Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 66 of 186
Found at i:20841836 original size:17 final size:17
Alignment explanation
Indices: 20841804--20841836 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20841794 CAACTTCTAC
20841804 TTAGTTTTAAACATTAT
1 TTAGTTTTAAACATTAT
20841821 TTAGTCTTTAAA-ATTA
1 TTAGT-TTTAAACATTA
20841837 AGTTTTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TTAGTTTTAAACATTAT
Found at i:20865059 original size:12 final size:13
Alignment explanation
Indices: 20865042--20865070 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
20865032 AACCAAATGC
20865042 AAAGAAGAAGA-A
1 AAAGAAGAAGAGA
20865054 AAAGAAGAAGAGA
1 AAAGAAGAAGAGA
20865067 AAAG
1 AAAG
20865071 TAGACCAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAAGAAGAAGAGA
Found at i:20866774 original size:16 final size:15
Alignment explanation
Indices: 20866755--20866784 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20866745 AATTTATTTT
20866755 AATAATAATTATTAAC
1 AATAATAATT-TTAAC
20866771 AATAATAATTTTAA
1 AATAATAATTTTAA
20866785 ATTTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
AATAATAATTTTAAC
Found at i:20867377 original size:23 final size:23
Alignment explanation
Indices: 20867326--20867387 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
20867316 ATTGCATTAA
20867326 AAAATAATAAATATTTTATAGTAT
1 AAAAT-ATAAATATTTTATAGTAT
*
20867350 AAAATATGAAA-ATTTTA-ATTAT
1 AAAATAT-AAATATTTTATAGTAT
20867372 ATAAATATAAATATTT
1 A-AAATATAAATATTT
20867388 GTTTAAATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 8 0.24
23 18 0.53
24 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (23 bp):
AAAATATAAATATTTTATAGTAT
Found at i:20868077 original size:31 final size:29
Alignment explanation
Indices: 20868009--20868080 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 29
20867999 TAATACATGG
20868009 ACTTTAATTTGGTTCAATTATAAATATGAA
1 ACTTTAATTTGGTTCAATTATAAATA-GAA
*
20868039 ACTTTTAATTGTGGTTCAAAGTTATACATA-AA
1 AC-TTTAATT-TGGTTC-AA-TTATAAATAGAA
20868071 ACTTTAATTT
1 ACTTTAATTT
20868081 TGATTTAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
30 3 0.08
31 14 0.38
32 10 0.27
33 2 0.05
34 8 0.22
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (29 bp):
ACTTTAATTTGGTTCAATTATAAATAGAA
Found at i:20870347 original size:29 final size:29
Alignment explanation
Indices: 20870310--20870366 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
20870300 CACCTTGACA
* * *
20870310 CGAATTCTCAATGAACAAGTTCTTCATCG
1 CGAACTCTCAACGAACAAGTTCTCCATCG
20870339 CGAACTCTCAACGAACAAGTTCTCCATC
1 CGAACTCTCAACGAACAAGTTCTCCATC
20870367 TCTTCCATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAGTTCTCCATCG
Found at i:20878621 original size:47 final size:45
Alignment explanation
Indices: 20878552--20878674 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 45
20878542 ATATTTGAGT
20878552 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGA-GATGT-AACTAGGC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGGATGTGAAC---GC
* *
20878598 ATCCGAGCTCGTTGAGTTGAGTCC-AGGTTCACTTATGGATGTGAACGC
1 -TCCGAGCTCGTTGAGTTGAGTCCGA-GTTC-GTGA-GGATGTGAACGC
20878646 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCG
20878675 CTTATGGGCG
Statistics
Matches: 67, Mismatches: 3, Indels: 14
0.80 0.04 0.17
Matches are distributed among these distances:
46 27 0.40
47 28 0.42
48 4 0.06
50 5 0.07
51 3 0.04
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.28
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGGATGTGAACGC
Found at i:20882263 original size:13 final size:13
Alignment explanation
Indices: 20882245--20882269 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20882235 TGCGGTTCGA
20882245 AATAGCTTCGGCG
1 AATAGCTTCGGCG
20882258 AATAGCTTCGGC
1 AATAGCTTCGGC
20882270 TACACGAGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (13 bp):
AATAGCTTCGGCG
Found at i:20885020 original size:47 final size:46
Alignment explanation
Indices: 20884911--20885042 Score: 171
Period size: 47 Copynumber: 2.8 Consensus size: 46
20884901 AATAGGGTAT
*
20884911 AATGCTGATGCCATGTCCCAGACATGGTCTTACACT-GACTTACATCA
1 AATGCCGATGCCATGTCCCAGACAT-GTCTTACACTAG-CTTACATCA
* *
20884958 AGAGGCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTC
1 A-ATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCT-TACATC-A
20885005 AATGCCGATGCCATGTCCCAGACATGTCTTACACTAGC
1 AATGCCGATGCCATGTCCCAGACATGTCTTACACTAGC
20885043 ACACAAATAT
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
46 24 0.32
47 45 0.59
48 7 0.09
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
AATGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTTACATCA
Found at i:20896926 original size:80 final size:80
Alignment explanation
Indices: 20896793--20896947 Score: 292
Period size: 80 Copynumber: 1.9 Consensus size: 80
20896783 AGTCTGTGAA
*
20896793 TTTCCAGATGTATTTCCAGAGGAATTGCCTGGATTGCCTCCGAATAGAGAGATAGAGTTTGCCAT
1 TTTCCAGATGTATTTCCAGAGGAATTGCCTGGATTGCCTCCGAACAGAGAGATAGAGTTTGCCAT
20896858 TGATTTGTTGATGAG
66 TGATTTGTTGATGAG
*
20896873 TTTCCAGATGTATTTCCAGAGGAATTGCCTGGATTGCCTTCGAACAGAGAGATAGAGTTTGCCAT
1 TTTCCAGATGTATTTCCAGAGGAATTGCCTGGATTGCCTCCGAACAGAGAGATAGAGTTTGCCAT
20896938 TGATTTGTTG
66 TGATTTGTTG
20896948 TCGGGAACTG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (80 bp):
TTTCCAGATGTATTTCCAGAGGAATTGCCTGGATTGCCTCCGAACAGAGAGATAGAGTTTGCCAT
TGATTTGTTGATGAG
Found at i:20900595 original size:68 final size:68
Alignment explanation
Indices: 20900523--20900677 Score: 310
Period size: 68 Copynumber: 2.3 Consensus size: 68
20900513 CATCATGTGT
20900523 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
1 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
20900588 TAG
66 TAG
20900591 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
1 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
20900656 TAG
66 TAG
20900659 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
20900678 AATTGGCTAG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
TAG
Found at i:20907528 original size:10 final size:10
Alignment explanation
Indices: 20907513--20907551 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
20907503 TACGTTCAGT
20907513 AAAACATTTC
1 AAAACATTTC
20907523 AAAACATTTC
1 AAAACATTTC
*
20907533 AAAACATTTG
1 AAAACATTTC
*
20907543 AAAGCATTT
1 AAAACATTT
20907552 TTTTAGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (10 bp):
AAAACATTTC
Found at i:20907706 original size:30 final size:30
Alignment explanation
Indices: 20907670--20907728 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
20907660 CTCTGGCGAT
20907670 GTCACATGAAAGTGCTTTCGAAAACTAAGA
1 GTCACATGAAAGTGCTTTCGAAAACTAAGA
20907700 GTCACATGAAAGTGCTTTCGAAAACTAAG
1 GTCACATGAAAGTGCTTTCGAAAACTAAG
20907729 TCATTGCTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (30 bp):
GTCACATGAAAGTGCTTTCGAAAACTAAGA
Found at i:20919858 original size:16 final size:16
Alignment explanation
Indices: 20919837--20919867 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
20919827 TCAGCAAATC
20919837 TCGAAATGCCGAAAAA
1 TCGAAATGCCGAAAAA
20919853 TCGAAATGCCGAAAA
1 TCGAAATGCCGAAAA
20919868 GCTGAAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (16 bp):
TCGAAATGCCGAAAAA
Found at i:20920168 original size:28 final size:29
Alignment explanation
Indices: 20920085--20920180 Score: 149
Period size: 29 Copynumber: 3.3 Consensus size: 29
20920075 GAAAGCATGA
*
20920085 ATATGAATGTGATTTGGGCCTAATGGGAC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
20920114 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
20920143 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
20920171 ATATGCATGT
1 ATATGAATGT
20920181 ATGTAGACTT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
28 23 0.37
29 39 0.63
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:20927946 original size:30 final size:30
Alignment explanation
Indices: 20927912--20927972 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
20927902 CTTTGGGAAG
20927912 ATTCATCTATCTCTTCTCCTTGGGCATGGC
1 ATTCATCTATCTCTTCTCCTTGGGCATGGC
20927942 ATTCATCTATCTCTTCTCCTTGGGCATGGC
1 ATTCATCTATCTCTTCTCCTTGGGCATGGC
20927972 A
1 A
20927973 CAATTCCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.15, C:0.30, G:0.16, T:0.39
Consensus pattern (30 bp):
ATTCATCTATCTCTTCTCCTTGGGCATGGC
Found at i:20935559 original size:27 final size:27
Alignment explanation
Indices: 20935519--20935630 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
20935509 AGGAAGCGTC
*
20935519 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
20935546 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
20935573 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
20935601 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
20935627 CTGG
1 CTGG
20935631 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:20935623 original size:54 final size:54
Alignment explanation
Indices: 20935519--20935630 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
20935509 AGGAAGCGTC
*
20935519 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
20935573 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
20935627 CTGG
1 CTGG
20935631 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:20946927 original size:16 final size:16
Alignment explanation
Indices: 20946906--20946952 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
20946896 GGTAAATCCC
* *
20946906 GAAATGCCGAAAAGTA
1 GAAATGCTGAAAAGCA
* *
20946922 GAAATGCTAAAAAACA
1 GAAATGCTGAAAAGCA
20946938 GAAATGCTGAAAAGC
1 GAAATGCTGAAAAGC
20946953 TGAAGGCTTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.53, C:0.13, G:0.21, T:0.13
Consensus pattern (16 bp):
GAAATGCTGAAAAGCA
Found at i:20947348 original size:28 final size:28
Alignment explanation
Indices: 20947181--20947342 Score: 261
Period size: 28 Copynumber: 5.7 Consensus size: 28
20947171 TGAATATTAT
20947181 TTGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
*
20947209 TTTGGGCCTAATGGGTCATATGAATGTGA
1 -TTGGGCCTAATGGGCCATATGAATGTGA
*
20947238 TTTGGGCCGAATGGGCCATATGAATGTGA
1 -TTGGGCCTAATGGGCCATATGAATGTGA
*
20947267 TTAGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
*
20947295 TTGGGTCTAATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGTGA
