Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 75 of 106
Found at i:14325753 original size:61 final size:61
Alignment explanation
Indices: 14325682--14325847 Score: 228
Period size: 61 Copynumber: 2.7 Consensus size: 61
14325672 TATTTTAAGT
* * *
14325682 TTTTTTTTTCAAGAAAAATTGATACTTCCAATTTTTCCTCAAAAATGTTCTTTTTT-AATAA
1 TTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTCTTTTTTGAA-AA
* * *
14325743 TTTTATTTTCAAGAAAAATTGGTCCTTTCAACTTTTT-CTCAAAAATATTTTTTTTTGAAAA
1 TTTTATTTTCAAGAAAAATTGATACTTTCAA-TTTTTCCTCAAAAATATTCTTTTTTGAAAA
* *
14325804 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA
1 TTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAAA
14325848 TACTTTTAGA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
60 4 0.04
61 81 0.88
62 7 0.08
ACGTcount: A:0.34, C:0.13, G:0.05, T:0.48
Consensus pattern (61 bp):
TTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTCTTTTTTGAAAA
Found at i:14325876 original size:16 final size:15
Alignment explanation
Indices: 14325851--14325884 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
14325841 CTCAAAATAC
*
14325851 TTTTAGAAATTTTTAT
1 TTTTA-AAAATTTTAT
14325867 TTTTAAAAATTTTAT
1 TTTTAAAAATTTTAT
14325882 TTT
1 TTT
14325885 CAAGAAAAAT
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:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTTAAAAATTTTAT
Found at i:14325890 original size:72 final size:73
Alignment explanation
Indices: 14325785--14325927 Score: 218
Period size: 72 Copynumber: 2.0 Consensus size: 73
14325775 TTTTTCTCAA
* * *
14325785 AAATATTTTTTTTTGAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTT-CCTCAAAAT
1 AAATATTTTTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTACCTAAAAAT
14325849 ACTTTTAG
66 ACTTTTAG
*
14325857 AAAT-TTTTATTTTTAAAAATTTTATTTTCAAGAAAAATTGATATTTTCAACTTTTACCTAAAAA
1 AAATATTTT-TTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTACCTAAAAA
*
14325921 TATTTTT
65 TACTTTT
14325928 TTTGAAAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 4 0.06
72 47 0.73
73 13 0.20
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (73 bp):
AAATATTTTTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTACCTAAAAAT
ACTTTTAG
Found at i:14327240 original size:55 final size:55
Alignment explanation
Indices: 14327159--14327356 Score: 301
Period size: 55 Copynumber: 3.6 Consensus size: 55
14327149 GGAGTTGGTG
* * * * *
14327159 GTGGAAAAGTTGATTGGACGTAAGGCT-GAATTGTGAAATTGTTTAC-AGGCAATTG
1 GTGGAAAAATTGATTGGATGTGAGGCTCG-ATTGTGAAATTATTTACAAGG-AATTA
*
14327214 GTGGAAAAGTTGATTGGATGTGAGGCTCGATTGTGAAATTATTTACAAGGAATTA
1 GTGGAAAAATTGATTGGATGTGAGGCTCGATTGTGAAATTATTTACAAGGAATTA
14327269 GTGGAAAAATTGATTGGATGTGAGGCTCGATTGTGAAATTATTTACAAGGAATTA
1 GTGGAAAAATTGATTGGATGTGAGGCTCGATTGTGAAATTATTTACAAGGAATTA
*
14327324 GTGGAAAAATTGATTGGATGTGAGGCTGGATTG
1 GTGGAAAAATTGATTGGATGTGAGGCTCGATTG
14327357 ATTGCAATGG
Statistics
Matches: 135, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
55 131 0.97
56 4 0.03
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.32
Consensus pattern (55 bp):
GTGGAAAAATTGATTGGATGTGAGGCTCGATTGTGAAATTATTTACAAGGAATTA
Found at i:14328078 original size:43 final size:41
Alignment explanation
Indices: 14327976--14328151 Score: 131
Period size: 41 Copynumber: 4.2 Consensus size: 41
14327966 GCTGACAATT
** * **
14327976 TTTGAAAAGAT-AAAGGCT-CTCATAAGCAGAGGCTCAATAAC
1 TTTGAAAA-ATAAAAGGCTCCTC-TAAATAGAAGCTCAACGAC
* *
14328017 TTAGAAAAATAAAAGGCTCCTCTAAATAGAAGCTCAACGAT
1 TTTGAAAAATAAAAGGCTCCTCTAAATAGAAGCTCAACGAC
* * ** * *
14328058 TTTGAAAAAAATAAAGGGCTCCCCTAAGCAGAGGCTCAGCGAC
1 TTTG--AAAAATAAAAGGCTCCTCTAAATAGAAGCTCAACGAC
* * * * * *
14328101 TTTGAAAAATAAAATGCTCCTCTAACTAGAGGCACCACAAC
1 TTTGAAAAATAAAAGGCTCCTCTAAATAGAAGCTCAACGAC
14328142 TTTGAAAAAT
1 TTTGAAAAAT
14328152 GCTTTTTGAC
Statistics
Matches: 107, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
40 2 0.02
41 68 0.64
42 3 0.03
43 34 0.32
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (41 bp):
TTTGAAAAATAAAAGGCTCCTCTAAATAGAAGCTCAACGAC
Found at i:14328086 original size:84 final size:82
Alignment explanation
Indices: 14327975--14328130 Score: 213
Period size: 84 Copynumber: 1.9 Consensus size: 82
14327965 GGCTGACAAT
* * *
14327975 TTTTGAAAAGATAAAGGCTCTCATAAGCAGAGGCTCAATAACTTAGAAAAATAAAAGGCTCCTCT
1 TTTTGAAAAAATAAAGGCTCCCATAAGCAGAGGCTCAACAACTTAGAAAAATAAAAGGCTCCTCT
14328040 AAATAGAAGCTCAACGA
66 AAATAGAAGCTCAACGA
* * * * *
14328057 TTTTGAAAAAAATAAAGGGCTCCCCTAAGCAGAGGCTCAGCGACTTTGAAAAATAAAATGCTCCT
1 TTTTG-AAAAAATAAA-GGCTCCCATAAGCAGAGGCTCAACAACTTAGAAAAATAAAAGGCTCCT
*
14328122 CTAACTAGA
64 CTAAATAGA
14328131 GGCACCACAA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
82 5 0.08
83 9 0.14
84 49 0.78
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (82 bp):
TTTTGAAAAAATAAAGGCTCCCATAAGCAGAGGCTCAACAACTTAGAAAAATAAAAGGCTCCTCT
AAATAGAAGCTCAACGA
Found at i:14328146 original size:84 final size:83
Alignment explanation
Indices: 14327976--14328150 Score: 208
Period size: 84 Copynumber: 2.1 Consensus size: 83
14327966 GCTGACAATT
* * *
14327976 TTTG-AAAAGATAAAGGCTCTCATAAGCAGAGGCTCAATAACTTAGAAAAATAAAAGGCTCCTCT
1 TTTGAAAAAAATAAAGGCTCCCATAAGCAGAGGCTCAACAACTTAGAAAAATAAAAGGCTCCTCT
* * *
14328040 AAATAGAAGCTCAACGAT
66 AAATAGAAGCACAACAAC
* * * * *
14328058 TTTGAAAAAAATAAAGGGCTCCCCTAAGCAGAGGCTCAGCGACTTTGAAAAATAAAATGCTCCTC
1 TTTGAAAAAAATAAA-GGCTCCCATAAGCAGAGGCTCAACAACTTAGAAAAATAAAAGGCTCCTC
* * *
14328123 TAACTAGAGGCACCACAAC
65 TAAATAGAAGCACAACAAC
14328142 TTTGAAAAA
1 TTTGAAAAA
14328151 TGCTTTTTGA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
82 4 0.05
83 9 0.12
84 64 0.83
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.21
Consensus pattern (83 bp):
TTTGAAAAAAATAAAGGCTCCCATAAGCAGAGGCTCAACAACTTAGAAAAATAAAAGGCTCCTCT
AAATAGAAGCACAACAAC
Found at i:14328606 original size:21 final size:21
Alignment explanation
Indices: 14328582--14329018 Score: 122
Period size: 21 Copynumber: 20.0 Consensus size: 21
14328572 GGTTTTGTAT
* *
14328582 CTCAAATATTATTATTTGAAA
1 CTCAAAGATTATCATTTGAAA
*
14328603 CTCAAAGATTCTCATTTG-AA
1 CTCAAAGATTATCATTTGAAA
* * *
14328623 TTTAAAGATTTTCATTTGAAAA
1 CTCAAAGATTATCATTTG-AAA
*
14328645 CATCTTAAAGATTCTCATTT-AATA
1 C-TC--AAAGATTATCATTTGAA-A
*
14328669 CTCAAATATTATCATTT-AACA
1 CTCAAAGATTATCATTTGAA-A
* * *
14328690 TTCAAAGATTCTCATTTAAAGA
1 CTCAAAGATTATCATTTGAA-A
* * * *
14328712 TTCAAAGATTCTCTTTTGAGGA
1 CTCAAAGATTATCATTTGA-AA
* * * *
14328734 TTCAAAAATTCTTATTTGAAA
1 CTCAAAGATTATCATTTGAAA
* * *
14328755 TTTAAAGATTCTCATTT-AAGA
1 CTCAAAGATTATCATTTGAA-A
* * * *
14328776 CTTAAATATTCTCATTT-AATG
1 CTCAAAGATTATCATTTGAA-A
*
14328797 CTCAAAGATTCTCATTTGAATA
1 CTCAAAGATTATCATTTGAA-A
* * *
14328819 TTCAAAGATTTTCATTTAAAAATA
1 CTCAAAGATTATCATTT--GAA-A
* *
14328843 TCTTAAAGATTCTCATTT-AAGA
1 -CTCAAAGATTATCATTTGAA-A
* * * *
14328865 CTTAAATATTCTTATTT-AACA
1 CTCAAAGATTATCATTTGAA-A
*
14328886 CTCAATA-ATTCTCATTTGAATA
1 CTCAA-AGATTATCATTTGAA-A
* *
14328908 TTCAAAGATTTTCATTTGAAAA
1 CTCAAAGATTATCATTTG-AAA
*
14328930 CATCTTAAAGATTCTCATTT-AAGA
1 C-TC--AAAGATTATCATTTGAA-A
* *
14328954 CTTAAAGATTCTCATTT-AAGA
1 CTCAAAGATTATCATTTGAA-A
* *
14328975 CTTAAA-ACTTTTCATTTGAAA
1 CTCAAAGA-TTATCATTTGAAA
* * *
14328996 GTCTTAAAGATTCTTATTTGAAA
1 --CTCAAAGATTATCATTTGAAA
14329019 ACATCTTAAA
Statistics
Matches: 336, Mismatches: 54, Indels: 50
0.76 0.12 0.11
Matches are distributed among these distances:
20 20 0.06
21 157 0.47
22 81 0.24
23 29 0.09
24 9 0.03
25 40 0.12
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.41
Consensus pattern (21 bp):
CTCAAAGATTATCATTTGAAA
Found at i:14328868 original size:89 final size:88
Alignment explanation
Indices: 14328680--14329043 Score: 431
Period size: 89 Copynumber: 4.1 Consensus size: 88
14328670 TCAAATATTA
* * * ** *
14328680 TCATTTAACA-TTCAAAGATTCTCATTTAAAGATTCAAAGATTCTCTTTTGAGGATTCAAAAATT
1 TCATTTAAGACTT-AAAGATTCTCATTT-AAGACTCAAA-ATTCTCATTTGAATATTCAAAGATT
14328744 CTTATTTG--AA-AT-TTAAAGATTC
63 CTTATTTGAAAACATCTTAAAGATTC
*
14328766 TCATTTAAGACTTAAATATTCTCATTTAATG-CTCAAAGATTCTCATTTGAATATTCAAAGATT-
1 TCATTTAAGACTTAAAGATTCTCATTTAA-GACTCAAA-ATTCTCATTTGAATATTCAAAGATTC
* *
14328829 TTCATTTAAAAATATCTTAAAGATTC
64 TT-ATTTGAAAACATCTTAAAGATTC
* * *
14328855 TCATTTAAGACTTAAATATTCTTATTTAACACTCAATAATTCTCATTTGAATATTCAAAGATT-T
1 TCATTTAAGACTTAAAGATTCTCATTTAAGACTCAA-AATTCTCATTTGAATATTCAAAGATTCT
14328919 TCATTTGAAAACATCTTAAAGATTC
65 T-ATTTGAAAACATCTTAAAGATTC
* * *
14328944 TCATTTAAGACTTAAAGATTCTCATTTAAGACTTAAAACTTTTCATTTGAA-AGTCTTAAAGATT
1 TCATTTAAGACTTAAAGATTCTCATTTAAGACTCAAAA-TTCTCATTTGAATA-T-TCAAAGATT
14329008 CTTATTTGAAAACATCTTAAAGATTC
63 CTTATTTGAAAACATCTTAAAGATTC
14329034 TCATTTAAGA
1 TCATTTAAGA
14329044 TTCAAAACTT
Statistics
Matches: 247, Mismatches: 18, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
84 2 0.01
85 33 0.13
86 23 0.09
87 4 0.02
88 5 0.02
89 136 0.55
90 42 0.17
91 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (88 bp):
TCATTTAAGACTTAAAGATTCTCATTTAAGACTCAAAATTCTCATTTGAATATTCAAAGATTCTT
