACATCAAGG
65 AGACAGGTCTTACACTGAC-TACATACATCAAGG
* * * *
71100494 CCGATGCCATGTCCCAGACAGGTTTTACACTGGCTCTCACTTATCTGTGTCAATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATCTGTGCCAATGCCATGTCCTA
71100559 GACAGGTCTTACACTGAC-ACAT-C-TCAA-G
66 GACAGGTCTTACACTGACTACATACATCAAGG
* * *
71100587 CCGATGCTATGTCCCAGACAGGTCTTACACTAGCT-TGCA--TATCTCTAGGCCAATGCTATGTC
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CACTTATCTGT--GCCAATGCCATGTC
* * * ** *
71100649 CTAGATAGGTCTTACACTGGCTCTCATTTATC-GGTG
63 CTAGACAGGTCTTACACTGACT-ACATACATCAAG-G
*
71100685 CCGATGCCATGTCCCAGACAGGTTTTACACTAGC
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAGC
71100719 ACACACATCA
Statistics
Matches: 192, Mismatches: 22, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
91 6 0.03
92 1 0.01
93 65 0.34
94 4 0.02
95 4 0.02
96 22 0.11
97 20 0.10
98 70 0.36
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (97 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATCTGTGCCAATGCCATGTCCTA
GACAGGTCTTACACTGACTACATACATCAAGG
Found at i:71100702 original size:142 final size:143
Alignment explanation
Indices: 71100397--71100723 Score: 401
Period size: 142 Copynumber: 2.3 Consensus size: 143
71100387 GGATACGATA
* * * * *
71100397 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCCTAG
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTGG--CACACATCTAAGCCGATGCCATGTCCCAG
* *
71100462 ACAGGTCTTACACTGACTTCCATACATCAAGGCCGATGCCATGTCCCAGACAGGTTTTACACTGG
63 ACAGGTCTTACACTGACTTCCATACATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTGG
*
71100527 CTCTCACTTATCTGTG
128 CTCTCACTTATCGGTG
* * *
71100543 TCAATGCCATGTCCCAGACAGGTCTTACACT-G-ACACATCTCAAGCCGATGCTATGTCCCAGAC
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGGCACACATCT-AAGCCGATGCCATGTCCCAGAC
* * * * *
71100606 AGGTCTTACACT-AGCTTGCATATC-TCTAGGCCAATGCTATGTCCTAGATAGGTCTTACACTGG
65 AGGTCTTACACTGA-CTTCCATA-CATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTGG
*
71100669 CTCTCATTTATCGGTG
128 CTCTCACTTATCGGTG
* *
71100685 CCGATGCCATGTCCCAGACAGGTTTTACACTAGCACACA
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGGCACACA
71100724 CATCACCCAA
Statistics
Matches: 156, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
141 8 0.05
142 113 0.72
143 2 0.01
144 6 0.04
145 11 0.07
146 16 0.10
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (143 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTGGCACACATCTAAGCCGATGCCATGTCCCAGACA
GGTCTTACACTGACTTCCATACATCAAGGCCAATGCCATGTCCCAGACAGGTCTTACACTGGCTC
TCACTTATCGGTG
Found at i:71102489 original size:20 final size:21
Alignment explanation
Indices: 71102454--71102510 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
71102444 TGATATGTAG
71102454 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
71102472 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
71102493 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
71102511 GTAATCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:71102644 original size:24 final size:26
Alignment explanation
Indices: 71102562--71102668 Score: 143
Period size: 26 Copynumber: 4.3 Consensus size: 26
71102552 GGAAGTGCAT
*
71102562 AAGGGCTTATGCCTCAGTTTATTGAA
1 AAGGGCTTATGCCCCAGTTTATTGAA
71102588 AAGGGCTTATGCCCCAGTTTATTGAA
1 AAGGGCTTATGCCCCAGTTTATTGAA
* *
71102614 AAGGGCTT-TGCCCTAGTTTA-TCAA
1 AAGGGCTTATGCCCCAGTTTATTGAA
71102638 AAGGGCTT-TGCCCCAG-TTATT-AA
1 AAGGGCTTATGCCCCAGTTTATTGAA
71102661 AAGAGGCT
1 AAG-GGCT
71102669 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
23 8 0.11
24 23 0.31
25 11 0.15
26 33 0.44
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (26 bp):
AAGGGCTTATGCCCCAGTTTATTGAA
Found at i:71114552 original size:40 final size:40
Alignment explanation
Indices: 71114492--71114586 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
71114482 CGGATGTAAC
*
71114492 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
71114532 AACCCGCACGAATGCCTTCGGGACTTAACCTGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
71114572 AACCCGTACGAATGC
1 AACCCGCACGAATGC
71114587 TATGCACATA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:71125659 original size:48 final size:47
Alignment explanation
Indices: 71125513--71125722 Score: 156
Period size: 48 Copynumber: 4.4 Consensus size: 47
71125503 ATGTGTGTGT
* *
71125513 TGAGATCCTGTGTAAGACCATATCTAGGATATGACATCGGCATCGATA
1 TGAGATCCCGTGTAAGA-CATATCTAGGATATGGCATCGGCATCGATA
* * * * * * *
71125561 AGAGATCCCGTATACGACGACATTTAGGACATGGCATCGGTATC-AGTA
1 TGAGATCCCGTGTAAGAC-ATATCTAGGATATGGCATCGGCATCGA-TA
* * *
71125609 TGAGATCCCATGTAAGATCATATCTGGGATATGGCATTGGCATCGATA
1 TGAGATCCCGTGTAAGA-CATATCTAGGATATGGCATCGGCATCGATA
* * * * * * *
71125657 TGAGGTCTCGTATAAGACCA-AGTCTAGGACATGGCATCGACACCGTTA
1 TGAGATCCCGTGTAAGA-CATA-TCTAGGATATGGCATCGGCATCGATA
*
71125705 TGAGA-CTTCGTGTAAGAC
1 TGAGATC-CCGTGTAAGAC
71125723 CATAACTGGG
Statistics
Matches: 124, Mismatches: 32, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
47 5 0.04
48 117 0.94
49 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (47 bp):
TGAGATCCCGTGTAAGACATATCTAGGATATGGCATCGGCATCGATA
Found at i:71125719 original size:96 final size:96
Alignment explanation
Indices: 71125513--71125743 Score: 243
Period size: 96 Copynumber: 2.4 Consensus size: 96
71125503 ATGTGTGTGT
* * * *
71125513 TGAGATCCTGTGTAAGACCATATCTAGGATATGACATCGGCATCGATAAGAGATCCCGTATACGA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATAAGAGATCCCGTATAAGA
* * **
71125578 CGACATTTAGGACATGGCATCGGTATCAGTA
66 CCACATCTAGGACATGGCATCGACATCAGTA
* * * * * *
71125609 TGAGATCCCATGTAAGATCATATCTGGGATATGGCATTGGCATCGATATGAGGTCTCGTATAAGA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATAAGAGATCCCGTATAAGA
*
71125674 CCA-AGTCTAGGACATGGCATCGACA-CCGTTA
66 CCACA-TCTAGGACATGGCATCGACATCAG-TA
* * *
71125705 TGAGA-CTTCGTGTAAGACCATAACTGGGCTATTGGCATC
1 TGAGATC-CCGTGTAAGACCATATCTGGGATA-TGGCATC
71125744 AATGTGAGAT
Statistics
Matches: 110, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
95 4 0.04
96 100 0.91
97 6 0.05
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (96 bp):
TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATAAGAGATCCCGTATAAGA
CCACATCTAGGACATGGCATCGACATCAGTA
Found at i:71147524 original size:15 final size:17
Alignment explanation
Indices: 71147506--71147537 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
71147496 TAGCATAATT
71147506 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
71147521 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
71147538 CAAATATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:71155502 original size:71 final size:71
Alignment explanation
Indices: 71155381--71155527 Score: 197
Period size: 71 Copynumber: 2.1 Consensus size: 71
71155371 ATGCACAAGA
