Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 59 of 153
Found at i:19025515 original size:25 final size:25
Alignment explanation
Indices: 19025487--19025579 Score: 150
Period size: 25 Copynumber: 3.7 Consensus size: 25
19025477 TATTTTGATA
*
19025487 TTATTTGATATAATAAAATAAAAGT
1 TTATTTGATGTAATAAAATAAAAGT
*
19025512 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAAAAGT
*
19025537 TTATATGATGTAATAAAATAAAAGT
1 TTATTTGATGTAATAAAATAAAAGT
*
19025562 TTATTTGATGTGATAAAA
1 TTATTTGATGTAATAAAA
19025580 ATTGAAAACC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAAAAGT
Found at i:19025611 original size:23 final size:23
Alignment explanation
Indices: 19025581--19025953 Score: 466
Period size: 23 Copynumber: 16.7 Consensus size: 23
19025571 GTGATAAAAA
19025581 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
19025604 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
* *
19025627 TTGAAAACTCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
* *
19025650 TTAAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
* *
19025673 TTAAAAACCCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAG
19025696 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
19025719 TTGAAAACCCTAACCTAATTAGG
1 TTGAAAACCCTAACCTAATTAAG
19025742 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
* *
19025765 TTGAAAAGCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
* **
19025788 TTAAAAACCCTAAGTTGAA--AAG
1 TTGAAAACCCTAACCT-AATTAAG
* *
19025810 CCT---AA-CCTAA-TTAAATTAA-
1 -TTGAAAACCCTAACCT-AATTAAG
*
19025829 ----AAACCCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAG
19025848 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
19025871 TTGAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
* *
19025894 TTAAAAACACTAA-CTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
19025916 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
19025939 TTGAAAACCCTAACC
1 TTGAAAACCCTAACC
19025954 CTAAACTTAA
Statistics
Matches: 309, Mismatches: 28, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
17 2 0.01
18 14 0.05
19 6 0.02
20 4 0.01
22 21 0.07
23 260 0.84
24 2 0.01
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.27
Consensus pattern (23 bp):
TTGAAAACCCTAACCTAATTAAG
Found at i:19025634 original size:46 final size:46
Alignment explanation
Indices: 19025581--19025953 Score: 523
Period size: 46 Copynumber: 8.3 Consensus size: 46
19025571 GTGATAAAAA
19025581 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
* * * *
19025627 TTGAAAACTCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
* *
19025673 TTAAAAACCCTAACCTATTTAAGTTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
*
19025719 TTGAAAACCCTAACCTAATTAGGTTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
* * *
19025765 TTGAAAAGCCTAACCTAATTAAATT--AAA----AACC---CTAAG
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
* * * *
19025802 TTGAAAAGCCTAACCTAATTAAATTAAAAACCCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
*
19025848 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
* *
19025894 TTAAAAACACTAA-CTAATTAAGTTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
19025939 TTGAAAACCCTAACC
1 TTGAAAACCCTAACC
19025954 CTAAACTTAA
Statistics
Matches: 289, Mismatches: 28, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
37 29 0.10
39 3 0.01
40 4 0.01
43 4 0.01
44 3 0.01
45 42 0.15
46 204 0.71
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.27
Consensus pattern (46 bp):
TTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAG
Found at i:19025661 original size:69 final size:69
Alignment explanation
Indices: 19025578--19025953 Score: 520
Period size: 69 Copynumber: 5.6 Consensus size: 69
19025568 GATGTGATAA
*
19025578 AAATTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACTCTAACCT
1 AAATTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCT
19025643 AATT
66 AATT
* * * *
19025647 AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTATTTAAGTTGAAAACCCTAACCT
1 AAATTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCT
19025712 AATT
66 AATT
* * *
19025716 AAGTTGAAAACCCTAACCTAATTAGGTTGAAAACCCTAACCTAATTAAGTTGAAAAGCCTAACCT
1 AAATTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCT
19025781 AATT
66 AATT
* * * *
19025785 AAATT--AAA----AACC---CTAAGTTGAAAAGCCTAACCTAATTAAATTAAAAACCCTAACCT
1 AAATTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCT
*
19025841 ATTT
66 AATT
* * * *
19025845 AAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAATTAAAAACACTAA-CT
1 AAATTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCT
19025909 AATT
66 AATT
*
19025913 AAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACC
1 AAATTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACC
19025954 CTAAACTTAA
Statistics
Matches: 273, Mismatches: 25, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
60 45 0.16
62 3 0.01
63 4 0.01
66 4 0.01
67 3 0.01
68 46 0.17
69 168 0.62
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (69 bp):
AAATTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCTAATTAAGTTGAAAACCCTAACCT
AATT
Found at i:19025807 original size:37 final size:37
Alignment explanation
Indices: 19025761--19025837 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
19025751 CTAACCTAAT
19025761 TAAGTTGAAAAGCCTAACCTAATTAAATTAAAAACCC
1 TAAGTTGAAAAGCCTAACCTAATTAAATTAAAAACCC
19025798 TAAGTTGAAAAGCCTAACCTAATTAAATTAAAAACCC
1 TAAGTTGAAAAGCCTAACCTAATTAAATTAAAAACCC
19025835 TAA
1 TAA
19025838 CCTATTTAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.25
Consensus pattern (37 bp):
TAAGTTGAAAAGCCTAACCTAATTAAATTAAAAACCC
Found at i:19025814 original size:60 final size:60
Alignment explanation
Indices: 19025741--19025928 Score: 198
Period size: 60 Copynumber: 3.0 Consensus size: 60
19025731 ACCTAATTAG
* * *
19025741 GTTGAAAACCCTAACCTAATTAAGTTGAAAAGCCTAACCTAATTAAATTAAAAACCCTAA
1 GTTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
* * *
19025801 GTTGAAAAGCCTAACCTAATTAAATTAAAAACCCTAACCTATTTAAGTTGAAAACCCTAACCTAA
1 GTTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATT--AAA----AACC---
*
19025866 TTAA
57 CTAA
* * *
19025870 GTTGAAAACCCTAACCTAATTAAATTAAAAACACTAA-CTAATTAAGTTGAAAACCCTAA
1 GTTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
19025929 CCTAATTAAG
Statistics
Matches: 107, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
59 3 0.03
60 43 0.40
62 7 0.07
66 6 0.06
68 10 0.09
69 38 0.36
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.26
Consensus pattern (60 bp):
GTTGAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
Found at i:19028400 original size:162 final size:162
Alignment explanation
Indices: 19028133--19028449 Score: 634
Period size: 162 Copynumber: 2.0 Consensus size: 162
19028123 NNNNNNNNNN
19028133 CATCCTGTGCCACTGTAAGCAATAGCCGATGAGTATACCTACCAAACATAAAGGTACCGTCAATT
1 CATCCTGTGCCACTGTAAGCAATAGCCGATGAGTATACCTACCAAACATAAAGGTACCGTCAATT
19028198 TGTACCAACGGATTGCAGTACGGAAATGCGTCTCAGCATTGCTTAAAGGTCCAAAAAAGGCGTTT
66 TGTACCAACGGATTGCAGTACGGAAATGCGTCTCAGCATTGCTTAAAGGTCCAAAAAAGGCGTTT
19028263 GAACACTTTACATCCACGTAGCAATTCACCGT
131 GAACACTTTACATCCACGTAGCAATTCACCGT
19028295 CATCCTGTGCCACTGTAAGCAATAGCCGATGAGTATACCTACCAAACATAAAGGTACCGTCAATT
1 CATCCTGTGCCACTGTAAGCAATAGCCGATGAGTATACCTACCAAACATAAAGGTACCGTCAATT
19028360 TGTACCAACGGATTGCAGTACGGAAATGCGTCTCAGCATTGCTTAAAGGTCCAAAAAAGGCGTTT
66 TGTACCAACGGATTGCAGTACGGAAATGCGTCTCAGCATTGCTTAAAGGTCCAAAAAAGGCGTTT
19028425 GAACACTTTACATCCACGTAGCAAT
131 GAACACTTTACATCCACGTAGCAAT
19028450 CGGCCGTTGT
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 155 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (162 bp):
CATCCTGTGCCACTGTAAGCAATAGCCGATGAGTATACCTACCAAACATAAAGGTACCGTCAATT
TGTACCAACGGATTGCAGTACGGAAATGCGTCTCAGCATTGCTTAAAGGTCCAAAAAAGGCGTTT
GAACACTTTACATCCACGTAGCAATTCACCGT
Found at i:19030221 original size:30 final size:31
Alignment explanation
Indices: 19030187--19030246 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
19030177 AAACCTTTTA
*
19030187 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
19030217 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
19030247 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:19031129 original size:124 final size:125
Alignment explanation
Indices: 19030903--19031134 Score: 396
Period size: 124 Copynumber: 1.9 Consensus size: 125
19030893 CCCAAACAGG
*
19030903 CTACTGTAGCAAAAGCGCGTCCCCAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
19030968 CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCATCCATGAC
66 CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCATCCATGAC
* *
19031028 CTACTGTAGCAAGAGCGCGTCCACGAGGGCGCGA-TTTCA-AAATTTCTTCTCAAATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAA-TTCTTCTCAAATAGCATCCT
* *
19031091 GCTAGAAGCGATTTTATACTATTTGCTCAGAAAGGTCAAAAAAA
65 GCTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAA
19031135 TTATTTCTTC
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
123 3 0.03
124 67 0.66
125 31 0.31
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGAATTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCATCCATGAC
Found at i:19031803 original size:16 final size:17
Alignment explanation
Indices: 19031782--19031821 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
