Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 193 of 362
Found at i:64578439 original size:93 final size:94
Alignment explanation
Indices: 64578340--64578521 Score: 215
Period size: 94 Copynumber: 1.9 Consensus size: 94
64578330 TGAATTTATT
*
64578340 TAAGTGCCTTAAGAGACTAGAAGCAGTTCTTATATTAAA-TTAGCAAGCAA-TCTCCTTTTGAGG
1 TAAGTGCCTTAAGAGACTAGAAGCAGTTCTTATATTAAACTTAGCAAG-AAGTCTCCTCTTGAGG
* * *
64578403 TGTTTGCTTTGTAACTATGCAAAATAAAGC
65 TGTTTACCTTATAACTATGCAAAATAAAGC
* * * ** * ** *
64578433 TAAGTGCCTTATGAGGCTATAAGTGGTTCTTCTATTAAACTTAGTGAGAAGTCTCCTCTTGGGGT
1 TAAGTGCCTTAAGAGACTAGAAGCAGTTCTTATATTAAACTTAGCAAGAAGTCTCCTCTTGAGGT
*
64578498 GTTTACCTTATAACTTTGCAAAAT
66 GTTTACCTTATAACTATGCAAAAT
64578522 GACATGTCGT
Statistics
Matches: 73, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
93 35 0.48
94 38 0.52
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (94 bp):
TAAGTGCCTTAAGAGACTAGAAGCAGTTCTTATATTAAACTTAGCAAGAAGTCTCCTCTTGAGGT
GTTTACCTTATAACTATGCAAAATAAAGC
Found at i:64581476 original size:93 final size:93
Alignment explanation
Indices: 64581362--64581533 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
64581352 CGCCCATAAG
* * *
64581362 CGAACTCGGACTCTACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64581427 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
64581455 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64581520 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
64581534 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:64581530 original size:46 final size:46
Alignment explanation
Indices: 64581355--64581530 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
64581345 TGTAACCCGC
* * * *
64581355 CCATAAGCGAACTCGGACTCTACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
64581401 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
64581451 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
64581494 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
64581531 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:64581549 original size:46 final size:46
Alignment explanation
Indices: 64581404--64581542 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
64581394 TTCGCATCCA
64581404 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
64581452 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
64581497 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
64581543 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:64593827 original size:30 final size:28
Alignment explanation
Indices: 64593771--64593825 Score: 85
Period size: 30 Copynumber: 1.9 Consensus size: 28
64593761 TTTACGAGCC
64593771 TAGGGGAAAATGTAATTTTGACAAAATT
1 TAGGGGAAAATGTAATTTTGACAAAATT
64593799 TAGGGGCAAAATTGTAATTTTG-CAAAA
1 TAGGGG-AAAA-TGTAATTTTGACAAAA
64593826 ATATGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 6 0.24
29 9 0.36
30 10 0.40
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (28 bp):
TAGGGGAAAATGTAATTTTGACAAAATT
Found at i:64598588 original size:43 final size:43
Alignment explanation
Indices: 64598480--64598640 Score: 137
Period size: 43 Copynumber: 3.8 Consensus size: 43
64598470 AGCTCGCACA
* * * *
64598480 ATGCC-ATATCTCAGATATGGTCTTACATGTTATCAT-ATATCG
1 ATGCCAATGTCTCAGACATGGTCTTACACGTAATCATAATA-CG
* * * * * * *
64598522 ATGCTACTGTCCCAAATAGGGTCTTACACGAAATCATAATACG
1 ATGCCAATGTCTCAGACATGGTCTTACACGTAATCATAATACG
* * *
64598565 ATGCCAATGTCTCAGACATGGTCTTACACGTACTCACAATACA
1 ATGCCAATGTCTCAGACATGGTCTTACACGTAATCATAATACG
* * * *
64598608 ATGCAAATGCCTCAGGCATGGTCTTACATGTAA
1 ATGCCAATGTCTCAGACATGGTCTTACACGTAA
64598641 CATGGTCTTA
Statistics
Matches: 93, Mismatches: 24, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
42 4 0.04
43 86 0.92
44 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCTCAGACATGGTCTTACACGTAATCATAATACG
Found at i:64598646 original size:17 final size:17
Alignment explanation
Indices: 64598624--64598657 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
64598614 ATGCCTCAGG
64598624 CATGGTCTTACATGTAA
1 CATGGTCTTACATGTAA
64598641 CATGGTCTTACATGTAA
1 CATGGTCTTACATGTAA
64598658 TCACATCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (17 bp):
CATGGTCTTACATGTAA
Found at i:64603123 original size:23 final size:23
Alignment explanation
Indices: 64603097--64603145 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
64603087 TGCAGTCATA
64603097 GGTGCTTTAGATCTCAGTGTGGT
1 GGTGCTTTAGATCTCAGTGTGGT
*
64603120 GGTGCTTTAGATCTTAGTGTGGT
1 GGTGCTTTAGATCTCAGTGTGGT
64603143 GGT
1 GGT
64603146 ATTGGTAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.10, G:0.37, T:0.41
Consensus pattern (23 bp):
GGTGCTTTAGATCTCAGTGTGGT
Found at i:64608410 original size:40 final size:40
Alignment explanation
Indices: 64608355--64608565 Score: 212
Period size: 40 Copynumber: 5.3 Consensus size: 40
64608345 ATTTGAATGA
*
64608355 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
64608395 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * * * *
64608435 TATCCAGGCTAAGACCTGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * *
64608475 TATCCGGCCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
64608515 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
64608555 TATCC-GGCTAA
1 TATCCGGGCTAA
64608566 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 7 0.05
40 140 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:64621996 original size:31 final size:31
Alignment explanation
Indices: 64621954--64622019 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
64621944 TTTATAGCTA
*
64621954 TTTAATTAGATAATTATTATTTA-TTTAATAT
1 TTTAATAAGATAATTATTA-TTAGTTTAATAT
* *
64621985 TTTAATAAGATATTTATTATTAGTTTATTAT
1 TTTAATAAGATAATTATTATTAGTTTAATAT
64622016 TTTA
1 TTTA
64622020 TTTAGTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTAGTTTAATAT
Found at i:64625187 original size:30 final size:29
Alignment explanation
Indices: 64625153--64625213 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
64625143 AAACGGAAGT
64625153 TTTGGCACTAAGTGTGAGATTTAAACTAGC
1 TTTGGCACTAAGTGTGAGATTT-AACTAGC
* *
64625183 TTTGGCACTAAGTGTGCGATTTACCTAGC
1 TTTGGCACTAAGTGTGAGATTTAACTAGC
64625212 TT
1 TT
64625214 CGGCTACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGAGATTTAACTAGC
Found at i:64636203 original size:25 final size:25
Alignment explanation
Indices: 64636175--64636248 Score: 112
Period size: 25 Copynumber: 3.0 Consensus size: 25
64636165 CTTCCTGTAA
64636175 CAACCAAAAACAACAAATATAAATC
1 CAACCAAAAACAACAAATATAAATC
* * *
64636200 CAACCAAAGACAACAAATACATATC
1 CAACCAAAAACAACAAATATAAATC
*
64636225 CAACCAAAAACAACAAATCTAAAT
1 CAACCAAAAACAACAAATATAAAT
64636249 GATACTTCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.61, C:0.26, G:0.01, T:0.12
Consensus pattern (25 bp):
CAACCAAAAACAACAAATATAAATC
Found at i:64637031 original size:9 final size:9
Alignment explanation
Indices: 64637017--64637184 Score: 112
Period size: 9 Copynumber: 18.9 Consensus size: 9
64637007 TATGTATTAC
64637017 GTAAGTTAT
1 GTAAGTTAT
64637026 GTAAGTTAT
1 GTAAGTTAT
* * *
64637035 AATATGATAT
1 -GTAAGTTAT
* *
64637045 AT-ATTTAT
1 GTAAGTTAT
*
64637053 GTACGTTAT
1 GTAAGTTAT
64637062 GTAAGTTAT
1 GTAAGTTAT
* *
64637071 ATAACTTAT
1 GTAAGTTAT
64637080 GTAAGTTAT
1 GTAAGTTAT
* *
64637089 GATATGATAT
1 G-TAAGTTAT
* *
64637099 -TTATTTAT
1 GTAAGTTAT
64637107 GT-A-TTAT
1 GTAAGTTAT
64637114 GTAAGTTAT
1 GTAAGTTAT
64637123 GTAAGTTAT
1 GTAAGTTAT
* *
64637132 GATATGATAT
1 G-TAAGTTAT
* *
64637142 AT-ATTTAT
1 GTAAGTTAT
64637150 GTAAGTTAT
1 GTAAGTTAT
*
64637159 GTAACTTAT
1 GTAAGTTAT
*
64637168 GTAACTTAT
1 GTAAGTTAT
64637177 GTAAGTTA
1 GTAAGTTA
64637185 CGATTATCAT
Statistics
Matches: 121, Mismatches: 30, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
7 6 0.05
8 14 0.12
9 83 0.69
10 18 0.15
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:64637048 original size:43 final size:44
Alignment explanation
Indices: 64636999--64637177 Score: 200
Period size: 43 Copynumber: 3.9 Consensus size: 44
64636989 TTTTTATAAG
* *
64636999 TATATATTTATGTA-TTACGTAAGTTATGTAAGTTATAATATGA
1 TATATATTTATGTAGTTATGTAAGTTATGTAAGTTATGATATGA
64637042 TATATATTTATGTACGTTATGTAAGTTATATAACTTATGTAAGTTATGATATGA
1 TATATATTTATGTA-GTTATGTAAG---------TTATGTAAGTTATGATATGA
*
64637096 TATTTATTTATGTA-TTATGTAAGTTATGTAAGTTATGATATGA
1 TATATATTTATGTAGTTATGTAAGTTATGTAAGTTATGATATGA
* *
64637139 TATATATTTATGTAAGTTATGTAACTTATGTAACTTATG
1 TATATATTTATGT-AGTTATGTAAGTTATGTAAGTTATG
64637178 TAAGTTACGA
Statistics
Matches: 117, Mismatches: 6, Indels: 24
0.80 0.04 0.16
Matches are distributed among these distances:
43 46 0.39
44 1 0.01
45 29 0.25
52 9 0.08
54 32 0.27
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.48
Consensus pattern (44 bp):
TATATATTTATGTAGTTATGTAAGTTATGTAAGTTATGATATGA
Found at i:64637062 original size:36 final size:34
Alignment explanation
Indices: 64636995--64637167 Score: 132
Period size: 36 Copynumber: 5.2 Consensus size: 34
64636985 TGTTTTTTTA
* * *
64636995 TAAG-TATATATTTATGTA-TTACGTAAGTTATG
1 TAAGTTATATATATATATATTTATGTAAGTTATG
*
64637027 TAAGTTATAATATGATATATATTTATGTACGTTATG
1 TAAGTTAT-ATAT-ATATATATTTATGTAAGTTATG
*
64637063 TAAG-----T-TATATA-ACTTATGTAAGTTATG
1 TAAGTTATATATATATATATTTATGTAAGTTATG
* * * * *
64637090 ATATGATATTTATTTATGTA-TTATGTAAGTTATG
1 -TAAGTTATATATATATATATTTATGTAAGTTATG
64637124 TAAGTTATGATATGATATATATTTATGTAAGTTATG
1 TAAGTTAT-ATAT-ATATATATTTATGTAAGTTATG
*
64637160 TAACTTAT
1 TAAGTTAT
64637168 GTAACTTATG
Statistics
Matches: 111, Mismatches: 15, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
27 14 0.13
28 8 0.07
29 1 0.01
30 1 0.01
32 4 0.04
33 10 0.09
34 25 0.23
35 11 0.10
36 37 0.33
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.48
Consensus pattern (34 bp):
TAAGTTATATATATATATATTTATGTAAGTTATG
Found at i:64637082 original size:54 final size:52
Alignment explanation
Indices: 64637022--64637184 Score: 200
Period size: 54 Copynumber: 3.2 Consensus size: 52
64637012 ATTACGTAAG
*
64637022 TTATGTAAGTTATAATATGATATATATTTATGTACGTTATGTAAGTTATATAAC
1 TTATGTAAGTTATGATATGATATATATTTATGTA-GTTATGTAAGTTAT-TAAC
*
64637076 TTATGTAAGTTATGATATGATATTTATTTATGTA-TTATGTAAG--------
1 TTATGTAAGTTATGATATGATATATATTTATGTAGTTATGTAAGTTATTAAC
*
64637119 TTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAACTTATGTAAC
1 TTATGTAAGTTATGATATGATATATATTTATGT-AGTTATGTAAGTTAT-TAAC
64637173 TTATGTAAGTTA
1 TTATGTAAGTTA
64637185 CGATTATCAT
Statistics
Matches: 94, Mismatches: 4, Indels: 22
0.78 0.03 0.18
Matches are distributed among these distances:
43 32 0.34
44 1 0.01
45 8 0.09
52 9 0.10
54 44 0.47
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (52 bp):
