Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 54 of 196
Found at i:15089062 original size:9 final size:9
Alignment explanation
Indices: 15088512--15089049 Score: 215
Period size: 9 Copynumber: 62.7 Consensus size: 9
15088502 AAATTAAATG
15088512 AGTTATGTA
1 AGTTATGTA
15088521 AGTTATGATA
1 AGTTATG-TA
* * *
15088531 TGATATAT-
1 AGTTATGTA
*
15088539 ATTTATGT-
1 AGTTATGTA
*
15088547 A-TTAAGTA
1 AGTTATGTA
*
15088555 AATTATGTA
1 AGTTATGTA
15088564 AGTTATGT-
1 AGTTATGTA
**
15088572 A-TTACATA
1 AGTTATGTA
*
15088580 AGTTATTTA
1 AGTTATGTA
*
15088589 TGTATTATGTA
1 AG--TTATGTA
*
15088600 AGCTATGTA
1 AGTTATGTA
15088609 AGTGT-TGTA
1 AGT-TATGTA
15088618 AGTGT-TGT-
1 AGT-TATGTA
15088626 A-TTATGTA
1 AGTTATGTA
*
15088634 AGTTATATA
1 AGTTATGTA
15088643 AGTTATGT-
1 AGTTATGTA
*
15088651 AGACTATGT-
1 AG-TTATGTA
*
15088660 A-TTATGCA
1 AGTTATGTA
*
15088668 AGTTATTTA
1 AGTTATGTA
* *
15088677 AGTTGTGCA
1 AGTTATGTA
15088686 AGTGT-TGT-
1 AGT-TATGTA
15088694 A-TTATGTA
1 AGTTATGTA
15088702 AGTTATGT-
1 AGTTATGTA
*
15088710 A-TTATATA
1 AGTTATGTA
15088718 AGTTTTATGTA
1 AG--TTATGTA
**
15088729 AAATATGTA
1 AGTTATGTA
15088738 AG-T-TGTA
1 AGTTATGTA
** *
15088745 TTTTATGAA
1 AGTTATGTA
*
15088754 AGTTATATA
1 AGTTATGTA
15088763 AGTTATGTA
1 AGTTATGTA
* *
15088772 GGCTATGT-
1 AGTTATGTA
*
15088780 A-TTATGCA
1 AGTTATGTA
*
15088788 AGTTATTTA
1 AGTTATGTA
*
15088797 AGTTGTGTA
1 AGTTATGTA
15088806 AGTGT-TGT-
1 AGT-TATGTA
15088814 A-TTATGTA
1 AGTTATGTA
*
15088822 AGATATGTA
1 AGTTATGTA
15088831 AG-T-TGTA
1 AGTTATGTA
**
15088838 TTTTATGTA
1 AGTTATGTA
*
15088847 AGTTCTGT-
1 AGTTATGTA
*
15088855 A-CTATGTA
1 AGTTATGTA
*
15088863 TGTTATGTA
1 AGTTATGTA
*
15088872 AGTTGTGT-
1 AGTTATGTA
*
15088880 AG-AATGTA
1 AGTTATGTA
*
15088888 AGCTATGTA
1 AGTTATGTA
15088897 AGTTATGTA
1 AGTTATGTA
**
15088906 AGTGGTGT-
1 AGTTATGTA
15088914 A-TTATGTA
1 AGTTATGTA
15088922 AGTTATGTA
1 AGTTATGTA
15088931 AGTTATGTA
1 AGTTATGTA
15088940 AGTTATTATGTA
1 AG---TTATGTA
*
15088952 AGTTATGCA
1 AGTTATGTA
*
15088961 AGCTTATATATA
1 AG--T-TATGTA
15088973 AGTTATGT-
1 AGTTATGTA
*
15088981 A-TTATGTT
1 AGTTATGTA
15088989 A-TTATGT-
1 AGTTATGTA
15088996 A-TTATGTA
1 AGTTATGTA
*
15089004 ATTTAT-TA
1 AGTTATGTA
*
15089012 TGTTAT-T-
1 AGTTATGTA
*
15089019 A--TATATA
1 AGTTATGTA
*
15089026 AGATATGTA
1 AGTTATGTA
15089035 AGTTATGTA
1 AGTTATGTA
15089044 AGTTAT
1 AGTTAT
15089050 TATGTAAGTT
Statistics
Matches: 397, Mismatches: 81, Indels: 102
0.68 0.14 0.18
Matches are distributed among these distances:
5 3 0.01
6 4 0.01
7 67 0.17
8 47 0.12
9 236 0.59
10 10 0.03
11 15 0.04
12 15 0.04
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.46
Consensus pattern (9 bp):
AGTTATGTA
Found at i:15089078 original size:21 final size:20
Alignment explanation
Indices: 15088925--15089083 Score: 92
Period size: 21 Copynumber: 7.6 Consensus size: 20
15088915 TTATGTAAGT
*
15088925 TATGTAAGTTATGTAAGTTA
1 TATGTAAGTTATGCAAGTTA
15088945 TTATGTAAGTTATGCAAGCTTA
1 -TATGTAAGTTATGCAAG-TTA
* *
15088967 TATATAAGTTATGTATTATGTTA
1 TATGTAAGTTATGCA--A-GTTA
* *
15088990 TTATGT-A-TTATGTAATTTA
1 -TATGTAAGTTATGCAAGTTA
* * **
15089009 TTATGTTATTATATATAAG--A
1 -TATGTAAGT-TATGCAAGTTA
*
15089029 TATGTAAGTTATGTAAGTTA
1 TATGTAAGTTATGCAAGTTA
15089049 TTATGTAAGTTATGCAAGCTTA
1 -TATGTAAGTTATGCAAG-TTA
*
15089071 TATATAAGCTTAT
1 TATGTAAG-TTAT
15089084 ATATAATTAT
Statistics
Matches: 113, Mismatches: 12, Indels: 25
0.75 0.08 0.17
Matches are distributed among these distances:
18 7 0.06
19 16 0.14
20 4 0.04
21 53 0.47
22 23 0.20
23 5 0.04
24 5 0.04
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (20 bp):
TATGTAAGTTATGCAAGTTA
Found at i:15089079 original size:12 final size:12
Alignment explanation
Indices: 15089064--15089089 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15089054 TAAGTTATGC
15089064 AAGCTTATATAT
1 AAGCTTATATAT
15089076 AAGCTTATATAT
1 AAGCTTATATAT
15089088 AA
1 AA
15089090 TTATTTAGAA
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (12 bp):
AAGCTTATATAT
Found at i:15089185 original size:61 final size:61
Alignment explanation
Indices: 15089090--15089311 Score: 258
Period size: 61 Copynumber: 3.7 Consensus size: 61
15089080 TTATATATAA
* * *
15089090 TTATTTAGAAAACTTATAAAATTAATACTAATAAATTTTATTACTAATAAATTTAGAACAC
1 TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTTAATACTAATAAATTTAGAAAAC
*
15089151 TTATTTAGAAAACTTATAAGTTTAATACTAATAAATTTTAATACTAATAAATTTAGAAAAC
1 TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTTAATACTAATAAATTTAGAAAAC
* * * * *
15089212 TTATTTAGAAAACTTATAAATTTAGAAAACTTATATAGATATTAAAAC-AAT--ATTT--ATAA-
1 TTATTTAGAAAACTTATAAATTT--AATAC-TA-ATAAATTTTAATACTAATAAATTTAGAAAAC
* * *
15089271 TTATTTAGAAAACTTATAAATTTTATAGTAATAAGTTTTAA
1 TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTTAA
15089312 ATATAGGTTA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
55 8 0.06
56 2 0.01
57 2 0.01
59 23 0.16
60 3 0.02
61 79 0.56
62 4 0.03
63 4 0.03
64 5 0.04
65 11 0.08
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.41
Consensus pattern (61 bp):
TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTTAATACTAATAAATTTAGAAAAC
Found at i:15089192 original size:16 final size:16
Alignment explanation
Indices: 15089171--15089204 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
15089161 AACTTATAAG
15089171 TTTAATACTAATAAAT
1 TTTAATACTAATAAAT
15089187 TTTAATACTAATAAAT
1 TTTAATACTAATAAAT
15089203 TT
1 TT
15089205 AGAAAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAATACTAATAAAT
Found at i:15089219 original size:13 final size:13
Alignment explanation
Indices: 15089201--15089228 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15089191 ATACTAATAA
15089201 ATTTAGAAAACTT
1 ATTTAGAAAACTT
15089214 ATTTAGAAAACTT
1 ATTTAGAAAACTT
15089227 AT
1 AT
15089229 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:15089231 original size:30 final size:30
Alignment explanation
Indices: 15089136--15089250 Score: 110
Period size: 30 Copynumber: 3.8 Consensus size: 30
15089126 TTTATTACTA
*
15089136 ATAAATTTAGAACACTTATTTAGAAAACTT
1 ATAAATTTAGAAAACTTATTTAGAAAACTT
* * * * *
15089166 ATAAGTTTA-ATACTAA-TAAATTT-TAATACTA
1 ATAAATTTAGA-A--AACT-TATTTAGAAAACTT
15089197 ATAAATTTAGAAAACTTATTTAGAAAACTT
1 ATAAATTTAGAAAACTTATTTAGAAAACTT
*
15089227 ATAAATTTAGAAAACTTATATAGA
1 ATAAATTTAGAAAACTTATTTAGA
15089251 TATTAAAACA
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
29 7 0.11
30 38 0.58
31 15 0.23
32 6 0.09
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (30 bp):
ATAAATTTAGAAAACTTATTTAGAAAACTT
Found at i:15089551 original size:21 final size:21
Alignment explanation
Indices: 15089525--15089564 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
15089515 TCCAAAATTT
15089525 ATTGCGTTTTTGGCACGAATG
1 ATTGCGTTTTTGGCACGAATG
*
15089546 ATTGCGTTTTTTGCACGAA
1 ATTGCGTTTTTGGCACGAA
15089565 CGTAGCAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (21 bp):
ATTGCGTTTTTGGCACGAATG
Found at i:15091679 original size:7 final size:7
Alignment explanation
Indices: 15091667--15091712 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
15091657 GTAAGTATAT
15091667 CCCTAAC
1 CCCTAAC
15091674 CCCTAAC
1 CCCTAAC
*
15091681 CCCTAAT
1 CCCTAAC
**
15091688 CTTTAAC
1 CCCTAAC
*
15091695 CTCTAAC
1 CCCTAAC
15091702 CCCTAAC
1 CCCTAAC
15091709 CCCT
1 CCCT
15091713 CTTTTGCAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.26, C:0.50, G:0.00, T:0.24
Consensus pattern (7 bp):
CCCTAAC
Found at i:15091835 original size:7 final size:7
Alignment explanation
Indices: 15091825--15091869 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
15091815 CACTAACTCT
*
15091825 TAACCTC
1 TAACCCC
15091832 TAACCCC
1 TAACCCC
*
15091839 TAACCTC
1 TAACCCC
15091846 TAACCCC
1 TAACCCC
**
15091853 TAACAGC
1 TAACCCC
15091860 TAACCCC
1 TAACCCC
15091867 TAA
1 TAA
15091870 ACCTTATTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.33, C:0.44, G:0.02, T:0.20
Consensus pattern (7 bp):
TAACCCC
Found at i:15091841 original size:21 final size:21
Alignment explanation
Indices: 15091817--15091856 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15091807 CCTTAAATCA
*
15091817 CTAA-CTCTTAACCTCTAACCC
1 CTAACCTC-TAACCCCTAACCC
15091838 CTAACCTCTAACCCCTAAC
1 CTAACCTCTAACCCCTAAC
15091857 AGCTAACCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.25
Consensus pattern (21 bp):
CTAACCTCTAACCCCTAACCC
Found at i:15091842 original size:14 final size:14
Alignment explanation
Indices: 15091825--15091869 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
15091815 CACTAACTCT
15091825 TAACCTCTAACCCC
1 TAACCTCTAACCCC
15091839 TAACCTCTAACCCC
1 TAACCTCTAACCCC
**
15091853 TAACAGCTAACCCC
1 TAACCTCTAACCCC
15091867 TAA
1 TAA
15091870 ACCTTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.33, C:0.44, G:0.02, T:0.20
Consensus pattern (14 bp):
TAACCTCTAACCCC
Found at i:15091946 original size:83 final size:80
Alignment explanation
Indices: 15091850--15092000 Score: 214
Period size: 81 Copynumber: 1.8 Consensus size: 80
15091840 AACCTCTAAC
*
15091850 CCCTAACAGCTAACCCCTAAACCTTATTTAATATATAAATTTAAAACCA-CTAATTAATCTAAAC
