Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 62
Found at i:4522485 original size:32 final size:32
Alignment explanation
Indices: 4522449--4522559 Score: 134
Period size: 32 Copynumber: 3.5 Consensus size: 32
4522439 ATGCCTAATA
* * *
4522449 ACTTCACTTCATAAATTTTTCAGTGATATATC
1 ACTTCATTTCAGAAAATTTTCAGTGATATATC
* * *
4522481 ACTTCATTTTAGAAACTTTTCAGTGATACATC
1 ACTTCATTTCAGAAAATTTTCAGTGATATATC
*
4522513 ACTTCATTTTAGAAAATTTT-AGTGATATATC
1 ACTTCATTTCAGAAAATTTTCAGTGATATATC
* *
4522544 ATTTCATTTCATAAAA
1 ACTTCATTTCAGAAAA
4522560 AGTCCATTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
31 23 0.33
32 46 0.67
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.43
Consensus pattern (32 bp):
ACTTCATTTCAGAAAATTTTCAGTGATATATC
Found at i:4522550 original size:31 final size:32
Alignment explanation
Indices: 4522465--4522552 Score: 142
Period size: 32 Copynumber: 2.8 Consensus size: 32
4522455 CTTCATAAAT
*
4522465 TTTTCAGTGATATATCACTTCATTTTAGAAAC
1 TTTTCAGTGATATATCACTTCATTTTAGAAAA
*
4522497 TTTTCAGTGATACATCACTTCATTTTAGAAAA
1 TTTTCAGTGATATATCACTTCATTTTAGAAAA
*
4522529 TTTT-AGTGATATATCATTTCATTT
1 TTTTCAGTGATATATCACTTCATTT
4522553 CATAAAAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 18 0.35
32 34 0.65
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.47
Consensus pattern (32 bp):
TTTTCAGTGATATATCACTTCATTTTAGAAAA
Found at i:4522605 original size:169 final size:171
Alignment explanation
Indices: 4522320--4522658 Score: 434
Period size: 169 Copynumber: 2.0 Consensus size: 171
4522310 TCACTTCATT
*
4522320 AACTTTTCAGTCATATATCACTTCATTTCAAAAACTTTTCAGTAGTGATATATCACTTTATTTCA
1 AACTTTTCAGTCATACATCACTTCATTTCAAAAAC-TTT-A-TAGTGATATATCACTTTATTTCA
* * * * * *
4522385 TAAAAATATCTATTTCTCGTAGACCATTTAATGTACAATGACAGAAACTTTTCAATGCCTAATAA
63 TAAAAATATCCATTTCTCATAGACCATTAAATGCACAATGACAAAAACTTTTCAATGCCCAATAA
* *
4522450 CTTCACTTCATAAATTTTTCAGTGATATATCACTTCATTTTAGA
128 CTTCACTTCATAAACTTTTCAGTGATATATCAATTCATTTTAGA
* *
4522494 AACTTTTCAGTGATACATCACTTCATTTTAGAAAA-TTT-TAGTGATATATCA-TTTCATTTCAT
1 AACTTTTCAGTCATACATCACTTCATTTCA-AAAACTTTATAGTGATATATCACTTT-ATTTCAT
* * * * * *
4522556 AAAAA-GTCCATTTTTCATATACCATTAAATGCATAATGACAAAAACTTTTCAGTTCCCAATAAC
64 AAAAATATCCATTTCTCATAGACCATTAAATGCACAATGACAAAAACTTTTCAATGCCCAATAAC
**
4522620 TTCACTTCATAAACTTTTCAGTTCTATATCAATTCATTT
129 TTCACTTCATAAACTTTTCAGTGATATATCAATTCATTT
4522659 CAAAAAAAAA
Statistics
Matches: 144, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
169 85 0.59
170 25 0.17
173 3 0.02
174 27 0.19
175 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (171 bp):
AACTTTTCAGTCATACATCACTTCATTTCAAAAACTTTATAGTGATATATCACTTTATTTCATAA
AAATATCCATTTCTCATAGACCATTAAATGCACAATGACAAAAACTTTTCAATGCCCAATAACTT
CACTTCATAAACTTTTCAGTGATATATCAATTCATTTTAGA
Found at i:4526995 original size:17 final size:17
Alignment explanation
Indices: 4526973--4527034 Score: 124
Period size: 17 Copynumber: 3.6 Consensus size: 17
4526963 GATTCAAGTA
4526973 GTATCGATACTGATGGG
1 GTATCGATACTGATGGG
4526990 GTATCGATACTGATGGG
1 GTATCGATACTGATGGG
4527007 GTATCGATACTGATGGG
1 GTATCGATACTGATGGG
4527024 GTATCGATACT
1 GTATCGATACT
4527035 AAAAGGGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.24, C:0.13, G:0.32, T:0.31
Consensus pattern (17 bp):
GTATCGATACTGATGGG
Found at i:4527801 original size:81 final size:81
Alignment explanation
Indices: 4527708--4527961 Score: 384
Period size: 81 Copynumber: 3.1 Consensus size: 81
4527698 TATTCTAAAA
* * * *
4527708 TAAAAGATTAATGGCCTAGTTGTGCATTTGGGAGAAAGATGTCAATTATGCCAGTTAGATGAAAT
1 TAAAAGACTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
4527773 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
*
4527789 TAAAAGACTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGACTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
4527854 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
4527870 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCA-AGAAGGTATCAATCATGCAAGTTAGATAAAA
1 TAAAAGACTAATGGCCTAGTTGTGCATTTGGCAGA-AAGGTGTCAATTATGCCAGTTAGATGAAA
* *
4527934 GGTTAAATGCCTTTGGG
65 GGTTAAATACCTTTGAG
4527951 TAAAAGACTAA
1 TAAAAGACTAA
4527962 ATGCTTAATA
Statistics
Matches: 158, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
80 1 0.01
81 157 0.99
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (81 bp):
TAAAAGACTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:4528099 original size:45 final size:45
Alignment explanation
Indices: 4528019--4528401 Score: 525
Period size: 45 Copynumber: 8.5 Consensus size: 45
4528009 ACTAAAAAGA
* * *
4528019 ATGAAAGGATG-CAAAAATGAAATACATAACAGTGCATTAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAGGC
* *
4528063 ATGAAAGGATGTCATAAATAAAATGCATAACGGTGCATTAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAGGC
* ** * *
4528108 ATGAAAAGATGATATAAATGAAATGCATAACGGTGCAATAAAGGT
1 ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAGGC
* * **
4528153 AAGAAATGATAACATAAATGAAATGCATAACGGTGCATTAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAGGC
* * *
4528198 ATGAAAGGATGCCATAAATGAAATGCAAAATGGTACATTAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAGGC
*
4528243 ATGAAAGGATGCTATAAATGAAATGCATAACGGTGCATTAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAGGC
* *
4528288 ATGGAAGGATGCCATAAATGAAATGCATAACGATGCATTAAAGGC
1 ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAGGC
* * * * * *
4528333 ATGAAATGATGCCATAAATGAAATGTATAATGGTGGATAAAAGGT
1 ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAGGC
4528378 ATGAAAGGATGCCATAAATGAAAT
1 ATGAAAGGATGCCATAAATGAAAT
4528402 AAATGAATAA
Statistics
Matches: 299, Mismatches: 39, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
44 11 0.04
45 288 0.96
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.21
Consensus pattern (45 bp):
ATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATTAAAGGC
Found at i:4533793 original size:45 final size:45
Alignment explanation
Indices: 4533742--4534057 Score: 517
Period size: 45 Copynumber: 7.0 Consensus size: 45
4533732 TATTTGACTA
*
4533742 AAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGATGCATT
1 AAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATT
* * *
4533787 AAAGGCATGAAATGATGCCATAAATGAAATGTATAACGGTGTATT
1 AAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATT
* * *
4533832 AAAGGCATGAAATGATGTCGTAAATGAAATGCATAACGGTGCATT
1 AAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATT
* * *
4533877 AAAAGCATGAAAGGATTCCATAAATGAAATGCATAACGGTGTATT
1 AAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATT
*
4533922 AAAGGCATG-AAGGATGCCATAAATGAAATACATAACGGTGCATT
1 AAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATT
*
4533966 AAAGGCATGAAAGGATGCCATAAATGAAATGAATAACGGTGCATT
1 AAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATT
4534011 AAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATT
1 AAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATT
4534056 AA
1 AA
4534058 TGAAATGCAT
Statistics
Matches: 249, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
44 41 0.16
45 208 0.84
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (45 bp):
AAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGCATT
Found at i:4536002 original size:57 final size:57
Alignment explanation
Indices: 4535878--4536099 Score: 322
Period size: 57 Copynumber: 3.9 Consensus size: 57
4535868 CCTACTACCA
* * * * *
4535878 ATACAAAAATTCATATACTTATTATGAATTTATTAAC-TTTT-CACACAAGGTGCCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTCCCC
* * * *
4535933 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTTGCACACAAAGTTCCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTCCCC
*
4535990 ATACGAAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCAAACAAAGTCCCC
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTCCCC
* *
4536047 ATAAGGAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGT
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGT
4536100 GCCATTCGGT
Statistics
Matches: 149, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
55 31 0.21
56 4 0.03
57 114 0.77
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (57 bp):
ATACGAAAATTCATAAACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTCCCC
Found at i:4536452 original size:20 final size:22
Alignment explanation
Indices: 4536424--4536476 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
4536414 GGCTCAATAA
* *
4536424 TATCCATACCCCTAT-C-ATGG
1 TATCGATACCACTATACTATGG
*
4536444 TATCGATACTACTATACTATGG
1 TATCGATACCACTATACTATGG
4536466 TATCGATACCA
1 TATCGATACCA
4536477 TTTTTTGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 12 0.44
21 1 0.04
22 14 0.52
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (22 bp):
TATCGATACCACTATACTATGG
Found at i:4540030 original size:17 final size:17
Alignment explanation
Indices: 4540008--4540042 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4539998 AATAATTTTG
4540008 TGCCTTTAGAACAATGT
1 TGCCTTTAGAACAATGT
*
4540025 TGCCTTTAGCACAATGT
1 TGCCTTTAGAACAATGT
4540042 T
1 T
4540043 TTGATTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (17 bp):
TGCCTTTAGAACAATGT
