Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 56 of 167
Found at i:17469912 original size:354 final size:353
Alignment explanation
Indices: 17469201--17469917 Score: 1256
Period size: 354 Copynumber: 2.0 Consensus size: 353
17469191 TAAAATAAAA
* *
17469201 TAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATTTGAAAATAAAATAAAAGTAGACA
1 TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
*
17469266 AAATATTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTA
66 AAAGATTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTA
*
17469331 ATTTAAAAATAAAATAAAAGTAGACAAGGTTTTTTCGTGATTAAAATAAAATAAAATAAAACTTT
131 ATTTAAAAATAAAATAAAAGTAGACAAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTTT
*
17469396 AAATACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGTTTTTTCGTG
196 AAATACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGCTTTTTCGTG
17469461 ATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTCAGGTAATTTAAAAATAAAA
261 ATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTCAGGTAATTTAAAAATAAAA
*
17469526 TAAAAGTAGACAAAATATTTTCCCTAAT
326 TAAAAGTAGACAAAAGATTTTCCCTAAT
*
17469554 TAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
1 TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
* * * *
17469619 AAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTA
66 AAAGATTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTA
17469684 ATTTAAAAATAAAATAAAAGTAGACAAAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTT
131 ATTTAAAAATAAAATAAAAGTAGAC-AAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTT
17469749 TAAATACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGCTTTTTCGT
195 TAAATACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGCTTTTTCGT
*
17469814 GATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATT-AGGTAATTTAAAAATAA
260 GATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTT-ATTCAGGTAATTTAAAAATAA
* * * * *
17469878 AATAAAAGTAGACAAAGGCTTTTTCGTGAT
324 AATAAAAGTAGACAAAAGATTTTCCCTAAT
17469908 TAAAATAAAA
1 TAAAATAAAA
17469918 TAAAATAAAC
Statistics
Matches: 345, Mismatches: 17, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
353 147 0.43
354 195 0.57
355 3 0.01
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (353 bp):
TAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
AAAGATTTTTCCTAATTAAAATAAAATAAAATAAAACTTTAAATACAATTTACTTTAATTAGGTA
ATTTAAAAATAAAATAAAAGTAGACAAGGCTTTTTCGTGATTAAAATAAAATAAAATAAAACTTT
AAATACAATTTACTTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAGGCTTTTTCGTG
ATTAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTCAGGTAATTTAAAAATAAAA
TAAAAGTAGACAAAAGATTTTCCCTAAT
Found at i:17470741 original size:8 final size:8
Alignment explanation
Indices: 17470728--17470774 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
17470718 CAAAAAATTC
17470728 CACTATTA
1 CACTATTA
17470736 CACTATTA
1 CACTATTA
*
17470744 CACTA-TG
1 CACTATTA
* *
17470751 CGCAATTA
1 CACTATTA
*
17470759 CACTATTC
1 CACTATTA
17470767 CACTATTA
1 CACTATTA
17470775 TCATAATCAT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
7 4 0.13
8 26 0.87
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (8 bp):
CACTATTA
Found at i:17474141 original size:81 final size:78
Alignment explanation
Indices: 17474044--17474243 Score: 240
Period size: 81 Copynumber: 2.5 Consensus size: 78
17474034 ACGATTCTTA
* * *
17474044 ACACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGGCCCTTTGGA
1 ACACTGGCTCAAAAGCCCTTCGA-ACCAAGCTCGGATTA-G-CACTGGCTCAAAAGCCCTTCGGA
17474108 ACTAAGTCCGGTTATG
63 ACTAAGTCCGGTTATG
* * *
17474124 ACACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAGCCCTTCGTA
1 ACACTGGCTCAAAAGCCCTTCG-AACCAAGCTCGG--ATTAGCACTGGCTCAAAAGCCCTTCGGA
* * *
17474189 ATTAAGTTCGGTTATT
63 ACTAAGTCCGGTTATG
17474205 AGCACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATT
1 A-CACTGGCTCAAAAGCCCTTCGAA-CCAAGCTCGGATT
17474244 TACACCCCGA
Statistics
Matches: 103, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
80 13 0.13
81 55 0.53
82 31 0.30
83 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
ACACTGGCTCAAAAGCCCTTCGAACCAAGCTCGGATTAGCACTGGCTCAAAAGCCCTTCGGAACT
AAGTCCGGTTATG
Found at i:17474182 original size:41 final size:41
Alignment explanation
Indices: 17474045--17474229 Score: 225
Period size: 41 Copynumber: 4.6 Consensus size: 41
17474035 CGATTCTTAA
* * *
17474045 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * * *
17474084 CCACTGGCTCGAAGGCCCTTTGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
17474125 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* *
17474166 CACTGGCTCAAAAGCCCTTCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
17474207 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
17474230 CCCAAGCTCG
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 43 0.35
41 78 0.63
43 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:17476712 original size:158 final size:157
Alignment explanation
Indices: 17476495--17476829 Score: 410
Period size: 158 Copynumber: 2.1 Consensus size: 157
17476485 GATGTTTATT
* * *
17476495 TAAAAAACACCGCTAATC-CCTATATATTCAACTAAAACGATGACGTGTATAGTAAACTTTAATT
1 TAAAAAACGCCGCTAATCTCCTATATATTCAACTAAAACGACGACGTGTACAGTAAACTTTAATT
* * *
17476559 ATTTTGTGGTGTTTTT-AAAAGCGCCACTAATACCCTCAT-ATACTAAAACGGCGCCGTTTTCTT
66 ATGTTGCGGTGTTTTTCAAAA-CGCCACTAATACCCT-ATCA-ACTAAAACGACGCCGTTTTCTT
*
17476622 TAAACTAAACTGTCTTCTGTGGCGTTTTCTA
128 TAAACTAAACTATCTTCTGTGGCGTTTT-TA
* * * *
17476653 T-AAAAACGCTGCTAATCTCCTATATATTCAACTAAAACGACGACGCT-TCCAGTACACTTTACT
1 TAAAAAACGCCGCTAATCTCCTATATATTCAACTAAAACGACGACG-TGTACAGTAAACTTTAAT
* *
17476716 TCTGTTGCGGTGTTTTTCAAAACGCCACTAATACTCTATCCAACTAAAACGACGCCGTTTTCTTT
65 TATGTTGCGGTGTTTTTCAAAACGCCACTAATACCCTAT-CAACTAAAACGACGCCGTTTTCTTT
* * * * *
17476781 CAACTATACTATTTTTTGTGGCGTTTTTT
129 AAACTAAACTATCTTCTGTGGCGTTTTTA
*
17476810 TAAAAAACGCCACTAATCTC
1 TAAAAAACGCCGCTAATCTC
17476830 TTAATTTTTA
Statistics
Matches: 151, Mismatches: 20, Indels: 12
0.83 0.11 0.07
Matches are distributed among these distances:
157 18 0.12
158 127 0.84
159 6 0.04
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (157 bp):
TAAAAAACGCCGCTAATCTCCTATATATTCAACTAAAACGACGACGTGTACAGTAAACTTTAATT
ATGTTGCGGTGTTTTTCAAAACGCCACTAATACCCTATCAACTAAAACGACGCCGTTTTCTTTAA
ACTAAACTATCTTCTGTGGCGTTTTTA
Found at i:17477644 original size:15 final size:15
Alignment explanation
Indices: 17477615--17477657 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
17477605 ACATATCTAA
*
17477615 TTAAACTAT-AACCC
1 TTAAACCATAAACCC
17477629 TTAAACCATAAACCC
1 TTAAACCATAAACCC
*
17477644 TT-AACCCTAAACCC
1 TTAAACCATAAACCC
17477658 CTAACCCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 19 0.73
15 7 0.27
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (15 bp):
TTAAACCATAAACCC
Found at i:17477659 original size:15 final size:14
Alignment explanation
Indices: 17477624--17477664 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
17477614 ATTAAACTAT
*
17477624 AACCCTTAAACCATA
1 AACCCTT-AACCCTA
17477639 AACCCTTAACCCTA
1 AACCCTTAACCCTA
*
17477653 AACCCCTAACCC
1 AACCCTTAACCC
17477665 CTAATCCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (14 bp):
AACCCTTAACCCTA
Found at i:17477827 original size:14 final size:14
Alignment explanation
Indices: 17477783--17477821 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
17477773 TCCTACACCT
*
17477783 TAAACCCTGAATCA
1 TAAACCCTAAATCA
*
17477797 TATACCCTAAATCA
1 TAAACCCTAAATCA
17477811 TAAACCCTAAA
1 TAAACCCTAAA
17477822 CTATAATGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.28, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:17478335 original size:41 final size:40
Alignment explanation
Indices: 17478289--17478378 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 40
17478279 CTCCAAGGCA
* *
17478289 CCGCTAATGGTCAAGC-TATAGTGGCGTTTCTCATATAAGCG
1 CCGCTAATGCTCAA-CATATAGCGGCGTTTC-CATATAAGCG
* *
17478330 CCGCTAATTCTCAACATATAGCGGCGTTTCCTTATAAGCG
1 CCGCTAATGCTCAACATATAGCGGCGTTTCCATATAAGCG
17478370 CCGCTAATG
1 CCGCTAATG
17478379 TTAGTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 18 0.42
41 25 0.58
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (40 bp):
CCGCTAATGCTCAACATATAGCGGCGTTTCCATATAAGCG
Found at i:17478440 original size:40 final size:40
Alignment explanation
Indices: 17478365--17478456 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
17478355 GTTTCCTTAT
* * * *
17478365 AAGCGCCGCTAATGTTAGTTTTTTAGTGGCATTTTTGTGG
1 AAGCGCCACTAATGCTACTTTTTTAGTGGCATTTTTGTGA
* *
17478405 AAGCGCCACTAATGCT-CTTTTTTAGTGGCCTTTTTTGTTA
1 AAGCGCCACTAATGCTACTTTTTTAGTGG-CATTTTTGTGA
*
17478445 AAACGCCACTAA
1 AAGCGCCACTAA
17478457 AAGCGCCGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 11 0.25
40 33 0.75
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (40 bp):
AAGCGCCACTAATGCTACTTTTTTAGTGGCATTTTTGTGA
Found at i:17487073 original size:18 final size:18
Alignment explanation
Indices: 17487050--17487085 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
17487040 AATTAATTAA
17487050 AAATTAATTA-TTTTAATT
1 AAATT-ATTATTTTTAATT
17487068 AAATTATTATTTTTAATT
1 AAATTATTATTTTTAATT
17487086 CGATTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AAATTATTATTTTTAATT
Found at i:17491957 original size:20 final size:20
Alignment explanation
Indices: 17491934--17491980 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
17491924 AAACTTATTC
17491934 ACTTACTCGA-TTACTTAAAT
1 ACTTACT-GACTTACTTAAAT
*
17491954 ACTTACTTACTTACTTAAAT
1 ACTTACTGACTTACTTAAAT
17491974 ACTTACT
1 ACTTACT
17491981 TAATCAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.43
Consensus pattern (20 bp):
ACTTACTGACTTACTTAAAT
Found at i:17491959 original size:12 final size:12
Alignment explanation
Indices: 17491944--17491983 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
17491934 ACTTACTCGA
17491944 TTACTTAAATAC
1 TTACTTAAATAC
17491956 TTAC-T---TAC
1 TTACTTAAATAC
17491964 TTACTTAAATAC
1 TTACTTAAATAC
17491976 TTACTTAA
1 TTACTTAA
17491984 TCAAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
8 7 0.29
9 1 0.04
11 1 0.04
12 15 0.62
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (12 bp):
TTACTTAAATAC
Found at i:17492100 original size:23 final size:24
Alignment explanation
Indices: 17492062--17492106 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
