Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 65 of 109
Found at i:12976656 original size:15 final size:15
Alignment explanation
Indices: 12976623--12976670 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
12976613 TAATAAAATG
*
12976623 AAAATAAAGTAGAAA
1 AAAATAAAATAGAAA
*
12976638 AAAATAAAATAAAACA
1 AAAATAAAATAGAA-A
*
12976654 AAAAGAAAAT-GAAA
1 AAAATAAAATAGAAA
12976668 AAA
1 AAA
12976671 GAAAAGGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.10
Consensus pattern (15 bp):
AAAATAAAATAGAAA
Found at i:12987509 original size:2 final size:2
Alignment explanation
Indices: 12987485--12987535 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
12987475 TTCAAGTTAT
* * *
12987485 TA TA TA TC TA -A TA GA TA TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12987526 TA TA TA TA TA
1 TA TA TA TA TA
12987536 ATTATTGAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:12987968 original size:16 final size:16
Alignment explanation
Indices: 12987944--12987978 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12987934 AGATTAACTG
*
12987944 CAAATAAAAAAACTCA
1 CAAAAAAAAAAACTCA
*
12987960 CAAAAAAAATAACTCA
1 CAAAAAAAAAAACTCA
12987976 CAA
1 CAA
12987979 GAATTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.20, G:0.00, T:0.11
Consensus pattern (16 bp):
CAAAAAAAAAAACTCA
Found at i:12999365 original size:10 final size:10
Alignment explanation
Indices: 12999350--12999377 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
12999340 AGGCCCTTGG
12999350 ATCCAATCTT
1 ATCCAATCTT
12999360 ATCCAATCTT
1 ATCCAATCTT
12999370 ATCCAATC
1 ATCCAATC
12999378 GTCAAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (10 bp):
ATCCAATCTT
Found at i:13000596 original size:49 final size:48
Alignment explanation
Indices: 13000488--13000843 Score: 281
Period size: 49 Copynumber: 7.3 Consensus size: 48
13000478 TGAACTTGTT
* * * *
13000488 TGAAAATGGCTCTCTGTAAATAGAGGTTTTGAAACTTTTAAAATGTTGTC
1 TGAAAATGGCTCTC-CTAAATAGAGGCTTTGAAAC-TTTAAAATCTTATC
* * *
13000538 TGAAAATGGCTCATCCTAAATAAAGGCTTTAAAACTTTAAAATCTTATG
1 TGAAAATGGCTC-TCCTAAATAGAGGCTTTGAAACTTTAAAATCTTATC
* * * ** * *
13000587 TGAAAATGGCTC-CCTCAAAAAAAAAGCTTCAAAACTTTAAAATTTTGTC
1 TGAAAATGGCTCTCCT--AAATAGAGGCTTTGAAACTTTAAAATCTTATC
* * *
13000636 TGAAAATGGCTCATCC-CAATGAGAGGCTTTGAAACTTTAAAATCTTGTA
1 TGAAAATGGCTC-TCCTAAAT-AGAGGCTTTGAAACTTTAAAATCTTATC
* * * * * *
13000685 T-AAAATTGGCTCTCCCCAAACAAAGGCTTCGAAATTTTAAAATCTTATT
1 TGAAAA-TGGCTCT-CCTAAATAGAGGCTTTGAAACTTTAAAATCTTATC
* * * * *
13000734 TGAAAATGGTTCCCCCTAAATAGAGACTTTAAAACTTTAAAAT-TATATT
1 TGAAAATGGCT-CTCCTAAATAGAGGCTTTGAAACTTTAAAATCT-TATC
* * * *
13000783 TGAAAATGACTCTTCCTAAACAGAGGCTTTGAAA-TTTTAAATCTTATG
1 TGAAAATGGCTC-TCCTAAATAGAGGCTTTGAAACTTTAAAATCTTATC
13000831 TGAAAATGGCTCT
1 TGAAAATGGCTCT
13000844 TCAAAATTTT
Statistics
Matches: 246, Mismatches: 46, Indels: 31
0.76 0.14 0.10
Matches are distributed among these distances:
47 4 0.02
48 30 0.12
49 173 0.70
50 35 0.14
51 4 0.02
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.33
Consensus pattern (48 bp):
TGAAAATGGCTCTCCTAAATAGAGGCTTTGAAACTTTAAAATCTTATC
Found at i:13000768 original size:147 final size:143
Alignment explanation
Indices: 13000483--13000962 Score: 432
Period size: 147 Copynumber: 3.4 Consensus size: 143
13000473 TTTTTTGAAC
* ** * * *
13000483 TTGTTTGAAAATGGCTCTCTGTAAATAGAGGTTTTGAAACTTTTAAAATGTTGTCTGAAAATGGC
1 TTGTCTGAAAATGGCTCT-TCCAAATAGAGGCTTTGAAAC-TTTAAAATCTTGTATGAAAATGGC
* * * * * * *
13000548 TCATCCTAAATAAAGGCTTTAAAACTTTAAAATCTTATGTGAAAATGGCTCCCTC-AAAAAAAAA
64 TC-TCC-AAA-AAAGGCTTCAAAATTTTAAAATCTTATTTGAAAATGGCTCCCCCTAAATAGAGA
*
13000612 GCTTCAAAACTTTAAAATT
126 -CTTTAAAACTTTAAAATT
* *
13000631 TTGTCTGAAAATGGCTCATCCCAATGAGAGGCTTTGAAACTTTAAAATCTTGTAT-AAAATTGGC
1 TTGTCTGAAAATGGCTCTTCCAAAT-AGAGGCTTTGAAACTTTAAAATCTTGTATGAAAA-TGGC
* *
13000695 TCTCCCCAAACAAAGGCTTCGAAATTTTAAAATCTTATTTGAAAATGGTTCCCCCTAAATAGAGA
64 TCT--CCAAA-AAAGGCTTCAAAATTTTAAAATCTTATTTGAAAATGGCTCCCCCTAAATAGAGA
13000760 CTTTAAAACTTTAAAATT
126 CTTTAAAACTTTAAAATT
* * * * * * * *
13000778 ATATTTGAAAATGACTCTTCCTAAACAGAGGCTTTGAAA-TTTTAAATCTTATGTGAAAATGG--
1 TTGTCTGAAAATGGCTCTTCC-AAATAGAGGCTTTGAAACTTTAAAATCTTGTATGAAAATGGCT
* * * *
13000840 CT----------CTTCAAAATTTTAAAATCTTTTTTTAAAAATGGCTCCTCCTAAATAGAGGCTT
65 CTCCAAAAAAGGCTTCAAAATTTTAAAATC-TTATTTGAAAATGGCTCCCCCTAAATAGAGACTT
* * *
13000895 TGAAACTTTAAAGTC
129 TAAAACTTTAAAATT
13000910 TTGTCTGAAAATGGCTCTTCCTAAATAGAGGCTTTGAAACTTTAAAATCTTGT
1 TTGTCTGAAAATGGCTCTTCC-AAATAGAGGCTTTGAAACTTTAAAATCTTGT
13000963 TTTTTTTTTC
Statistics
Matches: 278, Mismatches: 45, Indels: 33
0.78 0.13 0.09
Matches are distributed among these distances:
131 17 0.06
132 75 0.27
133 11 0.04
144 2 0.01
146 20 0.07
147 114 0.41
148 39 0.14
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (143 bp):
TTGTCTGAAAATGGCTCTTCCAAATAGAGGCTTTGAAACTTTAAAATCTTGTATGAAAATGGCTC
TCCAAAAAAGGCTTCAAAATTTTAAAATCTTATTTGAAAATGGCTCCCCCTAAATAGAGACTTTA
AAACTTTAAAATT
Found at i:13000804 original size:98 final size:97
Alignment explanation
Indices: 13000488--13000960 Score: 331
Period size: 98 Copynumber: 5.0 Consensus size: 97
13000478 TGAACTTGTT
* * * * * * * *
13000488 TGAAAATGGCTCTCTGTAAATAGAGGTTTTGAAACTTTTAAAATGTTGTCTGAAAATGGCTCATC
1 TGAAAATGGCTCTC-CTAAACAAAGGCTTCGAAA-TTTTAAAATCTTATCTGAAAATGGCTCACC
* *
13000553 CTAAATAAAGGCTTTAAAACTTTAAAATCTTATG
64 CTAAATAGAGGCTTTAAAACTTTAAAATCTTATA
* * * * * *
13000587 TGAAAATGGCTC-CCTCAAAAAAAAAGCTTCAAAACTTTAAAATTTTGTCTGAAAATGGCTCATC
1 TGAAAATGGCTCTCCT--AAACAAAGGCTTCGAAATTTTAAAATCTTATCTGAAAATGGCTCA-C
* *
13000651 CC--AATGAGAGGCTTTGAAACTTTAAAATCTTGTA
63 CCTAAAT-AGAGGCTTTAAAACTTTAAAATCTTATA
* * * *
13000685 T-AAAATTGGCTCTCCCCAAACAAAGGCTTCGAAATTTTAAAATCTTATTTGAAAATGGTTCCCC
1 TGAAAA-TGGCTCT-CCTAAACAAAGGCTTCGAAATTTTAAAATCTTATCTGAAAATGGCTCACC
* *
13000749 CTAAATAGAGACTTTAAAACTTTAAAAT-TATATT
64 CTAAATAGAGGCTTTAAAACTTTAAAATCT-TATA
* * * * *
13000783 TGAAAATGACTCTTCCTAAACAGAGGCTTTGAAATTTT-AAATCTTATGTGAAAATGGCT---CT
1 TGAAAATGGCTC-TCCTAAACAAAGGCTTCGAAATTTTAAAATCTTATCTGAAAATGGCTCACCC
* *
13000844 TCAA-A-A--TTTTAAAATCTTT----T-TT-TA
65 TAAATAGAGGCTTTAAAA-CTTTAAAATCTTATA
* * * * * * **
13000868 --AAAATGGCTCCTCCTAAATAGAGGCTTTGAAACTTTAAAGTCTTGTCTGAAAATGGCTCTTCC
1 TGAAAATGGCT-CTCCTAAACAAAGGCTTCGAAATTTTAAAATCTTATCTGAAAATGGCTCACCC
*
13000931 TAAATAGAGGCTTTGAAACTTTAAAATCTT
65 TAAATAGAGGCTTTAAAACTTTAAAATCTT
13000961 GTTTTTTTTT
Statistics
Matches: 299, Mismatches: 48, Indels: 58
0.74 0.12 0.14
Matches are distributed among these distances:
83 31 0.10
84 19 0.06
85 1 0.00
86 1 0.00
87 6 0.02
88 1 0.00
89 1 0.00
90 11 0.04
91 10 0.03
92 1 0.00
93 1 0.00
94 5 0.02
95 2 0.01
97 31 0.10
98 143 0.48
99 33 0.11
100 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (97 bp):
TGAAAATGGCTCTCCTAAACAAAGGCTTCGAAATTTTAAAATCTTATCTGAAAATGGCTCACCCT
AAATAGAGGCTTTAAAACTTTAAAATCTTATA
Found at i:13000901 original size:132 final size:132
Alignment explanation
Indices: 13000711--13000960 Score: 351
Period size: 132 Copynumber: 1.9 Consensus size: 132
13000701 CAAACAAAGG
* * *
13000711 CTTCGAAATTTTAAAATCTTATTTGAAAATGGTTCCCCCTAAATAGAGACTTTAAAACTTTAAAA
1 CTTCAAAATTTTAAAATCTTATTTAAAAATGGCTCCCCCTAAATAGAGACTTTAAAACTTTAAAA
* *
13000776 T-TATATTTGAAAATGACTCTTCCTAAACAGAGGCTTTGAAA-TTTTAAATCTTATGTGAAAATG
66 TCT-TATCTGAAAATGACTCTTCCTAAACAGAGGCTTTGAAACTTTAAAATCTTATGTGAAAATG
13000839 GCT
130 GCT
* * * *
13000842 CTTCAAAATTTTAAAATCTTTTTTTAAAAATGGCTCCTCCTAAATAGAGGCTTTGAAACTTTAAA
1 CTTCAAAATTTTAAAATC-TTATTTAAAAATGGCTCCCCCTAAATAGAGACTTTAAAACTTTAAA
* * * *
13000907 GTCTTGTCTGAAAATGGCTCTTCCTAAATAGAGGCTTTGAAACTTTAAAATCTT
65 ATCTTATCTGAAAATGACTCTTCCTAAACAGAGGCTTTGAAACTTTAAAATCTT
13000961 GTTTTTTTTT
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
131 17 0.17
132 75 0.73
133 11 0.11
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (132 bp):
CTTCAAAATTTTAAAATCTTATTTAAAAATGGCTCCCCCTAAATAGAGACTTTAAAACTTTAAAA
TCTTATCTGAAAATGACTCTTCCTAAACAGAGGCTTTGAAACTTTAAAATCTTATGTGAAAATGG
CT
Found at i:13000924 original size:49 final size:49
Alignment explanation
Indices: 13000868--13000962 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
13000858 TCTTTTTTTA
*
13000868 AAAATGGCTCCTCCTAAATAGAGGCTTTGAAACTTTAAAGTCTTGTCTG
1 AAAATGGCTCCTCCTAAATAGAGGCTTTGAAACTTTAAAATCTTGTCTG
*
13000917 AAAATGGCTCTTCCTAAATAGAGGCTTTGAAACTTTAAAATCTTGT
1 AAAATGGCTCCTCCTAAATAGAGGCTTTGAAACTTTAAAATCTTGT
13000963 TTTTTTTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (49 bp):
AAAATGGCTCCTCCTAAATAGAGGCTTTGAAACTTTAAAATCTTGTCTG
Found at i:13001026 original size:1 final size:1
Alignment explanation
Indices: 13001010--13001043 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
13001000 TGTTGACTTC
* *
13001010 TTTTGTTTTGTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13001044 GCAATTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (1 bp):
T
Found at i:13001302 original size:22 final size:22
Alignment explanation
Indices: 13001277--13001326 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
13001267 TGTCGGAGAA