TTATGTAAGTTATGATATGATATATATTTATGTAGTTATGTAAGTTATTAAC
Found at i:64637130 original size:97 final size:98
Alignment explanation
Indices: 64637003--64637199 Score: 324
Period size: 97 Copynumber: 2.0 Consensus size: 98
64636993 TATAAGTATA
* *
64637003 TATTTATGTATTACGTAAGTTATGTAAGTTATAATATGATATATATTTATGTACGTTATGTAAGT
1 TATTTATGTATTACGTAAGTTATGTAAGTTATAATATGATATATATTTATGTAAGTTATGTAACT
* *
64637068 TATATAACTTATGTAAGTTATGA-TATGATATT
66 TATATAACTTATGTAAGTTACGATTATCATATT
* *
64637100 TATTTATGTATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAACT
1 TATTTATGTATTACGTAAGTTATGTAAGTTATAATATGATATATATTTATGTAAGTTATGTAACT
*
64637165 TATGTAACTTATGTAAGTTACGATTATCATATT
66 TATATAACTTATGTAAGTTACGATTATCATATT
64637198 TA
1 TA
64637200 ATTTTTAAAT
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
97 82 0.89
98 10 0.11
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.48
Consensus pattern (98 bp):
TATTTATGTATTACGTAAGTTATGTAAGTTATAATATGATATATATTTATGTAAGTTATGTAACT
TATATAACTTATGTAAGTTACGATTATCATATT
Found at i:64641080 original size:8 final size:8
Alignment explanation
Indices: 64641069--64641096 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
64641059 GTACTTTAGA
64641069 TTTAAAGG
1 TTTAAAGG
64641077 TTTAAAGG
1 TTTAAAGG
64641085 TTTAAAGG
1 TTTAAAGG
64641093 TTTA
1 TTTA
64641097 GTGTCTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (8 bp):
TTTAAAGG
Found at i:64641145 original size:7 final size:7
Alignment explanation
Indices: 64641135--64641198 Score: 65
Period size: 7 Copynumber: 9.1 Consensus size: 7
64641125 AGGATTTAAT
64641135 GTTTAGG
1 GTTTAGG
64641142 GTTTAGG
1 GTTTAGG
* *
64641149 GCTTAGA
1 GTTTAGG
**
64641156 GTTTAAA
1 GTTTAGG
64641163 GTTTAGG
1 GTTTAGG
* *
64641170 GTTCAGA
1 GTTTAGG
64641177 GTTTAGG
1 GTTTAGG
*
64641184 GTTTAAG
1 GTTTAGG
64641191 GTTTAGG
1 GTTTAGG
64641198 G
1 G
64641199 ATACAAAATT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.22, C:0.03, G:0.36, T:0.39
Consensus pattern (7 bp):
GTTTAGG
Found at i:64641154 original size:14 final size:14
Alignment explanation
Indices: 64641122--64641198 Score: 73
Period size: 14 Copynumber: 5.5 Consensus size: 14
64641112 GGTTTTATTC
* *
64641122 TTTAGGATTTAATG
1 TTTAGGGTTTAAAG
**
64641136 TTTAGGGTTTAGGG
1 TTTAGGGTTTAAAG
* *
64641150 CTTAGAGTTTAAAG
1 TTTAGGGTTTAAAG
* *
64641164 TTTAGGGTTCAGAG
1 TTTAGGGTTTAAAG
*
64641178 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAAG
64641192 TTTAGGG
1 TTTAGGG
64641199 ATACAAAATT
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 49 1.00
ACGTcount: A:0.23, C:0.03, G:0.32, T:0.42
Consensus pattern (14 bp):
TTTAGGGTTTAAAG
Found at i:64641159 original size:21 final size:21
Alignment explanation
Indices: 64641135--64641193 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
64641125 AGGATTTAAT
64641135 GTTTAGGGTTTAGGGCTT-AGA
1 GTTTAGGGTTTAGGG-TTCAGA
**
64641156 GTTTAAAGTTTAGGGTTCAGA
1 GTTTAGGGTTTAGGGTTCAGA
*
64641177 GTTTAGGGTTTAAGGTT
1 GTTTAGGGTTTAGGGTT
64641194 TAGGGATACA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 2 0.06
21 30 0.94
ACGTcount: A:0.22, C:0.03, G:0.34, T:0.41
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGTTCAGA
Found at i:64641160 original size:28 final size:28
Alignment explanation
Indices: 64641129--64641198 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
64641119 TTCTTTAGGA
* * *
64641129 TTTAATGTTTAGGGTTTAGGGCTTAGAG
1 TTTAAAGTTTAGGGTTCAGAGCTTAGAG
* *
64641157 TTTAAAGTTTAGGGTTCAGAGTTTAGGG
1 TTTAAAGTTTAGGGTTCAGAGCTTAGAG
*
64641185 TTTAAGGTTTAGGG
1 TTTAAAGTTTAGGG
64641199 ATACAAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.23, C:0.03, G:0.33, T:0.41
Consensus pattern (28 bp):
TTTAAAGTTTAGGGTTCAGAGCTTAGAG
Found at i:64641812 original size:41 final size:41
Alignment explanation
Indices: 64641755--64641896 Score: 171
Period size: 41 Copynumber: 3.5 Consensus size: 41
64641745 CTTTTGTTTT
64641755 GACCAAAAACGCCACTATTGCTCATCTTTTAGCGGCATTTG
1 GACCAAAAACGCCACTATTGCTCATCTTTTAGCGGCATTTG
* * * *
64641796 GACCAATAATGCCACTATTGCTCAAT-GTTTAGCGGCGTTTG
1 GACCAAAAACGCCACTATTGCTC-ATCTTTTAGCGGCATTTG
* * *
64641837 GACCAAAAACGCCACTATAT-CTCAGCTTTTAGCGACGTTTG
1 GACCAAAAACGCCACTAT-TGCTCATCTTTTAGCGGCATTTG
* *
64641878 GTCTAAAAACGCCACTATT
1 GACCAAAAACGCCACTATT
64641897 ATTAAACTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
40 2 0.02
41 82 0.94
42 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (41 bp):
GACCAAAAACGCCACTATTGCTCATCTTTTAGCGGCATTTG
Found at i:64641907 original size:41 final size:41
Alignment explanation
Indices: 64641750--64641907 Score: 135
Period size: 41 Copynumber: 3.9 Consensus size: 41
64641740 TCAACCTTTT
* * * *
64641750 GTTTTGACCAAAAACGCCACTAT-TGCTCATCTTTTAGCGGC
1 GTTTGGACCAAAAACGCCACTATAT-CTAAACTTTTAGCGAC
* * * * *
64641791 ATTTGGACCAATAATGCCACTAT-TGCTCAA-TGTTTAGCGGC
1 GTTTGGACCAAAAACGCCACTATAT-CTAAACT-TTTAGCGAC
* *
64641832 GTTTGGACCAAAAACGCCACTATATCTCAGCTTTTAGCGAC
1 GTTTGGACCAAAAACGCCACTATATCTAAACTTTTAGCGAC
* *
64641873 GTTTGGTCTAAAAACGCCACTATTAT-TAAACTTTT
1 GTTTGGACCAAAAACGCCACTA-TATCTAAACTTTT
64641908 TGTGGCATTT
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
40 1 0.01
41 93 0.94
42 5 0.05
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (41 bp):
GTTTGGACCAAAAACGCCACTATATCTAAACTTTTAGCGAC
Found at i:64651167 original size:56 final size:56
Alignment explanation
Indices: 64651003--64651136 Score: 232
Period size: 56 Copynumber: 2.4 Consensus size: 56
64650993 CATGGCATGA
64651003 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTG
* * *
64651059 ATATTTGTGTGCGAGTAAGACCACGTTTAATACGTTGGTATCGATATGTGATTTTG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTG
*
64651115 TTATATGTGTGCGAGTAAGACC
1 ATATATGTGTGCGAGTAAGACC
64651137 CTGTCTGGGA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTG
Found at i:64653560 original size:28 final size:27
Alignment explanation
Indices: 64653519--64653619 Score: 103
Period size: 27 Copynumber: 3.6 Consensus size: 27
64653509 AGGAAGCGTC
**
64653519 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAA-TATCTGTT
**
64653547 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCCCTGCCACAAATATCTGTT
* *
64653574 CTGGTGGCACTGCCACAAAATATCTATAT
1 CTGGTGGCCCTGCCAC-AAATATCTGT-T
* *
64653603 CTGGTGACCCTGTCACA
1 CTGGTGGCCCTGCCACA
64653620 TTTTCTGTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
27 23 0.38
28 23 0.38
29 14 0.23
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.31
Consensus pattern (27 bp):
CTGGTGGCCCTGCCACAAATATCTGTT
Found at i:64653627 original size:55 final size:56
Alignment explanation
Indices: 64653519--64653633 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
64653509 AGGAAGCGTC
* * * *
64653519 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
* *
64653574 CTGGTGGC-ACTGCCACAAAATATCTATATCTGGTGACCCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTAT-TCTGGTGACCCTGCCACATATATCTGTAT
64653630 CTGG
1 CTGG
64653634 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:64654722 original size:11 final size:10
Alignment explanation
Indices: 64654694--64654727 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
64654684 AGCCTGTAAG
64654694 TATTCTGAAT
1 TATTCTGAAT
*
64654704 TTTTCTGAAT
1 TATTCTGAAT
64654714 ATATTCTGAAT
1 -TATTCTGAAT
64654725 TAT
1 TAT
64654728 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:64661236 original size:28 final size:28
Alignment explanation
Indices: 64661179--64661238 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
64661169 TGTACTAGAG
* *
64661179 TACCCCTATGTATGCAAAATTACTATTA
1 TACCCCTATGTATGCAAAATGACTACTA
64661207 TACCCCTATGTATGCAAAATGACCT-CTA
1 TACCCCTATGTATGCAAAATGA-CTACTA
64661235 TACC
1 TACC
64661239 GCTAGGGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.32
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACTACTA
Found at i:64661406 original size:27 final size:27
Alignment explanation
Indices: 64661348--64661437 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
64661338 AGGAAGCGTC
64661348 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
64661376 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
64661403 CTGGTGGCACTACCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
64661432 CTGGTG
1 CTGGTG
64661438 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:64668659 original size:56 final size:56
Alignment explanation
Indices: 64668593--64668729 Score: 177
Period size: 56 Copynumber: 2.4 Consensus size: 56
64668583 CATTACCATC
* * * *
64668593 AATACATTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCATGTTT
1 AATACGTTGGCATCGATATGTGATTCCGATATATGTGTACGAGTAAGACCATGTCT
* *
64668649 AATACGTTGGCATCGATATGTGATTCCGTTATATGTGTACGAGTAAGACCCTGTCT
1 AATACGTTGGCATCGATATGTGATTCCGATATATGTGTACGAGTAAGACCATGTCT
***
64668705 GGGACAG-TGGCATCGATATGTGATT
1 AATAC-GTTGGCATCGATATGTGATT
64668730 ACTTGTAAGA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
56 70 0.99
57 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (56 bp):
AATACGTTGGCATCGATATGTGATTCCGATATATGTGTACGAGTAAGACCATGTCT
Found at i:64670805 original size:46 final size:46
Alignment explanation
Indices: 64670740--64670862 Score: 210
Period size: 46 Copynumber: 2.7 Consensus size: 46
64670730 GGCATCCAAA
64670740 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCAGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCAGAG
* * * *
64670786 CTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCAGAG
64670832 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64670863 GCGGGTTACA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCAGAG
Found at i:64672417 original size:18 final size:18
Alignment explanation
Indices: 64672372--64672423 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
64672362 GGCCCATTTT
*
64672372 AGTAATAGTAAATAGTGC
1 AGTAATAGTAAACAGTGC
* *
64672390 AGCAACAGTAAACAGTGC
1 AGTAATAGTAAACAGTGC
*
64672408 AGTATTAGTAAACAGT
1 AGTAATAGTAAACAGT
64672424 ATGCAAGTCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (18 bp):
AGTAATAGTAAACAGTGC
Found at i:64672766 original size:27 final size:27
Alignment explanation
Indices: 64672701--64672886 Score: 196
Period size: 27 Copynumber: 6.9 Consensus size: 27
64672691 AAACAAATAT
* * *
64672701 CACATAGGGGCAAAATAGCCATTTTAT
1 CACATAAGGGCAAAATAGTCATTTTAC
* ** *
64672728 CA-GTTGGAGGCAAAATAGTCATTTCAC
1 CACATAAG-GGCAAAATAGTCATTTTAC
* *
64672755 CTCATAAGGGCAAAACT-GTCATTTTAT
1 CACATAAGGGCAAAA-TAGTCATTTTAC
64672782 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
64672809 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * * * *
64672836 CATATAAGGACAAAACAATCATTTTTC
1 CACATAAGGGCAAAATAGTCATTTTAC
64672863 CACATAAGGGCAAAATAGTCATTT
1 CACATAAGGGCAAAATAGTCATTT
64672887 CATCAAATTA
Statistics
Matches: 133, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.03
27 126 0.95
28 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:64672843 original size:81 final size:81
Alignment explanation
Indices: 64672698--64672886 Score: 222
Period size: 81 Copynumber: 2.3 Consensus size: 81
64672688 TATAAACAAA
* * * * ** * *
64672698 TATCACATAGGGGCAAAATAGCCATTTTATCAGTTGGAGGCAAAATAGTCATTTCACCTCATAAG
1 TATCACATAAGGGCAAAATAGTCATTTTACCAATAAGAGGCAAAACAATCATTTCACCTCATAAG
* **
64672763 GGCAAAACTGTCATTT
66 GACAAAACAATCATTT
*
64672779 TATCACATAAGGGCAAAATAGTCATTTTACCACATAAG-GGCAAAACAATCATTTTACCAT-ATA
1 TATCACATAAGGGCAAAATAGTCATTTTACCA-ATAAGAGGCAAAACAATCATTTCACC-TCATA
64672842 AGGACAAAACAATCATTT
64 AGGACAAAACAATCATTT
64672860 T-TCCACATAAGGGCAAAATAGTCATTT
1 TAT-CACATAAGGGCAAAATAGTCATTT
64672887 CATCAAATTA
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 89 0.96
82 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (81 bp):
TATCACATAAGGGCAAAATAGTCATTTTACCAATAAGAGGCAAAACAATCATTTCACCTCATAAG
GACAAAACAATCATTT
Found at i:64678058 original size:27 final size:27
Alignment explanation
Indices: 64678026--64678080 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
64678016 AGAAATGGAT
64678026 ATGAAATGGGAAATGAA-ATATGAAATG
1 ATGAAATGGGAAATGAATAT-TGAAATG
*
64678053 ATGAAATGGGATATGAATATTGAAATG
1 ATGAAATGGGAAATGAATATTGAAATG
64678080 A
1 A
64678081 ATTCATGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.25, T:0.25
Consensus pattern (27 bp):
ATGAAATGGGAAATGAATATTGAAATG
Found at i:64678992 original size:54 final size:54
Alignment explanation
Indices: 64678888--64678993 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
64678878 CGTGTGACCC
* * * * *
64678888 AAGTTAGTGAGTTACACGGGTAGAGAGACGGGCTGGGACATGACTGTGTGTCTT
1 AAGTCAGTGAGTTACACAGGTAGAGACACGGGCTGGGACAAGACTATGTGTCTT
*
64678942 AAGTCAGTGAGTTACACAGGTAGAGACATGGGCTGGGACACAG-CTATGTGTC
1 AAGTCAGTGAGTTACACAGGTAGAGACACGGGCTGGGACA-AGACTATGTGTC
64678994 CCAACTTTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 44 0.98
55 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (54 bp):
AAGTCAGTGAGTTACACAGGTAGAGACACGGGCTGGGACAAGACTATGTGTCTT
Found at i:64681421 original size:23 final size:25
Alignment explanation
Indices: 64681395--64681440 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
64681385 TATCATTCAT
*
64681395 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
64681418 TTCATCATTTCCATATATTTTAT
1 TTCATCATATCCATATATTTTAT
64681441 ATGTATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 2 0.11
25 9 0.47
ACGTcount: A:0.28, C:0.15, G:0.02, T:0.54
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:64681764 original size:46 final size:46
Alignment explanation
Indices: 64681702--64682050 Score: 428
Period size: 46 Copynumber: 8.0 Consensus size: 46
64681692 TTTGACGTGA
* * * * * *
64681702 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
64681748 TGCTATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
64681794 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
64681840 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA-ATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
64681885 TGCCATGGTATCTTTCAACCATGGTC-T-CACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
64681923 TGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
64681969 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
64682007 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
64682051 AGAGCACACT
Statistics
Matches: 267, Mismatches: 19, Indels: 34
0.83 0.06 0.11
Matches are distributed among these distances:
38 62 0.23
39 3 0.01
40 8 0.03
41 1 0.00
43 6 0.02
44 4 0.01
45 38 0.14
46 145 0.54
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:64681934 original size:38 final size:38
Alignment explanation
Indices: 64681883--64682039 Score: 215
Period size: 38 Copynumber: 3.9 Consensus size: 38
64681873 TTTCAATCAA
64681883 GTTGCCATGGTATCTTTCAACCATGGTCTCACACACAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTCACACACAG
*
64681921 GTTGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTC-T-CACA---C--A-CAG
*
64681967 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTCACACACAG
*
64682005 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTCACACA
64682040 TTTCATATCA
Statistics
Matches: 108, Mismatches: 3, Indels: 16
0.85 0.02 0.13
Matches are distributed among these distances:
38 65 0.60
39 2 0.02
40 4 0.04
41 1 0.01
43 1 0.01
44 3 0.03
45 2 0.02
46 30 0.28
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTCACACACAG
Found at i:64681956 original size:129 final size:129
Alignment explanation
Indices: 64681702--64682040 Score: 422
Period size: 129 Copynumber: 2.6 Consensus size: 129
64681692 TTTGACGTGA
* * * * * * *
64681702 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCTATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTC-ATCAAGTTGCCATGGTATCTTTCAAC
* *
64681767 CATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCA
64 CATGGTCTTA--C---ACA--TCACGTTGCCATGGTATCTTTCAACCAAGGTCTTACACATCTCA
64681832 TATCAGGT
122 TATCAGGT
64681840 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAATCAAGTTGCCATGGTATCTTTCAACC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-ATCAAGTTGCCATGGTATCTTTCAACC
* * *
64681905 ATGGTCTCACACA-CAGGTTGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCATATCAGGT
65 ATGGTCTTACACATCACGTTGCCATGGTATCTTTCAACCAAGGTCTTACACATCTCATATCAGGT
*
64681969 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---CA-CAGGTTGCCATGGTATCTTTCAACCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATCAAGTTGCCATGGTATCTTTCAACCA
64682028 TGGTCTTACACAT
66 TGGTCTTACACAT
64682041 TTCATATCAG
Statistics
Matches: 185, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
122 36 0.19
123 1 0.01
124 1 0.01
127 3 0.02
129 76 0.41
132 2 0.01
135 1 0.01
137 36 0.19
138 29 0.16
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (129 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATCAAGTTGCCATGGTATCTTTCAACCA
TGGTCTTACACATCACGTTGCCATGGTATCTTTCAACCAAGGTCTTACACATCTCATATCAGGT
Found at i:64682009 original size:84 final size:84
Alignment explanation
Indices: 64681835--64682050 Score: 398
Period size: 84 Copynumber: 2.6 Consensus size: 84
64681825 CATCTCATAT
*
64681835 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA-ATCAAGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
64681899 TCAACCATGGTCTCACACA
66 TCAACCATGGTCTCACACA
*
64681918 CAGGTTGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
*
64681983 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTCACACA
64682002 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
64682051 AGAGCACACT
Statistics
Matches: 128, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
83 42 0.33
84 86 0.67
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
TCAACCATGGTCTCACACA
Found at i:64684234 original size:31 final size:32
Alignment explanation
Indices: 64684177--64684248 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
64684167 CTTTATATAC
*
64684177 TAATAAAATAATAAAATATCTTATTAAAGT-AT
1 TAATAAAATAATAAAATATCTAATTAAA-TAAT
**
64684209 TAATAAAATAAT-ATTTATCTAATTAAATAAT
1 TAATAAAATAATAAAATATCTAATTAAATAAT
64684240 T-ATAAAATA
1 TAATAAAATA
64684249 TCATAATATC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 9 0.25
31 15 0.42
32 12 0.33
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (32 bp):
TAATAAAATAATAAAATATCTAATTAAATAAT
Found at i:64684259 original size:31 final size:30
Alignment explanation
Indices: 64684177--64684259 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 30
64684167 CTTTATATAC
*
64684177 TAATAAAATAATAAAATATCTTATTAAAGTAT
1 TAATAAAATAAT--AATATCTAATTAAAGTAT
*
64684209 TAATAAAATAATATTTATCTAATTAAA-TAAT
1 TAATAAAATAATA-ATATCTAATTAAAGT-AT
64684240 T-ATAAAATATCATAATATCT
1 TAATAAAATA--ATAATATCT
64684260 CTAGCATCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
30 10 0.23
31 19 0.43
32 15 0.34
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (30 bp):
TAATAAAATAATAATATCTAATTAAAGTAT
Found at i:64687053 original size:483 final size:482
Alignment explanation
Indices: 64686127--64687095 Score: 1848
Period size: 483 Copynumber: 2.0 Consensus size: 482
64686117 TTGTTGTTAG
64686127 CCGAATTTGGGGAGTAAAAAGGGGGATTTTCAGTTGTTGAGGTTTGTGAGTAGGAGGGTTCTTAG
1 CCGAATTTGGGGAGTAAAAAGGGGGATTTTCAGTTGTTGAGGTTTGTGAGTAGGAGGGTTCTTAG
*
64686192 GAGAAAATTAAGGAGGAAATCGAGTAAGTTCGAATTTGAAGGAGAGTCATGTCGGGTTTGAACTC
66 GAGAAAATTAAGGAGGAAATCGAGTAAGTTCGAATTTGAAGGAGAGTCATGTAGGGTTTGAACTC
*
64686257 TGGCTCTTAGTGTTTCGGTTGTGTAGGAGTGTTAGGGAGGTGTTTAGTGTGTTGAAGGCTAACCG
131 TGGCTCTTAGTGTTTCAGTTGTGTAGGAGTGTTAGGGAGGTGTTTAGTGTGTTGAAGGCTAACCG
*
64686322 AATCTGGTGAGTTCATTTGGTAAAAAATTCGGCTATAGTAAATGGGTGCTGAAATTGGTTCTACT
196 AATCTGGTGAGTTCATTTGGTAAAAAATTCGGCTATAGTAAATGGGTGCCGAAATTGGTTCTACT
64686387 TTGGGTGCCGATTTGTGTATTAGCTAACTGAGTGTCGACTTCGTTCTCAATATCTCAGGTTGGCA
261 TTGGGTGCCGATTTGTGTATTAGCTAACTGAGTGTCGACTTCGTTCTCAATATCTCAGGTTGGCA
*
64686452 GCTTCATTTCTTTTGTTTTATTTGCTTTAATCGAATACTCCTATAAACTTTTCTCAATCTCTTGA
326 GCTTCATTTCTTTTGTTTTATTTGCTTTAACCGAATACTCCTATAAACTTTTCTCAATCTCTTGA
64686517 TTTCTCTTTTTGGCAGAATACCTTAGTGACCTTTTCTCTTCATCTTGTTTTTCTTCAAACTGATT
391 TTTCTCTTTTTGGCAGAATACCTTAGTGACCTTTTCTCTTCATCTTGTTTTTCTTCAAACTGATT
*
64686582 ATCTGACATTATTGAAGGCCGATTGTT
456 ATCTGACATTAGTGAAGGCCGATTGTT
*
64686609 CCGAATTTGGGGAGTAAAAAGGGGGGATTTTTAGTTGTTGAGGTTTGTGAGTAGGAGGGTTCTTA
1 CCGAATTTGGGGAGTAAAAA-GGGGGATTTTCAGTTGTTGAGGTTTGTGAGTAGGAGGGTTCTTA
* *
64686674 GGAGAAAATTATGGAGGAAATCGAGTAAGTTCGAATTTGGAGGAGAGTCATGTAGGGTTTGAACT
65 GGAGAAAATTAAGGAGGAAATCGAGTAAGTTCGAATTTGAAGGAGAGTCATGTAGGGTTTGAACT
*
64686739 CTGGCTCTTAGTGTTTCAGTTGTGTAGGAGTGTTGGGGAGGTGTTTAGTGTGTTGAAGGCTAACC
130 CTGGCTCTTAGTGTTTCAGTTGTGTAGGAGTGTTAGGGAGGTGTTTAGTGTGTTGAAGGCTAACC
64686804 GAATCTGGTGAGTTCATTTGGTAAAAAATTCGGCTATAGTAAATGGGTGCCGAAATTGGTTCTAC
195 GAATCTGGTGAGTTCATTTGGTAAAAAATTCGGCTATAGTAAATGGGTGCCGAAATTGGTTCTAC
64686869 TTTGGGTGCCGATTTGTGTATTAGCTAACTGAGTGTCGACTTCGTTCTCAATATCTCAGGTTGGC
260 TTTGGGTGCCGATTTGTGTATTAGCTAACTGAGTGTCGACTTCGTTCTCAATATCTCAGGTTGGC
64686934 AGCTTCATTTCTTTTGTTTTATTTGCTTTAACCGAATACTCCTATAAACTTTTCTCAATCTCTTG
325 AGCTTCATTTCTTTTGTTTTATTTGCTTTAACCGAATACTCCTATAAACTTTTCTCAATCTCTTG
64686999 ATTTCTCTTTTTGGCAGAATACCTTAGTGACCTTTTCTCTTCATCTTGTTTTTCTTCAAACTGAT
390 ATTTCTCTTTTTGGCAGAATACCTTAGTGACCTTTTCTCTTCATCTTGTTTTTCTTCAAACTGAT
64687064 TATCTGACATTAGTGAAGGCCGATTGTT
455 TATCTGACATTAGTGAAGGCCGATTGTT