17492052 TTTGCTCTTG
*
17492062 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
17492086 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
17492107 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:17492304 original size:53 final size:54
Alignment explanation
Indices: 17492191--17492429 Score: 278
Period size: 55 Copynumber: 4.5 Consensus size: 54
17492181 ATTTCTATGA
* * * *
17492191 CTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAACTTACCATTGCCATGT
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGC
*
17492240 CTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AACTCACCAATGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGC
* * * *
17492293 CTTGACATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGT
1 CTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAACTTACCAATGCCATGC
* *
17492348 CTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA-CTTACCAA-TGCCATGC
*
17492403 CTTGGCATGGTCTTACATGGTATCCTT
1 CTTGACATGGTCTTACATGGTATCCTT
17492430 AAACCCTAAT
Statistics
Matches: 161, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
49 23 0.14
50 1 0.01
52 2 0.01
53 50 0.31
54 10 0.06
55 73 0.45
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGC
Found at i:17493457 original size:16 final size:16
Alignment explanation
Indices: 17493436--17493467 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17493426 CTTAGTACCT
17493436 TTGTGAACTAGAACAC
1 TTGTGAACTAGAACAC
17493452 TTGTGAACTAGAACAC
1 TTGTGAACTAGAACAC
17493468 ACATTTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (16 bp):
TTGTGAACTAGAACAC
Found at i:17499615 original size:23 final size:24
Alignment explanation
Indices: 17499577--17499621 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
17499567 TTTGCTCTTG
*
17499577 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
17499601 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
17499622 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:17499885 original size:55 final size:53
Alignment explanation
Indices: 17499695--17499949 Score: 234
Period size: 55 Copynumber: 4.8 Consensus size: 53
17499685 ACACGGGTAC
* * * * * *
17499695 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TTGA-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAGAA
* * *
17499744 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAGAA
* * *
17499797 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTAAAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTT-AAG-AA
* ***
17499852 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTT-AGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAG-AA
* * * *
17499905 CCTTACCCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTA-CCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
17499950 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
49 40 0.23
52 4 0.02
53 46 0.27
54 6 0.04
55 73 0.43
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAAGAA
Found at i:17499886 original size:108 final size:110
Alignment explanation
Indices: 17499742--17499942 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
17499732 ATCCTTTTGA
* *
17499742 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCA-CCA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCCA
17499804 ATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTAAAGT
65 ATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTAAAGT
* * * *
17499850 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCCAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCCAA
17499915 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
17499943 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 3 0.04
110 31 0.37
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCCAA
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTAAAGT
Found at i:17509692 original size:23 final size:23
Alignment explanation
Indices: 17509666--17509719 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
17509656 AAAGCACACT
*
17509666 GGCGTGTGCATTGTCTCCACATG
1 GGCGTGTGCATTGTCTCCACAAG
17509689 GGCGTGTGCATTGTCTCCACAAG
1 GGCGTGTGCATTGTCTCCACAAG
*
17509712 GGTGTGTG
1 GGCGTGTG
17509720 AGTCTTAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.13, C:0.22, G:0.35, T:0.30
Consensus pattern (23 bp):
GGCGTGTGCATTGTCTCCACAAG
Found at i:17512151 original size:2 final size:2
Alignment explanation
Indices: 17512144--17512175 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
17512134 CACTAAGAGC
17512144 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
17512176 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:17512235 original size:40 final size:40
Alignment explanation
Indices: 17512186--17512261 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
17512176 TATATATATA
*
17512186 TAGCTGAAGCTATCACAAA-TCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCACAAACT-GCACACCAAGTGCCACATT
** *
17512226 TAGCCGAAGCTATTTCAAACTGCACACTAAGTGCCA
1 TAGCCGAAGCTATCACAAACTGCACACCAAGTGCCA
17512262 TTCTTAGCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.97
41 1 0.03
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (40 bp):
TAGCCGAAGCTATCACAAACTGCACACCAAGTGCCACATT
Found at i:17518952 original size:55 final size:53
Alignment explanation
Indices: 17518827--17519024 Score: 146
Period size: 55 Copynumber: 3.7 Consensus size: 53
17518817 TAGAGTTTAG
* * * * * * * * *
17518827 GGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTCTACAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTAC-ATAAGGCAA
* * * *
17518881 GAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGAT-AACTAC-ATAAGG-CAA
* * * * * * * *
17518937 -GATCCCATGTAAGACCATGCCGAGGCATGGCAATGGTGAGTTCATAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAA
* *
17518989 GGATACCACGTAAGACCATGTCAAGACATGACAATG
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATG
17519025 GTAAGTTTAA
Statistics
Matches: 112, Mismatches: 29, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
52 3 0.03
53 35 0.31
54 33 0.29
55 38 0.34
56 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (53 bp):
GGATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAA
Found at i:17519007 original size:53 final size:54
Alignment explanation
Indices: 17518827--17519031 Score: 198
Period size: 53 Copynumber: 3.8 Consensus size: 54
17518817 TAGAGTTTAG
* * * *
17518827 GGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTCTACAAGGCAA
1 GGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCTATAAGGCAA
* * * * * * * * *
17518881 GAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCCAA
1 GGATACCATGTAAGACCATGCCAAGACATGACAATGGT-AAGTTCTATAAGG-CAA
* * * * *
17518937 -GATCCCATGTAAGACCATGCCGAGGCATGGCAATGGTGAGTTC-ATAAGGCAA
1 GGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCTATAAGGCAA
* *
17518989 GGATACCACGTAAGACCATGTCAAGACATGACAATGGTAAGTT
1 GGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTT
17519032 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 30, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
52 3 0.03
53 41 0.35
54 33 0.28
55 38 0.32
56 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (54 bp):
GGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCTATAAGGCAA
Found at i:17519079 original size:49 final size:49
Alignment explanation
Indices: 17519021--17519124 Score: 201
Period size: 49 Copynumber: 2.1 Consensus size: 49
17519011 AAGACATGAC
17519021 AATGG-TAAGTTTAAAAAGGAAAGGTACTTGTGTATCCTTAGTATTCCA
1 AATGGTTAAGTTTAAAAAGGAAAGGTACTTGTGTATCCTTAGTATTCCA
17519069 AATGGTTAAGTTTAAAAAGGAAAGGTACTTGTGTATCCTTAGTATTCCA
1 AATGGTTAAGTTTAAAAAGGAAAGGTACTTGTGTATCCTTAGTATTCCA
17519118 AATGGTT
1 AATGGTT
17519125 CAACGGAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 5 0.09
49 50 0.91
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.35
Consensus pattern (49 bp):
AATGGTTAAGTTTAAAAAGGAAAGGTACTTGTGTATCCTTAGTATTCCA
Found at i:17527384 original size:28 final size:27
Alignment explanation
Indices: 17527326--17527385 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
17527316 ATTTTAATGT
* **
17527326 GTCTTAGTTCATACATGTTTTTAATTT
1 GTCTTAGTTCATACATGTTTTAAATAA
* *
17527353 GTCTTAGTTTATTGCATGTTTTAAATAA
1 GTCTTAGTTCA-TACATGTTTTAAATAA
17527381 GTCTT
1 GTCTT
17527386 TGAGTCAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.53
Consensus pattern (27 bp):
GTCTTAGTTCATACATGTTTTAAATAA
Found at i:17533199 original size:53 final size:55
Alignment explanation
Indices: 17533137--17533395 Score: 269
Period size: 55 Copynumber: 4.8 Consensus size: 55
17533127 TTAAACTTAC
* *
17533137 CATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-AACTCAT
1 CATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGTAACTCAT
* * * * ** *
17533190 CATTGCCATG-CGTTGGCATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTAT
1 CATTGCCATGTC-TTGACATGGTCTTACATGGTATCCTTGCCTTATCGTAACTCAT
* *
17533245 CAATGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-AACTCAT
1 CATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGTAACTCAT
* * * * ** *
17533298 CATTGCCATG-CGTTGGCATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTAT
1 CATTGCCATGTC-TTGACATGGTCTTACATGGTATCCTTGCCTTATCGTAACTCAT
* * *
17533353 CAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTT
1 CATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTT
17533396 GTAAAACTTA
Statistics
Matches: 164, Mismatches: 34, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
52 2 0.01
53 78 0.48
54 3 0.02
55 79 0.48
56 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (55 bp):
CATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGTAACTCAT
Found at i:17533265 original size:55 final size:53
Alignment explanation
Indices: 17533142--17533382 Score: 252
Period size: 53 Copynumber: 4.5 Consensus size: 53
17533132 CTTACCATTT
* * * *
17533142 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCATCATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCATTATGAACTCATCAATG
* * ** *
17533195 CCATG-CGTTGGCATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTATCAATG
1 CCATGTC-TTGACATGGTCTTACATGGGATCCTTGCATTAT-G-AACTCATCAATG
* * * *
17533250 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCATCATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCATTATGAACTCATCAATG
* * ** *
17533303 CCATG-CGTTGGCATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTATCAATG
1 CCATGTC-TTGACATGGTCTTACATGGGATCCTTGCATTAT-G-AACTCATCAATG
17533358 CCATGTCTTGACATGGTCTTACATG
1 CCATGTCTTGACATGGTCTTACATG
17533383 ATTTCCTTGC
Statistics
Matches: 152, Mismatches: 28, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
52 2 0.01
53 74 0.49
54 3 0.02
55 71 0.47
56 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCATTATGAACTCATCAATG
Found at i:17533267 original size:108 final size:108
Alignment explanation
Indices: 17533142--17533395 Score: 481
Period size: 108 Copynumber: 2.4 Consensus size: 108
17533132 CTTACCATTT
17533142 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCATCATTGCCATGCGTTGGC
1 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCATCATTGCCATGCGTTGGC
17533207 ATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTATCAATG
66 ATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTATCAATG
17533250 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCATCATTGCCATGCGTTGGC
1 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCATCATTGCCATGCGTTGGC
17533315 ATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTATCAATG
66 ATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTATCAATG
* * *
17533358 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTT
1 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTT
17533396 GTAAAACTTA
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 143 1.00
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (108 bp):
CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCATCATTGCCATGCGTTGGC
ATGGTCTTACATGGGATCTTTGCATTATCGTAGTTTATCAATG
Found at i:17536677 original size:77 final size:75
Alignment explanation
Indices: 17536511--17536679 Score: 169
Period size: 77 Copynumber: 2.2 Consensus size: 75
17536501 ATTTATTCAG
* * * * * * *
17536511 CTAGCATTGGGTGCAACTTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTTCCA
1 CTAGCACTGGGTGCAAATTTCGTCAATTTATCTGACTAATGCTGGACACATCACTATATTGTCCA
****
17536576 GTTTATTTGA
66 GTTTACCCAA
* * * *
17536586 CTAGCGCTAGGTGCAAATCTTCGTCAATTTATCTGACTAATGCTGTACACACTTACTATATCTGT
1 CTAGCACTGGGTGCAAAT-TTCGTCAATTTATCTGACTAATGCTGGACACA-TCACTATAT-TGT
17536651 -CAGTTTACCCAA
63 CCAGTTTACCCAA
17536663 CTAGCACTGGGTGCAAA
1 CTAGCACTGGGTGCAAA
17536680 ACTTATTTAC
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
75 14 0.19
76 28 0.38
77 30 0.41
78 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (75 bp):
CTAGCACTGGGTGCAAATTTCGTCAATTTATCTGACTAATGCTGGACACATCACTATATTGTCCA
GTTTACCCAA
Found at i:17541759 original size:21 final size:22
Alignment explanation
Indices: 17541718--17541759 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17541708 GTCAAGAAGG
17541718 CCACACGGGCATGTCGCCCCTT
1 CCACACGGGCATGTCGCCCCTT
17541740 CCACACGGGCATGT-GCCCCT
1 CCACACGGGCATGTCGCCCCT
17541760 GTTTCAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.14, C:0.45, G:0.24, T:0.17
Consensus pattern (22 bp):
CCACACGGGCATGTCGCCCCTT
Found at i:17542852 original size:28 final size:29
Alignment explanation
Indices: 17542811--17542956 Score: 167
Period size: 28 Copynumber: 5.2 Consensus size: 29
17542801 TAAACATGTC
* ** *
17542811 ATGAAAA-AGAAAGCCTTTGTGGTGATAT
1 ATGAAAAGAGGAAGCCTTTGTGGCAATCT
*
17542839 ATGAAAAGA-GAAGCTTTTGTGGCAATCT
1 ATGAAAAGAGGAAGCCTTTGTGGCAATCT
* *
17542867 A-GAAAAAAGGAAACCTTTGTGGCAATCT
1 ATGAAAAGAGGAAGCCTTTGTGGCAATCT
**
17542895 ATGAAAA-AGGAAGCCTTTGTCACAATCT
1 ATGAAAAGAGGAAGCCTTTGTGGCAATCT
*
17542923 ATGAAAAG-GGAAGTCTTTGTGGCAATCT
1 ATGAAAAGAGGAAGCCTTTGTGGCAATCT
17542951 ATGAAA
1 ATGAAA
17542957 TGGAAGCCTG
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.06
28 88 0.88
29 6 0.06
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (29 bp):
ATGAAAAGAGGAAGCCTTTGTGGCAATCT
Found at i:17549303 original size:19 final size:19
Alignment explanation
Indices: 17549275--17549316 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
17549265 GATGTCGGCA
*
17549275 TAGTGTATGCAATTTCTGG
1 TAGTGAATGCAATTTCTGG
17549294 TAGTGAATGCAATTTCTGG
1 TAGTGAATGCAATTTCTGG
17549313 TAGT
1 TAGT
17549317 TCAACATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (19 bp):
TAGTGAATGCAATTTCTGG
Found at i:17550073 original size:16 final size:16
Alignment explanation
Indices: 17550052--17550082 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17550042 TTTATTATTC
*
17550052 TGTCTTTTGTATTTTA
1 TGTCTTTTATATTTTA
17550068 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
17550083 GATTGTGACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTA
Found at i:17550783 original size:13 final size:13
Alignment explanation
Indices: 17550765--17550790 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17550755 CATGCAAATT
17550765 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
17550778 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
17550791 GAGAAGAAGC
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:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAG
Found at i:17554951 original size:27 final size:27
Alignment explanation
Indices: 17554903--17554955 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
17554893 CAGTAACAGT
* *
17554903 TGGGCCTAGCCCATTAATAGAATCAGG
1 TGGGCCTAGCCCAATAACAGAATCAGG
17554930 TGGGCCTAAGCCCAAT-ACAGAATCAG
1 TGGGCCT-AGCCCAATAACAGAATCAG
17554956 TATCAGATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (27 bp):
TGGGCCTAGCCCAATAACAGAATCAGG
Found at i:17555368 original size:27 final size:27
Alignment explanation
Indices: 17555337--17555395 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
17555327 TACGGAACAT
17555337 AAGGGCATAACCGTCATTCTAC-CATAC
1 AAGGGCATAACCGTCATTCTACAC-TAC
* * * *
17555364 AAGGGTATTACGGTCATTTTACACTAC
1 AAGGGCATAACCGTCATTCTACACTAC
17555391 AAGGG
1 AAGGG
17555396 TATTCTGGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (27 bp):
AAGGGCATAACCGTCATTCTACACTAC
Found at i:17555396 original size:27 final size:27
Alignment explanation
Indices: 17555361--17555413 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
17555351 CATTCTACCA
17555361 TACAAGGGTATTAC-GGTCATTTTACAC
1 TACAAGGGTATT-CTGGTCATTTTACAC
*
17555388 TACAAGGGTATTCTGGTGATTTTACA
1 TACAAGGGTATTCTGGTCATTTTACA
17555414 AACCAGGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTCTGGTCATTTTACAC
Found at i:17558655 original size:26 final size:27
Alignment explanation
Indices: 17558626--17558777 Score: 116
Period size: 27 Copynumber: 5.7 Consensus size: 27
17558616 TTAGTTTACC
*
17558626 AAATCACCAAAATACCCCTGA-TTT-TA
1 AAATTACCAAAATA-CCCTGAGTTTGTA
* * **
17558652 AAATTACCAAAATATCCTTAGTTTACA
1 AAATTACCAAAATACCCTGAGTTTGTA
17558679 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATA-CCCTGAGTTTGTA
**
17558706 AAATTACTGAAATACCCTCGA-TTTGTA
1 AAATTACCAAAATACCCT-GAGTTTGTA
* * * *
17558733 AAATTACTAAAATAATCTTGA-CTTGTA
1 AAATTACCAAAAT-ACCCTGAGTTTGTA
* *
17558760 AATTTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
17558778 CGATTTACAG
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
25 4 0.04
26 23 0.23
27 68 0.67
28 7 0.07
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTGAGTTTGTA
Found at i:17558730 original size:27 final size:27
Alignment explanation
Indices: 17558678--17558830 Score: 96
Period size: 27 Copynumber: 5.7 Consensus size: 27
17558668 CTTAGTTTAC
** *
17558678 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACTGAAATACCCTCGA-TTTGT
17558705 AAAATTACTGAAATACCCTCGATTTGT
1 AAAATTACTGAAATACCCTCGATTTGT
* ** * *
17558732 AAAATTACTAAAATAATCTTGACTTGT
1 AAAATTACTGAAATACCCTCGATTTGT
* * **
17558759 AAATTTAC-CAAAGTACCCTCGATTTAC
1 AAAATTACTGAAA-TACCCTCGATTTGT
* * *** *
17558786 AGAATTATTGTTTTATCCTCGA-TTGAT
1 AAAATTACTGAAATACCCTCGATTTG-T
17558813 AAAATTACTGAAATACCC
1 AAAATTACTGAAATACCC
17558831 CTCTAGGGTA
Statistics
Matches: 90, Mismatches: 32, Indels: 8
0.69 0.25 0.06
Matches are distributed among these distances:
26 5 0.06
27 83 0.92
28 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTCGATTTGT
Found at i:17558736 original size:54 final size:53
Alignment explanation
Indices: 17558618--17558792 Score: 140
Period size: 54 Copynumber: 3.3 Consensus size: 53
17558608 AGAATACTTT
* * * *
17558618 AGTTTACCAAATCACCAAAATACCCCTGATTTTAAAATTACCAAAATATCCTT
1 AGTTTACAAAATTACCAAAATACCCCTGATTTTAAAATTACCAAAATACCCTG
**
17558671 AGTTTACAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACTGAAATACCCTCG
1 AGTTTACAAAATTACCAAAATACCCCTGA-TTT-TAAAATTACCAAAATACCCT-G
** * ** * * * *
17558726 A-TTTGTAAAATTACTAAAATAATCTTGACTTGTAAATTTACCAAAGTACCCTCG
1 AGTTTACAAAATTACCAAAATACCCCTGA-TTTTAAAATTACCAAAATACCCT-G
*
17558780 A-TTTACAGAATTA
1 AGTTTACAAAATTA
17558793 TTGTTTTATC
Statistics
Matches: 97, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
52 1 0.01
53 28 0.29
54 64 0.66
55 4 0.04
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (53 bp):
AGTTTACAAAATTACCAAAATACCCCTGATTTTAAAATTACCAAAATACCCTG
Found at i:17558845 original size:27 final size:27
Alignment explanation
Indices: 17558815--17558940 Score: 135
Period size: 27 Copynumber: 4.7 Consensus size: 27
17558805 CGATTGATAA
* *
17558815 AATTACTGAAATACCCCTCTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
17558842 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
** *
17558869 AATTACCGAAATACTTCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
** * *
17558896 AATTATTGAAATAGCCCTATAAGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * **
17558923 GACTACCGATTTACCCCT
1 AATTACCGAAATACCCCT
17558941 GGAGGGTAAA
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:17558976 original size:27 final size:26
Alignment explanation
Indices: 17558932--17558983 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
17558922 GGACTACCGA
* *
17558932 TTTACCCCTGGAGGGTAAAATGACTAT
1 TTTACCCCTCGAGCGT-AAATGACTAT
*
17558959 TTTACCCCTCGTGCGTAAATGACTA
1 TTTACCCCTCGAGCGTAAATGACTA
17558984 ACTTGTGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (26 bp):
TTTACCCCTCGAGCGTAAATGACTAT
Found at i:17559679 original size:96 final size:96
Alignment explanation
Indices: 17559562--17560059 Score: 996
Period size: 96 Copynumber: 5.2 Consensus size: 96
17559552 GAGGAAGCGT
17559562 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATTTGTTCTGGTGGCCTAGCCAC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATTTGTTCTGGTGGCCTAGCCAC
17559627 AATATCTGTATCTGGTGACTTCGTCACAATA
66 AATATCTGTATCTGGTGACTTCGTCACAATA