ATTTGAAAACATCTTAAAGATTC
Found at i:14328917 original size:196 final size:198
Alignment explanation
Indices: 14328595--14329017 Score: 540
Period size: 196 Copynumber: 2.2 Consensus size: 198
14328585 AAATATTATT
*
14328595 ATTTGAAA--CTCAAAGATTCTCATTTGAATTTAAAGATTTTCATTTGAAAACATCTTAAAGATT
1 ATTTGAAAGTCTCAAAGATTCTCATTTGAATTTAAAGATTTTCATTTAAAAACATCTTAAAGATT
* *
14328658 CTCATTTAATACTCAAATATTATCATTTAACATTCAAAGATTCTCATTTAAAGATTCAAAGATTC
66 CTCATTTAAGACTCAAATATTATCATTTAACACTCAAAGATTCTCATTTAAAGATTCAAAGATTC
* ** * *
14328723 TCTTTTG-AGGAT-TCAAAAATTCTTATTTGAA-ATTTAAAGATTCTCATTTAAGACTTAAATA-
131 TCATTTGAAACATCTCAAAAATTCTCATTT-AAGACTTAAAGATTCTCATTTAAGACTTAAA-AC
14328784 TTCTC
194 TTCTC
* *
14328789 ATTT-AATG-CTCAAAGATTCTCATTTGAATATTCAAAGATTTTCATTTAAAAATATCTTAAAGA
1 ATTTGAAAGTCTCAAAGATTCTCATTTGAAT-TT-AAAGATTTTCATTTAAAAACATCTTAAAGA
* * * * *
14328852 TTCTCATTTAAGACTTAAATATTCTTATTTAACACTCAATA-ATTCTCATTTGAATATTCAAAGA
64 TTCTCATTTAAGACTCAAATATTATCATTTAACACTCAA-AGATTCTCATTTAAAGATTCAAAGA
* * *
14328916 TTTTCATTTGAAAACATCTTAAAGATTCTCATTTAAGACTTAAAGATTCTCATTTAAGACTTAAA
128 TTCTCATTTG-AAACATCTCAAAAATTCTCATTTAAGACTTAAAGATTCTCATTTAAGACTTAAA
*
14328981 ACTTTTC
192 ACTTCTC
* *
14328988 ATTTGAAAGTCTTAAAGATTCTTATTTGAA
1 ATTTGAAAGTCTCAAAGATTCTCATTTGAA
14329018 AACATCTTAA
Statistics
Matches: 196, Mismatches: 22, Indels: 15
0.84 0.09 0.06
Matches are distributed among these distances:
193 2 0.01
194 25 0.13
195 2 0.01
196 91 0.46
197 1 0.01
198 6 0.03
199 48 0.24
200 3 0.02
201 18 0.09
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (198 bp):
ATTTGAAAGTCTCAAAGATTCTCATTTGAATTTAAAGATTTTCATTTAAAAACATCTTAAAGATT
CTCATTTAAGACTCAAATATTATCATTTAACACTCAAAGATTCTCATTTAAAGATTCAAAGATTC
TCATTTGAAACATCTCAAAAATTCTCATTTAAGACTTAAAGATTCTCATTTAAGACTTAAAACTT
CTC
Found at i:14328950 original size:68 final size:65
Alignment explanation
Indices: 14328682--14329054 Score: 209
Period size: 68 Copynumber: 5.6 Consensus size: 65
14328672 AAATATTATC
* * * ** * *
14328682 ATTTAACATTCAAAGATTCTCATTTAAAGA-TTCAAAGA-TTCTCTTTTGAGGAT-TCAAAAATT
1 ATTTAACACTCAAAGATTCTCATTT-AAGACTT-AAA-ACTTTTCATTTGAAAATCTTAAAGATT
14328744 CTT
63 CTT
* * * *
14328747 ATTTGAA-ATTTAAAGATTCTCATTTAAGACTTAAATA-TTCTCATTT---AATGCTCAAAGATT
1 ATTT-AACACTCAAAGATTCTCATTTAAGACTTAAA-ACTTTTCATTTGAAAAT-CTTAAAGATT
*
14328807 CTC
63 CTT
* * * * * * *
14328810 ATTTGAATATTCAAAGATTTTCATTTAAAAATATCTTAAAGA-TTCTCATTT-AAGA-CTTAAAT
1 ATTT-AACACTCAAAGATTCTCATTT---AAGA-CTTAAA-ACTTTTCATTTGAAAATCTTAAAG
14328872 ATTCTT
60 ATTCTT
*
14328878 ATTTAACACTCAATA-ATTCTCATTTGAATA-TTCAAAGA-TTTTCATTTGAAAACATCTTAAAG
1 ATTTAACACTCAA-AGATTCTCATTT-AAGACTT-AAA-ACTTTTCATTTG-AAA-ATCTTAAAG
*
14328940 ATTCTC
60 ATTCTT
* * *
14328946 ATTTAAGACTTAAAGATTCTCATTTAAGACTTAAAACTTTTCATTTGAAAGTCTTAAAGATTCTT
1 ATTTAACACTCAAAGATTCTCATTTAAGACTTAAAACTTTTCATTTGAAAATCTTAAAGATTCTT
*
14329011 ATTTGAAAACATCTTAAAGATTCTCATTTAAGA-TTCAAAACTTT
1 ATTT---AACA-CTCAAAGATTCTCATTTAAGACTT-AAAACTTT
14329055 ATTAAAATAC
Statistics
Matches: 255, Mismatches: 28, Indels: 46
0.78 0.09 0.14
Matches are distributed among these distances:
61 2 0.01
63 19 0.07
64 45 0.18
65 44 0.17
66 8 0.03
67 37 0.15
68 70 0.27
69 29 0.11
70 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (65 bp):
ATTTAACACTCAAAGATTCTCATTTAAGACTTAAAACTTTTCATTTGAAAATCTTAAAGATTCTT
Found at i:14332587 original size:9 final size:9
Alignment explanation
Indices: 14332575--14332673 Score: 98
Period size: 9 Copynumber: 10.7 Consensus size: 9
14332565 CTTTTCATCC
14332575 TTTTTTCA-
1 TTTTTTCAT
14332583 TTTTTTCAT
1 TTTTTTCAT
*
14332592 TTTTTCTCTT
1 TTTTT-TCAT
14332602 ATTTTTTCA-
1 -TTTTTTCAT
14332611 -TTTTTCAT
1 TTTTTTCAT
14332619 TTTTTTCAT
1 TTTTTTCAT
14332628 TTTTTTCATTT
1 TTTTTTCA--T
14332639 TTTTTTCAT
1 TTTTTTCAT
14332648 TTTTTCATCCAT
1 TTTTT--T-CAT
14332660 TTTTTTC-T
1 TTTTTTCAT
14332668 TTTTTT
1 TTTTTT
14332674 ATCATCTTTC
Statistics
Matches: 79, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
7 7 0.09
8 15 0.19
9 28 0.35
10 6 0.08
11 15 0.19
12 8 0.10
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:14332587 original size:28 final size:27
Alignment explanation
Indices: 14332555--14332673 Score: 93
Period size: 28 Copynumber: 4.3 Consensus size: 27
14332545 AATTTGAGTT
14332555 TTTTTTTTTTCTTTTCATCCTTTTTTCA
1 TTTTTTTTTT-TTTTCATCCTTTTTTCA
* **
14332583 TTTTTTCATTTTTTCTC-TTATTTTTTCA
1 TTTTTT--TTTTTTTTCATCCTTTTTTCA
**
14332611 TTTTTCATTTTTTTCAT--TTTTTTCA
1 TTTTTTTTTTTTTTCATCCTTTTTTCA
14332636 TTTTTTTTTCATTTTTTCATCCATTTTTTTC-
1 -TTTTTTTT--TTTTTTCATCC--TTTTTTCA
14332667 TTTTTTT
1 TTTTTTT
14332674 ATCATCTTTC
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
25 8 0.11
26 13 0.18
27 1 0.01
28 29 0.40
29 4 0.05
30 11 0.15
32 7 0.10
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.76
Consensus pattern (27 bp):
TTTTTTTTTTTTTTCATCCTTTTTTCA
Found at i:14332607 original size:20 final size:19
Alignment explanation
Indices: 14332553--14332652 Score: 86
Period size: 20 Copynumber: 5.3 Consensus size: 19
14332543 TCAATTTGAG
*
14332553 TTTTTTT-TTTTTCTTTTCA
1 TTTTTTTCTTATT-TTTTCA
14332572 TCCTTTTTTC--ATTTTTTCA
1 T--TTTTTTCTTATTTTTTCA
14332591 TTTTTTCTCTTATTTTTTCA
1 TTTTTT-TCTTATTTTTTCA
*
14332611 --TTTTTCAT-TTTTTTCA
1 TTTTTTTCTTATTTTTTCA
*
14332627 TTTTTTTCATTTTTTTTTCA
1 TTTTTTTC-TTATTTTTTCA
14332647 TTTTTT
1 TTTTTT
14332653 CATCCATTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 19
0.76 0.03 0.21
Matches are distributed among these distances:
16 8 0.12
17 8 0.12
18 12 0.18
19 9 0.13
20 25 0.37
21 6 0.09
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTTCTTATTTTTTCA
Found at i:14332615 original size:36 final size:36
Alignment explanation
Indices: 14332575--14332655 Score: 121
Period size: 36 Copynumber: 2.2 Consensus size: 36
14332565 CTTTTCATCC
14332575 TTTTTTCATTTTTTCATTTTTTCTC-TTATTTTTTCA
1 TTTTTTCATTTTTTCATTTTTT-TCATTATTTTTTCA
*
14332611 -TTTTTCATTTTTTTCATTTTTTTCATTTTTTTTTCA
1 TTTTTTCA-TTTTTTCATTTTTTTCATTATTTTTTCA
14332647 TTTTTTCAT
1 TTTTTTCAT
14332656 CCATTTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
35 9 0.22
36 25 0.61
37 7 0.17
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (36 bp):
TTTTTTCATTTTTTCATTTTTTTCATTATTTTTTCA
Found at i:14332623 original size:44 final size:45
Alignment explanation
Indices: 14332559--14332655 Score: 132
Period size: 44 Copynumber: 2.2 Consensus size: 45
14332549 TGAGTTTTTT
14332559 TTTTTTC--TTTTCATCCTTTTTTCA-TTTTTTCATTTTTTCTCTT-A
1 TTTTTTCATTTTTCAT-CTTTTTTCATTTTTTTCATTTTTT-T-TTCA
14332603 TTTTTTCATTTTTCAT-TTTTTTCATTTTTTTCATTTTTTTTTCA
1 TTTTTTCATTTTTCATCTTTTTTCATTTTTTTCATTTTTTTTTCA
14332647 TTTTTTCAT
1 TTTTTTCAT
14332656 CCATTTTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
43 2 0.04
44 26 0.53
45 14 0.29
46 7 0.14
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.75
Consensus pattern (45 bp):
TTTTTTCATTTTTCATCTTTTTTCATTTTTTTCATTTTTTTTTCA
Found at i:14332641 original size:11 final size:11
Alignment explanation
Indices: 14332618--14332652 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
14332608 TCATTTTTCA
14332618 TTTTTTTCA--
1 TTTTTTTCATT
14332627 TTTTTTTCATT
1 TTTTTTTCATT
14332638 TTTTTTTCATT
1 TTTTTTTCATT
14332649 TTTT
1 TTTT
14332653 CATCCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.38
11 15 0.62
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTCATT
Found at i:14332662 original size:20 final size:19
Alignment explanation
Indices: 14332580--14332678 Score: 91
Period size: 20 Copynumber: 5.2 Consensus size: 19
14332570 CATCCTTTTT
14332580 TCATTTTTTCATTTTTTC-
1 TCATTTTTTCATTTTTTCA
14332598 TCTTATTTTTTCA-TTTTTCA
1 TC--ATTTTTTCATTTTTTCA
14332618 T--TTTTTTCATTTTTTTCA
1 TCATTTTTTCA-TTTTTTCA
**
14332636 TTTTTTTTTCATTTTTTCA
1 TCATTTTTTCATTTTTTCA
*
14332655 TCCATTTTTTTC-TTTTTTTA
1 T-CA-TTTTTTCATTTTTTCA
14332675 TCAT
1 TCAT
14332679 CTTTCATCTA
Statistics
Matches: 69, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
16 8 0.12
18 11 0.16
19 17 0.25
20 26 0.38
21 7 0.10
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (19 bp):
TCATTTTTTCATTTTTTCA
Found at i:14332673 original size:8 final size:8
Alignment explanation
Indices: 14332553--14332642 Score: 58
Period size: 9 Copynumber: 10.6 Consensus size: 8
14332543 TCAATTTGAG
14332553 TTTTT-TT
1 TTTTTCTT
14332560 TTTTTCTT
1 TTTTTCTT
** *
14332568 TTCATCCT
1 TTTTTCTT
*
14332576 TTTTTCAT
1 TTTTTCTT
14332584 TTTTTCATT
1 TTTTTC-TT
14332593 TTTTCTCTT
1 TTTT-TCTT
*
14332602 ATTTTT-TCA
1 -TTTTTCT-T
14332611 TTTTTCATT
1 TTTTTC-TT
14332620 TTTTTCATT
1 TTTTTC-TT
14332629 TTTTTCATT
1 TTTTTC-TT
14332638 TTTTT
1 TTTTT
14332643 TTCATTTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
7 5 0.07
8 24 0.36
9 31 0.46
10 7 0.10
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCTT
Found at i:14332673 original size:23 final size:23
Alignment explanation
Indices: 14332618--14332679 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
14332608 TCATTTTTCA
*
14332618 TTTTTTTCATTTT-T--TTCATT
1 TTTTTTTCATTTTATCATCCATT
*
14332638 TTTTTTTCATTTTTTCATCCATT