Found at i:4552894 original size:31 final size:31
Alignment explanation
Indices: 4552856--4553011 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
4552846 TCCGAAGGAC
* * *
4552856 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
4552887 CAGTCCATATGTCCCGAAGAACATATGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
4552918 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4552949 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4552980 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4553011 C
1 C
4553012 CCTCGACCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
31 116 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:4556881 original size:31 final size:31
Alignment explanation
Indices: 4556843--4556967 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
4556833 TCCGAAGGAC
* * *
4556843 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
4556874 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4556905 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
4556936 CAGTCTATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4556967 C
1 C
4556968 CCTCGACCCT
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:4559929 original size:22 final size:22
Alignment explanation
Indices: 4559898--4559954 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
4559888 AAGGATGGAT
*
4559898 TCGGACAGTGTTTGGTTGGGAA
1 TCGGACAGTGTTTGGCTGGGAA
* * *
4559920 TCGGATAGTGTTTGGCTGGTAT
1 TCGGACAGTGTTTGGCTGGGAA
4559942 TCGGACAGTGTTT
1 TCGGACAGTGTTT
4559955 TCTAAGATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.16, C:0.11, G:0.37, T:0.37
Consensus pattern (22 bp):
TCGGACAGTGTTTGGCTGGGAA
Found at i:4560593 original size:21 final size:21
Alignment explanation
Indices: 4560572--4560611 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4560562 ATTAAAATTA
*
4560572 AAATAAT-ACATAATATATTT
1 AAATAATAAAATAATATATTT
4560592 AAATAATAAAATAATATATT
1 AAATAATAAAATAATATATT
4560612 ATCGATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATAATAAAATAATATATTT
Found at i:4560651 original size:14 final size:15
Alignment explanation
Indices: 4560616--4560648 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
4560606 TATATTATCG
4560616 ATAATTTTTTTATAA
1 ATAATTTTTTTATAA
4560631 ATAATTTTTATT-TAA
1 ATAATTTTT-TTATAA
4560646 ATA
1 ATA
4560649 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATAATTTTTTTATAA
Found at i:4560788 original size:26 final size:27
Alignment explanation
Indices: 4560730--4560788 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 27
4560720 ATTCTTTCAA
4560730 CCAAACACTGTAATCTTACATTACTGT
1 CCAAACACTGTAATCTTACATTACTGT
4560757 CC-AACACTGTAATCTTACATTACTG-
1 CCAAACACTGTAATCTTACATTACTGT
4560782 CCAAACA
1 CCAAACA
4560789 AACCAAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 2 0.06
26 27 0.87
27 2 0.06
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (27 bp):
CCAAACACTGTAATCTTACATTACTGT
Found at i:4565498 original size:122 final size:121
Alignment explanation
Indices: 4565348--4565623 Score: 344
Period size: 122 Copynumber: 2.3 Consensus size: 121
4565338 AACGTTAAAT
* *
4565348 TTTTGAAAAAAAATGAAAGTTTAGGTACTAAAACGGATCAAAA-TCGGTACTTTATGTACTAAAC
1 TTTTG-AAAAAAATGAAAGTTTAAGTACTAAAACGGATCAAAACT-GGTACTTTACGTACTAAAC
* * * * * *
4565412 GTGTTAAGTTTTTAACTG-TGTGGTACTAAAATGAAACAAAAATTAACCATTATGTATGG
64 GCGTCAAGCTTTTAAC-GAAG-GGTACTAAAATGAAACAAAAACTAAACATTATGTATGG
* * *
4565471 TTTT-AAAAAAATTGAAAGTTTAAGTACTAAAATGGATCAAAACTTGTAGTTTACGTACTAAACG
1 TTTTGAAAAAAA-TGAAAGTTTAAGTACTAAAACGGATCAAAACTGGTACTTTACGTACTAAACG
* *
4565535 CGTCAAGCTTTTATCGACAGGGTACTAAAATGAAACAAAAACTAAACGTTATGTATGG
65 CGTCAAGCTTTTAACGA-AGGGTACTAAAATGAAACAAAAACTAAACATTATGTATGG
4565593 TTTTGAAAAAAATGAAAGTTT-AGTTACTAAA
1 TTTTGAAAAAAATGAAAGTTTAAG-TACTAAA
4565624 TAGATCAACA
Statistics
Matches: 134, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
121 10 0.07
122 111 0.83
123 13 0.10
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (121 bp):
TTTTGAAAAAAATGAAAGTTTAAGTACTAAAACGGATCAAAACTGGTACTTTACGTACTAAACGC
GTCAAGCTTTTAACGAAGGGTACTAAAATGAAACAAAAACTAAACATTATGTATGG
Found at i:4566096 original size:21 final size:20
Alignment explanation
Indices: 4566049--4566089 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4566039 ACAAAATAAA
*
4566049 ATGAAAATTAAATGTTAAGT
1 ATGAAAATTAAAAGTTAAGT
4566069 ATGAAAATTAAAAGTTTAAGT
1 ATGAAAATTAAAAG-TTAAGT
4566090 GTTAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (20 bp):
ATGAAAATTAAAAGTTAAGT
Found at i:4579596 original size:19 final size:19
Alignment explanation
Indices: 4579572--4579608 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4579562 CATAAATGTG
4579572 GAAGAAAACCAAGTTAGAA
1 GAAGAAAACCAAGTTAGAA
4579591 GAAGAAAACCAAGTTAGA
1 GAAGAAAACCAAGTTAGA
4579609 TGATGGGCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.11, G:0.22, T:0.11
Consensus pattern (19 bp):
GAAGAAAACCAAGTTAGAA
Found at i:4581965 original size:26 final size:26
Alignment explanation
Indices: 4581929--4581978 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
4581919 ACAAGCTTTG
*
4581929 TTACTGTTCACAGTTACTGTTAAATA
1 TTACTGTTCACAGTTACTATTAAATA
*
4581955 TTACTGTTCACTGTTACTATTAAA
1 TTACTGTTCACAGTTACTATTAAA
4581979 AAATAATAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (26 bp):
TTACTGTTCACAGTTACTATTAAATA
Found at i:4582235 original size:30 final size:33
Alignment explanation
Indices: 4582199--4582259 Score: 85
Period size: 30 Copynumber: 1.9 Consensus size: 33
4582189 AGAAAATATT
4582199 TTAAGTAA-ATGTAAATT-TT-ATTTT-TTTTAA
1 TTAAGTAATAT-TAAATTATTAATTTTATTTTAA
4582229 TTAAGTAATATTAAATTATTAATTTTATTTT
1 TTAAGTAATATTAAATTATTAATTTTATTTT
4582260 GTTTAAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 14 0.52
31 4 0.15
32 5 0.19
33 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (33 bp):
TTAAGTAATATTAAATTATTAATTTTATTTTAA
Found at i:4582844 original size:2 final size:2
Alignment explanation
Indices: 4582790--4582833 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
4582780 TAATAATTTC
4582790 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4582831 AT A
1 AT A
4582834 ACTCAATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4582871 original size:21 final size:23
Alignment explanation
Indices: 4582838--4582899 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
4582828 TATATAACTC
*
4582838 AATATATTTTTATTAAA-ACATA
1 AATATATTATTATTAAATACATA
*
4582860 AAT-TATTATTATTAAATATATA
1 AATATATTATTATTAAATACATA
4582882 AATATATTA-TATTTAAAT
1 AATATATTATTA-TTAAAT
4582900 CAAATTATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 12 0.34
22 12 0.34
23 11 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AATATATTATTATTAAATACATA
Found at i:4582945 original size:17 final size:18
Alignment explanation
Indices: 4582923--4582967 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
4582913 TTAAATATAT
4582923 TATTTATAAAGTTAA-AA
1 TATTTATAAAGTTAACAA
4582940 TATTTAATAAAGTTAACAA
1 TATTT-ATAAAGTTAACAA
4582959 TAATTTATA
1 T-ATTTATA
4582968 TATATAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 6 0.24
20 4 0.16
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (18 bp):
TATTTATAAAGTTAACAA
Found at i:4589114 original size:20 final size:20
Alignment explanation
Indices: 4589086--4589123 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4589076 ATACTCGACC
*
4589086 TTAGGGTATCGATACTACAG
1 TTAGAGTATCGATACTACAG
4589106 TTAGAGTATCGATACTAC
1 TTAGAGTATCGATACTAC
4589124 CCTCTTTCTA
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:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (20 bp):
TTAGAGTATCGATACTACAG
Found at i:4603668 original size:58 final size:57
Alignment explanation
Indices: 4603559--4603676 Score: 155
Period size: 58 Copynumber: 2.1 Consensus size: 57
4603549 TTAGAGGAGA
* * * *
4603559 GAAGTGGCTAAGGTCGACCTTGCAATGGCTGCTACTCTCCGTCCAAACAAAAAAGAGT
1 GAAGTGGCTAAAGTCGACCTTGCAATAGCTGCGACTCTCCGACCAAAC-AAAAAGAGT
* * * *
4603617 GAAGTGGCTAAAGTCGACCTTGCAATAGCTGCGGCTCTTCGACCAATCAAAATGAGT
1 GAAGTGGCTAAAGTCGACCTTGCAATAGCTGCGACTCTCCGACCAAACAAAAAGAGT
4603674 GAA
1 GAA
4603677 CTGTCAATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 11 0.21
58 41 0.79
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (57 bp):
GAAGTGGCTAAAGTCGACCTTGCAATAGCTGCGACTCTCCGACCAAACAAAAAGAGT
Found at i:4612430 original size:13 final size:13
Alignment explanation
Indices: 4612412--4612441 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4612402 AAAAGAAGAA
4612412 AAAATAAAAAAAT
1 AAAATAAAAAAAT
4612425 AAAATAAAAAAAT
1 AAAATAAAAAAAT
4612438 AAAA
1 AAAA
4612442 AATAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:4612436 original size:8 final size:8
Alignment explanation
Indices: 4612410--4612448 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
4612400 GAAAAAGAAG
4612410 AAAAAATA
1 AAAAAATA
4612418 AAAAAAT-
1 AAAAAATA
4612425 --AAAATA
1 AAAAAATA
4612431 AAAAAAT-
1 AAAAAATA
4612438 AAAAAATA
1 AAAAAATA
4612446 AAA
1 AAA
4612449 TTAAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.19
7 7 0.26
8 15 0.56
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAATA
Found at i:4612436 original size:21 final size:21
Alignment explanation
Indices: 4612410--4612464 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
4612400 GAAAAAGAAG
4612410 AAAAAATAAAAAAATAAAA-TA
1 AAAAAAT-AAAAAATAAAATTA
4612431 AAAAAATAAAAAATAAAATTA
1 AAAAAATAAAAAATAAAATTA
*
4612452 AAGAAAATGAAAA
1 AA-AAAATAAAAA
4612465 GGTGGTTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 11 0.35
21 11 0.35
22 9 0.29
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.15
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATTA
Found at i:4613448 original size:1 final size:1
Alignment explanation
Indices: 4613174--4613435 Score: 146
Period size: 1 Copynumber: 262.0 Consensus size: 1
4613164 AAAGAAAATG
* * * * * * * * * * *
4613174 AAAAAGAAAAGAAAGAAAAAGAAAAAGAAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * * * * *
4613239 AGAAAGAAGAAAGAAGAAAGAAGAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * *
4613304 AAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * *
4613369 AAAGAAAAAAGAAAAAAGAAAAAAGAAAAAAAAAAAGAAAAAAGAAAAAAAGAAAAGAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4613434 AA
1 AA
4613436 TCAAAAAGAA
Statistics
Matches: 177, Mismatches: 84, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 177 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (1 bp):
A
Found at i:4613448 original size:7 final size:7
Alignment explanation
Indices: 4613131--4613435 Score: 397
Period size: 7 Copynumber: 44.7 Consensus size: 7
4613121 TGTTGCTATT
4613131 GAAAAAA
1 GAAAAAA
4613138 G-AAAAA
1 GAAAAAA
4613144 GTAAGAAAA
1 G-AA-AAAA
4613153 GAAGAAAA
1 GAA-AAAA
4613161 G-AAAAA
1 GAAAAAA
*
4613167 G-AAAAT
1 GAAAAAA
4613173 G-AAAAA
1 GAAAAAA
4613179 GAAAAGAA
1 GAAAA-AA
4613187 -AGAAAAA
1 GA-AAAAA
4613194 G-AAAAA
1 GAAAAAA
4613200 GAAAAAA
1 GAAAAAA
4613207 G-AAAAA
1 GAAAAAA
4613213 G-AAAAA
1 GAAAAAA
4613219 G-AAAAA
1 GAAAAAA
4613225 G-AAAAA
1 GAAAAAA
4613231 G-AAAAA
1 GAAAAAA
*
4613237 GAAGAAA
1 GAAAAAA
*
4613244 GAAGAAA
1 GAAAAAA
*
4613251 GAAGAAA
1 GAAAAAA
4613258 GAAGAAAAA
1 G-A-AAAAA
4613267 GAAAAAA
1 GAAAAAA
4613274 GAAAAAA
1 GAAAAAA
4613281 GAAAAAA
1 GAAAAAA
4613288 GAAAAAA
1 GAAAAAA
4613295 GAAAAAA
1 GAAAAAA
4613302 GAAAAAA
1 GAAAAAA
4613309 GAAAAAA
1 GAAAAAA
4613316 GAAAAAA
1 GAAAAAA
4613323 GAAAAAA
1 GAAAAAA
4613330 GAAAAAA
1 GAAAAAA
4613337 GAAAAAA
1 GAAAAAA
4613344 GAAAAAA
1 GAAAAAA
4613351 GAAAAAA
1 GAAAAAA
4613358 GAAAAAA
1 GAAAAAA
4613365 GAAAAAA
1 GAAAAAA
4613372 GAAAAAA
1 GAAAAAA
4613379 GAAAAAA
1 GAAAAAA
4613386 GAAAAAA
1 GAAAAAA
4613393 G-AAAAA
1 GAAAAAA
4613399 -AAAAAA
1 GAAAAAA
4613405 GAAAAAA
1 GAAAAAA
4613412 GAAAAAA
1 GAAAAAA
*
4613419 -AGAAAA
1 GAAAAAA
4613425 G-AAAAA
1 GAAAAAA
4613431 GAAAA
1 GAAAA
4613436 TCAAAAAGAA
Statistics
Matches: 277, Mismatches: 6, Indels: 30
0.88 0.02 0.10
Matches are distributed among these distances:
6 77 0.28
7 174 0.63
8 16 0.06
9 10 0.04
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.01
Consensus pattern (7 bp):
GAAAAAA
Found at i:4614050 original size:45 final size:45
Alignment explanation
Indices: 4613995--4614107 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 45
4613985 AGTGCCAATC
* * * *
4613995 TTTTGCTCGATTCTTCACAGAATAAGTTGGATCAGTATAATCTTA
1 TTTTGCTCGATTCTTCACAAAACAAGTTGGATCAATATAACCTTA
* *
4614040 TTTTACTCGATTCTTCACAAAACGAGTTGGATCAATATAACCTTA
1 TTTTGCTCGATTCTTCACAAAACAAGTTGGATCAATATAACCTTA
4614085 TTTTGCTCGATTCTATCACAAAA
1 TTTTGCTCGATTCT-TCACAAAA
4614108 GTAGGTAGAT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
45 52 0.87
46 8 0.13
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (45 bp):
TTTTGCTCGATTCTTCACAAAACAAGTTGGATCAATATAACCTTA
Found at i:4614363 original size:43 final size:43
Alignment explanation
Indices: 4614309--4614423 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
4614299 CATGTTACTC
* * ** *
4614309 GATCCTTCACAGAATGAGTTGAATCAGTGCCAGTCTTTCACTT
1 GATCTTTCACAGAAAGAGTTGAATCAGTGAAAATCTTTCACTT
* **
4614352 GATCTTTCACAGAAGGAGTTGAATCAGTGAAAATCTTTTGCTT
1 GATCTTTCACAGAAAGAGTTGAATCAGTGAAAATCTTTCACTT
*
4614395 GAT-TCTTCACAGAAAAAGTTGAATCAGTG
1 GATCT-TTCACAGAAAGAGTTGAATCAGTG
4614424 TCAATATGGT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 61 0.98
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (43 bp):
GATCTTTCACAGAAAGAGTTGAATCAGTGAAAATCTTTCACTT
Found at i:4615123 original size:17 final size:18
Alignment explanation
Indices: 4615101--4615138 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
4615091 AGTTTCATAT
4615101 TAAATA-ATTGCATATTA
1 TAAATAGATTGCATATTA
4615118 TAAATAGTATTGCATATTA
1 TAAATAG-ATTGCATATTA
4615137 TA
1 TA
4615139 TTAGATAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (18 bp):
TAAATAGATTGCATATTA
Found at i:4615213 original size:20 final size:20
Alignment explanation
Indices: 4615188--4615229 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4615178 TACTATATAG
* *
4615188 TTTTCTTTTTATATAGTCCA
1 TTTTCTTTATAAATAGTCCA
4615208 TTTTCTTTATAAATAGTCCA
1 TTTTCTTTATAAATAGTCCA
4615228 TT
1 TT
4615230 ACATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTCTTTATAAATAGTCCA
Found at i:4620992 original size:41 final size:40
Alignment explanation
Indices: 4620927--4621165 Score: 117
Period size: 41 Copynumber: 5.8 Consensus size: 40
4620917 ACTAAATCCG
* ** *
4620927 AAGTGAAATTCATCTAGAAGGGTGAAACCACTGATATTCTA
1 AAGTAAAATTCATCCCGAATGGTGAAA-CACTGATATTCTA
* * * *
4620968 AAGTAAAATTCATCTCGAATGGTGAATTCACAGATATTAC-G
1 AAGTAAAATTCATCCCGAATGGTGAA-ACACTGATATT-CTA
* * * ** *
4621009 AAGGAAAATTTATCCCGAATGGTGAATACATTGATAACCCGA
1 AAGTAAAATTCATCCCGAATGGTGAA-ACACTGAT-ATTCTA
* * * **
4621051 AACG--AAATTCACCCCGAATGAT-AAATCCACTAATATTCCG
1 AA-GTAAAATTCATCCCGAATGGTGAAA--CACTGATATTCTA
* ** * *
4621091 AAGTAAAATTCATCCCAAATGGTGATTGCATTGATAATCTA
1 AAGTAAAATTCATCCCGAATGGTGA-AACACTGATATTCTA
* **
4621132 AAGTAAAATTTATTACGAATGGTGAATACACTGA
1 AAGTAAAATTCATCCCGAATGGTGAA-ACACTGA
4621166 ACTTTTTCTG
Statistics
Matches: 145, Mismatches: 41, Indels: 24
0.69 0.20 0.11
Matches are distributed among these distances:
39 2 0.01
40 6 0.04
41 131 0.90
42 5 0.03
43 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (40 bp):
AAGTAAAATTCATCCCGAATGGTGAAACACTGATATTCTA
Found at i:4621141 original size:82 final size:82
Alignment explanation
Indices: 4620958--4621141 Score: 194
Period size: 82 Copynumber: 2.2 Consensus size: 82
4620948 GTGAAACCAC
* * * * * * *
4620958 TGATATTCTAAAGTAAAATTCATCTCGAATGGTGAATTCACAGATATTACGAAGGAAAATTTATC
1 TGATAATCTAAAGTAAAATTCACCCCGAATGATAAATCCACAGATATTACGAAGGAAAATTCATC
*
4621023 CCGAATGGTGAATACAT
66 CCAAATGGTGAATACAT
* * * *
4621040 TGATAACCCGAAACG--AAATTCACCCCGAATGATAAATCCACTA-ATATTCCGAAGTAAAATTC
1 TGATAA-TCTAAA-GTAAAATTCACCCCGAATGATAAATCCAC-AGATATTACGAAGGAAAATTC
* *
4621102 ATCCCAAATGGTGATTGCAT
63 ATCCCAAATGGTGAATACAT
4621122 TGATAATCTAAAGTAAAATT
1 TGATAATCTAAAGTAAAATT
4621142 TATTACGAAT
Statistics
Matches: 81, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
80 1 0.01
81 4 0.05
82 70 0.86
83 5 0.06
84 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (82 bp):
TGATAATCTAAAGTAAAATTCACCCCGAATGATAAATCCACAGATATTACGAAGGAAAATTCATC
CCAAATGGTGAATACAT
Found at i:4622429 original size:20 final size:20
Alignment explanation
Indices: 4622401--4622471 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
4622391 TTCCCAATTA
* *
4622401 GCAATGCGAATAAGTAAATC
1 GCAACGCGAATAAGAAAATC
**
4622421 GCAACGCGAATTGGGAAAATC
1 GCAACGCGAA-TAAGAAAATC
**
4622442 GCAACGCGAATTGGGAAAATC
1 GCAACGCGAA-TAAGAAAATC
*
4622463 GCAATGCGA
1 GCAACGCGA
4622472 TACTGACTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 9 0.20
21 36 0.80
ACGTcount: A:0.39, C:0.18, G:0.27, T:0.15
Consensus pattern (20 bp):
GCAACGCGAATAAGAAAATC
Found at i:4622442 original size:21 final size:21
Alignment explanation
Indices: 4622416--4622471 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
4622406 GCGAATAAGT
4622416 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
4622437 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
4622458 AAATCGCAATGCGA
1 AAATCGCAACGCGA
4622472 TACTGACTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:4622485 original size:20 final size:20
Alignment explanation
Indices: 4622460--4622614 Score: 170
Period size: 20 Copynumber: 7.7 Consensus size: 20
4622450 AATTGGGAAA
4622460 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
4622480 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
4622500 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
4622520 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
4622541 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
4622561 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
4622581 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
4622601 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
4622615 TTTCAAAGCG
Statistics
Matches: 117, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
19 4 0.03
20 87 0.74
21 24 0.21
22 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:4622546 original size:81 final size:82
Alignment explanation
Indices: 4622457--4622614 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 82