* * ** * *
71155381 AAATCGAGGTTTATGTCGATGATATGATCGTAAAATCTCGAACAGAAGAAGAGCGTATACAAGTC
1 AAATTGAGGTTTATGTCAATGATATGATCACAAAATCTCAAACAGAAGAAGAGCATATACAAGTC
*
71155446 TTGAGG
66 TTAAGG
* *
71155452 AAATTGAGGTTTATGTTAATGATATGATCACAAAATC-CTAAATAGAAGAAGAGCATATACAAGT
1 AAATTGAGGTTTATGTCAATGATATGATCACAAAATCTC-AAACAGAAGAAGAGCATATACAAGT
71155516 CTTAAGG
65 CTTAAGG
71155523 AAATT
1 AAATT
71155528 ATTTTTGAGG
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
70 1 0.02
71 65 0.98
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (71 bp):
AAATTGAGGTTTATGTCAATGATATGATCACAAAATCTCAAACAGAAGAAGAGCATATACAAGTC
TTAAGG
Found at i:71178497 original size:48 final size:48
Alignment explanation
Indices: 71178425--71178841 Score: 456
Period size: 48 Copynumber: 8.7 Consensus size: 48
71178415 TTAAGTTGTT
* *
71178425 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGTC
* * ** * *
71178473 GATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCATAACAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGTC
* * * *
71178521 GATGTCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGTC
* * ** * *
71178569 GATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCATAACAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGTC
* * * *
71178617 GATGTCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGTC
* * ** * *
71178665 GATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCATAACAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGTC
* * *
71178713 GATGTCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGTC
* * * * * * * * *
71178761 GATGCCATGTTCTAGACATAGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGTC
* *
71178809 AATGCCATGTCCTAGACATGGTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
71178842 ACACGTATCA
Statistics
Matches: 297, Mismatches: 72, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 297 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGTC
Found at i:71178598 original size:96 final size:96
Alignment explanation
Indices: 71178425--71178838 Score: 702
Period size: 96 Copynumber: 4.3 Consensus size: 96
71178415 TTAAGTTGTT
* *
71178425 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTTGATGCCATGTCCCAGAC
1 GATGTCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTTGATGCCATGTCCCAGAC
71178490 ATTGTCTTACACTAGCTCTCATAACAATGTC
66 ATTGTCTTACACTAGCTCTCATAACAATGTC
71178521 GATGTCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTTGATGCCATGTCCCAGAC
1 GATGTCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTTGATGCCATGTCCCAGAC
71178586 ATTGTCTTACACTAGCTCTCATAACAATGTC
66 ATTGTCTTACACTAGCTCTCATAACAATGTC
71178617 GATGTCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTTGATGCCATGTCCCAGAC
1 GATGTCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTTGATGCCATGTCCCAGAC
71178682 ATTGTCTTACACTAGCTCTCATAACAATGTC
66 ATTGTCTTACACTAGCTCTCATAACAATGTC
* * *
71178713 GATGTCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTCGATGCCATGTTCTAGAC
1 GATGTCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTTGATGCCATGTCCCAGAC
* * ** *
71178778 ATAGTCTTACACTAGCTCTCGTCTCAATGCC
66 ATTGTCTTACACTAGCTCTCATAACAATGTC
* * * *
71178809 AATGCCATGTCCTAGACATGGTCTTACACT
1 GATGTCATATCCCAGACATGGTCTTACACT
71178839 AGCACACGTA
Statistics
Matches: 304, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 304 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (96 bp):
GATGTCATATCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGTTGATGCCATGTCCCAGAC
ATTGTCTTACACTAGCTCTCATAACAATGTC
Found at i:71182161 original size:50 final size:49
Alignment explanation
Indices: 71182085--71182342 Score: 183
Period size: 51 Copynumber: 5.2 Consensus size: 49
71182075 TAGTGGGTCG
*
71182085 GATTGAAG-TCACCATAGTAAATCTTATCTCCCTGAAGTTGCAGTGAAGCA
1 GATTGAAGCT-ACCATA-CAAATCTTATCTCCCTGAAGTTGCAGTGAAGCA
* * * * * *
71182135 GATTGAAGTTACCATGACAAACCTTATCTCCTTGAGGTTGCAGTGGAGAA
1 GATTGAAGCTACCAT-ACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCA
* * **
71182185 GATTGAAGCTA-CAGAC----CTTATTTTTCTGAAGTTGCAGTGGAA-CA
1 GATTGAAGCTACCATACAAATCTTATCTCCCTGAAGTTGCAGT-GAAGCA
* * *
71182229 GATTAAAGCTACAAGTTGCAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CA
1 GATTGAAGCTACCA--TACAAATCTTATCTCCCTGAAGTTGCAGT-GAAGCA
* * * * * *
71182280 AATTAAAGCTACAAGTTACAAATCTTATCTCTCAGAAATTGCAGTTG-AGCA
1 GATTGAAGCTACCA--TACAAATCTTATCTCCCTGAAGTTGCAG-TGAAGCA
71182331 GATTGAAGCTAC
1 GATTGAAGCTAC
71182343 AAATCTTATC
Statistics
Matches: 167, Mismatches: 29, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
44 28 0.17
45 3 0.02
47 1 0.01
48 2 0.01
49 2 0.01
50 51 0.31
51 79 0.47
52 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (49 bp):
GATTGAAGCTACCATACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCA
Found at i:71182277 original size:51 final size:51
Alignment explanation
Indices: 71182210--71182344 Score: 198
Period size: 51 Copynumber: 2.6 Consensus size: 51
71182200 CCTTATTTTT
*
71182210 CTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTGCAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCC
* *
71182261 CTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTACAAATCTTATCTCT
1 CTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCC
* * * * *
71182312 CAGAAATTGCAGTTGAGCAGATTGAAGCTACAA
1 CTGAAGTTGCAGTGGAACAGATTAAAGCTACAA
71182345 ATCTTATCTT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (51 bp):
CTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCC
Found at i:71182289 original size:95 final size:94
Alignment explanation
Indices: 71182116--71182292 Score: 225
Period size: 95 Copynumber: 1.9 Consensus size: 94
71182106 TCTTATCTCC
* * * * *
71182116 CTGAAGTTGCAGTGAAGCAGATTGAAGTTACCATGACAAACCTTATCTCCTTGAGGTTGCAGTGG
1 CTGAAGTTGCAGTGAAGCAGATTAAAGCTACAATGACAAACCTTATCTCCCTGAAGTTGCAGTGG
* *
71182181 AGAAGATTGAAGCTACAGACCTTATTTTT
66 AGAAAATTAAAGCTACAGACCTTATTTTT
*
71182210 CTGAAGTTGCAGTGGAA-CAGATTAAAGCTACAAGTTG-CAAATCTTATCTCCCTGAAGTTGCAG
1 CTGAAGTTGCAGT-GAAGCAGATTAAAGCTACAA--TGACAAACCTTATCTCCCTGAAGTTGCAG
71182273 TGGA-ACAAATTAAAGCTACA
63 TGGAGA-AAATTAAAGCTACA
71182293 AGTTACAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
94 27 0.38
95 42 0.59
96 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (94 bp):
CTGAAGTTGCAGTGAAGCAGATTAAAGCTACAATGACAAACCTTATCTCCCTGAAGTTGCAGTGG
AGAAAATTAAAGCTACAGACCTTATTTTT
Found at i:71188405 original size:41 final size:41
Alignment explanation
Indices: 71188291--71188510 Score: 237
Period size: 41 Copynumber: 5.4 Consensus size: 41
71188281 AATAATCAAT
* ** *
71188291 ATCTCGCACACTAAGTGCCATACATAGCTAAAGTTATCTC-
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCG
** * * * * **
71188331 AAATCACATATTAAGTGCCATGTATAGTTGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCG
