Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 170 of 203
Found at i:53900905 original size:33 final size:30
Alignment explanation
Indices: 53900854--53900947 Score: 100
Period size: 30 Copynumber: 3.0 Consensus size: 30
53900844 AGTGCGAGCG
*
53900854 AGAAAATGAAAAAGAAATTGCAAAAGAAAA
1 AGAAAATGAAAAAGAAATTGAAAAAGAAAA
*
53900884 AGAAAATGAAGAAAAGAAAATTGAAAAAGAAAT
1 AGAAAATG-A-AAAAG-AAATTGAAAAAGAAAA
* * *
53900917 TGAGATTGAGAAAA-AAATTGAAAAAGAAAA
1 AGAAAATGA-AAAAGAAATTGAAAAAGAAAA
53900947 A
1 A
53900948 AATGTTGAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
30 23 0.43
31 1 0.02
32 11 0.20
33 19 0.35
ACGTcount: A:0.68, C:0.01, G:0.18, T:0.13
Consensus pattern (30 bp):
AGAAAATGAAAAAGAAATTGAAAAAGAAAA
Found at i:53900916 original size:12 final size:12
Alignment explanation
Indices: 53900854--53900919 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
53900844 AGTGCGAGCG
*
53900854 AGAAAATGAAAA
1 AGAAATTGAAAA
*
53900866 AGAAATTGCAAA
1 AGAAATTGAAAA
**
53900878 AGAAAAAGAAAA
1 AGAAATTGAAAA
*
53900890 TG-AA--G-AAA
1 AGAAATTGAAAA
53900898 AGAAAATTGAAAA
1 AG-AAATTGAAAA
53900911 AGAAATTGA
1 AGAAATTGA
53900920 GATTGAGAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
8 4 0.10
9 1 0.02
10 2 0.05
11 2 0.05
12 28 0.67
13 5 0.12
ACGTcount: A:0.68, C:0.02, G:0.18, T:0.12
Consensus pattern (12 bp):
AGAAATTGAAAA
Found at i:53900924 original size:18 final size:18
Alignment explanation
Indices: 53900903--53900937 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
53900893 AGAAAAGAAA
53900903 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
53900921 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
53900938 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:53900946 original size:16 final size:17
Alignment explanation
Indices: 53900925--53900963 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
53900915 ATTGAGATTG
53900925 AGAAAAAAA-TTGAAAA
1 AGAAAAAAAGTTGAAAA
53900941 AGAAAAAAATGTTGAAAA
1 AGAAAAAAA-GTTGAAAA
53900959 AGAAA
1 AGAAA
53900964 CGAAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
18 12 0.57
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (17 bp):
AGAAAAAAAGTTGAAAA
Found at i:53902124 original size:92 final size:92
Alignment explanation
Indices: 53901967--53902147 Score: 362
Period size: 92 Copynumber: 2.0 Consensus size: 92
53901957 TTGGATCATC
53901967 ATTGAATGAAATCAAGCACTCTGAATTTTGTGTGAATAGATGTGTGAACCATTTGTGCTTGCTTG
1 ATTGAATGAAATCAAGCACTCTGAATTTTGTGTGAATAGATGTGTGAACCATTTGTGCTTGCTTG
53902032 ATGTTATGACTTTAAATCTGAAAAAGA
66 ATGTTATGACTTTAAATCTGAAAAAGA
53902059 ATTGAATGAAATCAAGCACTCTGAATTTTGTGTGAATAGATGTGTGAACCATTTGTGCTTGCTTG
1 ATTGAATGAAATCAAGCACTCTGAATTTTGTGTGAATAGATGTGTGAACCATTTGTGCTTGCTTG
53902124 ATGTTATGACTTTAAATCTGAAAA
66 ATGTTATGACTTTAAATCTGAAAA
53902148 CGAAGTTGTT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.36
Consensus pattern (92 bp):
ATTGAATGAAATCAAGCACTCTGAATTTTGTGTGAATAGATGTGTGAACCATTTGTGCTTGCTTG
ATGTTATGACTTTAAATCTGAAAAAGA
Found at i:53903030 original size:16 final size:15
Alignment explanation
Indices: 53903006--53903053 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
53902996 TAATATGTTT
53903006 TGCTGCTGTTGTTTAA
1 TGCT-CTGTTGTTTAA
53903022 TGCTACTGTTGTTTAA
1 TGCT-CTGTTGTTTAA
53903038 TG--CTGTTGTTTAA
1 TGCTCTGTTGTTTAA
53903051 TGC
1 TGC
53903054 AGAATATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 13 0.43
16 17 0.57
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (15 bp):
TGCTCTGTTGTTTAA
Found at i:53903043 original size:13 final size:13
Alignment explanation
Indices: 53903009--53903053 Score: 63
Period size: 13 Copynumber: 3.2 Consensus size: 13
53902999 TATGTTTTGC
53903009 TGCTGTTGTTTAA
1 TGCTGTTGTTTAA
53903022 TGCTACTGTTGTTTAA
1 TG---CTGTTGTTTAA
53903038 TGCTGTTGTTTAA
1 TGCTGTTGTTTAA
53903051 TGC
1 TGC
53903054 AGAATATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 16 0.55
16 13 0.45
ACGTcount: A:0.16, C:0.11, G:0.22, T:0.51
Consensus pattern (13 bp):
TGCTGTTGTTTAA
Found at i:53905300 original size:9 final size:9
Alignment explanation
Indices: 53905286--53905315 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
53905276 TTTATTATTT
*
53905286 AACATCATG
1 AACATCAAG
53905295 AACATCAAG
1 AACATCAAG
53905304 AACATCAAG
1 AACATCAAG
53905313 AAC
1 AAC
53905316 TCCTCAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.53, C:0.23, G:0.10, T:0.13
Consensus pattern (9 bp):
AACATCAAG
Found at i:53909438 original size:21 final size:22
Alignment explanation
Indices: 53909409--53909451 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
53909399 AAAGGTTAAG
*
53909409 CAATCAGCTTGGGTGCCTCTCA
1 CAATCAGCTTGGGTGCCCCTCA
53909431 CAAT-AGCTTGGGTGCCCCTCA
1 CAATCAGCTTGGGTGCCCCTCA
53909452 AGCTTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.26
Consensus pattern (22 bp):
CAATCAGCTTGGGTGCCCCTCA
Found at i:53910002 original size:17 final size:17
Alignment explanation
Indices: 53909967--53910021 Score: 73
Period size: 15 Copynumber: 3.5 Consensus size: 17
53909957 TATAGTTTCT
*
53909967 TATAGTCTT-ATAA-TC
1 TATAGTTTTCATAATTC
53909982 TATAGTTTTCATAATTC
1 TATAGTTTTCATAATTC
53909999 TATAG-TTTCA-AATTC
1 TATAGTTTTCATAATTC
53910014 TATAGTTT
1 TATAGTTT
53910022 CACATCTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
15 18 0.50
16 11 0.31
17 7 0.19
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (17 bp):
TATAGTTTTCATAATTC
Found at i:53912767 original size:23 final size:23
Alignment explanation
Indices: 53912741--53912786 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
53912731 ATTCTTACTG
* *
53912741 TAGTAATTTTCGGGGTATTACAA
1 TAGTAATTTTCGAGATATTACAA
53912764 TAGTAATTTTCGAGATATTACAA
1 TAGTAATTTTCGAGATATTACAA
53912787 CCTTGTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (23 bp):
TAGTAATTTTCGAGATATTACAA
Found at i:53913700 original size:16 final size:16
Alignment explanation
Indices: 53913679--53913709 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53913669 TCCCAACCCC
*
53913679 ATGCAGTATGTCATGT
1 ATGCAGTATGCCATGT
53913695 ATGCAGTATGCCATG
1 ATGCAGTATGCCATG
53913710 CTTAGAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCAGTATGCCATGT
Found at i:53913904 original size:27 final size:26
Alignment explanation
Indices: 53913874--53914013 Score: 124
Period size: 27 Copynumber: 5.2 Consensus size: 26
53913864 CATCACGGTC
53913874 ATTTTACCCTAC-AGGGGTATTTCAGTA
1 ATTTTACCC-ACGA-GGGTATTTCAGTA
*
53913901 ATTTTACCCTAC-AGGGGTATTTTAGTA
1 ATTTTACCC-ACGA-GGGTATTTCAGTA
* *
53913928 ATTTTACCCATCGTGGGTTTTTC-GATA
1 ATTTTACCCA-CGAGGGTATTTCAG-TA
* *
53913955 ATTTTACCCATCGAAGGTATTTCAATA
1 ATTTTACCCA-CGAGGGTATTTCAGTA
* *
53913982 ATTTTACCCATTGAGGGTATTTCGGTA
1 ATTTTACCCA-CGAGGGTATTTCAGTA
53914009 ATTTT
1 ATTTT
53914014 TATTTCGGTA
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.02
27 95 0.98
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.41
Consensus pattern (26 bp):
ATTTTACCCACGAGGGTATTTCAGTA
Found at i:53914019 original size:15 final size:15
Alignment explanation
Indices: 53913999--53914028 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
53913989 CCATTGAGGG
53913999 TATTTCGGTAATTTT
1 TATTTCGGTAATTTT
53914014 TATTTCGGTAATTTT
1 TATTTCGGTAATTTT
53914029 ACCCATCAGG
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:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
TATTTCGGTAATTTT
Found at i:53915639 original size:23 final size:23
Alignment explanation
Indices: 53915609--53915697 Score: 151
Period size: 23 Copynumber: 3.9 Consensus size: 23
53915599 CTTTTTGAAC
*
53915609 CATTTCCATTTCGAACCAAATTA
1 CATTTCCATTTCGTACCAAATTA
*
53915632 CATTTCCATTTTGTACCAAATTA
1 CATTTCCATTTCGTACCAAATTA
53915655 CATTTCCATTTCGTACCAAATTA
1 CATTTCCATTTCGTACCAAATTA
*
53915678 CATTACCATTTCGTACCAAA
1 CATTTCCATTTCGTACCAAA
53915698 CCAAAACCAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (23 bp):
CATTTCCATTTCGTACCAAATTA
Found at i:53922966 original size:47 final size:47
Alignment explanation
Indices: 53922874--53922998 Score: 135
Period size: 47 Copynumber: 2.7 Consensus size: 47
53922864 TTAGGATTCT
* * * *
53922874 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGGATGTGAA-AGTGTATATATGTGACAAGGCCGAATGGCCA
* * *
53922921 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGGATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCA
* * * *
53922968 ACGTGACGGGTGTGAAAGTGTATAAATGTGA
1 ATGTGATGGATGTGAAAGTGTATATATGTGA
53922999 TAAGTCCCGA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 1 0.02
47 64 0.98
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.26
Consensus pattern (47 bp):
ATGTGATGGATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCA
Found at i:53923177 original size:37 final size:37
Alignment explanation
Indices: 53923121--53923199 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
53923111 CCGAGCTCTA
* * *
53923121 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
53923158 AAGACCCGGTAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53923195 AAGAC
1 AAGAC
53923200 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53924907 original size:20 final size:20
Alignment explanation
Indices: 53924882--53924919 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
53924872 AAATTAAACC
*
53924882 GAGCTAGGTTTGAGCTTATT
1 GAGCTAAGTTTGAGCTTATT
53924902 GAGCTAAGTTTGAGCTTA
1 GAGCTAAGTTTGAGCTTA
53924920 GTTCAGCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.37
Consensus pattern (20 bp):
GAGCTAAGTTTGAGCTTATT
Found at i:53930916 original size:15 final size:17
Alignment explanation
Indices: 53930898--53930929 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
53930888 TAAAATAGAA
53930898 AATATAA-ATA-ACAAC
1 AATATAACATATACAAC
53930913 AATATAACATATACAAC
1 AATATAACATATACAAC
53930930 TACAAGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (17 bp):
AATATAACATATACAAC
Found at i:53934751 original size:28 final size:28
Alignment explanation
Indices: 53934718--53934771 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
53934708 CAGTAATAGT
* *
53934718 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGTGAGCCTAAGCCCAATACAGAA
*
53934746 ACAGTGTGAGCCTAAGCCCGATACAG
1 ACAGTGTGAGCCTAAGCCCAATACAG
53934772 TATCAGTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.17
Consensus pattern (28 bp):
ACAGTGTGAGCCTAAGCCCAATACAGAA
Found at i:53934778 original size:28 final size:27
Alignment explanation
