Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 329 of 349
Found at i:109137688 original size:14 final size:14
Alignment explanation
Indices: 109137671--109137710 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
109137661 ATTAAACATG
* *
109137671 CTTAAACCATATAT
1 CTTAAACCATAAAC
109137685 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
109137699 CTTAAACTATAA
1 CTTAAACCATAA
109137711 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:109137925 original size:41 final size:41
Alignment explanation
Indices: 109137866--109138078 Score: 302
Period size: 41 Copynumber: 5.2 Consensus size: 41
109137856 GGTTATGAGA
*
109137866 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTGATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * *
109137907 TATTTAGCGGTGTTTTACGAAAAGCACCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * * * * *
109137948 TTTTTTGCGGCGTTTTAGGAAAAACGACACTAATGTTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
*
109137989 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTAG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* *
109138030 TTTTTTGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
109138071 -TTTTAGCG
1 TTTTTAGCG
109138079 ACATTTTTTT
Statistics
Matches: 148, Mismatches: 24, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
40 7 0.05
41 141 0.95
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
Found at i:109140892 original size:25 final size:25
Alignment explanation
Indices: 109140837--109140903 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
109140827 GCAACCAACT
* * *
109140837 ACAAAACGCCCCGTTT-ATTAAAAG
1 ACAAAACGCACCATTTAACTAAAAG
** *
109140861 ATTAAACTCACCATTTAACTAAAAG
1 ACAAAACGCACCATTTAACTAAAAG
109140886 ACAAAACGCACCATTTAA
1 ACAAAACGCACCATTTAA
109140904 ACAACCTATT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
24 11 0.33
25 22 0.67
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (25 bp):
ACAAAACGCACCATTTAACTAAAAG
Found at i:109146429 original size:22 final size:22
Alignment explanation
Indices: 109146402--109146445 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
109146392 TCCCACCATT
109146402 AGGGACAGCTTCCCAACAGTTC
1 AGGGACAGCTTCCCAACAGTTC
109146424 AGGGACAGCTTCCCAACAGTTC
1 AGGGACAGCTTCCCAACAGTTC
109146446 TTGAGAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.32, G:0.23, T:0.18
Consensus pattern (22 bp):
AGGGACAGCTTCCCAACAGTTC
Found at i:109149317 original size:37 final size:40
Alignment explanation
Indices: 109149237--109149317 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 40
109149227 TTTATTTTAA
*
109149237 AAATTCAAAAATACAAAAAAAATCTATTTTTTAAATATAAT
1 AAATTCAAAAATAC-AAAAAAATCTATTTTTTAAAAATAAT
*
109149278 AAATT-AAAAATAC-ATAAAAT-TA-TTTTTAAAAATACAT
1 AAATTCAAAAATACAAAAAAATCTATTTTTTAAAAATA-AT
109149315 AAA
1 AAA
109149318 AGAAATTAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
36 11 0.30
37 7 0.19
38 6 0.16
40 8 0.22
41 5 0.14
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (40 bp):
AAATTCAAAAATACAAAAAAATCTATTTTTTAAAAATAAT
Found at i:109152374 original size:16 final size:16
Alignment explanation
Indices: 109152355--109152397 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
109152345 CTTTAGCCAT
109152355 ATTTACTTTTAGTGTA
1 ATTTACTTTTAGTGTA
* *
109152371 ATTTATTTTTAGTTTA
1 ATTTACTTTTAGTGTA
109152387 ATTTCACTTTT
1 ATTT-ACTTTT
109152398 CTAATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (16 bp):
ATTTACTTTTAGTGTA
Found at i:109165080 original size:93 final size:93
Alignment explanation
Indices: 109164972--109165144 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
109164962 CGCCCATAAG
* *
109164972 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
109165037 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
109165065 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
109165130 ACGAGCTCGGATGCC
66 ACGAGCTCGGATGCC
109165145 CAAATATCCT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:109165140 original size:46 final size:46
Alignment explanation
Indices: 109164965--109165140 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
109164955 TGTAACCCGC
* * *
109164965 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
109165011 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
109165057 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
*
109165104 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
109165141 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 66 0.62
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:109165159 original size:46 final size:44
Alignment explanation
Indices: 109164973--109165159 Score: 112
Period size: 46 Copynumber: 4.0 Consensus size: 44
109164963 GCCCATAAGC
* ** ** **
109164973 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATCC-T-AGT
* *
109165019 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCCA---A-ATC-CTAGT
* * * *
109165066 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGC--ATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCCCAAATCC-T-AGT
109165112 GAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCC-AA-ATCCTAGT
109165158 GA
1 GA
109165160 CATGTCACTT
Statistics
Matches: 107, Mismatches: 19, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
46 59 0.55
47 27 0.25
48 4 0.04
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATCCTAGT
Found at i:109167703 original size:30 final size:30
Alignment explanation
Indices: 109167659--109167727 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
109167649 CAAAGATAAC
*
109167659 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
* * *
109167688 GAGAAACCCAGAATAAAGAGATCCAGGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
109167718 AAGAAACCCA
1 AAGAAACCCA
109167728 AGATACGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:109167732 original size:15 final size:15
Alignment explanation
Indices: 109167670--109167732 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
109167660 AGAAAACCGA
*
109167670 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
109167685 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* * *
109167699 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
109167715 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
109167730 ATA
1 ATA
109167733 CGATACTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
14 2 0.05
15 34 0.92
16 1 0.03
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:109170783 original size:93 final size:93
Alignment explanation
Indices: 109170675--109170847 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
109170665 CGCCCATAAG
* * *
109170675 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
109170740 ATGAGCTCAGATGCCTAGTTACATCTCT
66 ACGAGCTCAGATGCCTAGTTACATCTCT
*
109170768 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
109170833 ACGAGCTCGGATGCC
66 ACGAGCTCAGATGCC
109170848 CAAATATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCT
Found at i:109170843 original size:46 final size:46
Alignment explanation
Indices: 109170668--109170843 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
109170658 TGTAACCCGC
* * *
109170668 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
109170714 CCATAAGTGAACTCGGACTCAACTCAATGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
109170760 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
109170807 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
109170844 TGCCCAAATA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 64 0.63
47 28 0.27
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:109181927 original size:85 final size:85
Alignment explanation
Indices: 109181784--109181962 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
109181774 GGCCGGCCAT
109181784 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
109181849 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
109181869 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
109181934 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
109181954 GGGCATGGG
1 GAGCATGGG
109181963 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:109184110 original size:47 final size:47
Alignment explanation
Indices: 109184056--109184223 Score: 264
Period size: 47 Copynumber: 3.6 Consensus size: 47
109184046 TATTTGAATA
109184056 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
109184103 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
109184150 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