*
20947323 TTGGGCCTAGTGGGCCATAT
1 TTGGGCCTAATGGGCCATAT
20947343 ACATGTATGT
Statistics
Matches: 124, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
28 70 0.56
29 54 0.44
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGTGA
Found at i:20950000 original size:133 final size:133
Alignment explanation
Indices: 20949762--20950027 Score: 505
Period size: 133 Copynumber: 2.0 Consensus size: 133
20949752 GTTTTCATGT
*
20949762 AACAGGGATAGAACAATTTCTGGATCCCCTGATCTGACTTTGGAAATTCACTATAAACTAACCAG
1 AACAGGGACAGAACAATTTCTGGATCCCCTGATCTGACTTTGGAAATTCACTATAAACTAACCAG
20949827 AGATAATTAGAAGTCATGCTCTATATTTACAGATTCCTTTTCGAGTCTAGTTTCTTTAGAAACAA
66 AGATAATTAGAAGTCATGCTCTATATTTACAGATTCCTTTTCGAGTCTAGTTTCTTTAGAAACAA
20949892 ACG
131 ACG
*
20949895 AACAGGGCCAGAACAATTTCTGGATCCCCTGATCTGACTTTGGAAATTCACTATAAACTAACCAG
1 AACAGGGACAGAACAATTTCTGGATCCCCTGATCTGACTTTGGAAATTCACTATAAACTAACCAG
*
20949960 AGATAATTAGAAGTCATGCTCTATATTTACAGATTCCTTTTCTAGTCTAGTTTCTTTAGAAACAA
66 AGATAATTAGAAGTCATGCTCTATATTTACAGATTCCTTTTCGAGTCTAGTTTCTTTAGAAACAA
20950025 ACG
131 ACG
20950028 GCATAGGTAT
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 130 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (133 bp):
AACAGGGACAGAACAATTTCTGGATCCCCTGATCTGACTTTGGAAATTCACTATAAACTAACCAG
AGATAATTAGAAGTCATGCTCTATATTTACAGATTCCTTTTCGAGTCTAGTTTCTTTAGAAACAA
ACG
Found at i:20956335 original size:20 final size:21
Alignment explanation
Indices: 20956312--20956352 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20956302 AGCCACTGAA
*
20956312 GGGTGGTC-GCAGCTGCCAAG
1 GGGTGGTCAGCAGCCGCCAAG
20956332 GGGTGGTCAGCAGCCGCCAAG
1 GGGTGGTCAGCAGCCGCCAAG
20956353 AGGCCGTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (21 bp):
GGGTGGTCAGCAGCCGCCAAG
Found at i:20965725 original size:22 final size:22
Alignment explanation
Indices: 20965661--20965725 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
20965651 GTAAATACGT
* * * *
20965661 TTGGCACAAAGCCATAGTCAAG
1 TTGGCACAGAGCCATAATTAGG
* **
20965683 ATGGCACAGAGCCATTTTTAGG
1 TTGGCACAGAGCCATAATTAGG
20965705 TTGGCACAGAGCCATAATTAG
1 TTGGCACAGAGCCATAATTAG
20965726 ATTAAACGGC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (22 bp):
TTGGCACAGAGCCATAATTAGG
Found at i:20966224 original size:54 final size:52
Alignment explanation
Indices: 20966087--20966279 Score: 228
Period size: 54 Copynumber: 3.6 Consensus size: 52
20966077 TTACCCTACA
* * * *
20966087 AGGGTATTTCAGTAATTTTAC-ACTACAAGGGTATTTTAATAATTTACAAACT-
1 AGGGTATTTCAGTAATTTTACAAGT-CAGGGGTA-TTTCATAATTTACAAATTG
20966139 AGGGGTATTTCAGTAATTTTACAAGTCAGGGGTATTTCGATAATTTCACAAATTG
1 A-GGGTATTTCAGTAATTTTACAAGTCAGGGGTATTTC-ATAATTT-ACAAATTG
* * * * *
20966194 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTCAGTAATTTTACAACTCG
1 AGGGTATTTCAGTAATTTTACAAGTCAGGGGTATTTCA-TAA-TTTACAAATTG
20966248 AGGGTATTTCAGTAATTTTACAAGTCAGGGGT
1 AGGGTATTTCAGTAATTTTACAAGTCAGGGGT
20966280 CTTAACGACC
Statistics
Matches: 122, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
52 4 0.03
53 35 0.29
54 79 0.65
55 4 0.03
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (52 bp):
AGGGTATTTCAGTAATTTTACAAGTCAGGGGTATTTCATAATTTACAAATTG
Found at i:20966243 original size:81 final size:80
Alignment explanation
Indices: 20966087--20966270 Score: 230
Period size: 81 Copynumber: 2.3 Consensus size: 80
20966077 TTACCCTACA
* * ** *
20966087 AGGGTATTTCAGTAATTTTAC-ACTACAAGGGTATTTTAATAATTTACAAACTAGGGGTATTTCA
1 AGGGTATTTCAGTAATTTCACAAAT-TGAGGGTATTTCAATAATTTACAAACTAGGGGTATTTCA
*
20966151 GTAATTTTACAAGTC-
65 GTAATTTTACAACTCG
* *
20966166 AGGGGTATTTC-GATAATTTCACAAATTGAGGGTATTTCAGTAATTTCACAAATTAGGGGTATTT
1 A-GGGTATTTCAG-TAATTTCACAAATTGAGGGTATTTCAATAATTT-ACAAACTAGGGGTATTT
20966230 CAGTAATTTTACAACTCG
63 CAGTAATTTTACAACTCG
*
20966248 AGGGTATTTCAGTAATTTTACAA
1 AGGGTATTTCAGTAATTTCACAA
20966271 GTCAGGGGTC
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 2 0.02
80 33 0.37
81 53 0.59
82 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCAGTAATTTCACAAATTGAGGGTATTTCAATAATTTACAAACTAGGGGTATTTCAG
TAATTTTACAACTCG
Found at i:20966279 original size:27 final size:27
Alignment explanation
Indices: 20966088--20966279 Score: 198
Period size: 27 Copynumber: 7.1 Consensus size: 27
20966078 TACCCTACAA
* *
20966088 GGGTATTTCAGTAATTTTAC-ACTACAA
1 GGGTATTTCAGTAATTTTACAAAT-CAG
* *
20966115 GGGTATTTTAATAA-TTTACAAA-CTAG
1 GGGTATTTCAGTAATTTTACAAATC-AG
*
20966141 GGGTATTTCAGTAATTTTACAAGTCAG
1 GGGTATTTCAGTAATTTTACAAATCAG
* *
20966168 GGGTATTTC-GATAATTTCACAAAT-TG
1 GGGTATTTCAG-TAATTTTACAAATCAG
* *
20966194 AGGGTATTTCAGTAATTTCACAAATTAG
1 -GGGTATTTCAGTAATTTTACAAATCAG
*
20966222 GGGTATTTCAGTAATTTTACAACTC-G
1 GGGTATTTCAGTAATTTTACAAATCAG
*
20966248 AGGGTATTTCAGTAATTTTACAAGTCAG
1 -GGGTATTTCAGTAATTTTACAAATCAG
20966276 GGGT
1 GGGT
20966280 CTTAACGACC
Statistics
Matches: 140, Mismatches: 15, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
25 1 0.01
26 21 0.15
27 114 0.81
28 4 0.03
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCAG
Found at i:20967487 original size:34 final size:34
Alignment explanation
Indices: 20967444--20967510 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
20967434 TAAGAACAAC
*
20967444 TCCTATATTCAACTTTTCAATTCTATACTAAAAA
1 TCCTATATTCAACCTTTCAATTCTATACTAAAAA
**
20967478 TCCTATATTCGGCCTTTCAATTCTATACTAAAA
1 TCCTATATTCAACCTTTCAATTCTATACTAAAA
20967511 CGACAAAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.40
Consensus pattern (34 bp):
TCCTATATTCAACCTTTCAATTCTATACTAAAAA
Found at i:20973445 original size:23 final size:24
Alignment explanation
Indices: 20973402--20973446 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
20973392 ATGCTCAGAT
*
20973402 TCATCACATGAATAAATCAATATG
1 TCATCACATGAACAAATCAATATG
20973426 TCATCA-ATGAACACAA-CAATA
1 TCATCACATGAACA-AATCAATA
20973447 AATTGATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (24 bp):
TCATCACATGAACAAATCAATATG
Found at i:20977801 original size:16 final size:16
Alignment explanation
Indices: 20977780--20977811 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
20977770 GAAACACATT
20977780 AGAGAATTCACAGACA
1 AGAGAATTCACAGACA
20977796 AGAGAATTCACAGACA
1 AGAGAATTCACAGACA
20977812 GCAGGTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.19, T:0.12
Consensus pattern (16 bp):
AGAGAATTCACAGACA
Found at i:20981659 original size:40 final size:39
Alignment explanation
Indices: 20981570--20981753 Score: 155
Period size: 39 Copynumber: 4.6 Consensus size: 39
20981560 TTGAATGATG
*
20981570 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
20981608 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAT
* * *
20981649 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAT
* * *
20981688 TCTGGGTTAAGTCCTAAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGA-TACTAAT
* *
20981727 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGT-CCGAAGGCATTTG
20981754 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
39 55 0.46
40 50 0.42
41 13 0.11
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20981665 original size:39 final size:41
Alignment explanation
Indices: 20981570--20981753 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 41
20981560 TTGAATGATG
*
20981570 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
20981609 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
20981649 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* * ** *
20981688 TCTGGGTTAAGTCCTAAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
20981728 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20981754 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
39 53 0.44
40 56 0.47
41 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:20981775 original size:79 final size:79
Alignment explanation
Indices: 20981625--20981776 Score: 177
Period size: 79 Copynumber: 1.9 Consensus size: 79
20981615 CTAAGATCCG
* ** *
20981625 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATC
*
20981690 TGGGTTAAGTCCTA
66 TCGGTTAAGTCCTA
*
20981704 AAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTA
1 AAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTA
*
20981766 TATC-CGGTTAA
62 AATCTCGGTTAA
20981777 ATTCCGAAGG
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
78 3 0.05
79 35 0.56
80 24 0.39
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATC
TCGGTTAAGTCCTA
Found at i:20993212 original size:41 final size:42
Alignment explanation
Indices: 20993109--20993261 Score: 134
Period size: 44 Copynumber: 3.6 Consensus size: 42
20993099 GGTACAATGT
** * *
20993109 CGATGTCCCAGACATGGTCTTACATGTAATTCAGTATTGATGC
1 CGATGTCCCAGACATGGTCTTACA-CAAAATCAGTATCGATGC
** *
20993152 CTCTGTCCCAGACAAGGTCTTACACAAAATCAG-ATACGAT-C
1 CGATGTCCCAGACATGGTCTTACACAAAATCAGTAT-CGATGC
* *
20993193 CGATGTCCCAGACATGGTCTTACACATAAATCTCA-AATCGAGGC
1 CGATGTCCCAGACATGGTCTTACACA-AAA--TCAGTATCGATGC
*
20993237 C-AGTGTCCCAGACACGGTCTTACAC
1 CGA-TGTCCCAGACATGGTCTTACAC
20993262 GACATCTCAG
Statistics
Matches: 91, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
41 26 0.29
42 12 0.13
43 25 0.27
44 28 0.31
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
CGATGTCCCAGACATGGTCTTACACAAAATCAGTATCGATGC
Found at i:20995393 original size:20 final size:20
Alignment explanation
Indices: 20995368--20995405 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20995358 GACTAAACTG
20995368 AGAACTATAG-AATTTTTTAC
1 AGAACT-TAGAAATTTTTTAC
20995388 AGAACTTAGAAATTTTTT
1 AGAACTTAGAAATTTTTT
20995406 CTACTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (20 bp):
AGAACTTAGAAATTTTTTAC
Found at i:21000550 original size:43 final size:44
Alignment explanation
Indices: 21000453--21000604 Score: 127
Period size: 43 Copynumber: 3.5 Consensus size: 44
21000443 ATACGATTAC
* ** *** *
21000453 CGATATTTGATTT-CGTGTAAGACCATGTTTGGGATGTCGGCAT
1 CGATATTTGATTTACATGTAAGACCATGTCCGGGACAACGACAT
*
21000496 CAAT-TTGTGATTTACATGTAAGACCATGTCCGAGG-CAACGACAT
1 CGATATT-TGATTTACATGTAAGACCATGTCCG-GGACAACGACAT
* * ** *
21000540 C-ATATTTGATTT-CATGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTACATGTAAGACCATGTCCGGGACAACGACAT
21000582 CGATATTTGA-TTACATGTAAGAC
1 CGATATTTGATTTACATGTAAGAC
21000605 GACATATGGA
Statistics
