Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 147 of 313
Found at i:46858700 original size:27 final size:29
Alignment explanation
Indices: 46858663--46858748 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 29
46858653 AATGTGGAAG
46858663 GGGGTTGCTAAGTGCTGATTCCT-CCGA-
1 GGGGTTGCTAAGTGCTGATTCCTACCGAT
*
46858690 GGGGTTGCTAAGTGCTGATTCCCCTACCTATT
1 GGGGTTGCTAAGTGCTGATT--CCTACCGA-T
46858722 GGTGGTTGCTAAGTGCTGATTCC-ACCG
1 GG-GGTTGCTAAGTGCTGATTCCTACCG
46858749 TATTTTAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
27 20 0.39
29 3 0.06
30 6 0.12
31 2 0.04
32 2 0.04
33 18 0.35
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.31
Consensus pattern (29 bp):
GGGGTTGCTAAGTGCTGATTCCTACCGAT
Found at i:46858767 original size:103 final size:102
Alignment explanation
Indices: 46858586--46858952 Score: 513
Period size: 103 Copynumber: 3.6 Consensus size: 102
46858576 TTGCATATAA
* * * * *
46858586 AGGGGTTGTTATGTGCTGATTCCCCTATTCATTGGTGGTTTCTAAGTGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
*
46858651 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCTCCG
66 TAAATGT-GAAGGGGGTTGCTAAGTGCTGATTCCCCCG
*
46858689 AGGGGTTGCTAAGTGCTGATTCCCCTAC-CTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
*
46858753 TTAAATGTGAAAGGGGATTGCTAAGTGCTGATTCCCCCG
65 TTAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCCG
* * * *
46858792 AGGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCATCGCATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
* *
46858857 TGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCA
65 TTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
** * * *
46858895 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGG-TGCTAAGTGCGGAATCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACC
46858953 AACAACGGTT
Statistics
Matches: 240, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
101 17 0.07
102 9 0.04
103 175 0.73
104 39 0.16
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
TAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:46858803 original size:27 final size:28
Alignment explanation
Indices: 46858764--46858816 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
46858754 TAAATGTGAA
46858764 AGGGGATTGCTAAGTGCTGATTCCCCCG
1 AGGGGATTGCTAAGTGCTGATTCCCCCG
46858792 AGGGG-TTGCTAAGTGCTGATTCCCC
1 AGGGGATTGCTAAGTGCTGATTCCCC
46858817 GACCCATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.17, C:0.25, G:0.32, T:0.26
Consensus pattern (28 bp):
AGGGGATTGCTAAGTGCTGATTCCCCCG
Found at i:46864985 original size:23 final size:23
Alignment explanation
Indices: 46864955--46865007 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
46864945 GAAGATGGAG
*
46864955 GAAAGAAAAATTAATAGCAAAAT
1 GAAAGAAAAATTAATACCAAAAT
*
46864978 GAAAGAAAAATTAATACCATAAT
1 GAAAGAAAAATTAATACCAAAAT
46865001 GAAAGAA
1 GAAAGAA
46865008 CCCTTCCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.64, C:0.06, G:0.13, T:0.17
Consensus pattern (23 bp):
GAAAGAAAAATTAATACCAAAAT
Found at i:46869853 original size:5 final size:5
Alignment explanation
Indices: 46869843--46869896 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
46869833 TTGTTTCTTT
46869843 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
46869893 TATA
1 TATA
46869897 TAATTAACTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:46873758 original size:46 final size:46
Alignment explanation
Indices: 46873690--46873866 Score: 300
Period size: 46 Copynumber: 3.8 Consensus size: 46
46873680 ACAATGCTAT
*
46873690 AACTCAGTATGGTTTTCTTTACTGAAATACTATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* *
46873736 AACTCAGTATGGTTTTCGTTACTGAAATACCATACCTACTTCTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
*
46873782 AACTCAGTATGGTTTTCTTTACTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* *
46873828 AACTGAATATGGTTTTCTTTACTGAAATACCATACCTAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTAC
46873867 GTTCCACACT
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 122 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
Found at i:46883484 original size:30 final size:31
Alignment explanation
Indices: 46883430--46883489 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
46883420 AAATCTTTTA
*
46883430 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* * *
46883460 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
46883490 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:46904243 original size:21 final size:22
Alignment explanation
Indices: 46904195--46904246 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
46904185 GCCCGGCCCG
46904195 ATTTTTAATAAACACAAAAAAAT
1 ATTTTTAA-AAACACAAAAAAAT
*
46904218 A-TTTTAAAAATA-AAAAAAAT
1 ATTTTTAAAAACACAAAAAAAT
46904238 ATTTTTAAA
1 ATTTTTAAA
46904247 GTATTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 11 0.41