109184197 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
109184224 TCCCGAAGGG
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 111 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:109193772 original size:30 final size:30
Alignment explanation
Indices: 109193736--109193840 Score: 165
Period size: 30 Copynumber: 3.5 Consensus size: 30
109193726 CATGACTATC
109193736 ACACACGGGCATGTGGTCTACCCGTATGTT
1 ACACACGGGCATGTGGTCTACCCGTATGTT
* *
109193766 ACACACGGGCGTGTAGTCTACCCGTATGTT
1 ACACACGGGCATGTGGTCTACCCGTATGTT
* *
109193796 ACACACGGGCATGTGGTCTACCCGTGTGTC
1 ACACACGGGCATGTGGTCTACCCGTATGTT
*
109193826 ACACACGAGCATGTG
1 ACACACGGGCATGTG
109193841 AATCACTCGT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.24
Consensus pattern (30 bp):
ACACACGGGCATGTGGTCTACCCGTATGTT
Found at i:109200047 original size:48 final size:46
Alignment explanation
Indices: 109199826--109200070 Score: 215
Period size: 43 Copynumber: 5.4 Consensus size: 46
109199816 TATATTGTAC
* *
109199826 ATTGGCACTAAGTGTGGGAGACTGAGATAGCTTCGGCTA-A-AT-AT
1 ATTGGCACTAAGTGTGCGAGA-TGAAATAGCTTCGGCTATATATAAT
* ** *
109199870 ATTGGCAGTAAGTGTGCGAGACCAAATAGCTTCGGCTA-A-AT-AC
1 ATTGGCACTAAGTGTGCGAGATGAAATAGCTTCGGCTATATATAAT
* * * *
109199913 ATTGGCACTAAGTGTGCGAGATCAAATAACTTCGGTTATATACATAT
1 ATTGGCACTAAGTGTGCGAGATGAAATAGCTTCGGCTATATATA-AT
* * * *
109199960 ATTGGCACTTAGTGTGC-ATGATTGAGATAGCTCCAGCTATATATACAT
1 ATTGGCACTAAGTGTGCGA-GA-TGAAATAGCTTCGGCTATATATA-AT
* *
109200008 ATTGGCACTTAGTGTGCGAGATTGATATAGCTTCGGCTAT-T-T-AT
1 ATTGGCACTAAGTGTGCGAGA-TGAAATAGCTTCGGCTATATATAAT
109200052 -TTGGCACTAAGTGTGCGAG
1 ATTGGCACTAAGTGTGCGAG
109200071 TTTCCAGGTA
Statistics
Matches: 169, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
43 70 0.41
44 22 0.13
45 1 0.01
46 2 0.01
47 20 0.12
48 53 0.31
49 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (46 bp):
ATTGGCACTAAGTGTGCGAGATGAAATAGCTTCGGCTATATATAAT
Found at i:109201840 original size:35 final size:35
Alignment explanation
Indices: 109201713--109201843 Score: 129
Period size: 35 Copynumber: 3.6 Consensus size: 35
109201703 CCTCATTGAA
* * * *
109201713 ATACCATACCTGCATTTTACAACTCGGTATGGGA-A
1 ATACCATACCTACATTTCACAACTCAGTAT-GGATG
* **
109201748 ATGCCATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
*
109201785 ATAATACCATACTTACATTTCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
109201823 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
109201844 CTTTTCCATG
Statistics
Matches: 78, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
34 3 0.04
35 44 0.56
38 2 0.03
40 29 0.37
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:109205080 original size:22 final size:22
Alignment explanation
Indices: 109205055--109205111 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
109205045 GAACAGTACC
*
109205055 ACACGCCTATGTGGCTTATGTG
1 ACACGCCCATGTGGCTTATGTG
* *
109205077 ACACGCCCATGTGGTTTTTGTG
1 ACACGCCCATGTGGCTTATGTG
*
109205099 ACACGCCCGTGTG
1 ACACGCCCATGTG
109205112 CTTTACCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (22 bp):
ACACGCCCATGTGGCTTATGTG
Found at i:109208206 original size:13 final size:13
Alignment explanation
Indices: 109208188--109208216 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
109208178 AGTGCTTATC
109208188 CTCAAATATATAT
1 CTCAAATATATAT
109208201 CTCAAATATATAT
1 CTCAAATATATAT
109208214 CTC
1 CTC
109208217 CCTCTTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (13 bp):
CTCAAATATATAT
Found at i:109212397 original size:23 final size:23
Alignment explanation
Indices: 109212371--109212422 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
109212361 AAAAGCTATC
*
109212371 TACAAAATCAAATC-TCTAATATT
1 TACAAAATCAAATCTTCTAAGA-T
109212394 TACAAAATCAAATCTTCTAAGAT
1 TACAAAATCAAATCTTCTAAGAT
109212417 TACAAA
1 TACAAA
109212423 TCCTATAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (23 bp):
TACAAAATCAAATCTTCTAAGAT
Found at i:109212424 original size:17 final size:17
Alignment explanation
Indices: 109212402--109212453 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
109212392 TTTACAAAAT
109212402 CAAATCTTCTAAGATTA
1 CAAATCTTCTAAGATTA
* * *
109212419 CAAATCCTATAAGATTG
1 CAAATCTTCTAAGATTA
* *
109212436 CATATCTTCGAAGATTA
1 CAAATCTTCTAAGATTA
109212453 C
1 C
109212454 GTTTCATATT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (17 bp):
CAAATCTTCTAAGATTA
Found at i:109213792 original size:15 final size:14
Alignment explanation
Indices: 109213772--109213813 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
109213762 CGATGAATTT
109213772 ATTGAATTTATATTG
1 ATTGAA-TTATATTG
*
109213787 ATTGAAATTATTTTG
1 ATTG-AATTATATTG
109213802 ATTGAATTATAT
1 ATTGAATTATAT
109213814 AATATATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 15 0.62
16 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (14 bp):
ATTGAATTATATTG
Found at i:109214258 original size:21 final size:21
Alignment explanation
Indices: 109214185--109214246 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 21
109214175 AGCTTTACCG
* *
109214185 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
*
109214206 ATTTCAAGCACCTCATGTGTCGT
1 A--TCAGGCACCTCATGTGTCGT
*
109214229 ATCAGGCACCTCGTGTGT
1 ATCAGGCACCTCATGTGT
109214247 TGTTTTAGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 16 0.47
23 18 0.53
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:109214266 original size:21 final size:21
Alignment explanation
Indices: 109214188--109214268 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
109214178 TTTACCGATC
* *
109214188 AGGCACTTTATGTGTCGTATTT
1 AGGCACCTCATGTGTCGT-TTT
* * *
109214210 CAAGCACCTCATGTGTCGTATC
1 -AGGCACCTCATGTGTCGTTTT
* *
109214232 AGGCACCTCGTGTGTTGTTTT
1 AGGCACCTCATGTGTCGTTTT
* *
109214253 AGGCACTTTATGTGTC
1 AGGCACCTCATGTGTC
109214269 ATATAATGAT
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
21 28 0.64
22 1 0.02
23 15 0.34
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (21 bp):
AGGCACCTCATGTGTCGTTTT
Found at i:109215993 original size:16 final size:17
Alignment explanation
Indices: 109215962--109215994 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
109215952 TTCATAAGTA
109215962 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
109215979 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
109215995 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:109216342 original size:46 final size:46
Alignment explanation
Indices: 109216275--109216827 Score: 752
Period size: 46 Copynumber: 12.0 Consensus size: 46
109216265 TTATCTTTGA
* * * * * *
109216275 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATAT
*
109216321 CATGTTGCCATGGTATTTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
** **
109216367 CACATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* *
109216413 CATGTTGCCATGGTATCTTTCAACCACGGTCTTATTTATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* * ***
109216459 CACGTTGCCATGGTATCTTTCAACCATGGCCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
*
109216505 CATGTTGCCATGGTATCTTTCAATCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* * *
109216551 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* ***
109216597 CATGTTGCCATGGCATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
109216643 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* **
109216689 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* **
109216735 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
* **
109216781 CA-GATT-CCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
109216826 CA
1 CA
109216828 GAGAGCACAC
Statistics
Matches: 458, Mismatches: 47, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
45 45 0.10
46 413 0.90
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
Found at i:109218609 original size:2 final size:2
Alignment explanation
Indices: 109218602--109218627 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
109218592 CTTTCCTTTC
109218602 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
109218628 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109218641 original size:8 final size:8
Alignment explanation
Indices: 109218629--109218665 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
109218619 TATATATATT
109218629 AAATAA-A
1 AAATAATA
109218636 ATAATAATA
1 A-AATAATA
109218645 AAATAATA
1 AAATAATA
109218653 AAATAATA
1 AAATAATA
109218661 AAATA
1 AAATA
109218666 TCATTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 1 0.04
8 25 0.89
