Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 66 of 117
Found at i:14322858 original size:6 final size:5
Alignment explanation
Indices: 14322811--14322964 Score: 98
Period size: 6 Copynumber: 28.2 Consensus size: 5
14322801 TAAGATAAGC
*
14322811 AATAA TAATAA AAT-A AATAA GATAA AATAA AAGTAA AGATAA GAATAA
1 AATAA -AATAA AATAA AATAA AATAA AATAA AA-TAA A-ATAA -AATAA
*
14322859 AGATAA AATAAA AATAA AAGTAA AATAA AGAT-A AAT-G AATAA AATAAA
1 A-ATAA AAT-AA AATAA AA-TAA AATAA A-ATAA AATAA AATAA AAT-AA
* * *
14322907 AATAA GATAA AATACA GATAA ATACAA GAATAA ATATAAA ATATAA AATAA
1 AATAA AATAA AATA-A AATAA A-ATAA -AATAA A-AT-AA A-ATAA AATAA
14322958 TAATAA A
1 -AATAA A
14322965 CACACTTATA
Statistics
Matches: 122, Mismatches: 10, Indels: 33
0.74 0.06 0.20
Matches are distributed among these distances:
4 9 0.07
5 46 0.38
6 58 0.48
7 9 0.07
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:14322870 original size:11 final size:10
Alignment explanation
Indices: 14322811--14322964 Score: 98
Period size: 11 Copynumber: 14.1 Consensus size: 10
14322801 TAAGATAAGC
14322811 AATAATAATAA
1 AATAA-AATAA
14322822 AAT-AAATAA
1 AATAAAATAA
*
14322831 GATAAAATAA
1 AATAAAATAA
14322841 AAGTAAAGATAA
1 AA-TAAA-ATAA
14322853 GAATAAAGATAA
1 -AATAAA-ATAA
14322865 AATAAAAATAA
1 AAT-AAAATAA
14322876 AAGTAAAATAA
1 AA-TAAAATAA
*
14322887 AGAT-AAAT-G
1 A-ATAAAATAA
14322896 AATAAAATAAA
1 AATAAAAT-AA
*
14322907 AATAAGATAA
1 AATAAAATAA
*
14322917 AATACAGATAA
1 AATA-AAATAA
*
14322928 ATACAAGAATAA
1 A-ATAA-AATAA
14322940 ATATAAAATATAA
1 A-AT-AAA-ATAA
14322953 AATAATAATAA
1 AATAA-AATAA
14322964 A
1 A
14322965 CACACTTATA
Statistics
Matches: 119, Mismatches: 8, Indels: 32
0.75 0.05 0.20
Matches are distributed among these distances:
8 2 0.02
9 12 0.10
10 18 0.15
11 47 0.39
12 31 0.26
13 9 0.08
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.21
Consensus pattern (10 bp):
AATAAAATAA
Found at i:14322874 original size:35 final size:36
Alignment explanation
Indices: 14322821--14322964 Score: 129
Period size: 35 Copynumber: 3.9 Consensus size: 36
14322811 AATAATAATA
* *
14322821 AAATAAATAAGAT-AAAATAAAAGTAAAGAT-AAGAAT
1 AAATGAATAAAATAAAAATAAAAGTAAA-ATAAAG-AT
14322857 AAA-G-ATAAAATAAAAATAAAAGTAAAATAAAGAT
1 AAATGAATAAAATAAAAATAAAAGTAAAATAAAGAT
* *
14322891 AAATGAATAAAATAAAAATAAGA-TAAAATACAGAT
1 AAATGAATAAAATAAAAATAAAAGTAAAATAAAGAT
14322926 AAATACAAGAATAAATATAAAATATAAAA-TAATAATAAA
1 AAAT----GAATAAA-ATAAAA-ATAAAAGTAA-AATAAA
14322965 CACACTTATA
Statistics
Matches: 91, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
34 13 0.14
35 33 0.36
36 19 0.21
39 7 0.08
40 6 0.07
41 8 0.09
42 5 0.05
ACGTcount: A:0.71, C:0.01, G:0.08, T:0.20
Consensus pattern (36 bp):
AAATGAATAAAATAAAAATAAAAGTAAAATAAAGAT
Found at i:14324953 original size:23 final size:23
Alignment explanation
Indices: 14324920--14324963 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
14324910 ATGTACATAG
14324920 AATTTCCAAGTTTCTTATTCTAC
1 AATTTCCAAGTTTCTTATTCTAC
*
14324943 AATTTCTAAGTTTCTTATTCT
1 AATTTCCAAGTTTCTTATTCT
14324964 TTCCAGCCAT
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:0.25, C:0.18, G:0.05, T:0.52
Consensus pattern (23 bp):
AATTTCCAAGTTTCTTATTCTAC
Found at i:14330522 original size:11 final size:10
Alignment explanation
Indices: 14330498--14330535 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
14330488 AAAAGTCTAG
14330498 AAAA-TTTGA
1 AAAATTTTGA
14330507 AAAATTTTGTA
1 AAAATTTTG-A
14330518 AAAATTTTGA
1 AAAATTTTGA
14330528 AAAATTTT
1 AAAATTTT
14330536 CCTATGCCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 4 0.15
10 13 0.48
11 10 0.37
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (10 bp):
AAAATTTTGA
Found at i:14334535 original size:138 final size:141
Alignment explanation
Indices: 14334291--14334613 Score: 417
Period size: 137 Copynumber: 2.3 Consensus size: 141
14334281 TTACCAAAAT
* * *
14334291 AAATTACAAAAATATCCCCATAAGTGTATTTTAGTAATTTCACACTTTTTAGGGTACTACTATGA
1 AAATTAC-GAAATATCCCTATAAGGGTATTTTAGTAATTTCACACTTTTTAGGG-A-TAC-ATGA
*
14334356 TTTCAAATGCACTAAAAATCAAGAAATATTATGAAATTAAGATCTGAAAAAGTTTCATAAAAATC
62 TTTCAAATGCACTAAAAATCAAGAAATATTATAAAATTAAGATCT-AAAAAGTTTCATAAAAATC
*
14334421 TAAGCTCAAGAAGGCC
126 TAAGCTCAAGAAGACC
*
14334437 AAATTACGAAGATATCCCTATAAGGGTATTTTGGTAATTTCACA-TTTTTAGGG-TAC-T-A-TT
1 AAATTACGAA-ATATCCCTATAAGGGTATTTTAGTAATTTCACACTTTTTAGGGATACATGATTT
* *
14334497 CAAATGCAAC-AAAAATCATGAAATATTATAAAATTAAGATCTAAAAAGTTTCATAAAAATTTAA
65 CAAATGC-ACTAAAAATCAAGAAATATTATAAAATTAAGATCTAAAAAGTTTCATAAAAATCTAA
*
14334561 GCTCAAGAAGATC
129 GCTCAAGAAGACC
* *
14334574 AAATTACGTAAATATCCCCTACAA-GGCATTTTAGTAATTT
1 AAATTACG-AAATAT-CCCTATAAGGGTATTTTAGTAATTT
14334614 TGTACTTCTT
Statistics
Matches: 161, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
137 58 0.36
138 48 0.30
139 3 0.02
140 1 0.01
142 3 0.02
145 11 0.07
146 37 0.23
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.32
Consensus pattern (141 bp):
AAATTACGAAATATCCCTATAAGGGTATTTTAGTAATTTCACACTTTTTAGGGATACATGATTTC
AAATGCACTAAAAATCAAGAAATATTATAAAATTAAGATCTAAAAAGTTTCATAAAAATCTAAGC
TCAAGAAGACC
Found at i:14337462 original size:24 final size:25
Alignment explanation
Indices: 14337412--14337463 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
14337402 ATGCAATTAG
* *
14337412 ATATCATTCAAAATTAATATAATATC
1 ATATCATTC-AAATAAATATAAAATC
14337438 ATATCATTC-AATAAATATAAAATC
1 ATATCATTCAAATAAATATAAAATC
14337462 AT
1 AT
14337464 GCAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.62
26 9 0.38
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATCATTCAAATAAATATAAAATC
Found at i:14337582 original size:20 final size:20
Alignment explanation
Indices: 14337557--14338005 Score: 300
Period size: 20 Copynumber: 22.4 Consensus size: 20
14337547 TGCAAATAGA
14337557 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
14337577 CATGCAATT-AATAATATAAAT
1 CATGCAATTAAAT-ATAT-AAT
* * *
14337598 CATGCCATTAAAAATCTAAT
1 CATGCAATTAAATATATAAT
** * *
14337618 CATATAATTAACAATGTAAAAT
1 CATGCAATT-A-AATATATAAT
* * * *
14337640 -AGGCAAATAAAAATATAAC
1 CATGCAATTAAATATATAAT
*
14337659 CATGCAA-TCAATATA-AAT
1 CATGCAATTAAATATATAAT
* *
14337677 CATGTAAATAAATATATAAT
1 CATGCAATTAAATATATAAT
14337697 CATGCAATTAACA-ATATATAT
1 CATGCAATTAA-ATATATA-AT
*
14337718 CATGCAAATAAATATATAAT
1 CATGCAATTAAATATATAAT
** * * *
14337738 CACACAATTAACAATAAAAAAA
1 CATGCAATT-A-AATATATAAT
* *
14337760 CATGCAAATAAATATATTAT
1 CATGCAATTAAATATATAAT
14337780 CATGCAATTAACA-ATATAAAT
1 CATGCAATTAA-ATATAT-AAT
* *
14337801 AATGCAAAT-AATATATAAAT
1 CATGCAATTAAATATAT-AAT
* * *
14337821 CGTGCAATTTACAATACA-AAC
1 CATGCAA-TTA-AATATATAAT
*
14337842 CATGCAATTAAATATACAAT
1 CATGCAATTAAATATATAAT
14337862 CATGCAA-T---TATA-AAT
1 CATGCAATTAAATATATAAT
* *
14337877 AATGCAAAT-AATATATAAAT
1 CATGCAATTAAATATAT-AAT
*
14337897 AATGCAATTAAATATATAAAT
1 CATGCAATTAAATATAT-AAT
*
14337918 CATGCAAAT-AATATATAAAT
1 CATGCAATTAAATATAT-AAT
*
14337938 CATGCAAATAAATATATAAT
1 CATGCAATTAAATATATAAT
* *
14337958 CATGCAAATAACA-ATATAAAA
1 CATGCAATTAA-ATATAT-AAT
*
14337979 CAAGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
14337999 CATGCAA
1 CATGCAA
14338006 ATAATAATAC
Statistics
Matches: 338, Mismatches: 61, Indels: 60
0.74 0.13 0.13
Matches are distributed among these distances:
15 9 0.03
16 5 0.01
18 12 0.04
19 29 0.09
20 158 0.47
21 99 0.29
22 21 0.06
23 5 0.01
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:14337602 original size:41 final size:41
Alignment explanation
Indices: 14337557--14338009 Score: 404
Period size: 41 Copynumber: 11.3 Consensus size: 41
14337547 TGCAAATAGA
* *
14337557 CATGCAATTAAATATATAATCATGCAATTAATAATATAAAT
1 CATGCAAATAAATATATAATCATGCAATTAACAATATAAAT
* * * * ** *
14337598 CATGCCATTAAAAATCTAATCATATAATTAACAATGTAAAAT
1 CATGCAAATAAATATATAATCATGCAATTAACAATAT-AAAT
* * *
14337640 -AGGCAAATAAAAATATAACCATGCAA-T--CAATATAAAT
1 CATGCAAATAAATATATAATCATGCAATTAACAATATAAAT
* *
14337677 CATGTAAATAAATATATAATCATGCAATTAACAATATATAT
1 CATGCAAATAAATATATAATCATGCAATTAACAATATAAAT
** * *
14337718 CATGCAAATAAATATATAATCACACAATTAACAATAAAAAAA
1 CATGCAAATAAATATATAATCATGCAATTAACAAT-ATAAAT
*
14337760 CATGCAAATAAATATATTATCATGCAATTAACAATATAAAT
1 CATGCAAATAAATATATAATCATGCAATTAACAATATAAAT
* * * * *
14337801 AATGCAAAT-AATATATAAATCGTGCAATTTACAATACAAAC
1 CATGCAAATAAATATAT-AATCATGCAATTAACAATATAAAT
* *
14337842 CATGCAATTAAATATACAATCATGCAA-T-----TATAAAT
1 CATGCAAATAAATATATAATCATGCAATTAACAATATAAAT
* *
14337877 AATGCAAAT-AATATATAAATAATGCAATTAA-ATATATAAAT
1 CATGCAAATAAATATAT-AATCATGCAATTAACA-ATATAAAT
*
14337918 CATGCAAAT-AATATATAAATCATGCAAAT-A-AATATATAAT
1 CATGCAAATAAATATAT-AATCATGCAATTAACAATATA-AAT
* *
14337958 CATGCAAATAACA-ATATAAAACAAGCAATT-A-AATATATAAT
1 CATGCAAATAA-ATATAT-AATCATGCAATTAACAATATA-AAT
14337999 CATGCAAATAA
1 CATGCAAATAA
14338010 TAATACAATC
Statistics
Matches: 341, Mismatches: 53, Indels: 36
0.79 0.12 0.08
Matches are distributed among these distances:
34 6 0.02
35 21 0.06
36 1 0.00
37 4 0.01
38 27 0.08
39 6 0.02
40 23 0.07
41 207 0.61
42 46 0.13
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (41 bp):
CATGCAAATAAATATATAATCATGCAATTAACAATATAAAT
Found at i:14337689 original size:120 final size:123
Alignment explanation
Indices: 14337558--14337976 Score: 355
Period size: 120 Copynumber: 3.5 Consensus size: 123
14337548 GCAAATAGAC
* * * * * *
14337558 ATGCAATTAAATATATAATCATGCAATTAATAATATAAATCATGCCATTAAAAATCTAATCATAT
1 ATGCAAATAAATATATAATCATGCAATTAACAATATAAATCATGCAATTAAAAATATAATCACAC
** * *
14337623 AATTAACAAT-GTAAAATAGGCAAATAAAAATATAACCATGCAA-T-CAATATAAATC
66 AATTAACAATAAAAAAACAGGCAAATAAAAATATAACCATGCAATTACAATATAAATA
* * * *
14337678 ATGTAAATAAATATATAATCATGCAATTAACAATATATATCATGCAAATAAATATATAATCACAC
1 ATGCAAATAAATATATAATCATGCAATTAACAATATAAATCATGCAATTAAAAATATAATCACAC
* * * *
14337743 AATTAACAATAAAAAAACATGCAAATAAATATATTATCATGCAATTAACAATATAAATA
66 AATTAACAATAAAAAAACAGGCAAATAAAAATATAACCATGCAATT-ACAATATAAATA
* * * * * * **
14337802 ATGCAAAT-AATATATAAATCGTGCAATTTACAATACAAACCATGCAATTAAATATACAATCATG
1 ATGCAAATAAATATAT-AATCATGCAATTAACAATATAAATCATGCAATTAAAAATATAATCACA
* * * ** * *
14337866 CAATT----AT--AAATA-ATGCAAAT-AATATATAAATAATGCAATTAAATATATAAATC
65 CAATTAACAATAAAAAAACAGGCAAATAAAAATAT-AACCATGCAATTACA-ATATAAATA
* * *
14337919 ATGCAAAT-AATATATAAATCATGCAAAT-A-AATATATAATCATGCAAATAACAATATAA
1 ATGCAAATAAATATAT-AATCATGCAATTAACAATATA-AATCATGCAATTAAAAATATAA
14337977 AACAAGCAAT
Statistics
Matches: 250, Mismatches: 41, Indels: 20
0.80 0.13 0.06
Matches are distributed among these distances:
115 5 0.02
116 27 0.11
117 52 0.21
118 4 0.02
120 67 0.27
121 26 0.10
122 1 0.00
123 7 0.03
124 61 0.24
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (123 bp):
ATGCAAATAAATATATAATCATGCAATTAACAATATAAATCATGCAATTAAAAATATAATCACAC
AATTAACAATAAAAAAACAGGCAAATAAAAATATAACCATGCAATTACAATATAAATA
Found at i:14337903 original size:76 final size:75
Alignment explanation
Indices: 14337791--14337951 Score: 220
Period size: 76 Copynumber: 2.1 Consensus size: 75
14337781 ATGCAATTAA
** * *
14337791 CAATATAAATAATGCAAATAATATATAAATCGTGCAATTTACA-ATACAAACCATGCAATTAA-A
1 CAATATAAATAATGCAAATAATATATAAATAATGCAA-TTAAATATACAAACCATGCAAATAATA
14337854 TATACAATCATG
65 TATA-AATCATG
* *
14337866 CAATTATAAATAATGCAAATAATATATAAATAATGCAATTAAATATATAAATCATGCAAATAATA
1 CAA-TATAAATAATGCAAATAATATATAAATAATGCAATTAAATATACAAACCATGCAAATAATA
14337931 TATAAATCATG
65 TATAAATCATG
14337942 CAA-ATAAATA
1 CAATATAAATA
14337952 TATAATCATG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
74 7 0.09
75 7 0.09
76 58 0.75
77 5 0.06
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (75 bp):
CAATATAAATAATGCAAATAATATATAAATAATGCAATTAAATATACAAACCATGCAAATAATAT
ATAAATCATG