**
13001277 CTTACAGATTATGCTCGGAGGT
1 CTTACAGATTACACTCGGAGGT
* *
13001299 CTTAGAGATTACACTTGGAGGT
1 CTTACAGATTACACTCGGAGGT
13001321 CTTACA
1 CTTACA
13001327 AATCTCAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (22 bp):
CTTACAGATTACACTCGGAGGT
Found at i:13001364 original size:105 final size:106
Alignment explanation
Indices: 13001208--13001415 Score: 292
Period size: 105 Copynumber: 2.0 Consensus size: 106
13001198 AAAATTATGT
* ** * * * *
13001208 TTGGAGGTTTTACAAATCTTGAAATAAAAATAGATTCAGCTCGAAAGACTTAGGAATCTTGTCGG
1 TTGGAGGTCTTACAAATCTCAAAATAAAAATAGATTCAGCTCAAAAAACTTAGGAATCTTGCCCG
* *
13001273 AGA-ACTTACAGATTATGCTCGGAGGTCTTAGAGATTACAC
66 AAAGACTTACAGATTATGCTCGAAGGTCTTAGAGATTACAC
* * *
13001313 TTGGAGGTCTTACAAATCTCAAAATTAAAATAGATTCAGTTCAAAAAACTTATGAATCTTGCCCG
1 TTGGAGGTCTTACAAATCTCAAAATAAAAATAGATTCAGCTCAAAAAACTTAGGAATCTTGCCCG
*
13001378 AAAGATTTACAGATTATGCTCGAAGGTCTTAGAGATTA
66 AAAGACTTACAGATTATGCTCGAAGGTCTTAGAGATTA
13001416 TGCTTAAAGG
Statistics
Matches: 89, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
105 57 0.64
106 32 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.30
Consensus pattern (106 bp):
TTGGAGGTCTTACAAATCTCAAAATAAAAATAGATTCAGCTCAAAAAACTTAGGAATCTTGCCCG
AAAGACTTACAGATTATGCTCGAAGGTCTTAGAGATTACAC
Found at i:13001448 original size:22 final size:22
Alignment explanation
Indices: 13001388--13001436 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13001378 AAAGATTTAC
** *
13001388 AGATTATGCTCGAAGGTCTTAG
1 AGATTATGCTTAAAGGTCTTAA
13001410 AGATTATGCTTAAAGGTCTTAA
1 AGATTATGCTTAAAGGTCTTAA
13001432 AGATT
1 AGATT
13001437 TTGTGTAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (22 bp):
AGATTATGCTTAAAGGTCTTAA
Found at i:13001857 original size:22 final size:22
Alignment explanation
Indices: 13001832--13001892 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
13001822 ACTTACAGAT
13001832 TATGCCTAGAGGTCTTAGAAAC
1 TATGCCTAGAGGTCTTAGAAAC
* * * * * *
13001854 TATGCCCAAAAGTTTTAGAGAT
1 TATGCCTAGAGGTCTTAGAAAC
*
13001876 TGTGCCTAGAGGTCTTA
1 TATGCCTAGAGGTCTTA
13001893 AAAATCTCAA
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (22 bp):
TATGCCTAGAGGTCTTAGAAAC
Found at i:13002292 original size:18 final size:18
Alignment explanation
Indices: 13002265--13002310 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
13002255 CTCATCAAAT
*
13002265 GATGCTAATGAAAATGTC
1 GATGCAAATGAAAATGTC
* *
13002283 GATGCGAATGCAAATGTC
1 GATGCAAATGAAAATGTC
*
13002301 AATGCAAATG
1 GATGCAAATG
13002311 TAAGAATGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (18 bp):
GATGCAAATGAAAATGTC
Found at i:13002576 original size:41 final size:41
Alignment explanation
Indices: 13002529--13002609 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
13002519 ATACGAACAT
*
13002529 AAATGATACAAATGTGAATGTCTTTTTTGTGATGTAAATGC
1 AAATGATACAAATGGGAATGTCTTTTTTGTGATGTAAATGC
* *
13002570 AAATGATGCTAATGGGAATGTCTTTTTTGTGATGTAAATG
1 AAATGATACAAATGGGAATGTCTTTTTTGTGATGTAAATG
13002610 TGAATGCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (41 bp):
AAATGATACAAATGGGAATGTCTTTTTTGTGATGTAAATGC
Found at i:13006930 original size:43 final size:43
Alignment explanation
Indices: 13006808--13007144 Score: 319
Period size: 42 Copynumber: 8.1 Consensus size: 43
13006798 AGAATGATCT
** *
13006808 CATTTTATTTACCAAAAGTTTCAAAACCTCAATTGT-GGGAGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGA-AG
* *
13006851 TATTTTATTTTTC-AAAGTTTCAAAGCCTCAATTGTGGGGAAA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGAAG
* * * *
13006893 CATTTTATTTTTCAAAAATTCCAAAGCCTCAGTTGTGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGAAG
* * *
13006936 TATTTTA-TTTTCAAAAGTTTCAAA-CCTCAATTATGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGAAG
* ** *
13006977 CATTTTATTTTT-GAAAGTTTCAAAGCCTCGGTTGT-GAGAGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGA-AG
* *
13007019 CATTTTA-TTTTC-AAAGTTTTCAAACCCTC-A--GTGGGGGAG
1 CATTTTATTTTTCAAAAG-TTTCAAAGCCTCAATTGTGGGGAAG
* **
13007058 CA---T-TTTTT-AAAAGTTTTAAAGCCTCAATTGTGGAAAAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGAAG
* * *
13007096 CATTTTATTTTTCAAAAGTTTCAAAACTTCAGTTGTGGGGAAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGAAG
13007139 CATTTT
1 CATTTT
13007145 TCAAAAAAAA
Statistics
Matches: 238, Mismatches: 38, Indels: 36
0.76 0.12 0.12
Matches are distributed among these distances:
35 10 0.04
36 10 0.04
38 8 0.03
39 6 0.03
40 2 0.01
41 43 0.18
42 85 0.36
43 74 0.31
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (43 bp):
CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGGAAG
Found at i:13007098 original size:77 final size:81
Alignment explanation
Indices: 13006821--13007150 Score: 273
Period size: 83 Copynumber: 4.0 Consensus size: 81
13006811 TTTATTTACC
* * * * * *
13006821 AAAAGTTTCAAAACCTCAATTGTGGGAGAGTATTTTATTTTTC-AAAGTTTCAAAGCCTCAATTG
1 AAAAGTTTCAAAGCCTCAATTGTGAGAAAGCATTTTATTTTTCAAAAGTTTCAAAACCTCAGTTG
*
13006885 TGGGGAAACATTTTATTTTT
66 TGGGGAAGCA---T-TTTTT
* * * * ** * *
13006905 CAAAAATTCCAAAGCCTCAGTTGTGGGGGAGTATTTTA-TTTTCAAAAGTTTC-AAACCTCAATT
1 -AAAAGTTTCAAAGCCTCAATTGTGAGAAAGCATTTTATTTTTCAAAAGTTTCAAAACCTCAGTT
* *
13006968 ATGGGGGAGCATTTTATTTTT
65 GTGGGGAAGCA---T-TTTTT
* ** * *
13006989 GAAAGTTTCAAAGCCTCGGTTGTGAGAGAGCATTTTA-TTTTC-AAAGTTTTCAAACCCTCAG-T
1 AAAAGTTTCAAAGCCTCAATTGTGAGAAAGCATTTTATTTTTCAAAAG-TTTCAAAACCTCAGTT
13007051 G-GGGG-AGCATTTTTT
65 GTGGGGAAGCATTTTTT
* *
13007066 AAAAGTTTTAAAGCCTCAATTGTG-GAAAAGCATTTTATTTTTCAAAAGTTTCAAAACTTCAGTT
1 AAAAGTTTCAAAGCCTCAATTGTGAG-AAAGCATTTTATTTTTCAAAAGTTTCAAAACCTCAGTT
*
13007130 GTGGGGAAGCATTTTTC
65 GTGGGGAAGCATTTTTT
13007147 AAAA
1 AAAA
13007151 AAAAGTTTCA
Statistics
Matches: 209, Mismatches: 27, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
76 1 0.00
77 35 0.17
78 18 0.09
79 6 0.03
80 4 0.02
81 17 0.08
82 8 0.04
83 40 0.19
84 40 0.19
85 40 0.19
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (81 bp):
AAAAGTTTCAAAGCCTCAATTGTGAGAAAGCATTTTATTTTTCAAAAGTTTCAAAACCTCAGTTG
TGGGGAAGCATTTTTT
Found at i:13007498 original size:19 final size:19
Alignment explanation
Indices: 13007474--13007510 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13007464 TGGTAAAAAA
13007474 TAAAAAAATAAAAAAATGG
1 TAAAAAAATAAAAAAATGG
* *
13007493 TAAAAAATTTAAAAAATG
1 TAAAAAAATAAAAAAATG
13007511 TGAGATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (19 bp):
TAAAAAAATAAAAAAATGG
Found at i:13008093 original size:32 final size:32
Alignment explanation
Indices: 13008044--13008121 Score: 79
Period size: 32 Copynumber: 2.5 Consensus size: 32
13008034 TTGCATGGTT
* *
13008044 TTATTTTTGCATG--AATTTGTATGACTAATA
1 TTATATTTGCATGATAATTTATATGACTAATA
* *
13008074 TTATATTTGCATGATAATTTATTTGTCTAATA
1 TTATATTTGCATGATAATTTATATGACTAATA
* *
13008106 TATTTGTTTGCATGAT
1 T-TATATTTGCATGAT
13008122 TGATATATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
30 12 0.31
32 15 0.38
33 12 0.31
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (32 bp):
TTATATTTGCATGATAATTTATATGACTAATA
Found at i:13008098 original size:16 final size:17
Alignment explanation
Indices: 13008071--13008121 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
13008061 TGTATGACTA
13008071 ATATTATATTTGCATGAT
1 ATATT-TATTTGCATGAT
*
13008089 A-ATTTATTTGTC-TAAT
1 ATATTTATTTG-CATGAT
*
13008105 ATATTTGTTTGCATGAT
1 ATATTTATTTGCATGAT
13008122 TGATATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 11 0.41
17 15 0.56
18 1 0.04
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
ATATTTATTTGCATGAT
Found at i:13008141 original size:21 final size:21
Alignment explanation
Indices: 13008103--13008164 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
13008093 TATTTGTCTA
* *
13008103 ATATATTTGTTTGCATGATTG
1 ATATATTTATTTACATGATTG
* *
13008124 ATATATTTATTTATATGATTT
1 ATATATTTATTTACATGATTG
*
13008145 AT-TAATATATTTACATGATT
1 ATAT-ATTTATTTACATGATT
13008165 ATTAAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 1 0.03
21 33 0.97
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (21 bp):
ATATATTTATTTACATGATTG
Found at i:13008146 original size:13 final size:12
Alignment explanation
Indices: 13008124--13008157 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
13008114 TGCATGATTG
*
13008124 ATATATTTATTT
1 ATATATTTATTA
13008136 ATATGATTTATTA
1 ATAT-ATTTATTA
13008149 ATATATTTA
1 ATATATTTA
13008158 CATGATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (12 bp):
ATATATTTATTA
Found at i:13008186 original size:24 final size:24
Alignment explanation
Indices: 13008124--13008261 Score: 105
Period size: 24 Copynumber: 5.9 Consensus size: 24
13008114 TGCATGATTG
**
13008124 ATATATTTATTTATATGATTTATTA
1 ATATATTTATTCGTATGA-TTATTA
13008149 ATATATTTA--C--ATGATTATTA
1 ATATATTTATTCGTATGATTATTA
*
13008169 AAATATTTATTCGTATGATTA-T-
1 ATATATTTATTCGTATGATTATTA
*
13008191 ATTTAATTTGATTAC--ATGATTATTA
1 ATAT-ATTT-ATT-CGTATGATTATTA
*
13008216 ATATATTTATTTGCT-TGATTATTA
1 ATATATTTATTCG-TATGATTATTA
* *
13008240 ATATATTTATTTGCATGATTAT
1 ATATATTTATTCGTATGATTAT
13008262 ATATTTAATT
Statistics