1 TTTTTTTCATTTTATCATCCATT
*
14332661 TTTTTCTT-TTTTTATCATC
1 TTTTT-TTCATTTTATCATC
14332680 TTTCATCTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 13 0.37
21 1 0.03
23 19 0.54
24 2 0.06
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTTTCATTTTATCATCCATT
Found at i:14333076 original size:13 final size:13
Alignment explanation
Indices: 14333060--14333089 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14333050 TTTTGTTTTA
*
14333060 CTTTTCTTTCTTT
1 CTTTTCTTTCTAT
14333073 CTTTTCTTTCTAT
1 CTTTTCTTTCTAT
14333086 CTTT
1 CTTT
14333090 GAGACTTTTA
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:0.03, C:0.23, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTTTCTTTCTAT
Found at i:14334996 original size:17 final size:17
Alignment explanation
Indices: 14334965--14334998 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
14334955 TAGCTCTGGT
14334965 ACTGTGGTATATTTAAA
1 ACTGTGGTATATTTAAA
14334982 ACTGATGGTAT-TTTAAA
1 ACTG-TGGTATATTTAAA
14334999 GTATGTGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (17 bp):
ACTGTGGTATATTTAAA
Found at i:14336786 original size:60 final size:59
Alignment explanation
Indices: 14336619--14336888 Score: 336
Period size: 59 Copynumber: 4.6 Consensus size: 59
14336609 ATTTTTATAC
* ***
14336619 AAAGAAAAA-TGATACTTTCAACTTTTTTTCAAAAATA---TTTTAAGGTTTTTATTTT
1 AAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAATTTTATTTT
* *
14336674 CAAGAAAAATTTATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAATTTTATTTTT
1 AAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAATTTTA-TTTT
* * * * *
14336734 AAAG-AAAATTGGTACTTCCAATTTTTTCTCAGAAATATATTTTTTAACAATTTTATTTT
1 AAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTTTAAAAATTTTATTTT
*
14336793 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAAATTTTATTTT
1 AAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTT--AAAAATTTTATTTT
*
14336854 CAAAG-AAAATTAATACTTTCAACTTTTTCTCAAAA
1 -AAAGAAAAATTGATACTTTCAACTTTTTCTCAAAA
14336889 TACTTTTAGA
Statistics
Matches: 184, Mismatches: 21, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
55 8 0.04
56 26 0.14
59 53 0.29
60 52 0.28
61 42 0.23
62 3 0.02
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.46
Consensus pattern (59 bp):
AAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAATTTTATTTT
Found at i:14336793 original size:119 final size:119
Alignment explanation
Indices: 14336618--14336890 Score: 383
Period size: 119 Copynumber: 2.3 Consensus size: 119
14336608 TATTTTTATA
* * * * ***
14336618 CAAAGAAAAATGATACTTTCAACTTTTTTTCAAAA-ATA--TTTTAAGGTTTTTATTTTCAAGAA
1 CAAAGAAAATTAATACTTCCAACTTTTTCTCAAAATATATTTTTTAACAATTTTATTTTCAAGAA
*
14336680 AAATTTATACTTTCAACTTTTTCTCAAAAATATTTTTTT-AAAAATTTTATTTT
66 AAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAATTTTATTTT
* ** *
14336733 TAAAGAAAATTGGTACTTCCAATTTTTTCTCAGAAATATATTTTTTAACAATTTTATTTTCAAGA
1 CAAAGAAAATTAATACTTCCAACTTTTTCTCA-AAATATATTTTTTAACAATTTTATTTTCAAGA
14336798 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAAATTTTATTTT
65 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTT-AAAAAATTTTATTTT
*
14336854 CAAAGAAAATTAATACTTTCAACTTTTTCTCAAAATA
1 CAAAGAAAATTAATACTTCCAACTTTTTCTCAAAATA
14336891 CTTTTAGAAA
Statistics
Matches: 137, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
115 26 0.19
116 3 0.02
117 3 0.02
119 59 0.43
120 5 0.04
121 41 0.30
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (119 bp):
CAAAGAAAATTAATACTTCCAACTTTTTCTCAAAATATATTTTTTAACAATTTTATTTTCAAGAA
AAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAAAAAATTTTATTTT
Found at i:14336843 original size:16 final size:17
Alignment explanation
Indices: 14336824--14336864 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
14336814 ACTTTTTCTC
14336824 AAAAATATTT-TTTT-AA
1 AAAAAT-TTTATTTTCAA
14336840 AAAAATTTTATTTTCAA
1 AAAAATTTTATTTTCAA
14336857 AGAAAATT
1 A-AAAATT
14336865 AATACTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 3 0.14
16 10 0.45
17 3 0.14
18 6 0.27
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAAATTTTATTTTCAA
Found at i:14336917 original size:16 final size:15
Alignment explanation
Indices: 14336892--14336928 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
14336882 CTCAAAATAC
*
14336892 TTTTAGAAATTTTTAT
1 TTTTA-AAAATTTTAT
14336908 TTTTAAAAATTTTAT
1 TTTTAAAAATTTTAT
14336923 TTTTAA
1 TTTTAA
14336929 GAAAAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTTAAAAATTTTAT
Found at i:14336919 original size:72 final size:74
Alignment explanation
Indices: 14336840--14336984 Score: 199
Period size: 72 Copynumber: 2.0 Consensus size: 74
14336830 ATTTTTTTAA
14336840 AAAAATTTTATTTTCAAAG-AAAATTAATACTTTCAAC-TTTTTCTC-AAAATA-CTTTTAGAAA
1 AAAAATTTTATTTT-AAAGAAAAATTAATACTTTCAACTTTTTTC-CAAAAATATCTTTTAGAAA
*
14336901 TTTTTATTTTT
64 ATTTTATTTTT
* * * *
14336912 AAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTTGAAAAT
1 AAAAATTTTATTTTAAAGAAAAATTAATACTTTCAACTTTTTTCCAAAAATATCTTTTAGAAAAT
14336977 TTTATTTT
66 TTTATTTT
14336985 AGAAGAATCA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
71 3 0.05
72 32 0.50
73 12 0.19
74 17 0.27
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (74 bp):
AAAAATTTTATTTTAAAGAAAAATTAATACTTTCAACTTTTTTCCAAAAATATCTTTTAGAAAAT
TTTATTTTT
Found at i:14337066 original size:3 final size:3
Alignment explanation
Indices: 14337058--14337110 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
14337048 AATAAGCAGA
* *
14337058 AAT AAT AAT AAT AAT AAT AAT GAT AAT GAT AAT AAT AAT -AT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
14337106 AAT AA
1 AAT AA
14337111 ATAAATGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:14339037 original size:19 final size:18
Alignment explanation
Indices: 14339010--14339045 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14339000 CAATTTTCCA
14339010 ATGAAAAACCTAGATTTTG
1 ATGAAAAACCTAG-TTTTG
*
14339029 ATGAGAAACCTAGTTTT
1 ATGAAAAACCTAGTTTT
14339046 CAACGACCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (18 bp):
ATGAAAAACCTAGTTTTG
Found at i:14339499 original size:16 final size:16
Alignment explanation
Indices: 14339469--14339517 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
14339459 TTGGTTTATT
14339469 TTTTATGA-TTA-TTA
1 TTTTATGATTTATTTA
14339483 TTTTATGATTTATTTA
1 TTTTATGATTTATTTA
*
14339499 TTTTATGGTTTATTTA
1 TTTTATGATTTATTTA
14339515 TTT
1 TTT
14339518 ATTTGTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 8 0.25
15 3 0.09
16 21 0.66
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (16 bp):
TTTTATGATTTATTTA
Found at i:14339527 original size:16 final size:16
Alignment explanation
Indices: 14339460--14339517 Score: 70
Period size: 16 Copynumber: 3.9 Consensus size: 16
14339450 CTAATTATTT
14339460 TGGTTTA-TT-TTTTA
1 TGGTTTATTTATTTTA
*
14339474 T-GATTA-TTATTTTA
1 TGGTTTATTTATTTTA
*
14339488 TGATTTATTTATTTTA
1 TGGTTTATTTATTTTA
14339504 TGGTTTATTTATTT
1 TGGTTTATTTATTT
14339518 ATTTGTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.16
14 7 0.19
15 3 0.08
16 21 0.57
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (16 bp):
TGGTTTATTTATTTTA
Found at i:14339584 original size:21 final size:22
Alignment explanation
Indices: 14339559--14339601 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
14339549 TTTTAAGTAA
*
14339559 AATTATAAAAATTATA-AAAAT
1 AATTATAAAAAATATATAAAAT
14339580 AATTATAAAAAATATATAAAAT
1 AATTATAAAAAATATATAAAAT
14339602 TAAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTATAAAAAATATATAAAAT
Found at i:14339970 original size:4 final size:5
Alignment explanation
Indices: 14339937--14339969 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
14339927 GAAAATTTTA
14339937 AAAAT AAAA- ATAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT AAA
14339970 TTTTGATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 24 0.92
6 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:14341626 original size:28 final size:29
Alignment explanation
Indices: 14341571--14341627 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
14341561 TTGCTTTGAA
14341571 ATCCCATTCAAAAGAAAAAAAATTCAAAT
1 ATCCCATTCAAAAGAAAAAAAATTCAAAT
14341600 ATCCCATTCAAAAG-AAAAAAATTCAAAT
1 ATCCCATTCAAAAGAAAAAAAATTCAAAT
14341628 TTCTTTCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.58, C:0.18, G:0.04, T:0.21
Consensus pattern (29 bp):
ATCCCATTCAAAAGAAAAAAAATTCAAAT
Found at i:14344007 original size:12 final size:12
Alignment explanation
Indices: 14343990--14344014 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14343980 AATTATCTGA
14343990 ATGCATACACAC
1 ATGCATACACAC
14344002 ATGCATACACAC
1 ATGCATACACAC
14344014 A
1 A
14344015 CACAAACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.32, G:0.08, T:0.16
Consensus pattern (12 bp):
ATGCATACACAC
Found at i:14344200 original size:2 final size:2
Alignment explanation
Indices: 14344193--14344217 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14344183 TTATAAGTAC