Found at i:14337986 original size:117 final size:117
Alignment explanation
Indices: 14337642--14338009 Score: 326
Period size: 117 Copynumber: 3.1 Consensus size: 117
14337632 TGTAAAATAG
* ** *
14337642 GCAAATAAAAATATAACCATGCAA-T--CAATATAAATCATGTAAATAA-ATATATAATCATGCA
1 GCAAATAAATATATAATAATGCAATTAACAATATAAATCATGCAAATAATATATA-AATCATGCA
*
14337703 ATTAACA-ATATATATCATGCAAATAAATATATAATCACACAATTAACAA-TAAAAAAACAT
65 ATTAA-ATATATA-ATCATGCAAATAAA-ATATAA--A-AC-A--AGCAATTAAAAAAACAT
* * * *
14337763 GCAAATAAATATATTATCATGCAATTAACAATATAAATAATGCAAATAATATATAAATCGTGCAA
1 GCAAATAAATATATAATAATGCAATTAACAATATAAATCATGCAAATAATATATAAATCATGCAA
* * * * * * *
14337828 TTTACAATACA-AACCATGC-AATTAAATATACAATCATGCAATTATAAATA-AT
66 -TTA-AATATATAATCATGCAAATAAAATATA-AAACAAGCAATTAAAAAAACAT
14337880 GCAAAT-AATATATAAATAATGCAATTAA-ATATATAAATCATGCAAATAATATATAAATCATGC
1 GCAAATAAATATAT-AATAATGCAATTAACA-ATATAAATCATGCAAATAATATATAAATCATGC
*
14337943 AAATAAATATATAATCATGCAAATAACAATATAAAACAAGCAATTAAATATATAATCAT
64 AATTAAATATATAATCATGCAAATAA-AATATAAAACAAGCAATTAAA-A-A-AA-CAT
14338002 GCAAATAA
1 GCAAATAA
14338010 TAATACAATC
Statistics
Matches: 201, Mismatches: 26, Indels: 38
0.76 0.10 0.14
Matches are distributed among these distances:
115 5 0.02
116 17 0.08
117 72 0.36
118 13 0.06
119 2 0.01
120 2 0.01
121 22 0.11
122 14 0.07
123 7 0.03
124 34 0.17
125 10 0.05
126 3 0.01
ACGTcount: A:0.55, C:0.12, G:0.05, T:0.28
Consensus pattern (117 bp):
GCAAATAAATATATAATAATGCAATTAACAATATAAATCATGCAAATAATATATAAATCATGCAA
TTAAATATATAATCATGCAAATAAAATATAAAACAAGCAATTAAAAAAACAT
Found at i:14338028 original size:137 final size:137
Alignment explanation
Indices: 14337761--14338028 Score: 346
Period size: 137 Copynumber: 2.0 Consensus size: 137
14337751 ATAAAAAAAC
* * *
14337761 ATGCAAATAAATATATTATCATGCAATTAACAATATAAATAATGCAAATAATATATAAATCGTGC
1 ATGCAAATAAATATATAATCATGCAAATAACAATATAAATAATGCAAATAATATATAAATCATGC
* * * * * *
14337826 AATTTACAATACAAACCATGCAATTAAATATACAATCATGCAATTATAAATAATGCAAATAATAT
66 AAATAACAATACAAAACAAGCAATTAAATATACAATCATGCAATAATAAACAATGCAAATAATAT
14337891 ATAAATA
131 ATAAATA
* * *
14337898 ATGCAATTAAATATATAAATCATGCAAATAA-TATATAAATCATGCAAATAA-ATATATAATCAT
1 ATGCAAATAAATATAT-AATCATGCAAATAACAATATAAATAATGCAAATAATATATA-AATCAT
* *
14337961 GCAAATAACAATATAAAACAAGCAATTAAATATATAATCATGCAAATAATAATACAAT-CAAAT-
64 GCAAATAACAATACAAAACAAGCAATTAAATATACAATCATGC-AATAATAA-ACAATGCAAATA
14338024 ATATA
127 ATATA
14338029 ATCATGCAAA
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
136 5 0.04
137 80 0.71
138 24 0.21
139 4 0.04
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.29
Consensus pattern (137 bp):
ATGCAAATAAATATATAATCATGCAAATAACAATATAAATAATGCAAATAATATATAAATCATGC
AAATAACAATACAAAACAAGCAATTAAATATACAATCATGCAATAATAAACAATGCAAATAATAT
ATAAATA
Found at i:14338038 original size:16 final size:16
Alignment explanation
Indices: 14337988--14338038 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
14337978 ACAAGCAATT
14337988 AAATATATAATCATGC
1 AAATATATAATCATGC
14338004 AAATA-ATAATACAAT-C
1 AAATATATAAT-C-ATGC
14338020 AAATATATAATCATGC
1 AAATATATAATCATGC
14338036 AAA
1 AAA
14338039 CAAACCTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.23
16 17 0.55
17 7 0.23
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (16 bp):
AAATATATAATCATGC
Found at i:14338993 original size:41 final size:41
Alignment explanation
Indices: 14338929--14339147 Score: 230
Period size: 41 Copynumber: 5.2 Consensus size: 41
14338919 TTAAAAAAAT
14338929 AAAATAAAATGCCTCCCCACAACTGAGGCTTTGGAACTTTTG
1 AAAATAAAATG-CTCCCCACAACTGAGGCTTTGGAACTTTTG
* *
14338971 AAAATAAAATGCTCCCCACAACTGACGTTTTGGAACTTTT-
1 AAAATAAAATGCTCCCCACAACTGAGGCTTTGGAACTTTTG
* *
14339011 AAAATAAAATGCTCCCCTACAACTTAGGCTCT-G-ACATTTTG
1 AAAATAAAATGCTCCCC-ACAACTGAGGCTTTGGAAC-TTTTG
* * ** *
14339052 AAAAATAAAAT-CTCCTCCACGACTGAGGCATTAAAACTTTTCA
1 -AAAATAAAATGCTCC-CCACAACTGAGGCTTTGGAACTTTT-G
* * *
14339095 AAAATAAAATACTCCCCCACAATTGAGGCTTTGAAACTTTTGG
1 AAAATAAAATGCT-CCCCACAACTGAGGCTTTGGAACTTTT-G
14339138 AAAATAAAAT
1 AAAATAAAAT
14339148 TATATCATTC
Statistics
Matches: 149, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
39 2 0.01
40 22 0.15
41 51 0.34
42 37 0.25
43 35 0.23
44 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.27
Consensus pattern (41 bp):
AAAATAAAATGCTCCCCACAACTGAGGCTTTGGAACTTTTG
Found at i:14340606 original size:1 final size:1
Alignment explanation
Indices: 14340600--14340644 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
14340590 TCAGTTTAAG
* * * *
14340600 TTTTTTTTTCTTTTTTTTTTTTGTTTTTGTTTTTTATTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14340645 GCACATCTCT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.02, C:0.02, G:0.04, T:0.91
Consensus pattern (1 bp):
T
Found at i:14340616 original size:13 final size:13
Alignment explanation
Indices: 14340600--14340644 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
14340590 TCAGTTTAAG
*
14340600 TTTTTTTTTCTTT
1 TTTTTTTTTATTT
*
14340613 TTTTTTTTTGTTT
1 TTTTTTTTTATTT
*
14340626 TTGTTTTTTATTT
1 TTTTTTTTTATTT
14340639 TTTTTT
1 TTTTTT
14340645 GCACATCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.02, C:0.02, G:0.04, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTATTT
Found at i:14340625 original size:23 final size:23
Alignment explanation
Indices: 14340599--14340645 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
14340589 TTCAGTTTAA
*
14340599 GTTTTT-TTTTCTTTTTTTTTTTT
1 GTTTTTGTTTT-TTATTTTTTTTT
14340622 GTTTTTGTTTTTTATTTTTTTTT
1 GTTTTTGTTTTTTATTTTTTTTT
14340645 G
1 G
14340646 CACATCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.87
Consensus pattern (23 bp):
GTTTTTGTTTTTTATTTTTTTTT
Found at i:14340713 original size:62 final size:60
Alignment explanation
Indices: 14340623--14340747 Score: 187
Period size: 62 Copynumber: 2.0 Consensus size: 60
14340613 TTTTTTTTTG
* *
14340623 TTTTTGTTTTTTATTTTTTTTTGCACATCTCTTTCACATAATTTCCTTCTCATTTCTCTT
1 TTTTTGTTTTTTATTTTTTTTTACACATCTCTTTCACATAATTTCCTTCTCATTTCTCAT
* * *
14340683 TTTTTGCTTTTTTTTTCTTTTTTTATACATCTCTTTCACATCATTTCCTTCTCATTTCTCAT
1 TTTTTG-TTTTTTATT-TTTTTTTACACATCTCTTTCACATAATTTCCTTCTCATTTCTCAT
14340745 TTT
1 TTT
14340748 CCCTTACTCC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 6 0.10
61 8 0.14
62 44 0.76
ACGTcount: A:0.13, C:0.21, G:0.02, T:0.64
Consensus pattern (60 bp):
TTTTTGTTTTTTATTTTTTTTTACACATCTCTTTCACATAATTTCCTTCTCATTTCTCAT
Found at i:14340794 original size:44 final size:44
Alignment explanation
Indices: 14340744--14340828 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
14340734 TCATTTCTCA
14340744 TTTTCCCTTACTCCATCAATGACATCTCTATCAAAATTCTTTCC
1 TTTTCCCTTACTCCATCAATGACATCTCTATCAAAATTCTTTCC
* *
14340788 TTTTCCCTTATTCCATCAGTGACATCTCTATCAAAATTCTT
1 TTTTCCCTTACTCCATCAATGACATCTCTATCAAAATTCTT
14340829 AACATTCCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.25, C:0.29, G:0.04, T:0.42
Consensus pattern (44 bp):
TTTTCCCTTACTCCATCAATGACATCTCTATCAAAATTCTTTCC
Found at i:14342072 original size:30 final size:30
Alignment explanation
Indices: 14342031--14342088 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
14342021 AAAAGCTTTC
*
14342031 TAGGTTCTGAATAGGCTTGCAGTAGATTTA
1 TAGGTTCTGAATAGGCTTACAGTAGATTTA
*
14342061 TAGGTTTTGAATAGGCTTACAGTAGATT
1 TAGGTTCTGAATAGGCTTACAGTAGATT
14342089 ATAAGAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.38
Consensus pattern (30 bp):
TAGGTTCTGAATAGGCTTACAGTAGATTTA
Found at i:14347521 original size:14 final size:15
Alignment explanation
Indices: 14347493--14347550 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 15
14347483 ATATCATATG
14347493 ATGCAATAAATATAATC
1 ATGCAAT-AA-ATAATC
*
14347510 ATGCAAT-AATAATA
1 ATGCAATAAATAATC
*
14347524 ATG-AATAAATAACC
1 ATGCAATAAATAATC
14347538 ATGCAAATAAATA
1 ATGC-AATAAATA
14347551 TATTAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 3 0.09
14 16 0.46
15 1 0.03
16 8 0.23
17 7 0.20
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (15 bp):
ATGCAATAAATAATC
Found at i:14347628 original size:20 final size:20
Alignment explanation
Indices: 14347605--14348097 Score: 414
Period size: 20 Copynumber: 24.6 Consensus size: 20
14347595 TGTAAATGGA
14347605 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
14347625 CATGCAATTAACA-ATATAAAT
1 CATGCAATTAA-ATATAT-AAT
* *
14347646 CATGCCATTAAATATCTAAT
1 CATGCAATTAAATATATAAT
* * *
14347666 CATGCAACTAACA-ATGTAAAA
1 CATGCAATTAA-ATATAT-AAT
* *
14347687 CATGCAAATAAATATATAAC
1 CATGCAATTAAATATATAAT
* *
14347707 CATGCAA-TCAATATA-AAG
1 CATGCAATTAAATATATAAT
14347725 CATGCAAATT-AATATATAAT
1 CATGC-AATTAAATATATAAT
*
14347745 CATTCAATTAACA-ATATAAAT
1 CATGCAATTAA-ATATAT-AAT
* *
14347766 CATGAAAATAAATATATAAT
1 CATGCAATTAAATATATAAT
*
14347786 CATGCAATT-AATAATGTAA-
1 CATGCAATTAAAT-ATATAAT
14347805 -AT-C-ATTAACA-ATATAAAT
1 CATGCAATTAA-ATATAT-AAT
*
14347823 CATGCAATAAAATATATAAT
1 CATGCAATTAAATATATAAT
14347843 CATGCAATTAACA-ATATAAAT
1 CATGCAATTAA-ATATAT-AAT
* * *
14347864 CATGCAATAAAATATAAAAC
1 CATGCAATTAAATATATAAT
* *
14347884 CAAGCAATTAACA-ATATAAAA
1 CATGCAATTAA-ATATAT-AAT
* *
14347905 CATGCAAATAAATATATTAT
1 CATGCAATTAAATATATAAT
14347925 CATGCAATTAACA-ATATAAAT
1 CATGCAATTAA-ATATAT-AAT
*
14347946 CATGCAAAT-AATATATAAAT
1 CATGCAATTAAATATAT-AAT
14347966 CATGCAATT-AATAATATAAAT
1 CATGCAATTAAAT-ATAT-AAT
14347987 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
*
14348007 CATGCAATTGAATATATAAAT
1 CATGCAATTAAATATAT-AAT
* *
14348028 CATGCAAAT-AATGTATAAT
1 CATGCAATTAAATATATAAT
14348047 CATGCAATT-AATATATAAAT
1 CATGCAATTAAATATAT-AAT
*
14348067 CATACAATTAAATATA-AAT
1 CATGCAATTAAATATATAAT
*
14348086 CATGCAAATAAA
1 CATGCAATTAAA
14348098 CATGCAATTA
Statistics
Matches: 392, Mismatches: 45, Indels: 73
0.77 0.09 0.14
Matches are distributed among these distances:
16 6 0.02
17 4 0.01
18 10 0.03
19 55 0.14
20 175 0.45
21 139 0.35
22 3 0.01
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:14347650 original size:41 final size:40
Alignment explanation
Indices: 14347605--14348097 Score: 437
Period size: 41 Copynumber: 12.3 Consensus size: 40
14347595 TGTAAATGGA
14347605 CATGCAATTAAATATATAATCATGCAATTAACAATATAAAT
1 CATGCAATTAAATATATAATCATGCAATTAA-AATATAAAT
* * * * *
14347646 CATGCCATTAAATATCTAATCATGCAACTAACAATGTAAAA
1 CATGCAATTAAATATATAATCATGCAATTAA-AATATAAAT
* * * *
14347687 CATGCAAATAAATATATAACCATGCAA-T-CAATATAAAG
1 CATGCAATTAAATATATAATCATGCAATTAAAATATAAAT
*
14347725 CATGCAAATT-AATATATAATCATTCAATTAACAATATAAAT
1 CATGC-AATTAAATATATAATCATGCAATTAA-AATATAAAT
* * *
14347766 CATGAAAATAAATATATAATCATGCAATTAATAATGTAAAT
1 CATGCAATTAAATATATAATCATGCAATTAA-AATATAAAT
* *
14347807 CAT-TAA--CAATATA-AATCATGCAA-TAAAATATATAAT
1 CATGCAATTAAATATATAATCATGCAATTAAAATATA-AAT
*
14347843 CATGCAATTAACA-ATATAAATCATGCAA-TAAAATATAAAAC
1 CATGCAATTAA-ATATAT-AATCATGCAATTAAAATAT-AAAT
* * * *
14347884 CAAGCAATTAACA-ATATAAAACATGCAAAT-AAATATATTAT
1 CATGCAATTAA-ATATAT-AATCATGCAATTAAAATATA-AAT
* *
14347925 CATGCAATTAACA-ATATAAATCATGCAAATAATATATAAAT
1 CATGCAATTAA-ATATAT-AATCATGCAATTAAAATATAAAT
14347966 CATGCAATT-AATAATATAAATCATGCAATT-AAATATATAAT
1 CATGCAATTAAAT-ATAT-AATCATGCAATTAAAATATA-AAT
* * **
14348007 CATGCAATTGAATATATAAATCATGCAAATAATGTAT-AAT
1 CATGCAATTAAATATAT-AATCATGCAATTAAAATATAAAT
*
14348047 CATGCAATT-AATATATAAATCATACAATT-AAATATAAAT
1 CATGCAATTAAATATAT-AATCATGCAATTAAAATATAAAT
*
14348086 CATGCAAATAAA
1 CATGCAATTAAA
14348098 CATGCAATTA
Statistics
Matches: 383, Mismatches: 46, Indels: 47
0.80 0.10 0.10
Matches are distributed among these distances:
35 5 0.01
36 9 0.02
37 12 0.03
38 37 0.10
39 38 0.10
40 29 0.08
41 238 0.62
42 15 0.04
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (40 bp):
CATGCAATTAAATATATAATCATGCAATTAAAATATAAAT