1 CCCTAACACCTAACCCCTAAACCTTATTT-A-ATATAAA-TTAAAA-CAGCTAATTAATCTAAAC
15091914 CCTAAACCATAACCTAAAT
62 CCTAAACCATAACCTAAAT
* * *
15091933 CCCTAACCCCTAACCCCTAAATCTTATTTAATATAAATTAAAACATGCTAATTAATCTAATCCCT
1 CCCTAACACCTAACCCCTAAACCTTATTTAATATAAATTAAAACA-GCTAATTAATCTAAACCCT
15091998 AAA
65 AAA
15092001 GCCTAACTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 2 0.03
80 6 0.10
81 27 0.44
82 1 0.02
83 26 0.42
ACGTcount: A:0.43, C:0.26, G:0.01, T:0.29
Consensus pattern (80 bp):
CCCTAACACCTAACCCCTAAACCTTATTTAATATAAATTAAAACAGCTAATTAATCTAAACCCTA
AACCATAACCTAAAT
Found at i:15092107 original size:14 final size:15
Alignment explanation
Indices: 15092088--15092120 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
15092078 CTTAAACCAG
15092088 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
15092102 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
15092117 AATC
1 AATC
15092121 TATATATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:15092655 original size:41 final size:41
Alignment explanation
Indices: 15092610--15092688 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
15092600 GCTCTTAGCA
* * *
15092610 TTAGCAGCGCTTTGTCAAAAACGTCGCTAAAAGCCCGATCT
1 TTAGCAGCGATTTGTCAAAAACGCCGCTAAAACCCCGATCT
* * *
15092651 TTAGCGGCGATTTTTCACAAACGCCGCTAAAACCCCGA
1 TTAGCAGCGATTTGTCAAAAACGCCGCTAAAACCCCGA
15092689 AAGGTCAGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
TTAGCAGCGATTTGTCAAAAACGCCGCTAAAACCCCGATCT
Found at i:15094754 original size:15 final size:15
Alignment explanation
Indices: 15094726--15094763 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
15094716 AATGAGTGAA
15094726 ATTAAAG-A-AAAAT
1 ATTAAAGAATAAAAT
*
15094739 ATTATAGAATAAAAT
1 ATTAAAGAATAAAAT
15094754 ATTAAAGAAT
1 ATTAAAGAAT
15094764 GTATATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 6 0.29
14 1 0.05
15 14 0.67
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (15 bp):
ATTAAAGAATAAAAT
Found at i:15094910 original size:13 final size:13
Alignment explanation
Indices: 15094892--15094920 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15094882 ATGTATGATA
15094892 AATTAAAAATAAT
1 AATTAAAAATAAT
15094905 AATTAAAAATAAT
1 AATTAAAAATAAT
15094918 AAT
1 AAT
15094921 ATATCTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTAAAAATAAT
Found at i:15096840 original size:50 final size:50
Alignment explanation
Indices: 15096594--15097152 Score: 322
Period size: 50 Copynumber: 11.2 Consensus size: 50
15096584 TAACTCGTAA
* ** * * *
15096594 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCCGTTGTAG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGG
* * * * * * * * ** * * *
15096644 CTTCAATCTGCTCT-ACTGCACTGGCTGAGAGTGTGAGATTCATCATTGTGA
1 CTTTAATCT-TTTTAACTGCAATGTCGGGGA-AGCAAGATTCACCGTTGTGG
* ** * *
15096695 CTTTAATCCTTTTAACTATAATGTCAGGAAAGCAAGATTCACCGTTGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGG
* * ** * *** * * * * * * *
15096745 TTTTAGTCTGCTTCACTGTGTTGCCAGGAAAGTAACACTCGCCGTTGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGG
* *
15096795 CTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTATGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGG
* *** * * * * *
15096845 CTTTAATCTGTTCCGCTGC-ATCTCCTGGGAAGCAAGATTCGCTGTTGTAG
1 CTTTAATCTTTTTAACTGCAATGT-CGGGGAAGCAAGATTCACCGTTGTGG
* * *
15096895 CTTTAATCTTTTTAACTGCAATGTCGGGGAAACATGATTCACTGTTGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGG
* * * * * * * * * *
15096945 CTTTAATCTATTCT-GCTGC-ATCGCCTGAG-AGTAAAATTTGA-TGTTGTAG
1 CTTTAATCT-TTTTAACTGCAAT-GTCGGGGAAGCAAGA-TTCACCGTTGTGG
*
15096994 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAAATTCACCGTTGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGG
** ** * * * * *
15097044 CTTTAATCTGCTCCACTAC-ATCGCCAGAGAAGTAAGATTCACCGTTGTGG
1 CTTTAATCTTTTTAACTGCAAT-GTCGGGGAAGCAAGATTCACCGTTGTGG
* * *
15097094 CTTTAATCTTTTTAACTACAATGTCGAGGAAGCAAGATTCACCGATGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGG
15097144 CTTTAATCT
1 CTTTAATCT
15097153 GTTCCACTAA
Statistics
Matches: 370, Mismatches: 125, Indels: 28
0.71 0.24 0.05
Matches are distributed among these distances:
48 3 0.01
49 37 0.10
50 292 0.79
51 38 0.10
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (50 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGG
Found at i:15097036 original size:199 final size:199
Alignment explanation
Indices: 15096788--15097152 Score: 550
Period size: 199 Copynumber: 1.8 Consensus size: 199
15096778 AACACTCGCC
* * *
15096788 GTTGTGGCTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTATGGCTTTAATC
1 GTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAAATTCACCGTTATGGCTTTAATC
* * * * * * * * *
15096853 TGTTCCGCTGCATCTCCTGGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATG
66 TGCTCCACTACATCGCCAGAGAAGCAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTACAATG
* * * *
15096918 TCGGGGAAACATGATTCACTGTTGTGGCTTTAATCTATTCTGCTGCATCGCCTGAGAGTAAAATT
131 TCGAGGAAACAAGATTCACCGATGTGGCTTTAATCTATTCTGCTGCATCGCCTGAGAGTAAAATT
15096983 TGAT
196 TGAT
*
15096987 GTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAAATTCACCGTTGTGGCTTTAATC
1 GTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAAATTCACCGTTATGGCTTTAATC
* *
15097052 TGCTCCACTACATCGCCAGAGAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTACAATG
66 TGCTCCACTACATCGCCAGAGAAGCAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTACAATG
*
15097117 TCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCT
131 TCGAGGAAACAAGATTCACCGATGTGGCTTTAATCT
15097153 GTTCCACTAA
Statistics
Matches: 146, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
199 146 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (199 bp):
GTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAAATTCACCGTTATGGCTTTAATC
TGCTCCACTACATCGCCAGAGAAGCAAGATTCACCGTTGTAGCTTTAATCTTTTTAACTACAATG
TCGAGGAAACAAGATTCACCGATGTGGCTTTAATCTATTCTGCTGCATCGCCTGAGAGTAAAATT
TGAT
Found at i:15097167 original size:100 final size:100
Alignment explanation
Indices: 15096594--15097160 Score: 552
Period size: 100 Copynumber: 5.7 Consensus size: 100
15096584 TAACTCGTAA
* ** * * * * *
15096594 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCTA
1 CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCA
* * * * * *
15096659 CTGCA-CTGGCTGAGAGTGTGAGATTCATCATTGTGA
66 CTGCATC-GCCTGAGA-AGTAAGATTCACCGTTGTGG
* ** * *
15096695 CTTTAATCCTTTTAACTATAATGTC-AGGAAAGCAAGATTCACCGTTGTGGTTTTAGTCTGCTT-
1 CTTTAATCTTTTTAACTGCAATGTCGAGG-AAGCAAGATTCACCGTTGTGGCTTTAATCTG-TTC
** * * * * *
15096758 CACTGTGTTGCCAG-GAAAGTAACACTCGCCGTTGTGG
64 CACTGCATCGCCTGAG-AAGTAAGATTCACCGTTGTGG
* * * *
15096795 CTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTATGGCTTTAATCTGTTCCG
1 CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCA
* * * * * *
15096860 CTGCATCTCCTGGGAAGCAAGATTCGCTGTTGTAG
66 CTGCATCGCCTGAGAAGTAAGATTCACCGTTGTGG
* * * * * **
15096895 CTTTAATCTTTTTAACTGCAATGTCGGGGAAACATGATTCACTGTTGTGGCTTTAATCTATTCTG
1 CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCA
* * * *
15096960 CTGCATCGCCTGAG-AGTAAAATTTGA-TGTTGTAG
66 CTGCATCGCCTGAGAAGTAAGA-TTCACCGTTGTGG
* * *
15096994 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAAATTCACCGTTGTGGCTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCA
* *
15097059 CTACATCGCCAGAGAAGTAAGATTCACCGTTGTGG
66 CTGCATCGCCTGAGAAGTAAGATTCACCGTTGTGG
* *
15097094 CTTTAATCTTTTTAACTACAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCA
15097159 CT
66 CT
15097161 AAATCGCTTG
Statistics
Matches: 381, Mismatches: 75, Indels: 21
0.80 0.16 0.04
Matches are distributed among these distances:
99 87 0.23
100 235 0.62
101 58 0.15
102 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCA
CTGCATCGCCTGAGAAGTAAGATTCACCGTTGTGG
Found at i:15097181 original size:50 final size:50
Alignment explanation
Indices: 15097020--15097181 Score: 159
Period size: 50 Copynumber: 3.2 Consensus size: 50
15097010 TGCAATGTCG
* * * * *
15097020 GGGAAGCAAAATTCACCGTTGTGGCTTTAATCTGCTCCACTACATCGCCA
1 GGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTAAATCGCTA
* * ** *
15097070 GAGAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTACAAT-G-TC
1 GGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTA-AATCGCTA
* * *
15097119 GAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTAAATCGCTT
1 G-GGAAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTAAATCGCTA
15097170 GGG-AGATAAGAT
1 GGGAAG-TAAGAT
15097182 CTGTAATTCT
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
49 6 0.07
50 79 0.89
51 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (50 bp):
GGGAAGTAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTAAATCGCTA
Found at i:15097295 original size:44 final size:44
Alignment explanation
Indices: 15097245--15097406 Score: 121
Period size: 44 Copynumber: 3.5 Consensus size: 44
15097235 GATCTACTCT
15097245 ACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 ACTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * * * * * *
15097289 ACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGATGCGATCTACTC
1 ACTGTAATCTCAGAGAGATAAGA-T-C---CTTTATTTTAATCCG--CT-C-C
15097342 TACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 -ACTGTAATC-TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
*
15097387 ACTGTAATCTCAGGGAGATA
1 ACTGTAATCTCAGAGAGATA
15097407 GGATTACTAG
Statistics
Matches: 88, Mismatches: 17, Indels: 26
0.67 0.13 0.20
Matches are distributed among these distances:
44 35 0.40
45 4 0.05
46 2 0.02
47 2 0.02
49 20 0.23
51 2 0.02
52 2 0.02
53 3 0.03
54 18 0.20
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
ACTGTAATCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
Found at i:15097397 original size:98 final size:98
Alignment explanation
Indices: 15097228--15097426 Score: 362
Period size: 98 Copynumber: 2.0 Consensus size: 98
15097218 GAGATAAAAC
*
15097228 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
15097293 TAATCTCAGGGAAATAGGATTACTGGCTTCAAT
66 TAATCTCAGGGAAATAGGATTACTAGCTTCAAT
15097326 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
15097391 TAATCTCAGGGAGATAGGATTACTAGCTTCCAT
66 TAATCTCAGGGAAATAGGATTACTAGCTTCAAT
15097424 CTG
1 CTG
15097427 CTCCGCTGTA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (98 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAAATAGGATTACTAGCTTCAAT
Found at i:15097464 original size:44 final size:44
Alignment explanation
Indices: 15097377--15097470 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
15097367 CCTTTATTTT
* *
15097377 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * ** *
15097421 CATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTTTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
15097465 AATCTG
1 AATCTG
15097471 ATGCGATCTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:15098899 original size:7 final size:7
Alignment explanation
Indices: 15098887--15098927 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
15098877 TTAGCCTCTC
15098887 CATTTTT
1 CATTTTT
15098894 CATTTTT
1 CATTTTT
15098901 CA-TTTT
1 CATTTTT
15098907 CATTTTT
1 CATTTTT
15098914 CATTTTT
1 CATTTTT
15098921 CATTTTT
1 CATTTTT
15098928 TTTACTCAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:15098908 original size:13 final size:14
Alignment explanation
Indices: 15098887--15098927 Score: 75
Period size: 13 Copynumber: 3.0 Consensus size: 14
15098877 TTAGCCTCTC
15098887 CATTTTTCATTTTT
1 CATTTTTCATTTTT
15098901 CA-TTTTCATTTTT
1 CATTTTTCATTTTT
15098914 CATTTTTCATTTTT
1 CATTTTTCATTTTT
15098928 TTTACTCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:15098910 original size:20 final size:20
Alignment explanation
Indices: 15098887--15098926 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15098877 TTAGCCTCTC
15098887 CATTTTTCATTTTTCATTTT
1 CATTTTTCATTTTTCATTTT
15098907 CATTTTTCATTTTTCATTTT
1 CATTTTTCATTTTTCATTTT
15098927 TTTTACTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (20 bp):
CATTTTTCATTTTTCATTTT
Found at i:15104790 original size:16 final size:16
Alignment explanation
Indices: 15104769--15104800 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15104759 GAAATTAAAG
*
15104769 AAAAATATTATAGAAT
1 AAAAATATTAAAGAAT
15104785 AAAAATATTAAAGAAT
1 AAAAATATTAAAGAAT
15104801 GTATATATGA
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:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AAAAATATTAAAGAAT
Found at i:15104948 original size:13 final size:13
Alignment explanation
Indices: 15104930--15104958 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15104920 ATGTATGATA
15104930 AATTAAAAATAAT
1 AATTAAAAATAAT
15104943 AATTAAAAATAAT
1 AATTAAAAATAAT
15104956 AAT
1 AAT
15104959 ATATCTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTAAAAATAAT
Found at i:15105108 original size:3 final size:3
Alignment explanation
Indices: 15105100--15105136 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
15105090 AATTTAAAGT
15105100 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15105137 AAGGTTTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15107655 original size:13 final size:15
Alignment explanation
Indices: 15107637--15107669 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
15107627 GATTAAAAGC
15107637 TAATTA-GTTTTA-T
1 TAATTAGGTTTTAGT
15107650 TAATTAGGTTTTAGT
1 TAATTAGGTTTTAGT
15107665 TAATT
1 TAATT
15107670 TAAACCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 6 0.33
15 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (15 bp):
TAATTAGGTTTTAGT
Found at i:15111591 original size:50 final size:50
Alignment explanation
Indices: 15111476--15111718 Score: 256
Period size: 50 Copynumber: 4.8 Consensus size: 50
15111466 GATAATAACA
* * ** *
15111476 TGCCAA-AGCCATATCCCAGACATGGTCTTATATGGGATGTTCTCATATCGG
1 TGCCAACA-CCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
** * ** *
15111527 TGCTC-ATGCCATGTCCCAGACATAGTCTTACGGGGGACCTCTCATCTTGG
1 TGC-CAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
15111577 TGCCAACACTATGTCCTAAACATGGTCTTACATGGGATCTGTCATCTCGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
15111627 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
15111677 CGCCAATTCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCT
15111719 TTACCCAAAT
Statistics
Matches: 158, Mismatches: 31, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
49 1 0.01
50 128 0.81
51 28 0.18
52 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:15114423 original size:16 final size:16
Alignment explanation
Indices: 15114401--15114437 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15114391 TTTCAATTTT
15114401 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
15114418 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
15114433 TAATA
1 TAATA
15114438 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:15114522 original size:15 final size:16
Alignment explanation
Indices: 15114477--15114524 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
15114467 TATTAGTATT
15114477 TTAATAATAAATATTAA
1 TTAATAATAAATA-TAA
*
15114494 TTACAATTATAAATAT-A
1 TT--AATAATAAATATAA
15114511 TTAATAATAAATAT
1 TTAATAATAAATAT
15114525 TTTGTAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 11 0.41
17 5 0.19
18 1 0.04
19 10 0.37
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAATAATAAATATAA
Found at i:15114642 original size:30 final size:29
Alignment explanation
Indices: 15114582--15114643 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
15114572 CAAATTTTTG
* *
15114582 AATTTAGTCCCTATACTTTTATTTTCAAA
1 AATTTAGTCCATATACTTTTAATTTCAAA
*
15114611 AATTTAGTCCATCTACTTTTTAGATTT-AAA
1 AATTTAGTCCATATAC-TTTTA-ATTTCAAA
15114641 AAT
1 AAT
15114644 AAAGTCCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 14 0.50
30 11 0.39
31 3 0.11
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.47
Consensus pattern (29 bp):
AATTTAGTCCATATACTTTTAATTTCAAA
Found at i:15122862 original size:3 final size:3
Alignment explanation
Indices: 15122854--15122884 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15122844 ACAATTAAGC
15122854 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
15122885 GCAGTCAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:15123087 original size:9 final size:9
Alignment explanation
Indices: 15123059--15123148 Score: 60
Period size: 10 Copynumber: 9.7 Consensus size: 9
15123049 CTACTCTTAT
15123059 TAAAAATTA
1 TAAAAATTA
*
15123068 GAAAAATATTA
1 -TAAAA-ATTA
15123079 TAAAAATTA
1 TAAAAATTA
* *
15123088 -ATAAATTT
1 TAAAAATTA
15123096 TAGAAAATTAA
1 TA-AAAATT-A
*
15123107 TAAATATTAA
1 TAAAAATT-A
15123117 TAAAAA-TA
1 TAAAAATTA
*
15123125 TAAAAAAT-
1 TAAAAATTA
15123133 TAAAAATTA
1 TAAAAATTA
15123142 TTAAAAA
1 -TAAAAA
15123149 AGGAATTTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
8 20 0.31
9 7 0.11
10 31 0.48
11 6 0.09
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:15123093 original size:28 final size:27
Alignment explanation
Indices: 15123057--15123120 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
15123047 CCCTACTCTT
*
15123057 ATTAA-AAA-TTAGAAAAATATTATAAAA
1 ATTAATAAATTTAG-AAAAT-TAATAAAA
*
15123084 ATTAATAAATTTTAGAAAATTAATAAAT
1 ATTAATAAA-TTTAGAAAATTAATAAAA
15123112 ATTAATAAA
1 ATTAATAAA
15123121 AATATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 5 0.16
28 18 0.56
29 5 0.16
30 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (27 bp):
ATTAATAAATTTAGAAAATTAATAAAA
Found at i:15123127 original size:18 final size:18
Alignment explanation
Indices: 15123071--15123128 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
15123061 AAAATTAGAA
15123071 AAATATTATAAAAATTAAT
1 AAATATTATAAAAA-TAAT
* * *
15123090 AAATTTTAGAAAATTAAT
1 AAATATTATAAAAATAAT
15123108 AAATATTAATAAAAAT-AT
1 AAATATT-ATAAAAATAAT
15123126 AAA
1 AAA
15123129 AAATTAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAATATTATAAAAATAAT
Found at i:15123146 original size:18 final size:18
Alignment explanation
Indices: 15123055--15123149 Score: 66
Period size: 18 Copynumber: 5.6 Consensus size: 18
15123045 ATCCCTACTC
15123055 TTATT-AAAAATTAGAAAA
1 TTATTAAAAAATTA-AAAA
*
15123073 ATATTATAAAAATTAATAAA
1 TTATTA-AAAAATTAA-AAA