14344193 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14344218 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14347166 original size:36 final size:36
Alignment explanation
Indices: 14347115--14347187 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
14347105 AATTAACTCA
*
14347115 AAAGCTGACCTGGTACAGTGGTACTTGTAAGAGAAC
1 AAAGCTGACCTGGTACAGTGGTACTGGTAAGAGAAC
14347151 AAAGCTGA-CTAGGTACAGTGGTACTGGTAAGAGAAC
1 AAAGCTGACCT-GGTACAGTGGTACTGGTAAGAGAAC
14347187 A
1 A
14347188 GAGATGGGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 2 0.06
36 33 0.94
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.21
Consensus pattern (36 bp):
AAAGCTGACCTGGTACAGTGGTACTGGTAAGAGAAC
Found at i:14347472 original size:13 final size:14
Alignment explanation
Indices: 14347449--14347477 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14347439 TTGATTAAAT
14347449 AAATAATAAAAAAA
1 AAATAATAAAAAAA
14347463 AAAT-ATAAAAAAA
1 AAATAATAAAAAAA
14347476 AA
1 AA
14347478 CTTGACAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
AAATAATAAAAAAA
Found at i:14347606 original size:61 final size:61
Alignment explanation
Indices: 14347511--14347633 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
14347501 GACTTTGAGT
14347511 GAGGTGTTTAAATTGGATTTAAATACTGAAATTAAAATTAAAAAGAAGTAGAATTTTGTTC
1 GAGGTGTTTAAATTGGATTTAAATACTGAAATTAAAATTAAAAAGAAGTAGAATTTTGTTC
*
14347572 GAGGTGTTTAAATTGGATTTAAATACTGAAATTAAAATTAAAAAGGAGTAGAATTTTGTTC
1 GAGGTGTTTAAATTGGATTTAAATACTGAAATTAAAATTAAAAAGAAGTAGAATTTTGTTC
14347633 G
1 G
14347634 GATTCTTTAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (61 bp):
GAGGTGTTTAAATTGGATTTAAATACTGAAATTAAAATTAAAAAGAAGTAGAATTTTGTTC
Found at i:14348263 original size:12 final size:12
Alignment explanation
Indices: 14348247--14348290 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
14348237 TTTGGTATTT
14348247 TTTATTTTTTTA
1 TTTATTTTTTTA
*
14348259 ATTATTTTTTTA
1 TTTATTTTTTTA
* *
14348271 TTTATGTGTTTA
1 TTTATTTTTTTA
14348283 TTTATTTT
1 TTTATTTT
14348291 ATGAGTATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (12 bp):
TTTATTTTTTTA
Found at i:14348392 original size:24 final size:26
Alignment explanation
Indices: 14348356--14348406 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
14348346 TTAATTATCC
14348356 AATGATGAAATTTATA-AAAATTTCA
1 AATGATGAAATTTATATAAAATTTCA
*
14348381 AATGAT-AAATTTTTATAAAATTTCA
1 AATGATGAAATTTATATAAAATTTCA
14348406 A
1 A
14348407 TGTGAGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (26 bp):
AATGATGAAATTTATATAAAATTTCA
Found at i:14348429 original size:26 final size:25
Alignment explanation
Indices: 14348356--14348419 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
14348346 TTAATTATCC
*
14348356 AATGATGAAATTTATA-AAAATTTCA
1 AATGA-GAAATTTTTATAAAATTTCA
*
14348381 AATGATAAATTTTTATAAAATTTCA
1 AATGAGAAATTTTTATAAAATTTCA
*
14348406 ATGTGAGAAATTTT
1 A-ATGAGAAATTTT
14348420 GTCTAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 8 0.24
25 15 0.45
26 10 0.30
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (25 bp):
AATGAGAAATTTTTATAAAATTTCA
Found at i:14355064 original size:13 final size:13
Alignment explanation
Indices: 14355046--14355083 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
14355036 TGAAAGGTGA
14355046 AAAAAAAGAAAAT
1 AAAAAAAGAAAAT
*
14355059 AAAAAAGGAAAAT
1 AAAAAAAGAAAAT
14355072 AAAAAAATGAAA
1 AAAAAAA-GAAA
14355084 TGAGAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.08
Consensus pattern (13 bp):
AAAAAAAGAAAAT
Found at i:14356533 original size:43 final size:42
Alignment explanation
Indices: 14356482--14356563 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 42
14356472 GCTTTTGAAC
*
14356482 TCAAATGAAAAGCTTT-GAATTTTTGGATGTGAATCTCCAAAAT
1 TCAAATGAAAAGCTTTAG-ATTTTTGGATATGAAT-TCCAAAAT
14356525 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
1 TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAA
14356564 GTTTGTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 5 0.14
43 31 0.84
44 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (42 bp):
TCAAATGAAAAGCTTTAGATTTTTGGATATGAATTCCAAAAT
Found at i:14357010 original size:83 final size:82
Alignment explanation
Indices: 14356860--14357090 Score: 261
Period size: 83 Copynumber: 2.8 Consensus size: 82
14356850 CATGATTATT
* * * * *
14356860 AAGGAGCAATTTATTTTTTTTCAAAGTTC-TGTTGCCTATGTTTAGAGAAGTAATTTATTTTTTA
1 AAGGAGCAATTTA---TTTTTCAAAG-TCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCA
14356924 AAGTCGTAGTGCCTCTGTTTA
62 AAGTCGTAGTGCCTCTGTTTA
* *
14356945 AAGGAGCAATTTATTTTTCAAAGTCATGGATGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAG
1 AAGGAGCAATTTATTTTTCAAAGTCATGG-TGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAG
* *
14357010 TTGTGGTGCCTCTGTTTA
65 TCGTAGTGCCTCTGTTTA
* * * * * *
14357028 GAGGAGC-ATTTATTTTT-GAAGTCATGGTGCTTCTGCTTAGATGAGCCATTTATTTTTCAAAGT
1 AAGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
14357091 TCTGTTGCCT
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 30 0.24
81 11 0.09
82 22 0.17
83 51 0.40
85 13 0.10
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.42
Consensus pattern (82 bp):
AAGGAGCAATTTATTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGT
CGTAGTGCCTCTGTTTA
Found at i:14357280 original size:41 final size:41
Alignment explanation
Indices: 14356872--14357306 Score: 327
Period size: 41 Copynumber: 10.6 Consensus size: 41
14356862 GGAGCAATTT
* * * * **
14356872 ATTT-TTTTTCAAAGTTCTGTTGCCTATGTTTAGAGAAGTA
1 ATTTATTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCC
* * * * *
14356912 ATTTATTTTTTAAAG-TC-GTAGTGCCTCTGTTTAAAGGAGCA
1 ATTTATTTTTCAAAGTTCTGT--TGCCTCTATTCAGAGGAGCC
* * *
14356953 ATTTATTTTTCAAAG-TCATGGATGCCTCTATTTAGAGGAGCA
1 ATTTATTTTTCAAAGTTC-T-GTTGCCTCTATTCAGAGGAGCC
* * * * *
14356995 ATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG-C
1 ATTTATTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCC
* * * * *
14357035 ATTTATTTTT-GAAG-TCATGGTGCTTCTGCTT-AGATGAGCC
1 ATTTATTTTTCAAAGTTC-TGTTGCCTCT-ATTCAGAGGAGCC
* *
14357075 ATTTATTTTTCAAAGTTCTGTTGCCTCTATTCAGATGAGTC
1 ATTTATTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCC
* * *
14357116 ATTTGATTTTTAAAAGTTC-GTTGCCTCTATTCAGAGGAACA
1 ATTT-ATTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCC
* ** * *
14357157 ATCTATTTCCCCAAAGTT-TGTTGCCTCTATTCAGATGAGTC
1 ATTTATTT-TTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCC
* * * *
14357198 ATTTATTTCTCCAAAATTC-ATTGCCTCTATTCAGAGAAGCC
1 ATTTATTT-TTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCC
* *
14357239 ATGTA-TTTTCTAAAGTTCTGTTGCCTCTATTCAGGGGAGCC
1 ATTTATTTTTC-AAAGTTCTGTTGCCTCTATTCAGAGGAGCC
14357280 ATTTTATTTTTCAAAGTTCTGTTGCCT
1 A-TTTATTTTTCAAAGTTCTGTTGCCT
14357307 TTGTTTAAAG
Statistics
Matches: 322, Mismatches: 52, Indels: 40
0.78 0.13 0.10
Matches are distributed among these distances:
38 1 0.00
39 22 0.07
40 42 0.13
41 184 0.57
42 66 0.20
43 6 0.02
44 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.42
Consensus pattern (41 bp):
ATTTATTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCC
Found at i:14358247 original size:12 final size:12
Alignment explanation
Indices: 14358232--14358270 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14358222 TTTTTTGGTA
*
14358232 TTTTTTAATTAT
1 TTTTTTATTTAT
14358244 TTTTTTATTTAT
1 TTTTTTATTTAT
* *
14358256 GTGTTTATTTAT
1 TTTTTTATTTAT
14358268 TTT
1 TTT
14358271 AGGAGTATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:14359620 original size:57 final size:57
Alignment explanation
Indices: 14359532--14359658 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
14359522 GTGCCACAGG
* *
14359532 TTAAACTTTTTCTCGATTAAGTAATAAATCGTATAATATTCAGATGAATGTTTCGAA
1 TTAAACTTTTTCTCGATAAAGTAATAAATCGTACAATATTCAGATGAATGTTTCGAA
* * **
14359589 TTAAA-TTTTCTCTTGATAAAGTAATAAATCGTACAATATTTAGATGAATGTTTCGGG
1 TTAAACTTTT-TCTCGATAAAGTAATAAATCGTACAATATTCAGATGAATGTTTCGAA
14359646 TTAAACTTCTTTC
1 TTAAACTT-TTTC
14359659 AACGAAACAA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
56 4 0.07
57 51 0.84
58 4 0.07
59 2 0.03
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (57 bp):
TTAAACTTTTTCTCGATAAAGTAATAAATCGTACAATATTCAGATGAATGTTTCGAA
Found at i:14365273 original size:55 final size:55
Alignment explanation
Indices: 14365184--14365288 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
14365174 CTCAAACTCT
* *
14365184 AACTGATGCTATTATCAAAGGTCGAGACTCAAACTCTAATCGCACATTGCGGGGA
1 AACTAATGCTATTATCAAAGGTCAAGACTCAAACTCTAATCGCACATTGCGGGGA
* * * * *
14365239 AACTAATGCTATTGTCACAA-GTCAAGACTTAAACTTTAGTTGCACATTGC
1 AACTAATGCTATTATCA-AAGGTCAAGACTCAAACTCTAATCGCACATTGC
14365289 AAGAATAGGG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 40 0.95
56 2 0.05
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (55 bp):
AACTAATGCTATTATCAAAGGTCAAGACTCAAACTCTAATCGCACATTGCGGGGA
Found at i:14368659 original size:8 final size:8
Alignment explanation
Indices: 14368640--14368703 Score: 92
Period size: 8 Copynumber: 7.8 Consensus size: 8
14368630 TTATAATTAA
14368640 AAATTATTT
1 AAATT-TTT
14368649 AAATTTTT
1 AAATTTTT