Found at i:14347757 original size:79 final size:79
Alignment explanation
Indices: 14347604--14348159 Score: 311
Period size: 82 Copynumber: 7.0 Consensus size: 79
14347594 ATGTAAATGG
* * * *
14347604 ACATGCAATTAAATATATAATCATGCAATTAACAATATAAATCATGCCATTAAATATCTAATCAT
1 ACATGCAAATAAATATATAATCATGCAA-T--CAATATAAAGCATGCAATTAAATATATAATCAT
*
14347669 GCAACTAACAATGTAAA
63 GCAACTAACAATATAAA
* *
14347686 ACATGCAAATAAATATATAACCATGCAATCAATATAAAGCATGCAAATT-AATATATAATCATTC
1 ACATGCAAATAAATATATAATCATGCAATCAATATAAAGCATGC-AATTAAATATATAATCATGC
*
14347750 AATTAACAATATAAA
65 AACTAACAATATAAA
* * * *
14347765 TCATGAAAATAAATATATAATCATGCAATTAATAATGTAA--AT-C-ATTAACA-ATATAAATCA
1 ACATGCAAATAAATATATAATCATGCAATCAAT-AT-AAAGCATGCAATTAA-ATATAT-AATCA
14347825 TGCAA-TAA-AATATATAA
62 TGCAACTAACAATATA-AA
* * * * * *
14347842 TCATGCAATTAACA-ATATAAATCATGCAATAAAATATAAAACCAAGCAATTAACA-ATATAAAA
1 ACATGCAAATAA-ATATAT-AATCATGCAAT-CAATAT-AAAGCATGCAATTAA-ATATAT-AAT
* *
14347905 CATGCAAAT-A-AATATATTA
60 CATGCAACTAACAATATA-AA
* * * *
14347924 TCATGCAATTAACA-ATATAAATCATGCAAATAATATATAAATCATGCAATT-AATAATATAAAT
1 ACATGCAAATAA-ATATAT-AATCATGC-AATCA-ATATAAAGCATGCAATTAAAT-ATAT-AAT
*
14347987 CATGCAA-TTA-AATATATAA
60 CATGCAACTAACAATATA-AA
* * * * *
14348006 TCATGCAATTGAATATATAAATCATGCAAAT-AATGTATAATCATGCAATT-AATATATAAATCA
1 ACATGCAAATAAATATAT-AATCATGC-AATCAATATA-AAGCATGCAATTAAATATAT-AATCA
* *
14348069 TACAA-TTA-AATATAAA
62 TGCAACTAACAATATAAA
* * ** * *
14348085 TCATGCAAATAAACATGCAAT--T--AA-CAATATAAAACATATG-AA-TGAATATATAATCATG
1 ACATGCAAATAAATATATAATCATGCAATCAATATAAAGC--ATGCAATTAAATATATAATCATG
*
14348143 CAAGTAACAATATAAA
64 CAACTAACAATATAAA
14348159 A
1 A
14348160 AAAATCAATT
Statistics
Matches: 407, Mismatches: 39, Indels: 64
0.80 0.08 0.13
Matches are distributed among these distances:
72 13 0.03
73 18 0.04
74 11 0.03
76 10 0.02
77 24 0.06
78 30 0.07
79 89 0.22
80 34 0.08
81 23 0.06
82 147 0.36
83 8 0.02
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (79 bp):
ACATGCAAATAAATATATAATCATGCAATCAATATAAAGCATGCAATTAAATATATAATCATGCA
ACTAACAATATAAA
Found at i:14347821 original size:16 final size:16
Alignment explanation
Indices: 14347792--14347825 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14347782 TAATCATGCA
* *
14347792 ATTAATAATGTAAATC
1 ATTAACAATATAAATC
14347808 ATTAACAATATAAATC
1 ATTAACAATATAAATC
14347824 AT
1 AT
14347826 GCAATAAAAT
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:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTAACAATATAAATC
Found at i:14348120 original size:21 final size:21
Alignment explanation
Indices: 14348095--14348159 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
14348085 TCATGCAAAT
14348095 AAACATGCAATTAACAATATA
1 AAACATGCAATTAACAATATA
* *
14348116 AAACAT---ATGAATGAATATA
1 AAACATGCAATTAA-CAATATA
* *
14348135 TAATCATGCAAGTAACAATATA
1 -AAACATGCAATTAACAATATA
14348157 AAA
1 AAA
14348160 AAAATCAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
18 4 0.12
19 6 0.19
20 5 0.16
21 8 0.25
22 6 0.19
23 3 0.09
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.25
Consensus pattern (21 bp):
AAACATGCAATTAACAATATA
Found at i:14350112 original size:11 final size:11
Alignment explanation
Indices: 14350087--14350121 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
14350077 TCTTTTTTCC
14350087 TTTCTTAGTTCT
1 TTTCTTAGTT-T
14350099 TTTCTTAGTTT
1 TTTCTTAGTTT
14350110 TTTCTTTAGTTT
1 TTTC-TTAGTTT
14350122 AGTTATTGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.71
Consensus pattern (11 bp):
TTTCTTAGTTT
Found at i:14351220 original size:17 final size:17
Alignment explanation
Indices: 14351198--14351235 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
14351188 AATAGTGTTT
14351198 CTAACAATGCTATTTGA
1 CTAACAATGCTATTTGA
14351215 CTAACAATGCTATTTGA
1 CTAACAATGCTATTTGA
14351232 CTAA
1 CTAA
14351236 GACCTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (17 bp):
CTAACAATGCTATTTGA
Found at i:14354417 original size:8 final size:8
Alignment explanation
Indices: 14354404--14354434 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
14354394 ATAGCTAAAG
14354404 TTCAATTA
1 TTCAATTA
14354412 TTCAATTA
1 TTCAATTA
14354420 TTCAATTA
1 TTCAATTA
14354428 TTCAATT
1 TTCAATT
14354435 CCAAGTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (8 bp):
TTCAATTA
Found at i:14354883 original size:16 final size:18
Alignment explanation
Indices: 14354862--14354898 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
14354852 GTATGTATGA
*
14354862 TGATTTATAG-TTTTA-T
1 TGATTTAAAGATTTTACT
14354878 TGATTTAAAGATTTTACT
1 TGATTTAAAGATTTTACT
14354896 TGA
1 TGA
14354899 GAACAAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 5 0.28
18 4 0.22
ACGTcount: A:0.30, C:0.03, G:0.14, T:0.54
Consensus pattern (18 bp):
TGATTTAAAGATTTTACT
Found at i:14358683 original size:33 final size:33
Alignment explanation
Indices: 14358638--14358713 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
14358628 GTTCCTTTAT
*
14358638 TTTTGCTACCCAATACAACATTTTATTCTTTCA
1 TTTTGCTGCCCAATACAACATTTTATTCTTTCA
14358671 TTTTGCTGCCCAATACAACATTTTATTCTTTCA
1 TTTTGCTGCCCAATACAACATTTTATTCTTTCA
14358704 TTTTGCTGCC
1 TTTTGCTGCC
14358714 AAAATTCAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.22, C:0.25, G:0.07, T:0.46
Consensus pattern (33 bp):
TTTTGCTGCCCAATACAACATTTTATTCTTTCA
Found at i:14365482 original size:17 final size:17
Alignment explanation
Indices: 14365451--14365484 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
14365441 TGATTTTCAT
14365451 TATTAGTATTAATTTTA
1 TATTAGTATTAATTTTA
14365468 TATTA-TATTATATTTTA
1 TATTAGTATTA-ATTTTA
14365485 GTATATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTAGTATTAATTTTA
Found at i:14365551 original size:3 final size:3
Alignment explanation
Indices: 14365545--14365588 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
14365535 TTATCACTAC
14365545 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14365589 ATGGTATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14366412 original size:9 final size:9
Alignment explanation
Indices: 14366394--14366476 Score: 55
Period size: 9 Copynumber: 9.3 Consensus size: 9
14366384 TAGGTTTTAC
*
14366394 TTTTTCATT
1 TTTTTTATT
14366403 TTTTTTA-T
1 TTTTTTATT
*
14366411 TTTTTGATT
1 TTTTTTATT
14366420 TTATTTTA--
1 TT-TTTTATT
* *
14366428 TTTTTAACT
1 TTTTTTATT
14366437 TTTTTTATT
1 TTTTTTATT
* *
14366446 TATTTTAGT
1 TTTTTTATT
**
14366455 AATTTTATT
1 TTTTTTATT
14366464 ATTTTTTATT
1 -TTTTTTATT
14366474 TTT
1 TTT
14366477 ACTGAATATT
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
7 4 0.07
8 9 0.16
9 33 0.58
10 11 0.19
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTTTATT
Found at i:14366426 original size:18 final size:17
Alignment explanation
Indices: 14366388--14366446 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
14366378 GAATTATAGG
*
14366388 TTTTACTTTTTCATTTT
1 TTTTATTTTTTCATTTT
*
14366405 TTTTATTTTTTGATTTT
1 TTTTATTTTTTCATTTT
* *
14366422 ATTTTA-TTTTTAACTTT
1 -TTTTATTTTTTCATTTT
14366439 TTTTATTT
1 TTTTATTT
14366447 ATTTTAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 5 0.14
17 26 0.72
18 5 0.14
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTTCATTTT
Found at i:14366442 original size:21 final size:20
Alignment explanation
Indices: 14366418--14366468 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
14366408 TATTTTTTGA
14366418 TTTTATTTTATTTTTAACTTT
1 TTTTATTTTATTTTTAA-TTT
14366439 TTTTA-TTTATTTTAGTAATTT
1 TTTTATTTTATTTT--TAATTT
*
14366460 TATTATTTT
1 TTTTATTTT
14366469 TTATTTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.31
21 12 0.46
22 6 0.23
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTTATTTTTAATTT
Found at i:14369612 original size:11 final size:11
Alignment explanation
Indices: 14369584--14369626 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
14369574 AAATCCCATA
14369584 AGAGATTTGTT
1 AGAGATTTGTT
* * *
14369595 TGGGATTTCTT
1 AGAGATTTGTT
14369606 AGAGATTTGTT
1 AGAGATTTGTT
*
14369617 TGAGATTTGT
1 AGAGATTTGT
14369627 CAGATATTGC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:14369744 original size:52 final size:52
Alignment explanation
Indices: 14369651--14369807 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
14369641 TGAACAAGAA
* * * * * *
14369651 GACTTGCAAAAAAAGAATTCCAAGA-GAAAGATGATTTTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* *
14369703 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGACAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * *
14369755 GACTTACAAGAGAATAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
14369807 G
1 G
14369808 TATGGTTATA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 85 0.94
53 5 0.06
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:14370421 original size:24 final size:25
Alignment explanation
Indices: 14370363--14370448 Score: 88
Period size: 24 Copynumber: 3.5 Consensus size: 25
14370353 CAAAACGTGA
* * *
14370363 GAAGAGTTG-AAGATTCAAGATATGG
1 GAAGAGCTGAAAG-TTCGAGATGTGG
* *
14370388 AAAGAGCTGAAGGTTCGAGATGT-G
1 GAAGAGCTGAAAGTTCGAGATGTGG
*
14370412 TAAGAGCTGAAAGTTCGAGATGTGG
1 GAAGAGCTGAAAGTTCGAGATGTGG
14370437 GAAGAGCT-AAAG
1 GAAGAGCTGAAAG
14370449 ATTTAAGATA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 26 0.51
25 23 0.45
26 2 0.04
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (25 bp):
GAAGAGCTGAAAGTTCGAGATGTGG
Found at i:14370462 original size:25 final size:25
Alignment explanation
Indices: 14370363--14370465 Score: 84
Period size: 25 Copynumber: 4.2 Consensus size: 25
14370353 CAAAACGTGA
* *
14370363 GAAGAGTTGAAGATTCAAGATATGG
1 GAAGAGCTAAAGATTCAAGATATGG
* * * * *
14370388 AAAGAGCTGAAGGTTCGAGATGT-G
1 GAAGAGCTAAAGATTCAAGATATGG
* * *
14370412 TAAGAGCTGAAAG-TTCGAGATGTGG
1 GAAGAGCT-AAAGATTCAAGATATGG
*
14370437 GAAGAGCTAAAGATTTAAGATATGG
1 GAAGAGCTAAAGATTCAAGATATGG
14370462 GAAG
1 GAAG
14370466 TGCATGGTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
24 22 0.34
25 42 0.66
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.22
Consensus pattern (25 bp):
GAAGAGCTAAAGATTCAAGATATGG
Found at i:14370850 original size:52 final size:52
Alignment explanation
Indices: 14370794--14370918 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 52
14370784 AGAGAAAAAA
* *
14370794 GATTCTTAATAGGTAAGTTTGACTTGCAAGAGAAGAATTCTAAAAGGAAAGG
1 GATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAAAGG
* * *
14370846 GATTCTTAATAGGCAAGTTTGACTTACAAGAGAATAATTCTAAGAGGAGAGG
1 GATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAAAGG
*
14370898 GATTCTTAATGGGCAAGTTTG
1 GATTCTTAATAGGCAAGTTTG
14370919 TATGGTTATA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.29
Consensus pattern (52 bp):
GATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAAAGG
Found at i:14371802 original size:8 final size:8
Alignment explanation
Indices: 14371798--14371831 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
14371788 ATTTATATAG
14371798 ATATAGAT
1 ATATAGAT
14371806 --ATAGAT
1 ATATAGAT
14371812 ATATAGAT
1 ATATAGAT
14371820 ATATAGAT
1 ATATAGAT
14371828 ATAT
1 ATAT
14371832 CGTTAGACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (8 bp):
ATATAGAT
Found at i:14373584 original size:2 final size:2
Alignment explanation
Indices: 14373577--14373614 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14373567 TTTGTTTAAA
14373577 AT 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 AT
14373615 TTACTACACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14375524 original size:28 final size:29
Alignment explanation
Indices: 14375493--14375547 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
14375483 TTTTTATTAG