*
15123093 TT-TTAGAAAATTAATAAA
1 TTATTAAAAAATTAA-AAA
15123111 -TATT----AA-TAAAAA
1 TTATTAAAAAATTAAAAA
15123123 -TA-TAAAAAATTAAAAA
1 TTATTAAAAAATTAAAAA
15123139 TTATTAAAAAA
1 TTATTAAAAAA
15123150 GGAATTTTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 22
0.72 0.03 0.25
Matches are distributed among these distances:
11 1 0.02
12 5 0.08
13 3 0.05
14 2 0.03
15 2 0.03
16 6 0.10
17 3 0.05
18 25 0.40
19 4 0.06
20 12 0.19
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
TTATTAAAAAATTAAAAA
Found at i:15123193 original size:9 final size:9
Alignment explanation
Indices: 15123159--15123212 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
15123149 AGGAATTTTT
15123159 TTATAAAAA
1 TTATAAAAA
**
15123168 TCGTAAAAA
1 TTATAAAAA
* *
15123177 ATAAAAAAA
1 TTATAAAAA
*
15123186 TTATAAAATT
1 TTATAAAA-A
15123196 TTATAAAAA
1 TTATAAAAA
15123205 TTATAAAA
1 TTATAAAA
15123213 TAAATTAAGG
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
9 26 0.76
10 8 0.24
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:15123439 original size:10 final size:9
Alignment explanation
Indices: 15123426--15123503 Score: 54
Period size: 10 Copynumber: 8.6 Consensus size: 9
15123416 CTTTATAAAA
15123426 ATTTATATAT
1 ATTT-TATAT
15123436 ATTTT-TAT
1 ATTTTATAT
15123444 ATTTCTATAT
1 ATTT-TATAT
15123454 ATTTTATA-
1 ATTTTATAT
* *
15123462 ATTTTTTAC
1 ATTTTATAT
*
15123471 ATTTTTATAAA
1 A-TTTTAT-AT
*
15123482 ATTTTACA-
1 ATTTTATAT
*
15123490 ATTTTTTAT
1 ATTTTATAT
15123499 ATTTT
1 ATTTT
15123504 TTACAATTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
8 20 0.36
9 13 0.23
10 21 0.38
11 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTATAT
Found at i:15123452 original size:18 final size:17
Alignment explanation
Indices: 15123426--15123479 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
15123416 CTTTATAAAA
15123426 ATTTATATATATTTTTAT
1 ATTT-TATATATTTTTAT
15123444 ATTTCTATATA-TTTTAT
1 ATTT-TATATATTTTTAT
* *
15123461 AATTTTTTACATTTTTAT
1 -ATTTTATATATTTTTAT
15123479 A
1 A
15123480 AAATTTTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 11 0.35
18 20 0.65
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTATATATTTTTAT
Found at i:15123480 original size:18 final size:19
Alignment explanation
Indices: 15123455--15123514 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
15123445 TTTCTATATA
15123455 TTTTATAATTTTTTAC-AT
1 TTTTATAATTTTTTACAAT
**
15123473 TTTTATAAAATTTTACAAT
1 TTTTATAATTTTTTACAAT
15123492 TTTT-TATATTTTTTACAAT
1 TTTTATA-ATTTTTTACAAT
15123511 TTTT
1 TTTT
15123515 TTCTAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 16 0.44
19 20 0.56
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTTACAAT
Found at i:15123486 original size:28 final size:28
Alignment explanation
Indices: 15123417--15123513 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
15123407 TTCTTACGAC
*
15123417 TTTATAAAAATTTATATATATTTTTATATT
1 TTTATAAAATTTTATA-AT-TTTTTATATT
* * *
15123447 TCTAT-ATATTTTATAATTTTTTACATT
1 TTTATAAAATTTTATAATTTTTTATATT
*
15123474 TTTATAAAATTTTACAATTTTTTATATT
1 TTTATAAAATTTTATAATTTTTTATATT
*
15123502 TTT-TACAATTTT
1 TTTATAAAATTTT
15123514 TTTCTAATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 21 0.37
28 24 0.42
29 8 0.14
30 4 0.07
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTATAAAATTTTATAATTTTTTATATT
Found at i:15123515 original size:19 final size:20
Alignment explanation
Indices: 15123455--15123525 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 20
15123445 TTTCTATATA
15123455 TTTTATAATTTTTTAC-A-T
1 TTTTATAATTTTTTACAATT
**
15123473 TTTTATAAAATTTTACAATT
1 TTTTATAATTTTTTACAATT
15123493 TTTTAT-ATTTTTTACAATTT
1 TTTTATAATTTTTTACAA-TT
*
15123513 TTTTCTAATTTTT
1 TTTTATAATTTTT
15123526 AATATTTGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
18 14 0.32
19 10 0.23
20 14 0.32
21 6 0.14
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTATAATTTTTTACAATT
Found at i:15123532 original size:20 final size:20
Alignment explanation
Indices: 15123455--15123526 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
15123445 TTTCTATATA
15123455 TTTTATAATTTTTTAC-ATTT
1 TTTTATAA-TTTTTACAATTT
* *
15123475 TTATA-AAATTTTACAA-TT
1 TTTTATAATTTTTACAATTT
*
15123493 TTTTATATTTTTTACAATTT
1 TTTTATAATTTTTACAATTT
*
15123513 TTTTCTAATTTTTA
1 TTTTATAATTTTTA
15123527 ATATTTGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 12 0.29
19 12 0.29
20 18 0.43
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATAATTTTTACAATTT
Found at i:15125061 original size:22 final size:23
Alignment explanation
Indices: 15125036--15125087 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 23
15125026 AATAACATTC
15125036 TTAAT-ATAATTATTA-ATAATAT
1 TTAATAATAATT-TTAGATAATAT
15125058 TTAATAATAATTTTAGTATAATAT
1 TTAATAATAATTTTAG-ATAATAT
15125082 TATAAT
1 T-TAAT
15125088 TAAGAACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 8 0.31
23 6 0.23
24 8 0.31
25 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATAATAATTTTAGATAATAT
Found at i:15125759 original size:16 final size:14
Alignment explanation
Indices: 15125728--15125755 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15125718 GCAAGTCAAG
15125728 TTAAACAAAAATAT
1 TTAAACAAAAATAT
15125742 TTAAACAAAAATAT
1 TTAAACAAAAATAT
15125756 ATTTTCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
TTAAACAAAAATAT
Found at i:15128623 original size:33 final size:33
Alignment explanation
Indices: 15128586--15128650 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
15128576 TAACTTCTTG
15128586 ATATCCTTCCATGAAACTCTTAAGAGCATCTCT
1 ATATCCTTCCATGAAACTCTTAAGAGCATCTCT
*
15128619 ATATCCTTCTATGAAACTCTTAAGAGCATCTC
1 ATATCCTTCCATGAAACTCTTAAGAGCATCTC
15128651 CATGATCTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (33 bp):
ATATCCTTCCATGAAACTCTTAAGAGCATCTCT
Found at i:15131726 original size:21 final size:22
Alignment explanation
Indices: 15131702--15131749 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
15131692 GACTCAATGT
* *
15131702 TTATTTA-TTATATTAATTTGA
1 TTATTTATTTATAATAATTTAA
15131723 TTA-TTATTTATAATAATTTAA
1 TTATTTATTTATAATAATTTAA
15131744 TT-TTTA
1 TTATTTA
15131750 ATATTTACGC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTATTTATTTATAATAATTTAA
Found at i:15131855 original size:21 final size:21
Alignment explanation
Indices: 15131829--15131881 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
15131819 AGCGGTGGCG
* * *
15131829 GTGAGATTAGTTATTGTAGTA
1 GTGAGATTAGATACTGTAGCA
* *
15131850 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
15131871 GTGAGATTAGA
1 GTGAGATTAGA
15131882 AACAGCGGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.34, T:0.34
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:15153370 original size:25 final size:25
Alignment explanation
Indices: 15153342--15153490 Score: 101
Period size: 25 Copynumber: 6.0 Consensus size: 25
15153332 CTATTATTTA
*
15153342 GCTCTTATGAGCATCCCGTTATATG
1 GCTCTTATGAGCTTCCCGTTATATG
* *
15153367 GCTCTCACGAGCTT--C-TTAATAACTG
1 GCTCTTATGAGCTTCCCGTT-AT-A-TG
*
15153392 GCTCTTATGAGCTTCCCGATAT-TG
1 GCTCTTATGAGCTTCCCGTTATATG
** * * *
15153416 GCTCGCATGAGCTTCTCGAT-TACG
1 GCTCTTATGAGCTTCCCGTTATATG
* *
15153440 ACTCTTATGAGCTTCCCTTTATATG
1 GCTCTTATGAGCTTCCCGTTATATG
** *
15153465 GCTCGAAAGAGCTTCCCGTTTATATG
1 GCTCTTATGAGCTTCCCG-TTATATG
15153491 TTTGTATAAA
Statistics
Matches: 93, Mismatches: 22, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
22 2 0.02
23 4 0.04
24 35 0.38
25 41 0.44
26 7 0.08
27 3 0.03
28 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCCGTTATATG
Found at i:15153467 original size:49 final size:50
Alignment explanation
Indices: 15153343--15153479 Score: 161
Period size: 49 Copynumber: 2.8 Consensus size: 50
15153333 TATTATTTAG
* * * * *
15153343 CTCTTATGAGCATCCCGTTATATGGCTCTCACGAGCTTCTTAATAACTGG
1 CTCTTATGAGCTTCCCGTTATATGGCTCGCAAGAGCTTCTCAATAACTGA
* * * *
15153393 CTCTTATGAGCTTCCCGATAT-TGGCTCGCATGAGCTTCTCGATTAC-GA
1 CTCTTATGAGCTTCCCGTTATATGGCTCGCAAGAGCTTCTCAATAACTGA
* *
15153441 CTCTTATGAGCTTCCCTTTATATGGCTCGAAAGAGCTTC
1 CTCTTATGAGCTTCCCGTTATATGGCTCGCAAGAGCTTC
15153480 CCGTTTATAT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
48 20 0.27
49 35 0.47
50 19 0.26
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.34
Consensus pattern (50 bp):
CTCTTATGAGCTTCCCGTTATATGGCTCGCAAGAGCTTCTCAATAACTGA
Found at i:15154358 original size:71 final size:73
Alignment explanation
Indices: 15154283--15154439 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 73
15154273 TATATGATGA
*
15154283 TATGTTA-TGCATA-AAA-CTCAATTTTTGCTTGAATTGAATGTATTGTTGTGACTTGTGAATGT
1 TATGTTAGTG-ATACAAATCTCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGTGAATGT
15154345 GCAAATTGT
65 GCAAATTGT
*
15154354 TATGTTTAGGTTGATACCAAATTTGGTCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGT
1 TATG-TTA-G-TGATA-CAAA--T-CTCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGT
15154419 GAATGTGCAAATTGT
59 GAATGTGCAAATTGT
15154434 TATGTT
1 TATGTT
15154440 TAGGTTGATA
Statistics
Matches: 74, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