19031772 CAAAATATAT
19031782 AAAAAAACAAAAAACA-
1 AAAAAAACAAAAAACAG
*
19031798 AAAAAAATAAAAAACAG
1 AAAAAAACAAAAAACAG
19031815 AAAAAAA
1 AAAAAAA
19031822 AACCTGGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.88, C:0.07, G:0.03, T:0.03
Consensus pattern (17 bp):
AAAAAAACAAAAAACAG
Found at i:19031894 original size:27 final size:27
Alignment explanation
Indices: 19031864--19031930 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
19031854 AGGGAAGCAA
19031864 GTTGGCGGCACCAAACAAGGGAACCCT
1 GTTGGCGGCACCAAACAAGGGAACCCT
** *
19031891 GTTGGCGGCACCAAACAAGGGTTCCTT
1 GTTGGCGGCACCAAACAAGGGAACCCT
19031918 GTTGGCGGCACCA
1 GTTGGCGGCACCA
19031931 CCCTTGAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.24, C:0.28, G:0.31, T:0.16
Consensus pattern (27 bp):
GTTGGCGGCACCAAACAAGGGAACCCT
Found at i:19032019 original size:28 final size:31
Alignment explanation
Indices: 19031978--19032059 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 31
19031968 AAGGAGAGGG
19031978 GAAGAA-GAAGAAAGAAAGGAA-GAAAGAAA
1 GAAGAAGGAAGAAAGAAAGGAAGGAAAGAAA
19032007 -AAGAAGGAA-AAAGAAAGGAGAGGAAAGAAA
1 GAAGAAGGAAGAAAGAAAGGA-AGGAAAGAAA
* *
19032037 GAAAAAGAAAGAAAGAAAAGGAA
1 GAAGAAGGAAGAAAG-AAAGGAA
19032060 AGGGGAGGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
28 15 0.33
29 4 0.09
30 8 0.18
31 7 0.16
32 5 0.11
33 6 0.13
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (31 bp):
GAAGAAGGAAGAAAGAAAGGAAGGAAAGAAA
Found at i:19032033 original size:38 final size:39
Alignment explanation
Indices: 19031991--19032098 Score: 130
Period size: 38 Copynumber: 2.7 Consensus size: 39
19031981 GAAGAAGAAA
* *
19031991 GAAAGGAAGAAAGAA-AAAGAAGGAAAAAGAAAGGAGAG
1 GAAAGAAAGAAAGAAGAAAGAAAGAAAAAGAAAGGAGAG
* *
19032029 GAAAGAAAGAAA-AAGAAAGAAAGAAAAGGAAAGGGGAG
1 GAAAGAAAGAAAGAAGAAAGAAAGAAAAAGAAAGGAGAG
*
19032067 GAAAGAAAAGAAAGGAAGAAGAGAAAAAAAAA
1 GAAAG-AAAGAAA-GAAGAA-AGAAAGAAAAA
19032099 TTTATGTGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
37 2 0.03
38 36 0.61
39 7 0.12
41 5 0.08
42 9 0.15
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (39 bp):
GAAAGAAAGAAAGAAGAAAGAAAGAAAAAGAAAGGAGAG
Found at i:19032060 original size:28 final size:28
Alignment explanation
Indices: 19031985--19032061 Score: 77
Period size: 34 Copynumber: 2.6 Consensus size: 28
19031975 GGGGAAGAAG
19031985 AAGAAAG-AAAGG-AAGAAAGAAAAAGA
1 AAGAAAGAAAAGGAAAGAAAGAAAAAGA
*
19032011 AGGAAAAAGAAAGGAGAGGAAAGAAAGAAAAAGA
1 A--AGAAAG-AA--A-AGGAAAGAAAGAAAAAGA
19032045 AAGAAAGAAAAGGAAAG
1 AAGAAAGAAAAGGAAAG
19032062 GGGAGGAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
26 1 0.02
28 12 0.29
29 1 0.02
30 1 0.02
31 2 0.05
32 6 0.15
33 3 0.07
34 15 0.37
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (28 bp):
AAGAAAGAAAAGGAAAGAAAGAAAAAGA
Found at i:19032061 original size:10 final size:10
Alignment explanation
Indices: 19031979--19032050 Score: 72
Period size: 10 Copynumber: 6.6 Consensus size: 10
19031969 AGGAGAGGGG
*
19031979 AAGAAGAAGA
1 AAGAAAAAGA
19031989 AAGAAAGGAAGA
1 AAGAAA--AAGA
19032001 AAGAAAAAGA
1 AAGAAAAAGA
*
19032011 AGGAAAAAGA
1 AAGAAAAAGA
19032021 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
19032035 AAGAAAAAGA
1 AAGAAAAAGA
19032045 AAGAAA
1 AAGAAA
19032051 GAAAAGGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
10 30 0.57
11 2 0.04
12 12 0.23
13 2 0.04
14 7 0.13
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:19032080 original size:4 final size:4
Alignment explanation
Indices: 19031985--19032054 Score: 56
Period size: 4 Copynumber: 17.5 Consensus size: 4
19031975 GGGGAAGAAG
* * * *
19031985 AAGA AAGA AAGG AAGA AAGA AAAA GAAGG AA-A AAGA AAGGA GAGGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA -AAGA AAGA AAGA AA-GA -AAGA AAGA
19032035 AAG- AA-A AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AA
19032055 AGGAAAGGGG
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
3 6 0.12
4 39 0.75
5 6 0.12
6 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:19032082 original size:14 final size:14
Alignment explanation
Indices: 19031988--19032092 Score: 56
Period size: 14 Copynumber: 7.5 Consensus size: 14
19031978 GAAGAAGAAG
19031988 AAAGAAAGG-AAG-
1 AAAGAAAGGAAAGA
* *
19032000 AAAGAAAAAGAAGGAA
1 AAAG-AAAGGAAAG-A
* *
19032016 AAAGAAAGGAGAGG
1 AAAGAAAGGAAAGA
*
19032030 AAAGAAA-GAAAAA
1 AAAGAAAGGAAAGA
*
19032043 GAAAGAAAGAAAAGGA
1 -AAAGAAAGGAAA-GA
* **
19032059 AAGGGGAGGAAAGA
1 AAAGAAAGGAAAGA
19032073 AAAGAAAGG-AAGA
1 AAAGAAAGGAAAGA
*
19032086 AGAGAAA
1 AAAGAAA
19032093 AAAAAATTTA
Statistics
Matches: 67, Mismatches: 19, Indels: 13
0.68 0.19 0.13
Matches are distributed among these distances:
12 4 0.06
13 17 0.25
14 24 0.36
15 17 0.25
16 5 0.07
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (14 bp):
AAAGAAAGGAAAGA
Found at i:19032317 original size:15 final size:15
Alignment explanation
Indices: 19032293--19032331 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
19032283 CAATAACCAC
*
19032293 AATAACTAAAACTAG
1 AATAATTAAAACTAG
*
19032308 AATAATT-AAATTAG
1 AATAATTAAAACTAG
19032322 AATAATTAAA
1 AATAATTAAA
19032332 TTGATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (15 bp):
AATAATTAAAACTAG
Found at i:19032324 original size:14 final size:14
Alignment explanation
Indices: 19032305--19032333 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19032295 TAACTAAAAC
19032305 TAGAATAATTAAAT
1 TAGAATAATTAAAT
19032319 TAGAATAATTAAAT
1 TAGAATAATTAAAT
19032333 T
1 T
19032334 GATACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:19034609 original size:27 final size:29
Alignment explanation
Indices: 19034579--19034647 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 29
19034569 ACTTTTTTTG
19034579 ATATATTTTGGTAAAT-AAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
19034606 ATATATTTTGGTAAATAAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
19034635 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
19034648 TTTTTTNNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 16 0.40
28 19 0.47
29 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:19043362 original size:27 final size:29
Alignment explanation
Indices: 19043332--19043400 Score: 117
Period size: 28 Copynumber: 2.5 Consensus size: 29
19043322 ACTTTTTTTG
19043332 ATATATTTTGGTAAAT-AAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
19043359 ATATATTTTGGTAAATAAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
19043388 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
19043401 TTTTTTTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 16 0.40
28 19 0.47
29 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:19043466 original size:8 final size:8
Alignment explanation
Indices: 19043453--19043477 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19043443 AAAGATTACA
19043453 AAAATATT
1 AAAATATT
19043461 AAAATATT
1 AAAATATT
19043469 AAAATATT
1 AAAATATT
19043477 A
1 A
19043478 CCAAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAATATT
Found at i:19044229 original size:18 final size:17
Alignment explanation
Indices: 19044200--19044258 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
19044190 CCTCTTCTTC
19044200 TTCTTTCT-TTTTTTTT
1 TTCTTTCTCTTTTTTTT
**
19044216 TTCTCTTCTCTTTTCCTT
1 TTCT-TTCTCTTTTTTTT
19044234 TTCTTTC-CTTCTTTTTCT
1 TTCTTTCTCTT-TTTTT-T
19044252 TTCTTTC
1 TTCTTTC
19044259 CTCCCCTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 7 0.20
17 10 0.29
18 18 0.51
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TTCTTTCTCTTTTTTTT
Found at i:19044246 original size:38 final size:37
Alignment explanation
Indices: 19044168--19044334 Score: 151
Period size: 38 Copynumber: 4.4 Consensus size: 37
19044158 AATTACCTTA
* * * *
19044168 TTTTCTTTTTTTTCCTTCCTTCCCTCTTCTTCTTCTTTCT
1 TTTTC-TTTCTTTCCTTCCTTTCCTTTTC-T-TTCCTTCT
19044208 TTTT-TTT-TTTCTCTTCTCTTTTCCTTTTCTTTCCTTCT
1 TTTTCTTTCTTTC-CTTC-C-TTTCCTTTTCTTTCCTTCT
* *
19044246 TTTTCTTTCTTTCCTCCCCTTTCCTTTCCTTTCCTTCT
1 TTTTCTTTCTTTCCT-TCCTTTCCTTTTCTTTCCTTCT
* *
19044284 TTTTCTTTCTTTCCTATCCTTTCCTTTTCATT-CTTTT
1 TTTTCTTTCTTTCCT-TCCTTTCCTTTTCTTTCCTTCT
*
19044321 TCTTTCTTCCTTTC
1 T-TTTCTTTCTTTC
19044335 TTTCTTCTTC
Statistics
Matches: 109, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
37 9 0.08
38 75 0.69
39 8 0.07
40 17 0.16
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (37 bp):
TTTTCTTTCTTTCCTTCCTTTCCTTTTCTTTCCTTCT
Found at i:19044317 original size:28 final size:28
Alignment explanation
Indices: 19044264--19044346 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
19044254 CTTTCCTCCC
* *
19044264 CTTTCCTTTCCTTTCCTTCTTTTTCTTT
1 CTTTCCTATCCTTTCCTTCTTATTCTTT
19044292 CTTTCCTATCCTTTCCTT-TTCATTCTTTTT
1 CTTTCCTATCCTTTCCTTCTT-ATTC--TTT
* *
19044322 CTTT-CT-TCCTTTCTTTCTTCTTCTT
1 CTTTCCTATCCTTTCCTTCTTATTCTT
19044347 CCCCTCTCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 32 0.68
29 4 0.09
30 7 0.15
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.66
Consensus pattern (28 bp):
CTTTCCTATCCTTTCCTTCTTATTCTTT
Found at i:19044433 original size:27 final size:27
Alignment explanation
Indices: 19044395--19044461 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
19044385 AATTCAAGGG
*