4622447 GCGAATTGGG
* * * * *
4622457 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTGACTATCGCAATGCGATACTGAC-T-
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAAT-ACATA
4622520 ATCGCAATGCGATAATAC
65 ATCGCAATGCGATAATAC
* * *
4622538 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATACATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACATAA
4622603 TCGCAATGCGAT
66 TCGCAATGCGAT
4622615 TTTCAAAGCG
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 2 0.03
81 52 0.78
82 13 0.19
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (82 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACATAA
TCGCAATGCGATAATAC
Found at i:4622547 original size:61 final size:61
Alignment explanation
Indices: 4622480--4622614 Score: 198
Period size: 61 Copynumber: 2.2 Consensus size: 61
4622470 GATACTGACT
* *
4622480 ATCGCAATGCGATACTGACTATCGCAATGCGATACTGACTATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
* * * * * *
4622541 ATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATACATA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
4622602 ATCGCAATGCGAT
1 ATCGCAATGCGAT
4622615 TTTCAAAGCG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (61 bp):
ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
Found at i:4622829 original size:26 final size:22
Alignment explanation
Indices: 4622776--4622817 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4622766 TCTCACCTCT
4622776 CATCTCCGACGAAATCCGTCCC
1 CATCTCCGACGAAATCCGTCCC
*
4622798 CATCTCCGGCGAAATCCGTC
1 CATCTCCGACGAAATCCGTC
4622818 TATCTCCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.43, G:0.17, T:0.19
Consensus pattern (22 bp):
CATCTCCGACGAAATCCGTCCC
Found at i:4623125 original size:20 final size:20
Alignment explanation
Indices: 4623082--4623139 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
4623072 CTATTCTCTC
** * *
4623082 GTTGCGATAGTCAAATGCGC
1 GTTGCGATAGTCATTTTCGT
*
4623102 GTTGTGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
4623122 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
4623140 AGAAACTATT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.16, G:0.24, T:0.43
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:4623325 original size:25 final size:24
Alignment explanation
Indices: 4623271--4623325 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
4623261 TGTTTATTAT
* *
4623271 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
4623295 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
4623321 TGTTT
1 TGTTT
4623326 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:4624103 original size:15 final size:16
Alignment explanation
Indices: 4624078--4624107 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4624068 ATTATTAACA
4624078 ATTACTATTGTTTGTT
1 ATTACTATTGTTTGTT
4624094 ATTA-TATTGTTTGT
1 ATTACTATTGTTTGT
4624108 AGATTTGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.03, G:0.13, T:0.63
Consensus pattern (16 bp):
ATTACTATTGTTTGTT
Found at i:4624474 original size:18 final size:18
Alignment explanation
Indices: 4624448--4624492 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
4624438 CTCCATTCGG
*
4624448 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
4624466 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
4624484 GAGCCATCA
1 GAGCCATCA
4624493 TTTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:4624997 original size:19 final size:20
Alignment explanation
Indices: 4624943--4625009 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
4624933 TAGTTTACTT
* *
4624943 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
4624963 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
4624983 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
4625002 TCGCAACG
1 TCGCAACG
4625010 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:4625017 original size:14 final size:14
Alignment explanation
Indices: 4624998--4625055 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
4624988 ATGCGAAATG
4624998 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
4625012 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
*
4625028 ATGAAATCGCAATGAC
1 A--AAATCGCAACGAC
4625044 AAAATCGCAACG
1 AAAATCGCAACG
4625056 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 7 0.19
18 9 0.25
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:4625073 original size:33 final size:33
Alignment explanation
Indices: 4624982--4625074 Score: 161
Period size: 32 Copynumber: 2.8 Consensus size: 33
4624972 GGAAATGGCT
*
4624982 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
4625015 ATCGCAATGCGAAATG-AAATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
*
4625047 ATCGCAACGCGAAATGAAAATCGCAATG
1 ATCGCAATGCGAAATGAAAATCGCAATG
4625075 CGATTTGTGT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.53
33 27 0.47
ACGTcount: A:0.46, C:0.20, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAATGACAAA
Found at i:4625089 original size:19 final size:21
Alignment explanation
Indices: 4625067--4625109 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
4625057 GAAATGAAAA
4625067 TCGCAATGCGA-TTTGT-GTT
1 TCGCAATGCGATTTTGTCGTT
**
4625086 TCGCGTTGCGATTTTGTCGTT
1 TCGCAATGCGATTTTGTCGTT
4625107 TCG
1 TCG
4625110 ATTTCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 5 0.25
21 6 0.30
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (21 bp):
TCGCAATGCGATTTTGTCGTT
Found at i:4625128 original size:32 final size:33
Alignment explanation
Indices: 4625084--4625165 Score: 130
Period size: 32 Copynumber: 2.5 Consensus size: 33
4625074 GCGATTTGTG
* *
4625084 TTTCGCGTTGCGATTTTGTCGTTTCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
4625116 TTTTGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
4625149 TTTCGCATTGCGATTTT
1 TTTCGCATTGCGATTTT
4625166 CATTTCGCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 24 0.53
33 21 0.47
ACGTcount: A:0.11, C:0.17, G:0.21, T:0.51
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:4625142 original size:14 final size:14
Alignment explanation
Indices: 4625089--4625146 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
4625079 TTGTGTTTCG
4625089 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
4625103 CGTTTCGATTTCATTTT
1 CGTTGCGA-TT--TTGT
*
4625120 GCATTGCGATTTTGT
1 -CGTTGCGATTTTGT
4625135 CGTTGCGATTTT
1 CGTTGCGATTTT
4625147 CATTTCGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
14 18 0.53
15 5 0.15
17 5 0.15
18 6 0.18
ACGTcount: A:0.10, C:0.16, G:0.22, T:0.52
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4625159 original size:19 final size:20
Alignment explanation
Indices: 4625137--4625224 Score: 99
Period size: 19 Copynumber: 4.5 Consensus size: 20
4625127 GATTTTGTCG
4625137 TTGCGATTTTCATTT-CGCA
1 TTGCGATTTTCATTTCCGCA
4625156 TTGCGATTTTCATTT-CGCA
1 TTGCGATTTTCATTTCCGCA
*** *
4625175 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTTCCGCA
** *
4625195 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTTCCGCA
4625215 TTGCGATTTT
1 TTGCGATTTT
4625225 AAGTTTCGTG
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
19 31 0.51
20 30 0.49
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (20 bp):
TTGCGATTTTCATTTCCGCA
Found at i:4625200 original size:20 final size:20
Alignment explanation
Indices: 4625166--4625221 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
4625156 TTGCGATTTT
*
4625166 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
4625185 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
4625205 CATTTCCGCGTTGCGAT
1 CATTTCCGCGTTGCGAT
4625222 TTTAAGTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 5 0.15
20 29 0.85
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:4625209 original size:39 final size:39
Alignment explanation
Indices: 4625147--4625221 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
4625137 TTGCGATTTT
**
4625147 CATTTCGCATTGCGATTTTCATTT-CGCATTGCGATAGC
1 CATTTCGCATTGCGATAGTCATTTCCGCATTGCGATAGC
* *
4625185 CATTTCCGCGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CATTT-CGCATTGCGATAGTCATTTCCGCATTGCGAT
4625222 TTTAAGTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 5 0.16
39 16 0.52
40 10 0.32
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.37
Consensus pattern (39 bp):
CATTTCGCATTGCGATAGTCATTTCCGCATTGCGATAGC
Found at i:4625683 original size:41 final size:42
Alignment explanation
Indices: 4625587--4625674 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 42
4625577 GACTCACCTG
* *
4625587 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
* * *
4625629 TCCTCCCTCAAGAGTCCCC-CCTACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
4625670 TCATC
1 TCATC
4625675 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.22
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
Found at i:4627105 original size:14 final size:14
Alignment explanation
Indices: 4627086--4627121 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4627076 ATTGTTTAAT
4627086 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
4627100 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