14375493 TTTTATATTATTATTAAA-TTTATTTTTA
1 TTTTATATTATTATTAAAGTTTATTTTTA
* * *
14375521 TTTTATTTTGTTTTTAAAGTTTATTTT
1 TTTTATATTATTATTAAAGTTTATTTT
14375548 AAAAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (29 bp):
TTTTATATTATTATTAAAGTTTATTTTTA
Found at i:14376671 original size:7 final size:7
Alignment explanation
Indices: 14376646--14376734 Score: 60
Period size: 7 Copynumber: 12.6 Consensus size: 7
14376636 CACCAGCCCC
14376646 TTTTTAT
1 TTTTTAT
14376653 TTTTT-T
1 TTTTTAT
14376659 TGTTTTAT
1 T-TTTTAT
14376667 TTTTTA-
1 TTTTTAT
14376673 TTTTTA-
1 TTTTTAT
*
14376679 -TTGTAT
1 TTTTTAT
*
14376685 TTTATAT
1 TTTTTAT
14376692 TTTATATAT
1 TTT-T-TAT
14376701 TTTTATAT
1 TTTT-TAT
*
14376709 TTTATAT
1 TTTTTAT
14376716 TTTTGTAT
1 TTTT-TAT
* *
14376724 TCTGTAT
1 TTTTTAT
14376731 TTTT
1 TTTT
14376735 GTTTAATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
5 4 0.06
6 8 0.12
7 33 0.50
8 15 0.23
9 6 0.09
ACGTcount: A:0.18, C:0.01, G:0.04, T:0.76
Consensus pattern (7 bp):
TTTTTAT
Found at i:14376671 original size:12 final size:12
Alignment explanation
Indices: 14376654--14376719 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
14376644 CCTTTTTATT
*
14376654 TTTTTTGTTTTA
1 TTTTTTATTTTA
14376666 TTTTTTATTTT-
1 TTTTTTATTTTA
* *
14376677 TATTGTATTTTA
1 TTTTTTATTTTA
* *
14376689 TATTTTA-TATA
1 TTTTTTATTTTA
14376700 TTTTTATATTTTA
1 TTTTT-TATTTTA
14376713 TATTTTT
1 T-TTTTT
14376720 GTATTCTGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
11 16 0.37
12 18 0.42
13 5 0.12
14 4 0.09
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:14376704 original size:10 final size:9
Alignment explanation
Indices: 14376687--14376719 Score: 52
Period size: 8 Copynumber: 3.9 Consensus size: 9
14376677 TATTGTATTT
14376687 TATATTTTA
1 TATATTTTA
14376696 TATATTTT-
1 TATATTTTA
14376704 TATATTTTA
1 TATATTTTA
14376713 TAT-TTTT
1 TATATTTT
14376720 GTATTCTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 12 0.52
9 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TATATTTTA
Found at i:14376709 original size:24 final size:24
Alignment explanation
Indices: 14376661--14376724 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
14376651 ATTTTTTTTG
* *
14376661 TTTTAT-TTTTTATTTTTATTGTA
1 TTTTATATTTTTATATTTATTATA
14376684 TTTTATATTTTATATATTT-TTATA
1 TTTTATATTTT-TATATTTATTATA
*
14376708 TTTTATATTTTTGTATT
1 TTTTATATTTTTATATT
14376725 CTGTATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 11 0.31
24 19 0.53
25 6 0.17
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (24 bp):
TTTTATATTTTTATATTTATTATA
Found at i:14376714 original size:17 final size:16
Alignment explanation
Indices: 14376664--14376719 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 16
14376654 TTTTTTGTTT
14376664 TATTTTTTAT-TTTTA
1 TATTTTTTATATTTTA
14376679 T-TGTATTTTATATTTTA
1 TAT-T-TTTTATATTTTA
14376696 TATATTTTTATATTTTA
1 TAT-TTTTTATATTTTA
14376713 TATTTTT
1 TATTTTT
14376720 GTATTCTGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 1 0.03
15 2 0.06
16 10 0.28
17 21 0.58
18 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (16 bp):
TATTTTTTATATTTTA
Found at i:14376716 original size:15 final size:15
Alignment explanation
Indices: 14376647--14376734 Score: 65
Period size: 15 Copynumber: 5.8 Consensus size: 15
14376637 ACCAGCCCCT
* *
14376647 TTTTAT-TTTTTTTG
1 TTTTATATTTTTATA
14376661 TTTTAT-TTTTTAT-
1 TTTTATATTTTTATA
*
14376674 TTTTATTGTATTTTATA
1 TTTTA-TAT-TTTTATA
14376691 TTTTATATATTTTTATA
1 -TTT-TATATTTTTATA
*
14376708 TTTTATATTTTTGTA
1 TTTTATATTTTTATA
* *
14376723 TTCTGTATTTTT
1 TTTTATATTTTT
14376735 GTTTAATTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
13 5 0.08
14 13 0.21
15 22 0.35
16 9 0.14
17 7 0.11
18 5 0.08
19 2 0.03
ACGTcount: A:0.18, C:0.01, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTTATATTTTTATA
Found at i:14377061 original size:47 final size:48
Alignment explanation
Indices: 14377007--14378433 Score: 1433
Period size: 47 Copynumber: 29.9 Consensus size: 48
14376997 TAAAATCTGA
* *
14377007 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAT-TTATTTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* * * * *
14377054 AAAAAGCTGCTCTCAGCAGAAGCTTAACAACTTTAAAATCTCACTTAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* * *
14377102 -AAAAGCTCCTCTCAACAGAGGCTTAACAACTTTAAAAATTCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAA-TCTCATTTTG
* *
14377151 AAAAATGCTCCCCTCAACAGAGGCTCAACAACTTTAAAATCTCA-TTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* * * * *
14377199 AAAAAGCTCCTCTCAACAAAGACTCAACAATTTTAAAATCTCA-TCTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* *
14377246 AAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTTG
*
14377295 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAT-TCA-TTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTTG
* * *
14377342 GAAAAGCTCCTCTCAACAGAGGCTCAATAACTTTAAAATCTCA-TTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* * * * *
14377389 AAAAAGCTCCACTCAACAAAGGCTTAACAACTTTAAAAATTCTCATCTT-
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAA-TCTCATTTTG
* *
14377438 AAAAATGCTCCCCTCAACAGAGGCTCAACAACTTTAAAATCTCA-TTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* * * * * *
14377486 AAAAAGTTCCTCTTAACAAAGGCTCAATCAATTTTAAAAATCTCA-TTCG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAA-CAACTTT-AAAATCTCATTTTG
* *
14377535 -AAAAGCTCCTCTCAGCAAAGGCTC-AC-ACTTTAAAATCTCATCTT-
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* *
14377579 AAAAAGGCTCCTCTCAGCAGA-GC-C-ACAAC-TAAAAAT-TCAATTTGG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTC-ATTTTG
* *
14377624 GAAAAGCTCCTCTCA-CAGAGGCTCAAGTAACTTTAAAATCTCA-TTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAA-CAACTTTAAAATCTCATTTTG
* * * * *
14377671 AAAAAGCTCCACTCAACAAAGGCTTAACAACTTTAAAAACTCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAA-TCTCATTTTG
* * *
14377721 AAAATGGCTCCTCTTAGAAGAGGCTCAACAACTTTAAAATCTCA-TTTG
1 AAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* * * * * *
14377769 GAAAAGCTCATCTTAGCAGAGTCTCAACAACTTTAAAAATCTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTTG
* * * * * *
14377818 AAAAAGCTCATCTCAACAGAGGTTCAACAACTTTAAAATTTTA-TCTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* * *
14377865 AAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATGTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTTG
* * * * * * *
14377914 AAAAGGCTCTTCTTAGTAGAGGCTCAACAATTTTAAAATCTCATCTAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* * *
14377962 -AAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAAATCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTTG
* * * * * *
14378010 AAAAGGCTCTTCTCAGTAGAGGCTCAATAACTTTAAAATCTCATCTAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* *
14378058 -AAAAGCTCCTCTCAGCAGAGGCTTAATAACTTTAAAAT-TCA-TTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* * ** *
14378103 TAAAAGCTCCTCTTAATAGAGGCTCAACAACTTTAAAATCTCA-TCTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* * *
14378150 AAAAAACTCCTCTCAGTAGAAGCTCAACAACTTTAAAATCTCA-TTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* * * *
14378197 AAAATGTTCCTCTCAGCAGATGCTCAACAACTTTAAAATCTCA-TATG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
* * * *
14378244 AAAAAGCTCTTCTCAGCAGAGGTTCAACAACTTTAAAAACCTTATTTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTTG
* * * *
14378293 AAAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATCTCATCTAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
** ** * *
14378341 -AAAAGCTTTTCTCAATAGAAGCTCAACAACTTTAAAAATCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATTTTG
*
14378389 AAAAGGCTCCTC-CTAGCAGAGGCTCAACAACTTTAAAAATCTCAT
1 AAAAAGCTCCTCTC-AGCAGAGGCTCAACAACTTT-AAAATCTCAT
14378434 ATGTTCTTTA
Statistics
Matches: 1166, Mismatches: 169, Indels: 88
0.82 0.12 0.06
Matches are distributed among these distances:
43 6 0.01
44 33 0.03
45 20 0.02
46 57 0.05
47 513 0.44
48 188 0.16
49 252 0.22
50 47 0.04
51 50 0.04
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (48 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTG
Found at i:14377321 original size:96 final size:96
Alignment explanation
Indices: 14377007--14378433 Score: 1534
Period size: 96 Copynumber: 15.0 Consensus size: 96
14376997 TAAAATCTGA
* * * *
14377007 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTT-AAAAT-TTATTTTGAAAAAGCTGCTCTCAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCA-TCTGAAAAAGCTCCTCTCAG
* *
14377070 CAGAAGCTTAACAACTTTAAAATCTCA-CTT-
65 CAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * *
14377100 AGAAAAGCTCCTCTCAACAGAGGCTTAACAACTTTAAAAATTCTCATCTTGAAAAATGCTCCCCT
1 A-AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA-TCTCATC-TGAAAAA-GCTCCTCT
*
14377165 CAACAGAGGCTCAACAACTTTAAAATCTCAT-TTG
62 CAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * *
14377199 AAAAAGCTCCTCTCAACAAAGACTCAACAA-TTTTAAAATCTCATCTGAAAAAGCTCCTCTCAGC
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTCAGC
*
14377263 AAAGGCTCAACAACTTTAAAAATCTCATCTTG
66 AGAGGCTCAACAACTTT-AAAATCTCATCTTG
* * * *
14377295 AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAT-TCATTTGGAAAAGCTCCTCTCAAC
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTCAGC
*
14377359 AGAGGCTCAATAACTTTAAAATCTCAT-TTG
66 AGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * * * *
14377389 AAAAAGCTCCACTCAACAAAGGCTTAACAACTTTAAAAATTCTCATCTTAAAAATGCTCCCCTCA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA-TCTCATCTGAAAAA-GCTCCTCTCA
*
14377454 ACAGAGGCTCAACAACTTTAAAATCTCAT-TTG
64 GCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * * *
14377486 AAAAAGTTCCTCTTAACAAAGGCTCAATCAATTTTAAAAATCTCAT-TCG-AAAAGCTCCTCTCA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAA-CAACTTTAAAAATCTCATCT-GAAAAAGCTCCTCTCA
*
14377549 GCAAAGGCTC-AC-ACTTTAAAATCTCATCTT-
64 GCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
14377579 AAAAAGGCTCCTCTCAGCAGA-GC-C-ACAAC--TAAAAAT-TCAATTTGGGAAAAGCTCCTCTC
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC-ATCT-GAAAAAGCTCCTCTC
*
14377638 A-CAGAGGCTCAAGTAACTTTAAAATCTCAT-TTG
63 AGCAGAGGCTCAA-CAACTTTAAAATCTCATCTTG
* * * * * *
14377671 AAAAAGCTCCACTCAACAAAGGCTTAACAACTTTAAAAACTCTCATCTTGAAAATGGCTCCTCTT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA-TCTCATC-TGAAAA-AGCTCCTCTC
*
14377736 AGAAGAGGCTCAACAACTTTAAAATCTCAT-TTG
63 AGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * * * * *
14377769 GAAAAGCTCATCTTAGCAGAGTCTCAACAACTTTAAAAATCTTATCTTGAAAAAGCTCATCTCAA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCCTCTCAG
* * *
14377834 CAGAGGTTCAACAACTTTAAAATTTTATC-TG
65 CAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * * *
14377865 AAAAAGCTCCTCTCAGCAGAGGCTCAATAACTTTAAAAATGTCATCTTGAAAAGGCTCTTCTTAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCCTCTCAG
* * *
14377930 TAGAGGCTCAACAATTTTAAAATCTCATCTAG
65 CAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * *
14377962 -AAAAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAAATCTCATCTTGAAAAGGCTCTTCTCAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCCTCTCAG
* * *
14378026 TAGAGGCTCAATAACTTTAAAATCTCATCTAG
65 CAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * * * **
14378058 -AAAAGCTCCTCTCAGCAGAGGCTTAATAACTTT-AAAAT-TCATTTGTAAAAGCTCCTCTTAAT
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTCAGC
14378120 AGAGGCTCAACAACTTTAAAATCTCATC-TG
66 AGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * * * *
14378150 AAAAAACTCCTCTCAGTAGAAGCTCAACAACTTT-AAAATCTCATTTGAAAATGTTCCTCTCAGC
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTCAGC
* *
14378214 AGATGCTCAACAACTTTAAAATCTCAT-ATG