17559658 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATTTGTTCTGGTGGCCTAGCCAC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATTTGTTCTGGTGGCCTAGCCAC
17559723 AATATCTGTATCTGGTGACTTCGTCACAATA
66 AATATCTGTATCTGGTGACTTCGTCACAATA
17559754 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATTTGTTCTGGTGGCCTAGCCAC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATTTGTTCTGGTGGCCTAGCCAC
17559819 AATATCTGTATCTGGTGACTTCGTCACAATA
66 AATATCTGTATCTGGTGACTTCGTCACAATA
17559850 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATTTGTTCTGGTGGCCTAGCCAC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATTTGTTCTGGTGGCCTAGCCAC
17559915 AATATCTGTATCTGGTGACTTCGTCACAATA
66 AATATCTGTATCTGGTGACTTCGTCACAATA
17559946 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATTTGTTCTGGTGGCCTAGCCAC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATTTGTTCTGGTGGCCTAGCCAC
17560011 AATATCTGTATCTGGTGACTTCGTCACAATA
66 AATATCTGTATCTGGTGACTTCGTCACAATA
17560042 TCTGGCAGCCTCGCTGCA
1 TCTGGCAGCCTCGCTGCA
17560060 TTTTCTGTGG
Statistics
Matches: 402, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 402 1.00
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (96 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATTTGTTCTGGTGGCCTAGCCAC
AATATCTGTATCTGGTGACTTCGTCACAATA
Found at i:17566744 original size:27 final size:27
Alignment explanation
Indices: 17566709--17566859 Score: 119
Period size: 27 Copynumber: 5.6 Consensus size: 27
17566699 TTAGTTTACC
*
17566709 AAATCACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* * **
17566736 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGATTTGTA
*
17566763 AAATTACCAAAA-ATCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
**
17566789 AAATTACTGAAATA-CCCTCGATTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
** *** * *
17566816 AAATTACTGAAATACTTTTTACTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
17566843 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
17566860 TCGGTTTATA
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
26 22 0.23
27 73 0.75
28 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:17566774 original size:54 final size:53
Alignment explanation
Indices: 17566702--17566877 Score: 156
Period size: 54 Copynumber: 3.3 Consensus size: 53
17566692 GAATACTTTA
* * *
17566702 GTTTACCAAATCACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCCT-ATTTGTAAAATTACCAAAATACCCTCG
* **
17566756 GTTTACAAAATTACCAAAA-ATCCCTAGTTTGTAAAATTACTGAAATACCCTCG
1 GTTTACAAAATTACCAAAATACCCCTA-TTTGTAAAATTACCAAAATACCCTCG
* ** ** *** * *
17566809 ATTTGTAAAATTACTGAAATACTTTTTACTTGTAAAATTACCAAAGTACCCTCG
1 GTTTACAAAATTACCAAAATAC-CCCTATTTGTAAAATTACCAAAATACCCTCG
* *
17566863 GTTTATAGAATTACC
1 GTTTACAAAATTACC
17566878 GTTTTACCCT
Statistics
Matches: 96, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
52 1 0.01
53 42 0.44
54 51 0.53
55 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (53 bp):
GTTTACAAAATTACCAAAATACCCCTATTTGTAAAATTACCAAAATACCCTCG
Found at i:17566790 original size:53 final size:54
Alignment explanation
Indices: 17566702--17566806 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 54
17566692 GAATACTTTA
*
17566702 GTTTACCAAATCACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTG
1 GTTTACAAAATCACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTG
* * **
17566756 GTTTACAAAATTACCAAAA-ATCCCT-AGTTTGTAAAATTACTGAAATACCCT
1 GTTTACAAAATCACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCT
17566807 CGATTTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
52 1 0.02
53 27 0.60
54 17 0.38
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (54 bp):
GTTTACAAAATCACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTG
Found at i:17566928 original size:27 final size:27
Alignment explanation
Indices: 17566898--17567004 Score: 160
Period size: 27 Copynumber: 4.0 Consensus size: 27
17566888 CGATAGACAA
*
17566898 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
17566925 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
17566952 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
17566979 AATTATTGAAATAGCCCTGTAGGGTA
1 AATTACCGAAATACCCCTGTAGGGTA
17567005 AAATGACTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:17573711 original size:17 final size:17
Alignment explanation
Indices: 17573691--17573734 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
17573681 AAATTTTCCA
17573691 TTTGGTGAACTCTAAGG
1 TTTGGTGAACTCTAAGG
17573708 TTTGGTGAACTCTAAGG
1 TTTGGTGAACTCTAAGG
*
17573725 TTTGATGAAC
1 TTTGGTGAAC
17573735 ACTTTTATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.36
Consensus pattern (17 bp):
TTTGGTGAACTCTAAGG
Found at i:17580945 original size:21 final size:21
Alignment explanation
Indices: 17580898--17580945 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
17580888 ATTTTGCAGG
*
17580898 TTTTTGTTGTTGTTTTATTGT
1 TTTTTGTAGTTGTTTTATTGT
17580919 TGTTTTGTAGTT-TTTTATTGT
1 T-TTTTGTAGTTGTTTTATTGT
17580940 ATTTTT
1 -TTTTT
17580946 TCATTGTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.08, C:0.00, G:0.17, T:0.75
Consensus pattern (21 bp):
TTTTTGTAGTTGTTTTATTGT
Found at i:17582647 original size:19 final size:19
Alignment explanation
Indices: 17582615--17582661 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
17582605 TGGACACAAG
* * *
17582615 GACACACCCGTGTGCCTTT
1 GACACGCCCATGTGCCCTT
17582634 GACACGCCCATGTGCCCTT
1 GACACGCCCATGTGCCCTT
17582653 GACACGCCC
1 GACACGCCC
17582662 GTGTCTACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.17, C:0.43, G:0.21, T:0.19
Consensus pattern (19 bp):
GACACGCCCATGTGCCCTT
Found at i:17584633 original size:29 final size:29
Alignment explanation
Indices: 17584600--17584658 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
17584590 ACCACAGGTA
17584600 AATTCTTTTCCCAACTACCTTGGAATTCT
1 AATTCTTTTCCCAACTACCTTGGAATTCT
17584629 AATTCTTTTCCCAACTACCTTGGAATTCT
1 AATTCTTTTCCCAACTACCTTGGAATTCT
17584658 A
1 A
17584659 GAACACAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.27, G:0.07, T:0.41
Consensus pattern (29 bp):
AATTCTTTTCCCAACTACCTTGGAATTCT
Found at i:17587618 original size:153 final size:153
Alignment explanation
Indices: 17587340--17587641 Score: 541
Period size: 153 Copynumber: 2.0 Consensus size: 153
17587330 ACTACACTGA
* *
17587340 CCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGATGCCGTTTGTTTCT
1 CCTTTGCGCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGATGCCGTTTGTTTCT
17587405 ATAGAAACTAGACTCACAGAGGAATCTATACATATATGGAATGACTCCTAATTATCTCTGGTTAA
66 ATAGAAACTAGACTCACAGAGGAATCTATACATATATGGAATGACTCCTAATTATCTCTGGTTAA
*
17587470 TTTATAATTAATTTCCAAAATCT
131 TTTATAATGAATTTCCAAAATCT
* *
17587493 CCTTTGTGCATTACGACTTGGATATCTCCCTGCACAGAGTTTCAATACTGATGCCGTTTGTTTCT
1 CCTTTGCGCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGATGCCGTTTGTTTCT
* *
17587558 ATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAA
66 ATAGAAACTAGACTCACAGAGGAATCTATACATATATGGAATGACTCCTAATTATCTCTGGTTAA
17587623 TTTATAATGAATTTCCAAA
131 TTTATAATGAATTTCCAAA
17587642 GTCGGAACAG
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
153 142 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (153 bp):
CCTTTGCGCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGATGCCGTTTGTTTCT
ATAGAAACTAGACTCACAGAGGAATCTATACATATATGGAATGACTCCTAATTATCTCTGGTTAA
TTTATAATGAATTTCCAAAATCT
Found at i:17593978 original size:40 final size:40
Alignment explanation
Indices: 17593933--17594067 Score: 146
Period size: 40 Copynumber: 3.4 Consensus size: 40
17593923 CGAATACACG
* * *
17593933 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
17593973 GCACCAGCACGAATGCTCTTCGAGG-TTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATA
* * * *
17594013 TTACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
17594053 TCACTAGCATGAATG
1 TCACCAGCACGAATG
17594068 ATACATCACT
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 75 0.96
41 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:17594072 original size:20 final size:20
Alignment explanation
Indices: 17594047--17594087 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17594037 ACTTAGCCCG
17594047 GATACATCACTAGCATGAAT
1 GATACATCACTAGCATGAAT
17594067 GATACATCACTAGCATGAAT
1 GATACATCACTAGCATGAAT
17594087 G
1 G
17594088 CTCTTCGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (20 bp):
GATACATCACTAGCATGAAT
Found at i:17594090 original size:60 final size:60
Alignment explanation
Indices: 17594015--17594127 Score: 199
Period size: 60 Copynumber: 1.9 Consensus size: 60
17594005 CGGATATATT
17594015 ACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGATACATC
1 ACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGATACATC
* * *
17594075 ACTAGCATGAATGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCATGAATG
1 ACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATG
17594128 CTCTTCGGGA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (60 bp):
ACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGATACATC
Found at i:17599213 original size:28 final size:27
Alignment explanation
Indices: 17599152--17599248 Score: 149
Period size: 27 Copynumber: 3.6 Consensus size: 27
17599142 ATATTAAGTC
* * *
17599152 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
17599179 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
17599207 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
17599234 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17599249 GCACAATTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 38 0.58
28 27 0.42
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:17603934 original size:25 final size:25
Alignment explanation
Indices: 17603905--17603953 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
17603895 TTTCTTTACC
*
17603905 TTTATTCATATTATGGCCATGCCAT
1 TTTATTCATATTATGACCATGCCAT
17603930 TTTATTCATATTATGACCATGCCA
1 TTTATTCATATTATGACCATGCCA
17603954 ATTAACACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (25 bp):
TTTATTCATATTATGACCATGCCAT
Found at i:17604787 original size:48 final size:48
Alignment explanation
Indices: 17604675--17604925 Score: 224
Period size: 48 Copynumber: 5.5 Consensus size: 48
17604665 GAGTGCCAAA
* * *
17604675 GCCATTTCCCAGACATGGTCTTACATGGGA-C-CACAT--AT--CGAT
1 GCCATGTCCCAGACATGGTCTTATATGGGATCTCATATCGATGCCGAT
* * * *
17604717 GCCATATCCCAGATATGATCTTATAT-GAAGTCTCATATCGATGCCGAT
