Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 58 of 211
Found at i:15668631 original size:27 final size:29
Alignment explanation
Indices: 15668576--15668631 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
15668566 TTAATTATCA
*
15668576 CAACAATAAACTTAATAATAATTGATAAAG
1 CAACAATAAACTTAATAATAAAT-ATAAAG
*
15668606 CAACAATCAACTTAAT-ATAAAT-TAAA
1 CAACAATAAACTTAATAATAAATATAAA
15668632 TCAGAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.17
29 5 0.21
30 15 0.62
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (29 bp):
CAACAATAAACTTAATAATAAATATAAAG
Found at i:15669385 original size:16 final size:16
Alignment explanation
Indices: 15669364--15669415 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
15669354 TTTGGTTCGC
15669364 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
15669380 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
* *
15669396 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
15669412 TGTA
1 TGTA
15669416 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15669462 original size:45 final size:44
Alignment explanation
Indices: 15669396--15669490 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
15669386 AGATTAGAGG
* *
15669396 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
15669441 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
15669485 TGTAAT
1 TGTAAT
15669491 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:15669673 original size:18 final size:17
Alignment explanation
Indices: 15669652--15669686 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15669642 TTATTATTTA
*
15669652 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15669670 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15669687 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15669680 original size:28 final size:27
Alignment explanation
Indices: 15669610--15669682 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
15669600 TTTATTATCA
*
15669610 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
15669638 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
15669665 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
15669683 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:15669820 original size:18 final size:17
Alignment explanation
Indices: 15669799--15669833 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15669789 TTATTATTAA
*
15669799 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15669817 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15669834 TCTCAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15669845 original size:147 final size:149
Alignment explanation
Indices: 15669571--15669845 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
15669561 ATGATTATTG
*
15669571 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
* *
15669636 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTCAATAATTAGC
15669701 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
15669720 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
15669783 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTCAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTCAATAATTA
15669846 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTCAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:15669877 original size:54 final size:54
Alignment explanation
Indices: 15669819--15669997 Score: 119
Period size: 55 Copynumber: 3.1 Consensus size: 54
15669809 ATTAAAATAT
* *
15669819 ATAATTTAATAAAATTCTCAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTAAATAATTAATATTCTTATATGAATTTACTCAAAAC
* * * * * *
15669873 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTAAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
15669936 TAT
53 -AC
* *
15669939 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTAAATAATTAATATTCTTATATGAATTTACTCAAAAC
15669993 ATAAT
1 ATAAT
15669998 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTAAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:15669918 original size:120 final size:120
Alignment explanation
Indices: 15669782--15670074 Score: 473
Period size: 120 Copynumber: 2.4 Consensus size: 120
15669772 ATCATATTTA
15669782 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTCAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTCAATAATTAA
*
15669847 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAA-AT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATA-AAATAT
* * *
15669902 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTCAATAATTAA
* *
15669967 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATAAAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATAAAA-TAT
* * *
15670023 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
15670075 TAAAATAATT
Statistics
Matches: 160, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 154 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTCAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATAAAATAT
Found at i:15669940 original size:18 final size:17
Alignment explanation
Indices: 15669919--15669953 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15669909 TTATTATTAA
15669919 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
15669937 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
15669954 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:15670012 original size:61 final size:61
Alignment explanation
Indices: 15669827--15670014 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
15669817 ATATAATTTA
* *
15669827 ATAAAATTCTCAATAATTAATATTCTTATATGAATTTACTCAAACCATAATATATGATACT
1 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
* * * * * * * * * * *
15669888 GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAAAATATATAAT-TT
1 ATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATACT
15669946 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
15670008 ATAAAAT
1 ATAAAAT
15670015 AAAATTTTAA
Statistics
Matches: 93, Mismatches: 24, Indels: 20
0.68 0.18 0.15
Matches are distributed among these distances:
58 6 0.06
59 28 0.30
60 16 0.17
61 37 0.40
62 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (61 bp):
ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
Found at i:15670068 original size:18 final size:17
Alignment explanation
Indices: 15670029--15670060 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15670019 TTTTAAATAA
15670029 TTAATATTAAATATATT
1 TTAATATTAAATATATT
15670046 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
15670061 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:15671919 original size:41 final size:41
Alignment explanation
Indices: 15671866--15671958 Score: 177
Period size: 41 Copynumber: 2.2 Consensus size: 41
15671856 CAACTTCGAC
15671866 CTACTACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
1 CTAC-ACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
15671908 CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
1 CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
15671949 CTACACAAAT
1 CTACACAAAT
15671959 TCACAATGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 47 0.92
42 4 0.08
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.25
Consensus pattern (41 bp):
CTACACAAATACTCAACACCTCCTACAACTTAGCATTTCAA
Found at i:15671974 original size:41 final size:41
Alignment explanation
Indices: 15671808--15671964 Score: 147
Period size: 41 Copynumber: 3.8 Consensus size: 41
15671798 AAACTCCTCG
* ***
15671808 CAACTTAGCATTTCAACTACACAAATTCACAATGTAACCTA
1 CAACTTAGCATTTCAACTACACAAATACACAACACAACCTA
* * * **
15671849 CTAA-TTA-CAACTTCGACCTACTACAAATACTCAACACCTCCTA
1 C-AACTTAGC-ATTTC-AACTAC-ACAAATACACAACACAACCTA
* **
15671892 CAACTTAGCATTTCAACTACACAAATACTCAACACCTCCTA
1 CAACTTAGCATTTCAACTACACAAATACACAACACAACCTA
*
15671933 CAACTTAGCATTTCAACTACACAAATTCACAA
1 CAACTTAGCATTTCAACTACACAAATACACAA
15671965 TGTAACCTAC
Statistics
Matches: 97, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
40 1 0.01
41 59 0.61
42 14 0.14
43 22 0.23
44 1 0.01
ACGTcount: A:0.40, C:0.31, G:0.03, T:0.25
Consensus pattern (41 bp):
CAACTTAGCATTTCAACTACACAAATACACAACACAACCTA
Found at i:15672615 original size:14 final size:14
Alignment explanation
Indices: 15672590--15672624 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
15672580 AAGAAGAAGC
15672590 AGAAATATGGAGAAA
1 AGAAA-ATGGAGAAA
15672605 AGAAAATGGAGAAA
1 AGAAAATGGAGAAA
15672619 AGAAAA
1 AGAAAA
15672625 GAAATGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (14 bp):
AGAAAATGGAGAAA
Found at i:15672622 original size:19 final size:18
Alignment explanation
Indices: 15672600--15672644 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
15672590 AGAAATATGG
15672600 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
15672619 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
15672636 AGAAAAGAA
1 AGAAAAGAA
15672645 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:15674748 original size:28 final size:28
Alignment explanation
Indices: 15674717--15674780 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
15674707 TAAACCCATG
*
15674717 ACCCATAACCCCTAACTCCTAACCC-TAA
1 ACCCATAACCCCTAAC-CCCAACCCTTAA
*
15674745 ACCCATGAACCCTTAACCCCAACCCTTAA
1 ACCCAT-AACCCCTAACCCCAACCCTTAA
15674774 A-CCATAA
1 ACCCATAA
15674781 TCCATAAGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 2 0.06
28 17 0.53
29 13 0.41
ACGTcount: A:0.38, C:0.44, G:0.02, T:0.17
Consensus pattern (28 bp):
ACCCATAACCCCTAACCCCAACCCTTAA
Found at i:15674953 original size:7 final size:7
Alignment explanation
Indices: 15674941--15674995 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
15674931 ATTAACTATA
15674941 AACCCCT
1 AACCCCT
15674948 AACCCC-
1 AACCCCT
*
15674954 AACCCTT
1 AACCCCT
*
15674961 AACCCTT
1 AACCCCT
15674968 AA-CCCT
1 AACCCCT
15674974 AAACCCCT
1 -AACCCCT
*
15674982 AAACCCTT
1 -AACCCCT
15674990 AACCCC
1 AACCCC
15674996 AATCCTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 8 0.20
7 22 0.54
8 11 0.27
ACGTcount: A:0.33, C:0.51, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCCT
Found at i:15674986 original size:15 final size:15
Alignment explanation
Indices: 15674939--15674995 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
15674929 ACATTAACTA
*
15674939 TAAACCCCTAACCCC
1 TAAACCCTTAACCCC
15674954 --AACCCTTAA-CCC
1 TAAACCCTTAACCCC
* *
15674966 TTAACCCTAAACCCC
1 TAAACCCTTAACCCC
15674981 TAAACCCTTAACCCC
1 TAAACCCTTAACCCC
15674996 AATCCTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 3 0.09
13 8 0.23
14 8 0.23
15 16 0.46
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.18
Consensus pattern (15 bp):
TAAACCCTTAACCCC