14368657 AAATTTTT
1 AAATTTTT
*
14368665 ACATTTTT
1 AAATTTTT
*
14368673 ATATTTTT
1 AAATTTTT
14368681 AAATTTTT
1 AAATTTTT
14368689 AAATTTTT
1 AAATTTTT
14368697 AATATTT
1 AA-ATTT
14368704 ATTTATATAC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
8 42 0.82
9 9 0.18
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (8 bp):
AAATTTTT
Found at i:14368796 original size:9 final size:9
Alignment explanation
Indices: 14368782--14368807 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
14368772 AAAATTTCAT
14368782 ATAAAATTA
1 ATAAAATTA
14368791 ATAAAATTA
1 ATAAAATTA
14368800 ATAAAATT
1 ATAAAATT
14368808 TTATCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
ATAAAATTA
Found at i:14368944 original size:16 final size:16
Alignment explanation
Indices: 14368918--14368958 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
14368908 TTTGACTACG
*
14368918 TAATT-AAATTTTATT
1 TAATTAAAATTTTAAT
14368933 TAATTAAAATTTTAAT
1 TAATTAAAATTTTAAT
*
14368949 AAATTAAAAT
1 TAATTAAAAT
14368959 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTAAAATTTTAAT
Found at i:14374345 original size:54 final size:54
Alignment explanation
Indices: 14374263--14374374 Score: 206
Period size: 54 Copynumber: 2.1 Consensus size: 54
14374253 AACCTTAATA
*
14374263 CCAACTAGTCCATTATGTAAGACACAATTTCTTGATTCAGGTACTCTGAAACTT
1 CCAACTAGTCCATTATGGAAGACACAATTTCTTGATTCAGGTACTCTGAAACTT
*
14374317 CCAACTAGTCCATTGTGGAAGACACAATTTCTTGATTCAGGTACTCTGAAACTT
1 CCAACTAGTCCATTATGGAAGACACAATTTCTTGATTCAGGTACTCTGAAACTT
14374371 CCAA
1 CCAA
14374375 ACATACCTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (54 bp):
CCAACTAGTCCATTATGGAAGACACAATTTCTTGATTCAGGTACTCTGAAACTT
Found at i:14377659 original size:11 final size:11
Alignment explanation
Indices: 14377640--14377683 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
14377630 TTTTATTTTT
* *
14377640 TATTCATATAA
1 TATTTATATCA
14377651 TATTTATATCA
1 TATTTATATCA
14377662 TATTATTATATCA
1 TA-T-TTATATCA
14377675 TATTTATAT
1 TATTTATAT
14377684 TATCAAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 17 0.59
12 2 0.07
13 10 0.34
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTTATATCA
Found at i:14377672 original size:13 final size:13
Alignment explanation
Indices: 14377654--14377678 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14377644 CATATAATAT
14377654 TTATATCATATTA
1 TTATATCATATTA
14377667 TTATATCATATT
1 TTATATCATATT
14377679 TATATTATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATATCATATTA
Found at i:14377837 original size:28 final size:27
Alignment explanation
Indices: 14377784--14377837 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 27
14377774 TTACAATTAT
*
14377784 TAATTTTATTTATTTTTATATGATTTCA
1 TAATTTAATTTATTTTTATA-GATTTCA
14377812 TAATTTAATTTTATTTATTATA-ATTT
1 TAATTTAA-TTTATTT-TTATAGATTT
14377838 AAGATGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 11 0.48
29 7 0.30
30 5 0.22
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (27 bp):
TAATTTAATTTATTTTTATAGATTTCA
Found at i:14385027 original size:20 final size:20
Alignment explanation
Indices: 14384989--14385027 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14384979 TAAATAAGTT
***
14384989 AAAAATTAATTATTTTAATG
1 AAAAATTAATTAAAGTAATG
14385009 AAAAATTAATTAAAGTAAT
1 AAAAATTAATTAAAGTAAT
14385028 TAAATGAATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAAATTAATTAAAGTAATG
Found at i:14385135 original size:20 final size:20
Alignment explanation
Indices: 14385110--14385148 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14385100 TAACGTGACA
* *
14385110 ATTAAGCATATATCAACATG
1 ATTAAGCAAATATAAACATG
14385130 ATTAAGCAAATATAAACAT
1 ATTAAGCAAATATAAACAT
14385149 AAAAATTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (20 bp):
ATTAAGCAAATATAAACATG
Found at i:14386394 original size:15 final size:15
Alignment explanation
Indices: 14386372--14386413 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
14386362 ATTTCACCCA
14386372 TAATTAAAAATAATT
1 TAATTAAAAATAATT
*
14386387 TTATTAAAAATAATT
1 TAATTAAAAATAATT
*
14386402 TAATTATAAATA
1 TAATTAAAAATA
14386414 CATTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATTAAAAATAATT
Found at i:14387536 original size:12 final size:12
Alignment explanation
Indices: 14387521--14387545 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14387511 TTAAAATTAT
14387521 TAAAATTAAAAA
1 TAAAATTAAAAA
14387533 TAAAATTAAAAA
1 TAAAATTAAAAA
14387545 T
1 T
14387546 CTAACACTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAAATTAAAAA
Found at i:14395645 original size:28 final size:28
Alignment explanation
Indices: 14395582--14395646 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
14395572 ATTTAGTTTA
* * * **
14395582 AAATATTAATTTATTAAATTAAGATATT
1 AAATAATAATTTATTAAATAAAAATAAG
14395610 AAATAATAATTTAATTAAATAAAAATAAG
1 AAATAATAATTT-ATTAAATAAAAATAAG
14395639 AAA-AATAA
1 AAATAATAA
14395647 AGAAAAAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (28 bp):
AAATAATAATTTATTAAATAAAAATAAG
Found at i:14395661 original size:17 final size:18
Alignment explanation
Indices: 14395631--14395664 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14395621 TAATTAAATA
14395631 AAAATAAGAAAAATAAAG
1 AAAATAAGAAAAATAAAG
*
14395649 AAAA-AAGAGAAATAAA
1 AAAATAAGAAAAATAAA
14395665 CAAAGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (18 bp):
AAAATAAGAAAAATAAAG
Found at i:14395662 original size:26 final size:25
Alignment explanation
Indices: 14395632--14395683 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
14395622 AATTAAATAA
* *
14395632 AAATAAGAAAAATAAAGAAAAAAGAG
1 AAATAA-AAAAAGAAAAAAAAAAGAG
*
14395658 AAATAAACAAAGAAAAAAAAAAGAG
1 AAATAAAAAAAGAAAAAAAAAAGAG
14395683 A
1 A
14395684 GATTATTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.79, C:0.02, G:0.13, T:0.06
Consensus pattern (25 bp):
AAATAAAAAAAGAAAAAAAAAAGAG
Found at i:14396440 original size:16 final size:16
Alignment explanation
Indices: 14396406--14396440 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14396396 TCAATGTATT
*
14396406 AAATAATAACTAGAAA
1 AAATAATAACTAAAAA
*
14396422 AAATAATTACTAAAAA
1 AAATAATAACTAAAAA
14396438 AAA
1 AAA
14396441 GAAAAAAATA
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:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (16 bp):
AAATAATAACTAAAAA
Found at i:14396800 original size:15 final size:16
Alignment explanation
Indices: 14396780--14396811 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14396770 ATATATGATA
14396780 AAAAAGT-AAAAAAAT
1 AAAAAGTGAAAAAAAT
14396795 AAAAAGTGAAAAAAAT
1 AAAAAGTGAAAAAAAT
14396811 A
1 A
14396812 GGTTACATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAAAGTGAAAAAAAT
Found at i:14398442 original size:18 final size:18
Alignment explanation
Indices: 14398409--14398459 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
14398399 GCAAAAGCAG
*
14398409 AGAAAAAGCAAGAAAGAAA
1 AGAAAAA-CAAAAAAGAAA
14398428 AGAAAAACAAAAAAGAAA
1 AGAAAAACAAAAAAGAAA
* *
14398446 GGAAGAAAGAAAAA
1 AGAA-AAACAAAAA
14398460 GGCAAAGCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.76, C:0.04, G:0.20, T:0.00
Consensus pattern (18 bp):
AGAAAAACAAAAAAGAAA
Found at i:14398451 original size:26 final size:25
Alignment explanation
Indices: 14398411--14398459 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
14398401 AAAAGCAGAG
*
14398411 AAAAAGCAAGAAAGAAAAGAAAAACA
1 AAAAAGAAAGAAAG-AAAGAAAAACA
*
14398437 AAAAAGAAAGGAAGAAAGAAAAA
1 AAAAAGAAAGAAAGAAAGAAAAA
14398460 GGCAAAGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (25 bp):
AAAAAGAAAGAAAGAAAGAAAAACA
Found at i:14401093 original size:2 final size:2
Alignment explanation
Indices: 14401088--14401115 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14401078 ATAGTGTGTG
14401088 TA TA TA 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
14401116 CTTCTTACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14403470 original size:7 final size:7
Alignment explanation
Indices: 14403457--14403491 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
14403447 ATATTGTTTA
14403457 GAATTTG
1 GAATTTG
*
14403464 AAATTTG
1 GAATTTG
14403471 GAATTTG
1 GAATTTG
14403478 GAATTTG
1 GAATTTG
*
14403485 GAGTTTG
1 GAATTTG
14403492 TTTTATTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (7 bp):
GAATTTG
Found at i:14405712 original size:95 final size:95
Alignment explanation
Indices: 14405606--14405795 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
14405596 TCTCCACTGT
14405606 GTTTGTTTTGACAGTGTGGTGGATTATATTTGAATCAGTCAAACATAAGAGAATAGTATAAGAAT
1 GTTTGTTTTGACAGTGTGGTGGATTATATTTGAATCAGTCAAACATAAGAGAATAGTATAAGAAT
14405671 AGTAAAAAAGTTGAATGGTCAGAGTGAGTG
66 AGTAAAAAAGTTGAATGGTCAGAGTGAGTG
*
14405701 GTTTGTTTTGACAGTTTGGTGGATTATATTTGAATCAGTCAAACATAAGAGAATAGTATAAGAAT
1 GTTTGTTTTGACAGTGTGGTGGATTATATTTGAATCAGTCAAACATAAGAGAATAGTATAAGAAT
14405766 AGTAAAAAAGTTGAATGGTCAGAGTGAGTG
66 AGTAAAAAAGTTGAATGGTCAGAGTGAGTG
14405796 TTGGATTTTT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (95 bp):