Matches: 93, Mismatches: 7, Indels: 27
0.73 0.06 0.21
Matches are distributed among these distances:
20 14 0.15
21 4 0.04
22 3 0.03
23 15 0.16
24 44 0.47
25 13 0.14
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (24 bp):
ATATATTTATTCGTATGATTATTA
Found at i:13008212 original size:47 final size:45
Alignment explanation
Indices: 13008126--13008248 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 45
13008116 CATGATTGAT
*
13008126 ATATTTATTTATATGATTTATTAATATATTTACATGATTATTAAA
1 ATATTTATTCATATGATTTATTAATATATTTACATGATTATTAAA
* * *
13008171 ATATTTATTCGTATGATTATATTTAATTTGA-TTACATGATTATTAAT
1 ATATTTATTCATATGATT-TA-TTAATAT-ATTTACATGATTATTAAA
13008218 ATATTTATTTGC-T-TGA-TTATTAATATATTTA
1 ATATTTA-TT-CATATGATTTATTAATATATTTA
13008249 TTTGCATGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
43 1 0.01
44 9 0.13
45 18 0.27
46 3 0.04
47 31 0.46
48 4 0.06
49 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (45 bp):
ATATTTATTCATATGATTTATTAATATATTTACATGATTATTAAA
Found at i:13008263 original size:20 final size:20
Alignment explanation
Indices: 13008103--13008281 Score: 74
Period size: 24 Copynumber: 8.1 Consensus size: 20
13008093 TATTTGTCTA
*
13008103 ATATATTTGTTTGCATGATT
1 ATATATTTATTTGCATGATT
**
13008123 GATATATTTATTTATATGATT
1 -ATATATTTATTTGCATGATT
* *
13008144 -TATTAATATATTTACATGATT
1 ATA-T-ATTTATTTGCATGATT
* *
13008165 ATTAAAATATTTATTCGTATGATT
1 A-T---ATATTTATTTGCATGATT
*
13008189 ATATTTAATTTGATTACATG-ATTATT
1 ATA--T-ATTT-ATT---TGCATGATT
*
13008215 AATATATTTATTTGCTTGATTATT
1 -ATATATTTATTTGC---ATGATT
13008239 AATATATTTATTTGCATGATT
1 -ATATATTTATTTGCATGATT
* *
13008260 ATATATTTAATTGCATGTTT
1 ATATATTTATTTGCATGATT
13008280 AT
1 AT
13008282 TTGTATGATT
Statistics
Matches: 125, Mismatches: 14, Indels: 39
0.70 0.08 0.22
Matches are distributed among these distances:
19 2 0.02
20 24 0.19
21 36 0.29
22 1 0.01
23 9 0.07
24 41 0.33
25 2 0.02
26 6 0.05
27 4 0.03
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (20 bp):
ATATATTTATTTGCATGATT
Found at i:13008281 original size:32 final size:32
Alignment explanation
Indices: 13008245--13008538 Score: 251
Period size: 32 Copynumber: 9.5 Consensus size: 32
13008235 TATTAATATA
13008245 TTTATTTGCATGATTATATATTTAATTGCATG
1 TTTATTTGCATGATTATATATTTAATTGCATG
* *
13008277 TTTATTTGTATGATTATATATTTAGTTGCA--
1 TTTATTTGCATGATTATATATTTAATTGCATG
* *
13008307 TAT-TTTGCATGGTT-TATA--T-ATT--A--
1 TTTATTTGCATGATTATATATTTAATTGCATG
* * *
13008330 -TTATTTGTATGATTATATATTTAATTACATA
1 TTTATTTGCATGATTATATATTTAATTGCATG
13008361 TTTATTTGCATGATTATATATTTAATTGCATG
1 TTTATTTGCATGATTATATATTTAATTGCATG
* * *
13008393 TCTAATTGCATGATTAT-TAATTT-ATT-TATTG
1 TTTATTTGCATGATTATAT-ATTTAATTGCA-TG
* * *
13008424 TGTGA-TTGCATGATTATATATTTAATTGTATA
1 T-TTATTTGCATGATTATATATTTAATTGCATG
* *
13008456 TTTATTTACATGGTTTATATATTTAATTGCATG
1 TTTATTTGCAT-GATTATATATTTAATTGCATG
* * *
13008489 TTTATTTGTATGATTTATATATTTGATTGCATA
1 TTTATTTGCATGA-TTATATATTTAATTGCATG
* *
13008522 TCTATTTACATGATTAT
1 TTTATTTGCATGATTAT
13008539 TAATTTATTT
Statistics
Matches: 212, Mismatches: 31, Indels: 38
0.75 0.11 0.14
Matches are distributed among these distances:
22 1 0.00
23 10 0.05
24 4 0.02
25 2 0.01
26 2 0.01
27 3 0.01
28 4 0.02
29 10 0.05
30 3 0.01
31 25 0.12
32 92 0.43
33 56 0.26
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (32 bp):
TTTATTTGCATGATTATATATTTAATTGCATG
Found at i:13008376 original size:20 final size:20
Alignment explanation
Indices: 13008353--13008392 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13008343 TATATATTTA
*
13008353 ATTACATATTTATTTGCATG
1 ATTACATATTTAATTGCATG
*
13008373 ATTATATATTTAATTGCATG
1 ATTACATATTTAATTGCATG
13008393 TCTAATTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
ATTACATATTTAATTGCATG
Found at i:13008418 original size:84 final size:83
Alignment explanation
Indices: 13008240--13008419 Score: 231
Period size: 84 Copynumber: 2.2 Consensus size: 83
13008230 TTGATTATTA
* * * *
13008240 ATAT-ATTTATTTGCATGATTATATATTTAATTGCATGTTTATTTGTATGATTATATATTTAGTT
1 ATATAATTTATTTGCATGATTATATATTTAATTACATATTTATTTGCATGATTATATATTTAATT
*
13008304 GCATATTTTGCATGGTTT
66 GCATATTTTGCATGGATT
* *
13008322 ATATATTATTATTTGTATGATTATATATTTAATTACATATTTATTTGCATGATTATATATTTAAT
1 ATATAAT-TTATTTGCATGATTATATATTTAATTACATATTTATTTGCATGATTATATATTTAAT
*
13008387 TGCATGTCTAATTGCAT-GATT
65 TGCATAT-T--TTGCATGGATT
13008408 AT-TAATTTATTT
1 ATATAATTTATTT
13008420 ATTGTGTGAT
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
82 4 0.05
83 1 0.01
84 64 0.76
85 4 0.05
86 5 0.06
87 6 0.07
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (83 bp):
ATATAATTTATTTGCATGATTATATATTTAATTACATATTTATTTGCATGATTATATATTTAATT
GCATATTTTGCATGGATT
Found at i:13008477 original size:21 final size:20
Alignment explanation
Indices: 13008452--13008493 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
13008442 TATTTAATTG
*
13008452 TATATTTATTTACATGGTTTA
1 TATATTTAATTACAT-GTTTA
*
13008473 TATATTTAATTGCATGTTTA
1 TATATTTAATTACATGTTTA
13008493 T
1 T
13008494 TTGTATGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.57
Consensus pattern (20 bp):
TATATTTAATTACATGTTTA
Found at i:13008478 original size:33 final size:33
Alignment explanation
Indices: 13008338--13008536 Score: 164
Period size: 33 Copynumber: 6.2 Consensus size: 33
13008328 TATTATTTGT
* *
13008338 ATGA-TTATATATTTAATTACATATTTATTTGC
1 ATGATTTATATATTTAATTGCATATTTATTTAC
* * * *
13008370 ATGA-TTATATATTTAATTGCATGTCTAATTGC
1 ATGATTTATATATTTAATTGCATATTTATTTAC
* *
13008402 ATGA-TTAT-TAATTT-ATT---TATTGTGTGATTGC
1 ATGATTTATAT-ATTTAATTGCATATT-TAT--TTAC
*
13008433 ATGA-TTATATATTTAATTGTATATTTATTTAC
1 ATGATTTATATATTTAATTGCATATTTATTTAC
* * **
13008465 ATGGTTTATATATTTAATTGCATGTTTATTTGT
1 ATGATTTATATATTTAATTGCATATTTATTTAC
* *
13008498 ATGATTTATATATTTGATTGCATATCTATTTAC
1 ATGATTTATATATTTAATTGCATATTTATTTAC
13008531 ATGATT
1 ATGATT
13008537 ATTAATTTAT
Statistics
Matches: 136, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
28 2 0.01
29 1 0.01
31 20 0.15
32 50 0.37
33 57 0.42
34 2 0.01
35 4 0.03
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (33 bp):
ATGATTTATATATTTAATTGCATATTTATTTAC
Found at i:13008478 original size:116 final size:115
Alignment explanation
Indices: 13008240--13008493 Score: 259
Period size: 116 Copynumber: 2.2 Consensus size: 115
13008230 TTGATTATTA
* * *
13008240 ATATATTTATTTGCATGATTATATATTTAATTGCATGTTTATTTGTATGATTATATATTTAGTTG
1 ATATATTTATTTGCATGATTATATATTTAATTGCATGTCTAATTGCATGATTATATATTTAGTTG
* * * * *
13008305 CATATTTTGCATGGTTTATATATTATTATTTGTATGATTATATATTTAATT
66 -ATATATTGCATGGATTATATATTATTAATTGTATGATTATATAATGAATT
*
13008356 ACATATTTATTTGCATGATTATATATTTAATTGCATGTCTAATTGCATGATTATTAATTTATTTA
1 ATATATTTATTTGCATGATTATATATTTAATTGCATGTCTAATTGCATGATTA-T-A--TATTTA
* * **
13008421 -TTG-TGTGATTGCAT-GATTATATA-T-TTAATTGTAT-ATTTATTTACATGGTTT
62 GTTGATAT-ATTGCATGGATTATATATTATTAATTGTATGA-TTATATA-ATGAATT
* *
13008472 ATATATTTAATTGCATGTTTAT
1 ATATATTTATTTGCATGATTAT
13008494 TTGTATGATT
Statistics
Matches: 115, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
114 1 0.01
115 15 0.13
116 72 0.63
117 11 0.10
118 7 0.06
119 3 0.03
120 6 0.05
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (115 bp):
ATATATTTATTTGCATGATTATATATTTAATTGCATGTCTAATTGCATGATTATATATTTAGTTG
ATATATTGCATGGATTATATATTATTAATTGTATGATTATATAATGAATT
Found at i:13008480 original size:17 final size:16
Alignment explanation
Indices: 13008437--13008482 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
13008427 GATTGCATGA
*
13008437 TTATATATTTAATTGT
1 TTATATATTTAATGGT
* *
13008453 ATATTTATTTACATGGT
1 TTATATATTTA-ATGGT
13008470 TTATATATTTAAT
1 TTATATATTTAAT
13008483 TGCATGTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (16 bp):
TTATATATTTAATGGT
Found at i:13008626 original size:28 final size:28
Alignment explanation
Indices: 13008534--13008627 Score: 68
Period size: 28 Copynumber: 3.3 Consensus size: 28
13008524 TATTTACATG
*
13008534 ATTATTAATTTATTTATTTATTTGTGTAATT
1 ATTATT-ATTTATTTATTTATTTAT-T-ATT
* * * *
13008565 A-TATGA-TTATTAATATATTTATT-TGC
1 ATTATTATTTATTTATTTATTTATTAT-T
**
13008591 ATGGTTATTTATTTATTTATTTATTATT
1 ATTATTATTTATTTATTTATTTATTATT
13008619 ATTATTATT
1 ATTATTATT
13008628 ATTACATGAT
Statistics
Matches: 46, Mismatches: 13, Indels: 11
0.66 0.19 0.16
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 3 0.07
28 35 0.76
29 2 0.04
30 3 0.07
31 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.63
Consensus pattern (28 bp):
ATTATTATTTATTTATTTATTTATTATT
Found at i:13008846 original size:20 final size:20
Alignment explanation
Indices: 13008821--13008858 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13008811 TATATCGTAT
13008821 TTTTATATTATTACATGACA
1 TTTTATATTATTACATGACA
*
13008841 TTTTATATTATTGCATGA
1 TTTTATATTATTACATGA
13008859 TAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTTATATTATTACATGACA
Found at i:13008867 original size:57 final size:51
Alignment explanation
Indices: 13008797--13008912 Score: 124
Period size: 57 Copynumber: 2.2 Consensus size: 51
13008787 TATTTGATTT