Found at i:15674987 original size:42 final size:42
Alignment explanation
Indices: 15674939--15675025 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
15674929 ACATTAACTA
* * *
15674939 TAAACCCCTAACCCCAACCCTTAACCCTTAACCCTAAACCCC
1 TAAACCCCTAACCCCAACCCTTAAACCATAACCATAAACCCC
* * *
15674981 TAAACCCTTAACCCCAATCCTTAAACCATATCCATAAACCCC
1 TAAACCCCTAACCCCAACCCTTAAACCATAACCATAAACCCC
15675023 TAA
1 TAA
15675026 CCCATATCCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.20
Consensus pattern (42 bp):
TAAACCCCTAACCCCAACCCTTAAACCATAACCATAAACCCC
Found at i:15675941 original size:114 final size:112
Alignment explanation
Indices: 15675677--15675962 Score: 272
Period size: 114 Copynumber: 2.5 Consensus size: 112
15675667 ATTTTTAGAC
* * * * *
15675677 AAGCGCCACTAAAGTCTATAAAACCTAAATTGAAAACGACATCATTTTCTTAACAGTTTTGCAGC
1 AAGCGCCACTAAAGTCT-CAAAACCTAAA-TGAAAACGGCAACGTTTTCTTAACAGTCTTGCAGC
* *
15675742 ACTTCTGATAAAGCGCCACTAAAGCTTCGCTACTACGACGTTTTCTGAA
64 ACTTATGATAAAGCGCCACTAAAGCTTCGCTACTACGACGTTTTCTCAA
* * * ** * *
15675791 AATCGCCTCTAACGTCTCGAAAAGATAAATGAAAAACGGTAACGTTTTCTTAACAGTCTTGCGGC
1 AAGCGCCACTAAAGTCTC-AAAACCTAAATG-AAAACGGCAACGTTTTCTTAACAGTCTTGCAGC
* * ** * *
15675856 GCTTATGATAAAGCGCCGCTAATTCTT-GACTA-TAGCGGCGTTTT-TCATT
64 ACTTATGATAAAGCGCCACTAAAGCTTCG-CTACTA-CGACGTTTTCTCA-A
*
15675905 AAGCGCCACTAAAGTCCTCAAAACCTAAACTGAAAACGGCAGCGTTTTTCTTAACAGT
1 AAGCGCCACTAAAGT-CTCAAAACCTAAA-TGAAAACGGCAACG-TTTTCTTAACAGT
15675963 TTTTCCGACG
Statistics
Matches: 137, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
113 7 0.05
114 112 0.82
115 18 0.13
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (112 bp):
AAGCGCCACTAAAGTCTCAAAACCTAAATGAAAACGGCAACGTTTTCTTAACAGTCTTGCAGCAC
TTATGATAAAGCGCCACTAAAGCTTCGCTACTACGACGTTTTCTCAA
Found at i:15676996 original size:87 final size:87
Alignment explanation
Indices: 15676847--15677028 Score: 328
Period size: 87 Copynumber: 2.1 Consensus size: 87
15676837 ATAGGTTCAA
*
15676847 GTTCTATTGGACGCAATTTAGTATTGATTTCTCTATATGCCATCAAGTTAGAATTTTTTATTTAT
1 GTTCTATTGGACGCAATTTAGTATTGATTTCTCTATATGCCATCAAGTTAGAATTTTCTATTTAT
15676912 AATTGTTCTTGAAGTTGAAAAT
66 AATTGTTCTTGAAGTTGAAAAT
* *
15676934 GTTCTATTGGACGCAATTTAGTATTGATTTCTTTATATTCCATCAAGTTAGAATTTTCTATTTAT
1 GTTCTATTGGACGCAATTTAGTATTGATTTCTCTATATGCCATCAAGTTAGAATTTTCTATTTAT
*
15676999 AATTGTTCTTGAAGTTGAAGAT
66 AATTGTTCTTGAAGTTGAAAAT
15677021 GTTCTATT
1 GTTCTATT
15677029 TGGTCTTCAA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.47
Consensus pattern (87 bp):
GTTCTATTGGACGCAATTTAGTATTGATTTCTCTATATGCCATCAAGTTAGAATTTTCTATTTAT
AATTGTTCTTGAAGTTGAAAAT
Found at i:15680873 original size:26 final size:28
Alignment explanation
Indices: 15680844--15680917 Score: 89
Period size: 26 Copynumber: 2.7 Consensus size: 28
15680834 ATATACATTT
*
15680844 ATATTTTATAATATTTATACGTTT-T-C
1 ATATTTTATAATATATATACGTTTATAC
* * *
15680870 ATATGTTATAATGTATATATGTTTATAC
1 ATATTTTATAATATATATACGTTTATAC
*
15680898 ATTTTTTATAATATATATAC
1 ATATTTTATAATATATATAC
15680918 ATACACTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 20 0.53
27 1 0.03
28 17 0.45
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (28 bp):
ATATTTTATAATATATATACGTTTATAC
Found at i:15680914 original size:28 final size:26
Alignment explanation
Indices: 15680832--15680917 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
15680822 ATATATATAC
*
15680832 ATATATAC-ATTT-ATATTTTATAAT
1 ATATATACGTTTTCATATTTTATAAT
* *
15680856 ATTTATACGTTTTCATATGTTATAAT
1 ATATATACGTTTTCATATTTTATAAT
* * *
15680882 GTATATATGTTTATACATTTTTTATAAT
1 ATATATACGTTT-T-CATATTTTATAAT
15680910 ATATATAC
1 ATATATAC
15680918 ATACACTATT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
24 7 0.15
25 3 0.06
26 20 0.42
27 1 0.02
28 17 0.35
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.53
Consensus pattern (26 bp):
ATATATACGTTTTCATATTTTATAAT
Found at i:15681028 original size:13 final size:13
Alignment explanation
Indices: 15680994--15681042 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
15680984 ATTTTCATAA
* *
15680994 TTTATTAATATCT
1 TTTATTTATATTT
*
15681007 TTTACTTATATTT
1 TTTATTTATATTT
*
15681020 TTTATTTATGTATT
1 TTTATTTATAT-TT
15681034 TTTATTTAT
1 TTTATTTAT
15681043 TTATTTAGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTATTTATATTT
Found at i:15681037 original size:14 final size:14
Alignment explanation
Indices: 15681018--15681048 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15681008 TTACTTATAT
15681018 TTTTTATTTATGTA
1 TTTTTATTTATGTA
*
15681032 TTTTTATTTATTTA
1 TTTTTATTTATGTA
15681046 TTT
1 TTT
15681049 AGATACCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTTATTTATGTA
Found at i:15681226 original size:29 final size:29
Alignment explanation
Indices: 15681194--15681255 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
15681184 AAAAGCCATT
15681194 TTTTTTTAA-AATTTACCGAAATGGGCCA
1 TTTTTTTAATAATTTACCGAAATGGGCCA
* * *
15681222 ATTTTTTAATTATTTACCGGAATGGGCCA
1 TTTTTTTAATAATTTACCGAAATGGGCCA
15681251 TTTTT
1 TTTTT
15681256 CGTGAAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (29 bp):
TTTTTTTAATAATTTACCGAAATGGGCCA
Found at i:15681701 original size:125 final size:125
Alignment explanation
Indices: 15681473--15681754 Score: 435
Period size: 125 Copynumber: 2.3 Consensus size: 125
15681463 TTATTTCGAG
**
15681473 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAAAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAGGATGCTATCAAAGAAGAAATTGT
* *
15681537 GAAATCGTGCCCTCGTGGACGCGATTTCGGTACAGTTGGTCATGTAAGAAATAATT-TTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
*
15681597 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTAT-ATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCA-AAGAAGAAATTG
*
15681661 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
* * *
15681723 TTGATGTTTCTGAGCAAATAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
15681755 GCCCTGGTGG
Statistics
Matches: 145, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
124 7 0.05
125 128 0.88
126 10 0.07
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCAAAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTATTTT
Found at i:15683071 original size:29 final size:29
Alignment explanation
Indices: 15683035--15683797 Score: 935
Period size: 29 Copynumber: 25.9 Consensus size: 29
15683025 TCAAAATGGG
* **
15683035 TTAGGGTTAGGGTTTTTACTTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
*
15683064 TTAAGGTTTAGGG-TTTTAATTAAATTAAA
1 TT-AGGGTTAGGGTTTTTAATTAAATTAAA
*
15683093 CTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* **
15683122 CTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
**
15683151 TTAGGGTTTAGGAATTTTAATTAAATTAAA
1 TTAGGG-TTAGGGTTTTTAATTAAATTAAA
15683181 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* * **
15683210 CTAGGGTTAGGGTTTTTAATTAAAATGGA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
15683239 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
*
15683268 TTAGGGTTAAGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* *
15683297 TTAAACTAGGGTTAGGGTTTTTATTTAAATTAAG
1 -T----TAGGGTTAGGGTTTTTAATTAAATTAAA
**
15683331 TTAGGGTTTAAAG-TTTTAATTAAATTAAA
1 TTAGGG-TTAGGGTTTTTAATTAAATTAAA
15683360 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* * ***
15683389 CTAGGGTTAGGGTTTTTAATTAAAATGGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
15683418 TTAGGGTTAGGGTTTTTAATTAAATTAAATTAAA
1 TTAGGGTTAGGG--TTT--TT-AATTAAATTAAA
* *
15683452 TTAAATTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TT--A--GGGTT-AGGGTTTTTAATTAAATTAAA
15683486 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
*****
15683515 TTAGGGTTAGGG-TTTTAATTAAAAGGGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
15683543 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
*
15683572 TTAGGGTTAGGGTTTTTAATTAAATTAAG
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
*
15683601 TTAGGGTTAGGGTTTTAAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* **
15683630 CTAGGGTTAGGGTTTTTAATTAAAATT-GG
1 TTAGGGTTAGGGTTTTTAATT-AAATTAAA
*
15683659 TTAAGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* *
15683688 TTAGGGTTAGAGTTTTTAATTAAATTAAG
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
15683717 TTAGGGTTAGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
*
15683746 TTA-GGTTTGGGTTTTTAATTAAATTAAA
1 TTAGGGTTAGGGTTTTTAATTAAATTAAA
* *
15683774 TTA-GGTTAGAGTTTTTAATCAAAT
1 TTAGGGTTAGGGTTTTTAATTAAAT
15683798 AATATCAAAA
Statistics
Matches: 634, Mismatches: 77, Indels: 47
0.84 0.10 0.06
Matches are distributed among these distances:
28 86 0.14
29 432 0.68
30 47 0.07
31 3 0.00
32 1 0.00
33 3 0.00
34 49 0.08
35 2 0.00
36 1 0.00
37 3 0.00
38 3 0.00
39 4 0.01
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.44
Consensus pattern (29 bp):
TTAGGGTTAGGGTTTTTAATTAAATTAAA
Found at i:15683166 original size:24 final size:24
Alignment explanation
Indices: 15683115--15683166 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
15683105 TTTTTAATTA
**
15683115 AATTAAACTAGGGTTAGGGTTTTT
1 AATTAAACTAGGGTTAGGGTTTGG
*
15683139 AATTAAATTA-GGTTAGGGTTTAGG
1 AATTAAACTAGGGTTAGGGTTT-GG
15683163 AATT
1 AATT
15683167 TTAATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.33, C:0.02, G:0.25, T:0.40
Consensus pattern (24 bp):
AATTAAACTAGGGTTAGGGTTTGG
Found at i:15683445 original size:5 final size:5
Alignment explanation
Indices: 15683435--15683459 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15683425 TAGGGTTTTT
15683435 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
15683460 GGGTTAGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:15684976 original size:7 final size:7
Alignment explanation
Indices: 15684966--15685011 Score: 92
Period size: 7 Copynumber: 6.6 Consensus size: 7
15684956 CATAATACAT
15684966 AATACTA
1 AATACTA
15684973 AATACTA
1 AATACTA
15684980 AATACTA
1 AATACTA
15684987 AATACTA
1 AATACTA
15684994 AATACTA
1 AATACTA
15685001 AATACTA
1 AATACTA
15685008 AATA
1 AATA
15685012 TCAATCCACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:15685986 original size:14 final size:15
Alignment explanation
Indices: 15685969--15686002 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15685959 AATAATTATC
15685969 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
15685983 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
15685998 TAAAA
1 TAAAA
15686003 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:15686132 original size:27 final size:28
Alignment explanation
Indices: 15686100--15686154 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
15686090 TTGAAAATAT
15686100 TAAAAAT-TTTAAAATTATT-TTAAAAAA
1 TAAAAATATTTAAAATT-TTCTTAAAAAA