71 4 0.05
72 3 0.04
74 3 0.04
75 2 0.03
76 3 0.04
79 2 0.03
80 57 0.77
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.45
Consensus pattern (73 bp):
TATGTTAGTGATACAAATCTCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGTGAATGTG
CAAATTGT
Found at i:15154387 original size:80 final size:80
Alignment explanation
Indices: 15154300--15154459 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
15154290 TGCATAAAAC
*
15154300 TCAATTTTTGCTTGAATTGAATGTATTGTTGTGACTTGTGAATGTGCAAATTGTTATGTTTAGGT
1 TCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGTGAATGTGCAAATTGTTATGTTTAGGT
15154365 TGATACCAAATTTGG
66 TGATACCAAATTTGG
15154380 TCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGTGAATGTGCAAATTGTTATGTTTAGGT
1 TCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGTGAATGTGCAAATTGTTATGTTTAGGT
15154445 TGATACCAAATTTGG
66 TGATACCAAATTTGG
15154460 GTGAGAAATA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.44
Consensus pattern (80 bp):
TCAATTTTTGCTTGAATTGAAGGTATTGTTGTGACTTGTGAATGTGCAAATTGTTATGTTTAGGT
TGATACCAAATTTGG
Found at i:15155348 original size:11 final size:11
Alignment explanation
Indices: 15155334--15155370 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
15155324 TTATTATGAT
*
15155334 TAAATTATTTA
1 TAAAATATTTA
15155345 TAAAATATTTA
1 TAAAATATTTA
15155356 TAAAATATTTCA
1 TAAAATATTT-A
15155368 TAA
1 TAA
15155371 TTAAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (11 bp):
TAAAATATTTA
Found at i:15155963 original size:27 final size:27
Alignment explanation
Indices: 15155940--15155993 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
15155930 AACGGGCCAG
*
15155940 GCCTCGGGTACCACTTTTTTGGGCCGA
1 GCCTCGGGCACCACTTTTTTGGGCCGA
*
15155967 GCCTCGGGCACCACTTTTTTGGCCCGA
1 GCCTCGGGCACCACTTTTTTGGGCCGA
15155994 TCCCTGCCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.11, C:0.33, G:0.28, T:0.28
Consensus pattern (27 bp):
GCCTCGGGCACCACTTTTTTGGGCCGA
Found at i:15156916 original size:54 final size:54
Alignment explanation
Indices: 15156852--15156976 Score: 250
Period size: 54 Copynumber: 2.3 Consensus size: 54
15156842 AATTAGACGA
15156852 GTATAACTCCTTGTGTATAACTCCTTTACTGAAATACCTCATTTTACTTATTAT
1 GTATAACTCCTTGTGTATAACTCCTTTACTGAAATACCTCATTTTACTTATTAT
15156906 GTATAACTCCTTGTGTATAACTCCTTTACTGAAATACCTCATTTTACTTATTAT
1 GTATAACTCCTTGTGTATAACTCCTTTACTGAAATACCTCATTTTACTTATTAT
15156960 GTATAACTCCTTGTGTA
1 GTATAACTCCTTGTGTA
15156977 GTGTAAAATC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (54 bp):
GTATAACTCCTTGTGTATAACTCCTTTACTGAAATACCTCATTTTACTTATTAT
Found at i:15156924 original size:14 final size:14
Alignment explanation
Indices: 15156905--15156931 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15156895 TTACTTATTA
15156905 TGTATAACTCCTTG
1 TGTATAACTCCTTG
15156919 TGTATAACTCCTT
1 TGTATAACTCCTT
15156932 TACTGAAATA
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:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (14 bp):
TGTATAACTCCTTG
Found at i:15158679 original size:19 final size:20
Alignment explanation
Indices: 15158645--15158694 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
15158635 TTTCACATCT
*
15158645 CATTTCATCATTTCATA-TCA
1 CATTTC-TCATCTCATATTCA
15158665 CATTTCTCATCTCATATTCA
1 CATTTCTCATCTCATATTCA
15158685 C--TTCTCATCT
1 CATTTCTCATCT
15158695 TTGCCAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 9 0.32
19 9 0.32
20 10 0.36
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.46
Consensus pattern (20 bp):
CATTTCTCATCTCATATTCA
Found at i:15158718 original size:42 final size:42
Alignment explanation
Indices: 15158666--15158751 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
15158656 TTCATATCAC
* * *
15158666 ATTTCTCATCTCATATTCACTTCTCATCTTTGCCAATTCAAT
1 ATTTCTCATCTAATATGCACTTCTCATCTTGGCCAATTCAAT
* *
15158708 ATTTCTCATCTAATATGCATTTCTCATCTTGGCCATTTCAAT
1 ATTTCTCATCTAATATGCACTTCTCATCTTGGCCAATTCAAT
15158750 AT
1 AT
15158752 CAATCACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.26, G:0.05, T:0.45
Consensus pattern (42 bp):
ATTTCTCATCTAATATGCACTTCTCATCTTGGCCAATTCAAT
Found at i:15161350 original size:5 final size:5
Alignment explanation
Indices: 15161335--15161379 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
15161325 TGTGCGTTAC
15161335 TCTTCT TCTTT TC-TT T-TTT TCTTT TC-TT TCTTT T-TTT TCTTT TCT
1 TCTT-T TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCT
15161380 AATTTTGCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
4 14 0.40
5 17 0.49
6 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:15161354 original size:8 final size:8
Alignment explanation
Indices: 15161337--15161377 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
15161327 TGCGTTACTC
*
15161337 TTCTTCTT
1 TTCTTTTT
15161345 TTCTTTTT
1 TTCTTTTT
15161353 TTCTTTTCT
1 TTCTTTT-T
15161362 TTCTTTTTT
1 TTC-TTTTT
15161371 TTCTTTT
1 TTCTTTT
15161378 CTAATTTTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 18 0.60
9 8 0.27
10 4 0.13
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTCTTTTT
Found at i:15161358 original size:13 final size:13
Alignment explanation
Indices: 15161340--15161377 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
15161330 GTTACTCTTC
15161340 TTCTTTTCTTTTT
1 TTCTTTTCTTTTT
15161353 TTCTTTTCTTTCTT
1 TTCTTTTCTTT-TT
15161367 TT-TTTTCTTTT
1 TTCTTTTCTTTT
15161378 CTAATTTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 19 0.79
14 4 0.17
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTCTTTTCTTTTT
Found at i:15161363 original size:18 final size:19
Alignment explanation
Indices: 15161335--15161379 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
15161325 TGTGCGTTAC
15161335 TCTTCTTCTTTTC-TTTTTT
1 TCTT-TTCTTTTCTTTTTTT
15161354 TCTTTTC-TTTCTTTTTTT
1 TCTTTTCTTTTCTTTTTTT
15161372 TCTTTTCT
1 TCTTTTCT
15161380 AATTTTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 16 0.67
19 4 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TCTTTTCTTTTCTTTTTTT
Found at i:15161366 original size:9 final size:9
Alignment explanation
Indices: 15161344--15161379 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
15161334 CTCTTCTTCT
15161344 TTTCTTTT-
1 TTTCTTTTC
15161352 TTTCTTTTC
1 TTTCTTTTC
*
15161361 TTTCTTTTT
1 TTTCTTTTC
15161370 TTTCTTTTC
1 TTTCTTTTC
15161379 T
1 T
15161380 AATTTTGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:15161443 original size:3 final size:3
Alignment explanation
Indices: 15161437--15161468 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15161427 TATATGTTTC
15161437 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
15161469 ACTTTATAAT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:15166743 original size:27 final size:27
Alignment explanation
Indices: 15166709--15166786 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
15166699 AAACCCCAAA
15166709 ATAGGGTAAAAGGACCGAAATACCCCC
1 ATAGGGTAAAAGGACCGAAATACCCCC
* * ** *
15166736 ATTGGGTAAAATGATTGAAATACTCCC
1 ATAGGGTAAAAGGACCGAAATACCCCC
* *
15166763 ATAGAGTAGAATGG-CCGAAATACC
1 ATAGGGTA-AAAGGACCGAAATACC
15166787 TGTTGGAACG
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (27 bp):
ATAGGGTAAAAGGACCGAAATACCCCC
Found at i:15168332 original size:27 final size:27
Alignment explanation
Indices: 15168292--15168460 Score: 200
Period size: 27 Copynumber: 6.3 Consensus size: 27
15168282 ATACTCTAAC
* *
15168292 AATACCCCCCATAGGATAAAATGATTGA
1 AATA-CCCCCATAGGGTAAAATGACTGA
**
15168320 AATACCCCCATAGGGTAAAATGACCAA
1 AATACCCCCATAGGGTAAAATGACTGA
* *
15168347 AATACCCTCATAGGGTAAAATAACTGA
1 AATACCCCCATAGGGTAAAATGACTGA
* *
15168374 ATTA-CCCCATAGGGTAGAATGACTGA
1 AATACCCCCATAGGGTAAAATGACTGA
15168400 AAT-CCCCCATAGGGTAAAATGA-TCGA
1 AATACCCCCATAGGGTAAAATGACT-GA
* *
15168426 AATACCCCCATAGGGTAAAATAACTGT
1 AATACCCCCATAGGGTAAAATGACTGA
*
15168453 TATACCCC
1 AATACCCC
15168461 TAGGAGATGA
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.01
26 43 0.36
27 71 0.59
28 5 0.04
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (27 bp):
AATACCCCCATAGGGTAAAATGACTGA
Found at i:15168396 original size:53 final size:53
Alignment explanation
Indices: 15168292--15168446 Score: 197
Period size: 53 Copynumber: 2.9 Consensus size: 53
15168282 ATACTCTAAC
*
15168292 AATACCCCCCATAGGATAAAATGATTGAAATACCCCCATAGGGTAAAATGACCAA
1 AATA-CCCCCATAGGGTAAAATGA-TGAAATACCCCCATAGGGTAAAATGACCAA
* * * * **
15168347 AATACCCTCATAGGGTAAAATAACTGAATTA-CCCCATAGGGTAGAATGACTGA
1 AATACCCCCATAGGGTAAAATGA-TGAAATACCCCCATAGGGTAAAATGACCAA
15168400 AAT-CCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAAT
1 AATACCCCCATAGGGTAAAATGAT-GAAATACCCCCATAGGGTAAAAT
15168447 AACTGTTATA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
51 1 0.01
52 22 0.26
53 37 0.43
54 22 0.26
55 4 0.05
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (53 bp):
AATACCCCCATAGGGTAAAATGATGAAATACCCCCATAGGGTAAAATGACCAA
Found at i:15168460 original size:79 final size:80
Alignment explanation
Indices: 15168298--15168451 Score: 247
Period size: 79 Copynumber: 1.9 Consensus size: 80
15168288 TAACAATACC
* *
15168298 CCCCATAGGATAAAATGATTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTCATAGGGT
1 CCCCATAGGATAAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGT
15168363 AAAATAACTGAATTA
66 AAAATAACTGAATTA
* * * *
15168378 CCCCATAGGGTAGAATGACTGAAAT-CCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGT
1 CCCCATAGGATAAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGT
15168442 AAAATAACTG
66 AAAATAACTG
15168452 TTATACCCCT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 46 0.68
80 22 0.32
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (80 bp):
CCCCATAGGATAAAATGACTGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAGGGT
AAAATAACTGAATTA
Found at i:15168876 original size:29 final size:31
Alignment explanation
Indices: 15168850--15168908 Score: 86
Period size: 29 Copynumber: 1.9 Consensus size: 31
15168840 ATCTGCATTG
*
15168850 ATTAATGATATT-GTACTGTT-ACTGCATCA
1 ATTAATGATATTAATACTGTTCACTGCATCA
15168879 ATTAATGATATTACATACTGTTCACTGCAT
1 ATTAATGATATTA-ATACTGTTCACTGCAT
15168909 AACTGGTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 12 0.46
31 7 0.27
32 7 0.27
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (31 bp):
ATTAATGATATTAATACTGTTCACTGCATCA
Found at i:15181654 original size:28 final size:28
Alignment explanation
Indices: 15181589--15181655 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
15181579 TTTATCTAAT
15181589 ATTTTTATAAATTTTAATAATATTTTACA
1 ATTTTTA-AAATTTTAATAATATTTTACA
*
15181618 ATTTATAAAATTTATAAT-ATATATTTA-A
1 ATTTTTAAAATTT-TAATAATAT-TTTACA
*
15181646 GTTTTTAAAA
1 ATTTTTAAAA
15181656 AATTAAACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 19 0.58
29 14 0.42
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (28 bp):
ATTTTTAAAATTTTAATAATATTTTACA
Found at i:15181656 original size:29 final size:29
Alignment explanation
Indices: 15181589--15181656 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
15181579 TTTATCTAAT
*
15181589 ATTTTTATAAATTTTAATAATATTTTACA
1 ATTTTTAAAAATTTTAATAATATTTTACA
*
15181618 ATTTAT-AAAATTTATAAT-ATATATTTA-A
1 ATTTTTAAAAATTT-TAATAATAT-TTTACA
*
15181646 GTTTTTAAAAA
1 ATTTTTAAAAA
15181657 ATTAAACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
ATTTTTAAAAATTTTAATAATATTTTACA
Found at i:15182184 original size:102 final size:102
Alignment explanation
Indices: 15181915--15182223 Score: 557
Period size: 102 Copynumber: 3.0 Consensus size: 102
15181905 TTGATTTTTT
*
15181915 AGAAAAAGTTTGAT-GGGCTAAAAGTACCATCAAGCCTAATTCCTAGATTTAAACTTTAAAATAT
1 AGAAAAAG-TTGATGGGGGTAAAAGTACCATCAAGCCTAATTCCTAGATTTAAACTTTAAAATAT
15181979 GTTTTCATTGTAAAAGTTGTACAAGTTTTGGGGAAAAGA
65 GTTTTCATTGTAAAAGTTGTACAAGTTTTGGGG-AAAGA
*
15182018 AGAAAAAGTTGATGGGGGGTAAAAGTACCATCAAGCCTAATTCCTAGATTCAAACTTTAAAATAT
1 AGAAAAAGTTGAT-GGGGGTAAAAGTACCATCAAGCCTAATTCCTAGATTTAAACTTTAAAATAT
15182083 GTTTTCATTGTAAAAGTTGTACAAGTTTTGGGGAAAGA
65 GTTTTCATTGTAAAAGTTGTACAAGTTTTGGGGAAAGA
15182121 AGAAAAAGTTGATGGGGGTAAAAGTACCATCAAGCCTAATTCCTAGATTTAAACTTTAAAATATG
1 AGAAAAAGTTGATGGGGGTAAAAGTACCATCAAGCCTAATTCCTAGATTTAAACTTTAAAATATG
*
15182186 TTTTCCTTGTAAAAGTTGTACAAGTTTTGGGGAAAGA
66 TTTTCATTGTAAAAGTTGTACAAGTTTTGGGGAAAGA
15182223 A
1 A
15182224 AGAAGCTGCA
Statistics
Matches: 200, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
102 93 0.47
103 26 0.13
104 81 0.41
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (102 bp):
AGAAAAAGTTGATGGGGGTAAAAGTACCATCAAGCCTAATTCCTAGATTTAAACTTTAAAATATG
TTTTCATTGTAAAAGTTGTACAAGTTTTGGGGAAAGA
Found at i:15188835 original size:45 final size:45
Alignment explanation
Indices: 15188766--15188863 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 45
15188756 AGTGAAGCCG
*
15188766 AGAGGTAAGCATGTATTGGCCGATTAGTTAGTTAGTTAGAGGCCA
1 AGAGGTAAGCATGTATTGGCCGATTAGTTAATTAGTTAGAGGCCA
15188811 AGAGGTAAGCATGTATT-GCTCGATTAGTTAATTAGTTAGAGGCCA
1 AGAGGTAAGCATGTATTGGC-CGATTAGTTAATTAGTTAGAGGCCA
15188856 AGAGGTAA
1 AGAGGTAA
15188864 TAATTAGTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 2 0.04
45 49 0.96
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (45 bp):
AGAGGTAAGCATGTATTGGCCGATTAGTTAATTAGTTAGAGGCCA
Found at i:15189004 original size:17 final size:16
Alignment explanation
Indices: 15188980--15189014 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15188970 GTTAAATTGG
* *
15188980 TTAATTTTTAGTTTAA
1 TTAAATTTTAGGTTAA
15188996 TTAAATTTTAGGTTAA
1 TTAAATTTTAGGTTAA
15189012 TTA
1 TTA
15189015 GATTAATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (16 bp):
TTAAATTTTAGGTTAA
Found at i:15189367 original size:6 final size:6
Alignment explanation
Indices: 15189356--15189385 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
15189346 CAAGGCTAAA
*
15189356 AAAAGG AAAAGG AAAAGG AAAGGG AAAAGG
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG
15189386 TAGATGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:15190097 original size:28 final size:30
Alignment explanation
Indices: 15190048--15190109 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
15190038 GAAAAGTCAC
*
15190048 TTTTGAAAATGTTTAGCTTTTATTT-AACA
1 TTTTGAAAATGTTTAGATTTTATTTGAACA
*
15190077 TTTTG-AAATGTTT-GATATTTATTTGAACG
1 TTTTGAAAATGTTTAGAT-TTTATTTGAACA
15190106 TTTT
1 TTTT
15190110 TCTAAATGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 2 0.07
28 15 0.52
29 12 0.41
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (30 bp):
TTTTGAAAATGTTTAGATTTTATTTGAACA
Found at i:15201646 original size:75 final size:75
Alignment explanation
Indices: 15201523--15201726 Score: 219
Period size: 75 Copynumber: 2.7 Consensus size: 75
15201513 ATATTCGAGT
* * * * ** ** *
15201523 CTCATACACACTTATATAAAAGTCATACCTAAATTTAACGCAAGAACATATTTAAATATATTTAT
1 CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAAGAACATATACAAATATATTTAC
**
15201588 ATTTCTGAAC
66 ATTTCCAAAC
* * *
15201598 CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAATAACATATACAATTATATTTGC
1 CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAAGAACATATACAAATATATTTAC
*
15201663 ATTTCCAAAG
66 ATTTCCAAAC
* * * * * *
15201673 TTCATATAAGCTTACATAAAAATCATACCCAAACTCAATACAAGAACATATACA
1 CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAAGAACATATACA
15201727 TGTAAATATA
Statistics
Matches: 107, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 107 1.00
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.30
Consensus pattern (75 bp):
CTCATATAAACTTATATAAAAGTCATACCTAAACTCAAAACAAGAACATATACAAATATATTTAC
ATTTCCAAAC
Found at i:15208164 original size:50 final size:50
Alignment explanation
Indices: 15208059--15208170 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 50
15208049 GAAACCAAAC
* * * *
15208059 AAGCCTTTGTGGTTAGTTATCCAAAAATCCTATGTGACATATTATCTGGG
1 AAGCCTTTGTGGGTAATTATCCAAAAATACTATGTGACATATTATCTCGG
* ** * *
15208109 TAGCCTTTGTGGGTAATTATCTGAAAATACTATGTGGCATATTATTTCGG
1 AAGCCTTTGTGGGTAATTATCCAAAAATACTATGTGACATATTATCTCGG
*
15208159 AAGCCTTAGTGG
1 AAGCCTTTGTGG
15208171 CAAAGTTATC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (50 bp):
AAGCCTTTGTGGGTAATTATCCAAAAATACTATGTGACATATTATCTCGG
Found at i:15212768 original size:43 final size:43
Alignment explanation
Indices: 15212707--15212844 Score: 138
Period size: 43 Copynumber: 3.3 Consensus size: 43
15212697 TCTGATTTCA
* *
15212707 TGTAAGACCATGTATGGGAAATTGGAATCGATATGAGATTACG
1 TGTAAGACCATGTCTGGGAAATTGGCATCGATATGAGATTACG
* *
15212750 TGTAAGACCATGTCTGGGATATTGGCACCG-TAT-ATGATT-CG
1 TGTAAGACCATGTCTGGGAAATTGGCATCGATATGA-GATTACG
* * * ** * * *
15212791 TGTAAGACCCTATCTGGGACAGAGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGAAATTGGCATCGATATGAGATTACG
15212834 TGTAAGACCAT
1 TGTAAGACCAT
15212845 ATATGGGATA
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
41 27 0.35
42 13 0.17
43 37 0.48
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGAAATTGGCATCGATATGAGATTACG
Found at i:15216856 original size:29 final size:29
Alignment explanation
Indices: 15216793--15216860 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
15216783 TAATCAACCA
15216793 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
15216822 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
15216851 CGCACACTTA
1 CGCACACTTA
15216861 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:15224970 original size:29 final size:29
Alignment explanation
Indices: 15224907--15224974 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
15224897 TAATCAACCA
15224907 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
15224936 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
15224965 CGCACACTTA
1 CGCACACTTA
15224975 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:15225115 original size:29 final size:30
Alignment explanation
Indices: 15225076--15225154 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
15225066 CTTAATAATC
15225076 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
15225106 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
15225135 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
15225155 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:15225145 original size:174 final size:173
Alignment explanation