19044395 TGGTGCCGCCAATAAGGAACCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
* **
19044422 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
19044449 TGGTGCCGCCAAC
1 TGGTGCCGCCAAC
19044462 CTGCTTCCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.25
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGAACCCTTGTT
Found at i:19044469 original size:27 final size:27
Alignment explanation
Indices: 19044414--19044471 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
19044404 CAATAAGGAA
*
19044414 CCCTTGTTTGGTGCCGCCAACAGGGTT
1 CCCTTGTTTGGTGCCGCCAACAGGCTT
**
19044441 CCCTTGTTTGGTGCCGCCAACCTGCTT
1 CCCTTGTTTGGTGCCGCCAACAGGCTT
19044468 CCCT
1 CCCT
19044472 CCACCCAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.09, C:0.36, G:0.24, T:0.31
Consensus pattern (27 bp):
CCCTTGTTTGGTGCCGCCAACAGGCTT
Found at i:19048261 original size:36 final size:36
Alignment explanation
Indices: 19048210--19048279 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
19048200 GAGATTAGTC
* *
19048210 GATTTCTTGTGAGAAGATAGGAGATTGAGTTTGGCA
1 GATTACTTGTGAGAAGATAGGAGATTAAGTTTGGCA
* *
19048246 GATTACTTGTTAGAAGTTAGGAGATTAAGTTTGG
1 GATTACTTGTGAGAAGATAGGAGATTAAGTTTGG
19048280 ATTAAATGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (36 bp):
GATTACTTGTGAGAAGATAGGAGATTAAGTTTGGCA
Found at i:19078518 original size:18 final size:19
Alignment explanation
Indices: 19078485--19078521 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
19078475 TATCTTTAAT
*
19078485 TAAATAAATTAATAAAAGA
1 TAAATAAATAAATAAAAGA
19078504 TAAAT-AATAAATAAAAGA
1 TAAATAAATAAATAAAAGA
19078522 GTTTAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
TAAATAAATAAATAAAAGA
Found at i:19080949 original size:129 final size:128
Alignment explanation
Indices: 19080711--19081087 Score: 441
Period size: 129 Copynumber: 2.9 Consensus size: 128
19080701 CATTAAGGTT
* *
19080711 ATCAAGATTTGATAACATGTAAGACCATGTTTGGGACATTGGCATTGTAATGTGATTACGTATAA
1 ATCAATATGTGATAACATGTAAGACCATGTTTGGGACATTGGCATTGT-ATGTGATTACGTATAA
* * * * ** * * * *
19080776 GACCATGTCTGGGACATTGGCATCGTTATATGATTTCGTATAAGACCCTGTCTGGGACAGTGGC
65 GACCCTGTCTGGGACAGTGGCATCGATATGTGATAACATGTAAGACCATGTCTGGGACAGTAGC
* *
19080840 ATCAATATGTGATAACATGTAAGACCATGTTTCGGACATTAGCATTGTACTGTGATTACGTATAA
1 ATCAATATGTGATAACATGTAAGACCATGTTTGGGACATTGGCATTGTA-TGTGATTACGTATAA
*
19080905 GACCCTGTCTGGGACAGTGGCATCGATATGTGATAACATGTAAGACCATGTCTGGGACATTAGC
65 GACCCTGTCTGGGACAGTGGCATCGATATGTGATAACATGTAAGACCATGTCTGGGACAGTAGC
** * * * * * * * * *
19080969 AT-TGTACTGTGATTACGTATAAAACCATGTCTGGGACATTGGCATCGTTATTTGATTTCGCATA
1 ATCAATA-TGTGATAACATGTAAGACCATGTTTGGGACATTGGCATTG-TATGTGATTACGTATA
* * * *
19081033 AGACCCTGTCTGGGACAGTGGAATCGATATGTAATAACATGTAAGAACATATCTG
64 AGACCCTGTCTGGGACAGTGGCATCGATATGTGATAACATGTAAGACCATGTCTG
19081088 TGATATGACA
Statistics
Matches: 213, Mismatches: 32, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
128 3 0.01
129 208 0.98
130 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (128 bp):
ATCAATATGTGATAACATGTAAGACCATGTTTGGGACATTGGCATTGTATGTGATTACGTATAAG
ACCCTGTCTGGGACAGTGGCATCGATATGTGATAACATGTAAGACCATGTCTGGGACAGTAGC
Found at i:19081078 original size:43 final size:42
Alignment explanation
Indices: 19080730--19081064 Score: 346
Period size: 43 Copynumber: 7.8 Consensus size: 42
19080720 TGATAACATG
* *
19080730 TAAGACCATGTTTGGGACATTGGCATTGTAATGTGATTACGTA
1 TAAGACCATGTCTGGGACATTGGCATCGT-ATGTGATTACGTA
* *
19080773 TAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCGTA
1 TAAGACCATGTCTGGGACATTGGCATCG-TATGTGATTACGTA
* * * * * *
19080816 TAAGACCCTGTCTGGGACAGTGGCATCAATATGTGATAACATG
1 TAAGACCATGTCTGGGACATTGGCATC-GTATGTGATTACGTA
* * * *
19080859 TAAGACCATGTTTCGGACATTAGCATTGTACTGTGATTACGTA
1 TAAGACCATGTCTGGGACATTGGCATCGTA-TGTGATTACGTA
* * * * *
19080902 TAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAACATG
1 TAAGACCATGTCTGGGACATTGGCATCG-TATGTGATTACGTA
* *
19080945 TAAGACCATGTCTGGGACATTAGCATTGTACTGTGATTACGTA
1 TAAGACCATGTCTGGGACATTGGCATCGTA-TGTGATTACGTA
* * * *
19080988 TAAAACCATGTCTGGGACATTGGCATCGTTATTTGATTTCGCA
1 TAAGACCATGTCTGGGACATTGGCATCG-TATGTGATTACGTA
* * *
19081031 TAAGACCCTGTCTGGGACAGTGGAATCGATATGT
1 TAAGACCATGTCTGGGACATTGGCATCG-TATGT
19081065 AATAACATGT
Statistics
Matches: 236, Mismatches: 50, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
42 4 0.02
43 227 0.96
44 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATGTGATTACGTA
Found at i:19084292 original size:20 final size:22
Alignment explanation
Indices: 19084250--19084292 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
19084240 ATGCATCAAA
**
19084250 ATATATTTTATAATATAGTTTT
1 ATATATTTTATAATATAAATTT
19084272 ATAT-TTTTATAAT-TAAATTT
1 ATATATTTTATAATATAAATTT
19084292 A
1 A
19084293 AACCAATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATATTTTATAATATAAATTT
Found at i:19085174 original size:30 final size:31
Alignment explanation
Indices: 19085112--19085174 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
19085102 TATACTTCTT
**
19085112 TAATATTTTAATGATTTTTAATTTTTTTAAAA
1 TAATATTTTAAT-ATTTTTAATTTTTAAAAAA
*
19085144 TAATTTTTTAAT-TTTTTAATTTTTAAAAAA
1 TAATATTTTAATATTTTTAATTTTTAAAAAA
19085174 T
1 T
19085175 TAAAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 17 0.61
32 11 0.39
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (31 bp):
TAATATTTTAATATTTTTAATTTTTAAAAAA
Found at i:19090795 original size:117 final size:117
Alignment explanation
Indices: 19090589--19090823 Score: 407
Period size: 117 Copynumber: 2.0 Consensus size: 117
19090579 CCTGATAAGG
*
19090589 AAAGGTAACTAAGTAAGTTTAAAAGAACTTAGAGAGTTCCAGATGAAAACATTTAACTATTTACT
1 AAAGGTAACTAAGTAAGTTCAAAAGAACTTAGAGAGTTCCAGATGAAAACATTTAACTATTTACT
* *
19090654 AATACTTCAAGCAGATCCTTTTATAGCTGCAACCACAATCACATAACTCGCC
66 AATACTTCAAGCAGATCCTTTTATAACTGCAACCACAATCACACAACTCGCC
*
19090706 AAAGGTAACTAAGTAAGTTCAAAAGAACTTAGAGAGTTCTAGATGAAAACATTTAACTATTTACT
1 AAAGGTAACTAAGTAAGTTCAAAAGAACTTAGAGAGTTCCAGATGAAAACATTTAACTATTTACT
* * *
19090771 GATACTTCAAGCAGATCCTTTTATAACTGCAAGCACAATCACACAATTCGCC
66 AATACTTCAAGCAGATCCTTTTATAACTGCAACCACAATCACACAACTCGCC
19090823 A
1 A
19090824 GATGGCGAGT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 111 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.27
Consensus pattern (117 bp):
AAAGGTAACTAAGTAAGTTCAAAAGAACTTAGAGAGTTCCAGATGAAAACATTTAACTATTTACT
AATACTTCAAGCAGATCCTTTTATAACTGCAACCACAATCACACAACTCGCC
Found at i:19094452 original size:77 final size:77
Alignment explanation
Indices: 19094313--19094463 Score: 196
Period size: 77 Copynumber: 2.0 Consensus size: 77
19094303 ATGACAAATT
* ** *
19094313 CATGACCCTTTGGGAATTGAGACTATTTTATTCTGCCACCTCAGGTTGCCTGACAACAATGGCTT
1 CATGACCCTCTGGGAATCAAGACTATTTTATTCTGCCACCTCAGGTTGCCTAACAACAATGGCTT
19094378 TTAATATCTGCC
66 TTAATATCTGCC
* ** **
19094390 CATGACCCTCTGGGAATCAAGACTATTTTATTCTGTCACCTTGGGTTG-CTCAACAATGATGGCT
1 CATGACCCTCTGGGAATCAAGACTATTTTATTCTGCCACCTCAGGTTGCCT-AACAACAATGGCT
*
19094454 TTTAGTATCT
65 TTTAATATCT
19094464 ATCTATAACA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
76 2 0.03
77 61 0.97
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (77 bp):
CATGACCCTCTGGGAATCAAGACTATTTTATTCTGCCACCTCAGGTTGCCTAACAACAATGGCTT
TTAATATCTGCC
Found at i:19094478 original size:77 final size:77
Alignment explanation
Indices: 19094323--19094483 Score: 180
Period size: 77 Copynumber: 2.1 Consensus size: 77
19094313 CATGACCCTT
** * *
19094323 TGGGAATTGAGACTATTTTATTCTGCCACCTCAGGTTGCCTGACAACAATGGCTTTTAATATCTG
1 TGGGAATCAAGACTATTTTATTCTGCCACCTCAGGTTGCCTAACAACAATGGCTTTTAATATCTA
* *
19094388 CCCATGACCCTC
66 CCCATAACACTC
* ** ** *
19094400 TGGGAATCAAGACTATTTTATTCTGTCACCTTGGGTTG-CTCAACAATGATGGCTTTTAGTATCT
1 TGGGAATCAAGACTATTTTATTCTGCCACCTCAGGTTGCCT-AACAACAATGGCTTTTAATATCT
* *
19094464 ATCTATAACACTC
65 ACCCATAACACTC
19094477 TGGGAAT
1 TGGGAAT
19094484 TGGGACTGCA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
76 2 0.03
77 67 0.97
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (77 bp):
TGGGAATCAAGACTATTTTATTCTGCCACCTCAGGTTGCCTAACAACAATGGCTTTTAATATCTA
CCCATAACACTC
Found at i:19100963 original size:22 final size:22
Alignment explanation
Indices: 19100937--19100983 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
19100927 AATAAAATGA
* *
19100937 AAAATTTTAGTTTGATCAAAAT
1 AAAATATTAATTTGATCAAAAT
*
19100959 AAAATATTAATTTGATTAAAAT
1 AAAATATTAATTTGATCAAAAT
19100981 AAA
1 AAA
19100984 TTTATTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (22 bp):
AAAATATTAATTTGATCAAAAT
Found at i:19104681 original size:27 final size:27
Alignment explanation
Indices: 19104646--19104719 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
19104636 CCTATTCTTC
19104646 AGATTTTACAGTTTTTCCCAT-TTTTTT
1 AGATTTTACA-TTTTTCCCATATTTTTT
* * * *
19104673 ATATTTTACAATTATCCCCTATTTTTT
1 AGATTTTACATTTTTCCCATATTTTTT
19104700 AGATTTTACAATTTTGTCCC
1 AGATTTTAC-ATTTT-TCCC
19104720 CTGTTTTACA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 7 0.19
27 23 0.62
28 3 0.08
29 4 0.11
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.54
Consensus pattern (27 bp):
AGATTTTACATTTTTCCCATATTTTTT
Found at i:19105102 original size:33 final size:33
Alignment explanation
Indices: 19105028--19105111 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
19105018 TACTATCATA