15686127 TAAAAATATTTAAAATTTTCTTAAAAAA
1 TAAAAATATTTAAAATTTTCTTAAAAAA
15686155 ATGAAATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (28 bp):
TAAAAATATTTAAAATTTTCTTAAAAAA
Found at i:15686218 original size:22 final size:21
Alignment explanation
Indices: 15686188--15686240 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
15686178 TTAAATATGG
* *
15686188 ATTTCAGAGATTTTTTGAAGGA
1 ATTTGAGAGA-TTTTGGAAGGA
15686210 ATTTGAGAGGATTTTGGAAGGA
1 ATTTGAGA-GATTTTGGAAGGA
15686232 ATTTGAGAG
1 ATTTGAGAG
15686241 TTTAAGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 25 0.89
23 2 0.07
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (21 bp):
ATTTGAGAGATTTTGGAAGGA
Found at i:15686260 original size:52 final size:52
Alignment explanation
Indices: 15686193--15686292 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
15686183 TATGGATTTC
* * * * *
15686193 AGAGATTTTTTGAAGGAATTTGAGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
15686245 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
15686293 AATATTTGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.31
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
Found at i:15686309 original size:24 final size:22
Alignment explanation
Indices: 15686245--15686300 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
15686235 TGAGAGTTTA
15686245 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
15686267 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
15686289 AGAGAATATTTG
1 AGAGAAT-TTTG
15686301 TTTGTGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:15693860 original size:41 final size:40
Alignment explanation
Indices: 15693813--15693936 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 40
15693803 GTGAAATTAT
*
15693813 TCGGACTATTCATCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCGGACTATT-GTCTAGCAGGCTAAGTGCCGGTGAACTGAA
15693854 TCGGACTATATGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCGGACTAT-TGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
15693895 TCAGG-CTATAGGCCTAGCAGGCTAAGTGCCGGTGAACGGAA
1 TC-GGACTAT-TGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
15693936 T
1 T
15693937 TAGACTATAA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
41 74 0.96
42 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (40 bp):
TCGGACTATTGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:15693945 original size:41 final size:41
Alignment explanation
Indices: 15693826--15693971 Score: 195
Period size: 41 Copynumber: 3.6 Consensus size: 41
15693816 GACTATTCAT
* * *
15693826 CTAGCAGGCTAAGTGCCGGTGAACTGAATCGGACTATATGT
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGACTATAAGC
* *
15693867 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAGGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGACTATAAGC
* *
15693908 CTAGCAGGCTAAGTGCCGGTGAACGGAATTAGACTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGACTATAAGC
* *
15693949 CTATCAGG-TGAAGTGCCAGTGAA
1 CTAGCAGGCT-AAGTGCCGGTGAA
15693972 TCTGTTTAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 1 0.01
41 93 0.99
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGACTATAAGC
Found at i:15703410 original size:57 final size:57
Alignment explanation
Indices: 15703341--15703456 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
15703331 ACTGGAGCAA
15703341 GGTACTCTATTCTTTAACAATAGTATTCTTTAATTAATGTATAATATTAATTACTTT
1 GGTACTCTATTCTTTAACAATAGTATTCTTTAATTAATGTATAATATTAATTACTTT
15703398 GGTACTCTATTCTTTAACAATAGTATTCTTTAATTAATGTATAATATTAATTACTTT
1 GGTACTCTATTCTTTAACAATAGTATTCTTTAATTAATGTATAATATTAATTACTTT
15703455 GG
1 GG
15703457 AGTCAAATAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.33, C:0.10, G:0.09, T:0.48
Consensus pattern (57 bp):
GGTACTCTATTCTTTAACAATAGTATTCTTTAATTAATGTATAATATTAATTACTTT
Found at i:15706896 original size:21 final size:22
Alignment explanation
Indices: 15706859--15706899 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15706849 AAATAGGGAG
*
15706859 AAAACAACATGAAAATAGCATT
1 AAAACAACATAAAAATAGCATT
15706881 AAAACAACA-AAAAATAGCA
1 AAAACAACATAAAAATAGCA
15706900 GATTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.66, C:0.15, G:0.07, T:0.12
Consensus pattern (22 bp):
AAAACAACATAAAAATAGCATT
Found at i:15716134 original size:7 final size:7
Alignment explanation
Indices: 15716122--15716162 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
15716112 AAGGGATATT
15716122 AAAGGTG
1 AAAGGTG
15716129 AAAGGTG
1 AAAGGTG
15716136 AAAGGTG
1 AAAGGTG
15716143 AAAGGTG
1 AAAGGTG
15716150 AAAGGTG
1 AAAGGTG
15716157 AAAGGT
1 AAAGGT
15716163 TGAACATCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (7 bp):
AAAGGTG
Found at i:15719177 original size:15 final size:15
Alignment explanation
Indices: 15719153--15719182 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15719143 GGGTTAACTT
15719153 CCTTTCTATAAACCA
1 CCTTTCTATAAACCA
*
15719168 CCTTTGTATAAACCA
1 CCTTTCTATAAACCA
15719183 ATCACAATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.33
Consensus pattern (15 bp):
CCTTTCTATAAACCA
Found at i:15720650 original size:49 final size:49
Alignment explanation
Indices: 15720593--15720697 Score: 174
Period size: 49 Copynumber: 2.1 Consensus size: 49
15720583 TCATGTGTTA
* * *
15720593 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTGACCTTTTAATTCATGATATTAAACTTAATTT
*
15720642 TAATTTTATAAAGTGTTTACCTTTTAATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTGACCTTTTAATTCATGATATTAAACTTAATTT
15720691 TAATTTT
1 TAATTTT
15720698 TTTTCTGAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTGACCTTTTAATTCATGATATTAAACTTAATTT
Found at i:15722109 original size:21 final size:21
Alignment explanation
Indices: 15722068--15722110 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
15722058 AATAAAGTAG
*
15722068 ATTATATATAATTTTTATAGT
1 ATTATATATAATATTTATAGT
*
15722089 ATTATATATTATGATTT-TAGT
1 ATTATATATAAT-ATTTATAGT
15722110 A
1 A
15722111 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTATATATAATATTTATAGT
Found at i:15722415 original size:45 final size:44
Alignment explanation
Indices: 15722332--15722419 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
15722322 CAACATCATT
* *
15722332 CCATTCAACCAAACATAAGAATACTATTATAGTTCTATTCCATC
1 CCATTCAACCAAACATAAGAATACTATTACAGCTCTATTCCATC
* *
15722376 CCATTCAACTAAACA-ATTGAATTACTATTACAGCTCTATTCCAT
1 CCATTCAACCAAACATA-AGAA-TACTATTACAGCTCTATTCCAT
15722420 TACAGCAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.03
44 17 0.45
45 20 0.53
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (44 bp):
CCATTCAACCAAACATAAGAATACTATTACAGCTCTATTCCATC
Found at i:15726326 original size:24 final size:24
Alignment explanation
Indices: 15726278--15726345 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
15726268 AAGGGGTTAC
* *
15726278 AAGAAGATGAAAGGTTAAAGGTTA
1 AAGAAGATGAAAGGTGAAAGATTA
* *
15726302 AAGAAGATGAAATGTGGAAGATTA
1 AAGAAGATGAAAGGTGAAAGATTA
* * *
15726326 AGGGAGATGAAAAGTGAAAG
1 AAGAAGATGAAAGGTGAAAG
15726346 GTTGAACATC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.32, T:0.18
Consensus pattern (24 bp):
AAGAAGATGAAAGGTGAAAGATTA
Found at i:15726580 original size:40 final size:40
Alignment explanation
Indices: 15726530--15726612 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
15726520 AAAGCAAATA
*
15726530 TGATCAGAACCTATAATGAGATTGTTAAAAAAAAAGGAAG
1 TGATCAGAACCTATAATGAGATTGCTAAAAAAAAAGGAAG
* *
15726570 TGATCAGAACCTATAATGAGATTGCTAAAAAAAGAGTAAG
1 TGATCAGAACCTATAATGAGATTGCTAAAAAAAAAGGAAG
15726610 TGA
1 TGA
15726613 ATCATATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.23
Consensus pattern (40 bp):
TGATCAGAACCTATAATGAGATTGCTAAAAAAAAAGGAAG
Found at i:15738570 original size:20 final size:19
Alignment explanation
Indices: 15738545--15738584 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
15738535 TTCAAATAAT
*
15738545 TTAATTTGATATAATAAAAA
1 TTAATTTGAAAT-ATAAAAA
*
15738565 TTAATTTTAAATATAAAAA
1 TTAATTTGAAATATAAAAA
15738584 T
1 T
15738585 CTTGTACGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TTAATTTGAAATATAAAAA
Found at i:15740024 original size:15 final size:15
Alignment explanation
Indices: 15740004--15740033 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15739994 GATAGGAGTA
15740004 AATAATAATAATACT
1 AATAATAATAATACT
15740019 AATAATAATAATACT
1 AATAATAATAATACT
15740034 TTTAAGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAATAATAATACT
Found at i:15741868 original size:44 final size:44
Alignment explanation
Indices: 15741818--15742922 Score: 264
Period size: 44 Copynumber: 25.1 Consensus size: 44
15741808 CTTTAGAGAA
*
15741818 ATAAGATTCGCTATCTTCGATCTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * *
15741862 ATAAGA-TCTACAATCGTCAACCTACTCCACTGCTGCTTAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * *
15741906 ATAAGGA-T-GGTGTC-TAAATCTGCTTCC-CTACTACCTTCGGGAA
1 ATAA-GATTCGCTATCTTCAATCTGC-TCCACTACT-GCTTAGGGAG
** * ** *
15741949 ATAAGATTCGCCGTTTTTGATTTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * *
15741993 ATAAGA-TCTACAATCTTCGACCTACTCCACTGCTACTTAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * ** * *
15742037 ATAGGACT-GGTGGCTTAAATCTGCTTCC-CTACTACCTT-GGGAAAG
1 ATAAGATTCGCTATCTTCAATCTGC-TCCACTACT-GCTTAGGG--AG
* ** * * *
15742082 ATAAGATTCACCGTCTTCGATCTGCTCTACTACTGTTTAGGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * *
15742126 ATAAGA-TCTACAATTTTCAACCTACTCCACTGCTGCTCAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
** * ** * * *
15742170 ATAAGGCTAG-TGGCTTAAATCTGCTTCC-CTTACTACCTT-GGAAAG
1 ATAAGATTCGCTATCTTCAATCTGC-TCCAC-TACT-GCTTAGG-GAG
* * *
15742215 ATAAGATTCGCCGTAT-TT-GATCTACTCCACTGCTGCTTAGGGAG
1 ATAAGATTCG-C-TATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * *
15742259 ATAACA-TCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAA
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
** * * * * * *
15742303 ATAAGGCTAG-TAGCTTAAATCTGCTTCGCTACTACCTTAGGGAAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACT-GCTTAGGG-AG
* ** * *
15742348 ATAAGATTCACCGTCTTCGATCTGTTCCACTACTGCTTAGGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * * * * *
15742392 ACAGGA-TCTACAATCTACAACCTACTCCACTGCTACTCAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * ** * * *
15742436 ATAAGACT-GGTGGCTTAAATCTGCTCCACTACTACTTATGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * * *
15742479 ATAAGA-TCTACAATCTTCGACCTACTCCACTACTACTCAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * ** * * *
15742523 AGAGGACTGGC-GGCTTAAATCTGTTTCC-CTACTACCTT-GGGAAG
1 ATAAGATTCGCTATCTTCAATCTG-CTCCACTACT-GCTTAGGG-AG