Indices: 15224797--15225148 Score: 528
Period size: 174 Copynumber: 2.0 Consensus size: 173
15224787 AACTCAAGGT
* *
15224797 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
15224862 TAGAAATATATATGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAGAAATATATATGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
* ***
15224927 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
15224970 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
15225035 GA-AAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
66 GAGAAATATATA-TGGGTT-GCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATG
* * **
15225099 TACTTTAAACTCGCACACTTAGTGCTGTACAATTT-AAACCCGCAC
129 CACTTTAAACTCACACACTTAGTGCCATAC-ATTTCAAACCCGCAC
15225144 ACTTA
1 ACTTA
15225149 GTGCCAATCT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
172 9 0.06
173 70 0.43
174 78 0.48
175 4 0.02
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAGAAATATATATGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
Found at i:15229605 original size:23 final size:23
Alignment explanation
Indices: 15229570--15229614 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15229560 TGGAGTATAA
* *
15229570 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
15229593 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
15229615 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:15229661 original size:2 final size:2
Alignment explanation
Indices: 15229656--15229686 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15229646 GGTATATATA
15229656 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
15229687 ACTTAAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:15230263 original size:41 final size:41
Alignment explanation
Indices: 15230204--15230386 Score: 242
Period size: 42 Copynumber: 4.4 Consensus size: 41
15230194 CAGTGCCTAT
* * * *
15230204 CAGGTTTATTGCCAGTGAAACATTTCAAACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACATTTCAGACTTTACGTCTAG
* *
15230245 CAGGCTTAATGCCGGTGAAATAATTTCAGACTTTATGTCTAG
1 CAGGCTTAATGCCGGTGAAA-CATTTCAGACTTTACGTCTAG
* *
15230287 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACATCTAG
1 CAGGCTTAATGCCGGTGAAAC-ATTTCAGACTTTACGTCTAG
* *
15230329 CAGGCTTAATGCCGGTGAAACATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACATTTCAGACTTTACGTCTAG
15230370 CAGGC-TAAGTGCCGGTG
1 CAGGCTTAA-TGCCGGTG
15230387 TACTAAATCA
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 3 0.02
41 46 0.37
42 76 0.61
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (41 bp):
CAGGCTTAATGCCGGTGAAACATTTCAGACTTTACGTCTAG
Found at i:15230278 original size:42 final size:42
Alignment explanation
Indices: 15230225--15230429 Score: 231
Period size: 42 Copynumber: 4.9 Consensus size: 42
15230215 CCAGTGAAAC
*
15230225 ATTTCAAACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATA
1 ATTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATA
* *
15230267 ATTTCAGACTTTATGTCTAGCAGGCTTAATGCCGGTGAAACA
1 ATTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATA
* * *
15230309 ATATCAGACTTTACATCTAGCAGGCTTAATGCCGGTGAAA-C
1 ATTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATA
* * * *
15230350 ATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTGTACTA
1 ATTTCAGACTTTACGTCTAGCAGGCTTAA-TGCCGGTGAAATA
* * *
15230392 A-ATCA-AGCTTTAAGTCTAGCAGGC-TAAGTGCCAGTGAA
1 ATTTCAGA-CTTTACGTCTAGCAGGCTTAA-TGCCGGTGAA
15230430 TCTGTTTAAA
Statistics
Matches: 141, Mismatches: 19, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
40 4 0.03
41 60 0.43
42 77 0.55
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (42 bp):
ATTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATA
Found at i:15230372 original size:83 final size:83
Alignment explanation
Indices: 15230204--15230429 Score: 264
Period size: 83 Copynumber: 2.7 Consensus size: 83
15230194 CAGTGCCTAT
* * * * *
15230204 CAGGTTTATTGCCAGTGAAACATTTCAAACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAAT
1 CAGGCTTAATGCCGGTGAAACATATCAAACTTTACATCTAGCAGGCTTAATGCCGGTGAAATAAT
*
15230269 TTCAGACTTTATGTCTAG
66 TTCAGACTATATGTCTAG
* *
15230287 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACATCTAGCAGGCTTAATGCCGGTGAAA-CA
1 CAGGCTTAATGCCGGTGAAAC-ATATCAAACTTTACATCTAGCAGGCTTAATGCCGGTGAAATAA
15230351 TTTCAGACTATATGTCTAG
65 TTTCAGACTATATGTCTAG
* * * *
15230370 CAGGC-TAAGTGCCGGTG-TACTAAATCAAGCTTTA-AGTCTAGCAGGC-TAAGTGCCAGTGAA
1 CAGGCTTAA-TGCCGGTGAAAC-ATATCAAACTTTACA-TCTAGCAGGCTTAA-TGCCGGTGAA
15230430 TCTGTTTAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
81 4 0.03
82 34 0.27
83 50 0.40
84 37 0.30
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (83 bp):
CAGGCTTAATGCCGGTGAAACATATCAAACTTTACATCTAGCAGGCTTAATGCCGGTGAAATAAT
TTCAGACTATATGTCTAG
Found at i:15237165 original size:12 final size:12
Alignment explanation
Indices: 15237148--15237176 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
15237138 ATGTAAAAGC
15237148 CATTTCATAACT
1 CATTTCATAACT
15237160 CATTTCATAACT
1 CATTTCATAACT
15237172 CATTT
1 CATTT
15237177 ATTTTCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.45
Consensus pattern (12 bp):
CATTTCATAACT
Found at i:15240250 original size:10 final size:10
Alignment explanation
Indices: 15240235--15240296 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
15240225 TTTGAACCAT
*
15240235 TACCAATTCG
1 TACCAATTCA
*
15240245 TACCAAATACCA
1 TACC-AAT-TCA
*
15240257 TACCATTTCA
1 TACCAATTCA
15240267 TACCAATTCCA
1 TACCAATT-CA
* *
15240278 TACCATTTCG
1 TACCAATTCA
15240288 TACCAATTC
1 TACCAATTC
15240297 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:15240280 original size:21 final size:21
Alignment explanation
Indices: 15240235--15240297 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
15240225 TTTGAACCAT
* *
15240235 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
15240257 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
15240278 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
15240298 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:15243884 original size:28 final size:27
Alignment explanation
Indices: 15243815--15243903 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 27
15243805 CCATAGAAAC
* * *
15243815 TAAGTCCGTTGGGACAATAAACACTAGG
1 TAAGTCCG-TAGGACAGTAAACACAAGG
15243843 TAAGTTCAC-TAGGACAGTAAACACAAGG
1 TAAG-TC-CGTAGGACAGTAAACACAAGG
* *
15243871 TAAGTCCGTCAGGATAGTAAACACGA-G
1 TAAGTCCGT-AGGACAGTAAACACAAGG
15243898 TAAGTC
1 TAAGTC
15243904 TACTAGGACA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
26 1 0.02
27 10 0.19
28 38 0.73
29 2 0.04
30 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (27 bp):
TAAGTCCGTAGGACAGTAAACACAAGG
Found at i:15251146 original size:11 final size:11
Alignment explanation
Indices: 15251132--15251170 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
15251122 TTAACATTAA
15251132 AATAATTTATT
1 AATAATTTATT
15251143 AATAATTTATT
1 AATAATTTATT
*
15251154 AATCA-TTATT
1 AATAATTTATT
15251164 ACATAAT
1 A-ATAAT
15251171 AACAAAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (11 bp):
AATAATTTATT
Found at i:15252032 original size:17 final size:18
Alignment explanation
Indices: 15252010--15252043 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
15252000 CAGGTGCGAT
15252010 AAACGCAA-TGCGACCGA
1 AAACGCAACTGCGACCGA
15252027 AAACGCAACTGCGACCG
1 AAACGCAACTGCGACCG
15252044 CAATTGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.38, C:0.32, G:0.24, T:0.06
Consensus pattern (18 bp):
AAACGCAACTGCGACCGA
Found at i:15270158 original size:18 final size:17
Alignment explanation
Indices: 15270135--15270168 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
15270125 TTCAGAAAAT
15270135 TAAATAAATATAATTGTG
1 TAAATAAATAT-ATTGTG
15270153 TAAATAAATATATTGT
1 TAAATAAATATATTGT
15270169 AAAAAAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
TAAATAAATATATTGTG
Found at i:15271429 original size:2 final size:2
Alignment explanation
Indices: 15271422--15271448 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15271412 TAAAAGACAA
15271422 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15271449 AGAATAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15273893 original size:35 final size:33
Alignment explanation
Indices: 15273831--15273915 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 33
15273821 TAAGAAATTG
* *
15273831 AAAAAATATTTAAAAAAAAAAGTTAAAAGTAAGAT-
1 AAAATATATTTAAAAAAAAAAGATAAAA-T-A-ATC
15273866 AAAATATATTTAAAAACAAAAA-ATAAAATAATC
1 AAAATATATTTAAAAA-AAAAAGATAAAATAATC
15273899 AAAATATAATTTAAAAA
1 AAAATAT-ATTTAAAAA
15273916 TATTTTTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 2 0.04
33 8 0.18
34 10 0.22
35 20 0.44
36 5 0.11
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (33 bp):
AAAATATATTTAAAAAAAAAAGATAAAATAATC
Found at i:15274476 original size:19 final size:20
Alignment explanation
Indices: 15274447--15274487 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
15274437 ATCTTAAAAA
15274447 AACTCAATTTTTTCAATT-TT
1 AACTCAA-TTTTTCAATTCTT
15274467 AACT-AATTTTTCAATTCTT
1 AACTCAATTTTTCAATTCTT
15274486 AA
1 AA