4627114 TGATTTGT
1 TGATTTGT
4627122 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4627313 original size:19 final size:19
Alignment explanation
Indices: 4627258--4627325 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
4627248 ATCGCAACGA
4627258 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
4627277 AAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4627296 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
4627310 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
4627326 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
19 28 0.64
ACGTcount: A:0.49, C:0.18, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:4627375 original size:20 final size:20
Alignment explanation
Indices: 4627352--4627439 Score: 97
Period size: 20 Copynumber: 4.4 Consensus size: 20
4627342 CGATTTTCTA
*
4627352 GTTGCGATAGCCATTTTTGC
1 GTTGCGATAGCCATTTTCGC
*** *
4627372 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
* *
4627392 ATGGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
4627412 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
4627432 GTTGCGAT
1 GTTGCGAT
4627440 TTCCCCGTTG
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
19 3 0.06
20 47 0.89
21 3 0.06
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:4627677 original size:20 final size:20
Alignment explanation
Indices: 4627652--4627715 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
4627642 TTGAAGATGA
4627652 TTGCGATTTTTAGAATCTCG
1 TTGCGATTTTTAGAATCTCG
*** *
4627672 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTTAGAATCTCG
**
4627692 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-TAGAATCTCG
4627713 TTG
1 TTG
4627716 TGATAGTCAG
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
20 23 0.70
21 10 0.30
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (20 bp):
TTGCGATTTTTAGAATCTCG
Found at i:4627993 original size:12 final size:12
Alignment explanation
Indices: 4627974--4628007 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4627964 CTCTCCGGCG
4627974 ACATCCGTTCCT
1 ACATCCGTTCCT
*
4627986 ATATCCGTTCCT
1 ACATCCGTTCCT
4627998 ACATCC-TTCC
1 ACATCCGTTCC
4628008 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:4628613 original size:24 final size:24
Alignment explanation
Indices: 4628562--4628615 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4628552 GTATTCAAAA
*
4628562 TTTGATATTGATCAATACCCGGAC
1 TTTGATATTGATCAATACCCAGAC
* * *
4628586 TTTGATATTGGTCAATACTCAGAT
1 TTTGATATTGATCAATACCCAGAC
4628610 TTTGAT
1 TTTGAT
4628616 GATGTTTCAG
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:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTGATATTGATCAATACCCAGAC
Found at i:4628807 original size:12 final size:12
Alignment explanation
Indices: 4628790--4628826 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
4628780 ATATAATCCT
4628790 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4628802 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4628814 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4628826 G
1 G
4628827 TCCCCGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:4631145 original size:33 final size:33
Alignment explanation
Indices: 4631103--4631229 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
4631093 GGAAATTACT
4631103 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
4631136 ATCGCAATGCGAAATGAAAATCACAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
4631168 TTTCGCAATACGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
4631202 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
4631230 CGAATTTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.98
34 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4631210 original size:66 final size:66
Alignment explanation
Indices: 4631104--4631236 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
4631094 GAAATTACTA
* *
4631104 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCACAACGCTAAT
1 TCGCAATACGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCACAACGCGAAT
4631169 T
66 T
* *
4631170 TCGCAATACGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATACGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCACAACGCGAAT
4631235 T
66 T
4631236 T
1 T
4631237 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.17
Consensus pattern (66 bp):
TCGCAATACGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCACAACGCGAAT
T
Found at i:4631280 original size:33 final size:33
Alignment explanation
Indices: 4631229--4631318 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
4631219 AAATCGCAAC
* *
4631229 GCGAATTTAATTTCGCGTTGCGATTCTCTCATT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCATT
*
4631262 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCATT
*
4631295 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
4631319 AGTACTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCATT
Found at i:4631284 original size:19 final size:19
Alignment explanation
Indices: 4631260--4631318 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
4631250 GATTCTCTCA
4631260 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
4631279 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
*
4631293 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
4631312 TTGCGAT
1 TTGCGAT
4631319 AGTACTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 10 0.31
16 3 0.09
17 3 0.09
19 16 0.50
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:4631296 original size:14 final size:14
Alignment explanation
Indices: 4631244--4631300 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4631234 TTTAATTTCG
4631244 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
4631258 CATTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4631277 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4631291 CGTTGCGATT
1 CGTTGCGATT
4631301 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4631444 original size:14 final size:14
Alignment explanation
Indices: 4631425--4631461 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4631415 CATCAATTAA
4631425 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4631439 ACAAATCACCTTTT
1 ACAAATCAACTTTT
4631453 ACAAATCAA
1 ACAAATCAA
4631462 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4632875 original size:42 final size:41
Alignment explanation
Indices: 4632816--4633009 Score: 149
Period size: 42 Copynumber: 4.6 Consensus size: 41
4632806 GTGAATCGGG
* *
4632816 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * *
4632858 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * * * *
4632900 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGACAATGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * *
4632942 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * *
4632984 CTCTTCAACGATAGGAGTGGACTCTT
1 CTCTTGAACGGTGGGAG-GGACTCTT
4633010 GAGGGATAAC
Statistics
Matches: 116, Mismatches: 28, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
41 9 0.08
42 98 0.84
43 9 0.08
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:4632882 original size:21 final size:21
Alignment explanation
Indices: 4632816--4632882 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
4632806 GTGAATCGGG
*
4632816 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
4632836 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
4632858 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
4632879 CTCT
1 CTCT
4632883 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:4632957 original size:84 final size:84
Alignment explanation
Indices: 4632846--4633016 Score: 324
Period size: 84 Copynumber: 2.0 Consensus size: 84
4632836 CCTCTTCAAC
* *
4632846 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1 GATGACAATGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
4632911 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
4632930 GATGACAATGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAATGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
4632995 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
4633014 GAT
1 GAT
4633017 AACAGACGAG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.22
Consensus pattern (84 bp):
GATGACAATGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:4633415 original size:91 final size:90
Alignment explanation
Indices: 4633240--4633424 Score: 291
Period size: 91 Copynumber: 2.0 Consensus size: 90
4633230 ATTTCAAACT
* *
4633240 TTCAACGAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
4633305 AGAATTGGCAACAACCGAATAAATTTAC
63 AGAATTGGCAACAACCGAATAAATTTAC
4633333 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
4633397 GTATTGGCAACAACCGAATAAATTTAC
64 GAATTGGCAACAACCGAATAAATTTAC
4633424 T
1 T
4633425 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 42 0.48
93 18 0.21
95 27 0.31
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAACAACCGAATAAATTTAC
Found at i:4635131 original size:19 final size:19
Alignment explanation
Indices: 4635067--4635260 Score: 316
Period size: 19 Copynumber: 10.1 Consensus size: 19
4635057 TCTTTTGGTT
*
4635067 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