Matches: 89, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.02
42 27 0.30
43 35 0.39
44 23 0.26
45 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (44 bp):
CGATATTTGATTTACATGTAAGACCATGTCCGGGACAACGACAT
Found at i:21002481 original size:21 final size:21
Alignment explanation
Indices: 21002455--21002535 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
21002445 ATCAGTATAC
*
21002455 GACACATAAAGTGCCTAAAAT
1 GACACACAAAGTGCCTAAAAT
* * * * *
21002476 GACACACGAGGTGCCTGATAC
1 GACACACAAAGTGCCTAAAAT
* *
21002497 GACACACGAGGTGCCTAAAAT
1 GACACACAAAGTGCCTAAAAT
*
21002518 ACGACACATAAAGTGCCT
1 --GACACACAAAGTGCCT
21002536 GATCAGTACA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
21 33 0.72
23 13 0.28
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (21 bp):
GACACACAAAGTGCCTAAAAT
Found at i:21002519 original size:23 final size:23
Alignment explanation
Indices: 21002451--21002525 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
21002441 CCTGATCAGT
** *
21002451 ATACGACACATAAAGTGCCTAAA
1 ATACGACACACGAGGTGCCTAAA
*
21002474 AT--GACACACGAGGTGCCT--G
1 ATACGACACACGAGGTGCCTAAA
21002493 ATACGACACACGAGGTGCCTAAA
1 ATACGACACACGAGGTGCCTAAA
21002516 ATACGACACA
1 ATACGACACA
21002526 TAAAGTGCCT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 2 0.05
21 29 0.67
23 12 0.28
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTAAA
Found at i:21002936 original size:15 final size:14
Alignment explanation
Indices: 21002912--21002951 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
21002902 TATATATTAT
21002912 ATAATTCAATCAAA
1 ATAATTCAATCAAA
*
21002926 ATAATTTCAATCAAT
1 ATAA-TTCAATCAAA
21002941 ATAAATTCAAT
1 AT-AATTCAAT
21002952 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:21003211 original size:19 final size:17
Alignment explanation
Indices: 21003183--21003221 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
21003173 AAACCTTCAA
21003183 TTTTCCCTTTTTATCTTTC
1 TTTTCCC-TTTT-TCTTTC
*
21003202 TTTTCTCTTTTTCTTTC
1 TTTTCCCTTTTTCTTTC
21003219 TTT
1 TTT
21003222 CTTTCCCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 4 0.21
19 6 0.32
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCCCTTTTTCTTTC
Found at i:21004035 original size:25 final size:25
Alignment explanation
Indices: 21003988--21004036 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
21003978 ACTCACTTAA
*
21003988 TTTCGTAATTATTTTTAATAAATAT
1 TTTCGTAATTATTTTTAAGAAATAT
*
21004013 TTTC-TAATTCATTTTTTAGAAATA
1 TTTCGTAATT-ATTTTTAAGAAATA
21004037 GAGACCCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTCGTAATTATTTTTAAGAAATAT
Found at i:21006020 original size:22 final size:22
Alignment explanation
Indices: 21005995--21006050 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
21005985 TGCAGGGCTC
*
21005995 ACACGCCCGTGTAGTCCAAGGG
1 ACACGCCCGTGTAGACCAAGGG
* **
21006017 ACACACCCGTGT-GACCCTGGG
1 ACACGCCCGTGTAGACCAAGGG
*
21006038 ACACGCTCGTGTA
1 ACACGCCCGTGTA
21006051 ACCCTAGGAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.21, C:0.34, G:0.29, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTAGACCAAGGG
Found at i:21006040 original size:21 final size:21
Alignment explanation
Indices: 21006014--21006061 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
21006004 TGTAGTCCAA
*
21006014 GGGACACACCCGTGTGACCCT
1 GGGACACACCCGTGTAACCCT
* *
21006035 GGGACACGCTCGTGTAACCCT
1 GGGACACACCCGTGTAACCCT
*
21006056 AGGACA
1 GGGACA
21006062 TGCCCATGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.33, G:0.29, T:0.15
Consensus pattern (21 bp):
GGGACACACCCGTGTAACCCT
Found at i:21007760 original size:20 final size:20
Alignment explanation
Indices: 21007731--21007775 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
21007721 AGCACATGTA
* *
21007731 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
21007751 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
21007771 TTCAT
1 TTCAT
21007776 TTTAGTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:21013744 original size:13 final size:13
Alignment explanation
Indices: 21013728--21013752 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21013718 ACCAGGCCAT
21013728 GTCTAGACACACG
1 GTCTAGACACACG
21013741 GTCTAGACACAC
1 GTCTAGACACAC
21013753 ACTTGTGTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.20, T:0.16
Consensus pattern (13 bp):
GTCTAGACACACG
Found at i:21019180 original size:15 final size:15
Alignment explanation
Indices: 21019160--21019200 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
21019150 GATATGGTAT
21019160 CTTGGATTTCTGTAC
1 CTTGGATTTCTGTAC
* * *
21019175 CTTGGATATCTTTAT
1 CTTGGATTTCTGTAC
21019190 CTTGGATTTCT
1 CTTGGATTTCT
21019201 CTGTCATAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.51
Consensus pattern (15 bp):
CTTGGATTTCTGTAC
Found at i:21023156 original size:31 final size:31
Alignment explanation
Indices: 21023118--21023196 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
21023108 TTTAACGGTT
21023118 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
21023149 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
21023180 ATTGGGCCAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
21023197 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:21023267 original size:42 final size:42
Alignment explanation
Indices: 21023220--21023311 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
21023210 TGGCCCTTAG
* ** *
21023220 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
21023262 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
21023304 GCCCATTT
1 GCCCATTT
21023312 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:21023527 original size:26 final size:26
Alignment explanation
Indices: 21023456--21023630 Score: 282
Period size: 26 Copynumber: 6.8 Consensus size: 26
21023446 CCTCTTTAAT
**
21023456 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
21023481 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
21023506 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
21023532 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
21023558 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
21023584 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
21023610 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
21023631 GCACTTCCTC
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
25 33 0.24
26 106 0.76
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:21023567 original size:52 final size:52
Alignment explanation
Indices: 21023456--21023630 Score: 336
Period size: 52 Copynumber: 3.4 Consensus size: 52
21023446 CCTCTTTAAT
21023456 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
21023506 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
21023558 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
21023610 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
21023631 GCACTTCCTC
Statistics
Matches: 123, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
50 10 0.08
51 25 0.20
52 88 0.72
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:21024495 original size:27 final size:27
Alignment explanation
Indices: 21024433--21024510 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
21024423 GGGCATATTC
21024433 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
21024460 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
21024487 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
21024511 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:21024800 original size:27 final size:27
Alignment explanation
Indices: 21024739--21024803 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
21024729 GGCATATTCT
*
21024739 TCATTTTACCATACAGGGGCTCTACAG
1 TCATTTTACCTTACAGGGGCTCTACAG
* *
21024766 TCACTTTACCTTACAGGGGCTTTAC-G
1 TCATTTTACCTTACAGGGGCTCTACAG
*
21024792 ATCTTTTTACCT
1 -TCATTTTACCT
21024804 AATAGGGGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (27 bp):
TCATTTTACCTTACAGGGGCTCTACAG
Found at i:21024813 original size:305 final size:304
Alignment explanation
Indices: 21024261--21024870 Score: 1114
Period size: 305 Copynumber: 2.0 Consensus size: 304
21024251 TCAGCAAATA
*
21024261 TTAATCTAAGCTATTACGAGGGTTAGTACACACCTGTTATGGGTTGAAGTTGAAACATTTCCAAA
1 TTAATCTAAGCTATTACGAGGGTTAGTACACACCTGTTACGGGTTGAAGTTGAAACATTTCCAAA
*
21024326 ATCAATCGCCTACGATAACCACAACCTGTCACTCAAACTTAACTAATCCAATATCAATATATGTA
66 ATCAATCGCCTACGATAACCACAACCTATCACTCAAACTTAACTAATCCAATATCAATATATGTA
*
21024391 AATCCTAAGCACATCAGTCATACGGAACATAAGGGCATATTCGTCATTTTACCATACAGGGGTAT
131 AATCCTAAGCACATCAGTCATACGGAACATAAGGGCATATTCGTCATTTTACCATACAGGGGTAC
* *
21024456 TACGGTCACTTTACCCTACAGGGGCTTTACGGTCTTTTTACCTAATAGGGGTATTTTAGTCATTT
196 TACAGTCACTTTACCCTACAGGGGCTTTACGATCTTTTTACCTAATAGGGGTATTTTAGTCATTT
21024521 CATCCTACAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATT
261 CATCCTACAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATT
*
21024565 TNTAATCTAAGCTATTACGAGGGTTAGTACACACCTGTTACGGGTTGAAGTTGAAACGTTTCCAA
1 T-TAATCTAAGCTATTACGAGGGTTAGTACACACCTGTTACGGGTTGAAGTTGAAACATTTCCAA
*
21024630 AATCAATCGCCTACGATAACCACCACCTATCACTCAAACTTAACTAATCCAATATCAATATATGT
65 AATCAATCGCCTACGATAACCACAACCTATCACTCAAACTTAACTAATCCAATATCAATATATGT
*
21024695 AAATCCTAAGCACATCAGTCATACGGAACATAAGGGCATATTCTTCATTTTACCATACAGGGGCT
130 AAATCCTAAGCACATCAGTCATACGGAACATAAGGGCATATTCGTCATTTTACCATACAGGGG-T
*
21024760 -CTACAGTCACTTTACCTTACAGGGGCTTTACGATCTTTTTACCTAATAGGGGTATTTTAGTCAT
194 ACTACAGTCACTTTACCCTACAGGGGCTTTACGATCTTTTTACCTAATAGGGGTATTTTAGTCAT
21024824 TTCATCCTACAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATT
259 TTCATCCTACAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATT
21024870 T
1 T
21024871 CAGTAATTTT
Statistics
Matches: 295, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
304 1 0.00
305 293 0.99
306 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (304 bp):
TTAATCTAAGCTATTACGAGGGTTAGTACACACCTGTTACGGGTTGAAGTTGAAACATTTCCAAA
ATCAATCGCCTACGATAACCACAACCTATCACTCAAACTTAACTAATCCAATATCAATATATGTA
AATCCTAAGCACATCAGTCATACGGAACATAAGGGCATATTCGTCATTTTACCATACAGGGGTAC
TACAGTCACTTTACCCTACAGGGGCTTTACGATCTTTTTACCTAATAGGGGTATTTTAGTCATTT
CATCCTACAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATT
Found at i:21025083 original size:27 final size:27
Alignment explanation