** ** * *
15742567 ATAAGATTCGCCGTCTTTGATCTGCTCCACTATTGCTTAGTGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * *
15742611 ATAAGATATAC-C-ATCTTCAACCTACTCCACTGCTGCTCAGGGAG
1 ATAAGAT-T-CGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * ** * * *
15742655 ATAGGACT-GGTGGCTTAAATCTGCTTCCTACTA-T-C-TCGAGAAG
1 ATAAGATTCGCTATCTTCAATCTGC-TCC-ACTACTGCTTAG-GGAG
* * * * *
15742698 ATAAGATTCGCCATCTTCGATATGCTCCACCACTGCTTAGAGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * *
15742742 ATAAGA-TCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * ** *
15742786 ATAGGATT---TATGACTTAAATCTGCTTC-CTACTATTTCGGGAAG
1 ATAAGATTCGCTAT--CTTCAATCTGCTCCACTACTGCTTAGGG-AG
** **
15742829 ATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
* * * * * *
15742873 ATAAGA-TCTACAATCTTCAACCTACTCTACTGCTGCTTAGGGAG
1 ATAAGATTC-GCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
15742917 ATAAGA
1 ATAAGA
15742923 CTGGTGACTT
Statistics
Matches: 731, Mismatches: 263, Indels: 134
0.65 0.23 0.12
Matches are distributed among these distances:
41 2 0.00
42 27 0.04
43 157 0.21
44 404 0.55
45 97 0.13
46 41 0.06
47 2 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
ATAAGATTCGCTATCTTCAATCTGCTCCACTACTGCTTAGGGAG
Found at i:15742138 original size:133 final size:134
Alignment explanation
Indices: 15741831--15742523 Score: 908
Period size: 133 Copynumber: 5.2 Consensus size: 134
15741821 AGATTCGCTA
*
15741831 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCGTCAACCTACTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
* * *
15741896 GCTTAGGGAGATAAGGA-TGGTGTC-TAAATCTGCTTCCCTACTACCTTCGGGAA-ATAAGATTC
66 GCTCAGGGAGATAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTAGGGAAGATAAGATTC
*
15741958 GCCG
131 ACCG
* * * *
15741962 TTTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
* *
15742027 ACTTAGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTT-GGGAAAGATAAGATT
66 GCTCAGGGAGATAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTAGGG-AAGATAAGATT
15742090 CACCG
130 CACCG
* * *
15742095 TCTTCGATCTGCTCTACTACTGTTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
* *
15742160 GCTCAGGGAGATAAGG-CTAGTGGCTTAAATCTGCTTCCCTTACTACCTT-GGAAAGATAAGATT
66 GCTCAGGGAGATAAGGACTGGTGGCTTAAATCTGCTTCCC-TACTACCTTAGGGAAGATAAGATT
*
15742223 CGCCG
130 CACCG
* * * * * *
15742228 TATTTGATCTACTCCACTGCTGCTTAGGGAGATAACATCTACAATCTTCAACCTACTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
* * * *
15742293 GCTCAGGGAAATAAGG-CTAGTAGCTTAAATCTGCTTCGCTACTACCTTAGGGAAGATAAGATTC
66 GCTCAGGGAGATAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTAGGGAAGATAAGATTC
15742357 ACCG
131 ACCG
* * * *
15742361 TCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGGATCTACAATCTACAACCTACTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
* *
15742426 ACTCAGGGAGATAA-GACTGGTGGCTTAAATCTGC-TCCACTACTA-CTTATGG-AGATAAGA-T
66 GCTCAGGGAGATAAGGACTGGTGGCTTAAATCTGCTTCC-CTACTACCTTAGGGAAGATAAGATT
**
15742486 CTACAA
130 C-ACCG
* * * *
15742492 TCTTCGACCTACTCCACTACTACTCAGGGAGA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGA
15742524 GAGGACTGGC
Statistics
Matches: 495, Mismatches: 57, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
130 6 0.01
131 117 0.24
132 43 0.09
133 315 0.64
134 14 0.03
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (134 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
GCTCAGGGAGATAAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTAGGGAAGATAAGATTC
ACCG
Found at i:15742555 original size:87 final size:87
Alignment explanation
Indices: 15742367--15742557 Score: 267
Period size: 87 Copynumber: 2.2 Consensus size: 87
15742357 ACCGTCTTCG
* * *
15742367 ATCTGTTCCACTACTGCTTAGGGAGACAGGATCTACAATCTACAACCTACTCCACTGCTACTCAG
1 ATCTGTTCCACTACTACTTAGGGAGACAAGATCTACAATCTACAACCTACTCCACTACTACTCAG
* *
15742432 GGAGATAAGACTGGTGGCTTAA
66 GGAGAGAAGACTGGCGGCTTAA
* * * * *
15742454 ATCTGCTCCACTACTACTTATGGAGATAAGATCTACAATCTTCGACCTACTCCACTACTACTCAG
1 ATCTGTTCCACTACTACTTAGGGAGACAAGATCTACAATCTACAACCTACTCCACTACTACTCAG
*
15742519 GGAGAGAGGACTGGCGGCTTAA
66 GGAGAGAAGACTGGCGGCTTAA
15742541 ATCTGTTTCC-CTACTAC
1 ATCTG-TTCCACTACTAC
15742558 CTTGGGAAGA
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 88 0.97
88 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (87 bp):
ATCTGTTCCACTACTACTTAGGGAGACAAGATCTACAATCTACAACCTACTCCACTACTACTCAG
GGAGAGAAGACTGGCGGCTTAA
Found at i:15742569 original size:131 final size:130
Alignment explanation
Indices: 15742454--15743053 Score: 840
Period size: 131 Copynumber: 4.6 Consensus size: 130
15742444 GGTGGCTTAA
* * * *
15742454 ATCTGCTCCACTACTACTTATGGAGATAAGATCTACAATCTTCGACCTACTCCACTACTACTCAG
1 ATCTGCTCCACTACTGCTTA-GGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * * * * *
15742519 GGAGAGAGGACTGGCGGCTTAAATCTGTTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTT
65 GGAGATAGGACTGGTGACTTAAATCTGCTT-CCTACTATCTCGGGAAGATAAGATTCGCCGTCTT
15742584 TG
129 TG
* * *
15742586 ATCTGCTCCACTATTGCTTAGTGAGATAAGATATACCATCTTCAACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAG-GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * * *
15742651 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGAGAAGATAAGATTCGCCATCTTC
65 GGAGATAGGACTGGTGACTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTCTTT
15742716 G
130 G
* *
15742717 ATATGCTCCACCACTGCTTAGAGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAG-GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* ** *
15742782 GGAGATAGGATTTATGACTTAAATCTGCTTCCTACTATTTCGGGAAGATAAGATTCGCCGTCTTT
65 GGAGATAGGACTGGTGACTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTCTTT
15742847 G
130 G
* *
15742848 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCTACTGCTGCTTAG
1 ATCTGCTCCACTACTGCTTA-GGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * * **
15742913 GGAGATAAGACTGGTGACTTAAATCTACTTCCTACTATCTCGGAAAGATAAGATTTACCGTCTTT
65 GGAGATAGGACTGGTGACTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTCTTT
15742978 G
130 G
* * * *
15742979 ATTTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTGTTGCTCAG
1 ATCTGCTCCACTACTGCTTA-GGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
15743044 GGAGATAGGA
65 GGAGATAGGA
15743054 TTTGATATGA
Statistics
Matches: 417, Mismatches: 49, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
131 333 0.80
132 84 0.20
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (130 bp):
ATCTGCTCCACTACTGCTTAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGG
GAGATAGGACTGGTGACTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTCTTTG
Found at i:15742665 original size:219 final size:220
Alignment explanation
Indices: 15742234--15742687 Score: 635
Period size: 219 Copynumber: 2.1 Consensus size: 220
15742224 GCCGTATTTG
* * * *
15742234 ATCTACTCCACTGCTGCTTAGGGAGATAACATCTACAATCTTCAACCTACTCCACTACTGCTCAG
1 ATCTGCTCCACTACTACTTAGGGAGATAACATCTACAATCTTCAACCTACTCCACTACTACTCAG
* *
15742299 GGAAATAAGGCTAGTAGCTTAAATCTGCTTCGCTACTACCTTAGGGAAGATAAGATTCACCGTCT
66 GGAAATAAGGCTAGCAGCTTAAATCTGCTTCCCTACTACCTTAGGGAAGATAAGATTCACCGTCT
* * *
15742364 TCGATCTGTTCCACTACTGCTTAGGGAGACAGGATCTACAATCTACAACCTACTCCACTGCTACT
131 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATATACAATCTACAACCTACTCCACTGCTACT
15742429 CAGGGAGATAAGACTGGTGGCTTAA
196 CAGGGAGATAAGACTGGTGGCTTAA
* * *
15742454 ATCTGCTCCACTACTACTTATGGAGATAAGATCTACAATCTTCGACCTACTCCACTACTACTCAG
1 ATCTGCTCCACTACTACTTAGGGAGATAACATCTACAATCTTCAACCTACTCCACTACTACTCAG
* * * * * *
15742519 GGAGA-GAGGACTGGCGGCTTAAATCTGTTTCCCTACTACCTT-GGGAAGATAAGATTCGCCGTC
66 GGAAATAAGG-CTAGCAGCTTAAATCTGCTTCCCTACTACCTTAGGGAAGATAAGATTCACCGTC
* * * * * * *
15742582 TTTGATCTGCTCCACTATTGCTTAGTGAGATAAGATATACCATCTTCAACCTACTCCACTGCTGC
130 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATATACAATCTACAACCTACTCCACTGCTAC
*
15742647 TCAGGGAGATAGGACTGGTGGCTTAA
195 TCAGGGAGATAAGACTGGTGGCTTAA
*
15742673 ATCTGCTTC-CTACTA
1 ATCTGCTCCACTACTA
15742688 TCTCGAGAAG
Statistics
Matches: 206, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
218 6 0.03
219 111 0.54
220 89 0.43
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (220 bp):
ATCTGCTCCACTACTACTTAGGGAGATAACATCTACAATCTTCAACCTACTCCACTACTACTCAG
GGAAATAAGGCTAGCAGCTTAAATCTGCTTCCCTACTACCTTAGGGAAGATAAGATTCACCGTCT
TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATATACAATCTACAACCTACTCCACTGCTACT
CAGGGAGATAAGACTGGTGGCTTAA
Found at i:15743754 original size:108 final size:108
Alignment explanation
Indices: 15743543--15743756 Score: 277
Period size: 108 Copynumber: 2.0 Consensus size: 108
15743533 GAAAAACGCT
* * *
15743543 TGAAAAAGATTATCAAAATGGACAAGATGAAATTTTGTTGAGAACAAAGCTCTAAATAAATGAAT
1 TGAAAAAGATTATCAAAATGGACAACATGAAATTTTATTGAGAACAAAGCTCTAAATAAATAAAT
* * * *
15743608 CAATCAAGATAACAAACTTTGCTAAGATACGAACTGAATAAAA
66 CAATCAAGATAACAAACTTTACTAAAATAAGAAATGAATAAAA
* * * * *
15743651 TGAAACAGATTATCACAATGGATAACATGAAATTTTATTGAGAGCAAAGCT-TGAAATGAATAAA
1 TGAAAAAGATTATCAAAATGGACAACATGAAATTTTATTGAGAACAAAGCTCT-AAATAAATAAA
* * *
15743715 TTAATCAAGATAGCAAATTTTACTAAAATAAGAAATGAATAA
65 TCAATCAAGATAACAAACTTTACTAAAATAAGAAATGAATAA
15743757 GATAAAGACA
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 1 0.01
108 89 0.99
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAACATGAAATTTTATTGAGAACAAAGCTCTAAATAAATAAAT
CAATCAAGATAACAAACTTTACTAAAATAAGAAATGAATAAAA
Found at i:15747559 original size:28 final size:27
Alignment explanation
Indices: 15747512--15747564 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
15747502 GGAAAGAATA
*
15747512 AAAGAATATTTATTCAAAATGAGACCG
1 AAAGAATATTTATTCAAAATAAGACCG
*
15747539 AAAGATATATTTCATT-GAAATAAGAC
1 AAAGA-ATATTT-ATTCAAAATAAGAC
15747565 TTTAGACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 5 0.23
28 14 0.64
29 3 0.14
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.28
Consensus pattern (27 bp):
AAAGAATATTTATTCAAAATAAGACCG
Found at i:15753777 original size:11 final size:10
Alignment explanation
Indices: 15753760--15753803 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
15753750 TGGCCTCTCA
15753760 TTTTTCTTTT
1 TTTTTCTTTT
15753770 TATTTTC-TTT
1 T-TTTTCTTTT
*
15753780 TTCTTCTTTTT
1 TTTTTC-TTTT
15753791 TTTTTCTTTT
1 TTTTTCTTTT
15753801 TTT
1 TTT
15753804 GTTTGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 4 0.14
10 12 0.41
11 13 0.45
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:15753812 original size:20 final size:20
Alignment explanation
Indices: 15753763--15753815 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
15753753 CCTCTCATTT
*
15753763 TTCTTTTTATTTTCTTTTTC
1 TTCTTTTTTTTTTCTTTTTC
15753783 TTCTTTTTTTTTTCTTTTT-
1 TTCTTTTTTTTTTCTTTTTC
*
15753802 TTGTTTGTTTTTTT
1 TTCTTT-TTTTTTT