1 GCCATGTCCCAGACATGGTCTTATATGGGA-TCTCATATCGATGCCGAT
* * * * * *
17604765 GCCATGTCTCGGACATGGTCTTATACGGGACCTCACATCGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTATATGGGATCTCATATCGATGCCGAT
* * *
17604813 GCCATATCCCAGATATGGTCTTACATGGGATCTCATA-CTGATGCCGAT
1 GCCATGTCCCAGACATGGTCTTATATGGGATCTCATATC-GATGCCGAT
* *
17604861 GCCATGTCCCAGACATGGTCTTATACGGGATCTC-T-T--AT--CAAT
1 GCCATGTCCCAGACATGGTCTTATATGGGATCTCATATCGATGCCGAT
17604903 GCCATGTCCCAGACATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTA
17604926 CACGAAATCA
Statistics
Matches: 169, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.01
42 48 0.28
43 1 0.01
44 6 0.04
46 2 0.01
47 2 0.01
48 106 0.63
49 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTATATGGGATCTCATATCGATGCCGAT
Found at i:17604847 original size:96 final size:96
Alignment explanation
Indices: 17604675--17604890 Score: 277
Period size: 96 Copynumber: 2.3 Consensus size: 96
17604665 GAGTGCCAAA
* * * *
17604675 GCCATTTCCCAGACATGGTCTTACATGGGA-C-CACAT--AT--CGATGCCATATCCCAGATATG
1 GCCATGTCCCAGACATGGTCTTATACGGGACCTCACATCGATGCCAATGCCATATCCCAGATATG
*
17604734 ATCTTATATGAAGTCTCATA-TCGATGCCGAT
66 ATCTTACATGAAGTCTCATACT-GATGCCGAT
* *
17604765 GCCATGTCTCGGACATGGTCTTATACGGGACCTCACATCGATGCCAATGCCATATCCCAGATATG
1 GCCATGTCCCAGACATGGTCTTATACGGGACCTCACATCGATGCCAATGCCATATCCCAGATATG
* *
17604830 GTCTTACATG-GGATCTCATACTGATGCCGAT
66 ATCTTACATGAAG-TCTCATACTGATGCCGAT
17604861 GCCATGTCCCAGACATGGTCTTATACGGGA
1 GCCATGTCCCAGACATGGTCTTATACGGGA
17604891 TCTCTTATCA
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
90 25 0.23
91 1 0.01
92 5 0.05
94 2 0.02
95 1 0.01
96 72 0.67
97 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTATACGGGACCTCACATCGATGCCAATGCCATATCCCAGATATG
ATCTTACATGAAGTCTCATACTGATGCCGAT
Found at i:17604948 original size:42 final size:42
Alignment explanation
Indices: 17604859--17604941 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
17604849 ACTGATGCCG
* ** * *
17604859 ATGCCATGTCCCAGACATGGTCTTATACGGGATCTCTTATCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACTTAACA
17604901 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACTTAAC
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACTTAAC
17604942 GGTGCCAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCACTTAACA
Found at i:17607203 original size:23 final size:23
Alignment explanation
Indices: 17607151--17607219 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
17607141 TACCGATATA
* *
17607151 TCAGTTCGTAAGAGCTTACTATTT
1 TCAGCTCGTAAGAGCTTACT-GTT
17607175 TCAGCTCGTAAGAGCTTACTGTT
1 TCAGCTCGTAAGAGCTTACTGTT
17607198 TCAGCT--TAATAGAGCTTACTGT
1 TCAGCTCGT-A-AGAGCTTACTGT
17607220 CCATCAGCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 20 0.49
24 19 0.46
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (23 bp):
TCAGCTCGTAAGAGCTTACTGTT
Found at i:17607409 original size:19 final size:20
Alignment explanation
Indices: 17607387--17607452 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
17607377 AAGCTATGTG
17607387 TTATATGGATGAATTACTG-
1 TTATATGGATGAATTACTGT
* *
17607406 TTATAGGGATGAAGTACTGT
1 TTATATGGATGAATTACTGT
* *
17607426 TTATACGGATGAGTTACTGT
1 TTATATGGATGAATTACTGT
17607446 TTATATG
1 TTATATG
17607453 ATTGAGAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 17 0.43
20 23 0.57
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (20 bp):
TTATATGGATGAATTACTGT
Found at i:17612003 original size:23 final size:23
Alignment explanation
Indices: 17611951--17612019 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
17611941 TACCGATATA
* *
17611951 TCAGTTCGTAAGAGCTTACTATTT
1 TCAGCTCGTAAGAGCTTACT-GTT
17611975 TCAGCTCGTAAGAGCTTACTGTT
1 TCAGCTCGTAAGAGCTTACTGTT
17611998 TCAGCT--TAATAGAGCTTACTGT
1 TCAGCTCGT-A-AGAGCTTACTGT
17612020 CCATCAGCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 20 0.49
24 19 0.46
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (23 bp):
TCAGCTCGTAAGAGCTTACTGTT
Found at i:17612209 original size:19 final size:20
Alignment explanation
Indices: 17612187--17612252 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
17612177 AAGCTATGTG
17612187 TTATATGGATGAATTACTG-
1 TTATATGGATGAATTACTGT
* *
17612206 TTATAGGGATGAAGTACTGT
1 TTATATGGATGAATTACTGT
* *
17612226 TTATACGGATGAGTTACTGT
1 TTATATGGATGAATTACTGT
17612246 TTATATG
1 TTATATG
17612253 ATTGAGAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 17 0.43
20 23 0.57
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (20 bp):
TTATATGGATGAATTACTGT
Found at i:17629985 original size:24 final size:24
Alignment explanation
Indices: 17629958--17630007 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
17629948 ACTATTTACT
17629958 AATATCAAATAATCAAAAATTCTC
1 AATATCAAATAATCAAAAATTCTC
* *
17629982 AATATCAAATAATTAAAGATTCTC
1 AATATCAAATAATCAAAAATTCTC
17630006 AA
1 AA
17630008 CACATGCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.14, G:0.02, T:0.30
Consensus pattern (24 bp):
AATATCAAATAATCAAAAATTCTC
Found at i:17630278 original size:90 final size:91
Alignment explanation
Indices: 17630140--17630383 Score: 323
Period size: 90 Copynumber: 2.7 Consensus size: 91
17630130 CAAAAGTTAC
* * *
17630140 AGGTTAATACGCTACCAGATGGTTGTGAATGCACAACATATTTGTAGATAAGAGCTGGCCA-AAT
1 AGGTTAATACGCTGCCAGATGGTTGTGAATACACAACATATTTGTAGATAAGAGCTGGCCAGAAA
* *
17630204 GTAGGTGGATGAACCACTAGTGTTGT
66 ATAGGTGGATGAACCACCAGTGTTGT
* * *
17630230 AGGTTAATACACTGCTAGATGGTTGTGAATACACAATATATTTGTAGATAAGAGCT-GCCAGAAA
1 AGGTTAATACGCTGCCAGATGGTTGTGAATACACAACATATTTGTAGATAAGAGCTGGCCAGAAA
* *
17630294 ATATGTGGATGAACCACCAGTGTTTT
66 ATAGGTGGATGAACCACCAGTGTTGT
** * * * *
17630320 AGGTGCATATGTTGCCAAATGGTTGTGAATACACAACATAATTGTAGATAAGAGCT-GCCAGAAA
1 AGGTTAATACGCTGCCAGATGGTTGTGAATACACAACATATTTGTAGATAAGAGCTGGCCAGAAA
17630384 TTCTATGGAT
Statistics
Matches: 134, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
89 4 0.03
90 130 0.97
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (91 bp):
AGGTTAATACGCTGCCAGATGGTTGTGAATACACAACATATTTGTAGATAAGAGCTGGCCAGAAA
ATAGGTGGATGAACCACCAGTGTTGT
Found at i:17630428 original size:90 final size:88
Alignment explanation
Indices: 17630151--17630428 Score: 249
Period size: 90 Copynumber: 3.1 Consensus size: 88
17630141 GGTTAATACG
* * *
17630151 CTACCAGATGGTTGTGAATGCACAACATATTTGTAGATAAGAGCTGGCC--AAATGTAGGTGGAT
1 CTACCAAATGGTTGTGAATACACAACATATTTGTAGATAAGAGCT-GCCAGAAATATA--TGGAT
*
17630214 GAACCACTAGTGTTGTAGGTTAATACA-
63 GAACCACAAGTGTTGTAGGTT-ATA-AT
* * * * *
17630241 CTGCTAGATGGTTGTGAATACACAATATATTTGTAGATAAGAGCTGCCAGAAAATATGTGGATGA
1 CTACCAAATGGTTGTGAATACACAACATATTTGTAGATAAGAGCTGCCAG-AAATATATGGATGA
* * *
17630306 ACCACCAGTGTTTTAGGTGCAT-AT
65 ACCACAAGTGTTGTAGGT-TATAAT
* * * * *
17630330 GTTGCCAAATGGTTGTGAATACACAACATAATTGTAGATAAGAGCTGCCAGAAATTCTATGGATT
1 -CTACCAAATGGTTGTGAATACACAACATATTTGTAGATAAGAGCTGCCAGAAA-TATATGGATG
** **
17630395 AACCACAAAAGTTGTAAATTATTAAT
64 AACCACAAGTGTTGTAGGTTA-TAAT
17630421 CTACCAAA
1 CTACCAAA
17630429 ACTTCCTTAT
Statistics
Matches: 153, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
88 1 0.01
89 7 0.05
90 138 0.90
91 2 0.01
92 5 0.03
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (88 bp):
CTACCAAATGGTTGTGAATACACAACATATTTGTAGATAAGAGCTGCCAGAAATATATGGATGAA
CCACAAGTGTTGTAGGTTATAAT
Found at i:17634113 original size:16 final size:16
Alignment explanation
Indices: 17634092--17634125 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17634082 TTAAAGCATA
17634092 TTATTGACTCGATTTC
1 TTATTGACTCGATTTC
* *
17634108 TTATTGATTTGATTTC
1 TTATTGACTCGATTTC
17634124 TT
1 TT
17634126 GTTTTTTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (16 bp):
TTATTGACTCGATTTC
Found at i:17640248 original size:49 final size:51
Alignment explanation
Indices: 17640190--17640291 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
17640180 TATTAATAAC
17640190 AGCACAAATTTAAAGAAAG-AA-AAAAAATTAATGATAGCTTGATGATTGG
1 AGCACAAATTTAAAGAAAGAAAGAAAAAATTAATGATAGCTTGATGATTGG
17640239 AGCACAAATTTAAAGAAAGAAAGAAAAAATTAATGATAGCTTGATGATTGG
1 AGCACAAATTTAAAGAAAGAAAGAAAAAATTAATGATAGCTTGATGATTGG
17640290 AG
1 AG
17640292 AAAAAGGTGG
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 19 0.37
50 2 0.04
51 30 0.59
ACGTcount: A:0.51, C:0.06, G:0.20, T:0.24
Consensus pattern (51 bp):
AGCACAAATTTAAAGAAAGAAAGAAAAAATTAATGATAGCTTGATGATTGG
Found at i:17642089 original size:27 final size:27
Alignment explanation
Indices: 17642051--17642110 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
17642041 GGTAAGTGAC
* **
17642051 GCCTATCTGGTAGGCTTGACTGGTAGA
1 GCCTATCTGGTAAGCGCGACTGGTAGA
*
17642078 GCCTATCTGGTAAGCGCGACTGGTGGA
1 GCCTATCTGGTAAGCGCGACTGGTAGA
17642105 GCCTAT
1 GCCTAT
17642111 ATGACAGACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.22, G:0.33, T:0.27
Consensus pattern (27 bp):
GCCTATCTGGTAAGCGCGACTGGTAGA
Found at i:17644373 original size:30 final size:30
Alignment explanation
Indices: 17644337--17644397 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
17644327 ACACGATATC
17644337 TTTCAATATCATCTGTCTTCTCGGCTACAT
1 TTTCAATATCATCTGTCTTCTCGGCTACAT
*
17644367 TTTCAATATCATCTGTTTTCTCGGCTACAT
1 TTTCAATATCATCTGTCTTCTCGGCTACAT
17644397 T
1 T
17644398 CTACAGGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.46
Consensus pattern (30 bp):
TTTCAATATCATCTGTCTTCTCGGCTACAT
Found at i:17645277 original size:18 final size:18
Alignment explanation
Indices: 17645254--17645304 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
17645244 TAATAGCCAG
*
17645254 TTATTCAGTAACGATAAA
1 TTATTCAGTAACAATAAA
* * *
17645272 TTATTCAATAATAATCAA
1 TTATTCAGTAACAATAAA
17645290 TTATTCAGTAACAAT
1 TTATTCAGTAACAAT
17645305 TTTTTTATGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATAAA
Found at i:17645335 original size:18 final size:18
Alignment explanation
Indices: 17645309--17645372 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
17645299 AACAATTTTT
*
17645309 TTATGCAGTAGCAGTTAG
1 TTATTCAGTAGCAGTTAG
* ** *
17645327 TTATCCAGTAATAGTCAG
1 TTATTCAGTAGCAGTTAG
*
17645345 TTATTCAGTAGCAGTTAA
1 TTATTCAGTAGCAGTTAG
17645363 TTATTCAGTA
1 TTATTCAGTA
17645373 TCTTTTTTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAGCAGTTAG
Found at i:17647698 original size:74 final size:76
Alignment explanation
Indices: 17647613--17647754 Score: 189
Period size: 78 Copynumber: 1.9 Consensus size: 76