66 AGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * * *
14378244 AAAAAGCTCTTCTCAGCAGAGGTTCAACAACTTTAAAAACCTTATTTTGAAAAAGCTCCTCTCAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCA-TCTGAAAAAGCTCCTCTCAG
* * *
14378309 TAGAGGCTCAATAACTTTAAAATCTCATCTAG
65 CAGAGGCTCAACAACTTTAAAATCTCATCTTG
** ** * *
14378341 -AAAAGCTTTTCTCAATAGAAGCTCAACAACTTTAAAAATCTCATCTTGAAAAGGCTCCTC-CTA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAGCTCCTCTC-A
14378404 GCAGAGGCTCAACAACTTTAAAAATCTCAT
64 GCAGAGGCTCAACAACTTT-AAAATCTCAT
14378434 ATGTTCTTTA
Statistics
Matches: 1138, Mismatches: 150, Indels: 88
0.83 0.11 0.06
Matches are distributed among these distances:
87 2 0.00
88 9 0.01
89 10 0.01
90 18 0.02
91 15 0.01
92 24 0.02
93 97 0.09
94 192 0.17
95 63 0.06
96 438 0.38
97 125 0.11
98 134 0.12
99 11 0.01
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (96 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCCTCTCAGC
AGAGGCTCAACAACTTTAAAATCTCATCTTG
Found at i:14391081 original size:8 final size:8
Alignment explanation
Indices: 14391068--14391110 Score: 50
Period size: 8 Copynumber: 4.9 Consensus size: 8
14391058 CACCAGCCCC
14391068 TTTTTTAT
1 TTTTTTAT
14391076 TTTTTTAT
1 TTTTTTAT
14391084 TATATTTTAT
1 T-T-TTTTAT
14391094 ATTTTTATAT
1 -TTTTT-TAT
14391104 TTTTTTA
1 TTTTTTA
14391111 AATTTTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 11 0.35
9 9 0.29
10 10 0.32
11 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTAT
Found at i:14391106 original size:25 final size:26
Alignment explanation
Indices: 14391069--14391183 Score: 76
Period size: 25 Copynumber: 4.5 Consensus size: 26
14391059 ACCAGCCCCT
* *
14391069 TTTTTATTTTTTTATTATATTTTATA
1 TTTTTATTATTTTATTAAATTTTATA
*
14391095 TTTTTA-TATTTTTTTAAATTTTATA
1 TTTTTATTATTTTATTAAATTTTATA
* * **
14391120 TTGTGTATTA-TGTATTTTA-TTTA-A
1 TT-TTTATTATTTTATTAAATTTTATA
* * **
14391144 TTTTTATTATTGTATTTAATAATATTA
1 TTTTTATTATTTTATTAAATTTTA-TA
*
14391171 TTATTATTATTTT
1 TTTTTATTATTTT
14391184 TTCTACGACC
Statistics
Matches: 69, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
23 6 0.09
24 11 0.16
25 24 0.35
26 14 0.20
27 14 0.20
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (26 bp):
TTTTTATTATTTTATTAAATTTTATA
Found at i:14393234 original size:15 final size:15
Alignment explanation
Indices: 14393214--14393242 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14393204 TTATCAGTTT
14393214 TGGAAGCTTAGAGAC
1 TGGAAGCTTAGAGAC
14393229 TGGAAGCTTAGAGA
1 TGGAAGCTTAGAGA
14393243 ACTAGGATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.10, G:0.34, T:0.21
Consensus pattern (15 bp):
TGGAAGCTTAGAGAC
Found at i:14398336 original size:15 final size:14
Alignment explanation
Indices: 14398316--14398345 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
14398306 CTAAGCTTGG
14398316 AAAATAAAAAATAAA
1 AAAATAAAAAA-AAA
14398331 AAAATAAAAAAAAA
1 AAAATAAAAAAAAA
14398345 A
1 A
14398346 CCAGCACCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (14 bp):
AAAATAAAAAAAAA
Found at i:14404573 original size:2 final size:2
Alignment explanation
Indices: 14404566--14404602 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14404556 CCTTTATCCC
14404566 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
14404603 GCTTAAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:14414141 original size:70 final size:70
Alignment explanation
Indices: 14414063--14414193 Score: 203
Period size: 70 Copynumber: 1.9 Consensus size: 70
14414053 AGATAGGTTG
*
14414063 ATCTCAATCATAAACATAC-TTAAG-GTAAAAGTCTCTTTAGACTTCTTATCCTTCAAGCTTGAT
1 ATCTCAATCATAAACATACATGAAGTG-AAAA-TCTCTTTAGACTTCTTATCCTTCAAGCTTGAT
14414126 TAGATTA
64 TAGATTA
* *
14414133 ATCTCAATCATAAACATACATGAAGTGAAAATCTCTTTAGACTTCTTCTTCTTCAAGCTTG
1 ATCTCAATCATAAACATACATGAAGTGAAAATCTCTTTAGACTTCTTATCCTTCAAGCTTG
14414194 CCAAGTAGAC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
70 47 0.84
71 8 0.14
72 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (70 bp):
ATCTCAATCATAAACATACATGAAGTGAAAATCTCTTTAGACTTCTTATCCTTCAAGCTTGATTA
GATTA
Found at i:14421510 original size:19 final size:19
Alignment explanation
Indices: 14421488--14421538 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
14421478 TTGGATTTCT
14421488 TACTTTGACTTAATATTCC
1 TACTTTGACTTAATATTCC
* ** *
14421507 TACTTTGAGTTGGTTTTCC
1 TACTTTGACTTAATATTCC
*
14421526 TACATTGACTTAA
1 TACTTTGACTTAA
14421539 AAGTTCTACC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (19 bp):
TACTTTGACTTAATATTCC
Found at i:14422596 original size:16 final size:17
Alignment explanation
Indices: 14422572--14422611 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
14422562 CAATTCATGT
14422572 TTTCAATTTAA-TTCAA
1 TTTCAATTTAACTTCAA
*
14422588 TTTCTATTTAACTTCAA
1 TTTCAATTTAACTTCAA
14422605 -TTCAATT
1 TTTCAATT
14422612 CAAGCTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTCAATTTAACTTCAA
Found at i:14423045 original size:21 final size:22
Alignment explanation
Indices: 14423004--14423046 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14422994 AGTTAAGTTC
* *
14423004 TTGCATGTTAGTTAGGTTTAAT
1 TTGCATGTTAGATAAGTTTAAT
14423026 TTGCATGTTA-ATAAGTTTAAT
1 TTGCATGTTAGATAAGTTTAAT
14423047 AAGTTAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.49
Consensus pattern (22 bp):
TTGCATGTTAGATAAGTTTAAT
Found at i:14423974 original size:14 final size:14
Alignment explanation
Indices: 14423955--14423981 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14423945 AATACCCCTT
14423955 AAAGGTATTTTTGC
1 AAAGGTATTTTTGC
14423969 AAAGGTATTTTTG
1 AAAGGTATTTTTG
14423982 TAATTTGACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (14 bp):
AAAGGTATTTTTGC
Found at i:14425469 original size:3 final size:3
Alignment explanation
Indices: 14425461--14425509 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
14425451 TTTATGCCAA
14425461 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14425509 A
1 A
14425510 GAAAGACTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14425627 original size:11 final size:10
Alignment explanation
Indices: 14425613--14425647 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
14425603 AATACAAATA
14425613 AAATAATAACT
1 AAATAATAA-T
14425624 AAATAATAAAT
1 AAATAAT-AAT
14425635 AAATAATAAT
1 AAATAATAAT
14425645 AAA
1 AAA
14425648 ATTTAATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 15 0.65
12 2 0.09
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
AAATAATAAT
Found at i:14425628 original size:22 final size:21
Alignment explanation
Indices: 14425606--14425647 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
14425596 ATTACATAAT
14425606 ACAAATAAAATAATAACTAAATA
1 ACAAAT-AAATAATAA-TAAATA
*
14425629 ATAAATAAATAATAATAAA
1 ACAAATAAATAATAATAAA
14425648 ATTTAATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
ACAAATAAATAATAATAAATA
Found at i:14425649 original size:11 final size:11
Alignment explanation
Indices: 14425609--14425649 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
14425599 ACATAATACA
14425609 AATAAAATAAT
1 AATAAAATAAT
14425620 AACT-AAATAAT
1 AA-TAAAATAAT
14425631 AA-ATAAATAAT
1 AATA-AAATAAT
14425642 AATAAAAT
1 AATAAAAT
14425650 TTAATGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 24 0.92
12 2 0.08
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:14432763 original size:180 final size:181
Alignment explanation
Indices: 14432454--14432818 Score: 511
Period size: 180 Copynumber: 2.0 Consensus size: 181
14432444 TTATTTTACC
* * *
14432454 AAAATGCCAGATAATTTGGAACCAAAATGAGCCTTTTTATGAACTATGCAATTAAATTTTGTACA
1 AAAATGCCAAACAATTTGGAACCAAAATGAGCCTTTTTATGAACTATGCAATCAAATTTTGTACA
* * * *
14432519 TCCCATATGACCTAATTTTCGCCATCATAAGAACCTTAAGTAGGAAAAAAATATGGGGCATCAAT
66 TCCCATATGACCTAATTTTCGCCATCATAAGAACCTTAAGCAGGAAAAAAAGATAGGACATCAAT
14432584 CAAACAAAAATGATTGATGGTTGTAAACAAAAA-AAAAAAAAAAAC-AAACA
131 CAAACAAAAATGATTGATGGTTGT-AACAAAAAGAAAAAAAAAAACAAAACA
* * *
14432634 AAAATGCCAAACAATTTGGAACCAAAATGAGCCTTTTTGTGAACTGTGCACTCAAATTTTCG-AC
1 AAAATGCCAAACAATTTGGAACCAAAATGAGCCTTTTTATGAACTATGCAATCAAATTTT-GTAC
** * * * * * *
14432698 ATCCCATATGATTTGATTTTTGTCATCATAAGAACCTTGAGCATGAAAACAAGATAGGACATCAA
65 ATCCCATATGACCTAATTTTCGCCATCATAAGAACCTTAAGCAGGAAAAAAAGATAGGACATCAA
* *
14432763 TCAAACAAAAATGATTGATGGTTGTAACAAAAAGAAAACAACAAACAAAACA
130 TCAAACAAAAATGATTGATGGTTGTAACAAAAAGAAAAAAAAAAACAAAACA
14432815 AAAA
1 AAAA
14432819 AATGAAAATG
Statistics
Matches: 162, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
179 8 0.05
180 144 0.89
181 10 0.06
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.25
Consensus pattern (181 bp):
AAAATGCCAAACAATTTGGAACCAAAATGAGCCTTTTTATGAACTATGCAATCAAATTTTGTACA
TCCCATATGACCTAATTTTCGCCATCATAAGAACCTTAAGCAGGAAAAAAAGATAGGACATCAAT
CAAACAAAAATGATTGATGGTTGTAACAAAAAGAAAAAAAAAAACAAAACA
Found at i:14433761 original size:19 final size:19
Alignment explanation
Indices: 14433720--14433761 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
14433710 GAAAGGAAAG
* *
14433720 GAATGAAAGAATAAAAGAA
1 GAATAAAAGAATAAAAAAA
14433739 GAATAAAAGAA-AAAAAAA
1 GAATAAAAGAATAAAAAAA
14433757 TGAAT
1 -GAAT
14433762 TGGTGGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (19 bp):
GAATAAAAGAATAAAAAAA
Found at i:14434112 original size:11 final size:11
Alignment explanation
Indices: 14434096--14434120 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14434086 TGTGTTAATA
14434096 AAAAAAATAAC
1 AAAAAAATAAC
14434107 AAAAAAATAAC
1 AAAAAAATAAC
14434118 AAA
1 AAA
14434121 GAAGGACAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAATAAC
Found at i:14434820 original size:83 final size:83
Alignment explanation
Indices: 14434660--14434821 Score: 189
Period size: 83 Copynumber: 2.0 Consensus size: 83
14434650 CTTGCAACCT
* ** *
14434660 TCATTGAGCCTTCCTTGAAACATGCCAATCAATGAAAATTTTGAATTATCAATCACCCCATCCAC
1 TCATTGAGCCTTCCTTGAAACATGCCAACCAATGAAAAAATTGAATTACCAATCACCCCATCCAC
* *
14434725 AAATATTTCAAATAATGA
66 AAACATTCCAAATAATGA
* * * * * ** *
14434743 TCATTGAGCCTTCTTTGAAATATGCCCACCATTGAAAAAATTGAATTGCCAATCATGCCATCCAT
1 TCATTGAGCCTTCCTTGAAACATGCCAACCAATGAAAAAATTGAATTACCAATCACCCCATCCAC
*
14434808 AAGCATTCCAAATA
66 AAACATTCCAAATA
14434822 GTAATCATCA
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
83 64 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (83 bp):
TCATTGAGCCTTCCTTGAAACATGCCAACCAATGAAAAAATTGAATTACCAATCACCCCATCCAC
AAACATTCCAAATAATGA
Found at i:14435244 original size:70 final size:70
Alignment explanation
Indices: 14435158--14435305 Score: 172
Period size: 70 Copynumber: 2.1 Consensus size: 70
14435148 TTTACATTCA
* * ** * *
14435158 CATTTGCATCACGAAAAAAGGCATTCACATTTGCATCACTTGCATCTGTATCACAA-AAAAATGA
1 CATTTGCAGCACGAAAAAA-ACATTCACATTTGCATCACTAACACCTGTATCACAAGAAAAAAGA
14435222 CATTTG
65 CATTTG
* * ** * *
14435228 TATTTGCAGCATGAAAAAAACATTTGCATTTGTATCACTAACACCTGTATCATAAGAAAAAAGAC
1 CATTTGCAGCACGAAAAAAACATTCACATTTGCATCACTAACACCTGTATCACAAGAAAAAAGAC
14435293 ATTTG
66 ATTTG
14435298 CATTTGCA
1 CATTTGCA
14435306 TCACTTACAT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
69 28 0.44
70 36 0.56
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (70 bp):
CATTTGCAGCACGAAAAAAACATTCACATTTGCATCACTAACACCTGTATCACAAGAAAAAAGAC
ATTTG
Found at i:14435329 original size:44 final size:43
Alignment explanation
Indices: 14435240--14435352 Score: 140
Period size: 44 Copynumber: 2.7 Consensus size: 43
14435230 TTTGCAGCAT
* * ** *
14435240 GAAAAAAACATTTGCATTTGTATCACTAACACCTGTATCATAA
1 GAAAAAAACATTTGCATTTGCATCACTTACACCTACATCACAA
*
14435283 GAAAAAAGACATTTGCATTTGCATCACTTACATCTACATCACAA
1 GAAAAAA-ACATTTGCATTTGCATCACTTACACCTACATCACAA
*
14435327 G--AAAAACATTCGCATTTGCATCACTT
1 GAAAAAAACATTTGCATTTGCATCACTT