Indices: 53934715--53934778 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
53934705 ATTCAGTAAT
* *
53934715 AGTACAGTGTGGGCCTTAGCCCAATAC
1 AGTACAGTGTGAGCCTAAGCCCAATAC
* *
53934742 AGAAACAGTGTGAGCCTAAGCCCGATAC
1 AG-TACAGTGTGAGCCTAAGCCCAATAC
53934770 AGTATCAGT
1 AGTA-CAGT
53934779 ATGGTGCAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.20
Consensus pattern (27 bp):
AGTACAGTGTGAGCCTAAGCCCAATAC
Found at i:53934939 original size:26 final size:26
Alignment explanation
Indices: 53934887--53934939 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
53934877 CACCAATATC
* *
53934887 GCAGCATAGCTGCCAGTAGTAATAAT
1 GCAGCAGAGCTGCCAGTAGTAAGAAT
* *
53934913 GCAGCAGAGCTGCTAGTAGTCAGAAT
1 GCAGCAGAGCTGCCAGTAGTAAGAAT
53934939 G
1 G
53934940 GCTAAGAGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (26 bp):
GCAGCAGAGCTGCCAGTAGTAAGAAT
Found at i:53935024 original size:31 final size:32
Alignment explanation
Indices: 53934989--53935186 Score: 134
Period size: 32 Copynumber: 6.2 Consensus size: 32
53934979 GAATGGCTAC
* * *
53934989 AAGCCATAAGTA-CAATAATGTGATTGGCACA
1 AAGCCATCAGTAGCAATAATATGATCGGCACA
* *
53935020 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAGCAATAATATGATCGGCACA
* * * *
53935052 CAGCCATCAGTAGCAGTGATATGATCAGCACA
1 AAGCCATCAGTAGCAATAATATGATCGGCACA
* * * * * *
53935084 TAGCCATTAATAACAGTGAA-ATGATCGGCATA
1 AAGCCATCAGTAGCAAT-AATATGATCGGCACA
* * ** *
53935116 CAA-CCATTAGTATCTGTAATATGATTGGCAC-
1 -AAGCCATCAGTAGCAATAATATGATCGGCACA
* * * *
53935147 AAGCCATCACTAACGATACTATGATCGGCACA
1 AAGCCATCAGTAGCAATAATATGATCGGCACA
53935179 AAGCCATC
1 AAGCCATC
53935187 TGATGTGAGC
Statistics
Matches: 134, Mismatches: 27, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
30 2 0.01
31 34 0.25
32 96 0.72
33 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAGCAATAATATGATCGGCACA
Found at i:53935057 original size:32 final size:32
Alignment explanation
Indices: 53935009--53935186 Score: 157
Period size: 32 Copynumber: 5.6 Consensus size: 32
53934999 TACAATAATG
* *
53935009 TGATTGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* *
53935041 TGATCGGCACACAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* * * * *
53935073 TGATCAGCACATAGCCATTAATAACAGTGAAA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* * * * *
53935105 TGATCGGCATACAA-CCATTAGTATCTGTAATA
1 TGATCGGCACA-AAGCCATCAGTAACAGTGATA
* *
53935137 TGATTGGCAC-AAGCCATCACTAAC-GAT-ACTA
1 TGATCGGCACAAAGCCATCAGTAACAG-TGA-TA
53935168 TGATCGGCACAAAGCCATC
1 TGATCGGCACAAAGCCATC
53935187 TGATGTGAGC
Statistics
Matches: 119, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
30 4 0.03
31 20 0.17
32 94 0.79
33 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACAGTGATA
Found at i:53935429 original size:20 final size:20
Alignment explanation
Indices: 53935406--53935453 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
53935396 TTAACTTAGT
*
53935406 TCAGCTCACTCGAGCTTAAG
1 TCAGCTCACTCGAGCTCAAG
* *
53935426 TCAGCTCATTCGAGCTCAAT
1 TCAGCTCACTCGAGCTCAAG
53935446 TCAGCTCA
1 TCAGCTCA
53935454 ATCTTAACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (20 bp):
TCAGCTCACTCGAGCTCAAG
Found at i:53937143 original size:27 final size:27
Alignment explanation
Indices: 53937109--53937304 Score: 302
Period size: 27 Copynumber: 7.3 Consensus size: 27
53937099 CCACCAAGGC
53937109 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
53937136 CTTACGGTTATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* ** **
53937163 ATTACAGTCATTTTATTCTACAGATGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
53937190 ATTATGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
53937217 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
53937244 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
53937271 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
53937298 ATTACGG
1 ATTACGG
53937305 ACAAGGGCAT
Statistics
Matches: 149, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:53937175 original size:54 final size:54
Alignment explanation
Indices: 53937106--53937412 Score: 341
Period size: 54 Copynumber: 5.9 Consensus size: 54
53937096 TACCCACCAA
* *
53937106 GGCATTACGGTCATTTTACCCTACAGGGGTCTTACGGTTATTTTACCCTACAGG
1 GGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGG
* * ** ** *
53937160 GGTATTACAGTCATTTTATTCTACAGATGTATTATGGTCATTTTACCCTACAGG
1 GGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGG
53937214 GGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGG
1 GGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGG
53937268 GGCATTACGGTCATTTTACCCTACAGGGGTATTACGG-------A--C-A-A-G
1 GGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGG
* * * *
53937310 GGCATTACGGTCACTTTACCCTACAGAGGTAGTACGGTCATTTTACCCTACAGT
1 GGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGG
* * * * * * * *
53937364 GGCATTATGGTTATTTTCCCCTTCAGGAGTATTTCGGTAATTTAACCCT
1 GGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCT
53937413 TCGAGGTATT
Statistics
Matches: 210, Mismatches: 31, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
42 35 0.17
43 1 0.00
44 1 0.00
45 1 0.00
47 1 0.00
49 1 0.00
51 1 0.00
52 1 0.00
53 1 0.00
54 167 0.80
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (54 bp):
GGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGG
Found at i:53937254 original size:81 final size:81
Alignment explanation
Indices: 53937105--53937396 Score: 304
Period size: 81 Copynumber: 3.8 Consensus size: 81
53937095 TTACCCACCA
*
53937105 AGGCATTACGGTCATTTTACCCTACAGGGGTC-TTACGGTTATTTTACCCTACAGGGGTATTACA
1 AGGCATTACGGTCATTTTACCCTACAGGGG-CATTACGGTCATTTTACCCTACAGGGGTATTACA
**
53937169 GTCATTTTATTCTACAG
65 GTCATTTTACCCTACAG
* * * *
53937186 ATGTATTATGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACGG
1 AGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACAG
53937251 TCATTTTACCCTACAG
66 TCATTTTACCCTACAG
* * * *
53937267 GGGCATTACGGTCATTTTACCCTACAGGGGTATTACGG-------A--C-A-A-GGGCATTACGG
1 AGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACAG
*
53937320 TCACTTTACCCTACAG
66 TCATTTTACCCTACAG
* * * * * * * *
53937336 AGGTAGTACGGTCATTTTACCCTACAGTGGCATTATGGTTATTTTCCCCTTCAGGAGTATT
1 AGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATT
53937397 TCGGTAATTT
Statistics
Matches: 174, Mismatches: 24, Indels: 26
0.78 0.11 0.12
Matches are distributed among these distances:
69 57 0.33
70 1 0.01
71 1 0.01
72 1 0.01
74 1 0.01
78 1 0.01
80 2 0.01
81 110 0.63
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (81 bp):
AGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTACAG
TCATTTTACCCTACAG
Found at i:53937328 original size:42 final size:42
Alignment explanation
Indices: 53937267--53937346 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
53937257 TACCCTACAG
* * *
53937267 GGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGACAA
1 GGGCATTACGGTCACTTTACCCTACAGAGGTAGTACGGACAA
53937309 GGGCATTACGGTCACTTTACCCTACAGAGGTAGTACGG
1 GGGCATTACGGTCACTTTACCCTACAGAGGTAGTACGG
53937347 TCATTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (42 bp):
GGGCATTACGGTCACTTTACCCTACAGAGGTAGTACGGACAA
Found at i:53937379 original size:27 final size:27
Alignment explanation
Indices: 53937310--53937385 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
53937300 TACGGACAAG
*
53937310 GGCATTACGGTCACTTTACCCTACAGA
1 GGCATTACGGTCATTTTACCCTACAGA
* * *
53937337 GGTAGTACGGTCATTTTACCCTACAGT
1 GGCATTACGGTCATTTTACCCTACAGA
* * *
53937364 GGCATTATGGTTATTTTCCCCT
1 GGCATTACGGTCATTTTACCCT
53937386 TCAGGAGTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
GGCATTACGGTCATTTTACCCTACAGA
Found at i:53937380 original size:96 final size:96
Alignment explanation
Indices: 53937213--53937396 Score: 287
Period size: 96 Copynumber: 1.9 Consensus size: 96
53937203 TACCCTACAG
* * *
53937213 GGGCATTACGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG
1 GGGCATTACGGTCACTTTACCCTACAGAGGTAGTACGGTCATTTTACCCTACAGGGGCATTACGG
*
53937278 TCATTTTACCCTACAGGGGTATTACGGACAA
66 TCATTTTACCCTACAGGAGTATTACGGACAA
* *
53937309 GGGCATTACGGTCACTTTACCCTACAGAGGTAGTACGGTCATTTTACCCTACAGTGGCATTATGG
1 GGGCATTACGGTCACTTTACCCTACAGAGGTAGTACGGTCATTTTACCCTACAGGGGCATTACGG
* * *
53937374 TTATTTTCCCCTTCAGGAGTATT
66 TCATTTTACCCTACAGGAGTATT
53937397 TCGGTAATTT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 79 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (96 bp):
GGGCATTACGGTCACTTTACCCTACAGAGGTAGTACGGTCATTTTACCCTACAGGGGCATTACGG
TCATTTTACCCTACAGGAGTATTACGGACAA
Found at i:53937430 original size:26 final size:27
Alignment explanation
Indices: 53937376--53937513 Score: 172
Period size: 27 Copynumber: 5.1 Consensus size: 27
53937366 CATTATGGTT
* *
53937376 ATTTTCCCCTTC-AGGAGTATTTCGGTA
1 ATTTTACCCTTCGAGG-GTATTTCGATA
* *
53937403 ATTTAACCCTTCGA-GGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * *
53937429 ATTTTACCCTTCGAAGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
53937456 ATTTTACCCTTCGAGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
53937483 ATTTTACCCTTCGAGGGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
53937510 ATTT
1 ATTT
53937514 AACAACCTTT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
26 22 0.23
27 74 0.76
28 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:53940673 original size:3 final size:3
Alignment explanation
Indices: 53940665--53940692 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
53940655 ATTAAGGTGC
53940665 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
53940693 GAAAATGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:53947377 original size:14 final size:14
Alignment explanation
Indices: 53947358--53947385 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
53947348 GTTAGTTAAA
53947358 ATGTTAAAATAGTT
1 ATGTTAAAATAGTT
53947372 ATGTTAAAATAGTT
1 ATGTTAAAATAGTT
53947386 TAACTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
ATGTTAAAATAGTT
Found at i:53963093 original size:25 final size:25
Alignment explanation
Indices: 53963059--53963110 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
53963049 GAATTACTTC
*
53963059 AAAAGGTCTTGACCATCGGGATTTT
1 AAAAGGTCTTGACCATCGAGATTTT
53963084 AAAAGGTCTTGACCATCGAGATTTT
1 AAAAGGTCTTGACCATCGAGATTTT
53963109 AA
1 AA
53963111 CTTACTAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (25 bp):
AAAAGGTCTTGACCATCGAGATTTT
Found at i:53965887 original size:23 final size:23
Alignment explanation