9 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:109221582 original size:26 final size:26
Alignment explanation
Indices: 109221553--109221634 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
109221543 TGGTACAAAT
*
109221553 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109221579 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
109221605 TGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
109221631 TGAT
1 TGAT
109221635 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:109223271 original size:27 final size:27
Alignment explanation
Indices: 109223233--109223343 Score: 156
Period size: 27 Copynumber: 4.1 Consensus size: 27
109223223 AAGCGTCCTA
109223233 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTATGCCACAATTATCTGATCTG
*
109223260 GTGGCTCTGCCAC-ATATATCTG-TCCTG
1 GTGGCTATGCCACAAT-TATCTGAT-CTG
109223287 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTATGCCACAATTATCTGATCTG
*
109223314 GTGGCTCTGCCACAA-TATCTGTATCTG
1 GTGGCTATGCCACAATTATCTG-ATCTG
109223341 GTG
1 GTG
109223344 ACTTCGTCAC
Statistics
Matches: 76, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
26 9 0.12
27 64 0.84
28 3 0.04
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.33
Consensus pattern (27 bp):
GTGGCTATGCCACAATTATCTGATCTG
Found at i:109223343 original size:54 final size:54
Alignment explanation
Indices: 109223227--109223335 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
109223217 TGGAGGAAGC
*
109223227 GTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
109223281 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
109223334 GT
1 GT
109223336 ATCTGGTGAC
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 8 0.15
54 46 0.85
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:109223354 original size:27 final size:26
Alignment explanation
Indices: 109223240--109223361 Score: 131
Period size: 27 Copynumber: 4.5 Consensus size: 26
109223230 CTAGTGGCTA
*
109223240 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAA-TATCTGATCTGGTGACTC
* *
109223267 TGCCACATATATCTG-TCCTGGTGGCTA
1 TGCCACA-ATATCTGAT-CTGGTGACTC
*
109223294 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAA-TATCTGATCTGGTGACTC
109223321 TGCCACAATATCTGTATCTGGTGACT-
1 TGCCACAATATCTG-ATCTGGTGACTC
*
109223347 TCGTCACAATATCTG
1 T-GCCACAATATCTG
109223362 GTAGTCTCGC
Statistics
Matches: 85, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
26 9 0.11
27 74 0.87
28 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (26 bp):
TGCCACAATATCTGATCTGGTGACTC
Found at i:109228577 original size:26 final size:26
Alignment explanation
Indices: 109228548--109228655 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
109228538 TGGTACAAAT
109228548 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
109228574 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
109228600 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
109228626 TGATAATGGCTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
109228652 TGAT
1 TGAT
109228656 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:109230294 original size:27 final size:27
Alignment explanation
Indices: 109230256--109230340 Score: 120
Period size: 27 Copynumber: 3.1 Consensus size: 27
109230246 AAGCGTCCTA
109230256 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTATGCCACAATTATCTGATCTG
*
109230283 GTGGCTCTGCCAC-ATATATCTG-TCCTG
1 GTGGCTATGCCACAAT-TATCTGAT-CTG
109230310 GTGGCTATGCCACAATTATCTGTATCTG
1 GTGGCTATGCCACAATTATCTG-ATCTG
109230338 GTG
1 GTG
109230341 ACTTCGTCAC
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
26 3 0.06
27 39 0.76
28 8 0.16
29 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.34
Consensus pattern (27 bp):
GTGGCTATGCCACAATTATCTGATCTG
Found at i:109230351 original size:28 final size:28
Alignment explanation
Indices: 109230256--109230358 Score: 94
Period size: 27 Copynumber: 3.8 Consensus size: 28
109230246 AAGCGTCCTA
109230256 GTGGCTAT-GCCACAATTATCTG-ATCTG
1 GTGGCT-TCGCCACAATTATCTGTATCTG
*
109230283 GTGGC-TCTGCCAC-ATATATCTGT-CCTG
1 GTGGCTTC-GCCACAAT-TATCTGTATCTG
109230310 GTGGCTAT-GCCACAATTATCTGTATCTG
1 GTGGCT-TCGCCACAATTATCTGTATCTG
* *
109230338 GTGACTTCGTCACAA-TATCTG
1 GTGGCTTCGCCACAATTATCTG
109230359 GCAGCCTCGC
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
25 1 0.02
26 2 0.03
27 43 0.68
28 16 0.25
29 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.34
Consensus pattern (28 bp):
GTGGCTTCGCCACAATTATCTGTATCTG
Found at i:109238268 original size:26 final size:29
Alignment explanation
Indices: 109238212--109238269 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
109238202 ATTTTTAGAC
** *
109238212 TTTTTTTTAAGAAAATTGATGGATTTTAA
1 TTTTTTTTAAGAAAATTGAAAGATTTAAA
109238241 TTTTTTTTAA-AAAATT-AAAGA-TTAAA
1 TTTTTTTTAAGAAAATTGAAAGATTTAAA
109238267 TTT
1 TTT
109238270 AGCTAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 3 0.12
28 6 0.23
29 10 0.38
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.52
Consensus pattern (29 bp):
TTTTTTTTAAGAAAATTGAAAGATTTAAA
Found at i:109248970 original size:17 final size:18
Alignment explanation
Indices: 109248950--109248990 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
109248940 AAGATTAAGC
*
109248950 TCAAAAAA-TAGGCTTAT
1 TCAAAAAATTAGGCCTAT
109248967 TCAAAAAATTAGGCCTAT
1 TCAAAAAATTAGGCCTAT
*
109248985 TTAAAA
1 TCAAAA
109248991 TATGGGTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (18 bp):
TCAAAAAATTAGGCCTAT
Found at i:109254375 original size:12 final size:12
Alignment explanation
Indices: 109254335--109254368 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
109254325 CAAAACCCAA
*
109254335 TTTTTCCTT-TC
1 TTTTTCTTTCTC
109254346 TTTTTCTTTCTC
1 TTTTTCTTTCTC
109254358 TTTTTCTTTCT
1 TTTTTCTTTCT
109254369 TTCTTTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:109254403 original size:25 final size:25
Alignment explanation
Indices: 109254375--109254426 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
109254365 TTCTTTCTTT
*
109254375 CCCTCCTTTGTTTCGTCCCTTTCTC
1 CCCTCCTCTGTTTCGTCCCTTTCTC
109254400 CCCTCCTCTGTTTCGTCCCTTTCTC
1 CCCTCCTCTGTTTCGTCCCTTTCTC
109254425 CC
1 CC
109254427 TTCTTTTTCT
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:0.00, C:0.48, G:0.08, T:0.44
Consensus pattern (25 bp):
CCCTCCTCTGTTTCGTCCCTTTCTC
Found at i:109254517 original size:24 final size:25
Alignment explanation
Indices: 109254467--109254518 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
109254457 TCTTTTATTA
* *
109254467 TTATATTATATCATTATTATATGTTT
1 TTATATTATA-CAATATTATATCTTT
*
109254493 TTATATTATA-AATATTATTTCTTT
1 TTATATTATACAATATTATATCTTT
109254517 TT
1 TT
109254519 TAATAAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 13 0.57
26 10 0.43
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (25 bp):
TTATATTATACAATATTATATCTTT
Found at i:109256896 original size:194 final size:194
Alignment explanation
Indices: 109256569--109257149 Score: 1130
Period size: 194 Copynumber: 3.0 Consensus size: 194
109256559 CCGTTCAGTT
109256569 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTA--TGACAGTATGGTG
1 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
*
109256632 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCCATTTAAGGC
66 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
109256697 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
131 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
109256761 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
1 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
109256826 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
66 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
109256891 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
131 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
*
109256955 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAATGTATTTGACAGTATGGTG
1 ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
109257020 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
66 CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
109257085 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
131 ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
109257149 A
1 A
109257150 GGAAACAAGG
Statistics
Matches: 385, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
192 50 0.13
194 335 0.87
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (194 bp):
ATTGGACCTTGAAAATACATGAAAACATGCTTTAATGGCTGAAAAACGTATTTGACAGTATGGTG