15753816 AACATTCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.02, C:0.09, G:0.04, T:0.85
Consensus pattern (20 bp):
TTCTTTTTTTTTTCTTTTTC
Found at i:15758813 original size:15 final size:15
Alignment explanation
Indices: 15758793--15758822 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15758783 GATAGGAGTA
15758793 AATAATAATAATACT
1 AATAATAATAATACT
*
15758808 AATAATAATAGTACT
1 AATAATAATAATACT
15758823 TTTAAGGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (15 bp):
AATAATAATAATACT
Found at i:15769679 original size:16 final size:17
Alignment explanation
Indices: 15769657--15769701 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
15769647 TTTAAAAATC
15769657 ATAAAAATATAAACTAT
1 ATAAAAATATAAACTAT
* *
15769674 -TAAAAAGATAAAATTAT
1 ATAAAAATAT-AAACTAT
15769691 ATAAAAATATA
1 ATAAAAATATA
15769702 CAATTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 8 0.35
17 7 0.30
18 8 0.35
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
ATAAAAATATAAACTAT
Found at i:15769706 original size:18 final size:17
Alignment explanation
Indices: 15769657--15769706 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
15769647 TTTAAAAATC
*
15769657 ATAAAAATATAAACTAT
1 ATAAAAATATAAATTAT
*
15769674 -TAAAAAGATAAAATTAT
1 ATAAAAATAT-AAATTAT
15769691 ATAAAAATATACAATT
1 ATAAAAATATA-AATT
15769707 TAATTTCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 8 0.30
17 7 0.26
18 12 0.44
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (17 bp):
ATAAAAATATAAATTAT
Found at i:15778306 original size:5 final size:5
Alignment explanation
Indices: 15778296--15778321 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15778286 TGTTTGGGGT
15778296 GAAGA GAAGA GAAGA GAAGA GAAGA G
1 GAAGA GAAGA GAAGA GAAGA GAAGA G
15778322 TGAGTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:15783701 original size:6 final size:6
Alignment explanation
Indices: 15783690--15783719 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
15783680 TAATTAAAGA
15783690 ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT
15783720 TTTCATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:15799878 original size:19 final size:19
Alignment explanation
Indices: 15799828--15799890 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
15799818 GAACAAAAAA
15799828 TTATAAAATAATCAAAATAAT
1 TTATAAAATAATCAAAAT--T
*
15799849 CT-TAAAA-AATCAAAATT
1 TTATAAAATAATCAAAATT
*
15799866 TTATAAAATAATCTTAAATT
1 TTATAAAATAATC-AAAATT
15799886 TTATA
1 TTATA
15799891 TAAAAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 13 0.36
20 15 0.42
21 1 0.03
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
TTATAAAATAATCAAAATT
Found at i:15804437 original size:48 final size:48
Alignment explanation
Indices: 15804367--15804471 Score: 210
Period size: 48 Copynumber: 2.2 Consensus size: 48
15804357 ACATTGTCAA
15804367 AACAACACACATCAACAAGGCATCAAAAGTACCAAGGTTACATCAACC
1 AACAACACACATCAACAAGGCATCAAAAGTACCAAGGTTACATCAACC
15804415 AACAACACACATCAACAAGGCATCAAAAGTACCAAGGTTACATCAACC
1 AACAACACACATCAACAAGGCATCAAAAGTACCAAGGTTACATCAACC
15804463 AACAACACA
1 AACAACACA
15804472 TATACATGCC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.50, C:0.30, G:0.10, T:0.11
Consensus pattern (48 bp):
AACAACACACATCAACAAGGCATCAAAAGTACCAAGGTTACATCAACC
Found at i:15806554 original size:12 final size:12
Alignment explanation
Indices: 15806537--15806567 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15806527 GGATGAAAAT
15806537 AAGTCATTTTAC
1 AAGTCATTTTAC
15806549 AAGTCATTTTAC
1 AAGTCATTTTAC
15806561 AAGTCAT
1 AAGTCAT
15806568 ATTTCTCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (12 bp):
AAGTCATTTTAC
Found at i:15807842 original size:11 final size:11
Alignment explanation
Indices: 15807826--15807856 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15807816 TATAAATACT
15807826 GCCATGGTCCA
1 GCCATGGTCCA
15807837 GCCATGGTCCA
1 GCCATGGTCCA
*
15807848 ACCATGGTC
1 GCCATGGTC
15807857 TTACGTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.35, G:0.26, T:0.19
Consensus pattern (11 bp):
GCCATGGTCCA
Found at i:15810513 original size:320 final size:320
Alignment explanation
Indices: 15809931--15810570 Score: 1100
Period size: 320 Copynumber: 2.0 Consensus size: 320
15809921 AAAATATCTC
* *
15809931 ATTAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAAAATATCATCAAAATTTCTC
1 ATTAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAAAATATCATCAAAATATCAC
* *
15809996 TAATTTCATTATTGCCTTCTAAAGTTCTCTCTCTTTCTAATTGACCATTTTGCCCTTTATGATCT
66 TAATATCATCATTGCCTTCTAAAGTTCTCTCTCTTTCTAATTGACCATTTTGCCCTTTATGATCT
* * *
15810061 TTTAAAATTCCATCCTTGAGTCATCACTTAATTTGGTGAATTTGTGATTTAGTCCCTAATAATTC
131 TTTAAAATTCCATCCTTGAGTCATAACTTAATTTGGTAAAATTGTGATTTAGTCCCTAATAATTC
15810126 TTCACCTATTCAATTTGGTCCTAATTCATCCATTTTCCTTAGTTTCTAGATCATTCCACCCTTAA
196 TTCACCTATTCAATTTGGTCCTAATTCATCCATTTTCCTTAGTTTCTAGATCATTCCACCCTTAA
* * *
15810191 AATATTTGCACTATTGGTCCTTCAACTTTTTTATATTTACATTTTAACCCCTCAAATTTT
261 AATATTTGCACTATTGGTCCTTCAAATTTTTCATATTTACACTTTAACCCCTCAAATTTT
15810251 ATTAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAAAATATCATCAAAATATCAC
1 ATTAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAAAATATCATCAAAATATCAC
* * * *
15810316 TAATATCATCATTGTCTTCTAGATTTTTCTCTCTTTCTAATTGACCATTTTGCCCTTTATGATCT
66 TAATATCATCATTGCCTTCTAAAGTTCTCTCTCTTTCTAATTGACCATTTTGCCCTTTATGATCT
* *
15810381 TTTAAAATTTCATCCTTGAGTCATAACTTAATTTGGTAAAATTGTGATTTAGTCCCTCATAATTC
131 TTTAAAATTCCATCCTTGAGTCATAACTTAATTTGGTAAAATTGTGATTTAGTCCCTAATAATTC
* *
15810446 TTCACCTATTCAATTTGGTCTTAGTTCATCCATTTTCCTTAGTTTCTAGATCATTCCACCCTTAA
196 TTCACCTATTCAATTTGGTCCTAATTCATCCATTTTCCTTAGTTTCTAGATCATTCCACCCTTAA
* *
15810511 AATATTTGCACTATTGGTCTTTTAAATTTTTCATATTTACACTTTAACCCCTCAAATTTT
261 AATATTTGCACTATTGGTCCTTCAAATTTTTCATATTTACACTTTAACCCCTCAAATTTT
15810571 GAGTATTTAC
Statistics
Matches: 300, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
320 300 1.00
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (320 bp):
ATTAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAAAATATCATCAAAATATCAC
TAATATCATCATTGCCTTCTAAAGTTCTCTCTCTTTCTAATTGACCATTTTGCCCTTTATGATCT
TTTAAAATTCCATCCTTGAGTCATAACTTAATTTGGTAAAATTGTGATTTAGTCCCTAATAATTC
TTCACCTATTCAATTTGGTCCTAATTCATCCATTTTCCTTAGTTTCTAGATCATTCCACCCTTAA
AATATTTGCACTATTGGTCCTTCAAATTTTTCATATTTACACTTTAACCCCTCAAATTTT
Found at i:15810911 original size:24 final size:23
Alignment explanation
Indices: 15810782--15810972 Score: 96
Period size: 25 Copynumber: 7.8 Consensus size: 23
15810772 GTCTCGATAC
* * *
15810782 TTGGCTCTTATGAACTTCCCATTAT
1 TTGGCTCTCATGAGCTT-CC-TGAT
* * * *
15810807 TTAGCTCTTATGAGCATCCTAAT
1 TTGGCTCTCATGAGCTTCCTGAT
*
15810830 ATGTGGCTCTCATGAGTTTCCTGAT
1 -T-TGGCTCTCATGAGCTTCCTGAT
* * *
15810855 TAATTGCTCTCTTAAGCTTCCTGAT
1 T--TGGCTCTCATGAGCTTCCTGAT
*
15810880 ATTAGCTCTCATGAGCTTCCTGAAT
1 -TTGGCTCTCATGAGCTTCCTG-AT
* * * *
15810905 TTGGCTCTCTTAAGCTTTCTGTT
1 TTGGCTCTCATGAGCTTCCTGAT
*
15810928 TATGGCTCGT-ATGAGCTTCCCGAT
1 T-TGGCTC-TCATGAGCTTCCTGAT
* *
15810952 AATTGGCTCGCAAGAGCTTCC
1 --TTGGCTCTCATGAGCTTCC
15810973 CATTACATAG
Statistics
Matches: 127, Mismatches: 29, Indels: 20
0.72 0.16 0.11
Matches are distributed among these distances:
23 5 0.04
24 53 0.42
25 67 0.53
26 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (23 bp):
TTGGCTCTCATGAGCTTCCTGAT
Found at i:15810985 original size:25 final size:25
Alignment explanation
Indices: 15810957--15811026 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
15810947 CCGATAATTG
*
15810957 GCTCGCAAGAGCTTCCCATTACATA
1 GCTCACAAGAGCTTCCCATTACATA
* * * *
15810982 GCTCACATGAGCTTCCTATTATATG
1 GCTCACAAGAGCTTCCCATTACATA
* *
15811007 GCTCAAAAGAGCTACCCATT
1 GCTCACAAGAGCTTCCCATT
15811027 GTCTACTCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (25 bp):
GCTCACAAGAGCTTCCCATTACATA
Found at i:15813037 original size:50 final size:51
Alignment explanation
Indices: 15812975--15813084 Score: 159
Period size: 50 Copynumber: 2.2 Consensus size: 51
15812965 CCATTTCAAT
*
15812975 CCTTTTCATAATTTCATGACATAGGTCATTTAAATACATACCTTTCCTTTC
1 CCTTTTCATAATTTCATGACATAGGTCATTTAAATACATACATTTCCTTTC
* * * *
15813026 CCTTTT-ATAATTTCATGACATAGTTTATTTGAATGCATACATTTCCTTTC
1 CCTTTTCATAATTTCATGACATAGGTCATTTAAATACATACATTTCCTTTC
*
15813076 CTTTTTCAT
1 CCTTTTCAT
15813085 GCTTGTTGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 44 0.85
51 8 0.15
ACGTcount: A:0.25, C:0.21, G:0.06, T:0.47
Consensus pattern (51 bp):
CCTTTTCATAATTTCATGACATAGGTCATTTAAATACATACATTTCCTTTC
Found at i:15825591 original size:17 final size:17
Alignment explanation
Indices: 15825569--15825604 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15825559 AAAGATAGAT
15825569 TTTTAGTCTAAATATTA
1 TTTTAGTCTAAATATTA
* *
15825586 TTTTAGTTTAAATTTTA
1 TTTTAGTCTAAATATTA
15825603 TT
1 TT
15825605 ATTTGTGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTAGTCTAAATATTA
Found at i:15825658 original size:18 final size:18
Alignment explanation
Indices: 15825635--15825676 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
15825625 TTTATTTTGA
*
15825635 TTTAAATCTTAATATTAT
1 TTTAAATCTTAATATTAG
15825653 TTTAAATCTTAATATTAG
1 TTTAAATCTTAATATTAG
15825671 TTTAAA
1 TTTAAA
15825677 GTAGTTGCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTAAATCTTAATATTAG
Found at i:15828927 original size:56 final size:56
Alignment explanation
Indices: 15828841--15828955 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
15828831 AAATTCAATC
15828841 ACCACCATATTTTGCATGTCAACAAGGACATGTATTCCCTCAACTGGACGAGCATA
1 ACCACCATATTTTGCATGTCAACAAGGACATGTATTCCCTCAACTGGACGAGCATA
*
15828897 ACCACCATATTTTGCATGTCAACAAGGACATGTATTCCCTCAACTGGATGAGCATA
1 ACCACCATATTTTGCATGTCAACAAGGACATGTATTCCCTCAACTGGACGAGCATA
15828953 ACC
1 ACC
15828956 TATATTAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (56 bp):
ACCACCATATTTTGCATGTCAACAAGGACATGTATTCCCTCAACTGGACGAGCATA
Found at i:15832932 original size:21 final size:21
Alignment explanation
Indices: 15832908--15832960 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
15832898 CATTGTTTCT
*
15832908 AATCTCACCGCTACAATACCC
1 AATCTCACCGCTACAATAACC
* * *
15832929 AATCTCACAGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
15832950 AATCTCACCGC
1 AATCTCACCGC
15832961 CAACGCTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.38, G:0.08, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:15833349 original size:16 final size:16
Alignment explanation
Indices: 15833330--15833365 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15833320 TTTTCACTCC
* *
15833330 CTCCCTCCCTCCTTCA
1 CTCCCTCACACCTTCA
15833346 CTCCCTCACACCTTCA
1 CTCCCTCACACCTTCA
15833362 CTCC