Indices: 21024833--21025085 Score: 149
Period size: 27 Copynumber: 9.3 Consensus size: 27
21024823 TTTCATCCTA
* * * * *
21024833 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAT
* **
21024860 CAAGGGTATTTCAGTAATTTTGTAAA-
1 CAAGGGTATTTTAGTAATTTTACAAAT
* * *
21024886 CTAATGATATTTCTA-TAATTTTTAGAAAGT
1 C-AAGGGTATTT-TAGTAA-TTTTACAAA-T
* **
21024916 CAAGGGTATTTCTA-TAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAT
*
21024943 CAAGGGTATTTTGGTAATTTTACAAATT
1 CAAGGGTATTTTAGTAATTTTACAAA-T
* ** *
21024971 GAA-GGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTAGTAATTTTACAAAT
* *
21024996 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTAGTAATTTTACAAAT
* * *
21025023 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTAGTAATTTTACAAAT
**
21025051 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAT
*
21025078 CGAGGGTA
1 CAAGGGTA
21025086 AAACAGTAAT
Statistics
Matches: 179, Mismatches: 36, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
25 1 0.01
26 2 0.01
27 142 0.79
28 19 0.11
29 14 0.08
30 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAT
Found at i:21025085 original size:54 final size:54
Alignment explanation
Indices: 21024943--21025085 Score: 182
Period size: 54 Copynumber: 2.6 Consensus size: 54
21024933 CTTTGTAAAT
* *
21024943 CAAGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAAC
* * *
21024997 C-AGTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAATCGA-GGGTATTTCGGTAATTTCACAAAC
* **
21025051 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTA
21025086 AAACAGTAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
53 3 0.04
54 69 0.91
55 4 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCACAAAC
Found at i:21025093 original size:27 final size:27
Alignment explanation
Indices: 21025063--21025193 Score: 129
Period size: 27 Copynumber: 4.9 Consensus size: 27
21025053 AGGGTATTTT
* *
21025063 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTATGTAAATCGGGGGTAAAAC
* * * * *
21025090 AGTAATTCTGTAAGTTGAGGGTAAAAT
1 AGTAATTATGTAAATCGGGGGTAAAAC
* * *
21025117 GGTAATTATGTAAATTGGGGGTAAAAT
1 AGTAATTATGTAAATCGGGGGTAAAAC
*
21025144 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTATGTAAATCGGGGGTAAAAC
* *
21025171 -GATAATTCTATAAATCGGGGGTA
1 AG-TAATTATGTAAATCGGGGGTA
21025194 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 90 0.99
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (27 bp):
AGTAATTATGTAAATCGGGGGTAAAAC
Found at i:21025112 original size:81 final size:81
Alignment explanation
Indices: 21025027--21025247 Score: 176
Period size: 81 Copynumber: 2.7 Consensus size: 81
21025017 TACAAACTAG
*
21025027 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC-A
1 GGGTAATTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGA
* * *
21025091 GTAATTCTGTAAGTTGA
66 -TAATTCTATAAATCGA
** * ** **** *** * * *
21025108 GGGTAAAATGGTAATTATGTAAATTGGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAACGA
1 GGGTAATTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGA
*
21025173 TAATTCTATAAATCGG
66 TAATTCTATAAATCGA
* * * * **
21025189 GGGTACTTTGGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTACAAATCGAGGGTA
1 GGGTAATTTGGTAATTTTACAA-ACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
21025248 TTTCAGTATT
Statistics
Matches: 98, Mismatches: 40, Indels: 4
0.69 0.28 0.03
Matches are distributed among these distances:
81 97 0.99
82 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (81 bp):
GGGTAATTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGA
TAATTCTATAAATCGA
Found at i:21025122 original size:54 final size:54
Alignment explanation
Indices: 21025064--21025193 Score: 143
Period size: 54 Copynumber: 2.4 Consensus size: 54
21025054 GGGTATTTTA
* * * * * *
21025064 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAGTTGAGGGTAAAATG
1 GTAATTATGTAAATCGGGGGTAAAACAGTAATTATGTAAATCGAGGGTAAAACG
* ** *
21025118 GTAATTATGTAAATTGGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTATGTAAATCGGGGGTAAAACAGTAATTATGTAAATCGAGGGTAAAACG
* * *
21025172 ATAATTCTATAAATCGGGGGTA
1 GTAATTATGTAAATCGGGGGTA
21025194 CTTTGGTAAT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (54 bp):
GTAATTATGTAAATCGGGGGTAAAACAGTAATTATGTAAATCGAGGGTAAAACG
Found at i:21025220 original size:27 final size:27
Alignment explanation
Indices: 21025199--21025288 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
21025189 GGGTACTTTG
*
21025199 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
21025226 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
21025253 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
21025280 GTAATTTTA
1 GTAATTTTA
21025289 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:21025302 original size:27 final size:27
Alignment explanation
Indices: 21025199--21025303 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
21025189 GGGTACTTTG
* *
21025199 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
21025226 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
21025253 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
21025280 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
21025304 CTAAACAGGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:21029533 original size:27 final size:27
Alignment explanation
Indices: 21029502--21029679 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21029492 TAAATTGTAC
21029502 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
21029529 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21029555 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21029583 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
21029611 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21029638 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21029665 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21029680 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21029616 original size:82 final size:81
Alignment explanation
Indices: 21029503--21029658 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21029493 AAATTGTACA
* *
21029503 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
21029567 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
21029584 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
21029649 TGCGAGTTGA
65 TGCGAATTGA
21029659 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:21029670 original size:82 final size:81
Alignment explanation
Indices: 21029499--21029679 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
21029489 GATTAAATTG
* *
21029499 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
21029564 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
21029580 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
21029644 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
21029662 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
21029680 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:21032449 original size:21 final size:21
Alignment explanation
Indices: 21032408--21032449 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
21032398 AAGTTGTTTA
* *
21032408 TCTATCAATAATCTTTCATTT
1 TCTATCAAAAATCTTTAATTT
21032429 TCTATCATAAAAT-TTTAATTT
1 TCTATCA-AAAATCTTTAATTT
21032450 CCAGCATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.52
Consensus pattern (21 bp):
TCTATCAAAAATCTTTAATTT
Found at i:21037117 original size:23 final size:23
Alignment explanation
Indices: 21037087--21037132 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
21037077 TGTTAGTGCA
21037087 CATACATACTCATTAAACTGAAC
1 CATACATACTCATTAAACTGAAC
*
21037110 CATACATAGTCATTAAACTGAAC
1 CATACATACTCATTAAACTGAAC
21037133 TAATCTCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (23 bp):
CATACATACTCATTAAACTGAAC
Found at i:21040466 original size:23 final size:23
Alignment explanation
Indices: 21040436--21040481 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
21040426 TGTTAGTGCA
21040436 CATACATACTCATTAAACTGAAC
1 CATACATACTCATTAAACTGAAC
*
21040459 CATACATAGTCATTAAACTGAAC
1 CATACATACTCATTAAACTGAAC
21040482 TAATCTCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (23 bp):
CATACATACTCATTAAACTGAAC
Found at i:21045227 original size:17 final size:18
Alignment explanation
Indices: 21045200--21045233 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21045190 AATTAAATAT
21045200 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
21045218 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
21045234 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:21045390 original size:127 final size:123
Alignment explanation
Indices: 21045253--21045480 Score: 327
Period size: 127 Copynumber: 1.8 Consensus size: 123
21045243 ATGTGATATG
*
21045253 ATTAAAACTAATCCTAATTCTATACTAAA-TTGATAAAAATTAATATATAAATTATAATAGATAT
1 ATTAAAACTAATCCTAACTCTATA-TAAATTTGATAAAAATTAATATAT--ATTA-AATAGATAT
21045317 AATTATATATTAA-AGATTATCATCTTATTATT-ATTAAAAACTTATCAAATAAAATATGATGAA
62 AATTA-ATATTAATA-ATTATCATCTT-TTATTAATTAAAAACTTATCAAATAAAATATGATGAA
* * *
21045380 ATTAACACTAATCCTAACTCTATATAAATTTGATAATAATTAATATATATTAAATGGATATAATT
1 ATTAAAACTAATCCTAACTCTATATAAATTTGATAAAAATTAATATATATTAAATAGATATAATT
*
21045445 AATATTAATAATTATCATCTTTTTTTAATTAAAAAC
66 AATATTAATAATTATCATCTTTTATTAATTAAAAAC
21045481 ATTTATTCTA
Statistics
Matches: 93, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
122 4 0.04
123 27 0.29
124 14 0.15
125 4 0.04
126 4 0.04
127 40 0.43
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (123 bp):
ATTAAAACTAATCCTAACTCTATATAAATTTGATAAAAATTAATATATATTAAATAGATATAATT
AATATTAATAATTATCATCTTTTATTAATTAAAAACTTATCAAATAAAATATGATGAA
Found at i:21047198 original size:25 final size:26
Alignment explanation
Indices: 21047136--21047198 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
21047126 TATTTTCTCA
*
21047136 AAAATTTAAAAATTATTAATGATTCAAT
1 AAAA-TTAAAAATTA-TAATGATTAAAT
21047164 -AAATTGAAAAATTA-AATGATTAAAT
1 AAAATT-AAAAATTATAATGATTAAAT
21047189 AAAATTAAAA
1 AAAATTAAAA
21047199 TTTAGGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 14 0.44
26 7 0.22
27 11 0.34
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATTAAAAATTATAATGATTAAAT
Found at i:21047841 original size:17 final size:18
Alignment explanation