64687092 CCGA
1 CCGA
64687096 TCGAGTACCT
Statistics
Matches: 477, Mismatches: 9, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
482 20 0.04
483 457 0.96
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (482 bp):
CCGAATTTGGGGAGTAAAAAGGGGGATTTTCAGTTGTTGAGGTTTGTGAGTAGGAGGGTTCTTAG
GAGAAAATTAAGGAGGAAATCGAGTAAGTTCGAATTTGAAGGAGAGTCATGTAGGGTTTGAACTC
TGGCTCTTAGTGTTTCAGTTGTGTAGGAGTGTTAGGGAGGTGTTTAGTGTGTTGAAGGCTAACCG
AATCTGGTGAGTTCATTTGGTAAAAAATTCGGCTATAGTAAATGGGTGCCGAAATTGGTTCTACT
TTGGGTGCCGATTTGTGTATTAGCTAACTGAGTGTCGACTTCGTTCTCAATATCTCAGGTTGGCA
GCTTCATTTCTTTTGTTTTATTTGCTTTAACCGAATACTCCTATAAACTTTTCTCAATCTCTTGA
TTTCTCTTTTTGGCAGAATACCTTAGTGACCTTTTCTCTTCATCTTGTTTTTCTTCAAACTGATT
ATCTGACATTAGTGAAGGCCGATTGTT
Found at i:64692132 original size:30 final size:30
Alignment explanation
Indices: 64692083--64692141 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
64692073 TATAATTTCA
* * *
64692083 TTTTATTTTTATTTTAATTTGACCCTAATC
1 TTTTATATTTATTTCAATTTAACCCTAATC
* *
64692113 TTTTATATTTGTTTCAATTTAATCCTAAT
1 TTTTATATTTATTTCAATTTAACCCTAAT
64692142 GGCCATTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.03, T:0.59
Consensus pattern (30 bp):
TTTTATATTTATTTCAATTTAACCCTAATC
Found at i:64692431 original size:12 final size:12
Alignment explanation
Indices: 64692416--64692457 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
64692406 ATTATTTTTA
64692416 TTATTATACATT
1 TTATTATACATT
*
64692428 TTATTTATAAATT
1 TTA-TTATACATT
64692441 TTATTATACATT
1 TTATTATACATT
*
64692453 ATATT
1 TTATT
64692458 GTTTTACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTATACATT
Found at i:64692514 original size:20 final size:22
Alignment explanation
Indices: 64692485--64692533 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
64692475 ATTCCTTGCA
*
64692485 TTTTTT-TAAATTCT-T-TTAT
1 TTTTTTATAAATTATGTATTAT
64692504 TTTTTTATAAATTATGTATTAT
1 TTTTTTATAAATTATGTATTAT
64692526 TTTTTTAT
1 TTTTTTAT
64692534 TCATTAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 6 0.23
20 7 0.27
21 1 0.04
22 12 0.46
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTTTATAAATTATGTATTAT
Found at i:64705185 original size:220 final size:218
Alignment explanation
Indices: 64704798--64705454 Score: 1068
Period size: 220 Copynumber: 3.0 Consensus size: 218
64704788 AGATCTGACC
* * * *
64704798 TTCAGGTGTTTACGCTGAAGCAGATAC-AAGATGATTTGGCGTCTGTGTATTGTCAGAGAACAAA
1 TTCACGTGTTTACGCTGAAGCAGAT-CTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAA
* *
64704862 TTGAAGAAACAGATTTGGCATCTCTATATTCAACGGAGAGCAGATCAAAGACATAGCAGATCTAA
65 TCGAAGAAACAGATTTGGCATCTCCATATTC-ACGGAGAGCAGATCAAAGACATAGCAGATCTAA
* *
64704927 CCTTTGAGTGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGT
129 CCTTAGA-TGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGC
*
64704992 AGATCAAAGACATAACAGATTTGGCT
193 AGATCGAAGACATAACAGATTTGGCT
*
64705018 TTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCACCTCTATATTGTCAGAGAACAAAT
1 TTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAAT
64705083 CGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCTAAC
66 CGAAGAAACAGATTTGGCATCTCCATATTC-ACGGAGAGCAGATCAAAGACATAGCAGATCTAAC
64705148 CTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCA
130 CTT-AGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCA
*
64705213 AATCGAAGACATAACAGATTTGGCT
194 GATCGAAGACATAACAGATTTGGCT
* *
64705238 TTCACATGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAGCAAAT
1 TTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAAT
*
64705303 CGAAGAAACAGATTTGGCATCTCCATATTCAGCGGAGAGCAGATCGAAGACATAGCAGATCTAAC
66 CGAAGAAACAGATTTGGCATCTCCATATTCA-CGGAGAGCAGATCAAAGACATAGCAGATCTAAC
* **
64705368 CTTTGGATGTTTTTGCATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCA
130 C-TTAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCA
*
64705433 GATCGAAG--ATAGCAGATTTGGC
194 GATCGAAGACATAACAGATTTGGC
64705455 GTCTCTGTAT
Statistics
Matches: 412, Mismatches: 21, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
218 13 0.03
219 2 0.00
220 393 0.95
221 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (218 bp):
TTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAAT
CGAAGAAACAGATTTGGCATCTCCATATTCACGGAGAGCAGATCAAAGACATAGCAGATCTAACC
TTAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCAGA
TCGAAGACATAACAGATTTGGCT
Found at i:64705476 original size:44 final size:44
Alignment explanation
Indices: 64705428--64705581 Score: 245
Period size: 44 Copynumber: 3.5 Consensus size: 44
64705418 CGTTTACAAG
* *
64705428 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTAAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
*
64705472 GAGCAGATCGAAGATAGCAGATTTGGCATCTCGGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
64705516 GGGTAGATCGAAGATAGCAGATTTGGCATATCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
*
64705560 GAGCAGATCGAAGATAACAGAT
1 GAGCAGATCGAAGATAGCAGAT
64705582 CTGGTGTTCC
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 100 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
Found at i:64705617 original size:88 final size:86
Alignment explanation
Indices: 64705419--64705621 Score: 221
Period size: 88 Copynumber: 2.3 Consensus size: 86
64705409 GCATCCTTGC
* * * *
64705419 GTTTACAAGGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTAAGAGAGCAGATCGAA
1 GTTTGCAAGAAGCAGATCGAAGATAGCAGATTTGGCATATCTGTATTGTAAGAGAGCAGATCGAA
* *
64705484 GATAGCAGATTTGGCATCTCG
66 GATAACAGATCTGGCATCTCG
* * *
64705505 GTATTGTC-AGAGGGTAGATCGAAGATAGCAGATTTGGCATATCTGTATTGTCAGAGAGCAGATC
1 GT-TTG-CAAGA-AGCAGATCGAAGATAGCAGATTTGGCATATCTGTATTGTAAGAGAGCAGATC
**
64705569 GAAGATAACAGATCTGGTGT-TCCTG
63 GAAGATAACAGATCTGGCATCT-C-G
* *
64705594 AGTTTGCAAGAAGCAGGTTGAAGATAGC
1 -GTTTGCAAGAAGCAGATCGAAGATAGC
64705622 CAATTTGACA
Statistics
Matches: 95, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
86 2 0.02
87 5 0.05
88 79 0.83
89 7 0.07
90 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.26
Consensus pattern (86 bp):
GTTTGCAAGAAGCAGATCGAAGATAGCAGATTTGGCATATCTGTATTGTAAGAGAGCAGATCGAA
GATAACAGATCTGGCATCTCG
Found at i:64707175 original size:12 final size:12
Alignment explanation
Indices: 64707160--64707201 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
64707150 ATTATTTTTC
64707160 TTATTATACATT
1 TTATTATACATT
*
64707172 TTATTTATAAATT
1 TTA-TTATACATT
64707185 TTATTATACATT
1 TTATTATACATT
*
64707197 ATATT
1 TTATT
64707202 TTTTTACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTATACATT
Found at i:64707185 original size:13 final size:13
Alignment explanation
Indices: 64707163--64707202 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
64707153 ATTTTTCTTA
64707163 TTATACATTTTAT
1 TTATACATTTTAT
*
64707176 TTATAAATTTTA-
1 TTATACATTTTAT
*
64707188 TTATACATTATAT
1 TTATACATTTTAT
64707201 TT
1 TT
64707203 TTTTACTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATACATTTTAT
Found at i:64707387 original size:17 final size:17
Alignment explanation
Indices: 64707371--64707410 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
64707361 TCATTATATT
64707371 TTATATAT-AT-TTTTA
1 TTATATATCATATTTTA
*
64707386 TTACATATCATATTTTA
1 TTATATATCATATTTTA
64707403 TTATATAT
1 TTATATAT
64707411 TAGTCCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 7 0.33
16 2 0.10
17 12 0.57
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATATATCATATTTTA
Found at i:64708920 original size:26 final size:26
Alignment explanation
Indices: 64708891--64708943 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
64708881 TCAAACATGC
64708891 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
64708917 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
64708943 A
1 A
64708944 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:64710461 original size:32 final size:32
Alignment explanation
Indices: 64710424--64710520 Score: 158
Period size: 32 Copynumber: 3.0 Consensus size: 32
64710414 AATGCTTACC
* *
64710424 ATGCCCGTCATTCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
*
64710456 ATGCCCATAATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
*
64710488 ATGCCCATCATCCATTAACTACTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
64710520 A
1 A
64710521 AATGCATACA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:64716952 original size:25 final size:27
Alignment explanation
Indices: 64716915--64716967 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
64716905 TCAAACATAC
64716915 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
*
64716941 ATTTCGGT-AATTTAACTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
64716967 A
1 A
64716968 AAATTGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:64718484 original size:32 final size:32
Alignment explanation
Indices: 64718447--64718511 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
64718437 AATGCTTACC
64718447 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
64718479 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
64718511 A
1 A
64718512 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:64729940 original size:17 final size:17
Alignment explanation
Indices: 64729902--64729940 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
64729892 GGCATCTGAC
*
64729902 CTTTTAAAAGTTGAAAA
1 CTTTTAAAAGTTCAAAA
* *
64729919 TTTTTAAAAGTTCTAAA
1 CTTTTAAAAGTTCAAAA
64729936 CTTTT
1 CTTTT
64729941 TGTATGTTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (17 bp):
CTTTTAAAAGTTCAAAA
Found at i:64731083 original size:34 final size:33
Alignment explanation
Indices: 64730995--64731103 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 33
64730985 CTGGTACTAT
*
64730995 AATGGGCTTAGGCCCCACTG-ATACTGTTACTGA
1 AATGGGCTTAGGCCCAACTGCA-ACTGTTACTGA
* ** *
64731028 AATGTGCTTAGGCCTTGACTGCAACTATTACTGA
1 AATGGGCTTAGGCC-CAACTGCAACTGTTACTGA
* *
64731062 AATGGGCTCAGGCCCAAACTGCTAA-TGTTATTGA
1 AATGGGCTTAGGCCC-AACTGC-AACTGTTACTGA
64731096 AATGGGCT
1 AATGGGCT
64731104 AAAGCCCTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
33 13 0.21
34 46 0.74
35 3 0.05
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (33 bp):
AATGGGCTTAGGCCCAACTGCAACTGTTACTGA
Found at i:64746360 original size:79 final size:81
Alignment explanation
Indices: 64746251--64746433 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
64746241 TACTCGTTCA
* *
64746251 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
64746314 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
64746331 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
64746394 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
64746410 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