* * *
71188372 ATCTCGCACACTAAGTGCTATAGATAGCCGAAGCTATCTTG
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCG
* *
71188413 ATCTTGCACACTAGGTGCCATATATAGCCGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCG
* *
71188454 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATGTCG
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCG
* *
71188495 A-ATCGCACATTAAGTG
1 ATCTCGCACACTAAGTG
71188511 TCACATAGTT
Statistics
Matches: 146, Mismatches: 33, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
40 42 0.29
41 104 0.71
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCG
Found at i:71195932 original size:82 final size:81
Alignment explanation
Indices: 71195773--71196002 Score: 284
Period size: 82 Copynumber: 2.8 Consensus size: 81
71195763 AATACTCAAT
* * * * *
71195773 ATCTCGCACACTAAGTGCCATACATAGCCGAAGT-TATCTCAAATTGCACATTAAGTGCCATGTA
1 ATCTCACACACTAAGTGCCATATATACCCGAA-TCTATCTCAAATTGCACACTAAGTGCCATATA
*
71195837 TAGCCGAATCTATCTCG
65 TAGCCGAAGCTATCTCG
* *
71195854 ATCTCACACACTAAGTGCTATATATACCCGAATCTATCTC-GATCTCGCACACTAAGTGCCATAT
1 ATCTCACACACTAAGTGCCATATATACCCGAATCTATCTCAAAT-T-GCACACTAAGTGCCATAT
*
71195918 ATAGCCGAAGCTATCTTG
64 ATAGCCGAAGCTATCTCG
* * * * * *
71195936 ATCTTACACACTAAGTGCCATATATATCTGAAGCTATGTCAAATTGCACACTAAGTGCCACATAT
1 ATCTCACACACTAAGTGCCATATATACCCGAATCTATCTCAAATTGCACACTAAGTGCCATATAT
71196001 AG
66 AG
71196003 TTGATTTGTC
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
80 3 0.02
81 56 0.44
82 67 0.52
83 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (81 bp):
ATCTCACACACTAAGTGCCATATATACCCGAATCTATCTCAAATTGCACACTAAGTGCCATATAT
AGCCGAAGCTATCTCG
Found at i:71195969 original size:41 final size:41
Alignment explanation
Indices: 71195773--71196002 Score: 234
Period size: 41 Copynumber: 5.7 Consensus size: 41
71195763 AATACTCAAT
* * * *
71195773 ATCTCGCACACTAAGTGCCATACATAGCCGAAGTTATCTCAA
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTC-G
* * * *
71195815 AT-T-GCACATTAAGTGCCATGTATAGCCGAATCTATCTCG
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCG
* * *
71195854 ATCTCACACACTAAGTGCTATATATACCCGAATCTATCTCG
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCG
* *
71195895 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTTG
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCG
* * * * *
71195936 ATCTTACACACTAAGTGCCATATATATCTGAAGCTATGTCAA
1 ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTC-G
* *
71195978 AT-T-GCACACTAAGTGCCACATATAG
1 ATCTCACACACTAAGTGCCATATATAG
71196003 TTGATTTGTC
Statistics
Matches: 159, Mismatches: 26, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.01
40 50 0.31
41 103 0.65
42 4 0.03
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (41 bp):
ATCTCACACACTAAGTGCCATATATAGCCGAAGCTATCTCG
Found at i:71195990 original size:122 final size:122
Alignment explanation
Indices: 71195773--71195993 Score: 284
Period size: 122 Copynumber: 1.8 Consensus size: 122
71195763 AATACTCAAT
* * * *
71195773 ATCTCGCACACTAAGTGCCATACATAGCCGAAGTTATCTCAAATTGCACATTAAGTGCCATGTAT
1 ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATTACACACTAAGTGCCATATAT
* *
71195838 AGCCGAATCTATCTCGATCTCACACACTAAGTGCTATATATACCCGAATCTATCTCG
66 AGCCGAAGCTATCTCAATCTCACACACTAAGTGCTATATATACCCGAATCTATCTCG
* * **
71195895 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTTGATCTTACACACTAAGTGCCATATA
1 ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATC-TCAAATTACACACTAAGTGCCATATA
* * * *
71195960 TATCTGAAGCTATGTCAAAT-T-GCACACTAAGTGC
65 TAGCCGAAGCTATCTC-AATCTCACACACTAAGTGC
71195994 CACATATAGT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
122 48 0.58
123 33 0.40
124 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (122 bp):
ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATTACACACTAAGTGCCATATAT
AGCCGAAGCTATCTCAATCTCACACACTAAGTGCTATATATACCCGAATCTATCTCG
Found at i:71197698 original size:15 final size:15
Alignment explanation
Indices: 71197675--71197705 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
71197665 TAGAATTCAA
*
71197675 GCATGAAAGGAAGGG
1 GCATAAAAGGAAGGG
71197690 GCATAAAAGGAAGGG
1 GCATAAAAGGAAGGG
71197705 G
1 G
71197706 GAAGGGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.45, T:0.06
Consensus pattern (15 bp):
GCATAAAAGGAAGGG
Found at i:71202255 original size:22 final size:21
Alignment explanation
Indices: 71202230--71202284 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
71202220 ACAATAATTT
*
71202230 GATGAGAAATGGTAAGAATTGA
1 GATGAGAAATGGTAA-AAATGA
*
71202252 GATGAGAAGTGCGTAAAAATGA
1 GATGAGAAATG-GTAAAAATGA
*
71202274 GA-GAAAAATGG
1 GATGAGAAATGG
71202285 AGAAGCTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.04
21 6 0.21
22 17 0.61
23 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.33, T:0.18
Consensus pattern (21 bp):
GATGAGAAATGGTAAAAATGA
Found at i:71207943 original size:28 final size:30
Alignment explanation
Indices: 71207912--71207988 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
71207902 AATAAAAAAT
* *
71207912 TATTAAAATTTTATAAAAAA-TATT-TATA
1 TATTAAAATTTTATAAAAAATTATTAGAAA
71207940 TATTAAAAATTTT-TAAAAAATTATTAGAAA
1 TATT-AAAATTTTATAAAAAATTATTAGAAA
*
71207970 TATAAAAATTATTATAAAA
1 TATTAAAATT-TTATAAAA
71207989 TATAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 11 0.27
29 18 0.44
30 7 0.17
31 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (30 bp):
TATTAAAATTTTATAAAAAATTATTAGAAA
Found at i:71207983 original size:21 final size:19
Alignment explanation
Indices: 71207955--71207998 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
71207945 AAAATTTTTA
*
71207955 AAAAATTATTA-GAAATAT
1 AAAAATTATTATAAAATAT
71207973 AAAAATTATTATAAAATAT
1 AAAAATTATTATAAAATAT
71207992 AAAAATT
1 AAAAATT
71207999 TTAAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAATTATTATAAAATAT
Found at i:71207997 original size:19 final size:18
Alignment explanation
Indices: 71207955--71208003 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
71207945 AAAATTTTTA
*
71207955 AAAAATTATTAGAAATAT
1 AAAAATTATTAAAAATAT
71207973 AAAAATTATTATAAAATAT
1 AAAAATTATTA-AAAATAT
71207992 AAAAATT-TTAAA
1 AAAAATTATTAAA
71208004 GTTATTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 2 0.07
18 14 0.48
19 13 0.45
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAAATTATTAAAAATAT
Found at i:71211162 original size:45 final size:47
Alignment explanation
Indices: 71211113--71211214 Score: 111
Period size: 45 Copynumber: 2.2 Consensus size: 47
71211103 CTGGAGCTCT
* * *
71211113 CTGATAATA-ACTCTTCGGAGTTACCTATTAAGCTCA-ATGAGCTTC
1 CTGATAATAGACTCTTAGGAGTTACCTATTAAGCCCAGATAAGCTTC
* * * *
71211158 CTGAT-ATAGACTCTTATGAGTTTCCTGTTTAGCCCAGATAAGCTTC
1 CTGATAATAGACTCTTAGGAGTTACCTATTAAGCCCAGATAAGCTTC
71211204 CTGATACATAG