Indices: 21047814--21047847 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21047804 AATTAAATAT
21047814 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
21047832 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
21047848 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:21048004 original size:127 final size:123
Alignment explanation
Indices: 21047867--21048094 Score: 327
Period size: 127 Copynumber: 1.8 Consensus size: 123
21047857 ATGTGATATG
*
21047867 ATTAAAACTAATCCTAATTCTATACTAAA-TTGATAAAAATTAATATATAAATTATAATAGATAT
1 ATTAAAACTAATCCTAACTCTATA-TAAATTTGATAAAAATTAATATAT--ATTA-AATAGATAT
21047931 AATTATATATTAA-AGATTATCATCTTATTATT-ATTAAAAACTTATCAAATAAAATATGATGAA
62 AATTA-ATATTAATA-ATTATCATCTT-TTATTAATTAAAAACTTATCAAATAAAATATGATGAA
* * *
21047994 ATTAACACTAATCCTAACTCTATATAAATTTGATAATAATTAATATATATTAAATGGATATAATT
1 ATTAAAACTAATCCTAACTCTATATAAATTTGATAAAAATTAATATATATTAAATAGATATAATT
*
21048059 AATATTAATAATTATCATCTTTTTTTAATTAAAAAC
66 AATATTAATAATTATCATCTTTTATTAATTAAAAAC
21048095 ATTTATTCTA
Statistics
Matches: 93, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
122 4 0.04
123 27 0.29
124 14 0.15
125 4 0.04
126 4 0.04
127 40 0.43
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (123 bp):
ATTAAAACTAATCCTAACTCTATATAAATTTGATAAAAATTAATATATATTAAATAGATATAATT
AATATTAATAATTATCATCTTTTATTAATTAAAAACTTATCAAATAAAATATGATGAA
Found at i:21061581 original size:13 final size:13
Alignment explanation
Indices: 21061541--21061574 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
21061531 CTGGAGTTCC
21061541 TCACACGGGCGTG
1 TCACACGGGCGTG
21061554 TCACACGGGCGTG
1 TCACACGGGCGTG
21061567 TCACACGG
1 TCACACGG
21061575 CCATGTCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.35, T:0.15
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:21068328 original size:28 final size:28
Alignment explanation
Indices: 21068275--21068358 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
21068265 CACTTTGTGC
21068275 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
21068304 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
21068332 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
21068359 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:21068370 original size:23 final size:24
Alignment explanation
Indices: 21068279--21068372 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
21068269 TTGTGCTATT
21068279 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
21068306 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
21068336 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
21068359 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
21068373 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:21068615 original size:21 final size:20
Alignment explanation
Indices: 21068565--21068669 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 20
21068555 TATACTGATT
21068565 AGGCACTTTATGTGTCGTATTTC
1 AGGCAC-TTATGTGTCGTA--TC
* *
21068588 AGACACCTTTTGTGTCGTATC
1 AGGCA-CTTATGTGTCGTATC
* *
21068609 AGGCACCTCATGTGTCGTTTC
1 AGGCA-CTTATGTGTCGTATC
** * *
21068630 AGGCATCTCGTGTGTCATTTC
1 AGGCA-CTTATGTGTCGTATC
21068651 AGGCACTTATGTGTCGTAT
1 AGGCACTTATGTGTCGTAT
21068670 ACTGATCAGA
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
20 10 0.15
21 42 0.62
23 15 0.22
24 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (20 bp):
AGGCACTTATGTGTCGTATC
Found at i:21069801 original size:46 final size:46
Alignment explanation
Indices: 21069751--21069900 Score: 122
Period size: 46 Copynumber: 3.1 Consensus size: 46
21069741 TGGTTGGACC
21069751 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
* * * ** * * *
21069797 ATGGCATTAGAGATATGTGATTACGTGCTTCCATATAAGACCATATCTGGGAT
1 ATGGCA-T---CA-ATGTGA-TATGTG-ATCTGTGTAAGACCATAGCTGGGCT
* * *
21069850 ATGGTATCAGTGTGATATGTGAT-TCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCT-GTGTAAGACCATAGCTGGGCT
21069896 ATGGC
1 ATGGC
21069901 TACGGTGTGT
Statistics
Matches: 76, Mismatches: 20, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
46 27 0.36
47 6 0.08
48 5 0.07
49 1 0.01
50 1 0.01
51 6 0.08
52 6 0.08
53 24 0.32
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (46 bp):
ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
Found at i:21083198 original size:68 final size:67
Alignment explanation
Indices: 21083126--21083275 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
21083116 CATCATGTGT
* * * *
21083126 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
21083188 ATGTAG
62 ATGTAG
** * *
21083194 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
21083259 AG
66 AG
21083261 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
21083276 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:21083231 original size:64 final size:64
Alignment explanation
Indices: 21083150--21083333 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
21083140 AGACATTATG
* *
21083150 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
21083214 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
21083279 AA
63 AA
* * * *
21083281 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
21083334 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:21090396 original size:23 final size:24
Alignment explanation
Indices: 21090370--21090426 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
21090360 ACCACAAAAA
21090370 AGTGCCAGAATGAATAGCACT-AT
1 AGTGCCAGAATGAATAGCACTGAT
*
21090393 AGTGCCAGAATGAATTGCACTGAT
1 AGTGCCAGAATGAATAGCACTGAT
*
21090417 -GTGCTAGAAT
1 AGTGCCAGAAT
21090427 AAATCACACC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 29 0.94
24 2 0.06
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (24 bp):
AGTGCCAGAATGAATAGCACTGAT
Found at i:21094293 original size:42 final size:43
Alignment explanation
Indices: 21094204--21094369 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
21094194 ATCAAGATGT
* *
21094204 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
*
21094247 GATTACATGTAAGACCATGTCT-GGACATTGGCATCAT-TAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAATGA
* * * * * *
21094289 GATTACGTGTAAGACCCTGTCCGGGACAATGACATTG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA-ATGA
* * *
21094332 GATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
21094370 CGAACTTATG
Statistics
Matches: 100, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 40 0.40
43 57 0.57
44 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
Found at i:21096207 original size:13 final size:13
Alignment explanation
Indices: 21096185--21096217 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21096175 AAGGGTTTGT
21096185 TTAT-TAAACTAA
1 TTATCTAAACTAA
21096197 TTATCTAAACTAA
1 TTATCTAAACTAA
*
21096210 TTAACTAA
1 TTATCTAA
21096218 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:21097967 original size:24 final size:26
Alignment explanation
Indices: 21097939--21098024 Score: 90
Period size: 26 Copynumber: 3.4 Consensus size: 26
21097929 CTGGAGGCCT
*
21097939 AGCCTCTTTTAAT-TACTGGGGC-AA
1 AGCCTCTTTTAATAAACTGGGGCAAA
* *
21097963 AGCCTTTTTTAGTAAACTGGGGCAAA
1 AGCCTCTTTTAATAAACTGGGGCAAA
**
21097989 AGCC-CTTTTCGGTAAACTGGGGCAAA
1 AGCCTCTTTT-AATAAACTGGGGCAAA
21098015 AGCC-CTTTTA
1 AGCCTCTTTTA
21098025 CACTTCCTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
24 11 0.21
25 12 0.23
26 30 0.57
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (26 bp):
AGCCTCTTTTAATAAACTGGGGCAAA
Found at i:21097997 original size:26 final size:26
Alignment explanation
Indices: 21097953--21098023 Score: 108
Period size: 26 Copynumber: 2.8 Consensus size: 26
21097943 TCTTTTAATT
* *
21097953 ACTGGGGC-AAAGCCTTTTTTAGTAA
1 ACTGGGGCAAAAGCCCTTTTCAGTAA
*
21097978 ACTGGGGCAAAAGCCCTTTTCGGTAA
1 ACTGGGGCAAAAGCCCTTTTCAGTAA
21098004 ACTGGGGCAAAAGCCCTTTT
1 ACTGGGGCAAAAGCCCTTTT
21098024 ACACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 8 0.19
26 34 0.81
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (26 bp):
ACTGGGGCAAAAGCCCTTTTCAGTAA
Found at i:21098096 original size:20 final size:21
Alignment explanation
Indices: 21098071--21098118 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
21098061 AAATGAATAC
*
21098071 ATCATGTGCATATCATA-CAT
1 ATCATGTGCATATCATATCAA
21098091 ATCATGTGCATATCATATCAA
1 ATCATGTGCATATCATATCAA
21098112 ATCATGT
1 ATCATGT
21098119 ATATCAAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAA
Found at i:21100441 original size:12 final size:12
Alignment explanation
Indices: 21100426--21100450 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21100416 ACAGCAAATA
21100426 ATAAAAATTTTC
1 ATAAAAATTTTC
21100438 ATAAAAATTTTC
1 ATAAAAATTTTC
21100450 A
1 A
21100451 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:21102469 original size:26 final size:26
Alignment explanation
Indices: 21102400--21102521 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
21102390 TTTTTCAATT
*
21102400 ACTGGGGC-AAAGCCCATTTT-GATAA
1 ACTGGGGCAAAAGCCC-TTTTCGGTAA
* *
21102425 ACTGGGGC-AAAGCCTTTTTTGGTAA
1 ACTGGGGCAAAAGCCCTTTTCGGTAA
21102450 ACTGGGGCAAAAGCCCTTTTCGGTAA
1 ACTGGGGCAAAAGCCCTTTTCGGTAA
21102476 ACTGGGGCAAAAGCCCTTTTCGGTAA
1 ACTGGGGCAAAAGCCCTTTTCGGTAA
* *
21102502 ACTAGGGCAAGAGCCCTTTT
1 ACTGGGGCAAAAGCCCTTTT
21102522 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
24 4 0.04
25 26 0.29
26 59 0.66
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (26 bp):
ACTGGGGCAAAAGCCCTTTTCGGTAA
Found at i:21102600 original size:11 final size:11
Alignment explanation
Indices: 21102569--21102617 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
21102559 AAATGAATAC
21102569 ATCATGTACAT
1 ATCATGTACAT
21102580 ATCA--TACAT
1 ATCATGTACAT
*
21102589 ATCATGTGCAT
1 ATCATGTACAT
*
21102600 ATCATGT-CAA
1 ATCATGTACAT
21102610 ATCATGTA
1 ATCATGTA
21102618 TATCAAGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 9 0.27
10 9 0.27
11 15 0.45
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:21115905 original size:27 final size:26
Alignment explanation
Indices: 21115863--21115946 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 26
21115853 AGGGAGTATA
21115863 CTGGTGGCTCTA-CCACAAATATCTGTT
1 CTGGTGGCTC-AGCCAC-AATATCTGTT
*
21115890 TTGGTGGCTCAGCCACAATATCTGTAT
1 CTGGTGGCTCAGCCACAATATCTGT-T