Indices: 53965856--53965900 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
53965846 TCCAAACCAA
*
53965856 TTCGCACCTAAACCTAAATCATT
1 TTCGAACCTAAACCTAAATCATT
53965879 TTCGAACCTAAACCTAAATCAT
1 TTCGAACCTAAACCTAAATCAT
53965901 AACCATTCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.04, T:0.29
Consensus pattern (23 bp):
TTCGAACCTAAACCTAAATCATT
Found at i:53971563 original size:40 final size:40
Alignment explanation
Indices: 53971519--53971822 Score: 459
Period size: 40 Copynumber: 7.6 Consensus size: 40
53971509 AAGTGAATAT
* * * * **
53971519 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
*
53971559 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
53971599 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
53971639 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
53971679 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
53971719 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
53971759 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
53971798 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
53971823 TGAACGAGGA
Statistics
Matches: 251, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 35 0.14
40 216 0.86
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:53971617 original size:80 final size:80
Alignment explanation
Indices: 53971480--53971822 Score: 458
Period size: 80 Copynumber: 4.3 Consensus size: 80
53971470 TTGAATGCTG
* * * * * * * *
53971480 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* *
53971543 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTACTAAA
53971560 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
**
53971625 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
*
53971640 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
**
53971705 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* *
53971720 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
53971784 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
53971799 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
53971823 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 20, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
79 34 0.14
80 201 0.83
81 6 0.02
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:53971693 original size:120 final size:119
Alignment explanation
Indices: 53971480--53971822 Score: 476
Period size: 120 Copynumber: 2.9 Consensus size: 119
53971470 TTGAATGCTG
* * * * * *
53971480 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGG-C
* *
53971542 TTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
62 ATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
53971600 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT-
** *
53971665 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
53971720 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTG
* * * *
53971785 TGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
66 TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
53971823 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
119 37 0.18
120 156 0.78
121 8 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:53979587 original size:40 final size:39
Alignment explanation
Indices: 53979556--53979765 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
53979546 GGACTAAGAT
* *
53979556 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
53979596 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
53979636 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
53979676 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
53979716 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
53979755 CCGAAGGCATT
1 CCGAAGGCATT
53979766 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:53979719 original size:120 final size:120
Alignment explanation
Indices: 53979503--53979765 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
53979493 TTGAATGCTG
* *
53979503 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
53979567 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
53979623 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
53979686 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
53979742 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
53979766 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:53979785 original size:79 final size:80
Alignment explanation
Indices: 53979556--53979800 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
53979546 GGACTAAGAT
* * * * * * * ** *
53979556 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
53979619 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
53979636 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
53979701 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
53979716 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
53979780 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
53979794 CCGAAGG
1 CCGAAGG
53979801 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:53982118 original size:23 final size:23
Alignment explanation
Indices: 53982087--53982131 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
53982077 TCCAAACCAA
*
53982087 TTCGCACCTAAACCTAAATCATT
1 TTCGAACCTAAACCTAAATCATT
53982110 TTCGAACCTAAACCTAAATCAT
1 TTCGAACCTAAACCTAAATCAT
53982132 AACCATTCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.04, T:0.29
Consensus pattern (23 bp):
TTCGAACCTAAACCTAAATCATT
Found at i:53999908 original size:8 final size:8
Alignment explanation
Indices: 53999890--53999923 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
53999880 ACTTATATAT
53999890 ATAAT-AA
1 ATAATAAA
53999897 ATAATAAA
1 ATAATAAA
53999905 ATAATAAA
1 ATAATAAA
53999913 ATAATAAA
1 ATAATAAA
53999921 ATA
1 ATA
53999924 TCATTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
ATAATAAA
Found at i:54000855 original size:24 final size:24
Alignment explanation
Indices: 54000828--54000881 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
54000818 TTATGTTATG
*
54000828 TATGACTCATTTGTCTATGATTTT
1 TATGACTCATTTGTCTATGATTTC
* * *
54000852 TATGACTGATTTGTTTGTGATTTC
1 TATGACTCATTTGTCTATGATTTC
54000876 TATGAC
1 TATGAC
54000882 CGATTCTGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.52
Consensus pattern (24 bp):
TATGACTCATTTGTCTATGATTTC
Found at i:54001067 original size:32 final size:31
Alignment explanation
Indices: 54001022--54001216 Score: 214
Period size: 32 Copynumber: 6.1 Consensus size: 31
54001012 TAGCTTTGCT
54001022 GCTTTGTGCCGATCATATTATCGTTACTGATG
1 GCTTTGTGCCGATCATATTA-CGTTACTGATG
* *
54001054 GCTTTGTGTCGATCATATTACTGTTATTGATG
1 GCTTTGTGCCGATCATATTAC-GTTACTGATG
* *
54001086 GCTTTGTACCGATCATACTACCGTTACTGATG
1 GCTTTGTGCCGATCATATTA-CGTTACTGATG
*
54001118 GCTTTGTGCCGATCATATTACAGTTATTGATG
1 GCTTTGTGCCGATCATATTAC-GTTACTGATG
* *
54001150 GCTGTGTGCC-AGTCATATCAC-TACTACTGATG
1 GCTTTGTGCCGA-TCATATTACGT--TACTGATG
* * * *
54001182 GCTTTGTGCCAAACATATTACTTTACTTATG
1 GCTTTGTGCCGATCATATTACGTTACTGATG
54001213 GCTT
1 GCTT
54001217 GTAGCCATTC
Statistics
Matches: 139, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
30 1 0.01
31 14 0.10
32 121 0.87
33 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.39
Consensus pattern (31 bp):
GCTTTGTGCCGATCATATTACGTTACTGATG
Found at i:54001099 original size:64 final size:63
Alignment explanation
Indices: 54001022--54001216 Score: 236
Period size: 64 Copynumber: 3.1 Consensus size: 63
54001012 TAGCTTTGCT
*
54001022 GCTTTGTGCCGATCATATTATCGTTACTGATGGCTTTGTGTCGATCATATTACTGTTATTGATG
1 GCTTTGTGCCGATCATATTA-CGTTACTGATGGCTTTGTGCCGATCATATTACTGTTATTGATG
* * *
54001086 GCTTTGTACCGATCATACTACCGTTACTGATGGCTTTGTGCCGATCATATTACAGTTATTGATG
1 GCTTTGTGCCGATCATATTA-CGTTACTGATGGCTTTGTGCCGATCATATTACTGTTATTGATG
* * * *
54001150 GCTGTGTGCC-AGTCATATCAC-TACTACTGATGGCTTTGTGCCAAACATATTACT-TTACTT-A
1 GCTTTGTGCCGA-TCATATTACGT--TACTGATGGCTTTGTGCCGATCATATTACTGTTA-TTGA
54001211 TG
62 TG
54001213 GCTT
1 GCTT
54001217 GTAGCCATTC
Statistics
Matches: 114, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
62 1 0.01
63 11 0.10
64 102 0.89
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.39
Consensus pattern (63 bp):
GCTTTGTGCCGATCATATTACGTTACTGATGGCTTTGTGCCGATCATATTACTGTTATTGATG
Found at i:54001238 original size:22 final size:21
Alignment explanation
Indices: 54001208--54001272 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
54001198 ATTACTTTAC
54001208 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* * * *
54001230 TTATAGCTTATAGCTATCCTAT
1 TTATGGCTT-TAGCCATTCTGT
54001252 TTATGGCTCTTAGCCATTCTG
1 TTATGGCT-TTAGCCATTCTG
54001273 ACTACTGGCA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:54012838 original size:28 final size:28
Alignment explanation
Indices: 54012804--54012868 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
54012794 TCCTTTTCAC
54012804 TCATTTTCTTTCCAATGTCATTTTC-TTT
1 TCATTTTCTTT-CAATGTCATTTTCATTT
* * *
54012832 TTATTTTCTTTCAATTTCTTTTTCATTT
1 TCATTTTCTTTCAATGTCATTTTCATTT
54012860 TCATTTTCT
1 TCATTTTCT
54012869 CGCTCGCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 11 0.34
28 21 0.66
ACGTcount: A:0.14, C:0.18, G:0.02, T:0.66
Consensus pattern (28 bp):
TCATTTTCTTTCAATGTCATTTTCATTT
Found at i:54015408 original size:10 final size:10
Alignment explanation
Indices: 54015393--54015430 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
54015383 TTGGGTTAAG
54015393 ATTGAGCTGA
1 ATTGAGCTGA
54015403 ATTGAGCTCGA
1 ATTGAGCT-GA
54015414 A-TGAGCTGA
1 ATTGAGCTGA
*
54015423 CTTGAGCT
1 ATTGAGCT
54015431 CGAGTGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 20 0.80
11 3 0.12
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:54015443 original size:20 final size:20
Alignment explanation
Indices: 54015395--54015443 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
54015385 GGGTTAAGAT
*
54015395 TGAGCTGAATTGAGCTCGAA
1 TGAGCTGACTTGAGCTCGAA
*
54015415 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGACTTGAGCTCGAA
54015435 TGAGCTGAC
1 TGAGCTGAC
54015444 CTAAGTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (20 bp):
TGAGCTGACTTGAGCTCGAA
Found at i:54015976 original size:39 final size:39
Alignment explanation
Indices: 54015922--54016003 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
54015912 CGATGGAGTA
54015922 AAGATAGGGTTTGGGATGGCAAGAACAAAATAAAGATTT
1 AAGATAGGGTTTGGGATGGCAAGAACAAAATAAAGATTT
54015961 AAGATAGGGTTTGGGATGGCAAGAACAAAATAAAGATTT