1 CTGATA-ATAG
71211215 CTCACATGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
44 3 0.07
45 26 0.57
46 13 0.28
48 4 0.09
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (47 bp):
CTGATAATAGACTCTTAGGAGTTACCTATTAAGCCCAGATAAGCTTC
Found at i:71211777 original size:23 final size:23
Alignment explanation
Indices: 71211747--71211803 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
71211737 CTTCAGCCGG
*
71211747 TTTTGGTATAAATAGAAAACTTA
1 TTTTGGTATAAATAGAAAACCTA
71211770 TTTTGGTATAAATAGAAAACCTA
1 TTTTGGTATAAATAGAAAACCTA
71211793 TTTTGGTATAA
1 TTTTGGTATAA
71211804 TGGCATGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.40
Consensus pattern (23 bp):
TTTTGGTATAAATAGAAAACCTA
Found at i:71223840 original size:27 final size:27
Alignment explanation
Indices: 71223809--71223986 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71223799 TAAATTGTAC
71223809 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
71223836 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71223862 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71223890 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71223918 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71223945 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71223972 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71223987 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71223923 original size:82 final size:81
Alignment explanation
Indices: 71223810--71223965 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71223800 AAATTGTACA
* *
71223810 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
71223874 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
71223891 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
71223956 TGCGAGTTGA
65 TGCGAATTGA
71223966 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71223977 original size:82 final size:81
Alignment explanation
Indices: 71223806--71223986 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
71223796 GATTAAATTG
* *
71223806 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71223871 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
71223887 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71223951 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
71223969 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71223987 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71228625 original size:27 final size:27
Alignment explanation
Indices: 71228594--71228771 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71228584 TAAATTGTAC
71228594 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
71228621 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71228647 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71228675 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71228703 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71228730 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71228757 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71228772 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71228708 original size:82 final size:81
Alignment explanation
Indices: 71228595--71228750 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71228585 AAATTGTACA
* *
71228595 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
71228659 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
71228676 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
71228741 TGCGAGTTGA
65 TGCGAATTGA
71228751 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71228762 original size:82 final size:81
Alignment explanation
Indices: 71228591--71228771 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
71228581 GATTAAATTG
* *
71228591 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71228656 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
71228672 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71228736 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
71228754 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71228772 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71240747 original size:25 final size:25
Alignment explanation
Indices: 71240719--71240774 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
71240709 TGCGAATAGA
71240719 ATATAGCTCA-GAAGAGCATTCC-GTT
1 ATATAGCTCATG-AGAGCA-TCCTGTT
* *
71240744 ATATAGTTCATGTGAGCATCCTGTT
1 ATATAGCTCATGAGAGCATCCTGTT
71240769 ATATAG
1 ATATAG
71240775 TTACTATGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 3 0.11
25 23 0.85
26 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (25 bp):
ATATAGCTCATGAGAGCATCCTGTT
Found at i:71240775 original size:25 final size:25
Alignment explanation
Indices: 71240732--71240791 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
71240722 TAGCTCAGAA
*
71240732 GAGCATTCC-GTTATATAGTT-CATGT
1 GAGCA-TCCTGTTATATAGTTAC-TAT
71240757 GAGCATCCTGTTATATAGTTACTAT
1 GAGCATCCTGTTATATAGTTACTAT
71240782 GAGCATCCTG
1 GAGCATCCTG
71240792 ATCAGTAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 3 0.09
25 28 0.88
26 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (25 bp):
GAGCATCCTGTTATATAGTTACTAT
Found at i:71247671 original size:22 final size:21
Alignment explanation
Indices: 71247633--71247683 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
71247623 TTATAAAATT
**
71247633 TATATTTTTTTAAAATTTTCC
1 TATATTTTTAAAAAATTTTCC
*
71247654 TATATTTTTAAAATAATTTTTC
1 TATATTTTTAAAA-AATTTTCC
71247676 TATATTTT
1 TATATTTT
71247684 ATAATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (21 bp):
TATATTTTTAAAAAATTTTCC
Found at i:71247689 original size:18 final size:17
Alignment explanation
Indices: 71247666--71247704 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
71247656 TATTTTTAAA
71247666 ATAATTTTTCTATATTTT
1 ATAATTTTT-TATATTTT
71247684 ATAATTTTTTATATTTT
1 ATAATTTTTTATATTTT
71247701 -TAAT
1 ATAAT
71247705 AGTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.19
17 8 0.38
18 9 0.43
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
ATAATTTTTTATATTTT
Found at i:71249215 original size:21 final size:21
Alignment explanation
Indices: 71249190--71249231 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
71249180 TTAACAGAAC
* *
71249190 AGCTGATGTGGCAAGTTAACT
1 AGCTGACGTAGCAAGTTAACT
*
71249211 AGCTGACGTAGCCAGTTAACT
1 AGCTGACGTAGCAAGTTAACT
71249232 TGCCACGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (21 bp):
AGCTGACGTAGCAAGTTAACT
Found at i:71249287 original size:12 final size:12
Alignment explanation
Indices: 71249272--71249296 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71249262 AACCTAAAAA
71249272 AACCCCTTTAAC
1 AACCCCTTTAAC
71249284 AACCCCTTTAAC
1 AACCCCTTTAAC
71249296 A
1 A