* *
19105028 ATCTGTTATAAGCATGATAATTGCTGCTATATAT
1 ATCTGTTATAAGCATG-TAATTGCTACCATATAT
* *
19105062 ATTTGTTATAAGCATGTTATTGCTACCATAT-T
1 ATCTGTTATAAGCATGTAATTGCTACCATATAT
19105094 GATCTGTTAT-AGCATGTA
1 -ATCTGTTATAAGCATGTA
19105112 TGTTGCATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
32 8 0.19
33 20 0.47
34 15 0.35
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (33 bp):
ATCTGTTATAAGCATGTAATTGCTACCATATAT
Found at i:19106964 original size:20 final size:20
Alignment explanation
Indices: 19106926--19106966 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19106916 ACATATCATG
* *
19106926 ATTTTATTTGATTCCAATCA
1 ATTTGATTTGATTCAAATCA
*
19106946 ATTTGATTTGATTTAAATCA
1 ATTTGATTTGATTCAAATCA
19106966 A
1 A
19106967 ATGGATTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (20 bp):
ATTTGATTTGATTCAAATCA
Found at i:19106973 original size:20 final size:20
Alignment explanation
Indices: 19106931--19106974 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
19106921 TCATGATTTT
* * *
19106931 ATTTGATTCCAATCAATTTG
1 ATTTGATTCAAATCAAATGG
*
19106951 ATTTGATTTAAATCAAATGG
1 ATTTGATTCAAATCAAATGG
19106971 ATTT
1 ATTT
19106975 AATTGCTCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTTGATTCAAATCAAATGG
Found at i:19115341 original size:27 final size:26
Alignment explanation
Indices: 19115295--19115364 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 26
19115285 TAATATATAT
*
19115295 AAAATATATATATTTGATTAAAAATA
1 AAAATATATATATTTAATTAAAAATA
* *
19115321 AAAATATTTAATATTTAATTAAAAGTA
1 AAAATATAT-ATATTTAATTAAAAATA
19115348 AAAA-ATATATATTTAAT
1 AAAATATATATATTTAAT
19115365 ATATAATTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 9 0.23
26 11 0.28
27 19 0.49
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (26 bp):
AAAATATATATATTTAATTAAAAATA
Found at i:19117089 original size:48 final size:48
Alignment explanation
Indices: 19117018--19117160 Score: 196
Period size: 48 Copynumber: 3.0 Consensus size: 48
19117008 GGGTGTTCCG
* * * *
19117018 ATCCCTTTGTTCTTGGCCCCAGCCACCGCTCGGATTCCCATACTCTCT
1 ATCCCTTTGTTCTCGACTCCAGCCACCGCTCGGATTCCCATAATCTCT
**
19117066 ATCCCTTTGTTCTCGACTCCAGCCACCGCTCGGATTCCTGTAATCTCT
1 ATCCCTTTGTTCTCGACTCCAGCCACCGCTCGGATTCCCATAATCTCT
* * * *
19117114 ATCCCTTTGTTCTCGACTCCAGCCGCCACTTGGATTCCCATTATCTC
1 ATCCCTTTGTTCTCGACTCCAGCCACCGCTCGGATTCCCATAATCTC
19117161 GACTCTTCCA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.14, C:0.39, G:0.14, T:0.33
Consensus pattern (48 bp):
ATCCCTTTGTTCTCGACTCCAGCCACCGCTCGGATTCCCATAATCTCT
Found at i:19122012 original size:15 final size:15
Alignment explanation
Indices: 19121978--19122011 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
19121968 ATTAAGACTG
*
19121978 AAAATTTAGAATTAA
1 AAAATATAGAATTAA
19121993 AAAATATAGCAATTAA
1 AAAATATAG-AATTAA
19122009 AAA
1 AAA
19122012 TGATTCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (15 bp):
AAAATATAGAATTAA
Found at i:19123621 original size:27 final size:26
Alignment explanation
Indices: 19123565--19123621 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
19123555 CAGAAATTGC
* *
19123565 ATTTTTAAGTATAAAATCTAGAATAT
1 ATTTTTAAGCATAAAATCTAGAATAA
*
19123591 ATTTTTAAGCATATAAATTTA-AATTAA
1 ATTTTTAAGCATA-AAATCTAGAA-TAA
19123618 ATTT
1 ATTT
19123622 ATATATTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (26 bp):
ATTTTTAAGCATAAAATCTAGAATAA
Found at i:19123637 original size:21 final size:21
Alignment explanation
Indices: 19123613--19123657 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
19123603 ATAAATTTAA
* * * *
19123613 ATTAAATTTATATATTTGAAT
1 ATTAAAATTAAATAATTAAAT
19123634 ATTAAAATTAAATAATTAAAT
1 ATTAAAATTAAATAATTAAAT
19123655 ATT
1 ATT
19123658 GACAATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAAAATTAAATAATTAAAT
Found at i:19127169 original size:17 final size:17
Alignment explanation
Indices: 19127147--19127183 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
19127137 CTCAAACGCA
19127147 CCGCCATACAAACTCAG
1 CCGCCATACAAACTCAG
19127164 CCGCCATACAAACTCAG
1 CCGCCATACAAACTCAG
19127181 CCG
1 CCG
19127184 AAGTTACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.43, G:0.14, T:0.11
Consensus pattern (17 bp):
CCGCCATACAAACTCAG
Found at i:19133867 original size:3 final size:3
Alignment explanation
Indices: 19133859--19133898 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
19133849 CAACCCCATA
19133859 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
19133899 GAATTATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:19134707 original size:16 final size:16
Alignment explanation
Indices: 19134686--19134716 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19134676 ATTTTAAATT
19134686 TAATATTACTAATTTA
1 TAATATTACTAATTTA
*
19134702 TAATATTTCTAATTT
1 TAATATTACTAATTT
19134717 TAAAGGAATT
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:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATTACTAATTTA
Found at i:19135079 original size:70 final size:67
Alignment explanation
Indices: 19134953--19135085 Score: 149
Period size: 70 Copynumber: 1.9 Consensus size: 67
19134943 ATAAACAATA
* ** * * *
19134953 TAATGGTTTTGCCTTTTAACTTAATGAGTAAACATTTATCAAAACGACGCAATTTTATCTTTTGA
1 TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTGATCAAAACAACGCAATTTTACCTTTTGA
19135018 CT
66 CT
* ** *
19135020 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTGATCAAAATAACTTAGTTTTACCTTT
1 TAATGGTTTTGACTTTTAAC-TTA-AAAA-GTAAACATTGATCAAAACAACGCAATTTTACCTTT
19135085 T
63 T
19135086 CTTATTCGGA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
67 19 0.36
68 3 0.06
69 2 0.04
70 29 0.55
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTGATCAAAACAACGCAATTTTACCTTTTGA
CT
Found at i:19135204 original size:39 final size:39
Alignment explanation
Indices: 19135150--19135228 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
19135140 AAAAAATTTA
*
19135150 ATTTTTTATTCGAGTTGATCCGAATAACTTGATTAACTT
1 ATTTTTTATTCGAGTTGATCCGAATAAATTGATTAACTT
*
19135189 ATTTTTTATTCGAGTTGATCTGAATAAATTGATTAACTT
1 ATTTTTTATTCGAGTTGATCCGAATAAATTGATTAACTT
19135228 A
1 A
19135229 AATAACTCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (39 bp):
ATTTTTTATTCGAGTTGATCCGAATAAATTGATTAACTT
Found at i:19141744 original size:16 final size:16
Alignment explanation
Indices: 19141711--19141744 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19141701 ATATTAAAAA
* *
19141711 TATATTTTTTATATTT
1 TATATTTTTAATAATT
19141727 TATATTTTTAATAATT
1 TATATTTTTAATAATT
19141743 TA
1 TA
19141745 AATGATTTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATATTTTTAATAATT
Found at i:19141767 original size:20 final size:20
Alignment explanation
Indices: 19141744--19141781 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19141734 TTAATAATTT
19141744 AAATGATTTTTA-ATTTTTAA
1 AAAT-ATTTTTATATTTTTAA
19141764 AAATATTTTTATATTTTT
1 AAATATTTTTATATTTTT
19141782 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
AAATATTTTTATATTTTTAA
Found at i:19143710 original size:9 final size:9
Alignment explanation
Indices: 19143698--19143756 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
19143688 TCAATTTGGT
19143698 TAATTCGGG
1 TAATTCGGG
*
19143707 TAATTCGGT
1 TAATTCGGG
19143716 TAATTCGGG
1 TAATTCGGG
*
19143725 TAATTCGGT
1 TAATTCGGG
*
19143734 TAATTTGGG
1 TAATTCGGG
*
19143743 TAATTCGGT
1 TAATTCGGG
19143752 TAATT
1 TAATT
19143757 TGATTAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.42
Consensus pattern (9 bp):
TAATTCGGG
Found at i:19143758 original size:18 final size:18
Alignment explanation
Indices: 19143690--19143756 Score: 116
Period size: 18 Copynumber: 3.7 Consensus size: 18
19143680 GTAGTGATTC
*
19143690 AATTTGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
19143708 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
*
19143726 AATTCGGTTAATTTGGGT
1 AATTCGGTTAATTCGGGT
19143744 AATTCGGTTAATT
1 AATTCGGTTAATT
19143757 TGATTAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.24, C:0.07, G:0.25, T:0.43
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:19143763 original size:27 final size:27
Alignment explanation
Indices: 19143698--19143766 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
19143688 TCAATTTGGT
** * *
19143698 TAATTCGGGTAATTCGGTTAATTCGGG
1 TAATTCGATTAATTTGGGTAATTCGGG
* *
19143725 TAATTCGGTTAATTTGGGTAATTCGGT
1 TAATTCGATTAATTTGGGTAATTCGGG
*
19143752 TAATTTGATTAATTT
1 TAATTCGATTAATTT
19143767 TTAACCAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.45
Consensus pattern (27 bp):
TAATTCGATTAATTTGGGTAATTCGGG
Found at i:19146054 original size:18 final size:18
Alignment explanation
Indices: 19146031--19146065 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19146021 AATTTTTATG
19146031 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
19146049 ATTGGGTTGGGTTGGGT
1 ATTGGGTTGGGTTGGGT
19146066 TGGATACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.00, G:0.51, T:0.40
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:19146062 original size:23 final size:24
Alignment explanation
Indices: 19146032--19146091 Score: 86
Period size: 23 Copynumber: 2.5 Consensus size: 24
19146022 ATTTTTATGA
*
19146032 TTGGGTTGGGTTGGGTAATTGGG-
1 TTGGGTTGGGTTGGATAATTGGGT
*
19146055 TTGGGTTGGGTTGGATACTTGGGT