1 AAGATAGGGTTTGGGATGGCAAGAACAAAATAAAGATTT
54016000 AAGA
1 AAGA
54016004 ATCAAAAACG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.45, C:0.05, G:0.28, T:0.22
Consensus pattern (39 bp):
AAGATAGGGTTTGGGATGGCAAGAACAAAATAAAGATTT
Found at i:54021484 original size:35 final size:36
Alignment explanation
Indices: 54021416--54021484 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
54021406 AATTTCCTAA
* * *
54021416 GGGGGAGATTTGTAACAACTTGTTTTTCAATGGTAC
1 GGGGGAGAGTTGTAACAACCTATTTTTCAATGGTAC
54021452 GGGGGAGAGTTGTAA-AACCTATTTTTCAATGGT
1 GGGGGAGAGTTGTAACAACCTATTTTTCAATGGT
54021485 GACGAAACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.26, C:0.10, G:0.29, T:0.35
Consensus pattern (36 bp):
GGGGGAGAGTTGTAACAACCTATTTTTCAATGGTAC
Found at i:54022634 original size:40 final size:40
Alignment explanation
Indices: 54022590--54022738 Score: 190
Period size: 40 Copynumber: 3.7 Consensus size: 40
54022580 TTATTGCCTG
* * * *
54022590 AATGCACATACGCGCCCCTGTTTGTACTTTGGTACCTCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCACTA
* * * *
54022630 AATGCACATACATGCCCCTGTTTGTACTCCGATACCGCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCACTA
* *
54022670 AATGCCCATACGTGCCCCTGTTTGTACTTCGATACAACTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGATACCACTA
* *
54022710 AATGCACATATGTGCCCCTGTTAGTACTT
1 AATGCACATACGTGCCCCTGTTTGTACTT
54022739 TGGTAACCTT
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.31
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGATACCACTA
Found at i:54022752 original size:80 final size:80
Alignment explanation
Indices: 54022587--54022737 Score: 221
Period size: 80 Copynumber: 1.9 Consensus size: 80
54022577 TAATTATTGC
* * **
54022587 CTGAATGCACATACGCGCCCCTGTTTGTACTTTGGTACCTCTAAATGCACATACATGCCCCTGTT
1 CTGAATGCACATACGCGCCCCTGTTTGTACTTCGATACAACTAAATGCACATACATGCCCCTGTT
*
54022652 TGTACTCCGATACCG
66 AGTACTCCGATACCG
* * **
54022667 CTGAATGCCCATACGTGCCCCTGTTTGTACTTCGATACAACTAAATGCACATATGTGCCCCTGTT
1 CTGAATGCACATACGCGCCCCTGTTTGTACTTCGATACAACTAAATGCACATACATGCCCCTGTT
54022732 AGTACT
66 AGTACT
54022738 TTGGTAACCT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (80 bp):
CTGAATGCACATACGCGCCCCTGTTTGTACTTCGATACAACTAAATGCACATACATGCCCCTGTT
AGTACTCCGATACCG
Found at i:54029576 original size:37 final size:37
Alignment explanation
Indices: 54029516--54029593 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
54029506 TATTACGAAA
* *
54029516 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
*
54029553 TCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCT-CCACACGAAGTCATCGGG
54029590 TCTT
1 TCTT
54029594 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCTCCACACGAAGTCATCGGG
Found at i:54029790 original size:47 final size:47
Alignment explanation
Indices: 54029712--54030248 Score: 635
Period size: 47 Copynumber: 11.6 Consensus size: 47
54029702 CCCTTCGGGA
* * * * *
54029712 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
* ** *
54029759 CCTGCCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
*
54029806 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
*
54029853 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
*
54029900 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
*
54029947 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
* * * *
54029994 CTTATCACATATATACGCTTTCACATTTATCACAT-----ATATACG-
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCAT-TAGGC
** * * *
54030036 CTT-TCAC--AT-T-C-C--TCACA-TCGGC-CATTAGGCC-TTA-TC
1 CTTATCACATATATACACTTTCACATTCATCAC-GTCGGCCATTAGGC
*
54030072 ACATATAT-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 -C-T-TATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
*
54030121 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
*
54030168 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
54030215 CTTATCACATATATATATACACTTTCACATTCAT
1 CTTATCAC----ATATATACACTTTCACATTCAT
54030249 TCAAATATAC
Statistics
Matches: 430, Mismatches: 32, Indels: 52
0.84 0.06 0.10
Matches are distributed among these distances:
32 1 0.00
33 3 0.01
34 5 0.01
36 3 0.01
37 3 0.01
38 2 0.00
39 5 0.01
40 1 0.00
41 6 0.01
42 6 0.01
43 4 0.01
44 1 0.00
46 8 0.02
47 355 0.83
48 5 0.01
49 1 0.00
51 21 0.05
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACGTCGGCCATTAGGC
Found at i:54030025 original size:72 final size:72
Alignment explanation
Indices: 54029948--54030081 Score: 250
Period size: 72 Copynumber: 1.9 Consensus size: 72
54029938 CCATTAGGCC
54029948 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACGCT
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACGCT
54030013 TTCACAT
66 TTCACAT
* *
54030020 TTATCACATATATACGCTTTCACATTCCTCACATCGGCCATTAGGCCTTATCACATATATAC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
54030082 ATATATACAC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.34
Consensus pattern (72 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACGCT
TTCACAT
Found at i:54030029 original size:25 final size:25
Alignment explanation
Indices: 54029995--54030045 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
54029985 CCATTAGGCC
54029995 TTATCACATATATACGCTTTCACAT
1 TTATCACATATATACGCTTTCACAT
54030020 TTATCACATATATACGCTTTCACAT
1 TTATCACATATATACGCTTTCACAT
54030045 T
1 T
54030046 CCTCACATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (25 bp):
TTATCACATATATACGCTTTCACAT
Found at i:54030051 original size:25 final size:25
Alignment explanation
Indices: 54029997--54030053 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
54029987 ATTAGGCCTT
*
54029997 ATCACATATATACGCTTTCACATTT
1 ATCACATATATACGCTTTCACATTC
54030022 ATCACATATATACGCTTTCACATTC
1 ATCACATATATACGCTTTCACATTC
*
54030047 CTCACAT
1 ATCACAT
54030054 CGGCCATTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.37
Consensus pattern (25 bp):
ATCACATATATACGCTTTCACATTC
Found at i:54030141 original size:174 final size:166
Alignment explanation
Indices: 54029854--54030200 Score: 541
Period size: 174 Copynumber: 2.0 Consensus size: 166
54029844 CCATTAGGCC
*
54029854 TTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACT
1 TTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
*
54029919 CTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 CTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
* *
54029984 GCCATTAGGCCTTATCACATATATACGCTTTCACAT
131 GCCATTAGGCCTTATCACATATATACACTCTCACAT
* * *
54030020 TTATCACATATATACGCTTTCACATTCCTCACATCGGCCATTAGGCCTTATCACATATATACATA
1 TTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCTTAT--C------ACATA
*
54030085 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
58 TATACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
54030150 TCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACAT
123 TCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACAT
*
54030194 TCATCAC
1 TTATCAC
54030201 GTCGGCCATT
Statistics
Matches: 164, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
166 47 0.29
168 1 0.01
174 116 0.71
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (166 bp):
TTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
CTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATACACTCTCACAT
Found at i:54030200 original size:127 final size:123
Alignment explanation
Indices: 54029903--54030155 Score: 347
Period size: 127 Copynumber: 2.1 Consensus size: 123
54029893 ATTAGGCCTT
* * * *
54029903 ATCACATATATACACTCTCACATTCATCACGTCGGCCA-T--TAGGC-C-T-TATCACATATATA
1 ATCACATATATACGCTTTCACATTCATCACATCGGCCATTGCTA-TCACATATAT-ACATATATA
* *
54029962 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACGCTTTCACATTT
64 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
*
54030022 ATCACATATATACGCTTTCACATTCCTCACATCGGCCATTAGGCCTTATCACATATATACATATA
1 ATCACATATATACGCTTTCACATTCATCACATCGGCCATT--G-C-TATCACATATATACATATA
54030087 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
62 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
54030149 ATCACAT
1 ATCACAT
54030156 CGGCCATTAG
Statistics
Matches: 117, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
119 34 0.29
120 1 0.01
125 1 0.01
126 3 0.03
127 75 0.64
128 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (123 bp):
ATCACATATATACGCTTTCACATTCATCACATCGGCCATTGCTATCACATATATACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
Found at i:54030265 original size:221 final size:220
Alignment explanation
Indices: 54029809--54030257 Score: 671
Period size: 221 Copynumber: 2.0 Consensus size: 220
54029799 ATTAGGCCTT
* * *
54029809 ATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTAT--C------ACATATA
1 ATCACATATATAC-CTTTCACATTCCTCACATCGGCCATTAGGCCTTATCACATATATACATATA
*
54029866 TACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATC
65 TACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATC
* *
54029931 ACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
130 ACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCT
* *
54029996 TATCACATATATACGCTTTCACATTT
195 TATCACATATATACACTTTCACATTC
54030022 ATCACATATATACGCTTTCACATTCCTCACATCGGCCATTAGGCCTTATCACATATATACATATA
1 ATCACATATATAC-CTTTCACATTCCTCACATCGGCCATTAGGCCTTATCACATATATACATATA
* *
54030087 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
65 TACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATC
*
54030152 ACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCT
130 ACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCT
54030217 TATCACATATATATATACACTTTCACATTC
195 TATCAC----ATATATACACTTTCACATTC
*
54030247 ATTCAAATATA
1 A-TCACATATA
54030258 CTTCACATAC
Statistics
Matches: 210, Mismatches: 13, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
213 45 0.21
215 1 0.00
221 137 0.65
225 19 0.09
226 8 0.04
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (220 bp):
ATCACATATATACCTTTCACATTCCTCACATCGGCCATTAGGCCTTATCACATATATACATATAT
ACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCTT
ATCACATATATACACTTTCACATTC
Found at i:54040663 original size:27 final size:28
Alignment explanation
Indices: 54040525--54040649 Score: 207
Period size: 28 Copynumber: 4.5 Consensus size: 28
54040515 TAAATTGTAC
* *
54040525 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
54040553 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
54040581 AGCACTAAGTGTGCGAGCTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
54040609 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