GTTTGTTTTGACAGTGTGGTGGATTATATTTGAATCAGTCAAACATAAGAGAATAGTATAAGAAT
AGTAAAAAAGTTGAATGGTCAGAGTGAGTG
Found at i:14409289 original size:2 final size:2
Alignment explanation
Indices: 14409284--14409317 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14409274 AAAAAAAAAA
14409284 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14409318 TGATGTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14411406 original size:8 final size:8
Alignment explanation
Indices: 14411387--14411424 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
14411377 GACGTATGCC
14411387 TCAACC-T
1 TCAACCAT
14411394 TCAACCAT
1 TCAACCAT
14411402 TCAACCAT
1 TCAACCAT
14411410 TCAACCAT
1 TCAACCAT
14411418 TC-ACCAT
1 TCAACCAT
14411425 AGTTGAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 11 0.37
8 19 0.63
ACGTcount: A:0.34, C:0.39, G:0.00, T:0.26
Consensus pattern (8 bp):
TCAACCAT
Found at i:14411414 original size:16 final size:16
Alignment explanation
Indices: 14411387--14411424 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
14411377 GACGTATGCC
14411387 TCAACC-TTCAACCAT
1 TCAACCATTCAACCAT
14411402 TCAACCATTCAACCAT
1 TCAACCATTCAACCAT
14411418 TC-ACCAT
1 TCAACCAT
14411425 AGTTGAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.34, C:0.39, G:0.00, T:0.26
Consensus pattern (16 bp):
TCAACCATTCAACCAT
Found at i:14415713 original size:24 final size:24
Alignment explanation
Indices: 14415681--14415730 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
14415671 AAGACAAGTC
14415681 ATAGTGTCACGGACTTAAGGAAGA
1 ATAGTGTCACGGACTTAAGGAAGA
14415705 ATAGTGTCACGGACTTAAGGAAGA
1 ATAGTGTCACGGACTTAAGGAAGA
14415729 AT
1 AT
14415731 TCTGAATCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (24 bp):
ATAGTGTCACGGACTTAAGGAAGA
Found at i:14425240 original size:31 final size:31
Alignment explanation
Indices: 14425202--14425262 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
14425192 AATGGTGGAT
14425202 GAGGTGATGAAATTGAAATTTGCATTAATAA
1 GAGGTGATGAAATTGAAATTTGCATTAATAA
14425233 GAGGTGATGAAATTGAAATTTGCATTAATA
1 GAGGTGATGAAATTGAAATTTGCATTAATA
14425263 GACAATTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.33
Consensus pattern (31 bp):
GAGGTGATGAAATTGAAATTTGCATTAATAA
Found at i:14433870 original size:17 final size:18
Alignment explanation
Indices: 14433848--14433881 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14433838 TTTTTTCGAA
14433848 AATTCATTT-TCAAAAAC
1 AATTCATTTCTCAAAAAC
14433865 AATTCATTTCTCAAAAA
1 AATTCATTTCTCAAAAA
14433882 TTATATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTCATTTCTCAAAAAC
Found at i:14433977 original size:34 final size:34
Alignment explanation
Indices: 14433928--14433992 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
14433918 AAAATTTCAA
* *
14433928 AAAAAATTTATAACTTTTTGAAAATTTATTTTCG
1 AAAAAATTTACAACTTTTTGAAAATTCATTTTCG
*
14433962 AAAATATTTACAACTTTTTGAAAATTCATTT
1 AAAAAATTTACAACTTTTTGAAAATTCATTT
14433993 CTTGATTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.46
Consensus pattern (34 bp):
AAAAAATTTACAACTTTTTGAAAATTCATTTTCG
Found at i:14435770 original size:2 final size:2
Alignment explanation
Indices: 14435763--14435802 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14435753 GTTCTCATAC
14435763 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
14435803 AATGGGGTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14441759 original size:22 final size:20
Alignment explanation
Indices: 14441734--14441794 Score: 50
Period size: 23 Copynumber: 2.8 Consensus size: 20
14441724 GCAATCAAAA
14441734 TTTGTGATTTTTTTTCTCTTAG
1 TTTGTGATTTTTTTTCT-TT-G
* *
14441756 TTTGTTACTTTTTTGTTGTTTG
1 TTTGTGA-TTTTTT-TTCTTTG
14441778 TTATGTGGATTTTTTTT
1 TT-TGT-GATTTTTTTT
14441795 TGTTGAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 11 0.34
23 17 0.53
24 4 0.12
ACGTcount: A:0.08, C:0.05, G:0.16, T:0.70
Consensus pattern (20 bp):
TTTGTGATTTTTTTTCTTTG
Found at i:14443561 original size:183 final size:183
Alignment explanation
Indices: 14443253--14443668 Score: 724
Period size: 183 Copynumber: 2.3 Consensus size: 183
14443243 GAGGTGTCTT
* *
14443253 ATGGCTATGCAGCTATAGAAGCTTTAATTAGCTAGATATGTTTAGGTTTGTAGAAATCATAAATT
1 ATGGCTATGCAGCTAAAGAAGCTTTAGTTAGCTAGATATGTTTAGGTTTGTAGAAATCATAAATT
14443318 TCTTATTGGGGAAATGATAGATCATACTCGTCTGCAGCTTATTTTCAGAACCTTACATGCATGTA
66 TCTTATTGGGGAAATGATAGATCATACTCGTCTGCAGCTTATTTTCAGAACCTTACATGCATGTA
**
14443383 CATAGTGAGGTGTGTATCTGTATGTATTTTTCCATTAACTCATTACTTGCATA
131 CATAGTGAGGTGTGTATCTGTATGTATTGATCCATTAACTCATTACTTGCATA
*
14443436 ATGGCTATGCAGCTAAAGAAGCTTTAGTTAGCTAGATAGGTTTAGGTTTGTAGAAATCATAAATT
1 ATGGCTATGCAGCTAAAGAAGCTTTAGTTAGCTAGATATGTTTAGGTTTGTAGAAATCATAAATT
* *
14443501 TCTTATTGGGGAAATGATAGATCATACTCGTCTTCAGCTTATTTTCAGAACCTTACATGCATGTG
66 TCTTATTGGGGAAATGATAGATCATACTCGTCTGCAGCTTATTTTCAGAACCTTACATGCATGTA
*
14443566 CATATTGAGGTGTGTATCTGTATGTATTGATCCATTAACTCATTACTTGCATA
131 CATAGTGAGGTGTGTATCTGTATGTATTGATCCATTAACTCATTACTTGCATA
** * *
14443619 ATGGCTATGTGGCTAAAGAAGCTTTAGTTAACTAGAAATGTTTAGGTTTG
1 ATGGCTATGCAGCTAAAGAAGCTTTAGTTAGCTAGATATGTTTAGGTTTG
14443669 GACTGTTTAG
Statistics
Matches: 220, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
183 220 1.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (183 bp):
ATGGCTATGCAGCTAAAGAAGCTTTAGTTAGCTAGATATGTTTAGGTTTGTAGAAATCATAAATT
TCTTATTGGGGAAATGATAGATCATACTCGTCTGCAGCTTATTTTCAGAACCTTACATGCATGTA
CATAGTGAGGTGTGTATCTGTATGTATTGATCCATTAACTCATTACTTGCATA
Found at i:14447880 original size:2 final size:2
Alignment explanation
Indices: 14447873--14447908 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
14447863 TTTGTGTTCA
* *
14447873 AT AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14447909 TGTCTATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14450524 original size:8 final size:8
Alignment explanation
Indices: 14450511--14450536 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14450501 GGTTATTATT
14450511 ATATAATG
1 ATATAATG
14450519 ATATAATG
1 ATATAATG
14450527 ATATAATG
1 ATATAATG
14450535 AT
1 AT
14450537 TTGATTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (8 bp):
ATATAATG
Found at i:14453801 original size:43 final size:43
Alignment explanation
Indices: 14453740--14453825 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
14453730 GTTTGAATTT
*
14453740 AGTTTATTGCTAAGAAATTATCGCCATACCTCCCTAAAATGAA
1 AGTTTATTGCTAAGAAATTATCACCATACCTCCCTAAAATGAA
14453783 AGTTTATTGCTAAGAAATTATCACCATACCTCCCTAAAATGAA
1 AGTTTATTGCTAAGAAATTATCACCATACCTCCCTAAAATGAA
14453826 TCAGTATATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.30
Consensus pattern (43 bp):
AGTTTATTGCTAAGAAATTATCACCATACCTCCCTAAAATGAA
Found at i:14459495 original size:10 final size:10
Alignment explanation
Indices: 14459480--14459509 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
14459470 TTAATCTAAC
14459480 TTTTCTTTTT
1 TTTTCTTTTT
14459490 TTTTCTTTTT
1 TTTTCTTTTT
14459500 TTTT-TTTTT
1 TTTTCTTTTT
14459509 T
1 T
14459510 GACATCTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:14459508 original size:15 final size:15
Alignment explanation
Indices: 14459479--14459507 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14459469 TTTAATCTAA
14459479 CTTTTCTTTTTTTTT
1 CTTTTCTTTTTTTTT
14459494 CTTTT-TTTTTTTTT
1 CTTTTCTTTTTTTTT
14459508 TTGACATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
CTTTTCTTTTTTTTT
Found at i:14461262 original size:17 final size:18
Alignment explanation
Indices: 14461242--14461282 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
14461232 TTTAAATTAT
*
14461242 ATAAATTTTTA-AAAAAA
1 ATAAATTTTGACAAAAAA
*
14461259 AT-AATTTTGACAAATAA
1 ATAAATTTTGACAAAAAA
14461276 ATAAATT
1 ATAAATT
14461283 ATCATATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 9 0.45
18 4 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
ATAAATTTTGACAAAAAA
Found at i:14461641 original size:17 final size:18
Alignment explanation
Indices: 14461611--14461668 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 18
14461601 CTAATTTTAC
14461611 AATTTTCATGATTTTAGAA
1 AATTTTCAT-ATTTTAGAA
*
14461630 AATTTT-ATA-TTTATTAA
1 AATTTTCATATTTTA-GAA
14461647 AATTTTCATTATTTTAAGAA
1 AATTTTCA-TATTTT-AGAA
14461667 AA
1 AA
14461669 GCATTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 4 0.12
17 9 0.28
18 3 0.09
19 8 0.25
20 7 0.22
21 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (18 bp):
AATTTTCATATTTTAGAA
Found at i:14461849 original size:2 final size:2
Alignment explanation
Indices: 14461842--14461900 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
14461832 TTGAACAGAT
14461842 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14461884 TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC T
14461901 GCAACACGCG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:14464632 original size:45 final size:45
Alignment explanation
Indices: 14464568--14464718 Score: 230
Period size: 45 Copynumber: 3.4 Consensus size: 45
14464558 TGCAAAGGAG
* *
14464568 ATGATATTGTTTTGGAAGGAAAGAGGATTGATCTTACATCTGAAA