4635086 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
4635106 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
4635126 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
4635145 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
4635164 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
4635183 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
4635202 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
4635221 GAAATGAAAATCGTAACGC
1 GAAATGAAAATCGCAACGC
*
4635240 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
4635259 GA
1 GA
4635261 TTTTGGTTTC
Statistics
Matches: 164, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
19 132 0.80
20 30 0.18
21 2 0.01
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:4635283 original size:19 final size:19
Alignment explanation
Indices: 4635256--4635299 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
4635246 AAAATCGCAA
**
4635256 TGCGATTTTGGTTTCGCG-
1 TGCGATTTTTATTTCGCGT
4635274 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
4635293 TGCGATT
1 TGCGATT
4635300 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:4635877 original size:20 final size:20
Alignment explanation
Indices: 4635852--4635904 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
4635842 GCGCTATGTA
4635852 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
4635872 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
4635892 TATCTCGTTGCGA
1 AATCGCGTTGCGA
4635905 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:4635938 original size:20 final size:20
Alignment explanation
Indices: 4635913--4635986 Score: 139
Period size: 20 Copynumber: 3.7 Consensus size: 20
4635903 GATTTTGTAT
4635913 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
4635933 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
4635953 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
4635973 TATCGCATTGCGAT
1 TATCGCATTGCGAT
4635987 TTTCCCAATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:4636005 original size:81 final size:81
Alignment explanation
Indices: 4635853--4636007 Score: 177
Period size: 81 Copynumber: 1.9 Consensus size: 81
4635843 CGCTATGTAA
* * * * * ** * *
4635853 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCG
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCA
4635918 CATTGCGATAGTAAGT
66 CATTGCGATAGTAAGT
* * *
4635934 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TC
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATATC
*
4635998 ACGTTGCGAT
65 ACATTGCGAT
4636008 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
81 58 0.97
82 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (81 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATCA
CATTGCGATAGTAAGT
Found at i:4638953 original size:18 final size:18
Alignment explanation
Indices: 4638926--4638963 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
4638916 CTCATATTCT
*
4638926 TTCTTTATCTTGATCTCA
1 TTCTTCATCTTGATCTCA
4638944 TTCTTCATCTTGATCTCA
1 TTCTTCATCTTGATCTCA
4638962 TT
1 TT
4638964 ATCCATTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.24, G:0.05, T:0.55
Consensus pattern (18 bp):
TTCTTCATCTTGATCTCA
Found at i:4639912 original size:20 final size:20
Alignment explanation
Indices: 4639887--4639939 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
4639877 CCCTAGCATC
4639887 AGAGTATCGATACTCATCCA
1 AGAGTATCGATACTCATCCA
4639907 AGAGTATCGATACTCATCCA
1 AGAGTATCGATACTCATCCA
4639927 AGAGTATCGATAC
1 AGAGTATCGATAC
4639940 CAACTTGCCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (20 bp):
AGAGTATCGATACTCATCCA
Found at i:4647511 original size:20 final size:20
Alignment explanation
Indices: 4647459--4647515 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
4647449 GGTACCGATA
*
4647459 AGAGTATCGATACTTGAC-CCT
1 AGAGTATCGATAC-T-ACAACT
*
4647480 AGAGTATTGATACTACAACT
1 AGAGTATCGATACTACAACT
*
4647500 AGATTATCGATACTAC
1 AGAGTATCGATACTAC
4647516 CCACATTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 2 0.06
20 17 0.55
21 12 0.39
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (20 bp):
AGAGTATCGATACTACAACT
Found at i:4648784 original size:32 final size:32
Alignment explanation
Indices: 4648682--4648794 Score: 147
Period size: 32 Copynumber: 3.5 Consensus size: 32
4648672 AGAGTCAATT
4648682 TTGCATTCAGATAATGCACAATAGAATTAGTA
1 TTGCATTCAGATAATGCACAATAGAATTAGTA
* * *
4648714 TTACATTCTGATAATGCACAGTAGAATTAGTA
1 TTGCATTCAGATAATGCACAATAGAATTAGTA
* * *
4648746 TTGCATTCAGATAATGCATAATAGAGTTAGCA
1 TTGCATTCAGATAATGCACAATAGAATTAGTA
*
4648778 TGGCATTCA-ATTAATGC
1 TTGCATTCAGA-TAATGC
4648795 CTAGTAGCAT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
31 1 0.01
32 69 0.99
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (32 bp):
TTGCATTCAGATAATGCACAATAGAATTAGTA
Found at i:4676284 original size:20 final size:20
Alignment explanation
Indices: 4676256--4676295 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4676246 TACCATAGTA
4676256 TAGAAGTATCGATACCATGG
1 TAGAAGTATCGATACCATGG
* *
4676276 TAGATGTATCGATACTATGG
1 TAGAAGTATCGATACCATGG
4676296 AGCCTGGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (20 bp):
TAGAAGTATCGATACCATGG
Found at i:4676692 original size:56 final size:55
Alignment explanation
Indices: 4676620--4676756 Score: 247
Period size: 56 Copynumber: 2.5 Consensus size: 55
4676610 TGACACTATA
4676620 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTG-AAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
4676676 TGTGTGAAAAAGCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGAAAAA-CTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
*
4676732 CGTGTGAAAAACTAAGAAATTCATA
1 TGTGTGAAAAACTAAGAAATTCATA
4676757 GATTTATGGA
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
55 19 0.24
56 60 0.76
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (55 bp):
TGTGTGAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
Found at i:4676831 original size:18 final size:18
Alignment explanation
Indices: 4676808--4676844 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4676798 TCCAATTATT
4676808 TTTTTTCGTTCGGTGCTA
1 TTTTTTCGTTCGGTGCTA
4676826 TTTTTTCGTTCGGTGCTA
1 TTTTTTCGTTCGGTGCTA
4676844 T
1 T
4676845 AAGGGGGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.16, G:0.22, T:0.57
Consensus pattern (18 bp):
TTTTTTCGTTCGGTGCTA
Found at i:4682667 original size:24 final size:24
Alignment explanation
Indices: 4682639--4682686 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
4682629 GTTTCTTTTA
4682639 CTGATGATGCACCTTATTTACCTT
1 CTGATGATGCACCTTATTTACCTT
4682663 CTGATGATGCACCTTATTTACCTT
1 CTGATGATGCACCTTATTTACCTT
4682687 TGAATCTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (24 bp):
CTGATGATGCACCTTATTTACCTT
Found at i:4683318 original size:37 final size:37
Alignment explanation
Indices: 4683245--4683319 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
4683235 GTTGGAAAAT
* *
4683245 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
4683282 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
4683319 A
1 A
4683320 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:4684874 original size:22 final size:22
Alignment explanation
Indices: 4684821--4684875 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
4684811 TTATCATAAT
*
4684821 ATAACAAAAGTGTCTTAGCACTA
1 ATAA-AAAAGTGTCGTAGCACTA
** *
4684844 ATACTAAAGTGTCGTAGCACTG
1 ATAAAAAAGTGTCGTAGCACTA
*
4684866 GTAAAAAAGT
1 ATAAAAAAGT
4684876 TCATTCGTAC
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (22 bp):
ATAAAAAAGTGTCGTAGCACTA
Found at i:4694388 original size:43 final size:37
Alignment explanation
Indices: 4694345--4694415 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
4694335 TAAAATATTT
*
4694345 TTTA-TTTTCATAAATATTATTCTTTTAATTGAAGAC
1 TTTATTTTTCATAAATATAATTCTTTTAATTGAAGAC
4694381 TTTATTTTTCATAAATATAATTCTTTTAATTGAAG
1 TTTATTTTTCATAAATATAATTCTTTTAATTGAAG
4694416 GCGTCTGATA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 4 0.12
37 29 0.88
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.54
Consensus pattern (37 bp):
TTTATTTTTCATAAATATAATTCTTTTAATTGAAGAC
Found at i:4694737 original size:23 final size:25
Alignment explanation
Indices: 4694702--4694747 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
4694692 ACCTTCTATT
4694702 TTTTAAAATTATTATAT-TTTTTAA
1 TTTTAAAATTATTATATATTTTTAA
4694726 TTTT-AAATTATTATATATTTTT
1 TTTTAAAATTATTATATATTTTT
4694748 CTATAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTAAAATTATTATATATTTTTAA
Found at i:4694756 original size:23 final size:23
Alignment explanation
Indices: 4694705--4694757 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
4694695 TTCTATTTTT
*
4694705 TAAAATTATTATATTTTTTAATT
1 TAAAATTATTATATTTTTTAATA
* *
4694728 TTAAATTATTATATATTTTT-CTA
1 TAAAATTATTATAT-TTTTTAATA
4694751 TAAAATT
1 TAAAATT
4694758 GTGTTCGCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TAAAATTATTATATTTTTTAATA
Found at i:4699101 original size:24 final size:24
Alignment explanation
Indices: 4699073--4699129 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