* * *
21115917 CTGGTGACTCTGTCACAATATCTGTT
1 CTGGTGGCTCAGCCACAATATCTGTT
21115943 CTGG
1 CTGG
21115947 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
26 15 0.30
27 35 0.70
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCAGCCACAATATCTGTT
Found at i:21119689 original size:20 final size:19
Alignment explanation
Indices: 21119641--21119689 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
21119631 TCACTTAACT
21119641 AAACTTGCATATCTATCAAC
1 AAACTT-CATATCTATCAAC
* *
21119661 AAGCATTCATAATCTATCAAG
1 AAAC-TTCAT-ATCTATCAAC
21119682 AAACTTCA
1 AAACTTCA
21119690 AAATACACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (19 bp):
AAACTTCATATCTATCAAC
Found at i:21124996 original size:42 final size:43
Alignment explanation
Indices: 21124896--21125060 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 43
21124886 CAATGCCAAC
* * *
21124896 GTCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCATT
1 GTCCTAGACATGGTCTTACACGAAATCAAATATCGATGCCATT
* **
21124939 GTCCTAGACAGGGTCTTACACGAAATCAAATA-CGATGTTGA-T
1 GTCCTAGACATGGTCTTACACGAAATCAAATATCGATG-CCATT
* * *
21124981 GTCCTATACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAT
1 GTCCTAGACATGGTCTTACACG-AAATCA-AATATCGATGCCATT
* ** * *
21125025 GTCCCAGATGTGGTCTTACACGAAAACACATATCGA
1 GTCCTAGACATGGTCTTACACGAAATCAAATATCGA
21125061 ATCCAATGTC
Statistics
Matches: 98, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
42 27 0.28
43 45 0.46
44 26 0.27
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (43 bp):
GTCCTAGACATGGTCTTACACGAAATCAAATATCGATGCCATT
Found at i:21126629 original size:129 final size:129
Alignment explanation
Indices: 21126399--21126651 Score: 346
Period size: 129 Copynumber: 2.0 Consensus size: 129
21126389 ATTTCCGTTA
* *
21126399 TGTGATTACGTGTAAGACCCTGTCTAGGACAGCGGCATCGATATGTGATTACGTGTAAGACCACG
1 TGTGATTACGTGTAAGACCCTGTCTAGGACAGCGGCATCGATATGTGATTACATGTAAAACCACG
**
21126464 TCTAAGACATTCGCATCGATATGTGATTACATGTAAGACCACATCTAGGATGTTGGCATCGATG
66 TCTAAGACATTCGCATCGATATGTGATTACATGTAAGACCACATCTAGGACATTGGCATCGATG
** * * **
21126528 TGTGATTTTGTGTAAGACCCTGTCTGGGATAGTTGCATCGATATGTGATTACATGTAAAACCACG
1 TGTGATTACGTGTAAGACCCTGTCTAGGACAGCGGCATCGATATGTGATTACATGTAAAACCACG
* * * * * *
21126593 TCT-AGGCTGTTGGCATTGATATGTGATTGCATGTAAGACCACGTCTAGGACATTGGCAT
66 TCTAAGAC-ATTCGCATCGATATGTGATTACATGTAAGACCACATCTAGGACATTGGCAT
21126652 TGTACGATAT
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
128 3 0.03
129 104 0.97
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (129 bp):
TGTGATTACGTGTAAGACCCTGTCTAGGACAGCGGCATCGATATGTGATTACATGTAAAACCACG
TCTAAGACATTCGCATCGATATGTGATTACATGTAAGACCACATCTAGGACATTGGCATCGATG
Found at i:21126653 original size:43 final size:43
Alignment explanation
Indices: 21126397--21126651 Score: 275
Period size: 43 Copynumber: 5.9 Consensus size: 43
21126387 GGATTTCCGT
* **
21126397 TATGTGATTACGTGTAAGACC-CTGTCTAGGACAGCGGCATCGA
1 TATGTGATTACATGTAAGACCAC-GTCTAGGACATTGGCATCGA
* * *
21126440 TATGTGATTACGTGTAAGACCACGTCTAAGACATTCGCATCGA
1 TATGTGATTACATGTAAGACCACGTCTAGGACATTGGCATCGA
* **
21126483 TATGTGATTACATGTAAGACCACATCTAGGATGTTGGCATCGA
1 TATGTGATTACATGTAAGACCACGTCTAGGACATTGGCATCGA
* *** * *
21126526 TGTGTGATTTTGTGTAAGACC-CTGTCTGGGATAGTT-GCATCGA
1 TATGTGATTACATGTAAGACCAC-GTCTAGGACA-TTGGCATCGA
* * *
21126569 TATGTGATTACATGTAAAACCACGTCTAGG-CTGTTGGCATTGA
1 TATGTGATTACATGTAAGACCACGTCTAGGAC-ATTGGCATCGA
*
21126612 TATGTGATTGCATGTAAGACCACGTCTAGGACATTGGCAT
1 TATGTGATTACATGTAAGACCACGTCTAGGACATTGGCAT
21126652 TGTACGATAT
Statistics
Matches: 176, Mismatches: 29, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
42 3 0.02
43 168 0.95
44 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TATGTGATTACATGTAAGACCACGTCTAGGACATTGGCATCGA
Found at i:21134692 original size:20 final size:21
Alignment explanation
Indices: 21134664--21134713 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
21134654 TGGGTCACAG
21134664 GCCCGTGTGAACATGGG-CTC
1 GCCCGTGTGAACATGGGACTC
*
21134684 GCTCGTGTGAACATGGGACTC
1 GCCCGTGTGAACATGGGACTC
21134705 GCCCGTGTG
1 GCCCGTGTG
21134714 GGCAGGCCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.14, C:0.28, G:0.36, T:0.22
Consensus pattern (21 bp):
GCCCGTGTGAACATGGGACTC
Found at i:21141106 original size:40 final size:40
Alignment explanation
Indices: 21140867--21141092 Score: 321
Period size: 40 Copynumber: 5.7 Consensus size: 40
21140857 TTGAATGATG
* * * *
21140867 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
21140907 TCCGGACTAAGGTCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
21140947 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
21140987 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21141027 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
21141068 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGGCCCGAAGGCATTTG
21141093 AACGAGTAGC
Statistics
Matches: 173, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 164 0.95
41 9 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21143925 original size:22 final size:21
Alignment explanation
Indices: 21143898--21143956 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
21143888 CTGCTCGTAT
* *
21143898 AAGCTTACTGTTCAGTTCGATA
1 AAGCTTACTGTTCAGCTC-AAA
*
21143920 AAGCTTACCGTTTCAGCTCAAA
1 AAGCTTACTG-TTCAGCTCAAA
21143942 AGAGCTTACTGTTCA
1 A-AGCTTACTGTTCA
21143957 TCAGCTCAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (21 bp):
AAGCTTACTGTTCAGCTCAAA
Found at i:21143947 original size:23 final size:23
Alignment explanation
Indices: 21143825--21143996 Score: 82
Period size: 23 Copynumber: 7.2 Consensus size: 23
21143815 CAGCTCGTAT
21143825 GAGCTTACCGATATATCAGCTCAAAA
1 GAGCTTACCG-T-T-TCAGCTCAAAA
* **
21143851 GAGCTTACTGTTTTCAGCTCAATG
1 GAGCTTACCG-TTTCAGCTCAAAA
* * * * *
21143875 GAGCTTATCTTTTCTGCTCGTATA
1 GAGCTTACCGTTTCAGCTC-AAAA
* * *
21143899 -AGCTTACTG-TTCAGTTCGATAA
1 GAGCTTACCGTTTCAGCTC-AAAA
21143921 -AGCTTACCGTTTCAGCTCAAAA
1 GAGCTTACCGTTTCAGCTCAAAA
* *
21143943 GAGCTTACTGTTCATCAGCTCAGAAG
1 GAGCTTACCGTT--TCAGCTCA-AAA
* *
21143969 GGGCTTACCG-ATCATGGCTCAAAA
1 GAGCTTACCGTTTCA--GCTCAAAA
21143993 GAGC
1 GAGC
21143997 ATATATGATA
Statistics
Matches: 110, Mismatches: 28, Indels: 18
0.71 0.18 0.12
Matches are distributed among these distances:
22 19 0.17
23 34 0.31
24 23 0.21
25 14 0.13
26 20 0.18
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCAAAA
Found at i:21143948 original size:45 final size:45
Alignment explanation
Indices: 21143826--21143956 Score: 120
Period size: 45 Copynumber: 2.8 Consensus size: 45
21143816 AGCTCGTATG
**
21143826 AGCTTACCGATATATCAGCTCAAAAGAGCTTACTGTTTTCAGCTCAATGG
1 AGCTTACCG-T-T-TCAGCTCAAAAGAGCTTACTG--TTCAGCTCAATAA
* * * * * * *
21143876 AGCTTATCTTTTCTGCTCGTATA-AGCTTACTGTTCAGTTCGATAA
1 AGCTTACCGTTTCAGCTC-AAAAGAGCTTACTGTTCAGCTCAATAA
21143921 AGCTTACCGTTTCAGCTCAAAAGAGCTTACTGTTCA
1 AGCTTACCGTTTCAGCTCAAAAGAGCTTACTGTTCA
21143957 TCAGCTCAGA
Statistics
Matches: 65, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
44 2 0.03
45 37 0.57
47 15 0.23
48 3 0.05
49 1 0.02
50 7 0.11
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (45 bp):
AGCTTACCGTTTCAGCTCAAAAGAGCTTACTGTTCAGCTCAATAA
Found at i:21143983 original size:26 final size:25
Alignment explanation
Indices: 21143932--21143996 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
21143922 GCTTACCGTT
* *
21143932 TCAGCTCAAAAGAGCTTACTGTTCA
1 TCAGCTCAAAAGAGCTTACCGATCA
* *
21143957 TCAGCTCAGAAGGGGCTTACCGATCA
1 TCAGCTCA-AAAGAGCTTACCGATCA
*
21143983 T-GGCTCAAAAGAGC
1 TCAGCTCAAAAGAGC
21143997 ATATATGATA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
24 5 0.16
25 13 0.41
26 14 0.44
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (25 bp):
TCAGCTCAAAAGAGCTTACCGATCA
Found at i:21154849 original size:43 final size:41
Alignment explanation
Indices: 21154790--21154937 Score: 113
Period size: 43 Copynumber: 3.5 Consensus size: 41
21154780 CAATTCCAAC
* *
21154790 GTCCCACACATGGTCTTACATGTAATCACATGTCGATGCC-ACT
1 GTCCCAGACAGGGTCTTACATG-AATCACAT-TCGATGCCGA-T
* *
21154833 GTCCTAGACAGGGTCTTACACGAATCACAATTACGATGCCGAT
1 GTCCCAGACAGGGTCTTACATGAATCAC-ATT-CGATGCCGAT
* * * * *
21154876 GTCCCAGACATGTTCTTAC-TCGAAATCACATATCGATGGCAAC
1 GTCCCAGACAGGGTCTTACAT-G-AATCACAT-TCGATGCCGAT
21154919 GTCCCAGAC-GTGGTCTTAC
1 GTCCCAGACAG-GGTCTTAC
21154938 GCGAGAGCAC
Statistics
Matches: 85, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
42 7 0.08
43 70 0.82
44 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (41 bp):
GTCCCAGACAGGGTCTTACATGAATCACATTCGATGCCGAT
Found at i:21162037 original size:125 final size:125
Alignment explanation
Indices: 21161815--21162059 Score: 427
Period size: 125 Copynumber: 2.0 Consensus size: 125
21161805 CTTCAAGCAT
* *
21161815 TTAATAATATTTCAGATCAATTTATCATTTTCAATGATAAGAATAATCCCAATTCAAAGTTCATC
1 TTAATAATAATTCAGATCAATCTATCATTTTCAATGATAAGAATAATCCCAATTCAAAGTTCATC
*
21161880 AAAATTCTATTTCATTACTACTCAGATATCAACTCATGCTGAACCAGTCCCGAACTTTTG
66 AAAATTCTATTTCATTACTACTCAGATATCAACTCATGCTGAAACAGTCCCGAACTTTTG
* * *
21161940 TTAATAATAATTCAGATTAGTCTATCATTTTCAATGATAAGAATAATCCCGATTCAAAGTTCATC
1 TTAATAATAATTCAGATCAATCTATCATTTTCAATGATAAGAATAATCCCAATTCAAAGTTCATC
*
21162005 AAAATTCTATTTCATTACTACTCAGATATCAACTCATGCTGAAATAGTCCCGAAC
66 AAAATTCTATTTCATTACTACTCAGATATCAACTCATGCTGAAACAGTCCCGAAC
21162060 AATGATGACT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 113 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (125 bp):
TTAATAATAATTCAGATCAATCTATCATTTTCAATGATAAGAATAATCCCAATTCAAAGTTCATC
AAAATTCTATTTCATTACTACTCAGATATCAACTCATGCTGAAACAGTCCCGAACTTTTG
Found at i:21163979 original size:125 final size:125
Alignment explanation
Indices: 21163757--21164001 Score: 427
Period size: 125 Copynumber: 2.0 Consensus size: 125
21163747 CTTCAAGCAT
* *
21163757 TTAATAATATTTCAGATCAATTTATCATTTTCAATGATAAGAATAATCCCAATTCAAAGTTCATC
1 TTAATAATAATTCAGATCAATCTATCATTTTCAATGATAAGAATAATCCCAATTCAAAGTTCATC
*
21163822 AAAATTCTATTTCATTACTACTCAGATATCAACTCATGCTGAACCAGTCCCGAACTTTTG
66 AAAATTCTATTTCATTACTACTCAGATATCAACTCATGCTGAAACAGTCCCGAACTTTTG
* * *
21163882 TTAATAATAATTCAGATTAGTCTATCATTTTCAATGATAAGAATAATCCCGATTCAAAGTTCATC
1 TTAATAATAATTCAGATCAATCTATCATTTTCAATGATAAGAATAATCCCAATTCAAAGTTCATC
*