64746434 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:64746433 original size:40 final size:40
Alignment explanation
Indices: 64746230--64746433 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
64746220 CGGAATTTAA
** *
64746230 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64746270 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64746310 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64746349 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
64746389 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
64746429 CCGGA
1 CCGGA
64746434 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:64754530 original size:79 final size:81
Alignment explanation
Indices: 64754421--64754603 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
64754411 TACTCGTTCA
* *
64754421 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
64754484 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
64754501 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
64754564 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
64754580 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
64754604 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:64754603 original size:40 final size:40
Alignment explanation
Indices: 64754400--64754603 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
64754390 CGGAATTTAA
** *
64754400 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64754440 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64754480 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64754519 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
64754559 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
64754599 CCGGA
1 CCGGA
64754604 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:64763071 original size:17 final size:17
Alignment explanation
Indices: 64763049--64763081 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
64763039 TCATGAAATC
64763049 ATGCCATAGACCTTAAA
1 ATGCCATAGACCTTAAA
*
64763066 ATGCCATAGACTTTAA
1 ATGCCATAGACCTTAA
64763082 CTAATAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.27
Consensus pattern (17 bp):
ATGCCATAGACCTTAAA
Found at i:64763931 original size:50 final size:50
Alignment explanation
Indices: 64763816--64764002 Score: 191
Period size: 50 Copynumber: 3.7 Consensus size: 50
64763806 CTGGTATGCA
* * *
64763816 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAGTCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACTCACCAGTCTAGTACATG
* * *
64763865 TAGCAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CTCACCAGTCTAGTACATG
* * * * ***
64763915 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCACAATTTTCATGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACTCACCAGTCT-A-GTACATG
*
64763966 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CTCAC
64764003 AATAGATCAT
Statistics
Matches: 116, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
48 5 0.04
49 30 0.26
50 41 0.35
51 36 0.31
53 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACTCACCAGTCTAGTACATG
Found at i:64764985 original size:20 final size:20
Alignment explanation
Indices: 64764960--64765019 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
64764950 CAAATATGAA
64764960 TGTAACACCCCGAATTTGGG
1 TGTAACACCCCGAATTTGGG
*
64764980 TGTAACACCTCGAATTTGGG
1 TGTAACACCCCGAATTTGGG
*
64765000 TGTAACGCCCCGAATTTGGG
1 TGTAACACCCCGAATTTGGG
64765020 CCTAGAAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (20 bp):
TGTAACACCCCGAATTTGGG
Found at i:64766137 original size:81 final size:81
Alignment explanation
Indices: 64766037--64766258 Score: 336
Period size: 81 Copynumber: 2.7 Consensus size: 81
64766027 ATTATCAAAG
* *
64766037 TACCCCCGATTTACTAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
*
64766102 TATAGAATTACCGTTT
66 TATAGAATTACCATTT
* * * *
64766118 TACCTTCGATTTACAAAATTACCTTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
64766183 TATAGAATTACCATTT
66 TATAGAATTACCATTT
* * * * *
64766199 TACCCTCGATTTATAAAATTATCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCT
64766259 TGGTTTACAA
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 126 1.00
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATT
TATAGAATTACCATTT
Found at i:64766265 original size:27 final size:27
Alignment explanation
Indices: 64766037--64766275 Score: 300
Period size: 27 Copynumber: 8.9 Consensus size: 27
64766027 ATTATCAAAG
*
64766037 TACCCCCGATTTACT-AAATTACCGTTT
1 TACCCTCGATTTA-TAAAATTACCGTTT
* *
64766064 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
64766091 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * *
64766118 TACCTTCGATTTACAAAATTACCTTTT
1 TACCCTCGATTTATAAAATTACCGTTT
*
64766145 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
64766172 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
*
64766199 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * *
64766226 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * *
64766253 TACCCTTGGTTTACAAAATTACC
1 TACCCTCGATTTATAAAATTACC
64766276 AAAATACTCC
Statistics
Matches: 188, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.01
27 187 0.99
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCGTTT
Found at i:64766297 original size:81 final size:81
Alignment explanation
Indices: 64766024--64766301 Score: 245
Period size: 81 Copynumber: 3.4 Consensus size: 81
64766014 CCCCAGTTGT
* * ** * *
64766024 AAAATTATCAAAGTACCCCCGATTTACT-AAATTACCGTTTTACCCTCGATTTATAGAATTACCA
1 AAAATTACCAAAATACCCTAGATTTA-TAAAATTACCGTTTTACCCTCGATTTACAAAATTACCA
* *
64766088 TTTTACCCTCAATTTAT
65 TTTTACCCTCGATTTAC
* **** * * * * *
64766105 AGAATTACCGTTTTACCTTCGATTTACAAAATTACCTTTTTACCCTCGATTTATAAAATTACCAT
1 AAAATTACCAAAATACCCTAGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCAT
*
64766170 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * * * * *
64766186 AGAATTACCATTTTACCCTCGATTTATAAAATTATCGTTTTACCCTCGATTTACAGAATTATCGT
1 AAAATTACCAAAATACCCTAGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCAT
* *
64766251 TTTACCCTTGGTTTAC
66 TTTACCCTCGATTTAC
*
64766267 AAAATTACCAAAATACTCCTAG-TTTGTAAAATTAC
1 AAAATTACCAAAATAC-CCTAGATTTATAAAATTAC
64766302 TAAAATACCC
Statistics
Matches: 164, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
81 160 0.98
82 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTAGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTACCAT
TTTACCCTCGATTTAC
Found at i:64766300 original size:54 final size:53
Alignment explanation
Indices: 64766253--64766366 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 53
64766243 ATTATCGTTT
64766253 TACCCTTGGTTTACAAAATTACCAAAATA-CTCCTAGTTTGTAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATATC-CCTAGTTTGTAAAATTACT-AAA
* *
64766307 TACCCTTGGTTTATAAAATTACCAAAATATCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATATCCCTAGTTTGTAAAATTA-CTAAA
64766361 TACCCT
1 TACCCT
64766367 CGACATGTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
54 54 0.96
55 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (53 bp):
TACCCTTGGTTTACAAAATTACCAAAATATCCCTAGTTTGTAAAATTACTAAA
Found at i:64766375 original size:27 final size:26
Alignment explanation
Indices: 64766267--64766418 Score: 151
Period size: 27 Copynumber: 5.7 Consensus size: 26
64766257 CTTGGTTTAC
64766267 AAAATTACCAAAATACTCCTAGTTTGT
1 AAAATTACCAAAATAC-CCTAGTTTGT
* * *
64766294 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCC-TAGTTTGT
64766321 AAAATTACCAAAATATCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
* **
64766348 AAAATTACCAAAATACCCTCGACATGT
1 AAAATTACCAAAATACCCTAG-TTTGT
*** * *
64766375 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTAG-TTTGT
*
64766402 AAAATTACCAAAGTACC
1 AAAATTACCAAAATACC
64766419 ATTGATTTAC
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.07
27 95 0.90
28 3 0.03
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:64766378 original size:54 final size:53
Alignment explanation
Indices: 64766267--64766418 Score: 169
Period size: 54 Copynumber: 2.8 Consensus size: 53
64766257 CTTGGTTTAC
* * ***
64766267 AAAATTACCAAAATACTCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATAC-CCTAGTTTGTAAAATTACCAAAATACCCTCGACATAT
*
64766321 AAAATTACCAAAATATCCCTAGTTTGTAAAATTACCAAAATACCCTCGACATGT
1 AAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCTCGACATAT
*** * * *
64766375 AAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACC
1 AAAATTACCAAAATACCCTAG-TTTGTAAAATTACCAAAATACC
64766419 ATTGATTTAC
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 5 0.06
54 78 0.93
55 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTCGACATAT
Found at i:64766435 original size:81 final size:80
Alignment explanation
Indices: 64766253--64766435 Score: 181
Period size: 81 Copynumber: 2.2 Consensus size: 80
64766243 ATTATCGTTT
* ** * **
64766253 TACCCTTGGTTTACAAAATTACCAAAATACTCCTAGTTTGTAAAATTACTAAAATACCCTTGGTT
1 TACCCTTGATTTAC-AAATTACCAAAATACTCCTAGCATGTAAAATTACTAAAATACCCTCGACT
64766318 TATAAAATTACCAAAA
65 TATAAAATTACCAAAA
* * * * *
64766334 TATCCCTAGTTTGTA-AAATTACCAAAATAC-CCTCGACATGTAAAATTATTGAAATACCCTCGA
1 TA-CCCTTGATT-TACAAATTACCAAAATACTCCTAG-CATGTAAAATTACTAAAATACCCTCGA
* *
64766397 CTTGTAAAATTACCAAAG
63 CTTATAAAATTACCAAAA
*
64766415 TACCATTGATTTACAGAATTA
1 TACCCTTGATTTACA-AATTA
64766436 TTGTTTTACC
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
79 2 0.02
80 11 0.13
81 60 0.73
82 7 0.09
83 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (80 bp):
TACCCTTGATTTACAAATTACCAAAATACTCCTAGCATGTAAAATTACTAAAATACCCTCGACTT
ATAAAATTACCAAAA
Found at i:64766472 original size:27 final size:27
Alignment explanation
Indices: 64766145--64766472 Score: 137
Period size: 27 Copynumber: 12.1 Consensus size: 27
64766135 ATTACCTTTT
* **
64766145 TACCCTCGATTTATAAAATTA-CCATTT
1 TACCCTCGATTTATAAAATTATCGA-AA
* * **
64766172 TACCCTCGATTTATAGAATTA-CCATTT
1 TACCCTCGATTTATAAAATTATCGA-AA
***
64766199 TACCCTCGATTTATAAAATTATCGTTT
1 TACCCTCGATTTATAAAATTATCGAAA
* * ***
64766226 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTATCGAAA
* * * * *
64766253 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTATCGAAA
* * *
64766280 TACTCCTAG-TTTGTAAAATTA-CTAAAA
1 TAC-CCTCGATTTATAAAATTATC-GAAA
* * * *
64766307 TACCCTTGGTTTATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTATCGAAA
* * * *
64766334 TATCCCTAG-TTTGTAAAATTACCAAAA
1 TA-CCCTCGATTTATAAAATTATCGAAA
** * *
64766361 TACCCTCGACATGTAAAATTATTGAAA
1 TACCCTCGATTTATAAAATTATCGAAA
* * *
64766388 TACCCTCGACTTGTAAAATTA-CCAAA
1 TACCCTCGATTTATAAAATTATCGAAA
* * * * * ***
64766414 GTACCATTGATTTACAGAATTATTGTTT