54040636 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
54040650 AGACTTAATA
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 23 0.24
28 71 0.76
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:54048634 original size:19 final size:18
Alignment explanation
Indices: 54048588--54048635 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
54048578 GATAGAATTT
*
54048588 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
54048607 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
54048625 TTGTATTAAAA
1 TTGTA-TAAAA
54048636 ATTTGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:54048694 original size:20 final size:21
Alignment explanation
Indices: 54048650--54048697 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
54048640 GAACATGTTA
54048650 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
54048672 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
54048692 ATTTTT
1 ATTTTT
54048698 GACAGATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:54049272 original size:14 final size:14
Alignment explanation
Indices: 54049249--54049278 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54049239 CATCCCTCAT
*
54049249 TCACATCTCTTCTC
1 TCACAACTCTTCTC
54049263 TCACAACTCTTCTC
1 TCACAACTCTTCTC
54049277 TC
1 TC
54049279 CTCTCTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:54063350 original size:14 final size:14
Alignment explanation
Indices: 54063331--54063363 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
54063321 GTTGGGATAA
*
54063331 AACTGGTATGCGTT
1 AACTGGTATACGTT
54063345 AACTGGTATACGTT
1 AACTGGTATACGTT
54063359 AACTG
1 AACTG
54063364 TTGACTCGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (14 bp):
AACTGGTATACGTT
Found at i:54064006 original size:22 final size:22
Alignment explanation
Indices: 54063972--54064025 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
54063962 AAGAGGAAGA
**
54063972 TATGTGGCAGTTTATCT-ACAAT
1 TATGTGGTGGTTTAT-TGACAAT
* *
54063994 TTTGTGGTGGTTTATTGGCAAT
1 TATGTGGTGGTTTATTGACAAT
54064016 TATGTGGTGG
1 TATGTGGTGG
54064026 CTTGTACACA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.19, C:0.07, G:0.30, T:0.44
Consensus pattern (22 bp):
TATGTGGTGGTTTATTGACAAT
Found at i:54065139 original size:14 final size:14
Alignment explanation
Indices: 54065120--54065147 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
54065110 GACATATGTG
54065120 ATGACTATTGTGAA
1 ATGACTATTGTGAA
54065134 ATGACTATTGTGAA
1 ATGACTATTGTGAA
54065148 TTGTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
ATGACTATTGTGAA
Found at i:54066286 original size:12 final size:12
Alignment explanation
Indices: 54066269--54066298 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
54066259 AGCCACACGA
54066269 CCGTGTGCTAGG
1 CCGTGTGCTAGG
54066281 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
54066293 TCGTGT
1 CCGTGT
54066299 AACAGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:54068861 original size:428 final size:428
Alignment explanation
Indices: 54068064--54069352 Score: 2551
Period size: 428 Copynumber: 3.0 Consensus size: 428
54068054 TTCACCATGA
54068064 ATATTTTTCTATTTTTCAATTTAATACCTAAATGACAATTTCATCAAAAATTTCTTAACAAGAGT
1 ATATTTTTCTATTTTTCAATTTAATACCTAAATGACAATTTCATCAAAAATTTCTTAACAAGAGT
54068129 TGTTTGTCTACTGATAACTATCAATTTTATTTCATCAAACATCAAAAGCAACCTATATTCATTCA
66 TGTTTGTCTACTGATAACTATCAATTTTATTTCATCAAACATCAAAAGCAACCTATATTCATTCA
* *
54068194 TGGAAAAACTCTAATCTTTTATCAATTTTACAAATTAATCCCCAAGCTAGCTAGATTAAGCTACA
131 TGGAAAAACTCTAATCTTTTAACAATTTTACAAATTAATCCCCAGGCTAGCTAGATTAAGCTACA
54068259 ACAATCCCAAAAACATAAAAATCATTAAAAACGAAACTAAAATACATACCACACAAGCAAGGTGA
196 ACAATCCCAAAAACATAAAAATCATTAAAAACGAAACTAAAATACATACCACACAAGCAAGGTGA
54068324 AGTTGCTGAAATTGAAAGCTCTTCAATGGCTTATTCTTAGCCCTAGTTTGGTGGAGAATGAATGA
261 AGTTGCTGAAATTGAAAGCTCTTCAATGGCTTATTCTTAGCCCTAGTTTGGTGGAGAATGAATGA
54068389 AAGAAGATGATAATGTAATTTGTTTTATTTTACTTAATATTATTTAACTAATTACCATTATATCC
326 AAGAAGATGATAATGTAATTTGTTTTATTTTACTTAATATTATTTAACTAATTACCATTATATCC
54068454 TTTTAAAACATTAAAATTTTCACAAATACCAAGCCATC
391 TTTTAAAACATTAAAATTTTCACAAATACCAAGCCATC
54068492 ATATTTTTCTATTTTTCAATTTAATACCTAAATGACAATTTCATCAAAAATTTCTTAACAAGAGT
1 ATATTTTTCTATTTTTCAATTTAATACCTAAATGACAATTTCATCAAAAATTTCTTAACAAGAGT
*
54068557 TGTTTGTCTACTGATAACTATCAATTTTATTTCATCAAACATCCAAAGCAACCTATATTCATTCA
66 TGTTTGTCTACTGATAACTATCAATTTTATTTCATCAAACATCAAAAGCAACCTATATTCATTCA
54068622 TGGAAAAACTCTAATCTTTTAACAATTTTACAAATTAATCCCCAGGCTAGCTAGATTAAGCTACA
131 TGGAAAAACTCTAATCTTTTAACAATTTTACAAATTAATCCCCAGGCTAGCTAGATTAAGCTACA
54068687 ACAATCCCAAAAACATAAAAATCATTAAAAACGAAACTAAAATACATACCACACAAGCAAGGTGA
196 ACAATCCCAAAAACATAAAAATCATTAAAAACGAAACTAAAATACATACCACACAAGCAAGGTGA
54068752 AGTTGCTGAAATTGAAAGCTCTTCAATGGCTTATTCTTAGCCCTAGTTTGGTGGAGAATGAATGA
261 AGTTGCTGAAATTGAAAGCTCTTCAATGGCTTATTCTTAGCCCTAGTTTGGTGGAGAATGAATGA
54068817 AAGAAGATGATAATGTAATTTGTTTTATTTTACTTAATATTATTTAACTAATTACCATTATATCC
326 AAGAAGATGATAATGTAATTTGTTTTATTTTACTTAATATTATTTAACTAATTACCATTATATCC
54068882 TTTTAAAACATTAAAATTTTCACAAATACCAAGCCATC
391 TTTTAAAACATTAAAATTTTCACAAATACCAAGCCATC
54068920 ATATTTTTCTATTTTTCAATTTAATACCTAAATGACAATTTCATCAAAAATTTCTTAACAAGAGT
1 ATATTTTTCTATTTTTCAATTTAATACCTAAATGACAATTTCATCAAAAATTTCTTAACAAGAGT
54068985 TGTTTGTCTACTGATAACTATCAATTTTATTTCATCAAACATCAAAAGCAACCTATATTCATTCA
66 TGTTTGTCTACTGATAACTATCAATTTTATTTCATCAAACATCAAAAGCAACCTATATTCATTCA
54069050 TGGAAAAACTCTAATCTTTTAACAATTTTACAAATTAATCCCCAGGCTAGCTAGATTAAGCTACA
131 TGGAAAAACTCTAATCTTTTAACAATTTTACAAATTAATCCCCAGGCTAGCTAGATTAAGCTACA
54069115 ACAATCCCAAAAACATAAAAATCATTAAAAACGAAACTAAAATACATACCACACAAGCAAGGTGA
196 ACAATCCCAAAAACATAAAAATCATTAAAAACGAAACTAAAATACATACCACACAAGCAAGGTGA
54069180 AGTTGCTGAAATTGAAAGCTCTTCAATGGCTTATTCTTAGCCCTAGTTTGGTGGAGAATGAATGA
261 AGTTGCTGAAATTGAAAGCTCTTCAATGGCTTATTCTTAGCCCTAGTTTGGTGGAGAATGAATGA
54069245 AAGAAGATGATAATGTAATTTGTTTTATTTTACTTAATATTATTTAACTAATTACCATTATATCC
326 AAGAAGATGATAATGTAATTTGTTTTATTTTACTTAATATTATTTAACTAATTACCATTATATCC
54069310 TTTTAAAACATTAAAATTTTCACAAATACCAAGCCATC
391 TTTTAAAACATTAAAATTTTCACAAATACCAAGCCATC
54069348 ATATT
1 ATATT
54069353 CCAGTATCAA
Statistics
Matches: 857, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
428 857 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.34
Consensus pattern (428 bp):
ATATTTTTCTATTTTTCAATTTAATACCTAAATGACAATTTCATCAAAAATTTCTTAACAAGAGT
TGTTTGTCTACTGATAACTATCAATTTTATTTCATCAAACATCAAAAGCAACCTATATTCATTCA
TGGAAAAACTCTAATCTTTTAACAATTTTACAAATTAATCCCCAGGCTAGCTAGATTAAGCTACA
ACAATCCCAAAAACATAAAAATCATTAAAAACGAAACTAAAATACATACCACACAAGCAAGGTGA
AGTTGCTGAAATTGAAAGCTCTTCAATGGCTTATTCTTAGCCCTAGTTTGGTGGAGAATGAATGA
AAGAAGATGATAATGTAATTTGTTTTATTTTACTTAATATTATTTAACTAATTACCATTATATCC
TTTTAAAACATTAAAATTTTCACAAATACCAAGCCATC
Found at i:54071367 original size:51 final size:51
Alignment explanation
Indices: 54071285--54071620 Score: 272
Period size: 51 Copynumber: 6.6 Consensus size: 51
54071275 GATGAACATG
* * *
54071285 TGTGTAGTACTGTGTGAAGGCTCCTACGTGTATCGATAAATGATGGCCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACA
* * * * * *
54071336 TGTGTAGTACTAAGTGAAGGCTACTATGTGTA-CCA-AAAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATG--ATGGTCACA
* * * *** * *
54071387 TATGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACA
* * * *
54071437 TGTGTAGTACTGTGTGAAGACTACTACGTGAATCGACAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACA
* * * * * * *
54071488 TGTGTAATACTAAGTGAAGGCTACTATGTGTA-CCAGAAA-GCTTTTGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATG--ATGGTCACA
* * * * * *
54071539 TGTGTAATAATATGTGAAGGCTACTACGTGAATCGTATAACT--TGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-ATAAATGATGGTCACA
54071589 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
54071621 CCGAATGATA
Statistics
Matches: 226, Mismatches: 49, Indels: 21
0.76 0.17 0.07
Matches are distributed among these distances:
49 5 0.02
50 80 0.35
51 132 0.58
52 6 0.03
53 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACA
Found at i:54071484 original size:101 final size:99
Alignment explanation
Indices: 54071378--54071625 Score: 293
Period size: 101 Copynumber: 2.5 Consensus size: 99
54071368 CCAAAAAGCT
* * *
54071378 TTGGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAC-TTGATCACGTGTGT
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-AAAACTTTG-TCACATGTGT
* * *
54071442 AGTACTGTGTGAAGACTACTACGTGAATCG-ACAAA
64 AATAATATGTGAAGACTACTACGTGAATCGTACAAA
* * * * *
54071477 TGATGGTCACATGTGTAATACTAAGTGAAGGCTACTATGTGTACCAGAAAGCTTTTGTCACATGT
1 T--TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACC-GAAAAC-TTTGTCACATGT
* * *
54071542 GTAATAATATGTGAAGGCTACTACGTGAATCGTATAAC
62 GTAATAATATGTGAAGACTACTACGTGAATCGTACAAA
*
54071580 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAA
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAA
54071626 TGATAAAAGT
Statistics
Matches: 124, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
99 1 0.01
100 3 0.02
101 77 0.62
102 36 0.29
103 7 0.06
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (99 bp):
TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAACTTTGTCACATGTGTAA
TAATATGTGAAGACTACTACGTGAATCGTACAAA
Found at i:54071560 original size:152 final size:152
Alignment explanation
Indices: 54071284--54071618 Score: 535
Period size: 152 Copynumber: 2.2 Consensus size: 152
54071274 CGATGAACAT
* * * *
54071284 GTGTGTAGTACTGTGTGAAGGCTCCTACGTGTATCGATAAATGATGGCCACATGTGTAGTACTAA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGACAAATGATGGCCACATGTGTAATACTAA
* * *
54071349 GTGAAGGCTACTATGTGTACCAAAAAGCTTTGGTCACGTATGTAGTACTATGTGAAGGCTACTAC
66 GTGAAGGCTACTATGTGTACCAAAAAGCTTTGGTCACATATGTAATAATATGTGAAGGCTACTAC
54071414 GTGAACCGTAAAACTTGATCAC
131 GTGAACCGTAAAACTTGATCAC
* *
54071436 GTGTGTAGTACTGTGTGAAGACTACTACGTGAATCGACAAATGATGGTCACATGTGTAATACTAA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGACAAATGATGGCCACATGTGTAATACTAA
* * *
54071501 GTGAAGGCTACTATGTGTACCAGAAAGCTTTTGTCACATGTGTAATAATATGTGAAGGCTACTAC
66 GTGAAGGCTACTATGTGTACCAAAAAGCTTTGGTCACATATGTAATAATATGTGAAGGCTACTAC
* *
54071566 GTGAATCGTATAACTTGATCAC
131 GTGAACCGTAAAACTTGATCAC
*
54071588 GTGTGTAGTACTATGTGAAGGCTACTACGTG
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTG
54071619 TACCGAATGA
Statistics
Matches: 167, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
152 167 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (152 bp):
GTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGACAAATGATGGCCACATGTGTAATACTAA
GTGAAGGCTACTATGTGTACCAAAAAGCTTTGGTCACATATGTAATAATATGTGAAGGCTACTAC
GTGAACCGTAAAACTTGATCAC
Found at i:54089695 original size:23 final size:23
Alignment explanation
Indices: 54089664--54089714 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
54089654 ACCTACTTTC
*
54089664 TTACTGTAGTAATTTTCGAGG-TA
1 TTACAGTAGTAATTTTCG-GGATA
54089687 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
54089710 TTACA
1 TTACA
54089715 TTTCTCTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:54091295 original size:50 final size:50
Alignment explanation
Indices: 54091227--54091714 Score: 672
Period size: 50 Copynumber: 9.6 Consensus size: 50
54091217 TTTCCTGTAC
* * ** * *
54091227 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
54091277 TGCCCATGCCATGTCCCAGACATGGCCTTACGGGGGACCTCTCATC-CTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-GG
* *
54091327 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
54091377 TGCCAACGCCATGCCCCAGACGTGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
54091427 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
54091477 TGCCAATGCCATGTCCCAGACATGGTCGTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
54091527 TGCCAACGCCATGTCCCAGAGATGGTCATACATGGGACCTCACATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
54091577 TGCCAATGTCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
54091627 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
54091683 TGCCAATGCCATGTCCCAGACATGGTCTTACA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA
54091715 CTAGCTCACA
Statistics
Matches: 389, Mismatches: 41, Indels: 10
0.88 0.09 0.02
Matches are distributed among these distances:
49 1 0.00
50 352 0.90
53 5 0.01
56 31 0.08
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:54094793 original size:23 final size:23
Alignment explanation
Indices: 54094762--54094812 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
54094752 ACCTACTTTC
*
54094762 TTACTGTAGTAATTTTCGAGG-TA
1 TTACAGTAGTAATTTTCG-GGATA
*
54094785 TTACAGTAGTAGTTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
54094808 TTACA
1 TTACA
54094813 CTTGGCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:54098595 original size:16 final size:15
Alignment explanation
Indices: 54098554--54098596 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
54098544 AAAGATGATA
54098554 ATATTAATATATAATT
1 ATATTAAT-TATAATT
**
54098570 ATATCCATTATAATAT
1 ATATTAATTATAAT-T
54098586 ATATTAATTAT
1 ATATTAATTAT
54098597 TATCAGCTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTAATTATAATT
Found at i:54105070 original size:40 final size:40
Alignment explanation
Indices: 54105026--54105117 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
54105016 ACTATGTTTT
* * **
54105026 GCACTTAGTGTGCGATT-TGAGATAACTTCGGCTATTTATG
1 GCACTTAGTGTGCGATTAGGA-ATAACTTCGACTACATATG
*
54105066 GCACTTAGTGTGCGATTAGGAATAGCTTCGACTACATATG
1 GCACTTAGTGTGCGATTAGGAATAACTTCGACTACATATG
*
54105106 GCACTTAATGTG
1 GCACTTAGTGTG
54105118 TGAGACTGAG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 43 0.96
41 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTAGGAATAACTTCGACTACATATG
Found at i:54105191 original size:82 final size:82
Alignment explanation
Indices: 54105045--54105263 Score: 257
Period size: 82 Copynumber: 2.7 Consensus size: 82
54105035 GTGCGATTTG
* * * * * *
54105045 AGATAACTTCGGCTATTTATGGCACTTAGTGTGC--GATTAGGAATAGCTTC-GACTACATATGG
1 AGATAGCTTCAGCTATGTAAGGCACTTACTGTGCGAGATTA-TAATAGCTTCAG-CTACATATGG
*
54105107 CACTTAATGTGTGAGACTG
64 CACTTAATGTGTGAGACTA
* * * *
54105126 AGATAGCTT-TGACTATGTAAGGCACTTACTGTGCGGGATTATAGTAGCTTCAGCTAGATATGGC
1 AGATAGCTTCAG-CTATGTAAGGCACTTACTGTGCGAGATTATAATAGCTTCAGCTACATATGGC
* *
54105190 ACTTAGTGTGTTAGACTA
65 ACTTAATGTGTGAGACTA
*
54105208 AGATAGCTTCAGCTATGTAAGGCACTTAGTGTGCGAGATTATAATAGCTTCAGCTA
1 AGATAGCTTCAGCTATGTAAGGCACTTACTGTGCGAGATTATAATAGCTTCAGCTA
54105264 TGCGATGGCA
Statistics
Matches: 118, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 1 0.01
81 27 0.23
82 83 0.70
83 7 0.06
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (82 bp):
AGATAGCTTCAGCTATGTAAGGCACTTACTGTGCGAGATTATAATAGCTTCAGCTACATATGGCA
CTTAATGTGTGAGACTA
Found at i:54105217 original size:41 final size:41
Alignment explanation
Indices: 54105017--54105283 Score: 199
Period size: 41 Copynumber: 6.5 Consensus size: 41
54105007 GATTAATCGA
* * * * * *
54105017 CTATGTTTTGCACTTAGTGTGCGA-TTTGAGATAACTTCGG
1 CTATGTATGGCACTTAGTGTGCGAGATTAAGATAGCTTCAG
* *
54105057 CTATTTATGGCACTTAGTGTGC--GATTAGGAATAGCTTC-G
1 CTATGTATGGCACTTAGTGTGCGAGATTAAG-ATAGCTTCAG
** * * * * *
54105096 ACTACATATGGCACTTAATGTGTGAGACTGAGATAGCTT-TG
1 -CTATGTATGGCACTTAGTGTGCGAGATTAAGATAGCTTCAG
* * *
54105137 ACTATGTAAGGCACTTACTGTGCGGGATTATAG-TAGCTTCAG
1 -CTATGTATGGCACTTAGTGTGCGAGATTA-AGATAGCTTCAG
** *
54105179 CTA-GATATGGCACTTAGTGTGTTAGACTAAGATAGCTTCAG
1 CTATG-TATGGCACTTAGTGTGCGAGATTAAGATAGCTTCAG
*
54105220 CTATGTAAGGCACTTAGTGTGCGAGATTATA-ATAGCTTCAG
1 CTATGTATGGCACTTAGTGTGCGAGATTA-AGATAGCTTCAG
* *
54105261 CTATGCGATGGCATTTAGTGTGC
1 CTATG-TATGGCACTTAGTGTGC
54105284 AAAACATTGA
Statistics
Matches: 178, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
39 4 0.02
40 47 0.26
41 104 0.58
42 23 0.13
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (41 bp):
CTATGTATGGCACTTAGTGTGCGAGATTAAGATAGCTTCAG
Found at i:54114227 original size:41 final size:40
Alignment explanation
Indices: 54114103--54114341 Score: 189
Period size: 41 Copynumber: 5.9 Consensus size: 40
54114093 ACTATGTTTA
* * *
54114103 GCACTTAGTGTGCGAATTGAGATAGCTTCGGCTATTTATG
1 GCACTTAGTGTGCGGACTGAGATAGCTTCGGCTATATATG
* * * * * *
54114143 GCACTTAATGTGC-GATTGGGAATAGCTTTGACTACATATG
1 GCACTTAGTGTGCGGACTGAG-ATAGCTTCGGCTATATATG
* * *
54114183 GCACTTAGTGTGCGTGACTGAGATAGCTTTGGCTATGTAAG
1 GCACTTAGTGTGCG-GACTGAGATAGCTTCGGCTATATATG
* * * *
54114224 GCACTTAGTGTGTGGGA-TTATAATAACTTCAGG-TATATATG
1 GCACTTAGTGTG-CGGACTGA-GATAGCTTC-GGCTATATATG
* * *
54114265 GCACTTAGTGTGTGAGACTGAGATAGCTTCGGCTATGTAAG
1 GCACTTAGTGTGCG-GACTGAGATAGCTTCGGCTATATATG
* *
54114306 GCACTTAGTGTGCAGGA-TTATAATAGCTTCGGCTAT
1 GCACTTAGTGTGC-GGACTGA-GATAGCTTCGGCTAT
54114342 GCGATGACAT
Statistics
Matches: 158, Mismatches: 30, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
39 5 0.03
40 46 0.29
41 96 0.61
42 11 0.07
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (40 bp):
GCACTTAGTGTGCGGACTGAGATAGCTTCGGCTATATATG
Found at i:54114287 original size:82 final size:82
Alignment explanation
Indices: 54114103--54114335 Score: 276
Period size: 82 Copynumber: 2.9 Consensus size: 82
54114093 ACTATGTTTA
* * * * **
54114103 GCACTTAGTGTGCGA-ATTGAGATAGCTTCGGCTATTTATGGCACTTAATGTGC--GATTGGGAA
1 GCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGGATT-ATAA
* * * *
54114165 TAGCTT-TGACTACATATG
65 TAACTTCAG-GTATATATG
* * **
54114183 GCACTTAGTGTGCGTGACTGAGATAGCTTTGGCTATGTAAGGCACTTAGTGTGTGGGATTATAAT
1 GCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGGATTATAAT
54114248 AACTTCAGGTATATATG
66 AACTTCAGGTATATATG
*
54114265 GCACTTAGTGTGTGAGACTGAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGGATTATAAT
1 GCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGGATTATAAT
*
54114330 AGCTTC
66 AACTTC
54114336 GGCTATGCGA
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 14 0.11
81 32 0.25
82 79 0.61
83 5 0.04
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (82 bp):
GCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGGATTATAAT
AACTTCAGGTATATATG
Found at i:54114342 original size:41 final size:39
Alignment explanation
Indices: 54114094--54114361 Score: 180
Period size: 41 Copynumber: 6.6 Consensus size: 39
54114084 AATTAATCGA
* * * *
54114094 CTATGTTTAGCACTTAGTGTGCGAATTGAGATAGCTTCGG
1 CTATGTATGGCACTTAGTGTGCGGATT-AAATAGCTTCGG
* * * * *
54114134 CTATTTATGGCACTTAATGTGC-GATTGGGAATAGCTTTGA
1 CTATGTATGGCACTTAGTGTGCGGATT--AAATAGCTTCGG
** * * *
54114174 CTACATATGGCACTTAGTGTGCGTGACTGAGATAGCTTTGG
1 CTATGTATGGCACTTAGTGTGCG-GA-TTAAATAGCTTCGG
* * *
54114215 CTATGTAAGGCACTTAGTGTGTGGGATTATAATAACTTCAGG
1 CTATGTATGGCACTTAGTGTG-CGGATTA-AATAGCTTC-GG
* * * *
54114257 -TATATATGGCACTTAGTGTGTGAGACTGAGATAGCTTCGG
1 CTATGTATGGCACTTAGTGTGCG-GA-TTAAATAGCTTCGG
*
54114297 CTATGTAAGGCACTTAGTGTGCAGGATTATAATAGCTTCGG
1 CTATGTATGGCACTTAGTGTGC-GGATTA-AATAGCTTCGG
* * *
54114338 CTATGCGATGACATTTAGTGTGCG
1 CTATG-TATGGCACTTAGTGTGCG
54114362 AAACATTGAG
Statistics
Matches: 176, Mismatches: 39, Indels: 25
0.73 0.16 0.10
Matches are distributed among these distances:
39 3 0.02
40 53 0.30
41 98 0.56
42 21 0.12
43 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.34
Consensus pattern (39 bp):
CTATGTATGGCACTTAGTGTGCGGATTAAATAGCTTCGG
Found at i:54121579 original size:51 final size:50
Alignment explanation
Indices: 54121519--54121657 Score: 190
Period size: 51 Copynumber: 2.7 Consensus size: 50
54121509 GATGAACACG
*
54121519 TGTGTAGTACTATGTGAAGACTACTACGTGTATCGATAAA-TAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-AAACT-ATGGTCACA
* * * *
54121570 TGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGAAAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAA-CTATGGTCACA
*
54121621 TGTGTAGTACTATGTGAAGGCTACTACATGTATCGAA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAA
54121658 TGATAATAGT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
50 3 0.04
51 74 0.95
52 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAACTATGGTCACA
Found at i:54121682 original size:51 final size:51
Alignment explanation
Indices: 54121519--54121689 Score: 184
Period size: 51 Copynumber: 3.4 Consensus size: 51
54121509 GATGAACACG
* *
54121519 TGTGTAGTACTATGTGAAGACTACTACGTGTATCG-ATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAT-GATAATGGTCACA
* * * * * *
54121570 TGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGAAAAGCT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-AATGATAATGGTCACA
* * *
54121621 TGTGTAGTACTATGTGAAGGCTACTACATGTATCGAATGATAATAGTAACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGGTCACA
* * *
54121672 TGGGTGGTACTCTGTGAA
1 TGTGTAGTACTATGTGAA
54121690 AACCCCCAAA
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
50 4 0.04
51 91 0.94
52 1 0.01
53 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGGTCACA
Found at i:54123855 original size:17 final size:18
Alignment explanation