17647603 AAAGTTTATT
* * *
17647613 TATTTAAATTGC-AAAAAATCC-TAAAATTAATAACTGAAATAGCAAAAAAGTCATTACATAAAT
1 TATTTAAATTGCAAAAAAAACCATAAAATTAATAAATAAAATAGCAAAAAAGTCATTACATAAAT
17647676 ACAAAGTTGAC
66 ACAAAGTTGAC
* * * *
17647687 TATTTAAATTGCAAAAAAAAAACCATAAAATTGATAAATAAAATGGCGAAAAATTCATTACATAA
1 TATTTAAATTGC--AAAAAAAACCATAAAATTAATAAATAAAATAGCAAAAAAGTCATTACATAA
17647752 ATA
64 ATA
17647755 TGAAGTTATT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
74 12 0.21
77 8 0.14
78 37 0.65
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.27
Consensus pattern (76 bp):
TATTTAAATTGCAAAAAAAACCATAAAATTAATAAATAAAATAGCAAAAAAGTCATTACATAAAT
ACAAAGTTGAC
Found at i:17648028 original size:33 final size:32
Alignment explanation
Indices: 17647949--17648030 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 32
17647939 AACTTGAGCT
17647949 GGAAGTAGTGGAGTACGGCAGTGGATACAAGCC
1 GGAAG-AGTGGAGTACGGCAGTGGATACAAGCC
* **
17647982 GAGAAGAGTGGAGTACGGCGGTGGATACGGGCC
1 G-GAAGAGTGGAGTACGGCAGTGGATACAAGCC
*
17648015 GGAAGAAGCGGAGTAC
1 GGAAG-AGTGGAGTAC
17648031 TAAGGTGGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 4 0.09
33 35 0.81
34 4 0.09
ACGTcount: A:0.29, C:0.15, G:0.44, T:0.12
Consensus pattern (32 bp):
GGAAGAGTGGAGTACGGCAGTGGATACAAGCC
Found at i:17648091 original size:38 final size:38
Alignment explanation
Indices: 17648015--17648091 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
17648005 GATACGGGCC
*
17648015 GGAAGAAGCGGAGTACTAAGGTGGATACGAGTCGGGAT
1 GGAAGAAGCGGAGTACTAAGGTGGATACGAGTCAGGAT
* * *
17648053 GGAAGGAGCGGAGTATTGAGGTGGATACGAG-CTAGGAT
1 GGAAGAAGCGGAGTACTAAGGTGGATACGAGTC-AGGAT
17648091 G
1 G
17648092 ATTGGAGTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.03
38 33 0.97
ACGTcount: A:0.30, C:0.09, G:0.44, T:0.17
Consensus pattern (38 bp):
GGAAGAAGCGGAGTACTAAGGTGGATACGAGTCAGGAT
Found at i:17648850 original size:23 final size:23
Alignment explanation
Indices: 17648820--17648872 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
17648810 CAGAACCGTG
*
17648820 TATGATTAACGAGTGGAAATACA
1 TATGATTAACGAGTGAAAATACA
17648843 TATGATTAACGAGTGAAAATACA
1 TATGATTAACGAGTGAAAATACA
17648866 TATGATT
1 TATGATT
17648873 GGTGACTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (23 bp):
TATGATTAACGAGTGAAAATACA
Found at i:17649534 original size:72 final size:72
Alignment explanation
Indices: 17649412--17649555 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 72
17649402 ATTGTAAAAA
17649412 AGTGAAAAAGTTGAGTGCTACATGCTAGAGGTATCCAATTGTTATAAAATTTTAAATTAGAGGTC
1 AGTGAAAAAGTTGAGTGCTACATGCTAGAGGTATCCAATTGTTATAAAATTTTAAATTAGAGGTC
17649477 CTTATAT
66 CTTATAT
* * * * * *
17649484 AGTGCAAAAGTTGAGTTCTACATGCTAGATGTGTCCAATTGTTATGAAATTTTAAATTGGAGGTC
1 AGTGAAAAAGTTGAGTGCTACATGCTAGAGGTATCCAATTGTTATAAAATTTTAAATTAGAGGTC
17649549 CTTATAT
66 CTTATAT
17649556 GGTAATTAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.36
Consensus pattern (72 bp):
AGTGAAAAAGTTGAGTGCTACATGCTAGAGGTATCCAATTGTTATAAAATTTTAAATTAGAGGTC
CTTATAT
Found at i:17650894 original size:48 final size:48
Alignment explanation
Indices: 17650776--17650949 Score: 233
Period size: 48 Copynumber: 3.6 Consensus size: 48
17650766 ATGAGATCCT
* * * * ***
17650776 GTGTAAGACTATGTCTAGGACATGGCATCGGCATCCGACATGACCGCTA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCGT-TGATATGTGTGCTA
* * *
17650825 GTGTAAGACCATGTCTGGGACATGACATCGGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGCTA
*
17650873 GTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGTGCTA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGCTA
17650921 GTGTAAGACCATGTCT-GGACATGGCATCG
1 GTGTAAGACCATGTCTAGGACATGGCATCG
17650950 ACACCGATAT
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 13 0.12
48 68 0.61
49 30 0.27
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (48 bp):
GTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGCTA
Found at i:17650898 original size:97 final size:95
Alignment explanation
Indices: 17650776--17650949 Score: 260
Period size: 97 Copynumber: 1.8 Consensus size: 95
17650766 ATGAGATCCT
*
17650776 GTGTAAGACTATGTCTAGGACATGGCATCGGC-ATCCGACATGACCGCTAGTGTAAGACCATGTC
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCGAT--GACATGACCGCTAGTGTAAGACCATGTC
17650840 TGGGACATGACATCGGCGTTGATATGTGTGCCA
64 T-GGACATGACATCGGCGTTGATATGTGTGCCA
* ***
17650873 GTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGTGCTAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCGATGACATGACCGCTAGTGTAAGACCATGTCTG
*
17650938 GACATGGCATCG
66 GACATGACATCG
17650950 ACACCGATAT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
95 12 0.17
96 25 0.36
97 31 0.44
98 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (95 bp):
GTGTAAGACCATGTCTAGGACATGGCATCGGCGATGACATGACCGCTAGTGTAAGACCATGTCTG
GACATGACATCGGCGTTGATATGTGTGCCA
Found at i:17650975 original size:47 final size:47
Alignment explanation
Indices: 17650822--17650985 Score: 134
Period size: 48 Copynumber: 3.4 Consensus size: 47
17650812 GACATGACCG
* * * ** * *
17650822 CTAGTGTAAGACCATGTCTGGGACATGACATCGGCGTTGATATGTGTG
1 CTAGTATAAGACCATGTCT-GGACATGGCATCGACGACGATATGAGTA
* * * * * *
17650870 CCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGTG
1 CTAGTATAAGACCATGTCT-GGACATGGCATCGACGACGATATGAGTA
*
17650918 CTAGTGTAAGACCATGTCTGGACATGGCATCGAC-ACCGATATGAG-A
1 CTAGTATAAGACCATGTCTGGACATGGCATCGACGA-CGATATGAGTA
* *
17650964 CTTCGTATAAGACCATATCTGG
1 C-TAGTATAAGACCATGTCTGG
17650986 GATATGACGT
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
46 2 0.02
47 38 0.37
48 62 0.61
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (47 bp):
CTAGTATAAGACCATGTCTGGACATGGCATCGACGACGATATGAGTA
Found at i:17651833 original size:54 final size:54
Alignment explanation
Indices: 17651773--17651876 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
17651763 TTTTGAGATC
* * *
17651773 GTTGCTTTGTGTTCTAGATGGCCCGTACCTCTAATTTTAAAATTGTTAAAGTAT
1 GTTGCTTTGTGTTCTAGATAGCCCGTACCTCCAATTTCAAAATTGTTAAAGTAT
* * *
17651827 GTTGCTTTGTGTTCTAGCTAGCCCGTACCTCCGATTTCAAAATTTTTAAA
1 GTTGCTTTGTGTTCTAGATAGCCCGTACCTCCAATTTCAAAATTGTTAAA
17651877 CTATTTGGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.41
Consensus pattern (54 bp):
GTTGCTTTGTGTTCTAGATAGCCCGTACCTCCAATTTCAAAATTGTTAAAGTAT
Found at i:17656141 original size:8 final size:8
Alignment explanation
Indices: 17656128--17656162 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
17656118 GTAGATCGGT
17656128 AAAAGCCG
1 AAAAGCCG
17656136 AAAAGCCG
1 AAAAGCCG
*
17656144 AAATGCCG
1 AAAAGCCG
*
17656152 AAAAGCTG
1 AAAAGCCG
17656160 AAA
1 AAA
17656163 GTTTGGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.51, C:0.20, G:0.23, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:17656405 original size:28 final size:29
Alignment explanation
Indices: 17656374--17656434 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 29
17656364 GTGAGCATGA
17656374 ATAT-AAGGTGATTTGGGCCTAAT-GAGCC
1 ATATAAAGGTGATTTGGGCCTAATAG-GCC
17656402 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATATAAAGGTGATTTGGGCCTAATAGGCC
17656431 ATAT
1 ATAT
17656435 GAATATGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 4 0.13
29 26 0.84
30 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATAGGCC
Found at i:17656447 original size:29 final size:29
Alignment explanation
Indices: 17656386--17656520 Score: 125
Period size: 29 Copynumber: 4.7 Consensus size: 29
17656376 ATAAGGTGAT
* * ** *
17656386 TTGGGCCTAATGAGCCATATAAAGGTGAT
1 TTGGGCCTAATGGGCCATATGAATATGAA
*
17656415 TTGGGCCTAATAGGCCATATGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* * *
17656444 TTGGGCCTGATGGGCTATATGAATTTGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* *
17656473 TTGGGCCTGACGGGCCATATG-A-ATGAGA
1 TTGGGCCTAATGGGCCATATGAATATGA-A
17656501 -TGGGCC-AAGTGGGCCATATG
1 TTGGGCCTAA-TGGGCCATATG
17656521 CATGTATGTA
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 19 0.21
28 2 0.02
29 67 0.75
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAA
Found at i:17657742 original size:30 final size:29
Alignment explanation
Indices: 17657708--17657795 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 29
17657698 CAGAGACAAG
17657708 GCCGTGTGTCTCGGTCGTGTGGGGAACACC
1 GCCGTGTGTCTCGG-CGTGTGGGGAACACC
17657738 GCCGTGTGTCTCGGCCGTGTGGGGAACACC
1 GCCGTGTGTCTCGG-CGTGTGGGGAACACC
* *
17657768 ACCCTGTGTCTCGGCTGTGTGGGGAACA
1 GCCGTGTGTCTCGGC-GTGTGGGGAACA
17657796 TGGCCTTAGC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 1 0.02
30 53 0.98
ACGTcount: A:0.11, C:0.27, G:0.39, T:0.23
Consensus pattern (29 bp):
GCCGTGTGTCTCGGCGTGTGGGGAACACC
Found at i:17675050 original size:9 final size:9
Alignment explanation
Indices: 17675036--17675060 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17675026 GGGTTAAAAT
17675036 TGAATTTTG
1 TGAATTTTG
17675045 TGAATTTTG
1 TGAATTTTG
17675054 TGAATTT
1 TGAATTT
17675061 ATGAAATAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (9 bp):
TGAATTTTG
Found at i:17675276 original size:42 final size:42
Alignment explanation
Indices: 17675212--17675297 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
17675202 GATTTTGGAC
17675212 TTAGATCGAGGCAAGAAAAAAGTACTCGATTAATCGACTAGT
1 TTAGATCGAGGCAAGAAAAAAGTACTCGATTAATCGACTAGT
* * *
17675254 TTAGATCGATGCAAGAACAAAGTGCTCGATTAATCGACTAGT
1 TTAGATCGAGGCAAGAAAAAAGTACTCGATTAATCGACTAGT
17675296 TT
1 TT
17675298 CGTTGTTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (42 bp):
TTAGATCGAGGCAAGAAAAAAGTACTCGATTAATCGACTAGT
Found at i:17675659 original size:47 final size:46
Alignment explanation
Indices: 17675562--17675686 Score: 162
Period size: 47 Copynumber: 2.7 Consensus size: 46
17675552 GCGCGAATAA
* *
17675562 TACCTTGATTTGGCTA-GGGCCAATGTATAGGTATTTTGAGAGGACC
1 TACCTTGATTTGGCTACGGGCC-ATGTATAGGTACTTTGAGAGAACC
* * **
17675608 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCAT-GTATAGGTACTTTGAGAGAACC
*
17675655 TACCTTGATTTGGCTACGGGCTATGTATAGGT
1 TACCTTGATTTGGCTACGGGCCATGTATAGGT
17675687 TCTTATCGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 26 0.37
47 44 0.63
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (46 bp):
TACCTTGATTTGGCTACGGGCCATGTATAGGTACTTTGAGAGAACC
Found at i:17680164 original size:54 final size:54
Alignment explanation
Indices: 17680104--17680275 Score: 227
Period size: 54 Copynumber: 3.2 Consensus size: 54
17680094 ACTAAAATGT
* **** *