1 ATGATACTGTTTTGGAAGGAAAGAGGATTGATCTTACATCAGAAA
* *
14464613 ATGATACTGTTTTGGAAGGAAAGAGGATTGATCTTATATCAAAAA
1 ATGATACTGTTTTGGAAGGAAAGAGGATTGATCTTACATCAGAAA
* * * *
14464658 ATGATACTGTTTTGGAAGGAATGAGGATCGACCTTGCATCAGAAA
1 ATGATACTGTTTTGGAAGGAAAGAGGATTGATCTTACATCAGAAA
14464703 ATGATACTGTTTTGGA
1 ATGATACTGTTTTGGA
14464719 CGGATATAGC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 96 1.00
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.32
Consensus pattern (45 bp):
ATGATACTGTTTTGGAAGGAAAGAGGATTGATCTTACATCAGAAA
Found at i:14468261 original size:22 final size:23
Alignment explanation
Indices: 14468236--14468285 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
14468226 TATAAAAATA
* *
14468236 TAAAATATATTTTTTA-TTTTAT
1 TAAAATATATTTATAATTTTTAT
*
14468258 T-AAATTTATTTATAATTTTTAT
1 TAAAATATATTTATAATTTTTAT
14468280 TAAAAT
1 TAAAAT
14468286 TTTAAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 11 0.48
22 8 0.35
23 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TAAAATATATTTATAATTTTTAT
Found at i:14478531 original size:56 final size:58
Alignment explanation
Indices: 14478443--14478553 Score: 172
Period size: 56 Copynumber: 1.9 Consensus size: 58
14478433 TGGTACTTAT
*
14478443 TAAAAATGGAAATAATTCCTTAAAGTATAACTTATTAAAACGTAAAACTAATGATTCA
1 TAAAAATGGAAATAATTCCTTAAAGTATAACTTATTAAAACATAAAACTAATGATTCA
* * *
14478501 TAAAAA-GG-AATAATTCTTTAACGTATAACTTATTAAAACATAAAATTAATGAT
1 TAAAAATGGAAATAATTCCTTAAAGTATAACTTATTAAAACATAAAACTAATGAT
14478554 CTAGTAGTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 41 0.84
57 2 0.04
58 6 0.12
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.32
Consensus pattern (58 bp):
TAAAAATGGAAATAATTCCTTAAAGTATAACTTATTAAAACATAAAACTAATGATTCA
Found at i:14480804 original size:17 final size:17
Alignment explanation
Indices: 14480741--14480810 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
14480731 CCACATTTAC
* *
14480741 TTTTAATAAATTAAATCT
1 TTTTAATTAATTTAAT-T
*
14480759 CTTTTAATTAATTTTAA-A
1 -TTTTAATTAA-TTTAATT
14480777 TTTTAATTTAATTTAATT
1 TTTTAA-TTAATTTAATT
* *
14480795 TTTTACTTAAATTAAT
1 TTTTAATTAATTTAAT
14480811 CACATTTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
17 20 0.48
18 9 0.21
19 9 0.21
20 4 0.10
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTAATTAATTTAATT
Found at i:14480818 original size:79 final size:77
Alignment explanation
Indices: 14480688--14480853 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 77
14480678 TTTTTTTCTC
*
14480688 AATTAA-TTTAAATTTTTAATTAATTTGATTCTGATTAAATTAACCACATTTACTTTTAATAAAT
1 AATTAATTTTAAATTTTTAATTAATTTAATTCTGATTAAATTAACCACATTTACTTTTAATAAAT
*
14480752 TAAATCTCTTTT
66 TAAATCTCTCTT
* * * *
14480764 AATTAATTTTAAA-TTTTAATTTAATTTAATTTTTTACTTAAATTAATCACATTTATTTTTAATA
1 AATTAATTTTAAATTTTTAA-TTAATTTAA-TTCTGA-TTAAATTAACCACATTTACTTTTAATA
** *
14480828 GCTTATATCTCTCTT
63 AATTAAATCTCTCTT
14480843 AATTAATTTTA
1 AATTAATTTTA
14480854 TTAACTATTT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
76 12 0.16
77 14 0.18
78 4 0.05
79 47 0.61
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (77 bp):
AATTAATTTTAAATTTTTAATTAATTTAATTCTGATTAAATTAACCACATTTACTTTTAATAAAT
TAAATCTCTCTT
Found at i:14482683 original size:16 final size:15
Alignment explanation
Indices: 14482648--14482700 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
14482638 AGAAATAATG
*
14482648 AAATAAGAGTAAAAA
1 AAATAAAAGTAAAAA
14482663 AAATAAAAGTAAAAGA
1 AAATAAAAGTAAAA-A
14482679 AAAT-AAAG-ATAAAA
1 AAATAAAAGTA-AAAA
14482693 AAATAAAA
1 AAATAAAA
14482701 AAAAAGTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 6 0.18
15 23 0.68
16 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.13
Consensus pattern (15 bp):
AAATAAAAGTAAAAA
Found at i:14482692 original size:29 final size:29
Alignment explanation
Indices: 14482659--14482720 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
14482649 AATAAGAGTA
* *
14482659 AAAAAAATAAAAGTAAAAGAAAATAAAGAT
1 AAAAAAATAAAA-AAAAAGAAAACAAAGAT
*
14482689 AAAAAAATAAAAAAAAAGTAAACAAAGAT
1 AAAAAAATAAAAAAAAAGAAAACAAAGAT
14482718 AAA
1 AAA
14482721 TACAACTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.11
Consensus pattern (29 bp):
AAAAAAATAAAAAAAAAGAAAACAAAGAT
Found at i:14482695 original size:14 final size:14
Alignment explanation
Indices: 14482597--14482699 Score: 52
Period size: 14 Copynumber: 7.2 Consensus size: 14
14482587 TTATCATAAA
**
14482597 AAAGATAAATCAAT
1 AAAGATAAAAAAAT
* *
14482611 AAAGAT-AAATAGT
1 AAAGATAAAAAAAT
* *
14482624 AAAGAGAAACAAAT
1 AAAGATAAAAAAAT
**
14482638 AGAA-ATAATGAAAT
1 A-AAGATAAAAAAAT
14482652 -AAGAGTAAAAAAAAT
1 AAAGA-T-AAAAAAAT
14482667 AAA-AGTAAAAGAAAAT
1 AAAGA-T-AAA-AAAAT
14482683 AAAGATAAAAAAAT
1 AAAGATAAAAAAAT
14482697 AAA
1 AAA
14482700 AAAAAAGTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
12 2 0.03
13 10 0.14
14 27 0.39
15 18 0.26
16 11 0.16
17 1 0.01
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.16
Consensus pattern (14 bp):
AAAGATAAAAAAAT
Found at i:14483012 original size:20 final size:21
Alignment explanation
Indices: 14482993--14483032 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
14482983 TTAAAATTTA
14482993 AAATTTTTT-CAT-ATTTTTT
1 AAATTTTTTACATAATTTTTT
*
14483012 ATATTTTTTACATAATTTTTT
1 AAATTTTTTACATAATTTTTT
14483033 GTTTTAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
AAATTTTTTACATAATTTTTT
Found at i:14483104 original size:58 final size:56
Alignment explanation
Indices: 14483060--14483179 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 56
14483050 TCTATATTTA
14483060 TTAATTTTT-TCTTTG-GAACTTGAGTATAAGGTATTGAATATCTATTTTGATATT
1 TTAATTTTTGTCTTTGAGAACTTGAGTATAAGGTATTGAATATCTATTTTGATATT
* * *
14483114 TTAATTTTTGGTTTTTGTAGAATTTGAGTATAAGGTATTGAATATTTATTTTGATATT
1 TTAATTTTT-GTCTTTG-AGAACTTGAGTATAAGGTATTGAATATCTATTTTGATATT
14483172 TTAATTTT
1 TTAATTTT
14483180 AAATTTAATT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
54 9 0.15
56 5 0.08
58 45 0.76
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.55
Consensus pattern (56 bp):
TTAATTTTTGTCTTTGAGAACTTGAGTATAAGGTATTGAATATCTATTTTGATATT
Found at i:14483316 original size:25 final size:25
Alignment explanation
Indices: 14483275--14483326 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
14483265 ACATTACATA
*
14483275 ATTCTAAATATATAAATTTTAAGTT
1 ATTCTAAATATATAAATCTTAAGTT
*
14483300 ATTCATAAATATA-AAATCTTAATTT
1 ATTC-TAAATATATAAATCTTAAGTT
14483325 AT
1 AT
14483327 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (25 bp):
ATTCTAAATATATAAATCTTAAGTT
Found at i:14483333 original size:25 final size:25
Alignment explanation
Indices: 14483279--14483343 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
14483269 TACATAATTC
* *
14483279 TAAATATATAAATTTTAAGTTATTCA
1 TAAATATA-AAATCTTAAGTTATTAA
*
14483305 TAAATATAAAATCTTAATTTA-TAA
1 TAAATATAAAATCTTAAGTTATTAA
14483329 TTAAA-A-AAAATCTTA
1 -TAAATATAAAATCTTA
14483344 TATTATGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 9 0.26
24 3 0.09
25 15 0.43
26 8 0.23
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (25 bp):
TAAATATAAAATCTTAAGTTATTAA
Found at i:14483704 original size:95 final size:95
Alignment explanation
Indices: 14483585--14483769 Score: 289
Period size: 95 Copynumber: 1.9 Consensus size: 95
14483575 TTAAAATTAG
* * * * *
14483585 TAAATAAATAATACGAAATATACATAAATAAATGAATGTAGAAAATTGAACACTCTTGTAAAAGC
1 TAAATAAATAATACCAAATATACATAAATAAATGAACGTAAAAAAATGAACACTCTTATAAAAGC
14483650 AACCGTTATAATTCAATGGTAGATAGTTTA
66 AACCGTTATAATTCAATGGTAGATAGTTTA
* * * *
14483680 TAAATAAATTATACCAAATGTACATAAATGAATGAACGTAAAAAAATGAACACTCTTATAAAAGT
1 TAAATAAATAATACCAAATATACATAAATAAATGAACGTAAAAAAATGAACACTCTTATAAAAGC
14483745 AACCGTTATAATTCAATGGTAGATA
66 AACCGTTATAATTCAATGGTAGATA
14483770 ATCTTATTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 81 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (95 bp):
TAAATAAATAATACCAAATATACATAAATAAATGAACGTAAAAAAATGAACACTCTTATAAAAGC
AACCGTTATAATTCAATGGTAGATAGTTTA
Found at i:14487082 original size:18 final size:18
Alignment explanation
Indices: 14487047--14487098 Score: 86
Period size: 18 Copynumber: 2.8 Consensus size: 18
14487037 TAGAATCAAG
*
14487047 GTATAATCTGTGTATTGAT
1 GTATAATCT-TTTATTGAT
14487066 GTATAATCTTTTATTGAT
1 GTATAATCTTTTATTGAT
14487084 GTATAATCTTTTATT
1 GTATAATCTTTTATT
14487099 TTTAAAAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 23 0.72
19 9 0.28
ACGTcount: A:0.27, C:0.06, G:0.13, T:0.54
Consensus pattern (18 bp):
GTATAATCTTTTATTGAT
Found at i:14499100 original size:2 final size:2
Alignment explanation
Indices: 14499093--14499131 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
14499083 TGTCAGCCTC
14499093 AT AT AT 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 AT AT AT A
14499132 AAGGAAATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14499846 original size:33 final size:35
Alignment explanation
Indices: 14499768--14499851 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 35
14499758 CGAAGACGGC
* * *
14499768 GGTGGAGGAGATGGCGTCCCCGAACTCGTCGAAGGT