CAAGAAAGCCTATATCGGGAAGGATTGAAGGAGTAGCAAAAAGGGGGCTTGAAGCAATTTAAGGC
ATTAAAACTAAACTAACAACCTTTAAAATTAACAGTGAGCTTCCTTTAAGAAACATGTTGATGG
Found at i:109261615 original size:30 final size:30
Alignment explanation
Indices: 109261579--109261639 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
109261569 TCTTTCATCA
109261579 TGTAATCAATTTAAACATGTTTTGTTTTGT
1 TGTAATCAATTTAAACATGTTTTGTTTTGT
109261609 TGTAATCAATTTAAACATGTTTTGTTTTGT
1 TGTAATCAATTTAAACATGTTTTGTTTTGT
109261639 T
1 T
109261640 CTTGAACCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (30 bp):
TGTAATCAATTTAAACATGTTTTGTTTTGT
Found at i:109265590 original size:20 final size:20
Alignment explanation
Indices: 109265554--109265591 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
109265544 GAAACCAAGA
*
109265554 AAGAAACTACAAATTGAACC
1 AAGAAACTAAAAATTGAACC
109265574 AAGAAAC-AAAAAGTTGAA
1 AAGAAACTAAAAA-TTGAA
109265592 TATAGACTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (20 bp):
AAGAAACTAAAAATTGAACC
Found at i:109269232 original size:13 final size:13
Alignment explanation
Indices: 109269194--109269233 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
109269184 TAAGCACAAC
109269194 ATGAGTTTTGAA-
1 ATGAGTTTTGAAT
*
109269206 ATGAGTTTTAAAT
1 ATGAGTTTTGAAT
*
109269219 ATGAGATTTGAAT
1 ATGAGTTTTGAAT
109269232 AT
1 AT
109269234 TTGATCATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (13 bp):
ATGAGTTTTGAAT
Found at i:109283892 original size:11 final size:11
Alignment explanation
Indices: 109283876--109283906 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
109283866 AAGTATGGGT
109283876 AGGTATGGGAA
1 AGGTATGGGAA
*
109283887 AGGTATGGGCA
1 AGGTATGGGAA
109283898 AGGTATGGG
1 AGGTATGGG
109283907 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:109287976 original size:18 final size:18
Alignment explanation
Indices: 109287953--109288045 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
109287943 CCCAACTACT
*
109287953 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
109287971 GTATACGTGAATAGTTTC
1 GTATACGTGAATAGTACC
*
109287989 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
109288007 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
109288025 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
109288043 GTA
1 GTA
109288046 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:109288606 original size:11 final size:11
Alignment explanation
Indices: 109288590--109288620 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
109288580 AAGTATGGGT
109288590 AGGTATGGGAA
1 AGGTATGGGAA
*
109288601 AGGTATGGGCA
1 AGGTATGGGAA
109288612 AGGTATGGG
1 AGGTATGGG
109288621 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:109292351 original size:24 final size:26
Alignment explanation
Indices: 109292279--109292351 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 26
109292269 GTAACATCCC
109292279 AACGATCAAATTTCAAATCCT-CC-T
1 AACGATCAAATTTCAAATCCTCCCAT
* * *
109292303 AACGATCAATTTTTAAATCCGCCCAT
1 AACGATCAAATTTCAAATCCTCCCAT
*
109292329 TA-G-TCAAATTTCAAATCCTCCCA
1 AACGATCAAATTTCAAATCCTCCCA
109292352 ATGGCTAGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 35 0.88
25 3 0.08
26 2 0.05
ACGTcount: A:0.36, C:0.29, G:0.05, T:0.30
Consensus pattern (26 bp):
AACGATCAAATTTCAAATCCTCCCAT
Found at i:109297923 original size:33 final size:34
Alignment explanation
Indices: 109297879--109297944 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
109297869 TATAGTGTAC
109297879 TTTTCCTTTTCA-AGTGGCATACACAAAGTATACA
1 TTTTCCTTTTCATA-TGGCATACACAAAGTATACA
*
109297913 TTTT-CTTTTCATATGGTATACACAAAGTATAC
1 TTTTCCTTTTCATATGGCATACACAAAGTATAC
109297945 CTAACTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (34 bp):
TTTTCCTTTTCATATGGCATACACAAAGTATACA
Found at i:109298679 original size:21 final size:22
Alignment explanation
Indices: 109298633--109298675 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
109298623 TGTAAAAGTG
*
109298633 ATTTCTCTATCAATAACCTTTC
1 ATTTCTCTATCAATAAACTTTC
109298655 ATTTC-CTATC-ATAAACTTTC
1 ATTTCTCTATCAATAAACTTTC
109298675 A
1 A
109298676 ATTTATAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 5 0.25
22 5 0.25
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTCTCTATCAATAAACTTTC
Found at i:109299057 original size:16 final size:17
Alignment explanation
Indices: 109299036--109299067 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
109299026 ACTTCTCACT
109299036 TTTAATCC-TATAACTA
1 TTTAATCCTTATAACTA
109299052 TTTAATCCTTATAACT
1 TTTAATCCTTATAACT
109299068 TCTAGGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAATCCTTATAACTA
Found at i:109300030 original size:64 final size:64
Alignment explanation
Indices: 109299960--109300095 Score: 272
Period size: 64 Copynumber: 2.1 Consensus size: 64
109299950 AAAAATTTCA
109299960 AGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTAAGGAAAATGGATGAATT
1 AGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTAAGGAAAATGGATGAATT
109300024 AGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTAAGGAAAATGGATGAATT
1 AGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTAAGGAAAATGGATGAATT
109300088 AGGACCAA
1 AGGACCAA
109300096 ATTGAATAGG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 72 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.25
Consensus pattern (64 bp):
AGGACCAATAGTGTAAATATTTTAAGAGTGGAATGATCTAGAAACTAAGGAAAATGGATGAATT
Found at i:109300295 original size:18 final size:20
Alignment explanation
Indices: 109300253--109300289 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
109300243 ATATTTTATG
*
109300253 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
109300272 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
109300290 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:109302512 original size:46 final size:46
Alignment explanation
Indices: 109302445--109302718 Score: 334
Period size: 46 Copynumber: 6.0 Consensus size: 46
109302435 AGTGTGCTCT
* *
109302445 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
109302491 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
109302537 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * *
109302583 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
109302629 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
109302675 ATGACA-GAAAATGAGTAACATCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
109302719 TCATGTCAAA
Statistics
Matches: 203, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 202 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:109302602 original size:92 final size:92
Alignment explanation
Indices: 109302445--109302718 Score: 368
Period size: 92 Copynumber: 3.0 Consensus size: 92
109302435 AGTGTGCTCT
* * * ***
109302445 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
109302510 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAGC
* *
109302537 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
109302602 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAGC
* * ** * * * *
109302629 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
* * * *
109302694 ATCATAGTTGAAAGACACTATGGCA
66 ACCATGGTTGAAAGATACCATGGCA
109302719 TCATGTCAAA
Statistics
Matches: 160, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 160 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
ACCATGGTTGAAAGATACCATGGCAGC
Found at i:109302704 original size:138 final size:138
Alignment explanation
Indices: 109302460--109302723 Score: 368
Period size: 138 Copynumber: 1.9 Consensus size: 138
109302450 ATGAAATGTG
* **
109302460 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * * * * *
109302525 TACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGCAACATGACATGAAACGAGTAACACCATAGTTGAAAGACACCATGGCAACATGACGG
109302590 GAAATAAA
131 GAAATAAA
* *
109302598 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * *
109302663 TACCATGGCAACATGACA-GAAAATGAGTAACATCATAGTTGAAAGACACTATGGCATCATG
66 TACCATGGCAACATGACATG-AAACGAGTAACACCATAGTTGAAAGACACCATGGCAACATG
109302724 TCAAAGATAA
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
137 1 0.01
138 108 0.99
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAAACGAGTAACACCATAGTTGAAAGACACCATGGCAACATGACGG
GAAATAAA
Found at i:109307977 original size:30 final size:30
Alignment explanation
Indices: 109307941--109307997 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
109307931 TGGCTTGGGA
109307941 CATGGCCGTGTGGCCAGCCCGTGGGGATCC
1 CATGGCCGTGTGGCCAGCCCGTGGGGATCC