1 TTGGGTTGGGTTGGATAATTGGGT
*
19146079 TTGGATTGGGTTG
1 TTGGGTTGGGTTG
19146092 TTGAAGTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 21 0.64
24 12 0.36
ACGTcount: A:0.08, C:0.02, G:0.48, T:0.42
Consensus pattern (24 bp):
TTGGGTTGGGTTGGATAATTGGGT
Found at i:19149670 original size:16 final size:15
Alignment explanation
Indices: 19149649--19149678 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
19149639 CATACACATA
19149649 TCTCTCGTTTTCTCTT
1 TCTCTC-TTTTCTCTT
19149665 TCTCTCTTTTCTCT
1 TCTCTCTTTTCTCT
19149679 CACTCTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.63
Consensus pattern (15 bp):
TCTCTCTTTTCTCTT
Found at i:19155834 original size:20 final size:20
Alignment explanation
Indices: 19155758--19155842 Score: 75
Period size: 20 Copynumber: 4.1 Consensus size: 20
19155748 TTTTATCATT
19155758 TTTTTAAAAATATAAATTTTGAA
1 TTTTTAAAAAT-T--ATTTTGAA
* *
19155781 TTTTTTTATAAA-TGTTTTGAA
1 --TTTTTAAAAATTATTTTGAA
19155802 -TTTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTTTGAA
* *
19155821 TTTTTGAAATTTATTTTGAA
1 TTTTTAAAAATTATTTTGAA
19155841 TT
1 TT
19155843 ATTTTGTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
18 8 0.15
19 8 0.15
20 19 0.37
21 7 0.13
23 1 0.02
25 9 0.17
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.56
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:19156113 original size:15 final size:15
Alignment explanation
Indices: 19156093--19156122 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19156083 TTTTCACTTA
19156093 ATAGGTAAACTCTTT
1 ATAGGTAAACTCTTT
19156108 ATAGGTAAACTCTTT
1 ATAGGTAAACTCTTT
19156123 TTAGCCGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
ATAGGTAAACTCTTT
Found at i:19160468 original size:19 final size:19
Alignment explanation
Indices: 19160444--19160482 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
19160434 TTCCCGCCTG
*
19160444 TCACGCAGATGATCCGGGT
1 TCACGCAGATGACCCGGGT
* *
19160463 TCACGCGGGTGACCCGGGT
1 TCACGCAGATGACCCGGGT
19160482 T
1 T
19160483 GGATCCCCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (19 bp):
TCACGCAGATGACCCGGGT
Found at i:19160807 original size:199 final size:200
Alignment explanation
Indices: 19160463--19160930 Score: 787
Period size: 199 Copynumber: 2.3 Consensus size: 200
19160453 TGATCCGGGT
* * *
19160463 TCACGCGGGTGACCCGGGTTGGATCCCCTG-AACGGCGATTTTAATCTTATTATACCTTTCAAAA
1 TCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTTTAATTTTATTATACCTTTCAAAA
**
19160527 TAGGGAAAAAACAGCCAACTTATTTTTGTTCCTTGAAATGTAATAAACTTATGCATATTTATATT
66 TAGGGAAAAAACAGCCAACTTATTTTTGTTCCCGGAAATGTAATAAACTTATGCATATTTATATT
19160592 GTTTTAAAACATTAGTTGTTACAAGTTTGCAACGAGGTCGTTGTAGTATAGTGGTAAGTATTCCC
131 GTTTTAAAACATTAGTTGTTACAAGTTTGCAACGAGGTCGTTGTAGTATAGTGGTAAGTATTCCC
19160657 GCCTG
196 GCCTG
19160662 TCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTTTAATTTTATTA-ACCTTTCAAAA
1 TCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTTTAATTTTATTATACCTTTCAAAA
* *
19160726 TATGGAAAAGACAGCCAACTTATTTTTGTTCCCGGAAATGTAATAAACTTATGCATATTTATATT
66 TAGGGAAAAAACAGCCAACTTATTTTTGTTCCCGGAAATGTAATAAACTTATGCATATTTATATT
* *
19160791 GTTTTAAAATATTAGTTGTTGCAAGTTTGCAACGAGGTCGTTGTAGTATAGTGGTAAGTATTCCC
131 GTTTTAAAACATTAGTTGTTACAAGTTTGCAACGAGGTCGTTGTAGTATAGTGGTAAGTATTCCC
19160856 GCCTG
196 GCCTG
* * * *
19160861 TCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGTGATTTTATTTTTAATTTGTACCCTTCAA
1 TCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTTTAATTTT-A-TTATACCTTTCAA
19160926 AATAG
64 AATAG
19160931 ATAAAATTGG
Statistics
Matches: 251, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
199 215 0.86
200 22 0.09
201 2 0.01
202 12 0.05
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (200 bp):
TCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTTTAATTTTATTATACCTTTCAAAA
TAGGGAAAAAACAGCCAACTTATTTTTGTTCCCGGAAATGTAATAAACTTATGCATATTTATATT
GTTTTAAAACATTAGTTGTTACAAGTTTGCAACGAGGTCGTTGTAGTATAGTGGTAAGTATTCCC
GCCTG
Found at i:19168857 original size:45 final size:47
Alignment explanation
Indices: 19168793--19168914 Score: 167
Period size: 48 Copynumber: 2.6 Consensus size: 47
19168783 GATCGGAGTG
* **
19168793 TGCCATATTGTCTTTCAACCATGGTCTTA-T-TTATTCTCGTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTATTATTCTCGTCGAGA
* * *
19168838 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTTTCGTCGAGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATT-ATTATTCTCGTCGAGA
19168886 TGCCATAGTGTCTTTCAACCATGGTCTTA
1 TGCCATAGTGTCTTTCAACCATGGTCTTA
19168915 CTCGATAGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
45 28 0.41
46 1 0.01
48 39 0.57
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (47 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTATTATTCTCGTCGAGA
Found at i:19168954 original size:45 final size:45
Alignment explanation
Indices: 19168886--19169008 Score: 194
Period size: 45 Copynumber: 2.7 Consensus size: 45
19168876 TTCGTCGAGT
* **
19168886 TGCCATAGTGTCTTTCAACCATGGTCTTACTCGATAGAAT-TGTGA
1 TGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATAT-TGA
19168931 TGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATATTGA
1 TGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATATTGA
*
19168976 TGCCATAACGTCTTTCAGTCATGGTCTTACTCG
1 TGCCATAATGTCTTTCAGTCATGGTCTTACTCG
19169009 TTTCTGGCAT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 72 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (45 bp):
TGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATATTGA
Found at i:19172573 original size:43 final size:42
Alignment explanation
Indices: 19172507--19172635 Score: 172
Period size: 43 Copynumber: 3.0 Consensus size: 42
19172497 AACTCGTCCA
*
19172507 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
**
19172550 ATGCCATTGTCCCAGACAG-GGTCTTACACGTAA-ACATAAATCG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGTAACACAT--ATCG
19172593 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATATCG
19172636 GAAATCCTAT
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
41 4 0.05
42 1 0.01
43 62 0.83
44 4 0.05
45 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:19174920 original size:23 final size:23
Alignment explanation
Indices: 19174869--19174912 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
19174859 TAGATTTTTC
19174869 CTAAATATTATCACTAAATAAAT
1 CTAAATATTATCACTAAATAAAT
*
19174892 CTAAATATTATCTCTAAATAA
1 CTAAATATTATCACTAAATAA
19174913 TTTAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAAAT
Found at i:19179391 original size:48 final size:48
Alignment explanation
Indices: 19179314--19179406 Score: 170
Period size: 48 Copynumber: 1.9 Consensus size: 48
19179304 TTACGGAGTG
19179314 TTATTAAGTTAGTATTAAAGTTTCATTAGAAAATTTTAACGTTTTGAT
1 TTATTAAGTTAGTATTAAAGTTTCATTAGAAAATTTTAACGTTTTGAT
19179362 TTATTAAGTTAGTATTAAAGTTT-AGTTAGAAAATTTTAACGTTTT
1 TTATTAAGTTAGTATTAAAGTTTCA-TTAGAAAATTTTAACGTTTT
19179407 TATAGTTAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 1 0.02
48 43 0.98
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (48 bp):
TTATTAAGTTAGTATTAAAGTTTCATTAGAAAATTTTAACGTTTTGAT
Found at i:19180745 original size:21 final size:21
Alignment explanation
Indices: 19180719--19180775 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
19180709 GGTGGATCAG
19180719 CTCTCACAAGCTTCTATTCAA
1 CTCTCACAAGCTTCTATTCAA
*
19180740 CTCTCACAAGCTTCTATTCAG
1 CTCTCACAAGCTTCTATTCAA
* *
19180761 CTCTTACTAGCTTCT
1 CTCTCACAAGCTTCT
19180776 GCTTAGCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (21 bp):
CTCTCACAAGCTTCTATTCAA
Found at i:19188733 original size:21 final size:21
Alignment explanation
Indices: 19188709--19188791 Score: 130
Period size: 21 Copynumber: 4.0 Consensus size: 21
19188699 TGGGTGCATC
19188709 AGCTCTCACGAGCTTCTGTTT
1 AGCTCTCACGAGCTTCTGTTT
* *
19188730 AGCTATCATGAGCTTCTGTTT
1 AGCTCTCACGAGCTTCTGTTT
* *
19188751 AGCTCTCATGAGCTTCTGTTC
1 AGCTCTCACGAGCTTCTGTTT
19188772 AGCTCTCACGAGCTTCTGTT
1 AGCTCTCACGAGCTTCTGTT
19188792 GGCATGTTCG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.39
Consensus pattern (21 bp):
AGCTCTCACGAGCTTCTGTTT
Found at i:19191891 original size:41 final size:38
Alignment explanation
Indices: 19191845--19191977 Score: 130
Period size: 38 Copynumber: 3.5 Consensus size: 38
19191835 CGACTTCGAG
*
19191845 TCGATGAGACACTGGGTGTCAATTTATTACTTCGAATATA
1 TCGATGAGACACTGGGTGACAA-TTATTACTTCGAAT-TA
* * * *
19191885 TTCGATGAGGCATTGGGTGCCAA-T-TTACTTCG-GTTA
1 -TCGATGAGACACTGGGTGACAATTATTACTTCGAATTA
*
19191921 GCCGATGAGACACTGGGTGAC-ATTATTACTTCGAATTA
1 -TCGATGAGACACTGGGTGACAATTATTACTTCGAATTA
*
19191959 TCTGATGAGGCACTGGGTG
1 TC-GATGAGACACTGGGTG
19191978 CCAAACTGGT
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
35 1 0.01
36 19 0.25
37 10 0.13
38 26 0.34
39 1 0.01
41 19 0.25
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (38 bp):
TCGATGAGACACTGGGTGACAATTATTACTTCGAATTA
Found at i:19193879 original size:42 final size:42
Alignment explanation
Indices: 19193733--19193886 Score: 148
Period size: 42 Copynumber: 3.7 Consensus size: 42
19193723 TGCTAAACGA
* * ** * * *
19193733 AAACCCGTAAGGGTTGAACGGAAGCTCATAGGAGCTGAACGG
1 AAACCCATAAGGGTTTAACTAAAGCTCAAAAGAGCTGAACTG
* * * *
19193775 AAACCCATAAGGG-TTAATCTGAAGCTTAGAAGAGCTAAACTG
1 AAACCCATAAGGGTTTAA-CTAAAGCTCAAAAGAGCTGAACTG