17680104 CCTCAATTTGTAAAATTATCAAAGTACCCTCGATTTACAGAATTACCGTTTTAC
1 CCTCAATTTATAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTAC
* *
17680158 CCTCAATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTAC
1 CCTCAATTTATAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTAC
* * * *
17680212 CCTTAATTTATAGATTTATCGTTTTACCCTCGATTTATAGAATTATCGTTTTAC
1 CCTCAATTTATAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTAC
*
17680266 CCTCTATTTA
1 CCTCAATTTA
17680276 CAAGATTACT
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.42
Consensus pattern (54 bp):
CCTCAATTTATAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTAC
Found at i:17680283 original size:27 final size:27
Alignment explanation
Indices: 17680128--17680275 Score: 206
Period size: 27 Copynumber: 5.5 Consensus size: 27
17680118 ATTATCAAAG
*
17680128 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
17680155 TACCCTCAATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
17680182 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
** * *
17680209 TACCCTTAATTTATAGATTTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
17680236 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
17680263 TACCCTCTATTTA
1 TACCCTCGATTTA
17680276 CAAGATTACT
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:17680293 original size:27 final size:27
Alignment explanation
Indices: 17680263--17680431 Score: 132
Period size: 27 Copynumber: 6.2 Consensus size: 27
17680253 ATTATCGTTT
* *
17680263 TACCCTCTATTTACAAGATTACTAAAA
1 TACCCTCTATTTACAAAATTACCAAAA
*
17680290 TACCCT-TGGTTTACAAAATTACCAAAA
1 TACCCTCT-ATTTACAAAATTACCAAAA
**
17680317 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCTA-TTTACAAAATTACCAAAA
* *** *
17680344 TA-CCACTAGTTTGTGAAATTACCGAAA
1 TACCCTCTA-TTTACAAAATTACCAAAA
* **
17680371 TACCCTCAATTTGTAAAATTTACCAAAA
1 TACCCTCTATTTACAAAA-TTACCAAAA
17680399 TACCC-CTGATTTACAAAATTA-CAGAAA
1 TACCCTCT-ATTTACAAAATTACCA-AAA
17680426 TACCCT
1 TACCCT
17680432 TGACTTTCTA
Statistics
Matches: 118, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
26 5 0.04
27 88 0.75
28 25 0.21
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
TACCCTCTATTTACAAAATTACCAAAA
Found at i:17680294 original size:81 final size:81
Alignment explanation
Indices: 17680117--17680312 Score: 205
Period size: 81 Copynumber: 2.4 Consensus size: 81
17680107 CAATTTGTAA
* * **
17680117 AATTATCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTT
1 AATTACCAAAATACCCTTAATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTT
*
17680182 TACCCTCGATTTATAG
66 TACCCTCGATTTAAAG
*** * * * * * *
17680198 AATTACCATTTTACCCTTAATTTATAGATTTATCGTTTTACCCTCGATTTATAGAATTATCGTTT
1 AATTACCAAAATACCCTTAATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTT
*
17680263 TACCCTCTATTTACAAG
66 TACCCTCGATTTA-AAG
* ** *
17680280 -ATTACTAAAATACCCTTGGTTTACAAAATTACC
1 AATTACCAAAATACCCTTAATTTACAGAATTACC
17680313 AAAATACCCC
Statistics
Matches: 90, Mismatches: 24, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
81 88 0.98
82 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
AATTACCAAAATACCCTTAATTTACAGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTT
TACCCTCGATTTAAAG
Found at i:17680419 original size:55 final size:55
Alignment explanation
Indices: 17680263--17680431 Score: 175
Period size: 54 Copynumber: 3.1 Consensus size: 55
17680253 ATTATCGTTT
** * * * * *
17680263 TACCCTCT-ATTTACAAGATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCGAAA
* * ***
17680317 TACCC-CTAGTTTGTAAAATTACCAAAATACCACT-AGTTTGTGAAATTACCGAAA
1 TACCCTCTAATTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATTACCGAAA
*
17680371 TACCCTC-AATTTGTAAAATTTACCAAAATACCCCTGATTTACAAAATTACAGAAA
1 TACCCTCTAATTTGTAAAA-TTACCAAAATACCCCTGATTTACAAAATTACCGAAA
17680426 TACCCT
1 TACCCT
17680432 TGACTTTCTA
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
53 2 0.02
54 53 0.58
55 36 0.39
56 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.30
Consensus pattern (55 bp):
TACCCTCTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACCGAAA
Found at i:17680481 original size:27 final size:27
Alignment explanation
Indices: 17680280--17680516 Score: 156
Period size: 27 Copynumber: 8.7 Consensus size: 27
17680270 TATTTACAAG
* *
17680280 ATTACTAAAATACCCTTGGTTTACAAA
1 ATTACCAAAATACCCTTGGTTTATAAA
* * *
17680307 ATTACCAAAATACCCCTAGTTTGTAAA
1 ATTACCAAAATACCCTTGGTTTATAAA
* * *
17680334 ATTACCAAAATACCAC-TAGTTTGTGAA
1 ATTACCAAAATACC-CTTGGTTTATAAA
* *** *
17680361 ATTACCGAAATACCCTCAATTTGTAAA
1 ATTACCAAAATACCCTTGGTTTATAAA
* * *
17680388 ATTTACCAAAATACCCCTGATTTACAAA
1 A-TTACCAAAATACCCTTGGTTTATAAA
* *
17680416 ATTA-CAGAAATACCCTTGACTTTCTAAAA
1 ATTACCA-AAATACCCTTG-GTTTAT-AAA
* *
17680445 ATTA-TAGAAATACCATTGGTTTATAAA
1 ATTACCA-AAATACCCTTGGTTTATAAA
** * *
17680472 ATTACTGAAATACCCTTGGTTTGTAGA
1 ATTACCAAAATACCCTTGGTTTATAAA
* * *
17680499 TTTACGAAAACACCCTTG
1 ATTACCAAAATACCCTTG
17680517 TAGGATGAAA
Statistics
Matches: 171, Mismatches: 32, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.02
27 119 0.70
28 30 0.18
29 19 0.11
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
ATTACCAAAATACCCTTGGTTTATAAA
Found at i:17681464 original size:25 final size:25
Alignment explanation
Indices: 17681420--17681486 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
17681410 AGGAAGTGCT
* * *
17681420 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGAGCTTTGCCCCAGTTTACCA
* * *
17681445 AAACGAGCTTTGCCCTAGTTTATCA
1 AAAAGAGCTTTGCCCCAGTTTACCA
*
17681470 AAAAGGGCTTTGCCCCA
1 AAAAGAGCTTTGCCCCA
17681487 ATTATTAAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGAGCTTTGCCCCAGTTTACCA
Found at i:17681762 original size:31 final size:31
Alignment explanation
Indices: 17681709--17681790 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
17681699 CGCTTACAGT
*
17681709 AAAGGCTTCGG-CCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
17681739 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
17681770 AAAGGCTTTGGCCCAGT-ATAT
1 AAAGGCTTCGGCCCAGTGATAT
17681791 ATCGAGACTG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 15 0.31
31 34 0.69
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:17688300 original size:40 final size:40
Alignment explanation
Indices: 17688241--17689152 Score: 1727
Period size: 40 Copynumber: 22.8 Consensus size: 40
17688231 GGATATAGCT
* * * *
17688241 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
* * * * *
17688280 ACTTGCACCATTGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688320 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688360 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688400 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688440 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688480 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688520 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688560 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688600 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688640 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688680 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688720 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688760 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688800 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688840 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688880 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688920 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17688960 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17689000 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17689040 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
17689080 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
*
17689120 ACTCGCACAAATGCCTTCGCGACTTAGCCCGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
17689153 ACTAGTCACT
Statistics
Matches: 862, Mismatches: 10, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
39 6 0.01
40 856 0.99
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
Found at i:17695669 original size:25 final size:25
Alignment explanation
Indices: 17695616--17695673 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
17695606 GGAGGAAGTG
*
17695616 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTA
*
17695641 AAAAGGGCTTTGCCCCAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTACTA
*
17695665 AAAAAGGCT
1 AAAAGGGCT
17695674 AGGCCTCCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTA
Found at i:17695673 original size:24 final size:24
Alignment explanation
Indices: 17695616--17695687 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
17695606 GGAGGAAGTG
* *
17695616 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAG-TTATTA
17695641 AAAAGGGCTTTGCCCCAGTTATTA
1 AAAAGGGCTTTGCCCCAGTTATTA
* **
17695665 AAAAAGGCTAGGCCTCCAGTTAT
1 AAAAGGGCTTTGCC-CCAGTTAT
17695688 ATGATAAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 15 0.37
25 26 0.63
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTATTA
Found at i:17705697 original size:43 final size:43
Alignment explanation
Indices: 17705619--17705771 Score: 130
Period size: 43 Copynumber: 3.6 Consensus size: 43
17705609 CAATGCCAAC
* * * * * *
17705619 GTCCCAGACGTGGTCTTACATGTAAT-TACATATCGATGCCATT
1 GTCCCAGACATGGTCTTACACGAAATCT-CAAATCGATGACAAT
* *
17705662 GTCCCAGACATGGTC-TACAACGAAATCTCTAATCGATGACAGT
1 GTCCCAGACATGGTCTTAC-ACGAAATCTCAAATCGATGACAAT
** * * * * *
17705705 GTTTCAGACAAGGTCTTACACGATATCTCAAATTGATGTCAAC
1 GTCCCAGACATGGTCTTACACGAAATCTCAAATCGATGACAAT
*
17705748 GTCCCAGACGTGGTCTTACACGAA
1 GTCCCAGACATGGTCTTACACGAA
17705772 TCATATCTCG
Statistics
Matches: 86, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 3 0.03
43 79 0.92
44 4 0.05
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCTCAAATCGATGACAAT
Found at i:17723333 original size:42 final size:42
Alignment explanation
Indices: 17723271--17723352 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
17723261 TTAAATGTAA
* *
17723271 TTTAGTATTGATGCCTATGTCCTAGATAGGGTCTTACACGAG
1 TTTAGTATTGATGCCTATGTCCCAGACAGGGTCTTACACGAG
*
17723313 TTTAG-ATATGATG-CTGATGTCCCAGACATGGTCTTACACG
1 TTTAGTAT-TGATGCCT-ATGTCCCAGACAGGGTCTTACACG
17723353 TAAATCTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 4 0.11
42 31 0.89
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (42 bp):