14435353 GCAATTGCAC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 20 0.32
42 4 0.06
43 7 0.11
44 31 0.50
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (43 bp):
GAAAAAAACATTTGCATTTGCATCACTTACACCTACATCACAA
Found at i:14435556 original size:12 final size:12
Alignment explanation
Indices: 14435514--14435567 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
14435504 AGTGAAATGT
*
14435514 ATTTGCATCAAGC
1 ATTTGCATTAA-C
*
14435527 ATTTGCATTCTTAC
1 ATTTGCA-T-TAAC
14435541 ATTTGCATTAAC
1 ATTTGCATTAAC
*
14435553 ATTTGCATTCAC
1 ATTTGCATTAAC
14435565 ATT
1 ATT
14435568 AACATTTCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 17 0.49
13 8 0.23
14 9 0.26
15 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (12 bp):
ATTTGCATTAAC
Found at i:14436023 original size:21 final size:21
Alignment explanation
Indices: 14435981--14436051 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
14435971 AAAGATTTTG
14435981 AAATCTTTAAGACCTTCAGGCA
1 AAAT-TTTAAGACCTTCAGGCA
* *
14436003 TAATTTTAAGACC-TCTGGGCA
1 AAATTTTAAGACCTTC-AGGCA
* *
14436024 AAATTACTTTAAAACCTTCAAGCA
1 AAA-T--TTTAAGACCTTCAGGCA
14436048 AAAT
1 AAAT
14436052 ATCTTAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
20 2 0.05
21 15 0.39
22 4 0.11
23 1 0.03
24 14 0.37
25 2 0.05
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (21 bp):
AAATTTTAAGACCTTCAGGCA
Found at i:14436273 original size:100 final size:101
Alignment explanation
Indices: 14436077--14436277 Score: 341
Period size: 101 Copynumber: 2.0 Consensus size: 101
14436067 AGTTTCAACA
* *
14436077 CCTCTATTATATGATGAGCATTCAAAGATTTTGAAATCTTTAAAAATTCCAAGCACAATTTCTTT
1 CCTCTATTATATGAGGAGCATTCAAAGATTTTGAAATCTTTAAAAACTCCAAGCACAATTTCTTT
14436142 AAGACCTCCAGGCAAAGCATTTTAAATTTTCAAAGT
66 AAGACCTCCAGGCAAAGCATTTTAAATTTTCAAAGT
* * *
14436178 CCTCTATTATATGAGGAGCATTCAAAGATTTTGAAATCTTTAAGACCTCCAAGCATAATTTC-TT
1 CCTCTATTATATGAGGAGCATTCAAAGATTTTGAAATCTTTAAAAACTCCAAGCACAATTTCTTT
*
14436242 AAGACCTCTAGGCAAAGCATTTTAAATTTTCAAAGT
66 AAGACCTCCAGGCAAAGCATTTTAAATTTTCAAAGT
14436278 TTCAATGCCT
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
100 37 0.39
101 57 0.61
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (101 bp):
CCTCTATTATATGAGGAGCATTCAAAGATTTTGAAATCTTTAAAAACTCCAAGCACAATTTCTTT
AAGACCTCCAGGCAAAGCATTTTAAATTTTCAAAGT
Found at i:14437204 original size:144 final size:145
Alignment explanation
Indices: 14436985--14437395 Score: 399
Period size: 144 Copynumber: 2.8 Consensus size: 145
14436975 TTTTATTGTA
* * * * *
14436985 CCAAGAAAAATGTGAAATTTATTAAAATACCCTTATAGGA-AATTTTCATAATTT-AGCCTTTCC
1 CCAA-AAAAATGT-AAAATTACTAAAATACCCCTATAGGAGTATTTTCATAATTTGA-CATTTCC
* ** * * *
14437048 AAGCTTGGATTTTCATAAAAC-TTTCTAGATCTCAAATTTATAATATTTCATGATTTTTTAT-AC
63 CAGCTCAGATTTTCATGAAACTTTTC-AAATCTCAAATTTATAATATTTCATGATTTTTGATGA-
*
14437111 ATTTGAAATCACAGTCGTAC
126 ATTTGAAATCACAGTAGTAC
** * *
14437131 CCCGAAAAGTGTAAAATTAAC-AAAATACCCCT-TAGGAGTATTTTTATAATTTGACA-TTCCCA
1 CCAAAAAAATGTAAAATT-ACTAAAATACCCCTATAGGAGTATTTTCATAATTTGACATTTCCCA
** * * *
14437193 TGCTC-GAATTTTCATGAAACTTTTCAAAT-TTTAATTTCATAATATTTCATGACTTTTGGTGAT
65 -GCTCAG-ATTTTCATGAAACTTTTCAAATCTCAAATTT-ATAATATTTCATGATTTTTGATGAA
*
14437256 TTTGAAATCATAGTAGTAC
127 TTTGAAATCACAGTAGTAC
* * * * * *
14437275 TCAAAAAAATGTGAAATTACTAAAATACTCCTATAGGAGTATTTTCATAATTTGATATTTTCGAG
1 CCAAAAAAATGTAAAATTACTAAAATACCCCTATAGGAGTATTTTCATAATTTGACATTTCCCAG
* * *
14437340 CTCAGATTTTTATGAAACTTTTCATATCTCAATTTTATAATATTTCATGATTTTTG
66 CTCAGATTTTCATGAAACTTTTCAAATCTCAAATTTATAATATTTCATGATTTTTG
14437396 GTGTTTTAAA
Statistics
Matches: 215, Mismatches: 37, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
143 19 0.09
144 105 0.49
145 79 0.37
146 12 0.06
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (145 bp):
CCAAAAAAATGTAAAATTACTAAAATACCCCTATAGGAGTATTTTCATAATTTGACATTTCCCAG
CTCAGATTTTCATGAAACTTTTCAAATCTCAAATTTATAATATTTCATGATTTTTGATGAATTTG
AAATCACAGTAGTAC
Found at i:14437900 original size:22 final size:25
Alignment explanation
Indices: 14437869--14437923 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
14437859 GGGATTCTCC
14437869 GAAAA-AAATGAG-AA-ATGAGAG-
1 GAAAAGAAATGAGAAAGATGAGAGA
14437890 GAAAAGAAATGAGAAAGATGAGAGA
1 GAAAAGAAATGAGAAAGATGAGAGA
*
14437915 CAAAAGAAA
1 GAAAAGAAA
14437924 AGGAAGAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.17
22 7 0.24
23 2 0.07
24 7 0.24
25 8 0.28
ACGTcount: A:0.64, C:0.02, G:0.27, T:0.07
Consensus pattern (25 bp):
GAAAAGAAATGAGAAAGATGAGAGA
Found at i:14438067 original size:27 final size:26
Alignment explanation
Indices: 14438025--14438100 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 26
14438015 AATAATTAAC
*
14438025 TTTTATTAATTAATTATGTTTAATTT
1 TTTTATTAATTAATTATGATTAATTT
*
14438051 TTTTCATTGATTAATTATGATTAATATTATT
1 TTTT-ATTAATTAATTATGATT-A-A-T-TT
*
14438082 TTTTATTAATTAATAATGA
1 TTTTATTAATTAATTATGA
14438101 AAGAAAATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 4 0.10
27 15 0.37
28 1 0.02
29 1 0.02
30 14 0.34
31 6 0.15
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.59
Consensus pattern (26 bp):
TTTTATTAATTAATTATGATTAATTT
Found at i:14438165 original size:28 final size:31
Alignment explanation
Indices: 14438113--14438179 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 31
14438103 GAAAATGAGT
* *
14438113 TAATTAATAATTATTTTTTATTAATTAATTA
1 TAATTAATAATTATTGTTTATTAATAAATTA
*
14438144 TGATTAAT-ATTA-TGTTTA-TAATAAATTA
1 TAATTAATAATTATTGTTTATTAATAAATTA
14438172 TAATTAAT
1 TAATTAAT
14438180 TTAATATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 16 0.50
29 5 0.16
30 4 0.12
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (31 bp):
TAATTAATAATTATTGTTTATTAATAAATTA
Found at i:14451193 original size:12 final size:12
Alignment explanation
Indices: 14451176--14451201 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14451166 TTTATTCTAG
14451176 TGGCTACATGAA
1 TGGCTACATGAA
14451188 TGGCTACATGAA
1 TGGCTACATGAA
14451200 TG
1 TG
14451202 TCTTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (12 bp):
TGGCTACATGAA
Found at i:14453951 original size:28 final size:28
Alignment explanation
Indices: 14453911--14453967 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
14453901 TAAATAAACT
* * *
14453911 ATTATTATTTAATATGATTTCCTTTAAA
1 ATTATTATTTAATATAAGTTCATTTAAA
*
14453939 ATTATTTTTTAATATAAGTTCATTTAAA
1 ATTATTATTTAATATAAGTTCATTTAAA
14453967 A
1 A
14453968 AGGTTCATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (28 bp):
ATTATTATTTAATATAAGTTCATTTAAA
Found at i:14455396 original size:16 final size:15
Alignment explanation
Indices: 14455353--14455396 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
14455343 CAAATCATGC
14455353 ATAAAAATATAATAA
1 ATAAAAATATAATAA
*
14455368 ATACAAAACATAATAA
1 ATA-AAAATATAATAA
14455384 ATAAAATATATAA
1 ATAAAA-ATATAA
14455397 CTTAGAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (15 bp):
ATAAAAATATAATAA
Found at i:14456324 original size:24 final size:23
Alignment explanation
Indices: 14456293--14456341 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
14456283 ATTTTTCAAG
14456293 AAAAAAAAGGAAAA-AAGAGAAAT
1 AAAAAAAA-GAAAATAAGAGAAAT
* *
14456316 AAAATAAAATAAAATAAGAGGAAT
1 AAAA-AAAAGAAAATAAGAGAAAT
14456340 AA
1 AA
14456342 TATTCAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (23 bp):
AAAAAAAAGAAAATAAGAGAAAT
Found at i:14456472 original size:54 final size:54
Alignment explanation
Indices: 14456408--14456548 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 54
14456398 GCTTTTATAC
* *
14456408 AAGAAAAATTGATACTTTTAACTTTTCTTTAAAGCATTTGAAAGTTTTTAGTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAGCATTTGAAAGTTTTTAGTTT
* * *
14456462 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAGCATTTGGAGGTTTTTATTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAGCATTTGAAAGTTTTTAGTTT
*
14456516 AAGAAAAATTGGTACTTTCAACTTTTCCTTAAA
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAA
14456549 ATATATTTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (54 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTTAAAGCATTTGAAAGTTTTTAGTTT
Found at i:14456589 original size:16 final size:16
Alignment explanation
Indices: 14456552--14456583 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14456542 CCTTAAAATA
*
14456552 TATTTTTAAAAATTTT
1 TATTTTTAGAAATTTT
14456568 TATTTTTAGAAATTTT
1 TATTTTTAGAAATTTT
14456584 ACTTTTAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TATTTTTAGAAATTTT
Found at i:14456594 original size:16 final size:16
Alignment explanation
Indices: 14456555--14456595 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
14456545 TAAAATATAT
14456555 TTTTAA-AAATTTTTA
1 TTTTAAGAAATTTTTA
*
14456570 TTTTTAGAAA-TTTTA
1 TTTTAAGAAATTTTTA
14456585 CTTTTAAGAAA
1 -TTTTAAGAAA
14456596 AATTGATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (16 bp):
TTTTAAGAAATTTTTA
Found at i:14456726 original size:71 final size:68
Alignment explanation
Indices: 14456507--14456753 Score: 250
Period size: 71 Copynumber: 3.5 Consensus size: 68
14456497 ATTTGGAGGT
** *
14456507 TTTTA-TTTTAAGAAAAATTGGTACTTTCAACTTTTCCTTAAAATATATTTTTAAAAATTTTTAT
1 TTTTATTTTTAAGAAAAATTGAAACTTTCAACTTTTCC-T-CAA-A-ATTTTT-AAAATTTTTA-
14456571 TTTTAGAAA
60 TTTTAGAAA
* * * ***
14456580 TTTTACTTTTAAGAAAAATTGATACTTTCAACTTTT--TCTAAATTTTTTTTATTTTTATTTTAG
1 TTTTATTTTTAAGAAAAATTGAAACTTTCAACTTTTCCTCAAAATTTTTAAAATTTTTATTTTAG
14456643 AAA
66 AAA
* * * *
14456646 TTTTGTTTTTAAGGAAAATTGAAACTTTCAAGTTTTCCTCAAAATGCTTTTGGAAATTTTTATTT
1 TTTTATTTTTAAGAAAAATTGAAACTTTCAACTTTTCCTCAAAAT--TTTT-AAAATTTTTATTT
14456711 TAGAAA
63 TAGAAA
*
14456717 TTTTATTTTTAAGGAAAATTGATAA-TTTCAACTTTTC
1 TTTTATTTTTAAGAAAAATTGA-AACTTTCAACTTTTC
14456754 TCCAAAAAAA
Statistics
Matches: 150, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
66 40 0.27
67 7 0.05
68 12 0.08
69 1 0.01
70 5 0.03
71 49 0.33
72 2 0.01
73 5 0.03
74 29 0.19
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (68 bp):
TTTTATTTTTAAGAAAAATTGAAACTTTCAACTTTTCCTCAAAATTTTTAAAATTTTTATTTTAG
AAA
Found at i:14456727 original size:15 final size:15
Alignment explanation
Indices: 14456693--14456725 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
14456683 CTCAAAATGC
*
14456693 TTTTGGAAATTTTTA
1 TTTTAGAAATTTTTA
14456708 TTTTAGAAA-TTTTA
1 TTTTAGAAATTTTTA
14456722 TTTT
1 TTTT
14456726 TAAGGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (15 bp):
TTTTAGAAATTTTTA
Found at i:14456821 original size:9 final size:9
Alignment explanation
Indices: 14456807--14456851 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
14456797 TAACAAAAAC
14456807 AAAAAATAA
1 AAAAAATAA
14456816 AAAAAATAA
1 AAAAAATAA
*
14456825 AAAAATAAAGA
1 AAAAA-ATA-A
14456836 TAAAAAATAA
1 -AAAAAATAA
14456846 AAAAAA
1 AAAAAA
14456852 ATTAAAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 20 0.65
10 3 0.10
11 3 0.10
12 5 0.16
ACGTcount: A:0.87, C:0.00, G:0.02, T:0.11
Consensus pattern (9 bp):
AAAAAATAA
Found at i:14456827 original size:23 final size:24
Alignment explanation
Indices: 14456808--14456862 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
14456798 AACAAAAACA
*
14456808 AAAAATAAAAAA-AATAAAAAAAT
1 AAAAATAAAAAATAAAAAAAAAAT
* *
14456831 AAAGATAAAAAATAAAAAAAAATT
1 AAAAATAAAAAATAAAAAAAAAAT
14456855 AAAGAATA
1 AAA-AATA
14456863 CCAAATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 11 0.42
24 12 0.46
25 3 0.12
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.15
Consensus pattern (24 bp):
AAAAATAAAAAATAAAAAAAAAAT
Found at i:14456841 original size:24 final size:24
Alignment explanation
Indices: 14456812--14456859 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
14456802 AAAACAAAAA
*
14456812 ATAAAAAA-AATAAAAAAATAAAG
1 ATAAAAAATAAAAAAAAAATAAAG