* * *
19193817 AAACCCATTAGGGTTAAACTAAAGCTCAAAAGAGGTGAACTG
1 AAACCCATAAGGGTTTAACTAAAGCTCAAAAGAGCTGAACTG
* *
19193859 AAACCCAGAAGGGTTTAACTAAAACTCA
1 AAACCCATAAGGGTTTAACTAAAGCTCA
19193887 TATGAGTTAA
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
41 3 0.03
42 85 0.93
43 3 0.03
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (42 bp):
AAACCCATAAGGGTTTAACTAAAGCTCAAAAGAGCTGAACTG
Found at i:19203620 original size:39 final size:36
Alignment explanation
Indices: 19203577--19203648 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
19203567 TCAATTTTTT
*
19203577 TTTCAAATTTATGTCTACTATTTATATTATTGAATTAAA
1 TTTCAAATTT-TG--TACTATATATATTATTGAATTAAA
* *
19203616 TTTCACATTTTGTATTATATATATTATTGAATT
1 TTTCAAATTTTGTACTATATATATTATTGAATT
19203649 GTTTAATCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 19 0.63
38 2 0.07
39 9 0.30
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (36 bp):
TTTCAAATTTTGTACTATATATATTATTGAATTAAA
Found at i:19205917 original size:12 final size:12
Alignment explanation
Indices: 19205900--19205937 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19205890 AAGAATATAG
19205900 TTTGAA-TTGGAA
1 TTTGAAGTT-GAA
19205912 TTTGAAGTTGAA
1 TTTGAAGTTGAA
*
19205924 GTTGAAGTTGAA
1 TTTGAAGTTGAA
19205936 TT
1 TT
19205938 AGAATTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 21 0.91
13 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (12 bp):
TTTGAAGTTGAA
Found at i:19206717 original size:110 final size:110
Alignment explanation
Indices: 19206472--19206876 Score: 627
Period size: 110 Copynumber: 3.7 Consensus size: 110
19206462 GATAAACGAG
* * * * *
19206472 AAATCGAAACCCAGCACCTTGGGGCACG-TTCCTCAAATTTCCAAACGCAAAACATTGTCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATT
* * * *
19206536 TTGAAATTTTT--GAAGTGGTATTTAGCTATTTGGTTGAATGAGAA
66 TTGAAATTTTTAAGAAG-GATATTAAGCCATTTGGTTGAACGAGAA
* *
19206580 AAATCGACACCCAGCACCTTAGAGCATGTTTTCTCAAATTTCCAAATGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATT
19206645 TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
* *
19206690 AAATCGACACCTAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATT
*
19206755 TTGAAATTTTTAAGAAGGATATTAAGCCATTTGATTGAACGAGAA
66 TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
*
19206800 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATT
*
19206865 TAGAAATATTTT
66 TTGAAAT-TTTT
19206877 CCTTTTTTGA
Statistics
Matches: 275, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
108 24 0.09
109 44 0.16
110 199 0.72
111 8 0.03
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (110 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTGCCTTATT
TTGAAATTTTTAAGAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:19207367 original size:13 final size:13
Alignment explanation
Indices: 19207349--19207378 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19207339 ATGAATCATA
19207349 ATATATAAAATAC
1 ATATATAAAATAC
*
19207362 ATATATAAAATAG
1 ATATATAAAATAC
19207375 ATAT
1 ATAT
19207379 TTTANNNNNN
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:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (13 bp):
ATATATAAAATAC
Found at i:19208950 original size:30 final size:32
Alignment explanation
Indices: 19208889--19208950 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 32
19208879 TCAACAAAAT
*
19208889 CATATAATTATAAAGATACATAAACACGTATA
1 CATATAATTATAAAGATACATAAACAAGTATA
*
19208921 CATATAA-T-TAAAGAGTATATAAA-AAGTATA
1 CATATAATTATAAAGA-TACATAAACAAGTATA
19208951 TAATTACGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 12 0.44
31 8 0.30
32 7 0.26
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (32 bp):
CATATAATTATAAAGATACATAAACAAGTATA
Found at i:19212498 original size:20 final size:20
Alignment explanation
Indices: 19212473--19212514 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
19212463 CTCCCGACTA
*
19212473 CAAGAGCAAGCGGCCAACCT
1 CAAGAGCAAGCAGCCAACCT
*
19212493 CAAGAGCAAGTAGCCAACCT
1 CAAGAGCAAGCAGCCAACCT
19212513 CA
1 CA
19212515 CGTGTTAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.33, G:0.21, T:0.07
Consensus pattern (20 bp):
CAAGAGCAAGCAGCCAACCT
Found at i:19216395 original size:16 final size:18
Alignment explanation
Indices: 19216369--19216403 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
19216359 TTTCTCTACA
19216369 AAATAAATTTAA-ATTTT
1 AAATAAATTTAATATTTT
19216386 AAAT-AATTTAATATTTT
1 AAATAAATTTAATATTTT
19216403 A
1 A
19216404 TTTATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATAAATTTAATATTTT
Found at i:19217366 original size:11 final size:12
Alignment explanation
Indices: 19217344--19217387 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
19217334 AACAAATCCT
19217344 CTCTCAAATTTC
1 CTCTCAAATTTC
19217356 CTCTC-AATTTC
1 CTCTCAAATTTC
19217367 CT-TCCAAATTT-
1 CTCT-CAAATTTC
19217378 CTCTCAAATT
1 CTCTCAAATT
19217388 CACATTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 17 0.59
12 11 0.38
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:19219169 original size:18 final size:18
Alignment explanation
Indices: 19219142--19219179 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19219132 CAGGTGCGTT
* *
19219142 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
19219160 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
19219178 TC
1 TC
19219180 ATTTTCGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.29, G:0.08, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:19219815 original size:23 final size:22
Alignment explanation
Indices: 19219776--19219983 Score: 151
Period size: 22 Copynumber: 9.5 Consensus size: 22
19219766 CCTTAACTTA
**
19219776 AAACCCTAAAAATAAAAATCCT
1 AAACCCTAAACTTAAAAATCCT
* *
19219798 AAACCCTTAAA-TTAAAAAACACA
1 AAACCC-TAAACTTAAAAATC-CT
**
19219821 AAACCCTAAACTTAAAAATTAT
1 AAACCCTAAACTTAAAAATCCT
*
19219843 AAACCCTAAACTTAAAAA-CCAC
1 AAACCCTAAACTTAAAAATCC-T
* * *
19219865 AAACACTAAACCTAAAAACCCT
1 AAACCCTAAACTTAAAAATCCT
** * *
19219887 AAACTGTTAACTTAAAAAACAC-
1 AAACCCTAAACTTAAAAATC-CT
19219909 AAACCCTAAA-TCTAAAAA-CCTT
1 AAACCCTAAACT-TAAAAATCC-T
19219931 AAACCCTAAACTTAAAAATCAC-
1 AAACCCTAAACTTAAAAATC-CT
* * *
19219953 AAACCATAAACCTAAAAATCGT
1 AAACCCTAAACTTAAAAATCCT
19219975 AAA-CCTAAA
1 AAACCCTAAA
19219984 ACCTTAAACC
Statistics
Matches: 148, Mismatches: 25, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
20 1 0.01
21 7 0.05
22 116 0.78
23 23 0.16
24 1 0.01
ACGTcount: A:0.56, C:0.25, G:0.01, T:0.19
Consensus pattern (22 bp):
AAACCCTAAACTTAAAAATCCT
Found at i:19219875 original size:44 final size:44
Alignment explanation
Indices: 19219776--19219983 Score: 233
Period size: 44 Copynumber: 4.7 Consensus size: 44
19219766 CCTTAACTTA
**
19219776 AAACCCTAAAAATAAAAATCCTAAACCCTTAAA-TTAAAAAACAC
1 AAACCCTAAACCTAAAAATCCTAAACCC-TAAACTTAAAAAACAC
* ** *
19219820 AAAACCCTAAACTTAAAAATTATAAACCCTAAACTTAAAAACCAC
1 -AAACCCTAAACCTAAAAATCCTAAACCCTAAACTTAAAAAACAC
* * ** *
19219865 AAACACTAAACCTAAAAACCCTAAACTGTTAACTTAAAAAACAC
1 AAACCCTAAACCTAAAAATCCTAAACCCTAAACTTAAAAAACAC
* *
19219909 AAACCCTAAATCTAAAAA-CCTTAAACCCTAAACTTAAAAATCAC
1 AAACCCTAAACCTAAAAATCC-TAAACCCTAAACTTAAAAAACAC
* *
19219953 AAACCATAAACCTAAAAATCGTAAA-CCTAAA
1 AAACCCTAAACCTAAAAATCCTAAACCCTAAA
19219984 ACCTTAAACC
Statistics
Matches: 137, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
43 8 0.06
44 94 0.69
45 35 0.26
ACGTcount: A:0.56, C:0.25, G:0.01, T:0.19
Consensus pattern (44 bp):
AAACCCTAAACCTAAAAATCCTAAACCCTAAACTTAAAAAACAC
Found at i:19219969 original size:66 final size:65
Alignment explanation
Indices: 19219776--19220059 Score: 230
Period size: 66 Copynumber: 4.4 Consensus size: 65
19219766 CCTTAACTTA
*
19219776 AAACCCTAAAAATAAAAATCC-TAAACCCTTAAA-TTAAAAAACACAAAACCCTAAACTTAAAAA
1 AAACCCT-AAACTAAAAA-CCTTAAACCC-TAAACTT-AAAAACACAAAACCCTAAACTTAAAAA
**
19219839 TTAT
62 ACAT
** * * * * ** *
19219843 AAACCCTAAACTTAAAAACCACAAACACTAAACCTAAAAACCCTAAACTGTTAACTTAAAAAACA
1 AAACCCTAAAC-TAAAAACCTTAAACCCTAAACTTAAAAACACAAAACCCTAAACTTAAAAAACA
*
19219908 C
65 T
* * *
19219909 AAACCCTAAATCTAAAAACCTTAAACCCTAAACTTAAAAATCAC-AAACCATAAACCTAAAAATC
1 AAACCCTAAA-CTAAAAACCTTAAACCCTAAACTTAAAAA-CACAAAACCCTAAACTTAAAAAAC
*
19219973 GT
64 AT
* *
19219975 AAA--C----CT-AAAACCTTAAACCCTAAACTTAAAAAC-CACAAACCCTAAACTTAAAAACCT
1 AAACCCTAAACTAAAAACCTTAAACCCTAAACTTAAAAACACA-AAACCCTAAACTTAAAAAACA
19220032 T
65 T
*
19220033 AACCCCTAAACTTAAAAACCTTAAACC
1 AAACCCTAAAC-TAAAAACCTTAAACC
19220060 TTGAAACCTT
Statistics
Matches: 173, Mismatches: 29, Indels: 31
0.74 0.12 0.13
Matches are distributed among these distances:
56 1 0.01
57 1 0.01
58 46 0.27
59 2 0.01
60 1 0.01
64 2 0.01
65 1 0.01
66 97 0.56
67 22 0.13
ACGTcount: A:0.54, C:0.26, G:0.01, T:0.19
Consensus pattern (65 bp):
AAACCCTAAACTAAAAACCTTAAACCCTAAACTTAAAAACACAAAACCCTAAACTTAAAAAACAT
Found at i:19219978 original size:88 final size:89
Alignment explanation
Indices: 19219788--19219979 Score: 266
Period size: 88 Copynumber: 2.2 Consensus size: 89
19219778 ACCCTAAAAA
*
19219788 TAAAAATCCTAAACCCTTAAATTAAAAAACACAAAACCCTAAACTTAAAAATTATAAACCCTAAA
1 TAAAAATCCTAAACCCTTAAATTAAAAAACACAAAACCCTAAACTTAAAAACTATAAACCCTAAA
19219853 CTTAAAAACCACAAACACTAAACC
66 CTTAAAAACCACAAACACTAAACC
* ** *
19219877 TAAAAACCCTAAACTGTTAACTTAAAAAACAC-AAACCCTAAA-TCTAAAAACCT-TAAACCCTA