1 CTCC
15833366 ACAAAACGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.61, G:0.00, T:0.28
Consensus pattern (16 bp):
CTCCCTCACACCTTCA
Found at i:15839001 original size:24 final size:24
Alignment explanation
Indices: 15838974--15839021 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
15838964 CTTTACGATT
15838974 CTACTTAACCAGCCTCTATTCTAA
1 CTACTTAACCAGCCTCTATTCTAA
15838998 CTACTTAACCAGCCTCTATTCTAA
1 CTACTTAACCAGCCTCTATTCTAA
15839022 GGCATGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.04, T:0.33
Consensus pattern (24 bp):
CTACTTAACCAGCCTCTATTCTAA
Found at i:15841908 original size:3 final size:3
Alignment explanation
Indices: 15841902--15841944 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
15841892 CTATTATTAT
*
15841902 TAC TAC TAC TAC TAC TAC TAC TAC TGC TAC TAC TAC TAC TAC T
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC T
15841945 TATTTGTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.33, G:0.02, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:15847510 original size:35 final size:35
Alignment explanation
Indices: 15847471--15847538 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
15847461 TACCTCAAAG
* * *
15847471 CCTTTTTAGTTGAACTTCTTATCATGAATATTTTA
1 CCTTTCTAATTGAACTCCTTATCATGAATATTTTA
15847506 CCTTTCTAATTGAACTCCTTATCATGAATATTT
1 CCTTTCTAATTGAACTCCTTATCATGAATATTT
15847539 CGGAATTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.49
Consensus pattern (35 bp):
CCTTTCTAATTGAACTCCTTATCATGAATATTTTA
Found at i:15848372 original size:121 final size:121
Alignment explanation
Indices: 15848158--15848403 Score: 483
Period size: 121 Copynumber: 2.0 Consensus size: 121
15848148 ACCTTTCATA
15848158 ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
1 ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
*
15848223 GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTTATTCAATTTCATCACAAG
66 GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTCATTCAATTTCATCACAAG
15848279 ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
1 ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
15848344 GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTCATTCAATTTCATCACAAG
66 GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTCATTCAATTTCATCACAAG
15848400 ACTA
1 ACTA
15848404 ACCAAATCAA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 124 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (121 bp):
ACTACGAATATGTCAATTTCCTGTACTGACATACTACTATGGCAGATTCCCCTTTTAGAAATACA
GATGCATACTCTTTGTCAAGAAATACCCCTTAAAGCTCATTCAATTTCATCACAAG
Found at i:15850030 original size:193 final size:193
Alignment explanation
Indices: 15849701--15850086 Score: 763
Period size: 193 Copynumber: 2.0 Consensus size: 193
15849691 AAACTTGGTC
15849701 ACTTATACAATCCAAATACACCTATTTTCATGCATCCAAATTGTACCTAACACATGCATATTAAA
1 ACTTATACAATCCAAATACACCTATTTTCATGCATCCAAATTGTACCTAACACATGCATATTAAA
15849766 GTTAGATCATCATAGTATTCAATCATACAACCAATATGCCTAAACTTAGCAAATGTATAATCAAG
66 GTTAGATCATCATAGTATTCAATCATACAACCAATATGCCTAAACTTAGCAAATGTATAATCAAG
*
15849831 TTTGATTGTTGTGATTGAGGTTCCTTTTAGGCATATTGGTTGTATGATTGAATACTATGATGA
131 TTTGATTGTTGTGATTAAGGTTCCTTTTAGGCATATTGGTTGTATGATTGAATACTATGATGA
15849894 ACTTATACAATCCAAATACACCTATTTTCATGCATCCAAATTGTACCTAACACATGCATATTAAA
1 ACTTATACAATCCAAATACACCTATTTTCATGCATCCAAATTGTACCTAACACATGCATATTAAA
15849959 GTTAGATCATCATAGTATTCAATCATACAACCAATATGCCTAAACTTAGCAAATGTATAATCAAG
66 GTTAGATCATCATAGTATTCAATCATACAACCAATATGCCTAAACTTAGCAAATGTATAATCAAG
15850024 TTTGATTGTTGTGATTAAGGTTCCTTTTAGGCATATTGGTTGTATGATTGAATACTATGATGA
131 TTTGATTGTTGTGATTAAGGTTCCTTTTAGGCATATTGGTTGTATGATTGAATACTATGATGA
15850087 TCTAAGTTTA
Statistics
Matches: 192, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
193 192 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (193 bp):
ACTTATACAATCCAAATACACCTATTTTCATGCATCCAAATTGTACCTAACACATGCATATTAAA
GTTAGATCATCATAGTATTCAATCATACAACCAATATGCCTAAACTTAGCAAATGTATAATCAAG
TTTGATTGTTGTGATTAAGGTTCCTTTTAGGCATATTGGTTGTATGATTGAATACTATGATGA
Found at i:15850966 original size:21 final size:21
Alignment explanation
Indices: 15850942--15850981 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15850932 TATATTTATT
*
15850942 CATAACATAGGTAAGTTCAAC
1 CATAACATACGTAAGTTCAAC
*
15850963 CATAACATACGTAATTTCA
1 CATAACATACGTAAGTTCA
15850982 CAAATATAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (21 bp):
CATAACATACGTAAGTTCAAC
Found at i:15851501 original size:51 final size:51
Alignment explanation
Indices: 15851425--15851527 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
15851415 TACCTTATCG
15851425 AGATTTTCTATAAGAAGAACGAATTATAGATAATAGTACATTATTAGTCCA
1 AGATTTTCTATAAGAAGAACGAATTATAGATAATAGTACATTATTAGTCCA
15851476 AGATTTTCTATAAGAAGAACGAATTATAGATAATAGTACATTATTAGTCCA
1 AGATTTTCTATAAGAAGAACGAATTATAGATAATAGTACATTATTAGTCCA
15851527 A
1 A
15851528 CCAAACACAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.33
Consensus pattern (51 bp):
AGATTTTCTATAAGAAGAACGAATTATAGATAATAGTACATTATTAGTCCA
Found at i:15853807 original size:21 final size:21
Alignment explanation
Indices: 15853781--15853822 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
15853771 CGCATCATGC
15853781 TCAACCAACATTTTGAGGCAT
1 TCAACCAACATTTTGAGGCAT
15853802 TCAACCAACATTTTGAGGCAT
1 TCAACCAACATTTTGAGGCAT
15853823 ACTCTTCGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (21 bp):
TCAACCAACATTTTGAGGCAT
Found at i:15872660 original size:6 final size:6
Alignment explanation
Indices: 15872638--15872749 Score: 68
Period size: 6 Copynumber: 18.2 Consensus size: 6
15872628 AGATTCAATG
* *
15872638 CAAAAA -AAACAA AAAAAA CAAAAA CAAAAG CAAAAA CAAAAA CAAAAA
1 CAAAAA CAAA-AA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
* ** * *
15872686 -AAAAGA GGGAAAAA GGAAAA -AAAAA TAAGAAA AAAAAA CAAAAA CAAAAA
1 CAAAA-A --CAAAAA CAAAAA CAAAAA CAA-AAA CAAAAA CAAAAA CAAAAA
* *
15872736 GAAACAA AAAAAA C
1 CAAA-AA CAAAAA C
15872750 CTCCACCGGG
Statistics
Matches: 87, Mismatches: 10, Indels: 18
0.76 0.09 0.16
Matches are distributed among these distances:
5 11 0.13
6 58 0.67
7 13 0.15
8 1 0.01
9 4 0.05
ACGTcount: A:0.81, C:0.10, G:0.08, T:0.01
Consensus pattern (6 bp):
CAAAAA
Found at i:15873271 original size:15 final size:15
Alignment explanation
Indices: 15873253--15873296 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
15873243 GTGAAAAAAC
*
15873253 AAAAATGGAAAAATG
1 AAAAATGTAAAAATG
15873268 AAAAAT-TAAAAATAG
1 AAAAATGTAAAAAT-G
15873283 AAAAA-GTAAAAATG
1 AAAAATGTAAAAATG
15873297 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (15 bp):
AAAAATGTAAAAATG
Found at i:15873293 original size:22 final size:22
Alignment explanation
Indices: 15873244--15873295 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
15873234 AAAAAATATG
** *
15873244 TGAAAAAACAAAAATGGAAAAA
1 TGAAAAATTAAAAATAGAAAAA
15873266 TGAAAAATTAAAAATAGAAAAA
1 TGAAAAATTAAAAATAGAAAAA
15873288 -GTAAAAAT
1 TG-AAAAAT
15873296 GGAGAGGCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.15
Consensus pattern (22 bp):
TGAAAAATTAAAAATAGAAAAA
Found at i:15874798 original size:132 final size:132
Alignment explanation
Indices: 15874558--15874826 Score: 439
Period size: 132 Copynumber: 2.0 Consensus size: 132
15874548 ACAGCGAAGC
* * *
15874558 AGATCAAAGATGGCAGATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCT
* * * * **
15874623 ACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGGCAGCAGTGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGCAGA
15874688 GT
131 GT
15874690 AGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCT
1 AGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCT
* *
15874755 ACTTCCTTGGGCAGCAGTGGAATAGAGTGAAGATTACATATCTTATCTCCCTAAGAAGTAGCAGA
66 ACTTCCCTGGGCAGCAGTGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGCAGA
15874820 GT
131 GT
15874822 AGATC
1 AGATC
15874827 GAATACACTA
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 126 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (132 bp):
AGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCT
ACTTCCCTGGGCAGCAGTGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGCAGA
GT
Found at i:15874891 original size:91 final size:89
Alignment explanation
Indices: 15874787--15875095 Score: 378
Period size: 91 Copynumber: 3.5 Consensus size: 89
15874777 TAGAGTGAAG
* * *
15874787 ATTACATATCTTATCTCCCTAAGAAGTAGCAGAGTAGATCGAATACACTAACCTTGCCTCCCTTG
1 ATTACAGATCTTATCTCCCTAAGAAGTAGCAGAGTAGATCGAAGACACTAACCTTGCCTCCCTCG
15874852 GTGGCAGCGGAGCAGGTTAAAAAAA
66 GTGGCAGCGGAGCAGGTT-AAAAAA
* * *
15874877 ATTTACAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTC
1 A-TTACAGATCTTATCTCCCTAAGAAGTAGCAGAGTAGATCGAAGACACTAACCTTGCCTCCCTC
*
15874942 GGTGGCAGCGGAGCAGGTT--AAAG
65 GGTGGCAGCGGAGCAGGTTAAAAAA
* * * * *
15874965 A-TAGCAAATCTTACCTTCCTATACTGACAGT-G-A-AGCAGATCGAAGACGCTAACCTTGCCTC
1 ATTA-CAGATCTTATCTCCCTA-A--GA-AGTAGCAGAGTAGATCGAAGACACTAACCTTGCCTC
15875026 CCTCGGTGGCAGCGGAGCAGGTTAAAAAA
61 CCTCGGTGGCAGCGGAGCAGGTTAAAAAA
* **
15875055 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCG
1 ATTACAGATCTTATCTCCCTAAGAAGTAGCAGAGTAGATCG
15875096 CAACCAGCCT
Statistics
Matches: 185, Mismatches: 22, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
86 5 0.03
87 16 0.09
88 53 0.29
89 9 0.05
90 21 0.11
91 81 0.44
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (89 bp):
ATTACAGATCTTATCTCCCTAAGAAGTAGCAGAGTAGATCGAAGACACTAACCTTGCCTCCCTCG
GTGGCAGCGGAGCAGGTTAAAAAA
Found at i:15874953 original size:43 final size:43
Alignment explanation
Indices: 15874905--15875045 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
15874895 CCTAGGCAGT
*
15874905 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGCAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* ** * * * * * *** *
15874948 AGCGGAGCAGGTTAAAGATAGCAAATCTTACCTTCCTATACTGAC
1 AGCGGAGCAGATCGAAGACA-CTAACCTTGCCTCCCT-CGGTGGC
* * *
15874993 AGTGAAGCAGATCGAAGACGCTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGCAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
15875036 AGCGGAGCAG
1 AGCGGAGCAG
15875046 GTTAAAAAAA
Statistics
Matches: 66, Mismatches: 30, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
43 26 0.39
44 24 0.36
45 16 0.24
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (43 bp):
AGCGGAGCAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
Found at i:15875031 original size:88 final size:89
Alignment explanation
Indices: 15874822--15875274 Score: 390
Period size: 88 Copynumber: 5.1 Consensus size: 89
15874812 GTAGCAGAGT
* * *
15874822 AGATCGAATACACTAACCTTGCCTCCCTTGGTGGCAGCGGAGCAGGTTAAAAAAAATTTA-CAGA
1 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTT--AAAAGA--TAGCAGA