1 -TACCCTCGATTTATAAAATTATCGAAA
*
64766442 TACCCTCGATTTACAAAATTATCGAAA
1 TACCCTCGATTTATAAAATTATCGAAA
64766469 TACC
1 TACC
64766473 TCTGTAGGGT
Statistics
Matches: 244, Mismatches: 48, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
26 13 0.05
27 220 0.90
28 11 0.05
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTATCGAAA
Found at i:64766488 original size:27 final size:27
Alignment explanation
Indices: 64766458--64766612 Score: 231
Period size: 27 Copynumber: 5.7 Consensus size: 27
64766448 CGATTTACAA
*
64766458 AATTATCGAAATACCTCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
64766485 AATTA-CTGAAATACCCTTGTAGGGTAG
1 AATTATC-GAAATACCCCTGTAGGGTAG
* *
64766512 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
64766539 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
64766566 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
64766593 AATTATCGAAATACCCCTGT
1 AATTATCGAAATACCCCTGT
64766613 TGGTATATGA
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 112 0.98
28 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:64766668 original size:44 final size:44
Alignment explanation
Indices: 64766610--64766699 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
64766600 GAAATACCCC
64766610 TGTTGGTATATGAATGACTTGACTGTGATTGTTTGATTCAAATA
1 TGTTGGTATATGAATGACTTGACTGTGATTGTTTGATTCAAATA
64766654 TGTTGGTATATGAATGACTTGACTGTGATTGTTTGATTCAAATA
1 TGTTGGTATATGAATGACTTGACTGTGATTGTTTGATTCAAATA
64766698 TG
1 TG
64766700 GGCATGACAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (44 bp):
TGTTGGTATATGAATGACTTGACTGTGATTGTTTGATTCAAATA
Found at i:64767240 original size:27 final size:27
Alignment explanation
Indices: 64767210--64767308 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
64767200 ATTCTGTTAA
* *
64767210 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
64767237 GTGGCTATGCCACAAATATCT-ATTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
64767264 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
64767291 GTGACTCTGTCACAATAT
1 GTGGCTATGCCACAATAT
64767309 ATGATAACTG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.79
28 6 0.10
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:64767483 original size:31 final size:31
Alignment explanation
Indices: 64767448--64767526 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
64767438 TTGCATTCAC
* *
64767448 ATTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
* * *
64767479 ATTCTGATCCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
64767510 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
64767527 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:64767491 original size:6 final size:6
Alignment explanation
Indices: 64767476--64767535 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
64767466 TTACCTAATA
* *
64767476 CTGATT CTGATC CTGATT CTG-TCAC CTGATT CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
64767525 CT-AGTT CTGAT
1 CTGA-TT CTGAT
64767536 AATGTTTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 2 0.04
6 38 0.84
7 4 0.09
8 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.45
Consensus pattern (6 bp):
CTGATT
Found at i:64767524 original size:12 final size:12
Alignment explanation
Indices: 64767448--64767535 Score: 65
Period size: 12 Copynumber: 7.2 Consensus size: 12
64767438 TTGCATTCAC
*
64767448 ATTCTGATTTTG
1 ATTCTGATTCTG
*
64767460 ATTCTG-TTACCTA
1 ATTCTGATT--CTG
*
64767473 ATACTGATTCTG
1 ATTCTGATTCTG
*
64767485 ATCCTGATTCTG
1 ATTCTGATTCTG
*
64767497 -TCACCTGATTCTG
1 AT--TCTGATTCTG
64767510 ATTCTGATTCTG
1 ATTCTGATTCTG
64767522 ATTCT-AGTTCTG
1 ATTCTGA-TTCTG
64767534 AT
1 AT
64767536 AATGTTTCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
11 4 0.06
12 40 0.63
13 16 0.25
14 3 0.05
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (12 bp):
ATTCTGATTCTG
Found at i:64769293 original size:20 final size:20
Alignment explanation
Indices: 64769256--64769297 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
64769246 ACATTTCCAA
64769256 ATCATAAAACATTATAACCAT
1 ATCATAAAACATTATAA-CAT
* *
64769277 ATCATAAACCA-TGTAACAT
1 ATCATAAAACATTATAACAT
64769296 AT
1 AT
64769298 TTCCCAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 4 0.21
21 10 0.53
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (20 bp):
ATCATAAAACATTATAACAT
Found at i:64770033 original size:41 final size:42
Alignment explanation
Indices: 64769955--64770092 Score: 136
Period size: 43 Copynumber: 3.3 Consensus size: 42
64769945 TATCCTAGAT
* * * * **
64769955 ATGGTCTTACATGTTATCACATATCGATGCCTCTGTCCCAGAC
1 ATGGTCTTACACGTAAT-TCATATTGATGCCAATGTCCCAGAC
* * * *
64769998 AGGGTTTTACACG-AA-TCATATATGATGTCAATGTCCCAAAC
1 ATGGTCTTACACGTAATTCATAT-TGATGCCAATGTCCCAGAC
*
64770039 ATGGTCTTACACGTAATTTCATATTGATGCCAATGTCCAAGAC
1 ATGGTCTTACACGTAA-TTCATATTGATGCCAATGTCCCAGAC
64770082 ATGGTCTTACA
1 ATGGTCTTACA
64770093 AGAAATCACA
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
40 5 0.07
41 25 0.33
42 3 0.04
43 37 0.49
44 6 0.08
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGGTCTTACACGTAATTCATATTGATGCCAATGTCCCAGAC
Found at i:64773105 original size:16 final size:16
Alignment explanation
Indices: 64773084--64773123 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
64773074 AAATGAGAGG
64773084 GAGTAAGTATAAAGCT
1 GAGTAAGTATAAAGCT
64773100 GAGTAAGTATAAAGCT
1 GAGTAAGTATAAAGCT
*
64773116 TAGTAAGT
1 GAGTAAGT
64773124 TGCATGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.28
Consensus pattern (16 bp):
GAGTAAGTATAAAGCT
Found at i:64773462 original size:47 final size:48
Alignment explanation
Indices: 64773389--64773518 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 48
64773379 TATAATGCCA
* * * *
64773389 ATGCCGTGTCCTAGACATGGTATTACACTGGCTCATCCATCAA-G-T-CG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CA-AAACGATACG
*
64773436 ATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAACCGATACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAAA-CGATA-CG
*
64773485 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC
64773519 TCATATATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
44 2 0.03
45 2 0.03
46 3 0.04
47 30 0.43
49 33 0.47
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAAACGATACG
Found at i:64773770 original size:19 final size:19
Alignment explanation
Indices: 64773727--64773772 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
64773717 AGAGGTTTGG
*
64773727 TTATCCCTAAGTTATATTA
1 TTATCTCTAAGTTATATTA
64773746 TTATCTCTAAGTTATATTA
1 TTATCTCTAAGTTATATTA
64773765 TTATCTCT
1 TTATCTCT
64773773 TTCGAGACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.52
Consensus pattern (19 bp):
TTATCTCTAAGTTATATTA
Found at i:64777618 original size:51 final size:49
Alignment explanation
Indices: 64777506--64777743 Score: 243
Period size: 49 Copynumber: 4.8 Consensus size: 49
64777496 GTGAGTACAT
* * * * * *
64777506 GTGTGTAGTACTACGTGCAGGCTACGACGTGTAC-CATACTGTTAAGTCGC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAGA-TGTT-GGTCAC
* * **
64777556 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCTATCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAGATG--TT-GGTCAC
* *
64777607 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGTGAGGTCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAGATGT-TGGTCAC
*
64777656 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGTTGGTCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAGA-TGTTGGTCAC
* *
64777705 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-TCAGAT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAGAT
64777744 AGCTTCGGCT
Statistics
Matches: 161, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
48 2 0.01
49 82 0.51
50 37 0.23
51 40 0.25
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAGATGTTGGTCAC
Found at i:64777691 original size:23 final size:23
Alignment explanation
Indices: 64777614--64777691 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
64777604 CACGTGTGTA
64777614 GTACTAAGTGCAGGCTACTACGT
1 GTACTAAGTGCAGGCTACTACGT
**
64777637 GTA-TCAGATGTG-AGG-TCACGTGTGT
1 GTACT-A-A-GTGCAGGCT-AC-TACGT
64777662 AGTACTAAGTGCAGGCTACTACGT
1 -GTACTAAGTGCAGGCTACTACGT
64777686 GTACTA
1 GTACTA
64777692 GATTGTTGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
22 1 0.02
23 11 0.26
24 12 0.29
25 12 0.29
26 5 0.12
27 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (23 bp):
GTACTAAGTGCAGGCTACTACGT
Found at i:64777739 original size:98 final size:99
Alignment explanation
Indices: 64777507--64777743 Score: 282
Period size: 100 Copynumber: 2.4 Consensus size: 99
64777497 TGAGTACATG
* * * * * *
64777507 TGTGTAGTACTACGTGCAGGCTACGACGTGTACCATACTGTTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTGAAGTCACATGTGTAGTACTAAGT
* * *
64777572 GCAGGCTACTATGCGTACTCAATGACTTCTATCACG
65 GCAGGCTACTACGCGTACTCAATGA-TTCGATCACA
* *
64777608 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTGAGGTCACGTGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTGAAGTCACATGTGTAGTACTAAGTG
* *
64777673 CAGGCTACTACGTGTACT-AGATTG-TT-GGTCACA
66 CAGGCTACTACGCGTACTCA-A-TGATTCGATCACA
* *
64777706 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
64777744 AGCTTCGGCT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
98 40 0.34
99 3 0.03
100 41 0.34
101 35 0.29
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTGAAGTCACATGTGTAGTACTAAGTG
CAGGCTACTACGCGTACTCAATGATTCGATCACA
Found at i:64785928 original size:47 final size:46
Alignment explanation
Indices: 64785863--64786030 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 46
64785853 TTTGTGTGCT
**
64785863 AGTGTAAGACATGTCTGGGACATGCATCGACCA-CATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-CCATCAAGATGAGAGCC
* * *
64785909 AGTGTAAGACCATGTCTGGGACATTGCATCGGCATTAAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGCCATCAAGATGAGAGCC
* * * * *
64785957 AGTATAAGACATGTCTGGAACATGCATTGGTC-TCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCA-TCGCCATCAAGATG-AGAGCC
**
64786003 AGCATAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
64786031 ATCGGCTACG
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 46 0.45
47 31 0.30
48 24 0.24
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCATCAAGATGAGAGCC
Found at i:64788737 original size:51 final size:51
Alignment explanation
Indices: 64788568--64788853 Score: 261
Period size: 51 Copynumber: 5.7 Consensus size: 51
64788558 AGCTATCTGA
* * * * *
64788568 TACGCATAGTAGCCTGCACTTAGTACTACACATGCG-GCCAA--CAATCCG-G
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-AT-TGAG
* * * **
64788617 TACACGTAGTAGCCTGCACTTAGTATTACACACGTGA-C--CTTCCATCTGA-