109307971 CATGGCCGTGTGGCCAGCCCGTGGGGA
1 CATGGCCGTGTGGCCAGCCCGTGGGGA
109307998 ATTCTGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.11, C:0.32, G:0.42, T:0.16
Consensus pattern (30 bp):
CATGGCCGTGTGGCCAGCCCGTGGGGATCC
Found at i:109309097 original size:32 final size:32
Alignment explanation
Indices: 109309009--109309187 Score: 117
Period size: 33 Copynumber: 5.4 Consensus size: 32
109308999 TGCACATTCT
* *
109309009 CTTTTCAAGTGGTACACACGA-AGTGTACATACC
1 CTTTTCAAAT-GTACACAC-ATAGTGTACATAAC
* *
109309042 CTTTTCAATTTGTACACACATAGTGCACATAAC
1 CTTTTCAA-ATGTACACACATAGTGTACATAAC
* * **
109309075 CTTTTCAAATGTACACATATAGTGTACTTTTC
1 CTTTTCAAATGTACACACATAGTGTACATAAC
* * * * **
109309107 CTTTTCAAATGGTATACACAAAGTATACCTTTC
1 CTTTTCAAAT-GTACACACATAGTGTACATAAC
* * * * *
109309140 CTTTTCATATGGTATACACAAAGTATACCTAAC
1 CTTTTCAAAT-GTACACACATAGTGTACATAAC
*
109309173 ATTTTCAAATTGTAC
1 CTTTTCAAA-TGTAC
109309188 CATTTGGGTC
Statistics
Matches: 122, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
32 29 0.24
33 91 0.75
34 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (32 bp):
CTTTTCAAATGTACACACATAGTGTACATAAC
Found at i:109309145 original size:33 final size:33
Alignment explanation
Indices: 109309074--109309169 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 33
109309064 GTGCACATAA
* * * * *
109309074 CCTTTTCAAAT-GTACACATATAGTGTACTTTT
1 CCTTTTCAAATGGTATACACAAAGTATACCTTT
109309106 CCTTTTCAAATGGTATACACAAAGTATACCTTT
1 CCTTTTCAAATGGTATACACAAAGTATACCTTT
*
109309139 CCTTTTCATATGGTATACACAAAGTATACCT
1 CCTTTTCAAATGGTATACACAAAGTATACCT
109309170 AACATTTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 11 0.19
33 46 0.81
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (33 bp):
CCTTTTCAAATGGTATACACAAAGTATACCTTT
Found at i:109309911 original size:21 final size:22
Alignment explanation
Indices: 109309865--109309907 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
109309855 TGTAAAAGTG
*
109309865 ATTTCTCTATCAATAACCTTTC
1 ATTTCTCTATCAATAAACTTTC
109309887 ATTTC-CTATC-ATAAACTTTC
1 ATTTCTCTATCAATAAACTTTC
109309907 A
1 A
109309908 ATTTACAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 5 0.25
22 5 0.25
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTCTCTATCAATAAACTTTC
Found at i:109320512 original size:20 final size:20
Alignment explanation
Indices: 109320487--109320526 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
109320477 TTTGTTATTC
* *
109320487 TTTTATTGGAAAGAGGTAAA
1 TTTTATTAGAAAGAGATAAA
109320507 TTTTATTAGAAAGAGATAAA
1 TTTTATTAGAAAGAGATAAA
109320527 GATAACATGG
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:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (20 bp):
TTTTATTAGAAAGAGATAAA
Found at i:109321090 original size:17 final size:16
Alignment explanation
Indices: 109321061--109321109 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
109321051 GAGTAAAAAT
109321061 ATAGTTTTATATTTTA
1 ATAGTTTTATATTTTA
*
109321077 ATAGTTTATATATTTTT
1 ATAGTTT-TATATTTTA
*
109321094 ATATTTTTATAATTTT
1 ATAGTTTTAT-ATTTT
109321110 TAAAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (16 bp):
ATAGTTTTATATTTTA
Found at i:109321096 original size:8 final size:8
Alignment explanation
Indices: 109321060--109321111 Score: 59
Period size: 8 Copynumber: 6.2 Consensus size: 8
109321050 AGAGTAAAAA
*
109321060 TATAGTTT
1 TATATTTT
109321068 TATATTTT
1 TATATTTT
* *
109321076 AATAGTTTA
1 TATA-TTTT
109321085 TATATTTT
1 TATATTTT
109321093 TATATTTT
1 TATATTTT
109321101 TATAATTTT
1 TAT-ATTTT
109321110 TA
1 TA
109321112 AAAAATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
8 24 0.65
9 13 0.35
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (8 bp):
TATATTTT
Found at i:109321132 original size:30 final size:31
Alignment explanation
Indices: 109321096--109321161 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
109321086 ATATTTTTAT
109321096 ATTTTTAT-AATTTTTAAAAAATTAAAT-TAA
1 ATTTTTATCAATTTTTAAAAAATTAAATAT-A
*
109321126 ATTTTTATCATTTTTTAAAAAATTAAATATA
1 ATTTTTATCAATTTTTAAAAAATTAAATATA
109321157 ATTTT
1 ATTTT
109321162 ATTATTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 8 0.24
31 24 0.73
32 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (31 bp):
ATTTTTATCAATTTTTAAAAAATTAAATATA
Found at i:109328717 original size:13 final size:13
Alignment explanation
Indices: 109328695--109328736 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
109328685 TATTATTGAA
109328695 TTTTTATTTTG-T
1 TTTTTATTTTGCT
*
109328707 TATTTTGTTTTGCT
1 T-TTTTATTTTGCT
*
109328721 TTTTTATTTTGGT
1 TTTTTATTTTGCT
109328734 TTT
1 TTT
109328737 GGTATGGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.07, C:0.02, G:0.12, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTGCT
Found at i:109328727 original size:18 final size:20
Alignment explanation
Indices: 109328701--109328737 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
109328691 TGAATTTTTA
109328701 TTTTGTTATTTT-GTTTTGC
1 TTTTGTTATTTTGGTTTTGC
109328720 TTTT-TTATTTTGGTTTTG
1 TTTTGTTATTTTGGTTTTG
109328738 GTATGGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.05, C:0.03, G:0.16, T:0.76
Consensus pattern (20 bp):
TTTTGTTATTTTGGTTTTGC
Found at i:109344218 original size:43 final size:43
Alignment explanation
Indices: 109344159--109344263 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
109344149 TCCCTCACAG
** * ** *
109344159 GGTCTTACACAAAATCATAATATGATGTCAATGTCCCAAACAT
1 GGTCTTACACGTAATCACAATACAATGCCAATGTCCCAAACAT
* *
109344202 GGTCTTACACGTAATCACAATACAATGCCAATGTCCTAGACAT
1 GGTCTTACACGTAATCACAATACAATGCCAATGTCCCAAACAT
*
109344245 GGTCTTACATGTAATCACA
1 GGTCTTACACGTAATCACA
109344264 TTTCGATAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATCACAATACAATGCCAATGTCCCAAACAT
Found at i:109348689 original size:26 final size:26
Alignment explanation
Indices: 109348653--109348705 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
109348643 GAATTTCACA
*
109348653 TAGTTTAAGTTAATTACACCAGGCAT
1 TAGTTTAAGTTAATAACACCAGGCAT
*
109348679 TAGTTTGAGTTAATAACACCAGGCAT
1 TAGTTTAAGTTAATAACACCAGGCAT
109348705 T
1 T
109348706 CCTAAACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (26 bp):
TAGTTTAAGTTAATAACACCAGGCAT
Found at i:109349048 original size:30 final size:30
Alignment explanation
Indices: 109348993--109349072 Score: 124
Period size: 30 Copynumber: 2.6 Consensus size: 30
109348983 ATTTTTAGTT
*
109348993 TTTACTTTTAAAAGTTATGTGACAATGTTTTAC
1 TTTA-TTTTAAAA-TT-TTTGACAATGTTTTAC
109349026 TTTATTTTAAAATTTTTGACAATGTTTTAC
1 TTTATTTTAAAATTTTTGACAATGTTTTAC
109349056 TTTATTTTAAAATTTTT
1 TTTATTTTAAAATTTTT
109349073 ATCTTAAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 32 0.70
31 2 0.04
32 8 0.17
33 4 0.09
ACGTcount: A:0.30, C:0.06, G:0.07, T:0.56
Consensus pattern (30 bp):
TTTATTTTAAAATTTTTGACAATGTTTTAC
Found at i:109349500 original size:15 final size:16
Alignment explanation
Indices: 109349469--109349504 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
109349459 TTAAATTATA
109349469 TATTAAATAATTATTT
1 TATTAAATAATTATTT
*
109349485 TATTAAATGATT-TTT
1 TATTAAATAATTATTT
109349500 TATTA
1 TATTA
109349505 TTCATGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TATTAAATAATTATTT
Found at i:109353367 original size:16 final size:16
Alignment explanation
Indices: 109353318--109353378 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 16
109353308 TATAACCTTT
109353318 TTTTATAATATATAAA
1 TTTTATAATATATAAA
*
109353334 TTAGGTTAGAAATAATATAAA
1 TT---TTA-TAAT-ATATAAA
* *
109353355 TTTTATAATATATTAC
1 TTTTATAATATATAAA
109353371 TTTTATAA
1 TTTTATAA
109353379 AGGGTACAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
16 15 0.42
17 3 0.08
18 3 0.08
19 3 0.08
20 3 0.08
21 9 0.25
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (16 bp):
TTTTATAATATATAAA
Found at i:109353806 original size:32 final size:30
Alignment explanation
Indices: 109353749--109353807 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
109353739 TGTTTATAAT
*
109353749 ATAATTTTTATAACTTAAACTTGTATAAAA
1 ATAATTTTTATAACTTAAACATGTATAAAA
* *
109353779 ATAATTTTTTTAAAGTTAAATCATGTATA
1 ATAATTTTTAT-AACTTAAA-CATGTATA
109353808 TGTGTTTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.42
31 7 0.29
32 7 0.29
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (30 bp):
ATAATTTTTATAACTTAAACATGTATAAAA
Found at i:109355776 original size:24 final size:24
Alignment explanation
Indices: 109355732--109355777 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