4699063 ATATGAACAC
4699073 GCACACACACACT-CATACGCACAT
1 GCACACACACA-TGCATACGCACAT
* *
4699097 GCACATACACATGTATACGCACAT
1 GCACACACACATGCATACGCACAT
4699121 GCACACACA
1 GCACACACA
4699130 TGCACACGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.39, C:0.37, G:0.11, T:0.14
Consensus pattern (24 bp):
GCACACACACATGCATACGCACAT
Found at i:4699491 original size:16 final size:16
Alignment explanation
Indices: 4699470--4699500 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4699460 ATAAGACTAC
4699470 TGGAATGTAATATTAT
1 TGGAATGTAATATTAT
4699486 TGGAATGTAATATTA
1 TGGAATGTAATATTA
4699501 CTTGACATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (16 bp):
TGGAATGTAATATTAT
Found at i:4704004 original size:40 final size:40
Alignment explanation
Indices: 4703941--4704142 Score: 350
Period size: 40 Copynumber: 5.0 Consensus size: 40
4703931 TGCAAGTTTA
*
4703941 TAATCCACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
4703981 TAATACAATTCGGTGTATATGGTGGGAACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4704021 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
4704061 TAATACACTTCGGTGTATATGGTGGGAACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4704101 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4704141 TA
1 TA
4704143 GCACTACGGT
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 152 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:4704311 original size:45 final size:45
Alignment explanation
Indices: 4704247--4704412 Score: 244
Period size: 45 Copynumber: 3.7 Consensus size: 45
4704237 GTAACCATGC
*
4704247 AAATAAGCTTACGAGCTTATGGAACAAATGATAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGATAAGTATATTGGTA
* * *
4704292 AAATAAGCTTACGAGCTTATTGAACAAATGGTAAGTGTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGATAAGTATATTGGTA
* * *
4704337 AAATAAGCTTACGAGCTTATAGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGATAAGTATATTGGTA
*
4704382 GAATAAGCTTACGAGCTTATAGGAA-AAATGA
1 AAATAAGCTTACGAGCTTAT-GGAACAAATGA
4704413 GATTTTATAT
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 107 0.97
46 3 0.03
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAACAAATGATAAGTATATTGGTA
Found at i:4704667 original size:21 final size:21
Alignment explanation
Indices: 4704643--4704682 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4704633 TTCGGAATTT
*
4704643 ACTGTAGCAGTGTATCGATGC
1 ACTGTAGCAGTGGATCGATGC
*
4704664 ACTGTTGCAGTGGATCGAT
1 ACTGTAGCAGTGGATCGAT
4704683 ACACACTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (21 bp):
ACTGTAGCAGTGGATCGATGC
Found at i:4711153 original size:40 final size:40
Alignment explanation
Indices: 4711097--4711254 Score: 234
Period size: 40 Copynumber: 4.0 Consensus size: 40
4711087 TGCAAGTTTA
* *
4711097 TAATACACTTCAGTGTATATGGTGGGCACGACCATATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4711137 TAATACACTTTGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4711177 TAATACACTTCGGTGTATATAGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
4711217 ---TA-ACTTTGGTGTATATGGTGGGCACGATCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4711253 TA
1 TA
4711255 GCACTACGGT
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
36 31 0.29
37 2 0.02
40 75 0.69
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:4711409 original size:45 final size:45
Alignment explanation
Indices: 4711359--4711528 Score: 227
Period size: 45 Copynumber: 3.8 Consensus size: 45
4711349 GTAACCATGC
* *
4711359 AAATAAGCTTACGAACTTATGGAACAAATGATAAATATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGATAAATATATTGGTA
* * *
4711404 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTGTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGATAAATATATTGGTA
* * *
4711449 AAATAAGCTTACGATCTTATGGAATAAAT-AGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGA-TAAATATATTGGTA
*
4711494 GAATAAGCTTACGAGCTTATAGGAA-AAATGATAAA
1 AAATAAGCTTACGAGCTTAT-GGAACAAATGATAAA
4711529 AAATTTTATA
Statistics
Matches: 110, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
45 105 0.95
46 5 0.05
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAACAAATGATAAATATATTGGTA
Found at i:4711512 original size:90 final size:90
Alignment explanation
Indices: 4711359--4711523 Score: 253
Period size: 90 Copynumber: 1.8 Consensus size: 90
4711349 GTAACCATGC
4711359 AAATAAGCTTACGAACTTATGGAACAAATGATAAATATATGGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAACTTATGGAACAAATGATAAATATATGGGTAAAATAAGCTTACGAGCTTAT
4711424 -GGAACAAATGGTAAGTGTATTGGTA
66 AGGAA-AAATGGTAAGTGTATTGGTA
* * * * *
4711449 AAATAAGCTTACGATCTTATGGAATAAAT-AGTAAGTATATTGGTAGAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAACTTATGGAACAAATGA-TAAATATATGGGTAAAATAAGCTTACGAGCTTA
4711513 TAGGAAAAATG
65 TAGGAAAAATG
4711524 ATAAAAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
89 1 0.01
90 63 0.93
91 4 0.06
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.28
Consensus pattern (90 bp):
AAATAAGCTTACGAACTTATGGAACAAATGATAAATATATGGGTAAAATAAGCTTACGAGCTTAT
AGGAAAAATGGTAAGTGTATTGGTA
Found at i:4711944 original size:21 final size:21
Alignment explanation
Indices: 4711920--4711963 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4711910 TTCAGAATTT
4711920 ACTGTAGCAGTGTATCGATAC
1 ACTGTAGCAGTGTATCGATAC
*
4711941 ACTGTAGCATTGTATCGATAC
1 ACTGTAGCAGTGTATCGATAC
4711962 AC
1 AC
4711964 ATTTTTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (21 bp):
ACTGTAGCAGTGTATCGATAC
Found at i:4718440 original size:40 final size:40
Alignment explanation
Indices: 4718385--4718506 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
4718375 TGCAGGTTTA
4718385 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4718425 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4718465 TAATACACTTCGGTGTATATGGTGGGCATGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4718505 TA
1 TA
4718507 GCACTACAGT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:4718676 original size:45 final size:45
Alignment explanation
Indices: 4718611--4718780 Score: 270
Period size: 45 Copynumber: 3.8 Consensus size: 45
4718601 GTAACCATGC
4718611 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTGTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTGTATTGGTA
*
4718656 AAATAAGCTTACGAGATTATGGAACAAATGGTAAGTGTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTGTATTGGTA
* * *
4718701 AAATAAGCTTACCAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTGTATTGGTA
* *
4718746 GAATAAGCTTACGAGCTTATAGGAA-AAATGATAAG
1 AAATAAGCTTACGAGCTTAT-GGAACAAATGGTAAG
4718781 AAATTTTATA
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 112 0.97
46 4 0.03
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAACAAATGGTAAGTGTATTGGTA
Found at i:4719282 original size:67 final size:67
Alignment explanation
Indices: 4719201--4719349 Score: 226
Period size: 67 Copynumber: 2.2 Consensus size: 67
4719191 GCACTATAGT
*
4719201 AGTGCATCGATACACATTTTTGATTCGAAATTTAGGCGCACCGATGCACTGTTCACGTTACTATA
1 AGTGCATCGATACACATTTTTGATTCAAAATTTAGGCGCACCGATGCACTGTTCACGTTACTATA
4719266 AC
66 AC
* * * * * *
4719268 AGTTCATCGATACACATTTTTTATTCAAAATTTAGGTGCATCGATGCACTTTTCACGTTACTGTA
1 AGTGCATCGATACACATTTTTGATTCAAAATTTAGGCGCACCGATGCACTGTTCACGTTACTATA
4719333 AC
66 AC
*
4719335 AGTGCATCGGTACAC
1 AGTGCATCGATACAC
4719350 TGTTCACGGT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (67 bp):
AGTGCATCGATACACATTTTTGATTCAAAATTTAGGCGCACCGATGCACTGTTCACGTTACTATA
AC
Found at i:4723512 original size:79 final size:79
Alignment explanation
Indices: 4723381--4723539 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
4723371 AGAAACAGCT
4723381 CGTTGGATTTATCCTGTAGGTGATTGGATTAAGGCAAATACAGACGGTGTTTTCGGTGGGTCATA
1 CGTTGGATTTATCCTGTAGGTGATTGGATTAAGGCAAATACAGACGGTGTTTTCGGTGGGTCATA
4723446 CATACATCACAACG
66 CATACATCACAACG
4723460 CGTTGGATTTATCCTGTAGGTGATTGGATTAAGGCAAATACAGACGGTGTTTTCGGTGGGTCATA
1 CGTTGGATTTATCCTGTAGGTGATTGGATTAAGGCAAATACAGACGGTGTTTTCGGTGGGTCATA
4723525 CATACATCACAACG
66 CATACATCACAACG
4723539 C
1 C
4723540 TTACATGAAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (79 bp):
CGTTGGATTTATCCTGTAGGTGATTGGATTAAGGCAAATACAGACGGTGTTTTCGGTGGGTCATA
CATACATCACAACG
Found at i:4728941 original size:13 final size:13
Alignment explanation
Indices: 4728923--4728953 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
4728913 AAGTCATCAA
4728923 GTGTTGGCACCAT
1 GTGTTGGCACCAT
4728936 GTGTTGGCACCAT
1 GTGTTGGCACCAT
4728949 GTGTT
1 GTGTT
4728954 CCCGAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.19, G:0.32, T:0.35
Consensus pattern (13 bp):
GTGTTGGCACCAT
Found at i:4733493 original size:40 final size:40
Alignment explanation
Indices: 4733444--4733563 Score: 159
Period size: 40 Copynumber: 3.0 Consensus size: 40
4733434 ATACGAGTCA
* * * *
4733444 AATATTGCACCATAGTGTTGAGGTCGATCCTTGCTCACCT
1 AATAATGCACCGTAGTGCTGAGGTCGAGCCTTGCTCACCT
*
4733484 AATAATGCACCGTAGTGCTGAGCTCGAGCCTTGCTCACCT
1 AATAATGCACCGTAGTGCTGAGGTCGAGCCTTGCTCACCT
* * * *
4733524 AATAATACACCGTAGTGCTGAGGTCGGGTCTTGCCCACCT
1 AATAATGCACCGTAGTGCTGAGGTCGAGCCTTGCTCACCT
4733564 TATACACTGT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.28