*
14456835 ATAAAAAATAAAAAAAAATTAAAG
1 ATAAAAAATAAAAAAAAAATAAAG
14456859 A
1 A
14456860 ATACCAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (24 bp):
ATAAAAAATAAAAAAAAAATAAAG
Found at i:14456870 original size:25 final size:23
Alignment explanation
Indices: 14456812--14456859 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 23
14456802 AAAACAAAAA
14456812 ATAAAAAA-AATAAAAAAATAAAG
1 ATAAAAAATAA-AAAAAAATAAAG
14456835 ATAAAAAATAAAAAAAAATTAAAG
1 ATAAAAAATAAAAAAAAA-TAAAG
14456859 A
1 A
14456860 ATACCAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (23 bp):
ATAAAAAATAAAAAAAAATAAAG
Found at i:14459080 original size:20 final size:20
Alignment explanation
Indices: 14459043--14459080 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14459033 TCCTCTGCTC
*
14459043 TTTCTCTCTACTTTCCTTTT
1 TTTCTCTCTACTTCCCTTTT
14459063 TTTCTCTCT-CTATCCCTT
1 TTTCTCTCTACT-TCCCTT
14459081 CAAAAACACC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTCTCTCTACTTCCCTTTT
Found at i:14459988 original size:13 final size:13
Alignment explanation
Indices: 14459970--14460006 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
14459960 TACCAGAATT
*
14459970 TCTCTACTTTCTC
1 TCTCTACTTCCTC
14459983 TCTCTACTTCCTC
1 TCTCTACTTCCTC
14459996 TCTCTACTTCC
1 TCTCTACTTCC
14460007 CCTTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.08, C:0.43, G:0.00, T:0.49
Consensus pattern (13 bp):
TCTCTACTTCCTC
Found at i:14462916 original size:935 final size:931
Alignment explanation
Indices: 14461084--14463455 Score: 3139
Period size: 934 Copynumber: 2.5 Consensus size: 931
14461074 GGTAACTTGT
* * * *
14461084 CAAAAAATTTAAATCTCGTCAAAAAATTCAACTAAAATTTCCAAAAATTTTCTAGAAAAAAAAAT
1 CAAAAAATTCAAATCTCATCAAAAAATTCAACCAAAATTTTCAAAAATTTTCT--AAAAAAAAAT
* ** *
14461149 CACCAAAAAAAGTCTTTAAAAAATCTTAAGATCACTTTTGAACCTTTTAAATACCTTTTTTTCTT
64 CACC-AAAAAAGTCTTTAAAAAATCTTAAGATCACTTTTGAACCTTCTAAACGCCTTTTTTGCTT
*
14461214 TTCTTTTC-CTTTGTTTCTCCTTGTTCTCTATTTTTTGTGTGTCT-T-TGCTTTTGATCTATAGA
128 TTCTTTTCTCTTTGTTTCTCCTTGTTCTCTATTTTTCGTGTGTCTCTAT-C-TTTGATCTATAGA
* * * * *
14461276 TCTATTTACAAGTTTTAAAACCACAGACTCTAAAACTGAATAAGAATCTCAATTTTTTTTGGACT
191 TCTATTTATAAG-CTTAAAACCACAGACTCCAAAGCTGAATAAGAATCTCAATTTCTTTTGGACT
* * *
14461341 TTTAGTCCTATTTAATCTCTTTCAGTTTATCTCAAATTTTTCAACCCAGTTTTACACCAATTCAA
255 TTTAGTCCTGTTCAATCTCTTTCAGTTTATCTCAAATTCTTCAACCCAGTTTTACACCAATTCAA
* * **
14461406 CTACCATTTTCTTCTGTTTTTCATTTTTATTATTATTT-TT-ATT-A-ATTA-AAAAAAAA-TTT
320 CTA-C-TTTT-TTCTTTTTTTCATTTTTATTATTTTTTATTAATTAACAAAACAAAAAAAACTTT
* * * * * *
14461465 AGATAAATTGGGTGTTTACAGCTAT-CCCTCTTTGTGCATTTCTTGTGTAACAAAAATTATACAA
382 -GACAAATTAGGTGTCTACAG-T-TGCCCTCTTTATGCATTTCTTGTGTAACTAAAATTATGCAA
* * *
14461529 AGACATAGACACCCCACATATATCGACACATTCACTTTTTTGTAAAAAAAAAAACACTTGAAGCA
444 AGACGTAGACACCCCACATATACCGACACATTCACTTTTTTCT--AAAAAAAAACACTTGAAGCA
* * * *
14461594 GAATCGACTCGACTTAAGGATGAAAAATGGCTTGAGAACGTGGTTCAAGCAGAATCAGCTCGGCT
507 GAATCGACTCGACTTAAGGAAGAAAAATAGCTTGAAAACGTGGTTCAAACAGAATCAGCTCGGCT
* * * * * * *
14461659 TGGCTCAGTAAAGGGTCTGGCTGGGACATGGGTCGACGGTTCGAGTTATCTCAGGTCGAGTCACC
572 CGACTCAGAAAAGGGTCTGACTGGGACACGGGTCAACGGTTCGAGTTAGCTCAGGTCGAGTCACC
* * * *
14461724 CGAATGAAAAACACGCAGATTTTAGGTCTTTTAAACATAAAAATGATGTCGTTTTGGGAGGGTAT
637 CGAATGAAAAACACGCAGATCTTAGGTCTTTTAAACATAAAAATGATGTCATTTTGGAAGGGCAT
*
14461789 ATAACATTGATTTCAGCCTGTTTTTGCCAAAATTCTTTTGCTCCCTCTCTCTCTACTTTTCCTTT
702 ATAACATTGATTTCAGCCTGTTTTTGCCAAAATTCCTTTGCTCCCTCTCTCTCTACTTTT-CTTT
** * * *
14461854 TCTTTCTCTCTCTATCCTTTTAAGAACATCGATTGAAATTTAACTGGATTTTAAAAATTCTTGTC
766 TCTTTCTCTCTCTATCCCCTCAAGAACACCGATTGAAATTTAACTAGATTTTAAAAATTCTTGTC
* *
14461919 GAAATCTAGGTTGTTCGTCAAAAAGTTAGTCAGTTTCTAGAATTGTTATGCCGAAAATTGGGTAA
831 GAAATCTAGGTTGTTCGTCAAAAAGTTAGTCAGTTTCTAAAAATGTTATGCCGAAAATTGGGTAA
* *
14461984 TTGGTCAAAAAATTCAATCAACGTC-AAAAAAATCAC
896 CTGGCCAAAAAATTCAATCAACG-CAAAAAAAATCAC
* *
14462020 CAAAAAATTCAAATCTCATCAAAAAATTCAACCGAAATTTTCAAAAATTTTCT-AAAAAATATCA
1 CAAAAAATTCAAATCTCATCAAAAAATTCAACCAAAATTTTCAAAAATTTTCTAAAAAAAAATCA
* * *
14462084 CCAAAAAAGTCTTTAAAAAATCTTAAGATCACTTTTTAACCATCTAAACGTCTTTTTTGCTTTTT
66 CCAAAAAAGTCTTTAAAAAATCTTAAGATCACTTTTGAACCTTCTAAACGCCTTTTTTGC-TTTT
*
14462149 TTTTTCTCTTTGTTTCTCCTTGTTCTCTATTTTTCGTGTGTCTCTATCTTTGATCTATAGATCTA
130 CTTTTCTCTTTGTTTCTCCTTGTTCTCTATTTTTCGTGTGTCTCTATCTTTGATCTATAGATCTA
* *
14462214 TTTATAAGCTTAAAACCACAGACTCCAAAGCTGAACAAGAATCTCAATTTCTGTTGGACTTTTAG
195 TTTATAAGCTTAAAACCACAGACTCCAAAGCTGAATAAGAATCTCAATTTCTTTTGGACTTTTAG
*
14462279 TCCTGTTCAATCTCTTTCAGTTTATCTCAAATTCTTCAACCTAGTTTTACACCAATTCAACTACT
260 TCCTGTTCAATCTCTTTCAGTTTATCTCAAATTCTTCAACCCAGTTTTACACCAATTCAACTACT
14462344 TTTTTCTATTTTTTCATTTTTATTATTTTTTATTAATTAACAAAACAAAAAAAACTTTGACAAAT
325 TTTTTCT-TTTTTTCATTTTTATTATTTTTTATTAATTAACAAAACAAAAAAAACTTTGACAAAT
* * * *
14462409 TAGGTGTCTACAGTTGCCTCTTTTTATGTATTTTTTGTGCAACTAAAATTATGCAAAGACGTAGA
389 TAGGTGTCTACAGTTGCC-CTCTTTATGCATTTCTTGTGTAACTAAAATTATGCAAAGACGTAGA
* * *
14462474 CACCCCACATATACCGACACATTCACTTTTTTCTAAAAAAAAACACTTGAAGTAGAATCGGCTTG
453 CACCCCACATATACCGACACATTCACTTTTTTCTAAAAAAAAACACTTGAAGCAGAATCGACTCG
* * *
14462539 ACTTGAGGAAGAAAAATAGCTTGAAAATGTGGTTCAAACAGAATC-GATTCGGCTCGACTCAGAA
518 ACTTAAGGAAGAAAAATAGCTTGAAAACGTGGTTCAAACAGAATCAG-CTCGGCTCGACTCAGAA
* ** * * * * * * *
14462603 AAGGGTCTGATTGGGATGCGGGTCAACGGTTTGGGTTGCGCTTAGGTCGGGTCGCCTGAATGAAA
582 AAGGGTCTGACTGGGACACGGGTCAACGGTTCGAGTT-AGCTCAGGTCGAGTCACCCGAATGAAA
**
14462668 AACACGCAGATCTTAGGTCTTTTAAACATAAAAATGACT-TCATTTTAGGAAGGGCATATAATGT
646 AACACGCAGATCTTAGGTCTTTTAAACATAAAAATGA-TGTCATTTT-GGAAGGGCATATAACAT
* * *
14462732 TGATTTCAGCTTGTTTTTGCCAAAATTCCTTTGCTCCCTCTCTTTCTACTTTT-TTTTTTTCTCT
709 TGATTTCAGCCTGTTTTTGCCAAAATTCCTTTGCTCCCTCTCTCTCTACTTTTCTTTTCTT-TCT
* *
14462796 CTCTCTATCCCCTCAAGAACACCGATTGAAATTTAACTAGATTTTGAAAATTCTTGTCGGAATCT
773 CTCTCTATCCCCTCAAGAACACCGATTGAAATTTAACTAGATTTTAAAAATTCTTGTCGAAATCT
* *
14462861 AGGTTGTTCGTCGAAAAGTT-GATCAGTTTCTAAAAATGTTATGTCGAAAATTGGGTAACTGGCC
838 AGGTTGTTCGTCAAAAAGTTAG-TCAGTTTCTAAAAATGTTATGCCGAAAATTGGGTAACTGGCC
* ** *
14462925 GAAAAATTCAATTGACGCAAAAAAAATCAT
902 AAAAAATTCAATCAACGCAAAAAAAATCAC
* * * * *
14462955 CGAAAAATTCAAAT-TTAGTCAAAAAATTCAATCAAAATTTTTAAAAATTTT-TCAAAAAAAATC
1 CAAAAAATTCAAATCTCA-TCAAAAAATTCAACCAAAATTTTCAAAAATTTTCTAAAAAAAAATC
*
14463018 ACCAAAAAAGTCTTTAAAAAATCTTAATATCACTTTTGAACCTTCTAAACGCCTTTTTTGCTTTT
65 ACCAAAAAAGTCTTTAAAAAATCTTAAGATCACTTTTGAACCTTCTAAACGCCTTTTTTGCTTTT
* * * * *
14463083 CTTTTCTCTCTGTTTCT-CTCTGATCTCTATTTTTCGTGTGTCTCTACCTTTAATCTATAGATTT
130 CTTTTCTCTTTGTTTCTCCT-TGTTCTCTATTTTTCGTGTGTCTCTATCTTTGATCTATAGATCT
* * * *
14463147 ATTTATAAGCTTTAAAA-CATAGACTCCAAAGCTAAATAAGAATCTTACTTTCTTTTGGACTTTT
194 ATTTATAAGC-TTAAAACCACAGACTCCAAAGCTGAATAAGAATCTCAATTTCTTTTGGACTTTT
**
14463211 AGTTTTGTTCAATCTCTTTCAGTTTATCTCAAATTCTTCAACCCAGTTTTACACCAATTCAACTA
258 AGTCCTGTTCAATCTCTTTCAGTTTATCTCAAATTCTTCAACCCAGTTTTACACCAATTCAACTA
* * * **
14463276 CCTTTTTCTGTTTTTTCATTTTCATTATTTTTTTTATTAATTAACAACACCAAAAAAAAACCTAG
323 CTTTTTTCT-TTTTTTCATTTTTATTA--TTTTTTATTAATTAACAA-AAC-AAAAAAAA-CTTT
* * * *
14463341 GACAAATTAGGTGTCTACAGCTGTCCCTCTTTATGCATTTCCTGTGTAA-TAAGAATTGTGTAAA
382 GACAAATTAGGTGTCTACAGTTG-CCCTCTTTATGCATTTCTTGTGTAACTAA-AATTATGCAAA
* * *
14463405 GACGTAGACACCCCACATATACCGACATATTCAGTTTTTTCAAAAAAAAAA
445 GACGTAGACACCCCACATATACCGACACATTCACTTTTTTCTAAAAAAAAA
14463456 AAAACACTTG
Statistics
Matches: 1266, Mismatches: 139, Indels: 59
0.86 0.09 0.04
Matches are distributed among these distances:
930 4 0.00
931 25 0.02
932 54 0.04
933 137 0.11
934 377 0.30
935 326 0.26
936 226 0.18
937 5 0.00
938 11 0.01
939 99 0.08
940 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (931 bp):
CAAAAAATTCAAATCTCATCAAAAAATTCAACCAAAATTTTCAAAAATTTTCTAAAAAAAAATCA
CCAAAAAAGTCTTTAAAAAATCTTAAGATCACTTTTGAACCTTCTAAACGCCTTTTTTGCTTTTC
TTTTCTCTTTGTTTCTCCTTGTTCTCTATTTTTCGTGTGTCTCTATCTTTGATCTATAGATCTAT
TTATAAGCTTAAAACCACAGACTCCAAAGCTGAATAAGAATCTCAATTTCTTTTGGACTTTTAGT
CCTGTTCAATCTCTTTCAGTTTATCTCAAATTCTTCAACCCAGTTTTACACCAATTCAACTACTT
TTTTCTTTTTTTCATTTTTATTATTTTTTATTAATTAACAAAACAAAAAAAACTTTGACAAATTA
GGTGTCTACAGTTGCCCTCTTTATGCATTTCTTGTGTAACTAAAATTATGCAAAGACGTAGACAC
CCCACATATACCGACACATTCACTTTTTTCTAAAAAAAAACACTTGAAGCAGAATCGACTCGACT
TAAGGAAGAAAAATAGCTTGAAAACGTGGTTCAAACAGAATCAGCTCGGCTCGACTCAGAAAAGG
GTCTGACTGGGACACGGGTCAACGGTTCGAGTTAGCTCAGGTCGAGTCACCCGAATGAAAAACAC
GCAGATCTTAGGTCTTTTAAACATAAAAATGATGTCATTTTGGAAGGGCATATAACATTGATTTC
AGCCTGTTTTTGCCAAAATTCCTTTGCTCCCTCTCTCTCTACTTTTCTTTTCTTTCTCTCTCTAT
CCCCTCAAGAACACCGATTGAAATTTAACTAGATTTTAAAAATTCTTGTCGAAATCTAGGTTGTT
CGTCAAAAAGTTAGTCAGTTTCTAAAAATGTTATGCCGAAAATTGGGTAACTGGCCAAAAAATTC
AATCAACGCAAAAAAAATCAC
Found at i:14463548 original size:44 final size:44
Alignment explanation
Indices: 14463500--14463671 Score: 136
Period size: 44 Copynumber: 3.9 Consensus size: 44
14463490 ATTTTTGGAG
*
14463500 AATAAACAAAA-TTCCTCTAAACAGAGGCTCAATGAC-TATGAAAA
1 AATAAACAAAACTT-CTCTAAACAGAGGCTCAACGACTTATG-AAA
** *
14463544 AATAAACAAAAGCTTCTCTAATTAGAGGCTCAACGACTTTTGAAA
1 AATAAACAAAA-CTTCTCTAAACAGAGGCTCAACGACTTATGAAA
* * ** *
14463589 AATAAATAAAGC-TCATCTAATTAGAGGCTCAACAACTT-TGGAAA
1 AATAAACAAAACTTC-TCTAAACAGAGGCTCAACGACTTAT-GAAA
* * * * *
14463633 GATAAATAAAGCTTCTCTAGACAGAGGCTACCACGACTT
1 AATAAACAAAACTTCTCTAAACAGAGGCT-CAACGACTT
14463672 CGAAAAAATA
Statistics
Matches: 108, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 60 0.56
45 40 0.37
46 5 0.05
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.24
Consensus pattern (44 bp):
AATAAACAAAACTTCTCTAAACAGAGGCTCAACGACTTATGAAA
Found at i:14463571 original size:45 final size:43
Alignment explanation
Indices: 14463522--14463683 Score: 157
Period size: 44 Copynumber: 3.6 Consensus size: 43
14463512 TCCTCTAAAC
* *
14463522 AGAGGCTCAATGACTATGAAAAAATAAACAAAAGCTTCTCTAATT
1 AGAGGCTCAACGACTTTG-AAAAATAAA-AAAAGCTTCTCTAATT
*
14463567 AGAGGCTCAACGACTTTTGAAAAATAAATAAAGC-TCATCTAATT
1 AGAGGCTCAACGAC-TTTGAAAAATAAAAAAAGCTTC-TCTAATT
* * * *
14463611 AGAGGCTCAACAACTTTGGAAAGATAAATAAAGCTTCTCTAGA-C
1 AGAGGCTCAACGACTTT-GAAAAATAAAAAAAGCTTCTCTA-ATT
* *
14463655 AGAGGCTACCACGACTTCGAAAAAATAAA
1 AGAGGCT-CAACGACTTTG-AAAAATAAA
14463684 TGGCTCTTTA
Statistics
Matches: 100, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
43 5 0.05
44 52 0.52
45 40 0.40
46 3 0.03
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.23
Consensus pattern (43 bp):
AGAGGCTCAACGACTTTGAAAAATAAAAAAAGCTTCTCTAATT
Found at i:14463747 original size:45 final size:42
Alignment explanation
Indices: 14463647--14463943 Score: 244
Period size: 45 Copynumber: 7.0 Consensus size: 42
14463637 AATAAAGCTT
* * * * *
14463647 CTCTAGACAGAGGCTACCACGACTTCGAAAAAATAAATGGCT-
1 CTCTAAACAGAGGCAACCACAACTT-TAAAAAATAAATTGCTC
* **
14463689 CTTTAAACAGAGGCAACCATGACTTTAAAAAAAATTAAATTGCTC
1 CTCTAAACAGAGGCAACCACAACTTT--AAAAAA-TAAATTGCTC
* * *
14463734 CTATAAACAGAGGCAACCACGACTTCAAAAAAAATTAAATTGCTC
1 CTCTAAACAGAGGCAACCACAACTT--TAAAAAA-TAAATTGCTC
* * * *
14463779 CTCTAAATAAAGGCAACCACAACTTTGAAAAATAAA-TGCTT
1 CTCTAAACAGAGGCAACCACAACTTTAAAAAATAAATTGCTC
*
14463820 CTCTAAACAGAGAC-ACCACAACTTTAAAAAATAAA-TGCTC
1 CTCTAAACAGAGGCAACCACAACTTTAAAAAATAAATTGCTC
* * * * *
14463860 CTCTAAACAAATGC-ACCATAACTTTGGAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCAACCACAACTTT-AAAAAATAAATTGCTC
* ** * * *
14463902 CTCTAAATAGAGGCAATTATAACTTTGAAAAATAAAATGCTC
1 CTCTAAACAGAGGCAACCACAACTTTAAAAAATAAATTGCTC
14463944 ATTGACAATC
Statistics
Matches: 212, Mismatches: 34, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
40 45 0.21
41 23 0.11
42 55 0.26
43 20 0.09
44 8 0.04
45 61 0.29
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.24
Consensus pattern (42 bp):
CTCTAAACAGAGGCAACCACAACTTTAAAAAATAAATTGCTC