1 TAAAAATCCTAAACCCTTAAATTAAAAAACACAAAACCCTAAACT-TAAAAA-CTATAAACCCTA
*
19219939 AACTTAAAAATCACAAAC-CATAAACC
64 AACTTAAAAACCACAAACAC-TAAACC
*
19219965 TAAAAATCGTAAACC
1 TAAAAATCCTAAACC
19219980 TAAAACCTTA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
87 2 0.02
88 60 0.66
89 29 0.32
ACGTcount: A:0.55, C:0.25, G:0.01, T:0.19
Consensus pattern (89 bp):
TAAAAATCCTAAACCCTTAAATTAAAAAACACAAAACCCTAAACTTAAAAACTATAAACCCTAAA
CTTAAAAACCACAAACACTAAACC
Found at i:19220006 original size:22 final size:22
Alignment explanation
Indices: 19219981--19220059 Score: 131
Period size: 22 Copynumber: 3.6 Consensus size: 22
19219971 TCGTAAACCT
19219981 AAAACCTTAAACCCTAAACTTA
1 AAAACCTTAAACCCTAAACTTA
**
19220003 AAAACCACAAACCCTAAACTTA
1 AAAACCTTAAACCCTAAACTTA
*
19220025 AAAACCTTAACCCCTAAACTTA
1 AAAACCTTAAACCCTAAACTTA
19220047 AAAACCTTAAACC
1 AAAACCTTAAACC
19220060 TTGAAACCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (22 bp):
AAAACCTTAAACCCTAAACTTA
Found at i:19220008 original size:44 final size:45
Alignment explanation
Indices: 19219960--19220053 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 45
19219950 CACAAACCAT
* *
19219960 AAACCTAAAAATCGTAAACCT-AAAACCTTAAACCCTAAACTTAA
1 AAACCTAAAAACCCTAAACCTAAAAACCTTAAACCCTAAACTTAA
* * *
19220004 AAACC-ACAAACCCTAAACTTAAAAACCTTAACCCCTAAACTTAA
1 AAACCTAAAAACCCTAAACCTAAAAACCTTAAACCCTAAACTTAA
19220048 AAACCT
1 AAACCT
19220054 TAAACCTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 11 0.26
44 32 0.74
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (45 bp):
AAACCTAAAAACCCTAAACCTAAAAACCTTAAACCCTAAACTTAA
Found at i:19220059 original size:29 final size:28
Alignment explanation
Indices: 19220026--19220092 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
19220016 CTAAACTTAA
* *
19220026 AAACCTTAACCCCTAAACTTAAAAACCTT
1 AAACCTTAA-ACCTAAACTTAAAAACCCT
* *
19220055 AAACCTTGAAACCTTAACTTTAAAACCCT
1 AAACCTT-AAACCTAAACTTAAAAACCCT
*
19220084 AACCCTTAA
1 AAACCTTAA
19220093 GTTAAATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 2 0.06
29 28 0.88
30 2 0.06
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.25
Consensus pattern (28 bp):
AAACCTTAAACCTAAACTTAAAAACCCT
Found at i:19220059 original size:102 final size:104
Alignment explanation
Indices: 19219871--19220068 Score: 276
Period size: 102 Copynumber: 1.9 Consensus size: 104
19219861 CCACAAACAC
** *
19219871 TAAACCTAAAAACCCTAAACTGTTAACTTAAAAAACACAAACCCTAAATCTAAAAACCTTAAACC
1 TAAACCTAAAAACCCTAAACCCTAAACTTAAAAAACACAAACCCTAAATCTAAAAACCTTAAACC
*
19219936 CTAAACTTAAAAATCACAAACCAT-AAACCTAAAAATCG
66 CTAAACTTAAAAACCACAAACCATGAAACCTAAAAATCG
* * *
19219974 TAAACCT-AAAACCTTAAACCCTAAACTTAAAAACCACAAACCCTAAA-CTTAAAAACCTTAACC
1 TAAACCTAAAAACCCTAAACCCTAAACTTAAAAAACACAAACCCTAAATC-TAAAAACCTTAAAC
** *
19220037 CCTAAACTTAAAAACCTTAAACCTTGAAACCT
65 CCTAAACTTAAAAACCACAAACCATGAAACCT
19220069 TAACTTTAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
101 1 0.01
102 69 0.83
103 13 0.16
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (104 bp):
TAAACCTAAAAACCCTAAACCCTAAACTTAAAAAACACAAACCCTAAATCTAAAAACCTTAAACC
CTAAACTTAAAAACCACAAACCATGAAACCTAAAAATCG
Found at i:19229768 original size:10 final size:11
Alignment explanation
Indices: 19229745--19229779 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
19229735 AGGTTATACA
19229745 TTTCTCTTCTTT
1 TTTCT-TTCTTT
19229757 TTTCTTTCTTT
1 TTTCTTTCTTT
*
19229768 TTTTTTTCTTT
1 TTTCTTTCTTT
19229779 T
1 T
19229780 AGATGTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTCTTTCTTT
Found at i:19233980 original size:34 final size:35
Alignment explanation
Indices: 19233925--19233991 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
19233915 CAAACACCAG
*
19233925 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
19233960 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
19233992 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:19245970 original size:15 final size:16
Alignment explanation
Indices: 19245940--19245973 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
19245930 CAAGTGCCCT
*
19245940 ATATAGTATATTAAAA
1 ATATAGTATATGAAAA
19245956 ATATA-TATATGAAAA
1 ATATAGTATATGAAAA
19245971 ATA
1 ATA
19245974 AGAAACACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
ATATAGTATATGAAAA
Found at i:19246181 original size:18 final size:19
Alignment explanation
Indices: 19246147--19246184 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
19246137 GGTTTGACAT
*
19246147 AATTTAATATAATTTTATA
1 AATTTAATATAAATTTATA
19246166 AATTTAAT-TAAATTTATA
1 AATTTAATATAAATTTATA
19246184 A
1 A
19246185 TATATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTTAATATAAATTTATA
Found at i:19247567 original size:6 final size:7
Alignment explanation
Indices: 19247546--19247570 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19247536 TTATTTAAAA
19247546 TTTATTT
1 TTTATTT
19247553 TTTATTT
1 TTTATTT
19247560 TTTATTT
1 TTTATTT
19247567 TTTA
1 TTTA
19247571 AAAAATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:19248069 original size:29 final size:30
Alignment explanation
Indices: 19248030--19248097 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
19248020 ATTTTCTTAA
* *
19248030 TTAAATTTGACCTTCAATCTTT-TAAAAAAG
1 TTAAA-TTGACCATCAATCTTTCAAAAAAAG
*
19248060 TTGAATTGACCATCAATCTTTCAAAAAAAG
1 TTAAATTGACCATCAATCTTTCAAAAAAAG
19248090 TTAAATTG
1 TTAAATTG
19248098 TTTTCTTAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (30 bp):
TTAAATTGACCATCAATCTTTCAAAAAAAG
Found at i:19248662 original size:43 final size:42
Alignment explanation
Indices: 19248609--19248746 Score: 170
Period size: 43 Copynumber: 3.2 Consensus size: 42
19248599 TTTTTAAAAG
19248609 CGCCACTAAAGAACATGTTCTTTAGCGGCGCATTTTATACAAA
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGC-TTTTATACAAA
* * *
19248652 CGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTCTAACACAAA
1 CGCCACTAAAGAACATGTTCTTTAGCGGCGCTT-TTATACAAA
* * * *
19248695 CGCCGCTAAAGCTA-ATGTTCTTTAGTGGCGCTTTTTTCACAAA
1 CGCCACTAAAG-AACATGTTCTTTAGCGGCGCTTTTAT-ACAAA
19248738 CGCCACTAA
1 CGCCACTAA
19248747 TTTTGGGGTT
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
42 3 0.04
43 79 0.95
44 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
CGCCACTAAAGAACATGTTCTTTAGCGGCGCTTTTATACAAA
Found at i:19249123 original size:66 final size:66
Alignment explanation
Indices: 19249046--19249181 Score: 227
Period size: 66 Copynumber: 2.1 Consensus size: 66
19249036 CTCGCTGCAG
* * *
19249046 CCTCTGCTTCTCTGGATGCCGCATCAGCTTTAAGTTGTCGCTGGAGTTCTTCATATTTCTTTTGA
1 CCTCTGCTTCTCTCGATGCCGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGA
19249111 A
66 A
* *
19249112 CCTCTGCTTCTCTCGCTGCCGCATCTGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGA
1 CCTCTGCTTCTCTCGATGCCGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGA
19249177 A
66 A
19249178 CCTC
1 CCTC
19249182 AACTGTGGTC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.14, C:0.27, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCTGCTTCTCTCGATGCCGCATCAGCTCTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGA
A
Found at i:19253428 original size:41 final size:40
Alignment explanation
Indices: 19253383--19253578 Score: 293
Period size: 41 Copynumber: 4.8 Consensus size: 40
19253373 AGGCCTGCGA
* * *
19253383 ATTAGCGGTGCATCAATAAAAACGCCGCTAAAGCCCAGAAC
1 ATTAGCGGCGC-TTAATAAAAACGCCGCTAAATCCCAGAAC
*
19253424 ATTAGCGGCGCTTAATTAAAAACGCCACTAAATCCCAGAAC
1 ATTAGCGGCGCTTAA-TAAAAACGCCGCTAAATCCCAGAAC
19253465 ATTAGCGGCGCTTAAATAAAAACGCCGCTAAATCCCAGAAC
1 ATTAGCGGCGCTT-AATAAAAACGCCGCTAAATCCCAGAAC
* *
19253506 ATTAGTGGCGCTTAAAACAAAACGCCGCTAAATCCCAGAAC
1 ATTAGCGGCGCTTAATA-AAAACGCCGCTAAATCCCAGAAC
19253547 ATTAGCGGCGCTTACATAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTA-ATAAAAACGCCGCTAAA
19253579 GCTCCCCAAA
Statistics
Matches: 142, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
40 6 0.04
41 132 0.93
42 4 0.03
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (40 bp):
ATTAGCGGCGCTTAATAAAAACGCCGCTAAATCCCAGAAC
Found at i:19257085 original size:14 final size:14
Alignment explanation
Indices: 19257066--19257093 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19257056 GGTATTTATT
19257066 TAAATAAAATAAAA
1 TAAATAAAATAAAA
19257080 TAAATAAAATAAAA
1 TAAATAAAATAAAA
19257094 GAATTTTATC
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAATAAAATAAAA
Found at i:19262493 original size:32 final size:32
Alignment explanation
Indices: 19262439--19262506 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
19262429 TTGGGGTAGA
* * *
19262439 TGGGGGGTGGGATGGGATGGGAGTAAAAGTTT
1 TGGGGGGGGGGATAGGATGGGAGTAAAAGTAT
19262471 TGGGGGGGGGGAGTAGGA-GGGAGTAAAAGTAT
1 TGGGGGGGGGGA-TAGGATGGGAGTAAAAGTAT
19262503 TGGG
1 TGGG
19262507 AGGAAAGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 28 0.88
33 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.56, T:0.21
Consensus pattern (32 bp):
TGGGGGGGGGGATAGGATGGGAGTAAAAGTAT
Found at i:19263413 original size:14 final size:15
Alignment explanation
Indices: 19263379--19263414 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
19263369 CGAAATTAAT
19263379 ATTTTTATAACATTC
1 ATTTTTATAACATTC
*
19263394 ATTTTTATAATATTC
1 ATTTTTATAACATTC
19263409 ATTTTT