71249297 GAGAAGAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.24
Consensus pattern (12 bp):
AACCCCTTTAAC
Found at i:71254718 original size:38 final size:37
Alignment explanation
Indices: 71254676--71254827 Score: 136
Period size: 35 Copynumber: 4.2 Consensus size: 37
71254666 GGGTTGACAA
71254676 AGACCTAGT-TAAGGCCAACGTTTAAAAAAGGTTGGAAT
1 AGACCTAGTCTAAGG-CAAC-TTTAAAAAAGGTTGGAAT
* **
71254714 AGACCTA-TCTAAGGCAACCTT-AAAAAGGTTTAAAT
1 AGACCTAGTCTAAGGCAACTTTAAAAAAGGTTGGAAT
* *
71254749 AGACCTTGTCTAAGGCAACATTTAAAAAAGGTTGGTAT
1 AGACCTAGTCTAAGGCAAC-TTTAAAAAAGGTTGGAAT
* ** * *
71254787 AGAGCC-A-CCTAAGATAACCTT-AAAAAGGTTGGGAT
1 AGA-CCTAGTCTAAGGCAACTTTAAAAAAGGTTGGAAT
71254822 AGACCT
1 AGACCT
71254828 TTTTAAGGCA
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
34 2 0.02
35 34 0.36
36 15 0.16
37 15 0.16
38 26 0.28
39 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (37 bp):
AGACCTAGTCTAAGGCAACTTTAAAAAAGGTTGGAAT
Found at i:71254750 original size:35 final size:35
Alignment explanation
Indices: 71254700--71254922 Score: 154
Period size: 35 Copynumber: 6.3 Consensus size: 35
71254690 CCAACGTTTA
71254700 AAAAAGGTTG-GAATAGACCTATCTAAGGCAACCTT
1 AAAAAGGTTGAG-ATAGACCTATCTAAGGCAACCTT
* * * *
71254735 AAAAAGGTTTAAATAGACCTTGTCTAAGGCAACATTT
1 AAAAAGGTTGAGATAGACC-TATCTAAGGCAAC-CTT
* **
71254772 AAAAAAGGTTG-GTATAGAGCC-ACCTAAGATAACCTT
1 -AAAAAGGTTGAG-ATAGA-CCTATCTAAGGCAACCTT
* * * *
71254808 AAAAAGGTTGGGATAGACCTTTTTAAGGCACCCTAT
1 AAAAAGGTTGAGATAGACCTATCTAAGGCAACCT-T
* * * **
71254844 AAAAAAAGTTGAGATAG-GCTCATCTAAGGTAATATT
1 -AAAAAGGTTGAGATAGACCT-ATCTAAGGCAACCTT
*
71254880 AAAAAGGTTGAGATAGACCGT-T-TAAGGTAACCTT
1 AAAAAGGTTGAGATAGACC-TATCTAAGGCAACCTT
71254914 -AAAAGGTTG
1 AAAAAGGTTG
71254923 GGGTAAACAC
Statistics
Matches: 145, Mismatches: 30, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
33 9 0.06
34 12 0.08
35 55 0.38
36 20 0.14
37 33 0.23
38 14 0.10
39 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (35 bp):
AAAAAGGTTGAGATAGACCTATCTAAGGCAACCTT
Found at i:71254761 original size:36 final size:37
Alignment explanation
Indices: 71254667--71254898 Score: 126
Period size: 35 Copynumber: 6.4 Consensus size: 37
71254657 TTTATTGAAG
**
71254667 GGTTGACAA-AGACCTAGT-TAAGGCCAACGTTTAAAAAA
1 GGTTGA-AATAGACCTA-TCTAAGG-CAACACTTAAAAAA
*
71254705 GGTTGGAATAGACCTATCTAAGGCAAC-CTT-AAAAA
1 GGTTGAAATAGACCTATCTAAGGCAACACTTAAAAAA
* * *
71254740 GGTTTAAATAGACCTTGTCTAAGGCAACATTTAAAAAA
1 GGTTGAAATAGACC-TATCTAAGGCAACACTTAAAAAA
** * **
71254778 GGTTGGTATAGAGCC-ACCTAAGATAAC-CTT-AAAAA
1 GGTTGAAATAGA-CCTATCTAAGGCAACACTTAAAAAA
** * * *
71254813 GGTTGGGATAGACCTTTTTAAGGC-ACCCTATAAAAAA
1 GGTTGAAATAGACCTATCTAAGGCAACACT-TAAAAAA
* * * * *
71254850 AGTTGAGATAG-GCTCATCTAAGGTAATA-TT-AAAAA
1 GGTTGAAATAGACCT-ATCTAAGGCAACACTTAAAAAA
*
71254885 GGTTGAGATAGACC
1 GGTTGAAATAGACC
71254899 GTTTAAGGTA
Statistics
Matches: 151, Mismatches: 30, Indels: 28
0.72 0.14 0.13
Matches are distributed among these distances:
34 4 0.03
35 54 0.36
36 21 0.14
37 38 0.25
38 32 0.21
39 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (37 bp):
GGTTGAAATAGACCTATCTAAGGCAACACTTAAAAAA
Found at i:71254824 original size:73 final size:71
Alignment explanation
Indices: 71254667--71254906 Score: 234
Period size: 73 Copynumber: 3.3 Consensus size: 71
71254657 TTTATTGAAG
* * * * *
71254667 GGTTGACAAAGACCTAGTTAAGGCCAACGTTTAAAAAAGGTTGGAATAGA-CCTATCTAAGGCAA
1 GGTTGAGATAGACCTTGTTAAGG-CAACATTTAAAAAAGGTTGG-ATAGAGCC-ATCTAAGGTAA
71254731 CCTTAAAAA
63 CCTTAAAAA
* * * *
71254740 GGTTTAAATAGACCTTGTCTAAGGCAACATTTAAAAAAGGTTGGTATAGAGCCACCTAAGATAAC
1 GGTTGAGATAGACCTTGT-TAAGGCAACATTTAAAAAAGGTTGG-ATAGAGCCATCTAAGGTAAC
71254805 CTTAAAAA
64 CTTAAAAA
* * * * * * *
71254813 GGTTGGGATAGACCTTTTTAAGGCACCCTATAAAAAAAGTTGAGATAG-GCTCATCTAAGGTAAT
1 GGTTGAGATAGACCTTGTTAAGGCAACATTTAAAAAAGGTTG-GATAGAGC-CATCTAAGGTAAC
*
71254877 ATTAAAAA
64 CTTAAAAA
*
71254885 GGTTGAGATAGACCGT-TTAAGG
1 GGTTGAGATAGACCTTGTTAAGG
71254907 TAACCTTAAA
Statistics
Matches: 140, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
71 8 0.06
72 55 0.39
73 70 0.50
74 7 0.05
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (71 bp):
GGTTGAGATAGACCTTGTTAAGGCAACATTTAAAAAAGGTTGGATAGAGCCATCTAAGGTAACCT
TAAAAA
Found at i:71255051 original size:6 final size:6
Alignment explanation
Indices: 71255034--71255073 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
71255024 AATAAACTAA
*
71255034 AAAATAT AAAATT AAAATT AAAATT AAAATT AAAGTT AAA
1 AAAAT-T AAAATT AAAATT AAAATT AAAATT AAAATT AAA
71255074 TATTCACTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:71259256 original size:24 final size:23
Alignment explanation
Indices: 71259229--71259279 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
71259219 TGATAACAAT
* *
71259229 ATGCAGAAAATTCTGCCAGTAAGA
1 ATGCAGAAAA-GCTGCCAGTAAAA
*
71259253 ATGCAGACAAGCTGCCAGTAAAA
1 ATGCAGAAAAGCTGCCAGTAAAA
71259276 ATGC
1 ATGC
71259280 GATAAATCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.18
Consensus pattern (23 bp):
ATGCAGAAAAGCTGCCAGTAAAA
Found at i:71263598 original size:176 final size:176
Alignment explanation
Indices: 71263297--71264052 Score: 1034
Period size: 176 Copynumber: 4.3 Consensus size: 176
71263287 ATACATGGAG
* * * *
71263297 ATAAGATCTTCAATCTTCAGTCAGCTTCCTTGCTACATCAGGAATATAAGACTACAATCGCCAAC
1 ATAAAATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAAC
* * * *
71263362 CTGCTCTTTTGCTACCTCAGAGAGATAAGGTCAGTGGTAAAATCTGCTCTATTGCCGATACATGG
66 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGTAAAATCTGCTCCATTACCGATACATGG
* *
71263427 AGATAAGATTCACCATCTTTGATCTGCTCCCCTACTGCTTAAAGAT
131 AGATAAGATTCACCATCTTCGATCTGCTCCCCTACTGCTTAGAGAT
* *
71263473 ATAAAATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAATACTACAATCGCCAAC
1 ATAAAATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAAC
*
71263538 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGTAAAATCTGCTCCATTACCGATACATAG
66 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGTAAAATCTGCTCCATTACCGATACATGG
71263603 AGATAAGATTCACCATCTTCGATCTGCTCCCCTACTGCTTAGAGAT
131 AGATAAGATTCACCATCTTCGATCTGCTCCCCTACTGCTTAGAGAT
* * * * **
71263649 ATAGAATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTA-ATTCTTCAAC
1 ATAAAATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAAC
* * * *
71263713 ATGCTTTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTAAAATCTGCTCTATTACCGATACATGG
66 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGTAAAATCTGCTCCATTACCGATACATGG
* * *
71263778 AGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAA
131 AGATAAGATTCACCATCTTCGATCTGCTCCCCTACTGCTTAGAGAT
* * *
71263824 AT-AGATCTTAAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCACCAAC
1 ATAAAATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAAC
* * * **
71263888 CTGCTCTCTTGTTACCAT-AGAGAGATAAGGTCAGTGGCTAAAATATGCTCCATTGTCGATACAT
66 CTGCTCTCTTGCTACC-TCAGAGAGATAAGGCCAGTGG-TAAAATCTGCTCCATTACCGATACAT
* * ** * * *
71263952 GGAGATAAGATTCGCTATCTTCGATCTGCTCTGCTACTGCTTCGGGAG
129 GGAGATAAGATTCACCATCTTCGATCTGCTCCCCTACTGCTTAGAGAT
* * * * * *
71264000 ATAAGATTTTCAATCTTTAGTCTGC-TCCACTGCAACCTCAGGGAGATAAGACT
1 ATAAAATCTTCAATCTTCAGTCTGCTTCC-TTGCTACCTCAGGAAGATAAGACT
71264053 TGTATATTGA
Statistics
Matches: 519, Mismatches: 56, Indels: 9
0.89 0.10 0.02
Matches are distributed among these distances:
174 46 0.09
175 149 0.29
176 284 0.55
177 40 0.08
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (176 bp):
ATAAAATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAAC
CTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGTAAAATCTGCTCCATTACCGATACATGG
AGATAAGATTCACCATCTTCGATCTGCTCCCCTACTGCTTAGAGAT
Found at i:71263950 original size:351 final size:350
Alignment explanation
Indices: 71263294--71264229 Score: 1109
Period size: 351 Copynumber: 2.7 Consensus size: 350
71263284 CCAATACATG
* * * * * **
71263294 GAGATAAGATCTTCAATCTTCAGTCAGCTTCCTTGCTACATCAGGAATATAAGACTACAATCGCC
1 GAGATAAGATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTA-ATTCTTC
71263359 AACCTGCTCTT-TTGCTACCTCAGAGAGATAAGG-TCAGTGGTAAAATCTGCTCTATTGCCGATA
65 AACCTGCT-TTCTTGCTACCTCAGAGAGATAAGGCT-AGTGGTAAAATCTGCTCTATTGCCGATA
* ** * *
71263422 CATGGAGATAAGATTCACCATCTTTGATCTGCTCCCCTACTGCTTAAAGATATAAAATCTTCAAT
128 CATGGAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTTCAAT
* * *
71263487 TTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAATACTACAATCGCCAACCTGCTCTCTTGCTA
193 CTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCACCAACCTGCTCTCTTGCTA
*
71263552 CCTCAGAGAGATAAGGCCAGTGGTAAAATCTGCTCCATTACCGATACATAGAGATAAGATTCACC
258 CCTCAGAGAGATAAGGCCAGTGGTAAAATATGCTCCATTACCGATACATAGAGATAAGATTCACC
71263617 ATCTTCGATCTGCTCCCCTACTGCTT-A
323 ATCTTCGATCTGCTCCCCTACTGCTTCA
*
71263644 GAGATATAGAATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTAATTCTT
1 GAGATA-AG-ATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAATTCTT
* *
71263709 CAACATGCTTTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTAAAATCTGCTCTATTACCGATAC
64 CAACCTGCTTTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTAAAATCTGCTCTATTGCCGATAC
* *
71263774 ATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAAAT-AGATCTTAAATC
129 ATGGAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTTCAATC
*
71263838 TTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCACCAACCTGCTCTCTTGTTAC
194 TTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCACCAACCTGCTCTCTTGCTAC
* ** * *
71263903 CAT-AGAGAGATAAGGTCAGTGGCTAAAATATGCTCCATTGTCGATACATGGAGATAAGATTCGC
259 C-TCAGAGAGATAAGGCCAGTGG-TAAAATATGCTCCATTACCGATACATAGAGATAAGATTCAC
* ** *
71263967 TATCTTCGATCTGCTCTGCTACTGCTTCGG
322 CATCTTCGATCTGCTCCCCTACTGCTTC-A
* * * * ** *
71263997 GAGATAAGATTTTCAATCTTT-AGTCTGC-TCCACTGCAACCTCAGGGAGATAAGACTTGTATAT
1 GAGATAAGATCTTCAAT-TTTCAGTCTGCTTCC-TTGCTACCTCAGGAAGATAAGACTAAT-TCT
* * * * * * * * * * *
71264060 TGAGCCTGC-TCCACTGCAACTTTA-AGGAGATAAGGCTGGTGACTTAAATCTGCTCCATTGCCG
63 TCAACCTGCTTTC-TTGCTACCTCAGA-GAGATAAGGCTAGTG-GTAAAATCTGCTCTATTGCCG
* ** * ** * * *
71264123 ATACATGGAGATAAGACTCGTCGTCTTTGGCCTGTTCCACTACTGCTTAGGGAAATAAGACCTGC
125 ATACATGGAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTTC
* * * *
71264188 AATCTTCAGTCTAC-TCCACTGCAACCTCAGGGAGATAAGACT
190 AATCTTCAGTCTGCTTCC-TTGCTACCTCAGGAAGATAAGACT
71264230 TGTTATGATC
Statistics
Matches: 503, Mismatches: 67, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
350 101 0.20
351 210 0.42
352 79 0.16
353 74 0.15
354 39 0.08
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (350 bp):
GAGATAAGATCTTCAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAATTCTTCA
ACCTGCTTTCTTGCTACCTCAGAGAGATAAGGCTAGTGGTAAAATCTGCTCTATTGCCGATACAT
GGAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTTCAATCTT
CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCACCAACCTGCTCTCTTGCTACCT
CAGAGAGATAAGGCCAGTGGTAAAATATGCTCCATTACCGATACATAGAGATAAGATTCACCATC
TTCGATCTGCTCCCCTACTGCTTCA
Found at i:71264116 original size:177 final size:176
Alignment explanation
Indices: 71263297--71264232 Score: 761
Period size: 176 Copynumber: 5.3 Consensus size: 176
71263287 ATACATGGAG
* * * * * * *** *
71263297 ATAAGATCTTCAATCTTCAGTCAGCTTCC-TTGCTACATCAGGAATATAAGACTACAATCGCCAA
1 ATAAGATCTTCAATCTTCAGTCTGC-TCCACTGCAACCTCAGGGAGATAAGACTTGTATCACCAA
** * * *
71263361 CCTGCTCTTTTGCTACC-TCAGAGAGATAAGG-TCAGTGGTAAAATCTGCTCTATTGCCGATACA
65 CCTGCTCTCCTGCAACCAT-AGAGAGATAAGGCT-AGTGCTAAAATCTGCTCCATTGCCGATACA
* * * * ** *
71263424 TGGAGATAAGATTCACCATCTTTGATCTGCTCCCCTACTGCTTAAAGAT
128 TGGAGATAAGATTCGCTATCTTCGATCTGCTCCACTACTGCTTAGGGAA
* * * * * * *** *
71263473 ATAAAATCTTCAATTTTCAGTCTGCTTCC-TTGCTACCTCAGGAAGATAATACTACAATCGCCAA
1 ATAAGATCTTCAATCTTCAGTCTGC-TCCACTGCAACCTCAGGGAGATAAGACTTGTATCACCAA
* * * * *
71263537 CCTGCTCTCTTGCTACC-TCAGAGAGATAAGGCCAGTGGTAAAATCTGCTCCATTACCGATACAT
65 CCTGCTCTCCTGCAACCAT-AGAGAGATAAGGCTAGTGCTAAAATCTGCTCCATTGCCGATACAT
* * * * * *
71263601 AGAGATAAGATTCACCATCTTCGATCTGCTCCCCTACTGCTTAGAGAT
129 GGAGATAAGATTCGCTATCTTCGATCTGCTCCACTACTGCTTAGGGAA
* * * * * ** **
71263649 AT-AGAATCTTCAATTTTCAGTCTGCTTCC-TTGCTACCTCAAGAAGATAAGACTAAT-TCTTCA
1 ATAAG-ATCTTCAATCTTCAGTCTGC-TCCACTGCAACCTCAGGGAGATAAGACTTGTATCACCA
* * * * * * *
71263711 ACATGCTTTCTTGCTACC-TCAGAGAGATAAGGCTAGTGGTAAAATCTGCTCTATTACCGATACA
64 ACCTGCTCTCCTGCAACCAT-AGAGAGATAAGGCTAGTGCTAAAATCTGCTCCATTGCCGATACA
* *
71263775 TGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAA
128 TGGAGATAAGATTCGCTATCTTCGATCTGCTCCACTACTGCTTAGGGAA
* * * * ***
71263824 AT-AGATCTTAAATCTTCAGTCTGCTTCC-TTGCTACCTCAGGAAGATAAGACTACAATCACCAA
1 ATAAGATCTTCAATCTTCAGTCTGC-TCCACTGCAACCTCAGGGAGATAAGACTTGTATCACCAA
* ** * *
71263887 CCTGCTCTCTTGTTACCATAGAGAGATAAGG-TCAGTGGCTAAAATATGCTCCATTGTCGATACA
65 CCTGCTCTCCTGCAACCATAGAGAGATAAGGCT-AGT-GCTAAAATCTGCTCCATTGCCGATACA
** * *
71263951 TGGAGATAAGATTCGCTATCTTCGATCTGCTCTGCTACTGCTTCGGGAG
128 TGGAGATAAGATTCGCTATCTTCGATCTGCTCCACTACTGCTTAGGGAA
* * ** *
71264000 ATAAGATTTTCAATCTTTAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTAT-ATTGAG
1 ATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCA-CCAA
** * *
71264064 CCTGCTC-CACTGCAACTTTA-AGGAGATAAGGCTGGTGACTTAAATCTGCTCCATTGCCGATAC
65 CCTGCTCTC-CTGCAACCATAGA-GAGATAAGGCTAGTG-CTAAAATCTGCTCCATTGCCGATAC
* * * ** *
71264127 ATGGAGATAAGACTCG-TCGTCTTTGGCCTGTTCCACTACTGCTTAGGGAA
127 ATGGAGATAAGATTCGCT-ATCTTCGATCTGCTCCACTACTGCTTAGGGAA
* * *
71264177 ATAAGACCTGCAATCTTCAGTCTACTCCACTGCAACCTCAGGGAGATAAGACTTGT
1 ATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGT
71264233 TATGATCTGC
Statistics
Matches: 661, Mismatches: 85, Indels: 27
0.86 0.11 0.03
Matches are distributed among these distances:
174 47 0.07
175 148 0.22
176 287 0.43
177 178 0.27
178 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (176 bp):
ATAAGATCTTCAATCTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATCACCAAC
CTGCTCTCCTGCAACCATAGAGAGATAAGGCTAGTGCTAAAATCTGCTCCATTGCCGATACATGG
AGATAAGATTCGCTATCTTCGATCTGCTCCACTACTGCTTAGGGAA
Found at i:71264508 original size:64 final size:64
Alignment explanation
Indices: 71264407--71264598 Score: 303
Period size: 64 Copynumber: 3.0 Consensus size: 64
71264397 TTCATGTATC
* * *
71264407 ATGCTTATGCCAAATAATTAGGATGTTATGATCAAAATAAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
*
71264471 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * ** *
71264535 ATGTTTATGTCCAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTGGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
71264599 TTATGAATGA
Statistics
Matches: 118, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 118 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:71265780 original size:14 final size:12
Alignment explanation
Indices: 71265735--71265784 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 12
71265725 CTTTCTTCTC
71265735 TTTTTTTTATTT
1 TTTTTTTTATTT
71265747 TTTCTTTTTATTTCT
1 TTT-TTTTTA-TT-T
71265762 TTTTTTTTATTT
1 TTTTTTTTATTT
71265774 TGATTTTTTTA
1 T--TTTTTTTA
71265785 AAAAGTCTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.15
13 8 0.24
14 16 0.48
15 4 0.12
ACGTcount: A:0.10, C:0.04, G:0.02, T:0.84
Consensus pattern (12 bp):
TTTTTTTTATTT
Found at i:71265780 original size:26 final size:28
Alignment explanation
Indices: 71265730--71265781 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
71265720 TGATTCTTTC
**
71265730 TTCTCTTTTTTTTATTTTTTCTTTTTAT
1 TTCTCTTTTTTTTATTTTTGATTTTTAT
71265758 TTCT-TTTTTTTTA-TTTTGATTTTT
1 TTCTCTTTTTTTTATTTTTGATTTTT
71265782 TTAAAAAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 9 0.41
28 4 0.18
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.83
Consensus pattern (28 bp):
TTCTCTTTTTTTTATTTTTGATTTTTAT
Found at i:71265781 original size:27 final size:28
Alignment explanation
Indices: 71265730--71265784 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
71265720 TGATTCTTTC
*
71265730 TTCTCTTTTTTTTATTTTTTCTTTTTAT
1 TTCTCTTTTTTTTATTTTATCTTTTTAT
*
71265758 TTCT-TTTTTTTTATTTTGATTTTTTTA
1 TTCTCTTTTTTTTATTTT-ATCTTTTTA
71265785 AAAAGTCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.82
Consensus pattern (28 bp):
TTCTCTTTTTTTTATTTTATCTTTTTAT
Found at i:71267292 original size:40 final size:40
Alignment explanation
Indices: 71267217--71267347 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 40
71267207 TCTTCAGAAT
* * * *
71267217 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAAGCACTAGCACAAATGCCTTCGGGTC
* * * *
71267256 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAAGC-ACTAGCACAAATGCCTTCGGGTC
* * *
71267296 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAAGCACTAGCACAAATGCCTTCGGGTC
71267336 TTAGCCCGGATA
1 TTAGCCCGGATA
71267348 TCATTCAAAT
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
39 5 0.07
40 66 0.89
41 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAAGCACTAGCACAAATGCCTTCGGGTC
Found at i:71276715 original size:28 final size:29
Alignment explanation
Indices: 71276679--71276740 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
71276669 TCACTATGAC
* *
71276679 CTTTGTTCTATTGTT-TGCTTTTCCTTTT
1 CTTTTTTCTATTGTTATACTTTTCCTTTT
**
71276707 CTTTTTTCTATTGTTATACTTTTGTTTTT
1 CTTTTTTCTATTGTTATACTTTTCCTTTT
71276736 CTTTT
1 CTTTT
71276741 CGGCTGCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.06, C:0.15, G:0.08, T:0.71
Consensus pattern (29 bp):
CTTTTTTCTATTGTTATACTTTTCCTTTT
Found at i:71281288 original size:32 final size:33
Alignment explanation
Indices: 71281232--71281298 Score: 100
Period size: 32 Copynumber: 2.0 Consensus size: 33
71281222 ATATATATAC
**
71281232 AATAAAGATAATTTTTTTTTAAAAAAAACTTAAA
1 AATAAAGATAA-TTTTTTAAAAAAAAAACTTAAA
71281266 AATAAAGATAA-TTTTTAAAAAAAAAACTTAAA
1 AATAAAGATAATTTTTTAAAAAAAAAACTTAAA
71281298 A
1 A
71281299 TATGAGAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 20 0.65
34 11 0.35
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (33 bp):
AATAAAGATAATTTTTTAAAAAAAAAACTTAAA
Found at i:71283258 original size:14 final size:14
Alignment explanation
Indices: 71283239--71283294 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
71283229 GGACTTTTAA
71283239 ATTATTTTGGTTTT
1 ATTATTTTGGTTTT
*
71283253 ATTATTTT-ATTATT
1 ATTATTTTGGTT-TT
* *
71283267 TTTATTTTTTGTTTT
1 ATTA-TTTTGGTTTT
71283282 ATT-TTTTGGTTTT
1 ATTATTTTGGTTTT
71283295 GGTTTTGGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
13 11 0.32
14 13 0.38
15 8 0.24
16 2 0.06
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (14 bp):
ATTATTTTGGTTTT
Found at i:71283271 original size:17 final size:18
Alignment explanation
Indices: 71283249--71283287 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
71283239 ATTATTTTGG
71283249 TTTTATTATTT-TATTAT
1 TTTTATTATTTGTATTAT
* *
71283266 TTTTATTTTTTGTTTTAT
1 TTTTATTATTTGTATTAT
71283284 TTTT
1 TTTT
71283288 TGGTTTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTATTATTTGTATTAT
Found at i:71283283 original size:12 final size:13
Alignment explanation
Indices: 71283266--71283294 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
71283256 ATTTTATTAT
71283266 TTTTATTTTTT-G
1 TTTTATTTTTTGG
71283278 TTTTATTTTTTGG
1 TTTTATTTTTTGG
71283291 TTTT
1 TTTT
71283295 GGTTTTGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTTGG
Found at i:71284911 original size:18 final size:17
Alignment explanation
Indices: 71284884--71284917 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
71284874 TAATTCAGTC
*
71284884 TTTTATTTCATTATTTT
1 TTTTATTTCAGTATTTT
71284901 TTTTCATTTCAGTATTT
1 TTTT-ATTTCAGTATTT
71284918 CTCTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTATTTCAGTATTTT
Found at i:71314628 original size:21 final size:20
Alignment explanation
Indices: 71314604--71314655 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
71314594 TAATTATTAT
71314604 TTAAATTAAAATCAAATTAAA
1 TTAAATTAAAA-CAAATTAAA
* *
71314625 TTAATTTTAAAACGAATTAAA
1 TTAA-ATTAAAACAAATTAAA
*
71314646 TTTAATTAAA
1 TTAAATTAAA
71314656 TGTTGGAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 5 0.19
21 15 0.58
22 6 0.23
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAAATTAAAACAAATTAAA
Found at i:71314650 original size:22 final size:22
Alignment explanation
Indices: 71314609--71314652 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
71314599 ATTATTTAAA