Found at i:14464066 original size:19 final size:19
Alignment explanation
Indices: 14464038--14464091 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
14464028 AAATAAAAGG
*
14464038 TTCAGATTCGTAAGAACCT
1 TTCAGCTTCGTAAGAACCT
*
14464057 TTCAGCTTCGCAAGAACCT
1 TTCAGCTTCGTAAGAACCT
14464076 TTCAGCTTCGTAAGAA
1 TTCAGCTTCGTAAGAA
14464092 TTTACTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (19 bp):
TTCAGCTTCGTAAGAACCT
Found at i:14464157 original size:23 final size:22
Alignment explanation
Indices: 14464131--14464179 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
14464121 ATCTCATAAG
14464131 GATTCAAATTTGCAAAATAT-CAA
1 GATTCAAATTTG-AAAAT-TGCAA
**
14464154 GATTCGCATTTGAAAATTGCAA
1 GATTCAAATTTGAAAATTGCAA
14464176 GATT
1 GATT
14464180 TGCATCCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.04
22 12 0.52
23 10 0.43
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (22 bp):
GATTCAAATTTGAAAATTGCAA
Found at i:14464176 original size:22 final size:23
Alignment explanation
Indices: 14464138--14464184 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
14464128 AAGGATTCAA
14464138 ATTTGCAAAATATCAAGATTCGC
1 ATTTGCAAAATATCAAGATTCGC
*
14464161 ATTTG-AAAAT-TGCAAGATTTGC
1 ATTTGCAAAATAT-CAAGATTCGC
14464183 AT
1 AT
14464185 CCAACATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 16 0.73
23 5 0.23
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (23 bp):
ATTTGCAAAATATCAAGATTCGC
Found at i:14464347 original size:22 final size:21
Alignment explanation
Indices: 14464301--14464347 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
14464291 CACTATAAAG
* *
14464301 ATTCTCATTTGAAATTCAAAG
1 ATTCTCATTTGAAACTCAAAA
14464322 ATTCTCATTTGAAAACTCAAAA
1 ATTCTCATTTG-AAACTCAAAA
14464344 ATTC
1 ATTC
14464348 AAAAGATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (21 bp):
ATTCTCATTTGAAACTCAAAA
Found at i:14465477 original size:14 final size:15
Alignment explanation
Indices: 14465450--14465496 Score: 62
Period size: 14 Copynumber: 3.2 Consensus size: 15
14465440 TGAGTCTCCC
14465450 TTTTCTCTTCTTTTTA
1 TTTT-TCTTCTTTTTA
14465466 TTTTTC-TCTTTTT-
1 TTTTTCTTCTTTTTA
*
14465479 TTTTTCTTTTTTTTA
1 TTTTTCTTCTTTTTA
14465494 TTT
1 TTT
14465497 CACCCATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 6 0.21
14 13 0.46
15 5 0.18
16 4 0.14
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCTTCTTTTTA
Found at i:14465482 original size:13 final size:13
Alignment explanation
Indices: 14465458--14465497 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
14465448 CCTTTTCTCT
14465458 TCTTTTTATTTTTC
1 TCTTTTT-TTTTTC
14465472 TCTTTTTTTTTTC
1 TCTTTTTTTTTTC
14465485 T-TTTTTTTATTTC
1 TCTTTTTTT-TTTC
14465498 ACCCATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.28
13 11 0.44
14 7 0.28
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:14466374 original size:22 final size:22
Alignment explanation
Indices: 14466349--14466392 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
14466339 AATGAAATCC
14466349 TATTAC-ATAAAAGAAATCCTAA
1 TATTACTATAAAA-AAATCCTAA
*
14466371 TATTACTTTAAAAAAATCCTAA
1 TATTACTATAAAAAAATCCTAA
14466393 AATGACAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (22 bp):
TATTACTATAAAAAAATCCTAA
Found at i:14471634 original size:61 final size:59
Alignment explanation
Indices: 14471518--14471753 Score: 222
Period size: 62 Copynumber: 4.1 Consensus size: 59
14471508 TTTATATAAA
* * * * ** *
14471518 AAAAATTGATACTTTTAACTTTT-TCTGAAAACA---TTTGGAGGTTTTTA-TTTCAAG
1 AAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTTGAAATTTTTATTTTTAAG
14471572 AAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTTCGATAATTTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTT-GA-AATTTTTATTTTTAAG
*
14471633 AAAAATTGGTAC-TTCTAACTTTT-TCTCAAGATATATATTTTTTTGAAATTTTTATTTTTAAG
1 AAAAATTGATACTTTC-AACTTTTCTCT-AA-A-A-ATATTTTTTTGAAATTTTTATTTTTAAG
* * * **
14471695 AAAAATTTATACTTTCAACTTTTC-CTCAAAATA-CTTTTAAAAATTTTTATTTTT-AG
1 AAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTTGAAATTTTTATTTTTAAG
14471751 AAA
1 AAA
14471754 TTTTATTTTT
Statistics
Matches: 154, Mismatches: 14, Indels: 26
0.79 0.07 0.13
Matches are distributed among these distances:
54 22 0.14
55 8 0.05
56 5 0.03
57 18 0.12
58 6 0.04
59 3 0.02
60 13 0.08
61 27 0.18
62 36 0.23
63 6 0.04
64 10 0.06
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (59 bp):
AAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTTGAAATTTTTATTTTTAAG
Found at i:14471765 original size:16 final size:16
Alignment explanation
Indices: 14471729--14471763 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
14471719 CTCAAAATAC
*
14471729 TTTTAAAAATTTTTAT
1 TTTTAGAAATTTTTAT
14471745 TTTTAGAAA-TTTTAT
1 TTTTAGAAATTTTTAT
14471760 TTTT
1 TTTT
14471764 TAAGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTTAGAAATTTTTAT
Found at i:14471769 original size:17 final size:17
Alignment explanation
Indices: 14471729--14471770 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
14471719 CTCAAAATAC
14471729 TTTTAA-AAATTTTTAT
1 TTTTAAGAAATTTTTAT
14471745 TTTT-AGAAA-TTTTATT
1 TTTTAAGAAATTTTTA-T
14471761 TTTTAAGAAA
1 TTTTAAGAAA
14471771 AATTGATACT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.26
16 12 0.52
17 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTTAAGAAATTTTTAT
Found at i:14471899 original size:14 final size:15
Alignment explanation
Indices: 14471872--14471910 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
14471862 CTCAAAATGC
*
14471872 TTTTGAAAATTTT-T
1 TTTTAAAAATTTTAT
14471886 ATTTTAAAAATTTTAT
1 -TTTTAAAAATTTTAT
14471902 TTTTAAAAA
1 TTTTAAAAA
14471911 AAATTGATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
TTTTAAAAATTTTAT
Found at i:14471939 original size:71 final size:71
Alignment explanation
Indices: 14471673--14471931 Score: 358
Period size: 71 Copynumber: 3.6 Consensus size: 71
14471663 ATATATATTT
* * *
14471673 TTTTGAAATTTTTATTTTTAAGAAAAATTTATACTTTCAACTTTTCCTCAAAATACTTTTAAAAA
1 TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTAAAAA
14471738 TTTTTA
66 TTTTTA
* * * * *
14471744 TTTTTAGAAATTTTATTTTTTAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTAT
1 -TTTTAAAAATTTTA-TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTAAA
*
14471809 TATTTTTA
64 AATTTTTA
* * * * *
14471817 -TTTAAAAAATTTATTTTTAGGAAAAATTGAAACTTTCAACTTTTCCTCAAAATGCTTTTGAAAA
1 TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTAAAAA
14471881 TTTTTA
66 TTTTTA
*
14471887 TTTTAAAAATTTTATTTTTAAAAAAAATTGATACTTTCAACTTTT
1 TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTT
14471932 TTCCAAAAAT
Statistics
Matches: 162, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
70 49 0.30
71 51 0.31
72 11 0.07
73 51 0.31
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.50
Consensus pattern (71 bp):
TTTTAAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTAAAAA
TTTTTA
Found at i:14471949 original size:143 final size:143
Alignment explanation
Indices: 14471683--14471948 Score: 430
Period size: 143 Copynumber: 1.9 Consensus size: 143
14471673 TTTTGAAATT
* *
14471683 TTTATTTTTAAGAAAAATTTATACTTTCAACTTTTCCTCAAAATACTTTTAAAAATTTTTATTTT
1 TTTATTTTTAAGAAAAATTGAAACTTTCAACTTTTCCTCAAAATACTTTTAAAAATTTTTATTTT
* *
14471748 TAGAAATTTTATTTTTTAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTATTATT
66 TAAAAATTTTATTTTTTAAAAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTATTATT
14471813 TTTATTTAAAAAA
131 TTTATTTAAAAAA
* * *
14471826 TTTATTTTTAGGAAAAATTGAAACTTTCAACTTTTCCTCAAAATGCTTTTGAAAATTTTTA-TTT
1 TTTATTTTTAAGAAAAATTGAAACTTTCAACTTTTCCTCAAAATACTTTTAAAAATTTTTATTTT
14471890 TAAAAATTTTA-TTTTTAAAAAAAATTGATACTTTCAACTTTTTTCC-AAAAATATTTTTT
66 TAAAAATTTTATTTTTTAAAAAAAATTGATACTTTCAAC--TTTTCCTAAAAATATTTTTT
14471949 TTGGAAATTT
Statistics
Matches: 114, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
141 26 0.23
142 26 0.23
143 62 0.54
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (143 bp):
TTTATTTTTAAGAAAAATTGAAACTTTCAACTTTTCCTCAAAATACTTTTAAAAATTTTTATTTT
TAAAAATTTTATTTTTTAAAAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTATTATT
TTTATTTAAAAAA
Found at i:14472035 original size:16 final size:15
Alignment explanation
Indices: 14471988--14472029 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
14471978 ACAAAAACAA
14471988 AAAAAAATTAAAAAT
1 AAAAAAATTAAAAAT
*
14472003 AATAAAAATAAAAAAT
1 AA-AAAAATTAAAAAT
14472019 AAAAAAATTAA
1 AAAAAAATTAA
14472030 GGAATACCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAAAATTAAAAAT
Found at i:14472072 original size:3 final size:3
Alignment explanation
Indices: 14472066--14472097 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14472056 CAACAACAAC
14472066 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14472098 ATAAATAAAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14472102 original size:4 final size:4
Alignment explanation
Indices: 14472093--14472118 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
14472083 TAATAATAAT
14472093 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
14472119 AGGCCTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:14479468 original size:39 final size:39
Alignment explanation
Indices: 14479409--14479485 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
14479399 TTATACATTT
*
14479409 ACTTACCATCAATCTGCTAACCTGTATAACAGAACACTA
1 ACTTACCATCAATCTGCTAACCTGCATAACAGAACACTA
* * *
14479448 ACTTTCCATCATTCTGCTAACCTGCATAACTGAACACT
1 ACTTACCATCAATCTGCTAACCTGCATAACAGAACACT
14479486 GGAAAAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.34, C:0.30, G:0.08, T:0.29
Consensus pattern (39 bp):
ACTTACCATCAATCTGCTAACCTGCATAACAGAACACTA
Found at i:14482296 original size:19 final size:19
Alignment explanation
Indices: 14482260--14482297 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14482250 TATATTTAAA
*
14482260 AAAATATAAATTTAATTAT
1 AAAATATAAATATAATTAT
14482279 AAAATA-AAATATATATTAT
1 AAAATATAAATATA-ATTAT
14482298 CTTTTAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATATAAATATAATTAT
Found at i:14483223 original size:33 final size:34
Alignment explanation
Indices: 14483149--14483224 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
14483139 TTTGAAATCG
*
14483149 AATTTCTTATAAATGAATATCCAAAAAATTTTAA
1 AATTTCTCATAAATGAATATCCAAAAAATTTTAA
*
14483183 AATTTCTCATAAATGGATATCCAAAAAATTTTAA
1 AATTTCTCATAAATGAATATCCAAAAAATTTTAA
14483217 AA-TTCTCA
1 AATTTCTCA
14483225 AATACTCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 6 0.15
34 34 0.85
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (34 bp):
AATTTCTCATAAATGAATATCCAAAAAATTTTAA
Found at i:14483874 original size:12 final size:12
Alignment explanation
Indices: 14483854--14483909 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
14483844 ATCAAAAGTT
*
14483854 TATAATTAAAAA
1 TATATTTAAAAA
*
14483866 TATATTTAATAA
1 TATATTTAAAAA
14483878 TAT-TTTAAAAAA
1 TATATTT-AAAAA
* *
14483890 TTATAATTAAATA
1 -TATATTTAAAAA
14483903 TATATTT
1 TATATTT
14483910 TTTAAAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 3 0.09
12 23 0.66
13 7 0.20
14 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATATTTAAAAA
Found at i:14483894 original size:25 final size:27
Alignment explanation
Indices: 14483861--14483920 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
14483851 GTTTATAATT
*
14483861 AAAAA-TAT-ATTTAATA-ATATTTTA
1 AAAAATTATAATTAAATATATATTTTA
*
14483885 AAAAATTATAATTAAATATATATTTTT
1 AAAAATTATAATTAAATATATATTTTA
*
14483912 TAAAATTAT
1 AAAAATTAT
14483921 GTTTTCTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.17
25 3 0.10
26 7 0.23
27 15 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
AAAAATTATAATTAAATATATATTTTA
Done.