21163947 AAAATTCTATTTCATTACTACTCAGATATCAACTCATGCTGAAATAGTCCCGAAC
66 AAAATTCTATTTCATTACTACTCAGATATCAACTCATGCTGAAACAGTCCCGAAC
21164002 AATGATGACT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 113 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (125 bp):
TTAATAATAATTCAGATCAATCTATCATTTTCAATGATAAGAATAATCCCAATTCAAAGTTCATC
AAAATTCTATTTCATTACTACTCAGATATCAACTCATGCTGAAACAGTCCCGAACTTTTG
Found at i:21166307 original size:7 final size:7
Alignment explanation
Indices: 21166295--21166324 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
21166285 TAAAATTAAA
21166295 TTAAATT
1 TTAAATT
21166302 TTAAATT
1 TTAAATT
21166309 TTAAATT
1 TTAAATT
21166316 TTAAATT
1 TTAAATT
21166323 TT
1 TT
21166325 TGGCTCGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTAAATT
Found at i:21174524 original size:19 final size:19
Alignment explanation
Indices: 21174500--21174539 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
21174490 GACCAAAAAC
*
21174500 GGGCTATTATAGGAAATTT
1 GGGCTATTACAGGAAATTT
21174519 GGGCTATTACAGGAAATTT
1 GGGCTATTACAGGAAATTT
21174538 GG
1 GG
21174540 TCATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (19 bp):
GGGCTATTACAGGAAATTT
Found at i:21176007 original size:13 final size:13
Alignment explanation
Indices: 21175989--21176031 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
21175979 AATTTTGTAT
21175989 TATTTAGTAATAA
1 TATTTAGTAATAA
21176002 TATTTAG-AAT--
1 TATTTAGTAATAA
*
21176012 TATTTAGTGATAA
1 TATTTAGTAATAA
21176025 TATTTAG
1 TATTTAG
21176032 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 3 0.12
13 14 0.54
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (13 bp):
TATTTAGTAATAA
Found at i:21176013 original size:23 final size:23
Alignment explanation
Indices: 21175987--21176031 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
21175977 TAAATTTTGT
21175987 ATTATTTAGTAATAATATTTAGA
1 ATTATTTAGTAATAATATTTAGA
*
21176010 ATTATTTAGTGATAATATTTAG
1 ATTATTTAGTAATAATATTTAG
21176032 GAAAAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (23 bp):
ATTATTTAGTAATAATATTTAGA
Found at i:21181439 original size:292 final size:292
Alignment explanation
Indices: 21180899--21181491 Score: 1033
Period size: 292 Copynumber: 2.0 Consensus size: 292
21180889 GTTGCAACAT
* *
21180899 TCATGGCAGTTTTGACCCAGGTGTTTGTTCTTGCATCGGTCTTCAATGTTGAAACTTTCATGGCT
1 TCATGGCAGTTTTGACCCAAGTGTTTGTTCTTGCATCGGTCCTCAATGTTGAAACTTTCATGGCT
*
21180964 TAATCTTGTGACATCAGCAATAGTTTCATCCAAAAGTTGCATATTTAGCTCCCAATCCATCCCAC
66 TAATCTTGTGACATCAGCAACAGTTTCATCCAAAAGTTGCATATTTAGCTCCCAATCCATCCCAC
21181029 ATAACCACATAACCTTATTTAGATATAAAATACCATTAAACTACTAAAAAGTATACTTTGATAAT
131 ATAACCACATAACCTTATTTAGATATAAAATACCATTAAACTACTAAAAAGTATACTTTGATAAT
* * * *
21181094 TTAGAATGTAATAAACTTAACTTATTACTAAATTACTTGGTTTTACTATTAAAGAAGCTAAAATT
196 TTAGAATGTAAAAAACATAACTTATTACTAAATTACTTGATTTTACAATTAAAGAAGCTAAAATT
21181159 ATGTGAAAAGGGATAAAAGATAACATGATATC
261 ATGTGAAAAGGGATAAAAGATAACATGATATC
* * *
21181191 TCATGGCAGTTTTGACCCAAGTGTTTGTTCTTGCATCTGTCCTCAATGTTGCAACTTTCATTGCT
1 TCATGGCAGTTTTGACCCAAGTGTTTGTTCTTGCATCGGTCCTCAATGTTGAAACTTTCATGGCT
* * * *
21181256 TAATGTTGTGACATCGGCAACAGTTTCATCCAAAAGTTGCATCTTTAGCTCCCGATCCATCCCAC
66 TAATCTTGTGACATCAGCAACAGTTTCATCCAAAAGTTGCATATTTAGCTCCCAATCCATCCCAC
21181321 ATAACCACATAACCTTATTTAGATATAAAATACCATTAAACTACTAAAAAGTATACTTTGATAAT
131 ATAACCACATAACCTTATTTAGATATAAAATACCATTAAACTACTAAAAAGTATACTTTGATAAT
*
21181386 TTAGAATGTAAAAAACATAACTTATTACTAAATTGCTTGATTTTACAATTAAAGAAGCTAAAATT
196 TTAGAATGTAAAAAACATAACTTATTACTAAATTACTTGATTTTACAATTAAAGAAGCTAAAATT
*
21181451 ATGTGAAAAGGGATAAAATATAACATGATATC
261 ATGTGAAAAGGGATAAAAGATAACATGATATC
*
21181483 TCATAGCAG
1 TCATGGCAG
21181492 ATCTGATTGC
Statistics
Matches: 284, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
292 284 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (292 bp):
TCATGGCAGTTTTGACCCAAGTGTTTGTTCTTGCATCGGTCCTCAATGTTGAAACTTTCATGGCT
TAATCTTGTGACATCAGCAACAGTTTCATCCAAAAGTTGCATATTTAGCTCCCAATCCATCCCAC
ATAACCACATAACCTTATTTAGATATAAAATACCATTAAACTACTAAAAAGTATACTTTGATAAT
TTAGAATGTAAAAAACATAACTTATTACTAAATTACTTGATTTTACAATTAAAGAAGCTAAAATT
ATGTGAAAAGGGATAAAAGATAACATGATATC
Found at i:21181622 original size:42 final size:43
Alignment explanation
Indices: 21181570--21181651 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
21181560 ACATAGTTCG
**
21181570 ATATATATTTTTTTGGATGTGCAGTTTAAGCTCATGCTTAAGA
1 ATATATATTTTTTTGGATGAACAGTTTAAGCTCATGCTTAAGA
* *
21181613 ATAT-TATTTTTTTGGATGAATAGTTTAAGCTCGTGCTTA
1 ATATATATTTTTTTGGATGAACAGTTTAAGCTCATGCTTA
21181652 GAAGCATCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 31 0.89
43 4 0.11
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (43 bp):
ATATATATTTTTTTGGATGAACAGTTTAAGCTCATGCTTAAGA
Found at i:21182890 original size:36 final size:36
Alignment explanation
Indices: 21182843--21182914 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
21182833 TTGGATTTTG
*
21182843 GAGGTTGATAATTTTCAAACATCTTTAAATGATCTA
1 GAGGTTGATAATTTTCAAACATCTTCAAATGATCTA
21182879 GAGGTTGATAATTTTCAAACATCTTCAAATGATCTA
1 GAGGTTGATAATTTTCAAACATCTTCAAATGATCTA
21182915 TCCTTTGAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (36 bp):
GAGGTTGATAATTTTCAAACATCTTCAAATGATCTA
Found at i:21185096 original size:48 final size:48
Alignment explanation
Indices: 21184983--21185696 Score: 606
Period size: 48 Copynumber: 14.9 Consensus size: 48
21184973 GTAAGATGCC
* * * * *
21184983 GATGCCATGTCCCAGACATAGTCTCACACTGGCTCTCATAT-ATCAGTG-T
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA--AG-GCT
* * * *
21185032 CGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCT
1 -GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCT
* * * * * * *
21185081 GATGCCATGTCCCAAACATCGCCTTACACTAACTCTCCTATCAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCT
* * * *
21185129 GATGCCATG-CTCCAAACATGGTCTTACACTGGCTCATATATCGAGGCC
1 GATGCCATGTC-CCAAACATGGTCTTACACTAGCTCACATATCAAGGCT
* * * * * *
21185177 GATACCATGTCCCAAATAGGGTCTTATACTAGCTCTCATATCAATGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCT
* *
21185225 GATGCCATG-CTCCAAACATGGTCTTACACTGGCTCACATATCGAGG-T
1 GATGCCATGTC-CCAAACATGGTCTTACACTAGCTCACATATCAAGGCT
* ** * *
21185272 CGATGCCATGTCCTAGTCATGG-CTATACACTAGCTCTCATATCAATGCT
1 -GATGCCATGTCCCAAACATGGTCT-TACACTAGCTCACATATCAAGGCT
* * * *
21185321 GATGCCATGTTCCAAACATGGTCTTA-GCTGGCTCACATATCGAGGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCT
* * * * * * *
21185368 GATGCCATGTCCCAAACATCGCCTTACACTAACTCTCCTATCAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCT
* * *
21185416 GATGCCATG-CTCCAAACATGGTCTTACACTGGCTCATATATCAAGGCC
1 GATGCCATGTC-CCAAACATGGTCTTACACTAGCTCACATATCAAGGCT
* * * * * *
21185464 GATACCATGTCCCAAATAGGGTCTTATACTAGCTCTCATATCAATGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCT
* * *
21185512 GATGCCATG-CTCCAAACATGGTCTTACACTGGTTCACATATCGAGG-T
1 GATGCCATGTC-CCAAACATGGTCTTACACTAGCTCACATATCAAGGCT
* ** * *
21185559 CGATGCCATGTCCTAGTCATGG-CTATACACTAGCTCTCATATCAATGCT
1 -GATGCCATGTCCCAAACATGGTCT-TACACTAGCTCACATATCAAGGCT
* * * *
21185608 GATGCCATGTTCCAAACATGGTCTTA-GCTGGCTCACATATCGAGGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCT
* * * * *
21185655 GATGCCATGTTCCAGACATAGTCTTACATTGGCTCACATATC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATC
21185697 CCTAGTATCA
Statistics
Matches: 523, Mismatches: 121, Indels: 42
0.76 0.18 0.06
Matches are distributed among these distances:
47 89 0.17
48 388 0.74
49 13 0.02
50 33 0.06
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCT
Found at i:21185149 original size:96 final size:95
Alignment explanation
Indices: 21184983--21185696 Score: 853
Period size: 96 Copynumber: 7.4 Consensus size: 95
21184973 GTAAGATGCC
* * * * *
21184983 GATGCCATGTCCCAGACATAGTCTCACACTGGCTCTCATATATCAGTG-TCGATGCCATGTTCCA
1 GATGCCATGTCCCAAACAT-GTCTTACACTAGCTCTC--ATATCAATGCT-GATGCCATGCTCCA
* * *
21185047 AACATGGTCTTACACTAGCCCACATGTCGAGGCT
62 AACATGGTCTTACACTGGCTCACATATCGAGGCT
* * * *
21185081 GATGCCATGTCCCAAACATCGCCTTACACTAACTCTCCTATCAATGCCGATGCCATGCTCCAAAC
1 GATGCCATGTCCCAAACAT-GTCTTACACTAGCTCTCATATCAATGCTGATGCCATGCTCCAAAC
* *
21185146 ATGGTCTTACACTGGCTCATATATCGAGGCC
65 ATGGTCTTACACTGGCTCACATATCGAGGCT
* * * *
21185177 GATACCATGTCCCAAATAGGGTCTTATACTAGCTCTCATATCAATGCTGATGCCATGCTCCAAAC
1 GATGCCATGTCCCAAACA-TGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGCTCCAAAC
21185242 ATGGTCTTACACTGGCTCACATATCGAGG-T
65 ATGGTCTTACACTGGCTCACATATCGAGGCT
* ** * *
21185272 CGATGCCATGTCCTAGTCATGGCTATACACTAGCTCTCATATCAATGCTGATGCCATGTTCCAAA
1 -GATGCCATGTCCCAAACATGTCT-TACACTAGCTCTCATATCAATGCTGATGCCATGCTCCAAA
*
21185337 CATGGTCTTA-GCTGGCTCACATATCGAGGCT
64 CATGGTCTTACACTGGCTCACATATCGAGGCT
* * * *
21185368 GATGCCATGTCCCAAACATCGCCTTACACTAACTCTCCTATCAATGCCGATGCCATGCTCCAAAC
1 GATGCCATGTCCCAAACAT-GTCTTACACTAGCTCTCATATCAATGCTGATGCCATGCTCCAAAC
* * *
21185433 ATGGTCTTACACTGGCTCATATATCAAGGCC
65 ATGGTCTTACACTGGCTCACATATCGAGGCT
* * * *
21185464 GATACCATGTCCCAAATAGGGTCTTATACTAGCTCTCATATCAATGCTGATGCCATGCTCCAAAC
1 GATGCCATGTCCCAAACA-TGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGCTCCAAAC
*
21185529 ATGGTCTTACACTGGTTCACATATCGAGG-T
65 ATGGTCTTACACTGGCTCACATATCGAGGCT
* ** * *
21185559 CGATGCCATGTCCTAGTCATGGCTATACACTAGCTCTCATATCAATGCTGATGCCATGTTCCAAA
1 -GATGCCATGTCCCAAACATGTCT-TACACTAGCTCTCATATCAATGCTGATGCCATGCTCCAAA
*
21185624 CATGGTCTTA-GCTGGCTCACATATCGAGGCT
64 CATGGTCTTACACTGGCTCACATATCGAGGCT
* * * * *
21185655 GATGCCATGTTCCAGACATAGTCTTACATTGGCTCACATATC
1 GATGCCATGTCCCAAACAT-GTCTTACACTAGCTCTCATATC
21185697 CCTAGTATCA
Statistics
Matches: 527, Mismatches: 77, Indels: 27
0.84 0.12 0.04
Matches are distributed among these distances:
95 134 0.25
96 362 0.69
98 31 0.06
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (95 bp):
GATGCCATGTCCCAAACATGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGCTCCAAACA
TGGTCTTACACTGGCTCACATATCGAGGCT
Found at i:21185589 original size:287 final size:287
Alignment explanation
Indices: 21185033--21185682 Score: 1201
Period size: 287 Copynumber: 2.3 Consensus size: 287
21185023 TATCAGTGTC
* * * *
21185033 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCTGATGCCATGTCCCAAAC
1 GATGCCATGTTCCAAACATGGTCTTA-GCTGGCTCACATATCGAGGCTGATGCCATGTCCCAAAC