109355722 TTCAATTGCT
* *
109355732 TTTAGTTTAACTAATTTATTTTAA
1 TTTAATTTAACTAATTGATTTTAA
109355756 TTTAATTTAACATAA-TGATTTT
1 TTTAATTTAAC-TAATTGATTTT
109355778 TCCGGAGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTAATTTAACTAATTGATTTTAA
Found at i:109356459 original size:21 final size:23
Alignment explanation
Indices: 109356434--109356482 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
109356424 ATATTGAATA
*
109356434 ATTATTTTAT-TAATATTT-TTT
1 ATTATTTCATGTAATATTTATTT
109356455 ATTA-TTCATGTAATATTTATTT
1 ATTATTTCATGTAATATTTATTT
*
109356477 TTTATT
1 ATTATT
109356483 ATTTATACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.17
21 12 0.52
22 6 0.26
23 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTATTTCATGTAATATTTATTT
Found at i:109359439 original size:18 final size:18
Alignment explanation
Indices: 109359416--109359469 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
109359406 CCACCATCAA
109359416 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
109359434 CT-C-C-A-CCAC-C-TA
1 CTCCACTAGCCACACTTG
109359446 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
109359464 CTCCAC
1 CTCCAC
109359470 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 2 0.07
14 5 0.18
15 2 0.07
16 5 0.18
17 2 0.07
18 9 0.32
ACGTcount: A:0.22, C:0.50, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:109359441 original size:30 final size:30
Alignment explanation
Indices: 109359406--109359474 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
109359396 CTAGCCTTTG
*
109359406 CCACCATCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
109359436 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
109359466 CCACCACCA
1 CCACCACCA
109359475 CTTGTACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:109360047 original size:25 final size:26
Alignment explanation
Indices: 109359956--109360078 Score: 84
Period size: 25 Copynumber: 5.1 Consensus size: 26
109359946 ATTATATTTC
* *
109359956 TTAATATTATATTATGTATATAT-TC
1 TTAATACTATATTATGTATATATATA
* * * *
109359981 TT-TTAATATATTAGGTATAT-TCTA
1 TTAATACTATATTATGTATATATATA
* *
109360005 --AATTCTATATTACG--TATATATA
1 TTAATACTATATTATGTATATATATA
* *
109360027 TT-ATACTATTTTATGTATATATCT-
1 TTAATACTATATTATGTATATATATA
*
109360051 TTAATACTATATTATTTATATATATA
1 TTAATACTATATTATGTATATATATA
109360077 TT
1 TT
109360079 TTCTACATGT
Statistics
Matches: 73, Mismatches: 16, Indels: 17
0.69 0.15 0.16
Matches are distributed among these distances:
21 3 0.04
22 3 0.04
23 20 0.27
24 18 0.25
25 27 0.37
26 2 0.03
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (26 bp):
TTAATACTATATTATGTATATATATA
Found at i:109360069 original size:29 final size:28
Alignment explanation
Indices: 109360036--109360144 Score: 104
Period size: 27 Copynumber: 4.0 Consensus size: 28
109360026 ATTATACTAT
109360036 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* * *
109360065 TTTATATATATATTTT-CTAC-ATGTTA
1 TTTATGTATATATTTTAATACTATATTA
109360091 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* * *
109360118 TGTATGTAT-T-TTTTTACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
109360144 T
1 T
109360145 GTACATATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
24 5 0.08
25 1 0.02
26 21 0.32
27 23 0.35
28 4 0.06
29 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:109360118 original size:27 final size:26
Alignment explanation
Indices: 109360026--109360144 Score: 89
Period size: 26 Copynumber: 4.4 Consensus size: 26
109360016 ACGTATATAT
*
109360026 ATTATACTATTTTATGTATATATCTTTA
1 ATTATATTA-TTTATGTATATAT-TTTA
*
109360054 ATACTATATTATTTATATATATATTTT-
1 AT--TATATTATTTATGTATATATTTTA
* * *
109360081 CTACATGTTATCTTATGTATATATTTTA
1 AT-TATATTAT-TTATGTATATATTTTA
* *
109360109 ATTATATTATGTATGTAT-TTTTTTA
1 ATTATATTATTTATGTATATATTTTA
*
109360134 CACTATATTAT
1 -ATTATATTAT
109360145 GTACATATTT
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
25 6 0.08
26 22 0.30
27 21 0.29
28 6 0.08
29 12 0.16
30 6 0.08
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (26 bp):
ATTATATTATTTATGTATATATTTTA
Found at i:109360162 original size:22 final size:22
Alignment explanation
Indices: 109360088--109360163 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
109360078 TTTCTACATG
* **
109360088 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTTT
*
109360110 TTATATTATGTATGTATTTTTT
1 TTATATTATGTATATATTTTTT
*
109360132 TACACTATATTATGTACATATTTTTT
1 T----TATATTATGTATATATTTTTT
109360158 TTATAT
1 TTATAT
109360164 CTATTTTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
22 24 0.55
26 20 0.45
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (22 bp):
TTATATTATGTATATATTTTTT
Found at i:109361212 original size:20 final size:21
Alignment explanation
Indices: 109361180--109361224 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
109361170 ATTTTAATTT
*
109361180 AATTTTTTATAAT-AT-ATAA
1 AATTTTTAATAATAATGATAA
109361199 AATTTTTAATTAATAATGATAA
1 AATTTTTAA-TAATAATGATAA
109361221 AATT
1 AATT
109361225 ATATTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 2 0.09
22 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTTTTAATAATAATGATAA
Found at i:109363465 original size:16 final size:17
Alignment explanation
Indices: 109363436--109363469 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
109363426 ATCACAATAA
109363436 AATAAAATTCTAATATT
1 AATAAAATTCTAATATT
*
109363453 AATAAACTT-TAATATT
1 AATAAAATTCTAATATT
109363469 A
1 A
109363470 CGATATTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAAAATTCTAATATT
Found at i:109364894 original size:24 final size:27
Alignment explanation
Indices: 109364863--109364921 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
109364853 TAAAGTAAAG
109364863 TAAAT-AAATA-AAATAATAA-TATTT
1 TAAATAAAATATAAATAATAAGTATTT
109364887 TAAATAAAATATTAAATAATAAGTA-TT
1 TAAATAAAATA-TAAATAATAAGTATTT
109364914 T-AATAAAA
1 TAAATAAAA
109364922 ATATTGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.16
25 5 0.16
26 7 0.23
27 12 0.39
28 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
TAAATAAAATATAAATAATAAGTATTT
Found at i:109364913 original size:14 final size:13
Alignment explanation
Indices: 109364873--109364926 Score: 56
Period size: 14 Copynumber: 4.0 Consensus size: 13
109364863 TAAATAAATA
109364873 AAATAATAATATTTT
1 AAATAATAATA--TT
109364888 AAATAA-AATATT
1 AAATAATAATATT
109364900 AAATAATAAGTATT
1 AAATAATAA-TATT
* *
109364914 TAATAAAAATATT
1 AAATAATAATATT
109364927 GTTTAAAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 8 0.23
13 6 0.17
14 15 0.43
15 6 0.17
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
AAATAATAATATT
Found at i:109364915 original size:27 final size:27
Alignment explanation
Indices: 109364873--109364926 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
109364863 TAAATAAATA
109364873 AAATAATAATATTTTAA-ATAAAATATT
1 AAATAATAATATTTTAATA-AAAATATT
109364900 AAATAATAAGTA-TTTAATAAAAATATT
1 AAATAATAA-TATTTTAATAAAAATATT
109364927 GTTTAAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
AAATAATAATATTTTAATAAAAATATT
Found at i:109367849 original size:42 final size:42
Alignment explanation
Indices: 109367790--109367873 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
109367780 TTCTTGCCTT
109367790 TTTTTTTATAGCTTCTTTAGTTACATGCAAAAAATAAAGCCA
1 TTTTTTTATAGCTTCTTTAGTTACATGCAAAAAATAAAGCCA
109367832 TTTTTTTATAGCTTCTTTAGTTACATGCAAAAAATAAAGCCA
1 TTTTTTTATAGCTTCTTTAGTTACATGCAAAAAATAAAGCCA
109367874 AAACTTTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (42 bp):
TTTTTTTATAGCTTCTTTAGTTACATGCAAAAAATAAAGCCA
Found at i:109378020 original size:20 final size:20
Alignment explanation
Indices: 109377997--109378039 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
109377987 AACTATTTAA
** *
109377997 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
109378017 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
109378037 ATA
1 ATA
109378040 TGTTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:109381237 original size:19 final size:20
Alignment explanation
Indices: 109381196--109381237 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
109381186 AAATTTTTTA
* *
109381196 ATATTAGAATTGATATGTGC
1 ATATTAGAATTGAAATGTAC
*
109381216 ATATTAGTA-TGAAATGTAC
1 ATATTAGAATTGAAATGTAC
109381235 ATA
1 ATA
109381238 GATTGCCGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (20 bp):
ATATTAGAATTGAAATGTAC
Found at i:109390113 original size:28 final size:29
Alignment explanation
Indices: 109390073--109390142 Score: 140