71314609 TTAAAATCAAATTAAATTAATT
1 TTAAAATCAAATTAAATTAATT
*
71314631 TTAAAA-CGAATTAAATTTAATT
1 TTAAAATCAAATTAAA-TTAATT
71314653 AAATGTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (22 bp):
TTAAAATCAAATTAAATTAATT
Found at i:71315242 original size:5 final size:5
Alignment explanation
Indices: 71315232--71315263 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
71315222 TTATATAGAG
*
71315232 CCCTC CCCTC CCCTC CCCTC CCCTC CTCTC CC
1 CCCTC CCCTC CCCTC CCCTC CCCTC CCCTC CC
71315264 TCAAACTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.78, G:0.00, T:0.22
Consensus pattern (5 bp):
CCCTC
Found at i:71316811 original size:24 final size:24
Alignment explanation
Indices: 71316742--71316812 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
71316732 TATTTATTTT
*
71316742 AATTTAAA-ATATTATATTTATATAA
1 AATTTAAATA-ATTAGA-TTATATAA
*
71316767 AATTT-TATAATTCAGATTATATAA
1 AATTTAAATAATT-AGATTATATAA
71316791 AATTTAAATAATTA-ATATATAT
1 AATTTAAATAATTAGAT-TATAT
71316813 TCAAATTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 2 0.05
24 23 0.59
25 14 0.36
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (24 bp):
AATTTAAATAATTAGATTATATAA
Found at i:71330582 original size:28 final size:28
Alignment explanation
Indices: 71330519--71330616 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
71330509 ATATTAAGTC
*
71330519 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
71330546 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
71330574 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
71330603 CGCACACTTAGTGC
1 CGCACACTTAGTGC
71330617 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:71348070 original size:28 final size:28
Alignment explanation
Indices: 71348011--71348075 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
71348001 GTTGGCAGCA
*
71348011 AGAAGGAGAAAAAGAAATCAACAGAGAGT
1 AGAAGGA-AAAAAGAAAACAACAGAGAGT
71348040 AGAAGGAAAAAGGAGAAAACAACA-AG-GT
1 AGAAGGAAAAA--AGAAAACAACAGAGAGT
71348068 AGAAGGAA
1 AGAAGGAA
71348076 GAGAACGTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 14 0.42
29 9 0.27
30 10 0.30
ACGTcount: A:0.60, C:0.06, G:0.29, T:0.05
Consensus pattern (28 bp):
AGAAGGAAAAAAGAAAACAACAGAGAGT
Found at i:71361199 original size:29 final size:30
Alignment explanation
Indices: 71361157--71361235 Score: 115
Period size: 29 Copynumber: 2.7 Consensus size: 30
71361147 GGTATGTGTA
* *
71361157 TATATACAATATATATGCATGGGTTTTG-T
1 TATATATAATATATATGCATGGGTCTTGAT
**
71361186 TATATATAATATATATGTGTGGGTCTTGAT
1 TATATATAATATATATGCATGGGTCTTGAT
71361216 TATATATAATATATATGCAT
1 TATATATAATATATATGCAT
71361236 ATATGGGTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 24 0.56
30 19 0.44
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (30 bp):
TATATATAATATATATGCATGGGTCTTGAT
Found at i:71361572 original size:18 final size:18
Alignment explanation
Indices: 71361513--71361575 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
71361503 CTTGGCTAAT
* *
71361513 TATATTATTATGGCGAAC
1 TATATTAATATGGTGAAC
* * **
71361531 TATGTTAATTTGGTGATT
1 TATATTAATATGGTGAAC
*
71361549 TGTATTAATATGGTGAAC
1 TATATTAATATGGTGAAC
71361567 TATATTAAT
1 TATATTAAT
71361576 TTGCTAACTT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (18 bp):
TATATTAATATGGTGAAC
Found at i:71362271 original size:17 final size:17
Alignment explanation
Indices: 71362206--71362271 Score: 87
Period size: 17 Copynumber: 3.9 Consensus size: 17
71362196 TGATGTTGTA
*
71362206 TGAATGAATTATTATAT
1 TGAATGAACTATTATAT
*
71362223 TGAATGAACTGTTATAT
1 TGAATGAACTATTATAT
* *
71362240 TGTATGAACTTTTATAT
1 TGAATGAACTATTATAT
*
71362257 TGAATGATCTATTAT
1 TGAATGAACTATTAT
71362272 TATGCATGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (17 bp):
TGAATGAACTATTATAT
Found at i:71362281 original size:34 final size:33
Alignment explanation
Indices: 71362204--71362288 Score: 91
Period size: 34 Copynumber: 2.5 Consensus size: 33
71362194 TATGATGTTG
*
71362204 TATGAATGAATTATTATATTGAATGAACTGTTA
1 TATGAATGAATTATTATATTGAATGAACTATTA
* *
71362237 TATTGTATGAACTT-TTATATTGAATGATCTATTA
1 TA-TGAATGAA-TTATTATATTGAATGAACTATTA
* *
71362271 TTATGCATGAATTGTTAT
1 -TATGAATGAATTATTAT
71362289 TTTATGTGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
33 4 0.09
34 36 0.82
35 4 0.09
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (33 bp):
TATGAATGAATTATTATATTGAATGAACTATTA
Found at i:71365004 original size:34 final size:34
Alignment explanation
Indices: 71364966--71365037 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
71364956 ATATATTATT
71364966 TAATTTTTT-ATTGTTTAGTTA-AAATTATAGAATA
1 TAATTTTTTAATTGTTTAGTTAGAAATT-TA-AATA
* *
71365000 TAATTTTTTAATTTTTTAGTTAGACATTTAAATA
1 TAATTTTTTAATTGTTTAGTTAGAAATTTAAATA
71365034 TAAT
1 TAAT
71365038 AATAACATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 17 0.50
35 13 0.38
36 4 0.12
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (34 bp):
TAATTTTTTAATTGTTTAGTTAGAAATTTAAATA
Found at i:71380297 original size:21 final size:20
Alignment explanation
Indices: 71380273--71380315 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
71380263 AAACTTGTAT
*
71380273 ATCTATCAACAAGCATTCAAA
1 ATCTATCAACAACCA-TCAAA
*
71380294 ATCTATCATCAACCATCAAA
1 ATCTATCAACAACCATCAAA
71380314 AT
1 AT
71380316 ACATGCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (20 bp):
ATCTATCAACAACCATCAAA
Found at i:71386673 original size:22 final size:21
Alignment explanation
Indices: 71386643--71386708 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
71386633 TACAAATTAA
71386643 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
71386665 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
71386686 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
71386705 ATCT
1 ATCT
71386709 AAGATTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:71386695 original size:19 final size:19
Alignment explanation
Indices: 71386660--71386721 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
71386650 AGATTACAAG
71386660 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
71386681 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
71386700 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
71386719 ATC
1 ATC
71386722 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
20 1 0.02
21 8 0.20
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:71388289 original size:16 final size:17
Alignment explanation
Indices: 71388255--71388289 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
71388245 TGGGCTTGTA
71388255 TTTTGTAAATGGACTTT
1 TTTTGTAAATGGACTTT
* *
71388272 TTTTTTAAATGTACTTT
1 TTTTGTAAATGGACTTT
71388289 T
1 T
71388290 ATTAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (17 bp):
TTTTGTAAATGGACTTT
Done.