* * * *
13008797 CATGATTATATATTTATATCGTATTTTTATATTATTACATGACATTTTATATTATTG
1 CATGATAAAATATTTATATCGTA-TTATATATT-TT-CATG--ATTGT-TATTATTG
* *
13008854 CATGATAAAATATTTGTATGGTATTATATATTTTCATGATTGTTATTATTG
1 CATGATAAAATATTTATATCGTATTATATATTTTCATGATTGTTATTATTG
13008905 CATGATAA
1 CATGATAA
13008913 TTAATATATT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
51 16 0.30
52 4 0.08
54 4 0.08
55 2 0.04
56 8 0.15
57 19 0.36
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (51 bp):
CATGATAAAATATTTATATCGTATTATATATTTTCATGATTGTTATTATTG
Found at i:13009965 original size:30 final size:30
Alignment explanation
Indices: 13009909--13009975 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
13009899 AAAGAAAATA
13009909 AAAATTTTAAAAAAATAACTAGAAATAAAAAC
1 AAAATTTTAAAAAAATAAC-A-AAATAAAAAC
* *
13009941 AAAATTTTAAAAACTATAAC-AAATAAAAAT
1 AAAATTTTAAAAA-AATAACAAAATAAAAAC
13009971 AAAAT
1 AAAAT
13009976 AAAATAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 14 0.44
32 13 0.41
33 5 0.16
ACGTcount: A:0.69, C:0.06, G:0.01, T:0.24
Consensus pattern (30 bp):
AAAATTTTAAAAAAATAACAAAATAAAAAC
Found at i:13010824 original size:21 final size:23
Alignment explanation
Indices: 13010798--13010842 Score: 76
Period size: 21 Copynumber: 2.0 Consensus size: 23
13010788 AAATTTCTCA
13010798 TATTTTCCTTTTTT-ATT-TTTT
1 TATTTTCCTTTTTTGATTATTTT
13010819 TATTTTCCTTTTTTGATTATTTT
1 TATTTTCCTTTTTTGATTATTTT
13010842 T
1 T
13010843 TACTCTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 14 0.64
22 3 0.14
23 5 0.23
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.78
Consensus pattern (23 bp):
TATTTTCCTTTTTTGATTATTTT
Found at i:13011746 original size:18 final size:18
Alignment explanation
Indices: 13011698--13011747 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
13011688 TTAATATGAA
*
13011698 ATTTAATA-TAT-TAATT
1 ATTTAATATTATATAAGT
* * *
13011714 TTTTTATATTTTATAAGT
1 ATTTAATATTATATAAGT
13011732 ATTTAATATTATATAA
1 ATTTAATATTATATAA
13011748 TATGATCTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
16 6 0.24
17 2 0.08
18 17 0.68
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTAATATTATATAAGT
Found at i:13014312 original size:23 final size:21
Alignment explanation
Indices: 13014260--13014310 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
13014250 CAAAACACTG
13014260 TATATATATGTCCTATATGGT
1 TATATATATGTCCTATATGGT
*
13014281 TATATATATGTCCTATTTGGT
1 TATATATATGTCCTATATGGT
13014302 TATATATAT
1 TATATATAT
13014311 ATATATGCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (21 bp):
TATATATATGTCCTATATGGT
Found at i:13017434 original size:2 final size:2
Alignment explanation
Indices: 13017427--13017464 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
13017417 TACTTTAATC
* *
13017427 CT CT CT CT TT CT CT CT CT GT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13017465 TCGAGCGGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.53
Consensus pattern (2 bp):
CT
Found at i:13019740 original size:2 final size:2
Alignment explanation
Indices: 13019735--13019766 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13019725 ATGTGTGTAC
13019735 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13019767 TGTGAAACTG
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13028249 original size:2 final size:2
Alignment explanation
Indices: 13028244--13028276 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13028234 ACACACACAC
13028244 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13028277 AGAGGGATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13029478 original size:19 final size:19
Alignment explanation
Indices: 13029454--13029514 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
13029444 AAGGTTTTAT
13029454 TTGATTGTTTTCTAATTAC
1 TTGATTGTTTTCTAATTAC
* * * *
13029473 TTGA-T-TTCTCCACTTAA
1 TTGATTGTTTTCTAATTAC
13029490 TTGATTGTTTTCTAATTAC
1 TTGATTGTTTTCTAATTAC
13029509 TTGATT
1 TTGATT
13029515 TCTCCACTAT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 12 0.38
18 2 0.06
19 18 0.56
ACGTcount: A:0.21, C:0.13, G:0.10, T:0.56
Consensus pattern (19 bp):
TTGATTGTTTTCTAATTAC
Found at i:13029501 original size:36 final size:36
Alignment explanation
Indices: 13029454--13029522 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
13029444 AAGGTTTTAT
13029454 TTGATTGTTTTCTAATTACTTGATTTCTCCACTTAA
1 TTGATTGTTTTCTAATTACTTGATTTCTCCACTTAA
13029490 TTGATTGTTTTCTAATTACTTGATTTCTCCACT
1 TTGATTGTTTTCTAATTACTTGATTTCTCCACT
13029523 ATTTGTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (36 bp):
TTGATTGTTTTCTAATTACTTGATTTCTCCACTTAA
Found at i:13030318 original size:6 final size:6
Alignment explanation
Indices: 13030307--13030336 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
13030297 ATTATTCATG
*
13030307 CTCGAA CTCGAA CTCGAA CTCGGA CTCGAA
1 CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA
13030337 ATATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (6 bp):
CTCGAA
Found at i:13038932 original size:19 final size:19
Alignment explanation
Indices: 13038896--13038940 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
13038886 AAAAAAAAGA
*
13038896 AAGAAAAAGCAAGCACAAG
1 AAGAAAAAGCAACCACAAG
13038915 AAGAAAAA-CAACCAACAA-
1 AAGAAAAAGCAACC-ACAAG
13038933 AA-AAAAAG
1 AAGAAAAAG
13038941 GGAAGAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.71, C:0.16, G:0.13, T:0.00
Consensus pattern (19 bp):
AAGAAAAAGCAACCACAAG
Found at i:13039078 original size:23 final size:23
Alignment explanation
Indices: 13039052--13039099 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
13039042 AGAAACAAGC
*
13039052 AAAAAAACTAG-AGAAAAAAAATA
1 AAAAAAACCAGTA-AAAAAAAATA
*
13039075 AAAAAAACCAGTAACAAAAAATA
1 AAAAAAACCAGTAAAAAAAAATA
13039098 AA
1 AA
13039100 GCTAGACAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.77, C:0.08, G:0.06, T:0.08
Consensus pattern (23 bp):
AAAAAAACCAGTAAAAAAAAATA
Found at i:13039186 original size:22 final size:22
Alignment explanation
Indices: 13039136--13039186 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
13039126 AAAAAGTTTG
*
13039136 AAAAAAAACTAAACAATAGAAG
1 AAAAAAAACTAAACAATAGAAA
** * *
13039158 AGGAAAAAGTAAAGAATAGAAA
1 AAAAAAAACTAAACAATAGAAA
13039180 AAAAAAA
1 AAAAAAA
13039187 CAACAAAAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.75, C:0.04, G:0.14, T:0.08
Consensus pattern (22 bp):
AAAAAAAACTAAACAATAGAAA
Found at i:13039993 original size:21 final size:20
Alignment explanation
Indices: 13039932--13039993 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 20
13039922 TGCAAGTAAC
*
13039932 AAAAAAGGAATATAAAAAAA
1 AAAAAAGGAATATAATAAAA
* *
13039952 AAAAAAGAGAATGTAAGATAATA
1 AAAAAAG-GAATAT-A-ATAAAA
13039975 AAAAAAGTGAATATAATAA
1 AAAAAAG-GAATATAATAA
13039994 GAAGAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 7 0.21
21 9 0.26
22 2 0.06
23 16 0.47
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (20 bp):
AAAAAAGGAATATAATAAAA
Found at i:13040052 original size:18 final size:18
Alignment explanation
Indices: 13040029--13040065 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
13040019 AAGCCTGTAT
13040029 TCAAATCCTTTTCATGTC
1 TCAAATCCTTTTCATGTC
13040047 TCAAATCCTTTTCATGTC
1 TCAAATCCTTTTCATGTC
13040065 T
1 T
13040066 ATCTTCAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.27, G:0.05, T:0.46
Consensus pattern (18 bp):
TCAAATCCTTTTCATGTC
Found at i:13043187 original size:18 final size:18
Alignment explanation
Indices: 13043162--13043198 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
13043152 GGGGGCACGT
13043162 AAAAAAAAGATGAAAAAAAC
1 AAAAAAAA-A-GAAAAAAAC
13043182 AAAAAAAAAGAAAAAAA
1 AAAAAAAAAGAAAAAAA
13043199 AGAAAAGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.86, C:0.03, G:0.08, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAAC
Found at i:13043188 original size:21 final size:19
Alignment explanation
Indices: 13043162--13043216 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 19
13043152 GGGGGCACGT
13043162 AAAAAAAAGATGAAAAAAACA
1 AAAAAAAAGA--AAAAAAACA
*
13043183 AAAAAAAAGAAAAAAAAGA
1 AAAAAAAAGAAAAAAAACA
13043202 AAAGGAAAAAGAAAA
1 AAA--AAAAAGAAAA
13043217 CTAGTTATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 11 0.35
21 20 0.65
ACGTcount: A:0.84, C:0.02, G:0.13, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAAACA
Found at i:13043195 original size:8 final size:9
Alignment explanation
Indices: 13043162--13043204 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
13043152 GGGGGCACGT
13043162 AAAAAAAAG
1 AAAAAAAAG
*
13043171 ATGAAAAAAACA
1 A--AAAAAAA-G
13043183 AAAAAAAAG
1 AAAAAAAAG
13043192 AAAAAAAAG
1 AAAAAAAAG
13043201 AAAA
1 AAAA
13043205 GGAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
9 14 0.48
10 7 0.24
11 7 0.24
12 1 0.03
ACGTcount: A:0.86, C:0.02, G:0.09, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:13043195 original size:15 final size:15
Alignment explanation
Indices: 13043162--13043211 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
13043152 GGGGGCACGT