TTTAGTATTGATGCCTATGTCCCAGACAGGGTCTTACACGAG
Found at i:17737430 original size:39 final size:40
Alignment explanation
Indices: 17737326--17737510 Score: 157
Period size: 40 Copynumber: 4.7 Consensus size: 40
17737316 TTGAATGATG
* * * *
17737326 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCCAAGGCATTTGTGC-GAGTTACTAAT
* * *
17737365 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCCAAGGCATTTGTGCGAGTTACTAAT
* *
17737406 TCCGGGCTAAG-CCCTAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCCAAGGCATTTGTGCGAGTTACTAAT
* *
17737445 TCCGGGTTAAGTCCCCAAGGCAATTGT-CTGAGTTACT-AT
1 TCCGGGCTAAGTCCCCAAGGCATTTGTGC-GAGTTACTAAT
* * *
17737484 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCCAAGGCATTTG
17737511 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
39 36 0.30
40 74 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCCAAGGCATTTGTGCGAGTTACTAAT
Found at i:17742038 original size:23 final size:23
Alignment explanation
Indices: 17742011--17742058 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
17742001 ATTATCAAAG
*
17742011 ATGC-ATTTTCATGCAATAAATAA
1 ATGCAATTATCATGC-ATAAATAA
*
17742034 ATGCAATTATCATGCATACATAA
1 ATGCAATTATCATGCATAAATAA
17742057 AT
1 AT
17742059 CATGCAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (23 bp):
ATGCAATTATCATGCATAAATAA
Found at i:17752439 original size:23 final size:23
Alignment explanation
Indices: 17752412--17752459 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
17752402 ATTATCAAAG
* *
17752412 ATGC-ATTTTCATGCCATATATAA
1 ATGCAATTATCATG-CATACATAA
17752435 ATGCAATTATCATGCATACATAA
1 ATGCAATTATCATGCATACATAA
17752458 AT
1 AT
17752460 CATGCAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (23 bp):
ATGCAATTATCATGCATACATAA
Found at i:17758351 original size:6 final size:7
Alignment explanation
Indices: 17758319--17758350 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
17758309 AGAATAAGTA
17758319 AATTAAT
1 AATTAAT
17758326 AATTAAT
1 AATTAAT
17758333 AA-TAAT
1 AATTAAT
17758339 AATTAA-
1 AATTAAT
17758345 AATTAA
1 AATTAA
17758351 ATTGCAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATTAAT
Found at i:17761079 original size:47 final size:47
Alignment explanation
Indices: 17761023--17761180 Score: 182
Period size: 47 Copynumber: 3.4 Consensus size: 47
17761013 AACTCGGACT
17761023 CAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTTAGACC
1 CAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTTAGACC
* * * ** *
17761070 CAACTCAACGAGTTCGGA---C--GTTCACATCCATAAGTGAACTCGGACT
1 CAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-CGAACTTAGACC
17761116 CAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTTAGACC
1 CAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTTAGACC
*
17761163 CAACTCAACGAGTTCGGA
1 CAACTCAACGAGCTCGGA
17761181 CGTTCACATC
Statistics
Matches: 89, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 2 0.02
46 25 0.28
47 42 0.47
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (47 bp):
CAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTTAGACC
Found at i:17761125 original size:93 final size:93
Alignment explanation
Indices: 17760966--17761230 Score: 442
Period size: 93 Copynumber: 2.8 Consensus size: 93
17760956 GCCCATAAGT
* * ** *
17760966 GAACTCAGACTCAACTCAACGACCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTTAGACCCAACTCAACGAGTTC-GGACGTTCACATCCATAAGTGAACTCGGACTCAACTCA
17761030 ACGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
17761059 GAACTTAGACCCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTTAGACCCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
17761124 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
17761152 GAACTTAGACCCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTTAGACCCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
** *
17761217 AAAGTTCGGATGCC
66 CGAGCTCGGATGCC
17761231 CAAATATCCT
Statistics
Matches: 163, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
92 2 0.01
93 161 0.99
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (93 bp):
GAACTTAGACCCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:17761226 original size:46 final size:46
Alignment explanation
Indices: 17760958--17761216 Score: 221
Period size: 46 Copynumber: 5.6 Consensus size: 46
17760948 TGTAACCTGC
* *
17760958 CCATAAGTGAACTCAGACTCAACTCAACGACCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-GGACGTTCACAT
*
17761004 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA---C--GTTCACAT
* * * * *
17761054 -C-TCA-CGAACTTAGACCCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACGTTCACAT
*
17761097 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA---C--GTTCACAT
* * * * *
17761147 -C-TCA-CGAACTTAGACCCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACGTTCACAT
*
17761190 CCATAAGTGAACTCGGACTCAACTCAA
1 CCATAAGTGAACTCAGACTCAACTCAA
17761217 AAAGTTCGGA
Statistics
Matches: 168, Mismatches: 26, Indels: 38
0.72 0.11 0.16
Matches are distributed among these distances:
42 6 0.04
43 8 0.05
44 4 0.02
45 6 0.04
46 73 0.43
47 50 0.30
48 4 0.02
49 4 0.02
50 7 0.04
51 6 0.04
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACGTTCACAT
Found at i:17763589 original size:20 final size:20
Alignment explanation
Indices: 17763564--17763603 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17763554 AGAAGTATAG
17763564 TTAGACTTGACATCATTATC
1 TTAGACTTGACATCATTATC
17763584 TTAGACTTGACATCATTATC
1 TTAGACTTGACATCATTATC
17763604 ACGAGCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
TTAGACTTGACATCATTATC
Found at i:17763713 original size:15 final size:15
Alignment explanation
Indices: 17763674--17763718 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
17763664 CAAGGAAATC
*
17763674 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
17763689 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
17763704 GAATAAAGAAACCCA
1 GAATAAAGAAACCCA
17763719 AGATACGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.58, C:0.18, G:0.16, T:0.09
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:17769607 original size:42 final size:43
Alignment explanation
Indices: 17769508--17769664 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
17769498 AGCTTGTACA
* **
17769508 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTGATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGAAATCAAATATCG
* * * *
17769551 ATGCCACTGTCCCAGACAGGGTCATACATGAAATTATATAT-G
1 ATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAAATATCG
* * *
17769593 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCC
1 ATGCCAATGTCCCAGACAGGGTCTTACATG-AAATCA-AATATCG
17769637 ATGCC-ATCGTCCCAGAC-GTGGTCTTACA
1 ATGCCAAT-GTCCCAGACAG-GGTCTTACA
17769665 CGATAACACA
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 27 0.29
43 41 0.44
44 25 0.27
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAAATATCG
Found at i:17773375 original size:16 final size:16
Alignment explanation
Indices: 17773354--17773385 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17773344 AAGAAAATGG
17773354 CTTCTTTTTCTTTCTT
1 CTTCTTTTTCTTTCTT
17773370 CTTCTTTTTCTTTCTT
1 CTTCTTTTTCTTTCTT
17773386 ACATTCGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
CTTCTTTTTCTTTCTT
Found at i:17779188 original size:23 final size:23
Alignment explanation
Indices: 17779158--17779204 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
17779148 ATGCATGCAC
17779158 ATAAGTGTCATGCCCATAGCTAG
1 ATAAGTGTCATGCCCATAGCTAG
17779181 ATAAGTGTCATGCCCATAGCTAG
1 ATAAGTGTCATGCCCATAGCTAG
17779204 A
1 A
17779205 CAAACTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (23 bp):
ATAAGTGTCATGCCCATAGCTAG
Found at i:17780886 original size:42 final size:43
Alignment explanation
Indices: 17780787--17780943 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
17780777 AGCTTGTACA
* **
17780787 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTGATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGAAATCAAATATCG
* * * *
17780830 ATGCCACTGTCCCAGACAGGGTCATACATGAAATTATATAT-G
1 ATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAAATATCG
* * *
17780872 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCC
1 ATGCCAATGTCCCAGACAGGGTCTTACATG-AAATCA-AATATCG
17780916 ATGCC-ATCGTCCCAGAC-GTGGTCTTACA
1 ATGCCAAT-GTCCCAGACAG-GGTCTTACA
17780944 CGATAACACA
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 27 0.29
43 41 0.44
44 25 0.27
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAAATATCG
Found at i:17784654 original size:16 final size:16
Alignment explanation
Indices: 17784633--17784664 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17784623 AAGAAAATGG
17784633 CTTCTTTTTCTTTCTT
1 CTTCTTTTTCTTTCTT
17784649 CTTCTTTTTCTTTCTT
1 CTTCTTTTTCTTTCTT
17784665 ACATTCGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
CTTCTTTTTCTTTCTT
Found at i:17790579 original size:93 final size:93
Alignment explanation
Indices: 17790471--17790642 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
17790461 CGCCCATAAG
*
17790471 CGAACTCGAACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGAACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
17790535 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
17790564 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17790629 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17790643 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17790637 original size:46 final size:46
Alignment explanation
Indices: 17790464--17790639 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
17790454 TGTAACCCGC
* * *
17790464 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
17790510 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
17790560 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17790603 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17790640 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17790658 original size:46 final size:44
Alignment explanation
Indices: 17790515--17790658 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 44
17790505 CGCATCCATA
17790515 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
17790562 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
17790608 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
17790654 AGTGA
1 AGTGA
17790659 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Done.