* * ** * * * * *
15874886 TCTTATCTCCCTAGGCAG-TAGCGGAGT
62 TCTTACCTTCCTATACTGACAGTGAAGC
*
15874913 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTT-AAAGATAGCAAATCTT
1 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAGATAGCAGATCTT
15874977 ACCTTCCTATACTGACAGTGAAGC
66 ACCTTCCTATACTGACAGTGAAGC
* *
15875001 AGATCGAAGACGCTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAAATTA-CAGATC
1 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTT-AAAAGA-TAGCAGATC
* * * * * *
15875065 TTATCTCCCTA-AGCAG-TAGTGGAGT
64 TTACCTTCCTATA-CTGACAGTGAAGC
* * * **** * * *
15875090 AGATCGCA-AC-C-AGCCTTGTCTCCCT-GGCAATAGTGGAGTAGGTTGAAA-ATAGCAGATCTT
1 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAGATAGCAGATCTT
* * *
15875150 GCCTTCCTGTACTGACAGAGAAGC
66 ACCTTCCTATACTGACAGTGAAGC
* * * *
15875174 AAATCGAAGATACTAACCTTGCCTCCCTCGGTGGCAACGGAACAGGTT-AAAGATAGCAGATCTT
1 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAGATAGCAGATCTT
* * *
15875238 GCCTTCCTGTACTGGCAGTGAAGC
66 ACCTTCCTATACTGACAGTGAAGC
15875262 AGATCGAAGACAC
1 AGATCGAAGACAC
15875275 CAGTCTTATC
Statistics
Matches: 290, Mismatches: 58, Indels: 31
0.77 0.15 0.08
Matches are distributed among these distances:
82 2 0.01
83 16 0.06
84 15 0.05
85 14 0.05
86 15 0.05
87 32 0.11
88 114 0.39
89 14 0.05
90 20 0.07
91 48 0.17
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (89 bp):
AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAGATAGCAGATCTT
ACCTTCCTATACTGACAGTGAAGC
Found at i:15875203 original size:173 final size:178
Alignment explanation
Indices: 15874824--15875224 Score: 544
Period size: 173 Copynumber: 2.3 Consensus size: 178
15874814 AGCAGAGTAG
* *
15874824 ATCGAATACACTAACCTTGCCTCCCTTGGTGGCAGCGGAGCAGGTTAAAAAAAATTTACAGATCT
1 ATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTT-AAAAAAATTTACAGATCT
* ***
15874889 TATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGA
65 TATCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGCAACAGCGGA
* *
15874954 GCAGGTTAAAGATAGCAAATCTTACCTTCCTATACTGACAGTGAAGCAG
130 GCAGGTTAAAGATAGCAAATCTTACCTTCCTATACTGACAGAGAAGCAA
*
15875003 ATCGAAGACGCTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAAA-TTACAGATCTT
1 ATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAAATTTACAGATCTT
* * * * * *
15875067 ATCTCCCTAAGCAGTAGTGGAGTAGATCGCA-AC-C-AGCCTTGTCTCCCT-GGCAATAGTGGAG
66 ATCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGCAACAGCGGAG
* * * *
15875128 TAGGTTGAAA-ATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAA
131 CAGGTT-AAAGATAGCAAATCTTACCTTCCTATACTGACAGAGAAGCAA
* * *
15875176 ATCGAAGATACTAACCTTGCCTCCCTCGGTGGCAACGGAACAGGTTAAA
1 ATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAA
15875225 GATAGCAGAT
Statistics
Matches: 198, Mismatches: 23, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
173 91 0.46
174 15 0.08
175 1 0.01
176 2 0.01
177 39 0.20
178 7 0.04
179 43 0.22
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (178 bp):
ATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAAATTTACAGATCTT
ATCTCCCTAAGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGCAACAGCGGAG
CAGGTTAAAGATAGCAAATCTTACCTTCCTATACTGACAGAGAAGCAA
Found at i:15881313 original size:6 final size:6
Alignment explanation
Indices: 15881298--15881410 Score: 67
Period size: 6 Copynumber: 19.2 Consensus size: 6
15881288 AGATTCAATG
*
15881298 CAAAAA -AAAAA C--AAA -AAAAA CAAAAA CAAAAG CAAAAA CAAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
* * ** * *
15881342 CAAAAA -AAAGAGG GAAAAA GGAAAA -AAAAA GAAGAA CAAAAAA CAAAAA
1 CAAAAA CAAA-A-A CAAAAA CAAAAA CAAAAA CAAAAA C-AAAAA CAAAAA
* *
15881391 CAAAAA GAAACAA AAAAAA C
1 CAAAAA CAAA-AA CAAAAA C
15881411 CTCCACCGGG
Statistics
Matches: 85, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
4 3 0.04
5 15 0.18
6 53 0.62
7 11 0.13
8 3 0.04
ACGTcount: A:0.81, C:0.11, G:0.09, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:15881340 original size:24 final size:23
Alignment explanation
Indices: 15881298--15881406 Score: 77
Period size: 24 Copynumber: 4.7 Consensus size: 23
15881288 AGATTCAATG
*
15881298 CAAAAAAAAA--ACAAA-AAAAA
1 CAAAAAAAAAGCAAAAACAAAAA
15881318 CAAAAACAAAAGCAAAAACAAAAA
1 CAAAAA-AAAAGCAAAAACAAAAA
* *
15881342 CAAAAAAAAGAGGGAAAAAGGAAAAA
1 CAAAAAAAA-A-GCAAAAA-CAAAAA
*
15881368 -AAAAGAAGAA-CAAAAAACAAAAA
1 CAAAA-AAAAAGC-AAAAACAAAAA
*
15881391 CAAAAAGAAA-CAAAAA
1 CAAAAAAAAAGCAAAAA
15881407 AAACCTCCAC
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
20 6 0.08
21 4 0.06
22 5 0.07
23 16 0.23
24 21 0.30
25 11 0.15
26 8 0.11
ACGTcount: A:0.81, C:0.10, G:0.09, T:0.00
Consensus pattern (23 bp):
CAAAAAAAAAGCAAAAACAAAAA
Found at i:15881382 original size:23 final size:23
Alignment explanation
Indices: 15881363--15881407 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15881353 GGGAAAAAGG
15881363 AAAAAAAAAGAAG-AACAAAAAAC
1 AAAAAAAAA-AAGAAACAAAAAAC
*
15881386 AAAAACAAAAAGAAACAAAAAA
1 AAAAAAAAAAAGAAACAAAAAA
15881408 AACCTCCACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAGAAACAAAAAAC
Found at i:15881926 original size:7 final size:7
Alignment explanation
Indices: 15881909--15881958 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
15881899 AAATATGTGA
15881909 AAAAAT-
1 AAAAATG
15881915 AAAAATGG
1 AAAAAT-G
15881923 AAAAATG
1 AAAAATG
15881930 AAAAATG
1 AAAAATG
15881937 AAAAATAG
1 AAAAAT-G
15881945 AAAAA-G
1 AAAAATG
15881951 TAAAAATG
1 -AAAAATG
15881959 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 19 0.49
8 13 0.33
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:15881927 original size:15 final size:15
Alignment explanation
Indices: 15881906--15881958 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
15881896 AAAAAATATG
15881906 TGAAAAAAT-AAAAA
1 TGAAAAAATGAAAAA
*
15881920 TGGAAAAATGAAAAA
1 TGAAAAAATGAAAAA
15881935 TG-AAAAATAGAAAAA
1 TGAAAAAAT-GAAAAA
*
15881950 -GTAAAAATG
1 TGAAAAAATG
15881959 GAGAGGCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (15 bp):
TGAAAAAATGAAAAA
Found at i:15881931 original size:22 final size:22
Alignment explanation
Indices: 15881909--15881958 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
15881899 AAATATGTGA
*
15881909 AAAAAT-AAAAATGGAAAAATG
1 AAAAATGAAAAATAGAAAAATG
15881930 AAAAATGAAAAATAGAAAAA-G
1 AAAAATGAAAAATAGAAAAATG
15881951 TAAAAATG
1 -AAAAATG
15881959 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAATGAAAAATAGAAAAATG
Found at i:15883459 original size:132 final size:132
Alignment explanation
Indices: 15883216--15883476 Score: 423
Period size: 132 Copynumber: 2.0 Consensus size: 132
15883206 TAGACAGCGA
* * *
15883216 AGCAGATCAAAGATGGCAGATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
* * * *
15883281 TCTACTTCCCTGGGCAGCAATGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGGCAGCAATGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGT
15883346 GG
131 GG
*
15883348 AGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAATAAT
1 AGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
* * *
15883413 TCTACTTCCTTGGGCAGCAGTGGAATAGAGTGAAGATTACATATCTTATCTCCCTAAGAAGTAG
66 TCTACTTCCCTGGGCAGCAATGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAAGAAGTAG
15883477 CAGAGTAGAT
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 118 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (132 bp):
AGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
TCTACTTCCCTGGGCAGCAATGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGT
GG
Found at i:15883552 original size:91 final size:89
Alignment explanation
Indices: 15883448--15883744 Score: 354
Period size: 91 Copynumber: 3.3 Consensus size: 89
15883438 TAGAGTGAAG
* * *
15883448 ATTACATATCTTATCTCCCTAAGAAGTAGCAGAGTAGATCGAATACACTAACCTTGCCTCCCTTG
1 ATTACAGATCTTATCTCCCTAAGAAGTAGCAGAGTAGATCGAAGACACTAACCTTGCCTCCCTCG
15883513 GTGGCAGCGGAGCAGGTTAAAAAAA
66 GTGGCAGCGGAGCAGGTT-AAAAAA
* * *
15883538 ATTTACAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTC
1 A-TTACAGATCTTATCTCCCTAAGAAGTAGCAGAGTAGATCGAAGACACTAACCTTGCCTCCCTC
*
15883603 GGTGGCAGCGGAGCAGGTT--AAAG
65 GGTGGCAGCGGAGCAGGTTAAAAAA
* * * * *
15883626 A-TAGCAAATCTTACCTTCCTATACTGACAGT-G-A-AGCAGATCGAAGACGCTAACCTTGCCTC
1 ATTA-CAGATCTTATCTCCCTA-A--GA-AGTAGCAGAGTAGATCGAAGACACTAACCTTGCCTC
15883687 CCTCGGTGGCAGCGGAGCAGGTTAAAAAA
61 CCTCGGTGGCAGCGGAGCAGGTTAAAAAA
* * *
15883716 ATTACAGATTTTATCTTCCTAAGCAGTAG
1 ATTACAGATCTTATCTCCCTAAGAAGTAG
15883745 TGGAGCAGAT
Statistics
Matches: 177, Mismatches: 20, Indels: 23
0.80 0.09 0.10
Matches are distributed among these distances:
86 5 0.03
87 16 0.09
88 53 0.30
89 1 0.01
90 21 0.12
91 81 0.46
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (89 bp):
ATTACAGATCTTATCTCCCTAAGAAGTAGCAGAGTAGATCGAAGACACTAACCTTGCCTCCCTCG
GTGGCAGCGGAGCAGGTTAAAAAA
Found at i:15883614 original size:43 final size:43
Alignment explanation
Indices: 15883566--15883706 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
15883556 CCTAGGCAGT
*
15883566 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGCAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* ** * * * * * *** *
15883609 AGCGGAGCAGGTTAAAGATAGCAAATCTTACCTTCCTATACTGAC
1 AGCGGAGCAGATCGAAGACA-CTAACCTTGCCTCCCT-CGGTGGC
* * *
15883654 AGTGAAGCAGATCGAAGACGCTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGCAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
15883697 AGCGGAGCAG
1 AGCGGAGCAG
15883707 GTTAAAAAAA
Statistics
Matches: 66, Mismatches: 30, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
43 26 0.39
44 24 0.36
45 16 0.24
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (43 bp):
AGCGGAGCAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
Found at i:15883692 original size:88 final size:89
Alignment explanation
Indices: 15883483--15883935 Score: 408
Period size: 88 Copynumber: 5.1 Consensus size: 89
15883473 GTAGCAGAGT
* * *
15883483 AGATCGAATACACTAACCTTGCCTCCCTTGGTGGCAGCGGAGCAGGTTAAAAAAAATTTA-CAGA
1 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTT--AAAAGA--TAGCAGA
* * ** * * * * *
15883547 TCTTATCTCCCTAGGCAG-TAGCGGAGT
62 TCTTACCTTCCTATACTGACAGTGAAGC
*
15883574 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTT-AAAGATAGCAAATCTT
1 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAGATAGCAGATCTT
15883638 ACCTTCCTATACTGACAGTGAAGC
66 ACCTTCCTATACTGACAGTGAAGC
* * *
15883662 AGATCGAAGACGCTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAAATTA-CAGATT
1 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTT-AAAAGA-TAGCAGATC
* * * *
15883726 TTATCTTCCTA-AGCAG-TAGTGGAGC
64 TTACCTTCCTATA-CTGACAGTGAAGC
* * * **** * * *