Consensus pattern (40 bp):
AATAATGCACCGTAGTGCTGAGGTCGAGCCTTGCTCACCT
Found at i:4738454 original size:3 final size:3
Alignment explanation
Indices: 4738446--4738481 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4738436 TTAATGTTAA
4738446 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4738482 TGAAGCACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4739736 original size:36 final size:36
Alignment explanation
Indices: 4739696--4739838 Score: 197
Period size: 36 Copynumber: 4.0 Consensus size: 36
4739686 ACAGTGCTGG
*
4739696 ACATTGATACACGAATATACCAAAGCT-AATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGAA-ATGATA
*
4739732 ACATTGATACACGAATGTATCAAAGCTGAAATGATA
1 ACATTGATACACGAATGTACCAAAGCTGAAATGATA
4739768 ACATTGATACACGAATGTACCAAAGCTGAAATGATA
1 ACATTGATACACGAATGTACCAAAGCTGAAATGATA
*
4739804 ACATTG-T---CGAATGTATCAAAGCTGATAATGGATA
1 ACATTGATACACGAATGTACCAAAGCTGA-AAT-GATA
4739838 A
1 A
4739839 ATACTCAACT
Statistics
Matches: 100, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
32 17 0.17
33 3 0.03
34 5 0.05
35 1 0.01
36 72 0.72
37 2 0.02
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGAAATGATA
Found at i:4743142 original size:18 final size:18
Alignment explanation
Indices: 4743118--4743241 Score: 221
Period size: 18 Copynumber: 6.9 Consensus size: 18
4743108 GAGGGATTAT
*
4743118 CAGTGGTCCTTCAGGACA
1 CAGTGGTCCTTCGGGACA
*
4743136 TAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
4743154 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
4743172 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
4743190 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
4743208 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
*
4743226 CAGTGGTCCTACGGGA
1 CAGTGGTCCTTCGGGA
4743242 TAAATTCTAC
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 102 1.00
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.23
Consensus pattern (18 bp):
CAGTGGTCCTTCGGGACA
Found at i:4750603 original size:20 final size:19
Alignment explanation
Indices: 4750553--4750608 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
4750543 AACCAATAAT
4750553 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
4750572 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
4750592 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
4750609 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:4751053 original size:23 final size:23
Alignment explanation
Indices: 4751019--4751065 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
4751009 ACGCAAAGAA
4751019 AAATGAAAAAAATTATAA-TAAAT
1 AAATGAAAAAAA-TATAATTAAAT
4751042 AAAT-AAATAAAATATAATTAAAT
1 AAATGAAA-AAAATATAATTAAAT
4751065 A
1 A
4751066 TATACATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATGAAAAAAATATAATTAAAT
Found at i:4751573 original size:36 final size:36
Alignment explanation
Indices: 4751482--4751582 Score: 121
Period size: 37 Copynumber: 2.8 Consensus size: 36
4751472 ATGCTTGTGG
* ** * *
4751482 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTAT-TTTAGGAGTTTGAATCCTAGCAAAACTCT
* *
4751519 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTA-TTTTAGGAGTTTGAATCCTAGCAAAACTCT
4751556 ATCCTATTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTAGGAGTTTGAATCCTAG
4751583 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
36 21 0.38
37 34 0.61
38 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:4752521 original size:106 final size:106
Alignment explanation
Indices: 4752335--4753610 Score: 1955
Period size: 106 Copynumber: 12.0 Consensus size: 106
4752325 GCATTGTTCC
* * ** *
4752335 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAATCAGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * *
4752399 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * ** *
4752441 TAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCAAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
4752506 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4752547 AAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
4752612 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
4752653 GAGTTCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
4752718 CCAGCGGTCCCTTCATTGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
4752759 GAGTCCAATATCATTCACTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
4752824 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
4752865 GAGTACAATATCTTTCGCTGTGAAGTTGAAATTAGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
4752930 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4752971 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTAGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
4753036 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4753077 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
4753142 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
4753183 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
4753248 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
4753289 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
4753354 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4753395 GAGTCCAATATCCTTC-TTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGGCA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
*
4753459 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
4753501 GATTCCAATATCCTTCCCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
4753566 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
4753607 GAGT
1 GAGT
4753611 GGCACGATAT
Statistics
Matches: 1077, Mismatches: 89, Indels: 8
0.92 0.08 0.01
Matches are distributed among these distances:
105 2 0.00
106 1073 1.00
107 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:4754601 original size:22 final size:22
Alignment explanation
Indices: 4754575--4754627 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
4754565 GTGTTTGGTC
4754575 AAAGGTTTGGCATTTGATGCTA
1 AAAGGTTTGGCATTTGATGCTA
*
4754597 AAAGGTTTGGCATTTGATGCTC
1 AAAGGTTTGGCATTTGATGCTA
4754619 AAAGGTTTG
1 AAAGGTTTG
4754628 ATGGGGTAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.36
Consensus pattern (22 bp):
AAAGGTTTGGCATTTGATGCTA
Found at i:4755256 original size:15 final size:15
Alignment explanation
Indices: 4755244--4755295 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
4755234 TTCTTTTTGA
4755244 TTTTTGTTC-TTT-T
1 TTTTTGTTCTTTTCT
4755257 TTTTTGTT-TTCTTCT
1 TTTTTGTTCTT-TTCT
4755272 TTTTTGCTTCTTTTCT
1 TTTTTG-TTCTTTTCT
4755288 TTTTTGTT
1 TTTTTGTT
4755296 TTTGCCCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.26
14 2 0.06
15 9 0.26
16 12 0.35
17 2 0.06
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.81
Consensus pattern (15 bp):
TTTTTGTTCTTTTCT
Found at i:4755274 original size:16 final size:15
Alignment explanation
Indices: 4755250--4755297 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
4755240 TTGATTTTTG
*
4755250 TTCTTTTTTTTTGTT
1 TTCTTCTTTTTTGTT
4755265 TTCTTCTTTTTTGCTT
1 TTCTTCTTTTTTG-TT
4755281 CTT-TTCTTTTTTGTT
1 -TTCTTCTTTTTTGTT
4755296 TT
1 TT
4755298 TGCCCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.07
15 14 0.47
16 12 0.40
17 2 0.07
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.81
Consensus pattern (15 bp):
TTCTTCTTTTTTGTT
Found at i:4755285 original size:19 final size:18
Alignment explanation
Indices: 4755245--4755292 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
4755235 TCTTTTTGAT
* * *
4755245 TTTTGTTCTTTTTTTTTG
1 TTTTCTTCTTTTTTCTTC
4755263 TTTTCTTCTTTTTTGCTTC
1 TTTTCTTCTTTTTT-CTTC
4755282 TTTTCTT-TTTT
1 TTTTCTTCTTTT
4755293 GTTTTTGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.81
Consensus pattern (18 bp):
TTTTCTTCTTTTTTCTTC
Found at i:4759842 original size:19 final size:19
Alignment explanation
Indices: 4759788--4759842 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
4759778 AACCAATAAT
4759788 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
4759807 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
4759826 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
4759843 GAAGATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 1 0.03
19 18 0.62
20 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:4759951 original size:21 final size:21
Alignment explanation
Indices: 4759927--4760074 Score: 63
Period size: 22 Copynumber: 6.6 Consensus size: 21
4759917 GCAAAGAAAC
4759927 TAAAAATATAATAAAAATAAA
1 TAAAAATATAATAAAAATAAA
*
4759948 TAAATAGTATAA-ATAAAAT-AA
1 TAAA-AATATAATA-AAAATAAA
*
4759969 TAAAAAATATATATATAAAA-ATA
1 T-AAAAATATA-ATA-AAAATAAA
*
4759992 TAAAATGTATATATAATATAATAAAA
1 TAAAA-ATATA-ATAA-A-AAT-AAA
* *
4760018 TACTAAATAGTAATAATAAT-AA
1 TA-AAAATA-TAATAAAAATAAA
*
4760040 TAATAAATA-AACGAAAAATAAA
1 TAA-AAATATAA-TAAAAATAAA
* *
4760062 TATACATATAATA
1 TAAAAATATAATA
4760075 TTAACTAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 34
0.67 0.10 0.24
Matches are distributed among these distances:
20 2 0.02
21 23 0.24
22 35 0.36
23 17 0.18
24 5 0.05
26 10 0.10
27 4 0.04
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (21 bp):
TAAAAATATAATAAAAATAAA
Done.