1 GGTGGTGGCGATGGAGTCCCCGAACTCGTCG-AGGT
14499804 GGTGGTGGCGATGGAGTCCCCGAACT-GCTCG-GG-
1 GGTGGTGGCGATGGAGTCCCCGAACTCG-TCGAGGT
14499837 GGTGGTGGCGATGGA
1 GGTGGTGGCGATGGA
14499852 ATTGATGTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
33 15 0.34
34 2 0.05
35 1 0.02
36 26 0.59
ACGTcount: A:0.15, C:0.20, G:0.46, T:0.18
Consensus pattern (35 bp):
GGTGGTGGCGATGGAGTCCCCGAACTCGTCGAGGT
Found at i:14499995 original size:27 final size:25
Alignment explanation
Indices: 14499965--14500040 Score: 64
Period size: 27 Copynumber: 3.0 Consensus size: 25
14499955 AAGTGGAGGG
*
14499965 AGGAGGGGGAGATGGGGTGGTGGTT
1 AGGAGGAGGAGATGGGGTGGTGGTT
* ** *
14499990 GAAGGAGGAGGAGCTGAAGTGGTGGCT
1 --AGGAGGAGGAGATGGGGTGGTGGTT
*
14500017 -GGAGGTGGAGATGGGGTGGATGGT
1 AGGAGGAGGAGATGGGGTGG-TGGT
14500041 GGTGGGGAGG
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
24 15 0.39
25 3 0.08
27 20 0.53
ACGTcount: A:0.20, C:0.03, G:0.59, T:0.18
Consensus pattern (25 bp):
AGGAGGAGGAGATGGGGTGGTGGTT
Found at i:14500415 original size:1 final size:1
Alignment explanation
Indices: 14500411--14500435 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
14500401 AAAAAATAAA
14500411 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
14500436 AGTTAATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:14503061 original size:21 final size:21
Alignment explanation
Indices: 14503037--14503077 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14503027 ATTTAAAATT
* *
14503037 ATTAGAATTTAAATTCTAATC
1 ATTAAAATTAAAATTCTAATC
*
14503058 ATTAAAATTAAAATTTTAAT
1 ATTAAAATTAAAATTCTAAT
14503078 ATTTTACCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTAAAATTAAAATTCTAATC
Found at i:14509684 original size:30 final size:29
Alignment explanation
Indices: 14509644--14509720 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 29
14509634 ATTCATTTAT
*
14509644 GTTAATAATTTATTTAAATATAAATTAAA
1 GTTAAAAATTTATTTAAATATAAATTAAA
*
14509673 GATTAAAAATTTATTTATATATAAATTAAA
1 G-TTAAAAATTTATTTAAATATAAATTAAA
*
14509703 GTTAAAATTTTATTTAAA
1 GTTAAAAATTTATTTAAA
14509721 ATTTGAATGC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 16 0.37
30 27 0.63
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (29 bp):
GTTAAAAATTTATTTAAATATAAATTAAA
Found at i:14510151 original size:82 final size:82
Alignment explanation
Indices: 14509984--14510180 Score: 251
Period size: 82 Copynumber: 2.4 Consensus size: 82
14509974 ATATGTTTTT
* * *
14509984 TTTTTTTGAGAAAATACATAAAATTTT-AT--TATTTTTATAAGTGAGATCATAATATGAAAATG
1 TTTTTTT-AGAAAATACAT-AAATTTTGATAATTTTTTTATAAATGAGATCATAATATAAAAATG
* *
14510046 AGAAAATTATAACTATGTA
64 AAAAAATTATAACTATGCA
*
14510065 -TTTTTTAGAAAATACATAAATTTTGATAATTTTTTTAATAAATGAGATCATAATGTAAAAAT-A
1 TTTTTTTAGAAAATACATAAATTTTGATAATTTTTTT-ATAAATGAGATCATAATATAAAAATGA
14510128 AAAAATTATAACTATGCA
65 AAAAATTATAACTATGCA
* * *
14510146 TTTTTTTAAAAAATATATAAACTTTGATAATTTTT
1 TTTTTTTAGAAAATACATAAATTTTGATAATTTTT
14510181 AAAAAAAATG
Statistics
Matches: 102, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
78 7 0.07
79 13 0.13
80 6 0.06
81 23 0.23
82 53 0.52
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (82 bp):
TTTTTTTAGAAAATACATAAATTTTGATAATTTTTTTATAAATGAGATCATAATATAAAAATGAA
AAAATTATAACTATGCA
Found at i:14510190 original size:82 final size:82
Alignment explanation
Indices: 14510025--14510202 Score: 232
Period size: 82 Copynumber: 2.2 Consensus size: 82
14510015 TTTTTATAAG
* * * * *
14510025 TGAGATCATAATATGAAAATGAGAAAATTATAACTATGTATTTTTTAGAAAATACATAAATTTTG
1 TGAGATCATAATATAAAAATGAAAAAATTATAACTATGCATTTTTTAAAAAATACATAAACTTTG
** *
14510090 ATAATTTTTTTAATAAA
66 ATAATTTTTAAAAAAAA
* *
14510107 TGAGATCATAATGTAAAAAT-AAAAAATTATAACTATGCATTTTTTTAAAAAATATATAAACTTT
1 TGAGATCATAATATAAAAATGAAAAAATTATAACTATGCA-TTTTTTAAAAAATACATAAACTTT
14510171 GATAATTTTTAAAAAAAA
65 GATAATTTTTAAAAAAAA
* *
14510189 TGAAATTATAATAT
1 TGAGATCATAATAT
14510203 GAAATTTACA
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (82 bp):
TGAGATCATAATATAAAAATGAAAAAATTATAACTATGCATTTTTTAAAAAATACATAAACTTTG
ATAATTTTTAAAAAAAA
Found at i:14511088 original size:17 final size:16
Alignment explanation
Indices: 14511066--14511099 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14511056 ATTTTTAACT
14511066 TTTAATCCAAATAAAAA
1 TTTAAT-CAAATAAAAA
*
14511083 TTTAATTAAATAAAAA
1 TTTAATCAAATAAAAA
14511099 T
1 T
14511100 AAATATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
TTTAATCAAATAAAAA
Found at i:14519634 original size:79 final size:79
Alignment explanation
Indices: 14519551--14519713 Score: 184
Period size: 79 Copynumber: 2.1 Consensus size: 79
14519541 TATTAATATT
* *
14519551 ATTTTAAATAAATAATAG-ATGAACAATAAATGAATGAGTTTTAAATGAATTTATTTATAAATAT
1 ATTTT-AATAAATAATAGTATGAACAATAAATGAATAAATTTTAAATGAATTTATTTATAAATAT
*
14519615 AAACGAATCAAATGA
65 AAACGAATCAAATAA
* *** ** * *** *
14519630 ATTTTTATTCGTTTTAGTTTGTTTAATAAATGAATAAATTTTAAATGAATTTGTTTATAAATATA
1 ATTTTAATAAATAATAGTATGAACAATAAATGAATAAATTTTAAATGAATTTATTTATAAATATA
14519695 AACGAATCAAATAA
66 AACGAATCAAATAA
14519709 ATTTT
1 ATTTT
14519714 TATTCATTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
78 6 0.09
79 63 0.91
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (79 bp):
ATTTTAATAAATAATAGTATGAACAATAAATGAATAAATTTTAAATGAATTTATTTATAAATATA
AACGAATCAAATAA
Found at i:14519714 original size:79 final size:79
Alignment explanation
Indices: 14519575--14519744 Score: 277
Period size: 79 Copynumber: 2.2 Consensus size: 79
14519565 ATAGATGAAC
* * *
14519575 AATAAATGAATGAGTTTTAAATGAATTTATTTATAAATATAAACGAATCAAATGAATTTTTATTC
1 AATAAATGAATAAATTTTAAATGAATTTATTTATAAATATAAACGAATCAAATAAATTTTTATTC
* *
14519640 GTTTTAGTTTGTTT
66 ATTTTAATTTGTTT
*
14519654 AATAAATGAATAAATTTTAAATGAATTTGTTTATAAATATAAACGAATCAAATAAATTTTTATTC
1 AATAAATGAATAAATTTTAAATGAATTTATTTATAAATATAAACGAATCAAATAAATTTTTATTC
14519719 ATTTTAATTTGTTT
66 ATTTTAATTTGTTT
*
14519733 AATAAATAAATA
1 AATAAATGAATA
14519745 TTATAATATT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 84 1.00
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (79 bp):
AATAAATGAATAAATTTTAAATGAATTTATTTATAAATATAAACGAATCAAATAAATTTTTATTC
ATTTTAATTTGTTT
Found at i:14522191 original size:4 final size:4
Alignment explanation
Indices: 14522182--14522208 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
14522172 GTTTAGGCCC
14522182 GCAA GCAA GCAA GCAA GCAA GCAA GCA
1 GCAA GCAA GCAA GCAA GCAA GCAA GCA
14522209 TGGCTGCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.26, G:0.26, T:0.00
Consensus pattern (4 bp):
GCAA
Found at i:14525069 original size:2 final size:2
Alignment explanation
Indices: 14525062--14525097 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
14525052 TACATATTTG
14525062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14525098 GATGAGATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14538287 original size:2 final size:2
Alignment explanation
Indices: 14538274--14538314 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
14538264 ATCAAATAGG
* *
14538274 AT AT AT AC AT AT AT AT AT AT AA 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 AT AT AT AT A
14538315 AATAAGAGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:14540750 original size:12 final size:13
Alignment explanation
Indices: 14540735--14540763 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14540725 AAATAATAAG
14540735 ATAAAAT-TTAAA
1 ATAAAATGTTAAA
14540747 ATAAAATGTTAAA
1 ATAAAATGTTAAA
14540760 ATAA
1 ATAA
14540764 CACTAGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
ATAAAATGTTAAA
Found at i:14540759 original size:32 final size:32
Alignment explanation
Indices: 14540693--14540759 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
14540683 TAATTTTAAA
*
14540693 AAATAAATAGATAAATATCTTAAAATAATTTT
1 AAATAAATAGATAAATATCTTAAAATAATGTT
14540725 AAAT-AATAAGATAAA-AT-TTAAAATAAAATGTT
1 AAATAAAT-AGATAAATATCTTAAAAT--AATGTT
14540757 AAA
1 AAA
14540760 ATAACACTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
30 7 0.23
31 5 0.16
32 19 0.61
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (32 bp):
AAATAAATAGATAAATATCTTAAAATAATGTT
Found at i:14544282 original size:24 final size:24
Alignment explanation
Indices: 14544250--14544300 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
14544240 TCAAAAAATA
* *
14544250 TATATATTTGATAAATTGTTAATG
1 TATAGATTTGATAAATTATTAATG
* *
14544274 TATAGATTTTATATATTATTAATG
1 TATAGATTTGATAAATTATTAATG
14544298 TAT
1 TAT
14544301 TAAAAGATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (24 bp):
TATAGATTTGATAAATTATTAATG
Found at i:14545589 original size:18 final size:18
Alignment explanation
Indices: 14545553--14545598 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
14545543 AAATATTAAA
* * *
14545553 ATATTATATATTTATATT
1 ATATTTTATATTAAAATT
14545571 ATATTTTATATTAAAATT
1 ATATTTTATATTAAAATT
*
14545589 ATTTTTTATA
1 ATATTTTATA
14545599 ATTTATGTTA
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:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTTTATATTAAAATT
Done.