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT-CAT-TGAG
* * * *
64788666 TACACGTAGGAGCCTGCACTTAATACTACACACGTGATCGAAGTCATTGAG
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAG
64788717 TACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAG
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAG
* * **
64788768 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGT-A-TG-G
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-TCGA-AGTCATTGAG
* *
64788818 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TACGCATAGTAGCCTGCACTTAGTACTACACACGTG
64788854 TACTTACAAT
Statistics
Matches: 202, Mismatches: 24, Indels: 21
0.82 0.10 0.09
Matches are distributed among these distances:
49 70 0.35
50 38 0.19
51 87 0.43
52 4 0.02
53 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (51 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAG
Found at i:64788753 original size:100 final size:100
Alignment explanation
Indices: 64788572--64788853 Score: 279
Period size: 101 Copynumber: 2.8 Consensus size: 100
64788562 ATCTGATACG
* * * * * ** *
64788572 CATAGTAGCCTGCACTTAGTACTACACATGCGGC-CAACAATCCGGTACACGTAGTAGCCTGCAC
1 CATAGGAGCCTGCACTTAATACTACACACGCGACTCAACAGTATGGTACACATAGTAGCCTGCAC
* **
64788636 TTAGTATTACACACGTGA-C-CTTCCATCTGA-TACA
66 TTAGTACTACACACGTGATCAAGT-CAT-TGAGTACA
* * * *
64788670 CGTAGGAGCCTGCACTTAATACTACACACGTGA-TCGA-AGTCATTGAGTACGCATAGTAGCCTG
1 CATAGGAGCCTGCACTTAATACTACACACGCGACTCAACAGT-A-TG-GTACACATAGTAGCCTG
*
64788733 CACTTAGTACTACACACGTGATCGAAGTCATTGAGTACG
63 CACTTAGTACTACACACGTGATC-AAGTCATTGAGTACA
* * * * *
64788772 CATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACACGTAGTAGCCTGCAC
1 CATAGGAGCCTGCACTTAATACTACACACGCGACTCAACAGTATGGTACACATAGTAGCCTGCAC
64788837 TTAGTACTACACACGTG
66 TTAGTACTACACACGTG
64788854 TACTTACAAT
Statistics
Matches: 149, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
97 2 0.01
98 29 0.19
99 1 0.01
100 35 0.23
101 39 0.26
102 36 0.24
103 4 0.03
104 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (100 bp):
CATAGGAGCCTGCACTTAATACTACACACGCGACTCAACAGTATGGTACACATAGTAGCCTGCAC
TTAGTACTACACACGTGATCAAGTCATTGAGTACA
Found at i:64795070 original size:20 final size:20
Alignment explanation
Indices: 64795016--64795070 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
64795006 TGTTAAGAAG
*
64795016 AAATTTTCTAATTAAGATTTA
1 AAATTTT-TATTTAAGATTTA
* *
64795037 AAATTTTTGTTTAA-ATTTT
1 AAATTTTTATTTAAGATTTA
64795056 AAATTTTTATGTTAA
1 AAATTTTTAT-TTAA
64795071 TAAAGGGGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 13 0.45
20 9 0.31
21 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (20 bp):
AAATTTTTATTTAAGATTTA
Found at i:64810049 original size:15 final size:15
Alignment explanation
Indices: 64810031--64810086 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
64810021 TTATCTTGGG
64810031 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
64810046 TTTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
64810061 TTTCTTTA-TCTTGGA
1 TTTCTTTATTC-TGGA
64810076 TTTCTTTATTC
1 TTTCTTTATTC
64810087 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:64819843 original size:43 final size:43
Alignment explanation
Indices: 64819677--64819831 Score: 172
Period size: 43 Copynumber: 3.6 Consensus size: 43
64819667 AACGTCCTAA
* * *
64819677 ACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAG
1 ACATGGTCTTACATGAAATCAAATATCGATGCTAATGTCCCAG
* *
64819720 ACAAGGTCTTACATGAAATCAAATA-CGATGCTGATGTCCCA-
1 ACATGGTCTTACATGAAATCAAATATCGATGCTAATGTCCCAG
* * * *
64819761 ACATGGTCTTACACGTAAATCATAA-GTCAATGCCAATGTCCCAG
1 ACATGGTCTTACATG-AAATCA-AATATCGATGCTAATGTCCCAG
* *
64819805 ACGTGGTCTTACATGAAATCACATATC
1 ACATGGTCTTACATGAAATCAAATATC
64819832 AGATCTTATG
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
41 13 0.14
42 20 0.22
43 46 0.50
44 13 0.14
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
ACATGGTCTTACATGAAATCAAATATCGATGCTAATGTCCCAG
Found at i:64834679 original size:27 final size:27
Alignment explanation
Indices: 64834649--64834852 Score: 189
Period size: 27 Copynumber: 7.6 Consensus size: 27
64834639 ATATTAAGTC
* *
64834649 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
64834676 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
64834704 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* ** *
64834731 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAATCAACT
** *
64834758 CGCACACTTAGTGC-ATCATTTTC-ATT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * ** *
64834784 TGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
64834811 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
64834838 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64834853 GTACAATTTA
Statistics
Matches: 152, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.14
27 105 0.69
28 25 0.16
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:64834804 original size:53 final size:53
Alignment explanation
Indices: 64834649--64834851 Score: 230
Period size: 55 Copynumber: 3.8 Consensus size: 53
64834639 ATATTAAGTC
* * * **
64834649 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAA-T
* *
64834704 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGTCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAAT
** * *
64834758 CGCACACTTAGTGC-ATCATTTTC-ATTTGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGC-ACATGGTCAAAT
* *
64834811 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
64834852 TGTACAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
53 43 0.34
54 36 0.29
55 45 0.36
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCACATGGTCAAAT
Found at i:64842756 original size:27 final size:27
Alignment explanation
Indices: 64842726--64842930 Score: 189
Period size: 27 Copynumber: 7.6 Consensus size: 27
64842716 ATATTAAGTC
* *
64842726 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
64842753 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
64842781 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* ** *
64842808 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAATCAACT
** **
64842835 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * ** *
64842862 TGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
64842889 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
64842916 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64842931 GTACAATTTA
Statistics
Matches: 152, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 125 0.82
28 26 0.17
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:64842921 original size:54 final size:53
Alignment explanation
Indices: 64842726--64842929 Score: 230
Period size: 54 Copynumber: 3.8 Consensus size: 53
64842716 ATATTAAGTC
* * * **
64842726 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAA-T
* *
64842781 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGTCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAAT
** ** *
64842835 CGCACACTTAGTGC-ATCATTTTCATTTTGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGC-ACATGGTCAAAT
* *
64842889 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
64842930 TGTACAATTT
Statistics
Matches: 125, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
53 2 0.02
54 77 0.62
55 46 0.37
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCACATGGTCAAAT
Found at i:64848633 original size:42 final size:42
Alignment explanation
Indices: 64848574--64848691 Score: 114
Period size: 44 Copynumber: 2.8 Consensus size: 42
64848564 GATACCACTA
* * * *
64848574 TCCTAGACAGGGCCTTACTTGAAATCAAATATAATGTCC-ATG
1 TCCTAGACATGGTCTTACATGAAATCAAATATAATG-CCAACG
**
64848616 TCCTAGACATGGTCTTACATGTAAATCACAAGT-CGATGCCAACG
1 TCCTAGACATGGTCTTACATG-AAATCA-AA-TATAATGCCAACG
* *
64848660 TCCCAGACATGGTCTTACATGAAATCACATAT
1 TCCTAGACATGGTCTTACATGAAATCAAATAT
64848692 CGGATCCTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 19 0.31
43 14 0.23
44 27 0.44
45 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (42 bp):
TCCTAGACATGGTCTTACATGAAATCAAATATAATGCCAACG
Found at i:64849941 original size:17 final size:16
Alignment explanation
Indices: 64849919--64849952 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
64849909 TATAATGGCG
64849919 TTTGTTTGTTGTTTATT
1 TTTGTTTGTT-TTTATT
64849936 TTTGTTTGTTTTTATT
1 TTTGTTTGTTTTTATT
64849952 T
1 T
64849953 CATAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.06, C:0.00, G:0.15, T:0.79
Consensus pattern (16 bp):
TTTGTTTGTTTTTATT
Found at i:64853102 original size:55 final size:56
Alignment explanation
Indices: 64853015--64853149 Score: 200
Period size: 55 Copynumber: 2.4 Consensus size: 56
64853005 GACCATGGCA
*
64853015 TCGATATATGTGTGCGAGTAAGACCACATTTTACACGTTGGCATCGATATCTGACT
1 TCGATATATGTGTGCGAGTAAGACCACATTTTACACGTTGGCATCAATATCTGACT
* * * * *
64853071 TCGATATAT-TGTGCGAGTAAGACTACGTTTTATATGTTGGCATCAATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACCACATTTTACACGTTGGCATCAATATCTGACT
*
64853126 CCGATATATGTGTGCGAGTAAGAC
1 TCGATATATGTGTGCGAGTAAGAC
64853150 ACTGTCTGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
55 48 0.68
56 23 0.32
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACATTTTACACGTTGGCATCAATATCTGACT
Found at i:64859205 original size:72 final size:72
Alignment explanation
Indices: 64859083--64859220 Score: 240
Period size: 72 Copynumber: 1.9 Consensus size: 72
64859073 ACACTGCTTT
* * *
64859083 CCATCCGCAAATAGATGGTCAGTGCAAACGAGTCATTCAGATTCTTGAGGATATGTTGAGATGTT
1 CCATCCGCAAATAGATGGTCAGTCCAAACGAGTCATTCAGATACTCGAGGATATGTTGAGATGTT
64859148 GACACTG
66 GACACTG
*
64859155 CCATCCGCAAATAGATGGTCAGTCCGAACGAGTCATTCAGATACTCGAGGATATGTTGAGATGTT
1 CCATCCGCAAATAGATGGTCAGTCCAAACGAGTCATTCAGATACTCGAGGATATGTTGAGATGTT
64859220 G
66 G
64859221 CATTCTCGAG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (72 bp):
CCATCCGCAAATAGATGGTCAGTCCAAACGAGTCATTCAGATACTCGAGGATATGTTGAGATGTT
GACACTG
Found at i:64862825 original size:40 final size:40
Alignment explanation
Indices: 64862718--64862881 Score: 210
Period size: 40 Copynumber: 4.2 Consensus size: 40
64862708 TTGATACCCA
* * * *
64862718 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-AAATTCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
64862758 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
64862797 GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
64862837 GGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
64862876 GGCTAA
1 GGCTAA
64862882 ACTCCGAAGG
Statistics
Matches: 111, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 40 0.36
40 71 0.64
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:64862880 original size:79 final size:78