13043162 AAAAAAAAGATGAAAA-
1 AAAAAAAAGA--AAAAG
*
13043178 AAACAAAA-AAAAAG
1 AAAAAAAAGAAAAAG
*
13043192 AAAAAAAAGAAAAGG
1 AAAAAAAAGAAAAAG
13043207 AAAAA
1 AAAAA
13043212 GAAAACTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
15 11 0.38
16 7 0.24
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:13043943 original size:240 final size:239
Alignment explanation
Indices: 13043520--13044006 Score: 915
Period size: 240 Copynumber: 2.0 Consensus size: 239
13043510 TTTATCCTTT
13043520 GCTATTCTTTTTGTTAGATTTTCTTTATTATGCAAATTGAATCTTAATTTTACATAATTTTAATT
1 GCTATTCTTTTTGTTAGATTTTCTTTATTATGCAAATTGAATCTTAATTTTACATAATTTTAATT
13043585 CGCAAGGCCTTCGAACAAGATAATTTTCAACATTTCCTAATTAAAGAGAAATCATATTTTGATCC
66 CGCAAGGCCTTCGAACAAGATAATTTTCAACATTTCCTAATTAAAGAGAAATCATATTTTGATCC
*
13043650 ATTATAACTTCTTTTAATAATTTGTTTGTTTCTCTTTATTGACCTTTTAATCTTTTACTTACTTC
131 ATTATAACTTCTTTTAATAATTTGTTTGTTTCTCTTTATTGACCTTTTAATCTTTTACATACTTC
*
13043715 CTTGATGGATAGAATGTATCAATTTTAGGTAGAGAGAGTAAAGCA
196 CTTGATGGATAAAATGTATCAATTTTAGGTAGAGAGA-TAAAGCA
*
13043760 GCTATTCTTTTTGTTAGATTTTCTTTATTATGCAAATTGAATCTTAATTTTGCATAATTTTAATT
1 GCTATTCTTTTTGTTAGATTTTCTTTATTATGCAAATTGAATCTTAATTTTACATAATTTTAATT
*
13043825 CGCAAGGCCTTCGAACAAGATAATTTTCAACGTTTCCTAATTAAAGAGAAATCATATTTTGATCC
66 CGCAAGGCCTTCGAACAAGATAATTTTCAACATTTCCTAATTAAAGAGAAATCATATTTTGATCC
13043890 ATTATAACTTCTTTTAATAATTTGTTTGTTTCTCTTTATTGACCTTTTAATCTTTTACATACTTC
131 ATTATAACTTCTTTTAATAATTTGTTTGTTTCTCTTTATTGACCTTTTAATCTTTTACATACTTC
13043955 CTTGATGGATAAAATGTATCAATTTTAGGTAGAGAGATAAAGCA
196 CTTGATGGATAAAATGTATCAATTTTAGGTAGAGAGATAAAGCA
13043999 G-T-TTCTTT
1 GCTATTCTTT
13044007 CATTCATTAA
Statistics
Matches: 243, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
237 6 0.02
238 1 0.00
239 8 0.03
240 228 0.94
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (239 bp):
GCTATTCTTTTTGTTAGATTTTCTTTATTATGCAAATTGAATCTTAATTTTACATAATTTTAATT
CGCAAGGCCTTCGAACAAGATAATTTTCAACATTTCCTAATTAAAGAGAAATCATATTTTGATCC
ATTATAACTTCTTTTAATAATTTGTTTGTTTCTCTTTATTGACCTTTTAATCTTTTACATACTTC
CTTGATGGATAAAATGTATCAATTTTAGGTAGAGAGATAAAGCA
Found at i:13050567 original size:7 final size:7
Alignment explanation
Indices: 13050555--13050609 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
13050545 AGGTGAAGAA
13050555 AAAAAAG
1 AAAAAAG
13050562 AAAAAAG
1 AAAAAAG
*
13050569 -TAAAAG
1 AAAAAAG
*
13050575 -TAAAAG
1 AAAAAAG
*
13050581 AAAGAAG
1 AAAAAAG
13050588 AACAAAAG
1 AA-AAAAG
13050596 AAAAAAAG
1 -AAAAAAG
13050604 AAAAAA
1 AAAAAA
13050610 TGAGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 11 0.27
7 19 0.46
8 9 0.22
9 2 0.05
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:13051620 original size:33 final size:31
Alignment explanation
Indices: 13051528--13051623 Score: 95
Period size: 33 Copynumber: 3.0 Consensus size: 31
13051518 AAGTAGCATC
* *
13051528 AATAAGAATTTAAGTCTAG-TTAGTTGGCATT
1 AATAAAAATTTAA-TCTAGTTTAGTTGGTATT
* **
13051559 AATAAAAATTTAAGCCTAGTTTTTTTGGTACTT
1 AATAAAAATTTAA-TCTAGTTTAGTTGGTA-TT
*
13051592 AATGAAAATTTAATCTTAGTTTAGTTGGTATT
1 AATAAAAATTTAATC-TAGTTTAGTTGGTATT
13051624 TGTAAACGTT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
31 17 0.32
32 10 0.19
33 26 0.49
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (31 bp):
AATAAAAATTTAATCTAGTTTAGTTGGTATT
Found at i:13051820 original size:10 final size:10
Alignment explanation
Indices: 13051807--13051844 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
13051797 TTATCAACAA
13051807 AGTCAAAATT
1 AGTCAAAATT
*
13051817 AGTCAAACA-A
1 AGTCAAA-ATT
13051827 AGTCAAAATT
1 AGTCAAAATT
13051837 AGTCAAAA
1 AGTCAAAA
13051845 CTTTATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 1 0.04
10 22 0.92
11 1 0.04
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.21
Consensus pattern (10 bp):
AGTCAAAATT
Found at i:13051827 original size:20 final size:20
Alignment explanation
Indices: 13051802--13051843 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
13051792 AAACTTTATC
13051802 AACAAAGTCAAAATTAGTCA
1 AACAAAGTCAAAATTAGTCA
13051822 AACAAAGTCAAAATTAGTCA
1 AACAAAGTCAAAATTAGTCA
13051842 AA
1 AA
13051844 ACTTTATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.14, G:0.10, T:0.19
Consensus pattern (20 bp):
AACAAAGTCAAAATTAGTCA
Found at i:13052628 original size:62 final size:59
Alignment explanation
Indices: 13052562--13052759 Score: 142
Period size: 62 Copynumber: 3.3 Consensus size: 59
13052552 AATTGAATGG
13052562 GATTATTCAAGGTGTTTGTGGTCAAAAACACCTTGAATAATCCTCTTCAATTTTTATGAAAA
1 GATTATTCAAGGTGTTT-TGG-CAAAAACACCTTGAATAA-CCTCTTCAATTTTTATGAAAA
* * * * *
13052624 GATTATTGAATGTGTATTTGGCAAAAAAATTCTTG----ACC-CCTCAAATATTTTA--AAAA
1 GATTATTCAAGGTGT-TTTGGCAAAAACA-CCTTGAATAACCTCTTC-AAT-TTTTATGAAAA
* * * * * *
13052680 GATTATTCAAGGCGTTTTTTGCCAGAAACACCTTGAATAACCTAATTTAATTTTT-TGTTAAA
1 GATTATTCAA-G-GTGTTTTGGCAAAAACACCTTGAATAACCT-CTTCAATTTTTATG-AAAA
13052742 GATTATTCAAGGTGTTTT
1 GATTATTCAAGGTGTTTT
13052760 CTGACCAAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
56 20 0.19
57 15 0.14
58 9 0.09
60 13 0.12
61 11 0.11
62 34 0.33
63 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (59 bp):
GATTATTCAAGGTGTTTTGGCAAAAACACCTTGAATAACCTCTTCAATTTTTATGAAAA
Found at i:13053793 original size:12 final size:13
Alignment explanation
Indices: 13053769--13053797 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13053759 TTTTTGCATG
13053769 AAAAGCCAGAGAA
1 AAAAGCCAGAGAA
13053782 AAAAGCCA-AGAA
1 AAAAGCCAGAGAA
13053794 AAAA
1 AAAA
13053798 CATGAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.69, C:0.14, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAGCCAGAGAA
Found at i:13055760 original size:34 final size:34
Alignment explanation
Indices: 13055722--13055794 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
13055712 GAATATCCAC
* *
13055722 CATTTCCAAAAAGTCATGACACTTATCGAAAATG
1 CATTTCCAAAAAGTCATAACACTTATCGAAAATA
***
13055756 CATTTTTGAAAAGTCATAACACTTATCGAAAATA
1 CATTTCCAAAAAGTCATAACACTTATCGAAAATA
13055790 CATTT
1 CATTT
13055795 TTAGAAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (34 bp):
CATTTCCAAAAAGTCATAACACTTATCGAAAATA
Found at i:13055795 original size:34 final size:35
Alignment explanation
Indices: 13055730--13055802 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 35
13055720 ACCATTTCCA
* *
13055730 AAAAGTCATGACACTTATCGAAAATGCATTTTT-G
1 AAAAGTCATAACACTTATCGAAAATACATTTTTAG
13055764 AAAAGTCATAACACTTATCGAAAATACATTTTTAG
1 AAAAGTCATAACACTTATCGAAAATACATTTTTAG
13055799 AAAA
1 AAAA
13055803 TGAAAAAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 31 0.86
35 5 0.14
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (35 bp):
AAAAGTCATAACACTTATCGAAAATACATTTTTAG
Found at i:13057210 original size:34 final size:32
Alignment explanation
Indices: 13057167--13057261 Score: 95
Period size: 34 Copynumber: 2.9 Consensus size: 32
13057157 CTTCCAAAAC
*
13057167 TTTATTTTTTTTTAATTTTAATTTGTTTTATGTT
1 TTTATTTTTTTTTAATTTTAATTTG-TTTA-CTT
* * * *
13057201 TTTATTTTTTATTAAATCTATTTTGTTTACTT
1 TTTATTTTTTTTTAATTTTAATTTGTTTACTT
13057233 TTTATTTTGTTTTTTAATTTT-ATTT-TTTA
1 TTTA-TTT-TTTTTTAATTTTAATTTGTTTA
13057262 TTAAATAAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
32 10 0.20
33 10 0.20
34 30 0.60
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (32 bp):
TTTATTTTTTTTTAATTTTAATTTGTTTACTT
Found at i:13057546 original size:11 final size:11
Alignment explanation
Indices: 13057530--13057554 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13057520 TGGGGTTTCC
13057530 TTTTTTCTTTT
1 TTTTTTCTTTT
13057541 TTTTTTCTTTT
1 TTTTTTCTTTT
13057552 TTT
1 TTT
13057555 AATTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:13057733 original size:22 final size:22
Alignment explanation
Indices: 13057705--13057747 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13057695 TTTTCTCTTT
13057705 TTTTTTTCA-ATTTTTATTTTTA
1 TTTTTTT-ATATTTTTATTTTTA
*
13057727 TTTTTTTATGTTTTTATTTTT
1 TTTTTTTATATTTTTATTTTT
13057748 TATTAAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTTTATATTTTTATTTTTA
Found at i:13058611 original size:6 final size:6
Alignment explanation
Indices: 13058602--13058642 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
13058592 ATATAAGTTA
13058602 TTATAT TTATAT TTATA- TT-TA- TTATAT TTATAT TTATAT TT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TT
13058643 TACTCTTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 4 0.12
6 25 0.76
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:13058625 original size:21 final size:21
Alignment explanation
Indices: 13058599--13058642 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
13058589 TACATATAAG
13058599 TTATTATATTTATATTTATAT
1 TTATTATATTTATATTTATAT
13058620 TTATTATATTTATATTTATAT
1 TTATTATATTTATATTTATAT
13058641 TT
1 TT
13058643 TACTCTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTATATTTATATTTATAT
Found at i:13058626 original size:15 final size:15
Alignment explanation
Indices: 13058608--13058638 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13058598 GTTATTATAT