Period size: 29 Copynumber: 2.4 Consensus size: 29
109390063 TAAAAAAAAT
109390073 TAATTACAAAAAAGGTATAGAAAATAGAA
1 TAATTACAAAAAAGGTATAGAAAATAGAA
109390102 TAATTACAAAAAAGGTATAGAAAATAGAA
1 TAATTACAAAAAAGGTATAGAAAATAGAA
109390131 TAATTACAAAAA
1 TAATTACAAAAA
109390143 GAGGCATTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.63, C:0.04, G:0.11, T:0.21
Consensus pattern (29 bp):
TAATTACAAAAAAGGTATAGAAAATAGAA
Found at i:109396604 original size:23 final size:23
Alignment explanation
Indices: 109396554--109396604 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
109396544 TATTTATATT
* * *
109396554 ATTTTGTCTGTCTATTGACACGG
1 ATTTTGTCTGCCCATTGACACAG
* *
109396577 GTTTTGTCTGCCCATTGATACAG
1 ATTTTGTCTGCCCATTGACACAG
109396600 ATTTT
1 ATTTT
109396605 TCCTTTTCTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (23 bp):
ATTTTGTCTGCCCATTGACACAG
Found at i:109399716 original size:43 final size:43
Alignment explanation
Indices: 109399668--109399755 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
109399658 TGTAAAAAAC
* *
109399668 ATATGAAACAATATACTCAAAATACAAATAACCTTGTTTAGCA
1 ATATGAAACAATATACTCAAAATACAAATAACCTTATTTAACA
109399711 ATATGAAACAATATACTCAAAATACAAATAACCTTATTTAACA
1 ATATGAAACAATATACTCAAAATACAAATAACCTTATTTAACA
109399754 AT
1 AT
109399756 CATTGTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (43 bp):
ATATGAAACAATATACTCAAAATACAAATAACCTTATTTAACA
Found at i:109401870 original size:10 final size:9
Alignment explanation
Indices: 109401869--109401908 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
109401859 TTTTGGTTTA
*
109401869 TTTTTTTGT
1 TTTTTTTGG
**
109401878 TTTTTTTTA
1 TTTTTTTGG
109401887 TTTTTTTGG
1 TTTTTTTGG
109401896 TTTTTTTGG
1 TTTTTTTGG
109401905 TTTT
1 TTTT
109401909 CTAACATGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (9 bp):
TTTTTTTGG
Found at i:109401880 original size:18 final size:18
Alignment explanation
Indices: 109401846--109401899 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
109401836 CTAATGGACT
*
109401846 TTTATTGTTTTTATTTTGG
1 TTTATT-TTTTTGTTTTGG
**
109401865 TTTATTTTTTTGTTTTTT
1 TTTATTTTTTTGTTTTGG
109401883 TTTATTTTTTTGGTTTT
1 TTTATTTTTTT-GTTTT
109401900 TTTGGTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 20 0.65
19 11 0.35
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.81
Consensus pattern (18 bp):
TTTATTTTTTTGTTTTGG
Found at i:109401900 original size:18 final size:18
Alignment explanation
Indices: 109401865--109401902 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
109401855 TTTATTTTGG
*
109401865 TTTATTTTTTTGTTTTTT
1 TTTATTTTTTTGGTTTTT
109401883 TTTATTTTTTTGGTTTTT
1 TTTATTTTTTTGGTTTTT
109401901 TT
1 TT
109401903 GGTTTTCTAA
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:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (18 bp):
TTTATTTTTTTGGTTTTT
Found at i:109404045 original size:35 final size:35
Alignment explanation
Indices: 109404006--109404136 Score: 118
Period size: 35 Copynumber: 3.6 Consensus size: 35
109403996 CATGGCAAAG
*
109404006 TGTGAAATGTAGGTATCGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
109404041 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * *** *
109404081 TAAGAAATGTAGGTATGGCATTGCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
109404116 TGTAAAATGTAGGTATAGTAT
1 TGTGAAATGTAGGTATGGTAT
109404137 TTCAATGAGG
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
35 42 0.55
37 2 0.03
38 4 0.05
40 28 0.37
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:109405753 original size:40 final size:40
Alignment explanation
Indices: 109405692--109405788 Score: 142
Period size: 40 Copynumber: 2.4 Consensus size: 40
109405682 TTTCTCAACC
109405692 TCGCACACTAAGTGCCATATATAGCCGAAGCTAT-TCCAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCCAA
** *
109405731 TTCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGAA
1 -TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCCAA
*
109405772 ACGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
109405789 AACATAGTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCCAA
Found at i:109406259 original size:29 final size:29
Alignment explanation
Indices: 109406195--109406260 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
109406185 CTTTGATTTA
* *
109406195 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
109406224 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
109406252 TTTACTCAA
1 TTT-CTCAA
109406261 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:109416508 original size:42 final size:42
Alignment explanation
Indices: 109416459--109416573 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
109416449 CTTCATTTTC
** * *
109416459 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTTACATA-A
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAT-ATT-CATATA
* *
109416502 T-GATGCCATAGCCCGGCTATGGTCTTCCACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
109416543 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
109416574 GAATCACATA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
40 4 0.06
41 4 0.06
42 53 0.85
43 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
Found at i:109416680 original size:31 final size:31
Alignment explanation
Indices: 109416653--109416793 Score: 219
Period size: 31 Copynumber: 4.5 Consensus size: 31
109416643 TTGTAGCCAA
*
109416653 AGCTACCACTATTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
*
109416684 AGCTACCATTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* * *
109416715 AGCTACCATTTTTCACTGATTAGGTAGCAGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* *
109416746 AGCTACCACTTTTCACTGATCAGGTAGCTGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
109416777 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
109416794 TGTCATTTGT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 102 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCCGG
Found at i:109416875 original size:50 final size:51
Alignment explanation
Indices: 109416769--109416897 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
109416759 CACTGATCAG
* * *
109416769 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
109416820 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
109416870 GTAGCCTAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
109416898 TGTCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:109425406 original size:54 final size:54
Alignment explanation
Indices: 109425322--109425431 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
109425312 AAAAAAAGTC
109425322 AAAGTCAACAGAAAAATGGAAGAAAACTATGTTTCCTTATGCGAGAAAGATTTT
1 AAAGTCAACAGAAAAATGGAAGAAAACTATGTTTCCTTATGCGAGAAAGATTTT
*
109425376 AAAGTCAACAGAAAAATGGAAGAAAGCTATGTTTCCTTATGCGAGAAAGATTTT
1 AAAGTCAACAGAAAAATGGAAGAAAACTATGTTTCCTTATGCGAGAAAGATTTT
109425430 AA
1 AA
109425432 CTGCTGCAAC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (54 bp):
AAAGTCAACAGAAAAATGGAAGAAAACTATGTTTCCTTATGCGAGAAAGATTTT
Found at i:109428887 original size:21 final size:21
Alignment explanation
Indices: 109428862--109428906 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
109428852 AAAATCCTTC
109428862 TAATCATAATGAAACTTTTCT
1 TAATCATAATGAAACTTTTCT
109428883 TAATCATAATGAAACTTTTCT
1 TAATCATAATGAAACTTTTCT
109428904 TAA
1 TAA
109428907 CTCTATGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (21 bp):
TAATCATAATGAAACTTTTCT
Found at i:109429269 original size:15 final size:15
Alignment explanation
Indices: 109429249--109429277 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
109429239 TGATCCTCAT
109429249 GGACCATATTCAAAA
1 GGACCATATTCAAAA
109429264 GGACCATATTCAAA
1 GGACCATATTCAAA
109429278 TACTCTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (15 bp):
GGACCATATTCAAAA
Found at i:109431547 original size:25 final size:25
Alignment explanation
Indices: 109431525--109431581 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
109431515 TCCAATGTGC
*
109431525 AAGCTGCAAGCTTAGTAAAATGTCA
1 AAGCTGCAAGCTTAGCAAAATGTCA
*
109431550 AAGCTGCAAGCTTAGCAAAATATCA
1 AAGCTGCAAGCTTAGCAAAATGTCA
109431575 AAGCTGC
1 AAGCTGC
109431582 GAGCCTGTTG
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:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (25 bp):
AAGCTGCAAGCTTAGCAAAATGTCA
Found at i:109431855 original size:31 final size:31
Alignment explanation
Indices: 109431817--109431878 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
109431807 GTCCACTTTT
*