Indices: 54123830--54123872 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
54123820 GGAATCTCAC
* *
54123830 TCTTCTTCATTTTA-ATT
1 TCTTTTTCATTTGATATT
*
54123847 TCTTTTTCATTTGATTTT
1 TCTTTTTCATTTGATATT
54123865 TCTTTTTC
1 TCTTTTTC
54123873 TTTCCTCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.12, C:0.16, G:0.02, T:0.70
Consensus pattern (18 bp):
TCTTTTTCATTTGATATT
Found at i:54123915 original size:27 final size:27
Alignment explanation
Indices: 54123885--54123948 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
54123875 TCCTCTCACA
*
54123885 CTTTTTTAATATCTCTTTCATTTT-TTT
1 CTTTTTTAATA-CACTTTCATTTTCTTT
* *
54123912 CTTTTTTTATACACTTTCTTTTTCTTT
1 CTTTTTTAATACACTTTCATTTTCTTT
*
54123939 CCTTTTTAAT
1 CTTTTTTAAT
54123949 TTCCTCACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.32
27 21 0.68
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (27 bp):
CTTTTTTAATACACTTTCATTTTCTTT
Found at i:54123916 original size:26 final size:29
Alignment explanation
Indices: 54123887--54123948 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 29
54123877 CTCTCACACT
*
54123887 TTTTTAATAT-CTCTTTCATTTT-TTT-C
1 TTTTTAATATACACTTTCATTTTCTTTCC
* *
54123913 TTTTT-TTATACACTTTCTTTTTCTTTCC
1 TTTTTAATATACACTTTCATTTTCTTTCC
54123941 TTTTTAAT
1 TTTTTAAT
54123949 TTCCTCACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
25 3 0.11
26 15 0.54
27 3 0.11
28 6 0.21
29 1 0.04
ACGTcount: A:0.15, C:0.16, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTTTAATATACACTTTCATTTTCTTTCC
Found at i:54124877 original size:21 final size:19
Alignment explanation
Indices: 54124842--54124897 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 19
54124832 TTTTTGAATA
54124842 TTTTTTAATTCGAATTTTAC
1 TTTTTTAATTCGAATTTT-C
*
54124862 TTTTTTAACTTTGAATTTTC
1 TTTTTTAA-TTCGAATTTTC
54124882 TTATTTT--TTCGAATTT
1 TT-TTTTAATTCGAATTT
54124898 GTTTTTCACT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 8 0.25
20 11 0.34
21 13 0.41
ACGTcount: A:0.21, C:0.09, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTTTAATTCGAATTTTC
Found at i:54126448 original size:31 final size:31
Alignment explanation
Indices: 54126366--54126465 Score: 112
Period size: 31 Copynumber: 3.2 Consensus size: 31
54126356 TGACTTCTCA
** *
54126366 TAAATGCTACTCACATAATGCAAGACAAAATT
1 TAAATGCTAAACACATAATGCAAGACATAA-T
*
54126398 TAAAGATGC-AAACACATAATGCAAGTCATAAT
1 T-AA-ATGCTAAACACATAATGCAAGACATAAT
* *
54126430 TAAATGCTAAACATATAATGCAAGGCATAAT
1 TAAATGCTAAACACATAATGCAAGACATAAT
54126461 TAAAT
1 TAAAT
54126466 ATGCAGGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
30 4 0.07
31 28 0.47
32 3 0.05
33 20 0.34
34 4 0.07
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (31 bp):
TAAATGCTAAACACATAATGCAAGACATAAT
Found at i:54129796 original size:32 final size:33
Alignment explanation
Indices: 54129754--54129817 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
54129744 CTAAATGCAA
54129754 AACACATAATGTAAGACATAA-TTAAAGATGCT
1 AACACATAATGTAAGACATAATTTAAAGATGCT
*
54129786 AACATATAATGTAAGACATAATTTAAAGATGC
1 AACACATAATGTAAGACATAATTTAAAGATGC
54129818 AAACTTATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.27
Consensus pattern (33 bp):
AACACATAATGTAAGACATAATTTAAAGATGCT
Found at i:54142598 original size:28 final size:28
Alignment explanation
Indices: 54142556--54142616 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
54142546 CTATTCAGTA
* *
54142556 ACAGT-ACAGTGTGGGCCTTAGCCTAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
54142583 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
54142611 ACAGTA
1 ACAGTA
54142617 TCAGTATAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:54142961 original size:27 final size:27
Alignment explanation
Indices: 54142937--54143161 Score: 267
Period size: 27 Copynumber: 8.3 Consensus size: 27
54142927 AAGGGTATAA
* *
54142937 CAGTCATTTTACCCTGTGGGTGTATTT
1 CAGTCATTTTACCCTGTGGGGGTAATT
**
54142964 C-GATCATTTTACCCTGTAAGGGTAATT
1 CAG-TCATTTTACCCTGTGGGGGTAATT
* *
54142991 CAGTCATTTTACCCTATGGGAGTAATT
1 CAGTCATTTTACCCTGTGGGGGTAATT
*
54143018 CGGTCATTTTACCCTGTGGGGGTAATT
1 CAGTCATTTTACCCTGTGGGGGTAATT
**
54143045 C-GATCATTTTACCCTGTGGGCTTAATT
1 CAG-TCATTTTACCCTGTGGGGGTAATT
* *
54143072 -TGATCATTTTACCTTGTGGGGGTAATT
1 CAG-TCATTTTACCCTGTGGGGGTAATT
* *
54143099 CAATCATCTTACCCTGTGGGGGTAATT
1 CAGTCATTTTACCCTGTGGGGGTAATT
*
54143126 CAGTCATTTTACCCTGTGGGGGTAATC
1 CAGTCATTTTACCCTGTGGGGGTAATT
*
54143153 CGGTCATTT
1 CAGTCATTT
54143162 ATTGACCTCT
Statistics
Matches: 169, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.01
27 166 0.98
28 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.39
Consensus pattern (27 bp):
CAGTCATTTTACCCTGTGGGGGTAATT
Found at i:54145874 original size:20 final size:20
Alignment explanation
Indices: 54145851--54145916 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
54145841 TGCTTACATT
54145851 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGATA
* * *
54145871 CCCCTGAATTGCACTTAC-ATG
1 CCCCTG-TTTGTACTT-CGATA
54145892 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGATA
54145912 CCCCT
1 CCCCT
54145917 TAATTACACT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.03
20 20 0.54
21 15 0.41
22 1 0.03
ACGTcount: A:0.17, C:0.35, G:0.14, T:0.35
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGATA
Found at i:54145888 original size:41 final size:41
Alignment explanation
Indices: 54145827--54146089 Score: 260
Period size: 41 Copynumber: 6.4 Consensus size: 41
54145817 ACACTTAATT
* ** *
54145827 ATACCCTTGAATTGTGCTTACATTCCCCTGTTTGTACTTCG
1 ATACCCCTGAATTGCACTTACATGCCCCTGTTTGTACTTCG
54145868 ATACCCCTGAATTGCACTTACATGCCCCTGTTTGTACTTCG
1 ATACCCCTGAATTGCACTTACATGCCCCTGTTTGTACTTCG
* * * * * **
54145909 ATACCCCTTAATTACACTTACTTGCCCTTATTCATACTTCG
1 ATACCCCTGAATTGCACTTACATGCCCCTGTTTGTACTTCG
* * ** * *
54145950 GTACACCTGAATTGCACTTATGTGCCCTTTTTTGTACTTCG
1 ATACCCCTGAATTGCACTTACATGCCCCTGTTTGTACTTCG
* ** *
54145991 GTACCCCTGAATTGCACTTATGTGCCCCTG-TTGCACTTC-
1 ATACCCCTGAATTGCACTTACATGCCCCTGTTTGTACTTCG
* * * *
54146030 AGTACCCCCTAAATTGCACTTACATGCCTCTATTTGTAGTTCG
1 A-TA-CCCCTGAATTGCACTTACATGCCCCTGTTTGTACTTCG
*
54146073 GTACCCCTGAATTGCAC
1 ATACCCCTGAATTGCAC
54146090 ACACGTGCCC
Statistics
Matches: 184, Mismatches: 34, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
40 10 0.05
41 165 0.90
42 9 0.05
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.37
Consensus pattern (41 bp):
ATACCCCTGAATTGCACTTACATGCCCCTGTTTGTACTTCG
Found at i:54146009 original size:21 final size:21
Alignment explanation
Indices: 54145944--54146089 Score: 68
Period size: 21 Copynumber: 7.1 Consensus size: 21
54145934 CCTTATTCAT
*
54145944 ACTTCGGTACACCTGAATTGC
1 ACTTCGGTACCCCTGAATTGC
** * *** *
54145965 ACTTATGT-GCCCTTTTTTGT
1 ACTTCGGTACCCCTGAATTGC
54145985 ACTTCGGTACCCCTGAATTGC
1 ACTTCGGTACCCCTGAATTGC
** *
54146006 ACTTATGTGCCCCTG--TTGC
1 ACTTCGGTACCCCTGAATTGC
* *
54146025 ACTTCAGTACCCCCTAAATTGC
1 ACTTCGGTA-CCCCTGAATTGC
* * * * *
54146047 ACTTAC-ATGCCTCT-ATTTGT
1 ACTT-CGGTACCCCTGAATTGC
*
54146067 AGTTCGGTACCCCTGAATTGC
1 ACTTCGGTACCCCTGAATTGC
54146088 AC
1 AC
54146090 ACACGTGCCC
Statistics
Matches: 84, Mismatches: 34, Indels: 14
0.64 0.26 0.11
Matches are distributed among these distances:
19 11 0.13
20 29 0.35
21 34 0.40
22 9 0.11
23 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.35
Consensus pattern (21 bp):
ACTTCGGTACCCCTGAATTGC
Found at i:54146037 original size:19 final size:20
Alignment explanation
Indices: 54145985--54146037 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
54145975 CCTTTTTTGT
*
54145985 ACTTCGGTACCCCTGAATTGC
1 ACTTCAGTACCCCTG-ATTGC
*
54146006 ACTT-ATGTGCCCCTG-TTGC
1 ACTTCA-GTACCCCTGATTGC
54146025 ACTTCAGTACCCC
1 ACTTCAGTACCCC
54146038 CTAAATTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 14 0.52
20 1 0.04
21 12 0.44
ACGTcount: A:0.17, C:0.36, G:0.17, T:0.30
Consensus pattern (20 bp):
ACTTCAGTACCCCTGATTGC
Found at i:54146073 original size:123 final size:123
Alignment explanation
Indices: 54145857--54146089 Score: 319
Period size: 123 Copynumber: 1.9 Consensus size: 123
54145847 CATTCCCCTG
* *
54145857 TTTGTACTTCGATACCCCTGAATTGCACTTACATGCCCCTGTTTGTACTTCGATACCCCTTAATT
1 TTTGTACTTCGATACCCCTGAATTGCACTTACATGCCCCTGTTTGCACTTCGATACCCCTAAATT
*
54145922 ACACTTACTTGCCCTTATTCATACTTCGGTACACCTGAATTGCACTTATGTGCCCTTT
66 ACACTTACATGCCCTTATTCATACTTCGGTACACCTGAATTGCACTTATGTGCCCTTT
* **
54145980 TTTGTACTTCGGTACCCCTGAATTGCACTTATGTGCCCCTG-TTGCACTTC-AGTACCCCCTAAA
1 TTTGTACTTCGATACCCCTGAATTGCACTTACATGCCCCTGTTTGCACTTCGA-TA-CCCCTAAA
* ** * *
54146043 TTGCACTTACATG-CCTCTATTTGTAGTTCGGTACCCCTGAATTGCAC
64 TTACACTTACATGCCCT-TATTCATACTTCGGTACACCTGAATTGCAC
54146090 ACACGTGCCC
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
121 1 0.01
122 13 0.14
123 82 0.85
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (123 bp):
TTTGTACTTCGATACCCCTGAATTGCACTTACATGCCCCTGTTTGCACTTCGATACCCCTAAATT
ACACTTACATGCCCTTATTCATACTTCGGTACACCTGAATTGCACTTATGTGCCCTTT
Found at i:54148988 original size:17 final size:18
Alignment explanation
Indices: 54148966--54149001 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
54148956 ATGGTAATTA
54148966 TAATTATTAT-ATTTGGT
1 TAATTATTATGATTTGGT
54148983 TAATTATTATGATTTGGT
1 TAATTATTATGATTTGGT
54149001 T
1 T
54149002 CATATAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (18 bp):
TAATTATTATGATTTGGT
Found at i:54149485 original size:19 final size:20
Alignment explanation
Indices: 54149453--54149498 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
54149443 CAGAAAATAA
54149453 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
54149473 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
54149492 TTTCTGG
1 TTTCTGG
54149499 TGTTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:54152724 original size:28 final size:28
Alignment explanation
Indices: 54152684--54152738 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
54152674 TGAATATGTG
54152684 ATATTCATTAATACTGCTTTAAGTCATA
1 ATATTCATTAATACTGCTTTAAGTCATA
54152712 ATATTCATTAATACTGCTTTAAGTCAT
1 ATATTCATTAATACTGCTTTAAGTCAT
54152739 TAATTTGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.44
Consensus pattern (28 bp):
ATATTCATTAATACTGCTTTAAGTCATA
Found at i:54156684 original size:17 final size:18
Alignment explanation
Indices: 54156658--54156691 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
54156648 TTCAATTTCT
*