13058608 TTATATTTATATTTA
1 TTATATTTATATTTA
13058623 TTATATTTATATTTA
1 TTATATTTATATTTA
13058638 T
1 T
13058639 ATTTTACTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATATTTATATTTA
Found at i:13058702 original size:16 final size:17
Alignment explanation
Indices: 13058665--13058708 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
13058655 ATATAAAAGA
*
13058665 ATATAT-TTTATTGTTT
1 ATATATATTTATTATTT
13058681 AT-TATATTTA-TATTT
1 ATATATATTTATTATTT
13058696 ATATATA-TTATTA
1 ATATATATTTATTA
13058709 CTAAAGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
ATATATATTTATTATTT
Found at i:13059953 original size:15 final size:15
Alignment explanation
Indices: 13059933--13059962 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13059923 CCAATGCATA
13059933 ATTCCATCGGTAAAT
1 ATTCCATCGGTAAAT
*
13059948 ATTCCATTGGTAAAT
1 ATTCCATCGGTAAAT
13059963 TTTCAATTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (15 bp):
ATTCCATCGGTAAAT
Found at i:13059971 original size:15 final size:15
Alignment explanation
Indices: 13059941--13059975 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13059931 TAATTCCATC
*
13059941 GGTAAATATTCCATT
1 GGTAAATATTCAATT
*
13059956 GGTAAATTTTCAATT
1 GGTAAATATTCAATT
13059971 GGTAA
1 GGTAA
13059976 TTGCATCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (15 bp):
GGTAAATATTCAATT
Found at i:13060146 original size:46 final size:46
Alignment explanation
Indices: 13060061--13060156 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 46
13060051 ATAAAAATTG
* * * *
13060061 ATTTCCATTGGTATTTTGTTGGTATTCTCCGTTGGTAATCCATCTAT
1 ATTTCCATTGGTATTTTATTGGTAATCT-CGTTGATAATCCATCAAT
13060108 ATTT-CATTGGTATTCTTCATTGGTAATCT-GTTGATAATCCATCAAT
1 ATTTCCATTGGTATT-TT-ATTGGTAATCTCGTTGATAATCCATCAAT
13060154 ATT
1 ATT
13060157 CCGTCAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
46 28 0.65
47 6 0.14
48 9 0.21
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.48
Consensus pattern (46 bp):
ATTTCCATTGGTATTTTATTGGTAATCTCGTTGATAATCCATCAAT
Found at i:13061286 original size:14 final size:14
Alignment explanation
Indices: 13061267--13061294 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13061257 TTATTTGGTA
13061267 AGATTTTTAAGGCT
1 AGATTTTTAAGGCT
13061281 AGATTTTTAAGGCT
1 AGATTTTTAAGGCT
13061295 CCATAGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
AGATTTTTAAGGCT
Found at i:13061976 original size:14 final size:14
Alignment explanation
Indices: 13061957--13061991 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
13061947 TTATCAACTA
13061957 TTGAAGGTATGTCT
1 TTGAAGGTATGTCT
13061971 TTGAAGGTATGTCT
1 TTGAAGGTATGTCT
13061985 TTGAAGG
1 TTGAAGG
13061992 CTTCATCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.06, G:0.31, T:0.40
Consensus pattern (14 bp):
TTGAAGGTATGTCT
Found at i:13062745 original size:32 final size:33
Alignment explanation
Indices: 13062680--13062747 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
13062670 CAAATCAAGC
*
13062680 AATCATGCAATAATTAGAAATATCATGCAAAAA
1 AATCATGCAATAAATAGAAATATCATGCAAAAA
* * *
13062713 AATCATTCAATAAATATAAA-ATCATGCCAAAA
1 AATCATGCAATAAATAGAAATATCATGCAAAAA
13062745 AAT
1 AAT
13062748 AAAAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.56, C:0.13, G:0.06, T:0.25
Consensus pattern (33 bp):
AATCATGCAATAAATAGAAATATCATGCAAAAA
Found at i:13062747 original size:20 final size:19
Alignment explanation
Indices: 13062709--13062754 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
13062699 ATATCATGCA
* *
13062709 AAAAAATCATTCAATAAAT
1 AAAAAATCATCCAAAAAAT
*
13062728 ATAAAATCATGCCAAAAAAT
1 AAAAAATCAT-CCAAAAAAT
13062748 AAAAAAT
1 AAAAAAT
13062755 AAACATGCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.65, C:0.11, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAAAATCATCCAAAAAAT
Found at i:13062752 original size:19 final size:18
Alignment explanation
Indices: 13062710--13062752 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
13062700 TATCATGCAA
* *
13062710 AAAAATCATTCAATAAAT
1 AAAAATCATCCAAAAAAT
13062728 ATAAAATCATGCCAAAAAAT
1 A-AAAATCAT-CCAAAAAAT
13062748 AAAAA
1 AAAAA
13062753 ATAAACATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 12 0.57
20 8 0.38
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.21
Consensus pattern (18 bp):
AAAAATCATCCAAAAAAT
Found at i:13063037 original size:24 final size:23
Alignment explanation
Indices: 13062984--13063036 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
13062974 TAATATCAAA
* *
13062984 ATAAAAACATGCAATTAAATATT
1 ATAAAAACATGCAAATAAATACT
13063007 ATAAAAATCATGCAAATAAA-ACT
1 ATAAAAA-CATGCAAATAAATACT
13063030 ATAAAAA
1 ATAAAAA
13063037 AAATCTTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.25
Consensus pattern (23 bp):
ATAAAAACATGCAAATAAATACT
Found at i:13063120 original size:22 final size:23
Alignment explanation
Indices: 13063081--13063128 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
13063071 CACAATTAAT
13063081 AAAATCATAAAATAAAATAACAAA
1 AAAATCATAAAATAAAATAA-AAA
*
13063105 AAAATCA-AGAAT-AAATAAAAA
1 AAAATCATAAAATAAAATAAAAA
13063126 AAA
1 AAA
13063129 GGTCAAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 6 0.26
23 4 0.17
24 7 0.30
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (23 bp):
AAAATCATAAAATAAAATAAAAA
Found at i:13064150 original size:6 final size:6
Alignment explanation
Indices: 13064126--13064235 Score: 89
Period size: 6 Copynumber: 18.5 Consensus size: 6
13064116 CTTTAACTAA
* * * * *
13064126 TAAAA- TAAAAT TCAAAAT TAAAAT TAGAAT TAGAAT TAGAAT CAAAAC
1 TAAAAT TAAAAT T-AAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
* * * * * *
13064174 TAGAAT TAATAT TAAAAC TAAAAT TAAAA- TAAAAT CAAAAT CAAAGT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
*
13064221 TAAAAT TAAGAT TAA
1 TAAAAT TAAAAT TAA
13064236 GATTTTCAAG
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
5 10 0.12
6 69 0.81
7 6 0.07
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.28
Consensus pattern (6 bp):
TAAAAT
Found at i:13064503 original size:37 final size:37
Alignment explanation
Indices: 13064461--13064616 Score: 163
Period size: 37 Copynumber: 4.2 Consensus size: 37
13064451 ACTTTAAATG
* *
13064461 AAATAAAATACTCTTCCACTAAGGCATCAACTTTGAA
1 AAATAAAATACTCTTCCACTAAGACTTCAACTTTGAA
** * * *
13064498 AAATAAGGTACTTTTCCACCAAAACTTCAACTTTGAA
1 AAATAAAATACTCTTCCACTAAGACTTCAACTTTGAA
* * * *
13064535 AAATAAAATACTCATCCAC-AGAGGCTTTAACTTTAAAAA
1 AAATAAAATACTCTTCCACTA-AGACTTCAACTTT--GAA
13064574 AAATAAAATACTCTTCCACTAAGACTTCAAC-TTGTAA
1 AAATAAAATACTCTTCCACTAAGACTTCAACTTTG-AA
13064611 AAATAA
1 AAATAA
13064617 CGTACTCCTC
Statistics
Matches: 95, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
36 1 0.01
37 63 0.66
38 2 0.02
39 28 0.29
40 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28
Consensus pattern (37 bp):
AAATAAAATACTCTTCCACTAAGACTTCAACTTTGAA
Found at i:13064603 original size:76 final size:76
Alignment explanation
Indices: 13064461--13064647 Score: 202
Period size: 76 Copynumber: 2.5 Consensus size: 76
13064451 ACTTTAAATG
* * * * ** *
13064461 AAATAAAATACTCTTCCACTA-AGGCATCAACTTT--GAAAAATAAGGTACTTTTCCACCAAAAC
1 AAATAAAATACTCATCCAC-AGAGGCTTTAACTTTAAAAAAAATAAAATACTCTTCCACCAAAAC
13064523 TTCAACTT-TGAA
65 TTCAACTTGT-AA
* *
13064535 AAATAAAATACTCATCCACAGAGGCTTTAACTTTAAAAAAAATAAAATACTCTTCCACTAAGACT
1 AAATAAAATACTCATCCACAGAGGCTTTAACTTTAAAAAAAATAAAATACTCTTCCACCAAAACT
13064600 TCAACTTGTAA
66 TCAACTTGTAA
** * **
13064611 AAATAACGTACTCCTCCATTGAGGCTTTAACTTTAAA
1 AAATAAAATACTCATCCACAGAGGCTTTAACTTTAAA
13064648 TAAATGCTCC
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
73 1 0.01
74 29 0.31
76 64 0.67
77 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (76 bp):
AAATAAAATACTCATCCACAGAGGCTTTAACTTTAAAAAAAATAAAATACTCTTCCACCAAAACT
TCAACTTGTAA
Found at i:13064770 original size:48 final size:45
Alignment explanation
Indices: 13064708--13064829 Score: 154
Period size: 48 Copynumber: 2.6 Consensus size: 45
13064698 AATGCTTCTT
* * **
13064708 TTTAACGAAGGCTTGAAACTTTAAAATTCATGTCCAAGAAAGCTC
1 TTTAACAAAAGCTTGAAACTTTAAAATTCATAACCAAGAAAGCTC
*
13064753 TTTCTCAACAAAAGCTTGAAACCTTAAAATTCATAACCAAGAAAGCTC
1 -TT-T-AACAAAAGCTTGAAACTTTAAAATTCATAACCAAGAAAGCTC
* *
13064801 TTTAACCAAGGCTTGAAACTTTAAAATTC
1 TTTAACAAAAGCTTGAAACTTTAAAATTC
13064830 TTACCTTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
45 23 0.35
46 3 0.05
47 3 0.05
48 37 0.56
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (45 bp):
TTTAACAAAAGCTTGAAACTTTAAAATTCATAACCAAGAAAGCTC
Found at i:13064957 original size:13 final size:13
Alignment explanation
Indices: 13064939--13064964 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13064929 TTTTTCAAAC
13064939 ATATACAATGAAT
1 ATATACAATGAAT
13064952 ATATACAATGAAT
1 ATATACAATGAAT
13064965 GGAAAGATTT
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:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
ATATACAATGAAT
Found at i:13065992 original size:23 final size:21
Alignment explanation
Indices: 13065961--13066006 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