15883751 AGATCGCA-AC-C-AGCCTTGTCTCCCT-GGCAATAGTGGAGTAGGTTGAAA-ATAGCAGATCTT
1 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAGATAGCAGATCTT
* * *
15883811 GCCTTCCTGTACTGACAGAGAAGC
66 ACCTTCCTATACTGACAGTGAAGC
* * *
15883835 AAATCGAAGATACTAACCTTGCCTCCCTCGGTGGCAGCGGAACAGGTT-AAAGATAGCAGATCTT
1 AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAGATAGCAGATCTT
* * *
15883899 GCCTTCCTGTACTGGCAGTGAAGC
66 ACCTTCCTATACTGACAGTGAAGC
15883923 AGATCGAAGACAC
1 AGATCGAAGACAC
15883936 CAGTCTTATC
Statistics
Matches: 293, Mismatches: 55, Indels: 31
0.77 0.15 0.08
Matches are distributed among these distances:
82 2 0.01
83 16 0.05
84 16 0.05
85 14 0.05
86 15 0.05
87 32 0.11
88 115 0.39
89 15 0.05
90 20 0.07
91 48 0.16
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (89 bp):
AGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAGATAGCAGATCTT
ACCTTCCTATACTGACAGTGAAGC
Found at i:15883864 original size:173 final size:178
Alignment explanation
Indices: 15883485--15883885 Score: 526
Period size: 173 Copynumber: 2.3 Consensus size: 178
15883475 AGCAGAGTAG
* *
15883485 ATCGAATACACTAACCTTGCCTCCCTTGGTGGCAGCGGAGCAGGTTAAAAAAAATTTACAGATCT
1 ATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTT-AAAAAAATTTACAGATCT
* * ***
15883550 TATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGA
65 TATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACACTAACCTTGCCTCCCTCGGCAACAGCGGA
* *
15883615 GCAGGTTAAAGATAGCAAATCTTACCTTCCTATACTGACAGTGAAGCAG
130 GCAGGTTAAAGATAGCAAATCTTACCTTCCTATACTGACAGAGAAGCAA
* *
15883664 ATCGAAGACGCTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAAA-TTACAGATTTT
1 ATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAAATTTACAGATCTT
* * * * * * *
15883728 ATCTTCCTAAGCAGTAGTGGAGCAGATCGCA-AC-C-AGCCTTGTCTCCCT-GGCAATAGTGGAG
66 ATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACACTAACCTTGCCTCCCTCGGCAACAGCGGAG
* * * *
15883789 TAGGTTGAAA-ATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAA
131 CAGGTT-AAAGATAGCAAATCTTACCTTCCTATACTGACAGAGAAGCAA
* *
15883837 ATCGAAGATACTAACCTTGCCTCCCTCGGTGGCAGCGGAACAGGTTAAA
1 ATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAA
15883886 GATAGCAGAT
Statistics
Matches: 196, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
173 92 0.47
174 15 0.08
175 1 0.01
176 2 0.01
177 36 0.18
178 7 0.04
179 43 0.22
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (178 bp):
ATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAAATTTACAGATCTT
ATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACACTAACCTTGCCTCCCTCGGCAACAGCGGAG
CAGGTTAAAGATAGCAAATCTTACCTTCCTATACTGACAGAGAAGCAA
Found at i:15892482 original size:25 final size:26
Alignment explanation
Indices: 15892450--15892504 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
15892440 TTATTAAATT
*
15892450 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
15892475 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
15892500 A-ATAT
1 ATATAT
15892505 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:15892724 original size:45 final size:41
Alignment explanation
Indices: 15892626--15892735 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 41
15892616 TTTTCCATTA
15892626 TGCTATTACACCTCTATTCCATT-C-AACCAAACACAATAT
1 TGCTATTACACCTCTATTCCATTACAAACCAAACACAATAT
* * *
15892665 TACTATTACGCCTCTATTCCATTACATTTAACCAAACA-ATTGATT
1 TGCTATTACACCTCTATTCCATTACA---AACCAAACACAAT-A-T
15892710 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
15892736 CCTCTATTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 21 0.36
40 1 0.02
43 2 0.03
44 10 0.17
45 25 0.42
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (41 bp):
TGCTATTACACCTCTATTCCATTACAAACCAAACACAATAT
Found at i:15892735 original size:16 final size:16
Alignment explanation
Indices: 15892714--15892783 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
15892704 TTGATTTGCT
*
15892714 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
15892730 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
15892746 ATTACTCCTCTAATCC
1 ATTACACCTCTAATCC
*
15892762 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
15892778 AATACA
1 ATTACA
15892784 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:15893464 original size:21 final size:19
Alignment explanation
Indices: 15893415--15893465 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
15893405 TATATTTTAA
15893415 ATTTAAATTTTATTTATTT
1 ATTTAAATTTTATTTATTT
* *
15893434 ATTGAGAATTTTTTATTATTT
1 ATTTA-AATTTTAT-TTATTT
15893455 ATTTTAAATTT
1 A-TTTAAATTT
15893466 GTTGAATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.15
20 7 0.27
21 12 0.46
22 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (19 bp):
ATTTAAATTTTATTTATTT
Found at i:15897973 original size:13 final size:13
Alignment explanation
Indices: 15897955--15897979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15897945 TAATTAAGGT
15897955 ATAAAAGAAAAAA
1 ATAAAAGAAAAAA
15897968 ATAAAAGAAAAA
1 ATAAAAGAAAAA
15897980 GATGACATTT
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:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
ATAAAAGAAAAAA
Found at i:15909070 original size:94 final size:95
Alignment explanation
Indices: 15908886--15909077 Score: 307
Period size: 94 Copynumber: 2.0 Consensus size: 95
15908876 TTCAGATGAC
** * * *
15908886 TTTAATTACTGGATTACCCCCATTGCACTATTTAAAAAAAATGAAAAGTAGAAAAAAAAAGGTTC
1 TTTAATTACCAGATTACCCCCATTGCACTATTTAAAAAAAATAAAAAGGAGAAAAAAAAAGCTTC
15908951 TTAATGAATGCTGAGCCCTCGCTATTTTCAT
66 TTAATGAATGCTGAGCCCTCGCTATTTTC-T
*
15908982 TTTAATTACCAGATTACCCCCATTGCACTGTTT-AAAAAAATAAAAAGGAG-AAAAAAAAGCTTC
1 TTTAATTACCAGATTACCCCCATTGCACTATTTAAAAAAAATAAAAAGGAGAAAAAAAAAGCTTC
15909045 TTAATGAATGCTGAGCCCTCGCTATTTTCT
66 TTAATGAATGCTGAGCCCTCGCTATTTTCT
15909075 TTT
1 TTT
15909078 CGTCACTTCC
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
93 4 0.04
94 41 0.46
95 15 0.17
96 30 0.33
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.32
Consensus pattern (95 bp):
TTTAATTACCAGATTACCCCCATTGCACTATTTAAAAAAAATAAAAAGGAGAAAAAAAAAGCTTC
TTAATGAATGCTGAGCCCTCGCTATTTTCT
Found at i:15910892 original size:12 final size:12
Alignment explanation
Indices: 15910875--15910900 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15910865 TATTTACTTA
15910875 TGATTATTGATG
1 TGATTATTGATG
15910887 TGATTATTGATG
1 TGATTATTGATG
15910899 TG
1 TG
15910901 GATTCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (12 bp):
TGATTATTGATG
Found at i:15912398 original size:6 final size:6
Alignment explanation
Indices: 15912383--15912412 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
15912373 CTTAAAACTG
15912383 ATCC-A ATCCAA ATCCAA ATCCAA ATCCAA A
1 ATCCAA ATCCAA ATCCAA ATCCAA ATCCAA A
15912413 AAACCCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (6 bp):
ATCCAA
Found at i:15917363 original size:12 final size:11
Alignment explanation
Indices: 15917346--15917417 Score: 56
Period size: 12 Copynumber: 6.3 Consensus size: 11
15917336 GATAAGAAGA
15917346 AATAATGAAAAT
1 AATAAT-AAAAT
15917358 AATAATAACAAT
1 AATAATAA-AAT
*
15917370 AATAGTACAAAT
1 AATAATA-AAAT
* *
15917382 AATAATAGGATT
1 AATAATA-AAAT
*
15917394 AATAA-ATAAT
1 AATAATAAAAT
*
15917404 AATAATAAATT
1 AATAATAAAAT
15917415 AAT
1 AAT
15917418 TAGTAAAAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
10 7 0.15
11 9 0.19
12 31 0.65
13 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:15917664 original size:19 final size:21
Alignment explanation
Indices: 15917626--15917664 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
15917616 CTTTTTTTAA
*
15917626 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
15917647 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
15917665 ACCAGTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:15917883 original size:19 final size:19
Alignment explanation
Indices: 15917859--15917914 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
15917849 AATCACATCT
15917859 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
15917878 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
15917899 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
15917915 CTCGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.44
21 18 0.56
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:15917896 original size:21 final size:21
Alignment explanation
Indices: 15917870--15917913 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
15917860 CTAAGATTAC
15917870 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
15917891 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
15917912 AT
1 AT
15917914 CCTCGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:15922676 original size:6 final size:6
Alignment explanation
Indices: 15922651--15922687 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
15922641 CCAAATACAC
15922651 CAGTATA CAGTAA TCAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTA
15922688 TTCAACACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (6 bp):
CAGTAA
Found at i:15922795 original size:39 final size:39
Alignment explanation
Indices: 15922671--15922835 Score: 158
Period size: 39 Copynumber: 4.2 Consensus size: 39
15922661 TAATCAGTAA
* *
15922671 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA----T
* * * *
15922714 AACAGTAACGGTAACTGTATTCTACACAC--AGTGCCGAGT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
15922753 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* * *
15922792 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTG-AT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCC-GAAT
15922830 CAGTAA
1 CAGTAA
15922836 GCCGGCAAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
37 24 0.23
38 15 0.14
39 35 0.33
43 7 0.07
45 24 0.23
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:15923896 original size:16 final size:16
Alignment explanation
Indices: 15923877--15923909 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15923867 TTCTATTCTG
*
15923877 TTTCTTTTCTTTCTTT
1 TTTCTATTCTTTCTTT
15923893 TTTCTATTCTTTCTTT
1 TTTCTATTCTTTCTTT
15923909 T
1 T
15923910 GTTTTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTATTCTTTCTTT
Found at i:15923931 original size:5 final size:5
Alignment explanation
Indices: 15923918--15923989 Score: 53
Period size: 5 Copynumber: 14.4 Consensus size: 5
15923908 TTGTTTTATG
*
15923918 TATATA TATAA TATAA TATAT TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
15923966 CATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
15923990 GTATTTTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.06
4 5 0.09
5 33 0.61
6 10 0.19
7 3 0.06
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Done.