54156658 GTTTTTAGACAA-AATTG
1 GTTTTGAGACAATAATTG
54156675 GTTTTGAGACAATAATT
1 GTTTTGAGACAATAATT
54156692 AAGAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (18 bp):
GTTTTGAGACAATAATTG
Found at i:54157035 original size:38 final size:39
Alignment explanation
Indices: 54156984--54157059 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 39
54156974 TAGTACTTCG
54156984 TTACTTTCACTGATGATTTTAGTAGA-AAGGGTATGTTA
1 TTACTTTCACTGATGATTTTAGTAGATAAGGGTATGTTA
*
54157022 TTACTTTCACTGATGATTTTAGTAGATATGGGTATGTT
1 TTACTTTCACTGATGATTTTAGTAGATAAGGGTATGTT
54157060 TATCTAATGC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 26 0.72
39 10 0.28
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (39 bp):
TTACTTTCACTGATGATTTTAGTAGATAAGGGTATGTTA
Found at i:54162259 original size:24 final size:24
Alignment explanation
Indices: 54162232--54162277 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
54162222 ACCTGAATCA
*
54162232 TGTAAACCCTAATGACATGTCATT
1 TGTAAACCCTAATGAAATGTCATT
54162256 TGTAAACCCTAATGAAATGTCA
1 TGTAAACCCTAATGAAATGTCA
54162278 ATTTAGGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (24 bp):
TGTAAACCCTAATGAAATGTCATT
Found at i:54164787 original size:10 final size:10
Alignment explanation
Indices: 54164770--54164816 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
54164760 TGAGTTTAAG
54164770 TCAGCTC-AT
1 TCAGCTCAAT
*
54164779 TCGAGCTCAAG
1 TC-AGCTCAAT
54164790 TCAGCTC-AT
1 TCAGCTCAAT
54164799 TCGAGCTCAAT
1 TC-AGCTCAAT
54164810 TCAGCTC
1 TCAGCTC
54164817 GTTATTAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 5 0.16
10 20 0.62
11 7 0.22
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (10 bp):
TCAGCTCAAT
Found at i:54164790 original size:20 final size:20
Alignment explanation
Indices: 54164767--54164816 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
54164757 ACTTGAGTTT
54164767 AAGTCAGCTCATTCGAGCTC
1 AAGTCAGCTCATTCGAGCTC
54164787 AAGTCAGCTCATTCGAGCTC
1 AAGTCAGCTCATTCGAGCTC
*
54164807 AATTCAGCTC
1 AAGTCAGCTC
54164817 GTTATTAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (20 bp):
AAGTCAGCTCATTCGAGCTC
Found at i:54173222 original size:25 final size:25
Alignment explanation
Indices: 54173188--54173253 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
54173178 GATACTCTGC
*
54173188 AACTCGTGAGAGCATAATGATTTAT
1 AACTCGTGAGAGCATAATAATTTAT
*
54173213 AACTCGTGAGAGCATACTAATTTAT
1 AACTCGTGAGAGCATAATAATTTAT
*
54173238 AGCTCGTGAGAGCATA
1 AACTCGTGAGAGCATA
54173254 TCAATCTACA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (25 bp):
AACTCGTGAGAGCATAATAATTTAT
Found at i:54173266 original size:25 final size:25
Alignment explanation
Indices: 54173190--54173266 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
54173180 TACTCTGCAA
* * * * *
54173190 CTCGTGAGAGCATAATGATTTATAA
1 CTCGTGAGAGCATACTAATCTACAG
* *
54173215 CTCGTGAGAGCATACTAATTTATAG
1 CTCGTGAGAGCATACTAATCTACAG
54173240 CTCGTGAGAGCATA-TCAATCTACAG
1 CTCGTGAGAGCATACT-AATCTACAG
54173265 CT
1 CT
54173267 TGAGTGAGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.02
25 45 0.98
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (25 bp):
CTCGTGAGAGCATACTAATCTACAG
Found at i:54177429 original size:15 final size:15
Alignment explanation
Indices: 54177409--54177438 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54177399 AGATTTCAAT
*
54177409 TTGGTGTTGTGACTA
1 TTGGTGGTGTGACTA
54177424 TTGGTGGTGTGACTA
1 TTGGTGGTGTGACTA
54177439 GCTATTTTTT
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:0.13, C:0.07, G:0.37, T:0.43
Consensus pattern (15 bp):
TTGGTGGTGTGACTA
Found at i:54180464 original size:102 final size:101
Alignment explanation
Indices: 54180288--54180484 Score: 304
Period size: 102 Copynumber: 1.9 Consensus size: 101
54180278 TAAAAGGAAC
* *
54180288 GAGTGAAAATACATCAAGATGAAAGCCAAAACAAGTGAAAACACGAGTGGAGTGAAATTTTCTTT
1 GAGTGAAAATACATCAAAATAAAAGCCAAAACAAGTGAAAACACGAGTGGAGTGAAATTTTCTTT
* *
54180353 CCGAGTGACTTGCGAGATTTTGTGGTGAGGNAGGCAT
66 CCGAGTGACTGGCAAGATTTTGTGGTGAGG-AGGCAT
* **
54180390 GAGTGAAAATACATTAAAATAAAAGCCAAAATGAGTGAAAACACGAGTGGAGTGAAATTTTCTTT
1 GAGTGAAAATACATCAAAATAAAAGCCAAAACAAGTGAAAACACGAGTGGAGTGAAATTTTCTTT
* *
54180455 TCGAGTGACTGGCAAGGTTTTGTGGTGAGG
66 CCGAGTGACTGGCAAGATTTTGTGGTGAGG
54180485 TATTTACTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 86 1.00
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.25
Consensus pattern (101 bp):
GAGTGAAAATACATCAAAATAAAAGCCAAAACAAGTGAAAACACGAGTGGAGTGAAATTTTCTTT
CCGAGTGACTGGCAAGATTTTGTGGTGAGGAGGCAT
Found at i:54182979 original size:20 final size:19
Alignment explanation
Indices: 54182954--54183009 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 19
54182944 TTCATGTGGT
54182954 TCAGCTCACTTGAGCTCAAG
1 TCAGCTCA-TTGAGCTCAAG
*
54182974 TCAGCTCATTCGAGCTCAAT
1 TCAGCTCATT-GAGCTCAAG
54182994 TCAGCTCATTGAGCTC
1 TCAGCTCATTGAGCTC
54183010 GTTATTAGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 8 0.24
20 26 0.76
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (19 bp):
TCAGCTCATTGAGCTCAAG
Found at i:54186233 original size:7 final size:8
Alignment explanation
Indices: 54186218--54186246 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
54186208 GTCTCAATCC
54186218 TCTTTTTT
1 TCTTTTTT
54186226 TCTTTTTT
1 TCTTTTTT
54186234 TCTTTTTT
1 TCTTTTTT
54186242 TCTTT
1 TCTTT
54186247 ATAGGGTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TCTTTTTT
Found at i:54189825 original size:20 final size:20
Alignment explanation
Indices: 54189796--54189843 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
54189786 CATGCGGCCT
* *
54189796 CAACTGCCTCGACGCATAAG
1 CAACTACCTCAACGCATAAG
*
54189816 CAACTACCTCAACTCATAAG
1 CAACTACCTCAACGCATAAG
*
54189836 AAACTACC
1 CAACTACC
54189844 CTAACCTCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (20 bp):
CAACTACCTCAACGCATAAG
Found at i:54204615 original size:44 final size:45
Alignment explanation
Indices: 54204547--54204903 Score: 124
Period size: 44 Copynumber: 7.6 Consensus size: 45
54204537 TGAAGCTAGT
* * *
54204547 AATCCTATCTCCCTGGGATTACAGTGGAGCGGATTAAAATAAAG-
1 AATCTTATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGA
* * * * *
54204591 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 AATCTTATCTCTCTGAGA-TTACAGT-G-G-AG--CGGATTAAAAT-AA---AGA
* * ** *
54204645 AATCTTATCT-TCTTGAGATTACAGCGGAGCAGATTGAAGCT--AGT
1 AATCTTATCTCTC-TGAGATTACAGTGGAGCGGATT-AAAATAAAGA
* *
54204689 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG-
1 AATCTTATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGA
* * * * *
54204733 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 AATCTTATCTCTCTGAGA-TTACAGT-G-G-AG--CGGATTAAAAT-AA---AGA
* * ** ** *
54204787 AATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCT--AGT
1 AATCTTATCTCTCTGAGATTACAGTGGAGCGGATT-AAAATAAAGA
* * * *
54204831 AATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAACAAAG-
1 AATCTTATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGA
* *
54204875 GATCTTATCTCTCTGA-AGTTACAGCGGAG
1 AATCTTATCTCTCTGAGA-TTACAGTGGAG
54204904 TAGATCGCAT
Statistics
Matches: 228, Mismatches: 52, Indels: 66
0.66 0.15 0.19
Matches are distributed among these distances:
43 8 0.04
44 125 0.55
45 7 0.03
46 2 0.01
47 4 0.02
49 20 0.09
50 8 0.04
51 4 0.02
52 2 0.01
53 8 0.04
54 38 0.17
55 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (45 bp):
AATCTTATCTCTCTGAGATTACAGTGGAGCGGATTAAAATAAAGA
Found at i:54204760 original size:142 final size:142
Alignment explanation
Indices: 54204504--54204923 Score: 732
Period size: 142 Copynumber: 3.0 Consensus size: 142
54204494 GAAATTACAG
* * *
54204504 ATCTTATCTCCATGAGATTATAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGGGATTAC
1 ATCTTATCTCCATGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
54204569 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
54204634 TTGAAGCCAGAA
131 TTGAAGCCAGAA
* *
54204646 ATCTTATCTTCTTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCATGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
54204711 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
54204776 TTGAAGCCAGAA
131 TTGAAGCCAGAA
* *
54204788 ATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCATGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
* * **
54204853 AGTGGAGTGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCGGAGTAGATCGCATCAGA
66 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
*
54204918 ATGAAG
131 TTGAAG
54204924 TTACAACAAT
Statistics
Matches: 265, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 265 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (142 bp):
ATCTTATCTCCATGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
TTGAAGCCAGAA
Found at i:54204853 original size:98 final size:97
Alignment explanation
Indices: 54204674--54204860 Score: 216
Period size: 98 Copynumber: 1.9 Consensus size: 97
54204664 TACAGCGGAG
* * * ** * *
54204674 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAAATTAAAAT-AAGAATCCT
*
54204739 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* **
54204772 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCT-AGTAATCC
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAAATT-AAAATAAG-AATCC
*
54204836 TATCTCCCTG-AGATTACAGTGGAGT
64 TATCTCCCTGAAG-TTACAGTAGAGT
54204861 GGATTAAAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
97 4 0.05
98 67 0.91
99 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (97 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAAATTAAAATAAGAATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:54206781 original size:17 final size:16
Alignment explanation
Indices: 54206761--54206799 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
54206751 CAAATTAACC
*
54206761 TTTTATTCACATAATTT
1 TTTTATT-ACATAATTG
54206778 TTTTA-TACATAATTG
1 TTTTATTACATAATTG
54206793 TTTTATT
1 TTTTATT
54206800 TCTTAAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 13 0.65
16 2 0.10
17 5 0.25
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTATTACATAATTG
Found at i:54207777 original size:17 final size:18
Alignment explanation
Indices: 54207755--54207788 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
54207745 TAATTTTGTT
54207755 AAAATTGCA-AAAATGAC
1 AAAATTGCATAAAATGAC
54207772 AAAATTGCATAAAATGA
1 AAAATTGCATAAAATGA
54207789 ATTGGTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (18 bp):
AAAATTGCATAAAATGAC
Done.