13065951 TTAAGTTTTC
13065961 TTTTTTTCTCATTTTTTTGGTT
1 TTTTTTTCT-ATTTTTTTGGTT
* *
13065983 TTTTTGTTCTTTTTTTTTTGTT
1 TTTTT-TTCTATTTTTTTGGTT
13066005 TT
1 TT
13066007 GCACATGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.83
Consensus pattern (21 bp):
TTTTTTTCTATTTTTTTGGTT
Found at i:13066330 original size:13 final size:13
Alignment explanation
Indices: 13066312--13066341 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13066302 TTTTTTTTTA
13066312 TCTCTCTCTCTTC
1 TCTCTCTCTCTTC
*
13066325 TCTCTCTCTCTTT
1 TCTCTCTCTCTTC
13066338 TCTC
1 TCTC
13066342 ATCATACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (13 bp):
TCTCTCTCTCTTC
Found at i:13066332 original size:15 final size:15
Alignment explanation
Indices: 13066312--13066341 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13066302 TTTTTTTTTA
13066312 TCTCTCTCTCTTCTC
1 TCTCTCTCTCTTCTC
*
13066327 TCTCTCTCTTTTCTC
1 TCTCTCTCTCTTCTC
13066342 ATCATACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (15 bp):
TCTCTCTCTCTTCTC
Found at i:13069875 original size:19 final size:19
Alignment explanation
Indices: 13069829--13069889 Score: 79
Period size: 20 Copynumber: 3.2 Consensus size: 19
13069819 ATCAAGAATC
* *
13069829 AAATCATGCAATAATTAGA
1 AAATCATGCAATAAATATA
13069848 AATATCATGCAATAAATATA
1 AA-ATCATGCAATAAATATA
13069868 AAATCATGCCAA-AAATATA
1 AAATCATG-CAATAAATATA
13069887 AAA
1 AAA
13069890 AAATAAACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.47
20 20 0.53
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (19 bp):
AAATCATGCAATAAATATA
Found at i:13069929 original size:19 final size:19
Alignment explanation
Indices: 13069905--13069955 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
13069895 AACATGCAAA
**
13069905 AATCATGCAAATAATCCAT
1 AATCATGCAAATAATAAAT
* *
13069924 AATCATTCAATTAATAAAT
1 AATCATGCAAATAATAAAT
*
13069943 AGTCATGCAAATA
1 AATCATGCAAATA
13069956 TGTTATTAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (19 bp):
AATCATGCAAATAATAAAT
Found at i:13070207 original size:13 final size:14
Alignment explanation
Indices: 13070189--13070217 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13070179 ATTCACAATT
13070189 AATAAAAT-CCAAA
1 AATAAAATACCAAA
13070202 AATAAAATACCAAA
1 AATAAAATACCAAA
13070216 AA
1 AA
13070218 AGCCAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (14 bp):
AATAAAATACCAAA
Found at i:13071259 original size:6 final size:6
Alignment explanation
Indices: 13071248--13071337 Score: 83
Period size: 6 Copynumber: 15.2 Consensus size: 6
13071238 CCAATAAAAT
* * * * * *
13071248 AAATTA AAATTA AAATTA GAATTA GAATCA AAAATA GAATTA CAATTA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA
* * * *
13071296 AAACTA AAATTA AAA-TA AAATAA AAAATA AAGTTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA A
13071338 GATTTTCAAG
Statistics
Matches: 66, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
5 5 0.08
6 61 0.92
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (6 bp):
AAATTA
Found at i:13071843 original size:6 final size:6
Alignment explanation
Indices: 13071832--13071859 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
13071822 ATATCACCAA
13071832 AATCAT AATCAT AATCAT AATCAT AATC
1 AATCAT AATCAT AATCAT AATCAT AATC
13071860 CAACCTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
AATCAT
Found at i:13075692 original size:15 final size:15
Alignment explanation
Indices: 13075672--13075723 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
13075662 TTATTTAATT
13075672 TTATATTTATATATA
1 TTATATTTATATATA
*
13075687 TTATATTAATA-ATA
1 TTATATTTATATATA
13075701 TTATTATTTA-ATATA
1 TTA-TATTTATATATA
13075716 TTA-ATTTA
1 TTATATTTA
13075724 ATTAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 5 0.15
14 7 0.21
15 21 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATTTATATATA
Found at i:13075749 original size:29 final size:31
Alignment explanation
Indices: 13075674--13075750 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
13075664 ATTTAATTTT
*
13075674 ATATTTATATAT-A-TTATATTAATAATATT
1 ATATTTATATATAATTTATATTAATAATATC
13075703 ATTATTTAATATATTAATTTA-ATTAA-AATATC
1 A-TATTT-ATATA-TAATTTATATTAATAATATC
*
13075735 ATATTTATACATAATT
1 ATATTTATATATAATT
13075751 AAGATGTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
29 6 0.15
30 9 0.22
31 10 0.24
32 7 0.17
33 6 0.15
34 3 0.07
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (31 bp):
ATATTTATATATAATTTATATTAATAATATC
Found at i:13086934 original size:35 final size:35
Alignment explanation
Indices: 13086881--13086950 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
13086871 AACTTGTTTT
13086881 TTTTATATTATATGTTTTCAAACCAAAATTTATAA
1 TTTTATATTATATGTTTTCAAACCAAAATTTATAA
* * * *
13086916 TTTTATATTTTATTTTTTCAAACCAGAGTTTATAA
1 TTTTATATTATATGTTTTCAAACCAAAATTTATAA
13086951 GTATTTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (35 bp):
TTTTATATTATATGTTTTCAAACCAAAATTTATAA
Found at i:13086967 original size:35 final size:35
Alignment explanation
Indices: 13086881--13086967 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 35
13086871 AACTTGTTTT
*
13086881 TTTTAT-ATTATATGTTTTCAAACCAAAATTTATAA
1 TTTTATAATT-TATTTTTTCAAACCAAAATTTATAA
* * *
13086916 TTTTATATTTTATTTTTTCAAACCAGAGTTTATAA
1 TTTTATAATTTATTTTTTCAAACCAAAATTTATAA
13086951 GTATTT-TAATTT-TTTTT
1 -T-TTTATAATTTATTTTT
13086968 CAAGAAAGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
35 33 0.75
36 8 0.18
37 3 0.07
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (35 bp):
TTTTATAATTTATTTTTTCAAACCAAAATTTATAA
Found at i:13091406 original size:18 final size:17
Alignment explanation
Indices: 13091376--13091420 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
13091366 GCTGCCAGAC
13091376 TCACAAA-GTTCCAAATT
1 TCACAAAGGTTCCAAA-T
*
13091393 TCACAAAGGTTCCAGAT
1 TCACAAAGGTTCCAAAT
*
13091410 TCGCAAAGGTT
1 TCACAAAGGTT
13091421 TTAGATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (17 bp):
TCACAAAGGTTCCAAAT
Found at i:13091455 original size:19 final size:18
Alignment explanation
Indices: 13091419--13091474 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
13091409 TTCGCAAAGG
*
13091419 TTTTAGATTTGTAAAAAT
1 TTTTAGATTCGTAAAAAT
*
13091437 TTTTAGATTCGTAAAAAA
1 TTTTAGATTCGTAAAAAT
* **
13091455 TTTTAGGTTCACAAAAAT
1 TTTTAGATTCGTAAAAAT
13091473 TT
1 TT
13091475 CAGTATTGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTTAGATTCGTAAAAAT
Found at i:13091871 original size:46 final size:44
Alignment explanation
Indices: 13091821--13091926 Score: 122
Period size: 46 Copynumber: 2.4 Consensus size: 44
13091811 AGAAATTTCT
* * *
13091821 ATCTAAAATTTTAAAGATTCGCACTCAAAATATTTTAGAGATTCAC
1 ATCTAAAGTTTTAAAGATTCACACTCAAAA-A-ATTAGAGATTCAC
** * *
13091867 ATCTAAAGTTACAAAGATTCACATTCAAAAAATTAGAGATTCAT
1 ATCTAAAGTTTTAAAGATTCACACTCAAAAAATTAGAGATTCAC
*
13091911 ATCCAAAGTTTTAAAG
1 ATCTAAAGTTTTAAAG
13091927 GCTCTTTTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 24 0.48
45 1 0.02
46 25 0.50
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (44 bp):
ATCTAAAGTTTTAAAGATTCACACTCAAAAAATTAGAGATTCAC
Found at i:13092321 original size:24 final size:24
Alignment explanation
Indices: 13092294--13092344 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
13092284 TACTATGATT
*
13092294 CAAATTCATACCCCAACCATAATG
1 CAAATGCATACCCCAACCATAATG
* *
13092318 CAAATGCATGCCCCAACCATGATG
1 CAAATGCATACCCCAACCATAATG
13092342 CAA
1 CAA
13092345 GTGGAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.18
Consensus pattern (24 bp):
CAAATGCATACCCCAACCATAATG
Found at i:13096640 original size:21 final size:21
Alignment explanation
Indices: 13096614--13096661 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
13096604 TTTAGTATAG
*
13096614 ACATAATATATGCAAAGAACA
1 ACATAATATATACAAAGAACA
*
13096635 ATATAATATATACAAAGAACA
1 ACATAATATATACAAAGAACA
13096656 ACATAA
1 ACATAA
13096662 AGGGTTTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.21
Consensus pattern (21 bp):
ACATAATATATACAAAGAACA
Found at i:13097750 original size:103 final size:104
Alignment explanation
Indices: 13097627--13097829 Score: 273
Period size: 103 Copynumber: 2.0 Consensus size: 104
13097617 CTTAAAAATC
* * * *
13097627 TTTGATTTGTGAAATCAATTTATTTTCAAAAATATCTTCCAATATGTTAGTAAGATTTTTTGTCA
1 TTTGATTTGTGAAAACAATTTATTTTCAAAAATATCTTCCAAGATGTTAGTAAGATTTTCTATCA
* *
13097692 AAAACTATCCTTTAATATGTTGGTAGAATTAAAAATTTA
66 AAAACTATCCTTCAAAATGTTGGTAGAATTAAAAATTTA
* * ** *
13097731 TTTG-TTTGTGAAAACAATTTATTTTTAGAAATATCTTTTAAGATGTTGGTAAGATTTTCTATCA
1 TTTGATTTGTGAAAACAATTTATTTTCAAAAATATCTTCCAAGATGTTAGTAAGATTTTCTATCA
* * *
13097795 AGAATTATCCTTCAAAATGTTGGTAGGATTAAAAA
66 AAAACTATCCTTCAAAATGTTGGTAGAATTAAAAA
13097830 ATATTTTTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
103 81 0.95
104 4 0.05
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (104 bp):
TTTGATTTGTGAAAACAATTTATTTTCAAAAATATCTTCCAAGATGTTAGTAAGATTTTCTATCA
AAAACTATCCTTCAAAATGTTGGTAGAATTAAAAATTTA
Found at i:13098168 original size:21 final size:21
Alignment explanation