21185098 ATCGCCTTACACTAACTCTCCTATCAATGCCGATGCCATGCTCCAAACATGGTCTTACACTGGCT
65 ATCGCCTTACACTAACTCTCCTATCAATGCCGATGCCATGCTCCAAACATGGTCTTACACTGGCT
*
21185163 CATATATCGAGGCCGATACCATGTCCCAAATAGGGTCTTATACTAGCTCTCATATCAATGCTGAT
130 CATATATCAAGGCCGATACCATGTCCCAAATAGGGTCTTATACTAGCTCTCATATCAATGCTGAT
21185228 GCCATGCTCCAAACATGGTCTTACACTGGCTCACATATCGAGGTCGATGCCATGTCCTAGTCATG
195 GCCATGCTCCAAACATGGTCTTACACTGGCTCACATATCGAGGTCGATGCCATGTCCTAGTCATG
21185293 GCTATACACTAGCTCTCATATCAATGCT
260 GCTATACACTAGCTCTCATATCAATGCT
21185321 GATGCCATGTTCCAAACATGGTCTTAGCTGGCTCACATATCGAGGCTGATGCCATGTCCCAAACA
1 GATGCCATGTTCCAAACATGGTCTTAGCTGGCTCACATATCGAGGCTGATGCCATGTCCCAAACA
21185386 TCGCCTTACACTAACTCTCCTATCAATGCCGATGCCATGCTCCAAACATGGTCTTACACTGGCTC
66 TCGCCTTACACTAACTCTCCTATCAATGCCGATGCCATGCTCCAAACATGGTCTTACACTGGCTC
21185451 ATATATCAAGGCCGATACCATGTCCCAAATAGGGTCTTATACTAGCTCTCATATCAATGCTGATG
131 ATATATCAAGGCCGATACCATGTCCCAAATAGGGTCTTATACTAGCTCTCATATCAATGCTGATG
*
21185516 CCATGCTCCAAACATGGTCTTACACTGGTTCACATATCGAGGTCGATGCCATGTCCTAGTCATGG
196 CCATGCTCCAAACATGGTCTTACACTGGCTCACATATCGAGGTCGATGCCATGTCCTAGTCATGG
21185581 CTATACACTAGCTCTCATATCAATGCT
261 CTATACACTAGCTCTCATATCAATGCT
* *
21185608 GATGCCATGTTCCAAACATGGTCTTAGCTGGCTCACATATCGAGGCTGATGCCATGTTCCAGACA
1 GATGCCATGTTCCAAACATGGTCTTAGCTGGCTCACATATCGAGGCTGATGCCATGTCCCAAACA
* *
21185673 TAGTCTTACA
66 TCGCCTTACA
21185683 TTGGCTCACA
Statistics
Matches: 352, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
287 326 0.93
288 26 0.07
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (287 bp):
GATGCCATGTTCCAAACATGGTCTTAGCTGGCTCACATATCGAGGCTGATGCCATGTCCCAAACA
TCGCCTTACACTAACTCTCCTATCAATGCCGATGCCATGCTCCAAACATGGTCTTACACTGGCTC
ATATATCAAGGCCGATACCATGTCCCAAATAGGGTCTTATACTAGCTCTCATATCAATGCTGATG
CCATGCTCCAAACATGGTCTTACACTGGCTCACATATCGAGGTCGATGCCATGTCCTAGTCATGG
CTATACACTAGCTCTCATATCAATGCT
Found at i:21191484 original size:13 final size:12
Alignment explanation
Indices: 21191457--21191494 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
21191447 TGAAATTGAT
21191457 AATTAAAAATAA
1 AATTAAAAATAA
*
21191469 AATTATAAAATCA
1 AATTA-AAAATAA
21191482 AA-TAAAAATAA
1 AATTAAAAATAA
21191493 AA
1 AA
21191495 AGTAGTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 8 0.35
12 7 0.30
13 8 0.35
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (12 bp):
AATTAAAAATAA
Found at i:21191545 original size:42 final size:41
Alignment explanation
Indices: 21191467--21191545 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 41
21191457 AATTAAAAAT
* * *
21191467 AAAATTATAAAATCAAATAAAAATAAAAAGTAGTTTTAATA
1 AAAATTAAAAAATAAAATAAAAATAAAAAATAGTTTTAATA
*
21191508 AAAATTAAAAACATAAAATAATAATAAATAAAT-GTTTT
1 AAAATTAAAAA-ATAAAATAAAAATAAA-AAATAGTTTT
21191546 TAAACATCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 10 0.31
42 19 0.59
43 3 0.09
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (41 bp):
AAAATTAAAAAATAAAATAAAAATAAAAAATAGTTTTAATA
Found at i:21193471 original size:20 final size:20
Alignment explanation
Indices: 21193443--21193489 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
21193433 GTTCGCTTCT
*
21193443 CCCAAGCCCGTGTATGTAGA
1 CCCACGCCCGTGTATGTAGA
21193463 CCCACGCCCGTGTATGTAGA
1 CCCACGCCCGTGTATGTAGA
21193483 CCCACGC
1 CCCACGC
21193490 TCATGTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.38, G:0.23, T:0.17
Consensus pattern (20 bp):
CCCACGCCCGTGTATGTAGA
Found at i:21203566 original size:40 final size:40
Alignment explanation
Indices: 21203536--21203747 Score: 211
Period size: 40 Copynumber: 5.3 Consensus size: 40
21203526 GCTACTCGTT
* *
21203536 CAAATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
*
21203576 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
* *
21203616 CAAATGCCTTCGGGACTTAACCTGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
* * ** *
21203656 CAAATGCCTT-TGGATCTTAGTCCGGATT-TAGTAACTCGTA
1 CAAATGCCTTCGGGA-CATAACCCGG-TTATAGTAACTCGCA
* * * *
21203696 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTA-TAGTAACTCGCA
21203735 CAAATGCCTTCGG
1 CAAATGCCTTCGG
21203748 ATCTTAGTCC
Statistics
Matches: 153, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
39 35 0.23
40 114 0.75
41 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
Found at i:21203648 original size:80 final size:80
Alignment explanation
Indices: 21203536--21203800 Score: 349
Period size: 80 Copynumber: 3.3 Consensus size: 80
21203526 GCTACTCGTT
* * **
21203536 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
21203599 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
* * *
21203616 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCACAAATGCCTTTGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
*
21203681 ATTTAGTAACTCGTA
66 ATTTAGTAACTCGCA
* *
21203696 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
* * * *
21203760 ATATGGTCACTTAGCA
66 ATTTAGTAAC-TCGCA
21203776 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21203801 CATCATTCAA
Statistics
Matches: 163, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
79 64 0.39
80 97 0.60
81 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
ATTTAGTAACTCGCA
Found at i:21208009 original size:48 final size:47
Alignment explanation
Indices: 21207892--21208223 Score: 342
Period size: 48 Copynumber: 6.9 Consensus size: 47
21207882 GTAAGATGCT
* * * *
21207892 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-ATCGGTGCC
1 GATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATCA--AG-GCC
* * * *
21207942 GATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCT
1 GATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * * * * **
21207990 GATGCCATGTCCTAGACATGGTCTTAGACTAGTTCTCCTATCAATGTT
1 GATGCCATGTCC-AAACATGGTCTTACACTAGCTCACATATCAAGGCC
* * *
21208038 GATGGCATGTTCCAAACATGGTCTTACACTAACTCACATATCGAGGCC
1 GATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAAGGCC
* * *
21208086 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCC
1 GATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATCAAGGCC
* *
21208134 GATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATATCAAGGCC
1 GATGCCATG-TCCAAACATGGTCTTACACTAGCTCACATATCAAGGCC
*
21208182 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC
1 GATGCCATGT-CCAAACATGGTCTTACACTAGCTCACATATC
21208224 CCTAGTATCA
Statistics
Matches: 234, Mismatches: 41, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
47 5 0.02
48 189 0.81
49 5 0.02
50 34 0.15
51 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCC
Found at i:21208076 original size:96 final size:96
Alignment explanation
Indices: 21207892--21208223 Score: 466
Period size: 96 Copynumber: 3.4 Consensus size: 96
21207882 GTAAGATGCT
* **
21207892 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTTCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--ATATCAATGCCGATGCCATGTTCCAA
* * *
21207957 ACATGGTCTTACACTAGCCCACATGTCGAGGCT
64 ACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * ** *
21207990 GATGCCATGTCCTAGACATGGTCTTAGACTAGTTCTCCTATCAATGTTGATGGCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
*
21208055 ATGGTCTTACACTAACTCACATATCGAGGCC
66 ATGGTCTTACACTAGCTCACATATCGAGGCC
21208086 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
* * *
21208151 ATGGTCTTACATTGGCTCACATATCAAGGCC
66 ATGGTCTTACACTAGCTCACATATCGAGGCC
* * *
21208182 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC
21208224 CCTAGTATCA
Statistics
Matches: 206, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
96 173 0.84
98 33 0.16
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
ATGGTCTTACACTAGCTCACATATCGAGGCC
Found at i:21208153 original size:144 final size:144
Alignment explanation
Indices: 21207889--21208223 Score: 386
Period size: 144 Copynumber: 2.3 Consensus size: 144
21207879 AAGGTAAGAT
* ** * *
21207889 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCCGATGCCATGTTC
1 GCTGATGCCATGTCCCAAACATGGTCTTACACT--AACTCACATATCGGTGCCGATGCCATGTCC
* * * * *
21207954 CAAACATGGTCTTACACTAGCCCACATGTCGAGGCTGATGCCATGTCCTAGACATGGTCTTAGAC
64 CAAACATGGTCTTACACTAGCCCACATATCAAGGCCGATGCCATGTCCTAAACATGGTCTTACAC
* * * *
21208019 TAGTTCTCCTATCAAT
129 TAGCTCACATATCAAG
* * *
21208035 GTTGATGGCATGTTCCAAACATGGTCTTACACTAACTCACATATCGAG-GCCGATGCCATGTCCC
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAACTCACATATCG-GTGCCGATGCCATGTCCC
* * * * *
21208099 AGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCC-AAACATGGTCTTACAT
65 AAACATGGTCTTACACTAGCCCACATATCAAGGCCGATGCCATG-TCCTAAACATGGTCTTACAC
*
21208163 TGGCTCACATATCAAG
129 TAGCTCACATATCAAG
* **
21208179 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAACTCACATATC
21208224 CCTAGTATCA
Statistics
Matches: 158, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
144 125 0.79
145 4 0.03
146 29 0.18
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (144 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTAACTCACATATCGGTGCCGATGCCATGTCCCA
AACATGGTCTTACACTAGCCCACATATCAAGGCCGATGCCATGTCCTAAACATGGTCTTACACTA
GCTCACATATCAAG
Found at i:21213382 original size:44 final size:44
Alignment explanation
Indices: 21213310--21213398 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
21213300 TATAAGTAAA
*
21213310 GATTGTACGCCACATAGGAAAAATAATACTTTAGTAGTTATGTG
1 GATTGTACGCCACATAGGAAAAACAATACTTTAGTAGTTATGTG
*
21213354 GATTGTACGCCACATAGGCAAAACAATACTTTAGTAGTTATGTG
1 GATTGTACGCCACATAGGAAAAACAATACTTTAGTAGTTATGTG
21213398 G
1 G
21213399 CAGTGGCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.30
Consensus pattern (44 bp):
GATTGTACGCCACATAGGAAAAACAATACTTTAGTAGTTATGTG
Found at i:21219283 original size:27 final size:27
Alignment explanation
Indices: 21219253--21219430 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21219243 ATATTGAGTC
* * * *
21219253 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21219280 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21219307 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21219335 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21219362 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21219389 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21219416 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21219431 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Done.