Alignment explanation
Indices: 64862718--64862881 Score: 208
Period size: 79 Copynumber: 2.1 Consensus size: 78
64862708 TTGATACCCA
* * * *
64862718 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACAAATTCTGGGCTAAGCCCGAAGGCATTTGTGCG
1 GGCTAAGTCCCGAAGGCATTTGTACGAGTGACAAA-TCCGGGCTAAGCCCGAAGGCATTTGAGCG
64862783 AGTTACTATATCCG
65 AGTTACTATATCCG
*
64862797 GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGAG
1 GGCTAAGTCCCGAAGGCATTTGTACGAGTGAC-A-AATCCGGGCTAAG-CCCGAAGGCATTTGAG
*
64862861 CTAG-TAGCTATATCC-
63 CGAGTTA-CTATATCCG
64862876 GGCTAA
1 GGCTAA
64862882 ACTCCGAAGG
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
79 46 0.61
80 27 0.36
81 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
GGCTAAGTCCCGAAGGCATTTGTACGAGTGACAAATCCGGGCTAAGCCCGAAGGCATTTGAGCGA
GTTACTATATCCG
Found at i:64871103 original size:39 final size:40
Alignment explanation
Indices: 64870887--64871093 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
64870877 GGATTCATAC
* * *
64870887 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC-AAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
64870927 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64870966 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64871006 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
64871046 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
64871086 CC-GGCTAA
1 CCGGGCTAA
64871094 ACTCCGAAGG
Statistics
Matches: 156, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 41 0.26
40 115 0.74
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:64874983 original size:16 final size:16
Alignment explanation
Indices: 64874962--64874996 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
64874952 ACAGTGATGG
64874962 TTCTTTTGTGTATCTA
1 TTCTTTTGTGTATCTA
64874978 TTCTTTTGTGTATCTA
1 TTCTTTTGTGTATCTA
64874994 TTC
1 TTC
64874997 CTTTATGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.14, G:0.11, T:0.63
Consensus pattern (16 bp):
TTCTTTTGTGTATCTA
Found at i:64879792 original size:33 final size:33
Alignment explanation
Indices: 64879755--64879821 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
64879745 TTATTAAATT
64879755 TCATAATATGGTTGCATGATTAGACGTGGGTTC
1 TCATAATATGGTTGCATGATTAGACGTGGGTTC
64879788 TCATAATATGGTTGCATGATTAGACGTGGGTTC
1 TCATAATATGGTTGCATGATTAGACGTGGGTTC
64879821 T
1 T
64879822 AAGGATTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (33 bp):
TCATAATATGGTTGCATGATTAGACGTGGGTTC
Found at i:64888013 original size:43 final size:43
Alignment explanation
Indices: 64887966--64888086 Score: 120
Period size: 42 Copynumber: 2.8 Consensus size: 43
64887956 CCTCGATTGA
*
64887966 GATTTACGTATAAGACCATGTCTGGGACATTGGCATC-ACATCT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGACAT-T
* * * ** *
64888009 GATTT-CGTGTAAGACCCTATGTGGGACAGAGGCATCGATATT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGACATT
* * * *
64888051 GAATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
64888087 TGTACTTGAT
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
42 30 0.50
43 30 0.50
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGACATT
Found at i:64890885 original size:42 final size:42
Alignment explanation
Indices: 64890826--64890909 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
64890816 TTTGAAACCC
* * *
64890826 AATAATTTTCGAAACCGTTGTTGTTTACGAGAAATCTTAGTT
1 AATAATTTTCGAAACCGTTGTTATTTACGAAAAATCATAGTT
*
64890868 AATAATTTTTGAAACCGTTGTTATTTACGAAAAATCATAGTT
1 AATAATTTTCGAAACCGTTGTTATTTACGAAAAATCATAGTT
64890910 TATTTTAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (42 bp):
AATAATTTTCGAAACCGTTGTTATTTACGAAAAATCATAGTT
Found at i:64892576 original size:42 final size:42
Alignment explanation
Indices: 64892517--64892637 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 42
64892507 TGTGATTTAT
* * *
64892517 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTC
1 GTGTAAGACCCTATCTGGGACATTGGCATCGTATATGATTAC
* * * *
64892559 GTGTAAGACCCTATCTGGGATAGTGGTATCGATATTTGATTAC
1 GTGTAAGACCCTATCTGGGACATTGGCATCG-TATATGATTAC
* *
64892602 ATGTAAGACCAC-ATCTGGGACGTTGGCAT--TATATGA
1 GTGTAAGACC-CTATCTGGGACATTGGCATCGTATATGA
64892638 GCTTATGAGT
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
40 6 0.09
42 26 0.41
43 31 0.48
44 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCCTATCTGGGACATTGGCATCGTATATGATTAC
Found at i:64895360 original size:40 final size:40
Alignment explanation
Indices: 64895322--64895499 Score: 247
Period size: 40 Copynumber: 4.5 Consensus size: 40
64895312 AGTGACTAAT
* *
64895322 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGCTACTATA
*
64895361 TCCCGGGCTAAGTCTCGAAGGCATTTATGCGAGCTACTATA
1 T-CCGGGCTAAGTCCCGAAGGCATTTATGCGAGCTACTATA
64895402 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGCTACTATA
* *
64895442 TCCGGGCTAAGTCCCGAAGGCGTTTA-CCGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGCTA-CTATA
* *
64895481 TCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
64895500 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
38 16 0.12
39 13 0.10
40 97 0.76
41 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTATGCGAGCTACTATA
Found at i:64899708 original size:40 final size:40
Alignment explanation
Indices: 64899610--64899912 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
64899600 TCCTCGTTCA
* * * * *
64899610 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
64899649 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
64899689 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
64899729 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
64899769 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
64899809 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
64899849 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
64899889 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
64899913 CAGCATTCAA
Statistics
Matches: 238, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 37 0.16
40 193 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:64907458 original size:37 final size:39
Alignment explanation
Indices: 64907351--64907503 Score: 171
Period size: 37 Copynumber: 4.1 Consensus size: 39
64907341 ACTAATTCCG
*
64907351 GGCTAAGTCCCGAAGGCA-TTGTGCGAAG-TACTA-ATCC
1 GGCTAAGTCCCGAAGGCATTTATGCG-AGCTACTATATCC
*
64907388 CGCTAA-TCTCCGAAGGCATTTATGCGAGC-ACTATATCC
1 GGCTAAGTC-CCGAAGGCATTTATGCGAGCTACTATATCC
64907426 GGCTAAGTCCCGAA-GCATTTATGC-AGCTACTATATCC
1 GGCTAAGTCCCGAAGGCATTTATGCGAGCTACTATATCC
* *
64907463 GGGCTAAGTCCCGAAGGCGTTTA-CCGAG-TATCTATATCC
1 -GGCTAAGTCCCGAAGGCATTTATGCGAGCTA-CTATATCC
64907502 GG
1 GG
64907504 GTTAAAGCCC
Statistics
Matches: 101, Mismatches: 5, Indels: 19
0.81 0.04 0.15
Matches are distributed among these distances:
36 5 0.05
37 39 0.39
38 39 0.39
39 18 0.18
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTATGCGAGCTACTATATCC
Found at i:64911671 original size:40 final size:40
Alignment explanation
Indices: 64911574--64911874 Score: 360
Period size: 40 Copynumber: 7.6 Consensus size: 40
64911564 TCCTCGGTCA
* * * * *
64911574 AATGCCTTC-GGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
64911612 AATGCCTTCGGGACATAACCCGGATTTAACAACTCCCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
64911652 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
64911692 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
64911732 AATGCCTTCGGGACTTAACCCGGATTAAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
64911772 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCG-ACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
64911811 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
64911851 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
64911875 CAGCATTCAA
Statistics
Matches: 232, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
38 12 0.05
39 49 0.21
40 166 0.72
41 5 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:64916665 original size:28 final size:28
Alignment explanation
Indices: 64916600--64916695 Score: 133
Period size: 27 Copynumber: 3.5 Consensus size: 28
64916590 CATGAGATTG
* * * *
64916600 GCACTAAGTGTGCGGGTTTAAAT-TGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
64916627 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
64916655 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
64916682 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
64916696 GACTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 44 0.70
28 19 0.30
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:64916709 original size:29 final size:27
Alignment explanation
Indices: 64916625--64916709 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
64916615 GTTTAAATTG
* *
64916625 TAGCACTAAGTGTGCGAGTTTGATTATA
1 TAGCACTAAGTGTGCGA-CTTAATTATA
* *
64916653 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGACTTAATTATA
*
64916680 TAGCACTGAGTGTGCGGACTTAATATATA
1 TAGCACTAAGTGTGC-GACTTAAT-TATA
64916709 T
1 T
64916710 TTTTGAATCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.45
28 23 0.45
29 5 0.10
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGACTTAATTATA
Found at i:64924629 original size:27 final size:28
Alignment explanation
Indices: 64924545--64924642 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
64924535 CATGAGATTG
* * * *
64924545 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
64924574 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
64924602 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
64924629 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
64924643 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:64924653 original size:27 final size:27
Alignment explanation
Indices: 64924573--64924655 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
64924563 TAAATTGTAC
* *
64924573 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
64924601 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
64924628 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
64924655 A
1 A
64924656 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:64924656 original size:29 final size:27
Alignment explanation
Indices: 64924545--64924656 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
64924535 CATGAGATTG
** * *
64924545 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
64924574 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
64924602 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
64924629 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
64924657 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Done.