1 ATTTTT
19263415 CTTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTATAACATTC
Found at i:19276117 original size:95 final size:97
Alignment explanation
Indices: 19276015--19276207 Score: 257
Period size: 95 Copynumber: 2.0 Consensus size: 97
19276005 GTAACCATAT
* *
19276015 TTTTTTCAATGGTTCTGCA-TAACTGGTTTTTGGGTTACTCCTGCAATATGCATGG-G-GTCCCA
1 TTTTTTCAATGGTTCTGCAGT-ACCGGGTTTTGGGTTACTCCTGCAATATGCATGGAGAGTCCCA
19276077 AGGGGATTTAGCGATTGTTGGCAAAAACCATCC
65 AGGGGATTTAGCGATTGTTGGCAAAAACCATCC
* * * * *
19276110 TTTTTTCAGTGGTTCTTCAGTACCGGGTTTTGGGTTACTGCTGCAATGTGTATGGATAAGTAGTC
1 TTTTTTCAATGGTTCTGCAGTACCGGGTTTTGGGTTACTCCTGCAATATGCATGG---AG-AGTC
19276175 CCAAGGGGATTTAGCGATTGTTGGCAAAAACCA
62 CCAAGGGGATTTAGCGATTGTTGGCAAAAACCA
19276208 CCGAGGAAGA
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
95 46 0.55
96 1 0.01
99 1 0.01
101 36 0.43
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (97 bp):
TTTTTTCAATGGTTCTGCAGTACCGGGTTTTGGGTTACTCCTGCAATATGCATGGAGAGTCCCAA
GGGGATTTAGCGATTGTTGGCAAAAACCATCC
Found at i:19280313 original size:31 final size:31
Alignment explanation
Indices: 19280275--19280338 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
19280265 TGACTTAATC
19280275 ATAATAATGGGAATATATCTTGCAGCAGACT
1 ATAATAATGGGAATATATCTTGCAGCAGACT
19280306 ATAATAATGGGAATATATCTTGCAGCAGACT
1 ATAATAATGGGAATATATCTTGCAGCAGACT
19280337 AT
1 AT
19280339 CATTCTTGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (31 bp):
ATAATAATGGGAATATATCTTGCAGCAGACT
Found at i:19282616 original size:15 final size:16
Alignment explanation
Indices: 19282596--19282625 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19282586 AAAATTTAAT
19282596 TTTATA-TTAAATTAC
1 TTTATATTTAAATTAC
19282611 TTTATATTTAAATTA
1 TTTATATTTAAATTA
19282626 TTATGACTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTATATTTAAATTAC
Found at i:19282968 original size:6 final size:6
Alignment explanation
Indices: 19282957--19282995 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
19282947 TCGAAGTTTG
19282957 AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA AAG
1 AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA AAG
19282996 AACGTAAAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.67, C:0.15, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGCAA
Found at i:19291208 original size:12 final size:12
Alignment explanation
Indices: 19291191--19291218 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19291181 CAATATCCAT
19291191 TGATTGAAAATG
1 TGATTGAAAATG
19291203 TGATTGAAAATG
1 TGATTGAAAATG
19291215 TGAT
1 TGAT
19291219 ATTCAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (12 bp):
TGATTGAAAATG
Found at i:19291657 original size:2 final size:2
Alignment explanation
Indices: 19291652--19291682 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19291642 TATATATATA
19291652 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
19291683 TTTGGTGACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:19294399 original size:42 final size:41
Alignment explanation
Indices: 19294245--19294400 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
19294235 TATGTTATCG
*
19294245 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
19294287 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
19294331 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
19294373 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
19294401 TGTACGATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:19297152 original size:6 final size:6
Alignment explanation
Indices: 19297143--19297169 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
19297133 TATATACTGT
19297143 ATACAC ATACAC ATACAC ATACAC ATA
1 ATACAC ATACAC ATACAC ATACAC ATA
19297170 TACTATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.19
Consensus pattern (6 bp):
ATACAC
Found at i:19297192 original size:6 final size:6
Alignment explanation
Indices: 19297181--19297218 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
19297171 ACTATCTTTC
19297181 CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT CC
1 CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT CCCAAT CC
19297219 GTTTGATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.53, G:0.00, T:0.16
Consensus pattern (6 bp):
CCCAAT
Found at i:19301582 original size:18 final size:18
Alignment explanation
Indices: 19301561--19301611 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
19301551 TATCACTACT
*
19301561 GCTCTCACTCCCACTCCC
1 GCTCCCACTCCCACTCCC
* *
19301579 GCTCCCGCTTCCACTCCC
1 GCTCCCACTCCCACTCCC
* *
19301597 GCTACCACTACCACT
1 GCTCCCACTCCCACT
19301612 ACTCTCGCTC
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:0.14, C:0.57, G:0.08, T:0.22
Consensus pattern (18 bp):
GCTCCCACTCCCACTCCC
Found at i:19307121 original size:17 final size:17
Alignment explanation
Indices: 19307099--19307132 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19307089 TACACTTTTT
19307099 AAGTTAGTGAATGTGAG
1 AAGTTAGTGAATGTGAG
19307116 AAGTTAGTGAATGTGAG
1 AAGTTAGTGAATGTGAG
19307133 CAACTTCACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (17 bp):
AAGTTAGTGAATGTGAG
Found at i:19309644 original size:27 final size:29
Alignment explanation
Indices: 19309611--19309669 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
19309601 TAATTATCTA
19309611 ATATATTT-TT-CAAACGAA-ATTTCAAAT
1 ATATATTTATTCCAAA-GAATATTTCAAAT
*
19309638 ATATATTTATTCCAAATAATATTTCAAAT
1 ATATATTTATTCCAAAGAATATTTCAAAT
19309667 ATA
1 ATA
19309670 ACATTTTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 8 0.29
28 4 0.14
29 16 0.57
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (29 bp):
ATATATTTATTCCAAAGAATATTTCAAAT
Found at i:19321195 original size:27 final size:27
Alignment explanation
Indices: 19321157--19321240 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
19321147 AACCAATATG
* * *
19321157 GTCCGTTGGGACAATAAACACAGGGTA
1 GTCCATTGGGACAGTAAACACAAGGTA
*
19321184 GTCCATTGGGACAGTAAACACAAGGTT
1 GTCCATTGGGACAGTAAACACAAGGTA
* * * *
19321211 GTCCACTAGGACAGTAAACACGAGATA
1 GTCCATTGGGACAGTAAACACAAGGTA
19321238 GTC
1 GTC
19321241 TGTCAGGATA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (27 bp):
GTCCATTGGGACAGTAAACACAAGGTA
Found at i:19321248 original size:27 final size:27
Alignment explanation
Indices: 19321218--19321309 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
19321208 GTTGTCCACT
19321218 AGGACAGTAAACACGAGATAGTCTGTC
1 AGGACAGTAAACACGAGATAGTCTGTC
* * * *
19321245 AGGATAATAAACAC-ATAATAGTCCGTC
1 AGGACAGTAAACACGA-GATAGTCTGTC
* * * * *
19321272 TGGATAGTAAATAAGAGATAGTCTGTT
1 AGGACAGTAAACACGAGATAGTCTGTC
*
19321299 GGGACAGTAAA
1 AGGACAGTAAA
19321310 TATGGGGTAT
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
26 1 0.02
27 48 0.96
28 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (27 bp):
AGGACAGTAAACACGAGATAGTCTGTC
Found at i:19330050 original size:3 final size:3
Alignment explanation
Indices: 19330044--19330075 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
19330034 GTTATTATTA
19330044 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
19330076 TTTGGTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:19332948 original size:6 final size:6
Alignment explanation
Indices: 19332937--19332978 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
19332927 TGAATGACCC
*
19332937 TATGTA TATGTA TATGTA TATGTA TATGTA TATGCA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
19332979 ACATGCCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (6 bp):
TATGTA
Found at i:19333252 original size:77 final size:77
Alignment explanation
Indices: 19333050--19333218 Score: 252
Period size: 78 Copynumber: 2.2 Consensus size: 77
19333040 CTAGGCACAG
*
19333050 CTATGCCTTGTGCCTTATCACTAGACAACAAAAGCACCTCGTATCCTTTTGGGCGAGGTGCATTT
1 CTATGCCTTGTGCCTTAGCACTAGACAACAAAAGCACCTCGTA-CCTTTTGGGCGAGGTGCATTT
*
19333115 GATCGGATGCATGC
65 GATCAGA-GCATGC
* * * *
19333129 CTAAG-TTTGTGCCTTAGCACTAGACAACAAAAGCACCTCATACCTTTTGGGCGAGTTGCATTTG
1 CTATGCCTTGTGCCTTAGCACTAGACAACAAAAGCACCTCGTACCTTTTGGGCGAGGTGCATTTG
19333193 ATCAGA-CATGC
66 ATCAGAGCATGC
19333204 CTATGCCTTGTGCCT
1 CTATGCCTTGTGCCT
19333219 AGGCATTAGT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
75 9 0.11
76 8 0.10
77 26 0.32
78 34 0.42
79 4 0.05
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (77 bp):
CTATGCCTTGTGCCTTAGCACTAGACAACAAAAGCACCTCGTACCTTTTGGGCGAGGTGCATTTG
ATCAGAGCATGC
Found at i:19352411 original size:26 final size:27
Alignment explanation
Indices: 19352355--19352413 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
19352345 CATTTTTATT
19352355 TTTAAAA-ATAATTTTAAAAATTTAAA
1 TTTAAAATATAATTTTAAAAATTTAAA
* *
19352381 -ATAAAATATAATTTT-AAATTTTAAA
1 TTTAAAATATAATTTTAAAAATTTAAA
19352406 TTTAAAAT
1 TTTAAAAT
19352414 GTTTATATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TTTAAAATATAATTTTAAAAATTTAAA
Found at i:19357662 original size:17 final size:19
Alignment explanation
Indices: 19357634--19357669 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
19357624 TTTAATTTTC
19357634 AAAATTTCAAAAA-AAAAA
1 AAAATTTCAAAAATAAAAA
19357652 AAAATTT-AAAAATAAAAA
1 AAAATTTCAAAAATAAAAA
19357670 TTGCATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATTTCAAAAATAAAAA
Done.