Indices: 13098124--13098161 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 21
13098114 AATTATATAT
13098124 ATATATATATAATTCATGCAA
1 ATATATATATAATTCATGCAA
13098145 ATATAT-TA-AATTCATGC
1 ATATATATATAATTCATGC
13098162 TAAAATAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 2 0.12
21 6 0.35
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (21 bp):
ATATATATATAATTCATGCAA
Found at i:13098341 original size:18 final size:18
Alignment explanation
Indices: 13098292--13098343 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
13098282 AAACCAAAAC
*
13098292 AATAAAATAAAATAAGAA
1 AATAAAATAAAACAAGAA
* *
13098310 AATAAAAATCAAACAATAA
1 AAT-AAAATAAAACAAGAA
13098329 AATAAAATAAAACAA
1 AATAAAATAAAACAA
13098344 AATTCAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (18 bp):
AATAAAATAAAACAAGAA
Found at i:13099309 original size:17 final size:18
Alignment explanation
Indices: 13099275--13099318 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
13099265 TTTTTTCCTT
* *
13099275 TTTTTTTTTGGCTTTAAC
1 TTTTTTTTTGCCTCTAAC
13099293 TTTTTTTTT-CCTCTAAC
1 TTTTTTTTTGCCTCTAAC
13099310 TTCTTTTTT
1 TT-TTTTTT
13099319 ATGAAACCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.09, C:0.16, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTTTTTTGCCTCTAAC
Found at i:13099889 original size:11 final size:11
Alignment explanation
Indices: 13099873--13099912 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13099863 AATAATAATG
*
13099873 TATTATATTAA
1 TATTATATTTA
13099884 TATTATTATTTA
1 TATTA-TATTTA
*
13099896 TATTGTATTTA
1 TATTATATTTA
13099907 TATTAT
1 TATTAT
13099913 TAATATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
TATTATATTTA
Found at i:13100366 original size:2 final size:2
Alignment explanation
Indices: 13100359--13100395 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
13100349 AAATTACCAA
*
13100359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13100396 AAAACCCACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:13104576 original size:2 final size:2
Alignment explanation
Indices: 13104569--13104603 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13104559 AAATAAAACA
13104569 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13104604 AAAGAATCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13105356 original size:31 final size:31
Alignment explanation
Indices: 13105313--13105378 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
13105303 TGCATGGTCT
13105313 TATTGTTATTACTCTAAATATGTGAAATGTC
1 TATTGTTATTACTCTAAATATGTGAAATGTC
*
13105344 TATTTTTATTACTCTAAATATGTGAAATGTC
1 TATTGTTATTACTCTAAATATGTGAAATGTC
13105375 TATT
1 TATT
13105379 ATTCACTATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (31 bp):
TATTGTTATTACTCTAAATATGTGAAATGTC
Found at i:13111337 original size:26 final size:27
Alignment explanation
Indices: 13111269--13111343 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 27
13111259 TGATATTGAT
*
13111269 TTATGAATTTATGAAATGTTTGACATCA
1 TTATG-ATTTATGAAATGTTTTACATCA
* *
13111297 TTATAATTTTTTGAAATGTTTTA-A-CA
1 TTATGA-TTTATGAAATGTTTTACATCA
13111323 TTATGATTTGATG-AATGTTTT
1 TTATGATTT-ATGAAATGTTTT
13111344 GAATGATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
25 11 0.28
26 9 0.22
27 2 0.05
28 18 0.45
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (27 bp):
TTATGATTTATGAAATGTTTTACATCA
Found at i:13113142 original size:22 final size:22
Alignment explanation
Indices: 13113114--13113196 Score: 94
Period size: 22 Copynumber: 3.8 Consensus size: 22
13113104 AAAATAAGTG
* *
13113114 ATAACTTAATAGTTAATTATTA
1 ATAACTTAATAGTAAATTAATA
* *
13113136 ATAACTTAATAATAAATTAATG
1 ATAACTTAATAGTAAATTAATA
* *
13113158 ATAACTTAATAGTAAATTAGTG
1 ATAACTTAATAGTAAATTAATA
**
13113180 ATATTTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
13113197 CACTTTCAGT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTAATA
Found at i:13113150 original size:11 final size:11
Alignment explanation
Indices: 13113114--13113168 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
13113104 AAAATAAGTG
13113114 ATAACTTAATA
1 ATAACTTAATA
* *
13113125 GTTAA-TTATTA
1 -ATAACTTAATA
13113136 ATAACTTAATA
1 ATAACTTAATA
* *
13113147 ATAAATTAATG
1 ATAACTTAATA
13113158 ATAACTTAATA
1 ATAACTTAATA
13113169 GTAAATTAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
10 3 0.09
11 28 0.82
12 3 0.09
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (11 bp):
ATAACTTAATA
Found at i:13113189 original size:44 final size:44
Alignment explanation
Indices: 13113112--13113196 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
13113102 AAAAAATAAG
* *
13113112 TGATAACTTAATAGTTAATTATTAATAACTTAATAATAAATTAA
1 TGATAACTTAATAGTAAATTAGTAATAACTTAATAATAAATTAA
* ** *
13113156 TGATAACTTAATAGTAAATTAGTGATATTTTAATAGTAAAT
1 TGATAACTTAATAGTAAATTAGTAATAACTTAATAATAAAT
13113197 CACTTTCAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (44 bp):
TGATAACTTAATAGTAAATTAGTAATAACTTAATAATAAATTAA
Found at i:13113552 original size:63 final size:63
Alignment explanation
Indices: 13113485--13113609 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
13113475 TAAATCAATC
* *
13113485 ATAACATAATAGTAAA-TATATAA-ATATATAATAATAAATTATTGATAATTTAGTAGTAAATTG
1 ATAACATAATAATAAATTA-ATAATA-ATATAATAATAAATTATTAATAATTTAGTAGTAAATTG
* * * * *
13113548 ATAACTTAGTAATAAATTAATAATAATGTAATAGTAAATTATTAATAATTTAGTTGTAAATT
1 ATAACATAATAATAAATTAATAATAATATAATAATAAATTATTAATAATTTAGTAGTAAATT
13113610 AGTGATAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
63 50 0.94
64 3 0.06
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (63 bp):
ATAACATAATAATAAATTAATAATAATATAATAATAAATTATTAATAATTTAGTAGTAAATTG
Found at i:13113564 original size:85 final size:85
Alignment explanation
Indices: 13113475--13113631 Score: 199
Period size: 85 Copynumber: 1.8 Consensus size: 85
13113465 GAAATTTTAG
* * *
13113475 TAAATCAATCATAACATAATAGTAAATATATAAAT-ATATAATAATAAATTATTGATAATTTAGT
1 TAAATCAATAATAACATAATAGTAAAT-TATAAATAATATAATAATAAATTAGTGATAATTTAAT
13113539 AGTAAATTGATAACTTAGTAA
65 AGTAAATTGATAACTTAGTAA
* ** * * * **
13113560 TAAATTAATAATAATGTAATAGTAAATTATTAATAATTTAGTTGTAAATTAGTGATAATTTAATA
1 TAAATCAATAATAACATAATAGTAAATTATAAATAATATAATAATAAATTAGTGATAATTTAATA
13113625 GTAAATT
66 GTAAATT
13113632 AGTTAATCAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
84 6 0.10
85 54 0.90
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (85 bp):
TAAATCAATAATAACATAATAGTAAATTATAAATAATATAATAATAAATTAGTGATAATTTAATA
GTAAATTGATAACTTAGTAA
Found at i:13113631 original size:22 final size:22
Alignment explanation
Indices: 13113357--13113634 Score: 130
Period size: 22 Copynumber: 13.0 Consensus size: 22
13113347 CCAATCAGTA
* * *
13113357 ATAACTTACTAGTAAATCA-TG
1 ATAATTTAATAGTAAATTAGTG
*
13113378 CATAATTTAATA-TAAATTAGTA
1 -ATAATTTAATAGTAAATTAGTG
** * **
13113400 ATAATTTGGTAGTAAATCACAG
1 ATAATTTAATAGTAAATTAGTG
* * *
13113422 GTAATTTAGGT-GTAAATCAGTG
1 ATAATTTA-ATAGTAAATTAGTG
* * *
13113444 ATAATTTTATAGTAAATAATTG
1 ATAATTTAATAGTAAATTAGTG
* * *
13113466 A-AATTT--TAGTAAATCAATC
1 ATAATTTAATAGTAAATTAGTG
**
13113485 ATAACATAATAGTAAA-TA-T-
1 ATAATTTAATAGTAAATTAGTG
* *
13113504 ATAAATATATAATAATAAATTATTG
1 AT-AAT-T-TAATAGTAAATTAGTG
*
13113529 ATAATTTAGTAGTAAA-T--TG
1 ATAATTTAATAGTAAATTAGTG
* * * * *
13113548 ATAACTTAGTAATAAATTAATA
1 ATAATTTAATAGTAAATTAGTG
* * *
13113570 ATAATGTAATAGTAAATTATTA
1 ATAATTTAATAGTAAATTAGTG
* *
13113592 ATAATTTAGTTGTAAATTAGTG
1 ATAATTTAATAGTAAATTAGTG
13113614 ATAATTTAATAGTAAATTAGT
1 ATAATTTAATAGTAAATTAGT
13113635 TAATCATTGA
Statistics
Matches: 195, Mismatches: 45, Indels: 32
0.72 0.17 0.12
Matches are distributed among these distances:
19 29 0.15
20 7 0.04
21 23 0.12
22 125 0.64
23 5 0.03
24 4 0.02
25 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (22 bp):
ATAATTTAATAGTAAATTAGTG
Found at i:13113664 original size:22 final size:21
Alignment explanation
Indices: 13113636--13113707 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
13113626 TAAATTAGTT
*
13113636 AATCATTGATAACTTTTTAATA
1 AATCATT-ATAACTTTATAATA
* * *
13113658 AATCATTAATAAATTAATAGTA
1 AATCATT-ATAACTTTATAATA
*
13113680 AATCAGTTATAACTTTGTAATA
1 AATCA-TTATAACTTTATAATA
13113702 AATCAT
1 AATCAT
13113708 CAATAATTTC
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 1 0.03
22 37 0.93
23 2 0.05
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (21 bp):
AATCATTATAACTTTATAATA
Found at i:13113667 original size:44 final size:43
Alignment explanation
Indices: 13113619--13113714 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 43
13113609 TAGTGATAAT
* * *
13113619 TTAATAGTAAATTAGTTAATCA-TTGATAACTTTTTAATAAATCA
1 TTAATAATAAA-TAGTAAATCAGTT-ATAACTTTGTAATAAATCA
*
13113663 TTAATAAATTAATAGTAAATCAGTTATAACTTTGTAATAAATCA
1 TTAAT-AATAAATAGTAAATCAGTTATAACTTTGTAATAAATCA
*
13113707 TCAATAAT
1 TTAATAAT
13113715 TTCGTGATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 3 0.07
44 36 0.80
45 6 0.13
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (43 bp):
TTAATAATAAATAGTAAATCAGTTATAACTTTGTAATAAATCA
Done.