109431817 ATACTCCTCTGTCTACAAAGGGAAGAAAACC
1 ATACTCCTCTGTCTACAAAGGGAAAAAAACC
* *
109431848 ATACTCCTTTGTCTACAAGGGGAAAAAAACC
1 ATACTCCTCTGTCTACAAAGGGAAAAAAACC
109431879 TGGAAAGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (31 bp):
ATACTCCTCTGTCTACAAAGGGAAAAAAACC
Found at i:109432689 original size:26 final size:26
Alignment explanation
Indices: 109432660--109432737 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
109432650 TGAGCTTTCC
109432660 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGTGCAAGCTGCAAGCTCAGCAAA
* *
109432686 AATGTGCAAGCTGCAAGCTTAG-TAA
1 AATGTGCAAGCTGCAAGCTCAGCAAA
*
109432711 AATGT-CAAAGCTGCAAGCTGAGCAAA
1 AATGTGC-AAGCTGCAAGCTCAGCAAA
109432737 A
1 A
109432738 TATCGAAGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 1 0.02
25 21 0.46
26 24 0.52
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (26 bp):
AATGTGCAAGCTGCAAGCTCAGCAAA
Found at i:109432721 original size:25 final size:24
Alignment explanation
Indices: 109432660--109432749 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 24
109432650 TGAGCTTTCC
109432660 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGT-CAAGCTGCAAGCTCAG-AAA
* *
109432686 AATGTGCAAGCTGCAAGCTTAGTAA
1 AATGT-CAAGCTGCAAGCTCAGAAA
* *
109432711 AATGTCAAAGCTGCAAGCTGAGCAA
1 AATGTC-AAGCTGCAAGCTCAGAAA
*
109432736 AATATCGAAGCTGC
1 AATGTC-AAGCTGC
109432750 GAGCCTGTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.02
25 35 0.61
26 21 0.37
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (24 bp):
AATGTCAAGCTGCAAGCTCAGAAA
Found at i:109432771 original size:13 final size:13
Alignment explanation
Indices: 109432753--109432778 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
109432743 AAGCTGCGAG
109432753 CCTGTTGAAGACA
1 CCTGTTGAAGACA
109432766 CCTGTTGAAGACA
1 CCTGTTGAAGACA
109432779 GTATGCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (13 bp):
CCTGTTGAAGACA
Found at i:109433027 original size:31 final size:31
Alignment explanation
Indices: 109432985--109433044 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
109432975 GTCCACTTTT
109432985 ATACTCATCTGTCTACAAGGAGAAAAAAACC
1 ATACTCATCTGTCTACAAGGAGAAAAAAACC
* *
109433016 ATACTCCTCTGTCTACAAGGGGAAAAAAA
1 ATACTCATCTGTCTACAAGGAGAAAAAAA
109433045 ACCTGGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (31 bp):
ATACTCATCTGTCTACAAGGAGAAAAAAACC
Found at i:109433859 original size:26 final size:26
Alignment explanation
Indices: 109433830--109433907 Score: 115
Period size: 26 Copynumber: 3.0 Consensus size: 26
109433820 TGAGCTTTCC
*
109433830 AATGTGCAAGCTGCAAGCTCAGCAAA
1 AATGTGCAAGCTGCAAGCTTAGCAAA
*
109433856 AATGTGCAAGCTGCAAGCTTAG-TAA
1 AATGTGCAAGCTGCAAGCTTAGCAAA
109433881 AATGT-CAAAGCTGCAAGCTTAGCAAA
1 AATGTGC-AAGCTGCAAGCTTAGCAAA
109433907 A
1 A
109433908 TATCAAAGCT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
24 1 0.02
25 22 0.47
26 24 0.51
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (26 bp):
AATGTGCAAGCTGCAAGCTTAGCAAA
Found at i:109433891 original size:25 final size:25
Alignment explanation
Indices: 109433837--109433919 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
109433827 TCCAATGTGC
*
109433837 AAGCTGCAAGCTCAGCAAAAATGTGC-
1 AAGCTGCAAGCTTAG-AAAAATGT-CA
*
109433863 AAGCTGCAAGCTTAGTAAAATGTCA
1 AAGCTGCAAGCTTAGAAAAATGTCA
* *
109433888 AAGCTGCAAGCTTAGCAAAATATCA
1 AAGCTGCAAGCTTAGAAAAATGTCA
109433913 AAGCTGC
1 AAGCTGC
109433920 GAGCCTGTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
24 1 0.02
25 37 0.71
26 14 0.27
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.19
Consensus pattern (25 bp):
AAGCTGCAAGCTTAGAAAAATGTCA
Found at i:109434193 original size:31 final size:31
Alignment explanation
Indices: 109434155--109434216 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
109434145 GTCCACTTTT
*
109434155 ATACTCCTCTGTCTACAAGGAGAAAAAAACC
1 ATACTCCTCTATCTACAAGGAGAAAAAAACC
*
109434186 ATACTCCTCTATCTACAAGGGGAAAAAAACC
1 ATACTCCTCTATCTACAAGGAGAAAAAAACC
109434217 TGGAAAGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.19
Consensus pattern (31 bp):
ATACTCCTCTATCTACAAGGAGAAAAAAACC
Found at i:109437546 original size:90 final size:89
Alignment explanation
Indices: 109437376--109437555 Score: 229
Period size: 89 Copynumber: 2.0 Consensus size: 89
109437366 CTCTTTGTTT
* * * **
109437376 TTTTTTTTGCACTCAATTAAGCACTTGAACTTTTAAAATGCATAAAAAAGGCCCTCAAACTTTTT
1 TTTTTTTTCCACTCAATTAAGCACTTGAACATTCAAAATGCATAAAAAAAACCCTCAAACTTTTT
*
109437441 CACAAAAAGCAATTAAGCCCCTAC
66 CACAAAAAACAATTAAGCCCCTAC
** * *
109437465 TTTTTTTTCCACTCAATTGGGTACTTGAACATTCAAAATTCATAAAAAAAAACCCTCAAAAAC-T
1 TTTTTTTTCCACTCAATTAAGCACTTGAACATTCAAAATGCAT-AAAAAAAACCCTC--AAACTT
109437529 TTTCA-AAAAAACAATTAAGCCCCTAC
63 TTTCACAAAAAACAATTAAGCCCCTAC
109437555 T
1 T
109437556 CTTATTAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
89 36 0.46
90 32 0.41
91 6 0.08
92 4 0.05
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.31
Consensus pattern (89 bp):
TTTTTTTTCCACTCAATTAAGCACTTGAACATTCAAAATGCATAAAAAAAACCCTCAAACTTTTT
CACAAAAAACAATTAAGCCCCTAC
Found at i:109437638 original size:10 final size:10
Alignment explanation
Indices: 109437557--109437643 Score: 50
Period size: 10 Copynumber: 8.3 Consensus size: 10
109437547 GCCCCTACTC
109437557 TTATTAAAAA
1 TTATTAAAAA
**
109437567 TTAGAAAAAA
1 TTATTAAAAA
109437577 TTATATAAATAA
1 TTAT-TAAA-AA
* * *
109437589 TAAATAATAAG
1 TTATTAA-AAA
109437600 TT-TTAGAAAA
1 TTATTA-AAAA
**
109437610 TTTATTAAATT
1 -TTATTAAAAA
*
109437621 TTAATAAAAA
1 TTATTAAAAA
109437631 TTATTAAAAA
1 TTATTAAAAA
109437641 TTA
1 TTA
109437644 GATTGTCTCG
Statistics
Matches: 55, Mismatches: 16, Indels: 12
0.66 0.19 0.14
Matches are distributed among these distances:
10 34 0.62
11 13 0.24
12 8 0.15
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:109437778 original size:17 final size:18
Alignment explanation
Indices: 109437756--109437804 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
109437746 TTTAAAACTT
*
109437756 AAATTTTGA-AAACTTAA
1 AAATTTGGAGAAACTTAA
*
109437773 AAATTTGGAGACACTTAA
1 AAATTTGGAGAAACTTAA
109437791 AAATTTGGAGAAAC
1 AAATTTGGAGAAAC
109437805 GAGTTTTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (18 bp):
AAATTTGGAGAAACTTAA
Found at i:109437981 original size:24 final size:21
Alignment explanation
Indices: 109437924--109437970 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
109437914 ATCCCTTACA
109437924 TCATTACATAA-TTGAAACTT
1 TCATTACATAATTTGAAACTT
109437944 TCATTACATAATTTGAAACTT
1 TCATTACATAATTTGAAACTT
109437965 TCATTA
1 TCATTA
109437971 TTATCAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (21 bp):
TCATTACATAATTTGAAACTT
Found at i:109438030 original size:9 final size:9
Alignment explanation
Indices: 109438016--109438071 Score: 58
Period size: 9 Copynumber: 5.9 Consensus size: 9
109438006 TAATTTTTAT
109438016 ATAAAAATC
1 ATAAAAATC
**
109438025 ATAAAAAAA
1 ATAAAAATC
109438034 ATAAAAAATC
1 AT-AAAAATC
*
109438044 ATAAAAATTTT
1 ATAAAAA--TC
109438055 ATAAAAATC
1 ATAAAAATC
109438064 ATAAAAAT
1 ATAAAAAT
109438072 TAATTACCCG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 23 0.61
10 7 0.18
11 8 0.21
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (9 bp):
ATAAAAATC
Found at i:109438060 original size:20 final size:20
Alignment explanation
Indices: 109438012--109438073 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
109438002 TTTTTAATTT
109438012 TTATATAAAAATCATAAAAA
1 TTATATAAAAATCATAAAAA
**
109438032 AAATA-AAAAATCATAAAAA
1 TTATATAAAAATCATAAAAA
*
109438051 TTTTATAAAAATCATAAAAA
1 TTATATAAAAATCATAAAAA
109438071 TTA
1 TTA
109438074 ATTACCCGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.46
20 19 0.54
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
TTATATAAAAATCATAAAAA
Found at i:109438307 original size:57 final size:57
Alignment explanation
Indices: 109438245--109438368 Score: 139
Period size: 57 Copynumber: 2.2 Consensus size: 57
109438235 TCTTTACATG
* *
109438245 TATAATTTTCTTACGA-CTTTAT-AAAATTTTATAATTTTTT-TGTATTTTTAT-ATATTT
1 TATAATTTT-TTACAATCTTTATAAAAATTTTA-AATTTTTTATAT-TTTTTATGAT-TTT
* *
109438302 TATAATTTTTTACAATTTTTATAAAAATTTTACATTTTTTATATTTTTTATGATTTT
1 TATAATTTTTTACAATCTTTATAAAAATTTTAAATTTTTTATATTTTTTATGATTTT
*
109438359 TATGATTTTT
1 TATAATTTTT
109438369 ATTTTTTCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
56 5 0.09
57 40 0.69
58 13 0.22
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (57 bp):
TATAATTTTTTACAATCTTTATAAAAATTTTAAATTTTTTATATTTTTTATGATTTT
Done.