15274488 TTTCTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 10 0.50
19 6 0.30
20 4 0.20
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (20 bp):
AACTCAATTTTTCAATTCTT
Found at i:15278296 original size:20 final size:20
Alignment explanation
Indices: 15278273--15278310 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15278263 CCAAGTGGGC
15278273 GTCAACACACCCGTGTGGAG
1 GTCAACACACCCGTGTGGAG
* *
15278293 GTCAACACGCCTGTGTGG
1 GTCAACACACCCGTGTGG
15278311 GAGGAGGCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.29, G:0.32, T:0.18
Consensus pattern (20 bp):
GTCAACACACCCGTGTGGAG
Found at i:15278340 original size:21 final size:21
Alignment explanation
Indices: 15278297--15278353 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
15278287 GTGGAGGTCA
15278297 ACACGCCTGTGTGGGAGGAGGC
1 ACACGCCTGTGT-GGAGGAGGC
*
15278319 ACACGGCC-GTGTGGATGAGGC
1 ACAC-GCCTGTGTGGAGGAGGC
15278340 ACACGCCTGTGTGG
1 ACACGCCTGTGTGG
15278354 GCCAGGGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 8 0.25
23 3 0.09
ACGTcount: A:0.18, C:0.25, G:0.42, T:0.16
Consensus pattern (21 bp):
ACACGCCTGTGTGGAGGAGGC
Found at i:15279495 original size:15 final size:16
Alignment explanation
Indices: 15279465--15279495 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15279455 GAATATATCC
15279465 AAATTTATACCAAAAT
1 AAATTTATACCAAAAT
15279481 AAATTTATA-CAAAAT
1 AAATTTATACCAAAAT
15279496 TATATGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTTATACCAAAAT
Found at i:15283850 original size:25 final size:25
Alignment explanation
Indices: 15283822--15283888 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
15283812 TCTTGTACAT
* * * *
15283822 GTATGATCACACGATCTGTGAATTG
1 GTATGCTCACACGAGCTGTAAATTA
15283847 GTATGCTCACACGAGCTGTAAATTA
1 GTATGCTCACACGAGCTGTAAATTA
15283872 GTATGCTCACACGAGCT
1 GTATGCTCACACGAGCT
15283889 ATGAAAATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATTA
Found at i:15291560 original size:154 final size:154
Alignment explanation
Indices: 15291276--15291561 Score: 401
Period size: 154 Copynumber: 1.9 Consensus size: 154
15291266 GGAGGAATTT
* * * *
15291276 TTAATGAACATAACATACAAAGATGCGTATGAACTGATAGAAAACATGGCAATGAATTCCTGCCA
1 TTAATGAACATAACATACAAAGATGAGTATGAACTGATAAAAAACATGGCAATAAATTCCTACCA
* * * *
15291341 GTAGCCAATTAAACACTATACATATGGCCAAAAACCATCTACGGTAAAAATTGTCCAGGAGGATG
66 ATAGCCAACTAAACACTATACATATGGCCAAAAACCATCTACGGTAAAAATTATCCAGGAAGATG
15291406 ATCGACGGAGCTGAATGATGAGCA
131 ATCGACGGAGCTGAATGATGAGCA
* *** * *
15291430 TTAATGAATATAACATGTGAAGATGAGTATGAACTGATAAAAAACATGGCGATAAATTTCTACCA
1 TTAATGAACATAACATACAAAGATGAGTATGAACTGATAAAAAACATGGCAATAAATTCCTACCA
* * ** *
15291495 ATGGCCGACTAAATTCTATACATATGGCCAAAAACTATCTACGGTAAAAATTATCCAGGAAGATG
66 ATAGCCAACTAAACACTATACATATGGCCAAAAACCATCTACGGTAAAAATTATCCAGGAAGATG
15291560 AT
131 AT
15291562 AGATACGAAC
Statistics
Matches: 113, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
154 113 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (154 bp):
TTAATGAACATAACATACAAAGATGAGTATGAACTGATAAAAAACATGGCAATAAATTCCTACCA
ATAGCCAACTAAACACTATACATATGGCCAAAAACCATCTACGGTAAAAATTATCCAGGAAGATG
ATCGACGGAGCTGAATGATGAGCA
Found at i:15293490 original size:12 final size:12
Alignment explanation
Indices: 15293473--15293502 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15293463 CCTCACACGC
15293473 CCGTGTGCCAAG
1 CCGTGTGCCAAG
*
15293485 CCGTGTGCTAAG
1 CCGTGTGCCAAG
15293497 CCGTGT
1 CCGTGT
15293503 AACTCCTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.30, G:0.33, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAAG
Found at i:15306039 original size:13 final size:13
Alignment explanation
Indices: 15306021--15306046 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15306011 TTTATGGGGG
15306021 ATTAGTGAGTAGA
1 ATTAGTGAGTAGA
15306034 ATTAGTGAGTAGA
1 ATTAGTGAGTAGA
15306047 GGTGTGATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
ATTAGTGAGTAGA
Found at i:15310600 original size:28 final size:28
Alignment explanation
Indices: 15310569--15310629 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
15310559 GTCTTGACAC
* *
15310569 ACTTACCTTGTGTTTACTGTCCCAGTGA
1 ACTTACCTAGTGTTTACTGTCCCAATGA
* *
15310597 ACTTACCTAGTGTTTATTGTCCCAATGG
1 ACTTACCTAGTGTTTACTGTCCCAATGA
15310625 ACTTA
1 ACTTA
15310630 GTCTCTATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.39
Consensus pattern (28 bp):
ACTTACCTAGTGTTTACTGTCCCAATGA
Found at i:15327602 original size:29 final size:29
Alignment explanation
Indices: 15327569--15327627 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
15327559 TATACCAAAG
15327569 TATGATAAATGCTTTGCATGTCTTCTATA
1 TATGATAAATGCTTTGCATGTCTTCTATA
*
15327598 TATGATAAATGTTTTGCATGTCTTCTATA
1 TATGATAAATGCTTTGCATGTCTTCTATA
15327627 T
1 T
15327628 GTCCTTTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (29 bp):
TATGATAAATGCTTTGCATGTCTTCTATA
Found at i:15331207 original size:5 final size:5
Alignment explanation
Indices: 15331197--15331223 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15331187 TAATTCCTAC
15331197 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
15331224 AAACACCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:15338839 original size:24 final size:24
Alignment explanation
Indices: 15338807--15338854 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
15338797 AAGATGGAAG
15338807 TGATAGTGTAGGAGTAGGAGACAT
1 TGATAGTGTAGGAGTAGGAGACAT
15338831 TGATAGTGTAGGAGTAGGAGACAT
1 TGATAGTGTAGGAGTAGGAGACAT
15338855 GATGCCCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.38, T:0.25
Consensus pattern (24 bp):
TGATAGTGTAGGAGTAGGAGACAT
Found at i:15350574 original size:59 final size:60
Alignment explanation
Indices: 15350451--15350563 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 60
15350441 TTTTTTTAAA
* * * *
15350451 TTTTTAGAGTTAGGACTAAATTGACAGATTTTATAAATATTGAGGGCAAAATTTATCGAAT
1 TTTTTAGAATTAGAACTAAAATGACA-ATTTTATAAACATTGAGGGCAAAATTTATCGAAT
* *
15350512 TTTTTAGAATTAGAACTAAAATGAC-ATTTTGTAAACATTGAGGGCTAAATTT
1 TTTTTAGAATTAGAACTAAAATGACAATTTTATAAACATTGAGGGCAAAATTT
15350564 GTTAATTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 24 0.52
61 22 0.48
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (60 bp):
TTTTTAGAATTAGAACTAAAATGACAATTTTATAAACATTGAGGGCAAAATTTATCGAAT
Found at i:15352001 original size:4 final size:4
Alignment explanation
Indices: 15351992--15352019 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
15351982 AAGTTTTATT
15351992 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
15352020 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:15360022 original size:18 final size:17
Alignment explanation
Indices: 15359989--15360027 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
15359979 TTTTATAAAT
15359989 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
15360007 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
15360024 TGTG
1 TGTG
15360028 GAAGGCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:15360288 original size:23 final size:23
Alignment explanation
Indices: 15360253--15360328 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
15360243 AGTATTATTG
* *
15360253 ATCAATGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
15360276 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15360299 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15360322 ATCAGTG
1 ATCAGTG
15360329 TGACACCTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:15361708 original size:26 final size:24
Alignment explanation
Indices: 15361679--15361727 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
15361669 GGCCGAACTC
*
15361679 GGGCTAAGGAATTTTTTCTCGGGCCG
1 GGGCTAA-AAATTTTTTCT-GGGCCG
15361705 GGGCTAAAAATTTTTTCTGGGCC
1 GGGCTAAAAATTTTTTCTGGGCC
15361728 TGACCCGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 10 0.45
26 7 0.32
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.33
Consensus pattern (24 bp):
GGGCTAAAAATTTTTTCTGGGCCG
Found at i:15362315 original size:17 final size:17
Alignment explanation
Indices: 15362293--15362328 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
15362283 AAATCTCAGA
*
15362293 TTTTGATACTCATATCT
1 TTTTGATACCCATATCT
15362310 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
15362327 TT
1 TT
15362329 GACTTTCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:15382646 original size:50 final size:50
Alignment explanation
Indices: 15382579--15382756 Score: 155
Period size: 50 Copynumber: 3.6 Consensus size: 50
15382569 GAGGTTTTAT
* * * ** *
15382579 GTAAGACTATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCAC
* * * *
15382629 GTAAGACCATGTCTGGGACATGGCATAGACACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCAC
* * * * *
15382679 GTAAGACCATATCTGGGATATGGCATTGGCA--GTACAGGA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC-TCCCAC
* * *
15382728 GCAAGACCATGTCTCGGACATGGCTTTGG
1 GTAAGACCATGTCTGGGACATGGCATTGG
15382757 AATGTTATTA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
48 4 0.04
49 34 0.32
50 67 0.64
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCCCAC
Done.