22 6 0.22
23 1 0.04
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
ATTTTTAAAAACACAAAAAAAT
Found at i:46914054 original size:3 final size:3
Alignment explanation
Indices: 46914046--46914086 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
46914036 AATTCATCTT
46914046 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
46914087 CGTTTTCGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46928431 original size:15 final size:15
Alignment explanation
Indices: 46928413--46928451 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
46928403 CCTCCGTTGG
46928413 CTTCTCGGCAGGCTT
1 CTTCTCGGCAGGCTT
* *
46928428 CTTCTCAGCGGGCTT
1 CTTCTCGGCAGGCTT
*
46928443 TTTCTCGGC
1 CTTCTCGGC
46928452 TTTCGGCGCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.05, C:0.33, G:0.26, T:0.36
Consensus pattern (15 bp):
CTTCTCGGCAGGCTT
Found at i:46929036 original size:15 final size:17
Alignment explanation
Indices: 46929011--46929048 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
46929001 TGATAATTTG
46929011 ATTTT-AAATT-A-ATT
1 ATTTTAAAATTAATATT
46929025 ATTTTAAAATTAATATT
1 ATTTTAAAATTAATATT
46929042 ATTTTAA
1 ATTTTAA
46929049 TAGTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 5 0.24
16 1 0.05
17 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTAAAATTAATATT
Found at i:46929048 original size:26 final size:25
Alignment explanation
Indices: 46929013--46929079 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
46929003 ATAATTTGAT
*
46929013 TTTAAATTAATTATTTTAAAATT-AA
1 TTTAATTTAA-TATTTTAAAATTAAA
* *
46929038 TATTATTTTAATAGTTTTAATATTAAA
1 T-TTAATTTAATA-TTTTAAAATTAAA
46929065 TTTAATTTAATATTT
1 TTTAATTTAATATTT
46929080 ATTTTGATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 6 0.17
26 26 0.74
27 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (25 bp):
TTTAATTTAATATTTTAAAATTAAA
Found at i:46929139 original size:17 final size:17
Alignment explanation
Indices: 46929053--46929145 Score: 79
Period size: 17 Copynumber: 5.6 Consensus size: 17
46929043 TTTTAATAGT
*
46929053 TTTAATATTAAATTTAA
1 TTTAATATTTAATTTAA
* *
46929070 TTTAATATTTATTTTGA
1 TTTAATATTTAATTTAA
* *
46929087 --TAGTATTTTA-TTAA
1 TTTAATATTTAATTTAA
*
46929101 TTTAATAAATTAA-TT-A
1 TTTAAT-ATTTAATTTAA
46929117 TCTTAATATTTAATTTAA
1 T-TTAATATTTAATTTAA
46929135 TTTAATATTTA
1 TTTAATATTTA
46929146 TCTTGATAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
14 3 0.05
15 7 0.12
16 10 0.17
17 37 0.63
18 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (17 bp):
TTTAATATTTAATTTAA
Found at i:46929821 original size:22 final size:22
Alignment explanation
Indices: 46929772--46929837 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
46929762 TACACAGCAC
*
46929772 CAAAGAGCATCGAA-TGCTAAA
1 CAAAGAGCATCTAAGTGCTAAA
*
46929793 CAAAGAGCATCTAAGTGCTAAG
1 CAAAGAGCATCTAAGTGCTAAA
* *
46929815 CATAGAGCA-CTGAAGTGTTAAA
1 CAAAGAGCATCT-AAGTGCTAAA
46929837 C
1 C
46929838 TCATACAAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
21 15 0.39
22 23 0.61
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.18
Consensus pattern (22 bp):
CAAAGAGCATCTAAGTGCTAAA
Found at i:46931766 original size:28 final size:29
Alignment explanation
Indices: 46931734--46931807 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
46931724 AACAATGATA
* *
46931734 AAAAACATATAAAATATATTAATATATTT
1 AAAAACATATAAAATATATTAATAAATAT
* *
46931763 AAAAA-A-AGTATAATATATTAGTAAATAT
1 AAAAACATA-TAAAATATATTAATAAATAT
*
46931791 AAAAACATAGAAAATAT
1 AAAAACATATAAAATAT
46931808 TTATAATAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
27 1 0.03
28 22 0.61
29 12 0.33
30 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (29 bp):
AAAAACATATAAAATATATTAATAAATAT
Found at i:46932068 original size:15 final size:16
Alignment explanation
Indices: 46932041--46932074 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
46932031 ATACGCGCAC
46932041 ATATATACATATAATA
1 ATATATACATATAATA
46932057 ATATAT-CATATAATA
1 ATATATACATATAATA
46932072 ATA
1 ATA
46932075 AACTAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATATACATATAATA
Found at i:46937175 original size:16 final size:18
Alignment explanation
Indices: 46937154--46937187 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46937144 TTAAACACAC
46937154 AATTAA-AC-AAATTCAT
1 AATTAACACTAAATTCAT
46937170 AATTAACACTAAATTCAT
1 AATTAACACTAAATTCAT
46937188 TCTATTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTAACACTAAATTCAT
Found at i:46939065 original size:29 final size:29
Alignment explanation
Indices: 46939033--46939088 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
46939023 AAATAAAATC
*
46939033 TTAAAATTAAATAATCCTTA-ATAATTATA
1 TTAAAATT-AATAATCCTAATATAATTATA
* *
46939062 TTAATATTAATTATCCTAATATAATTA
1 TTAAAATTAATAATCCTAATATAATTA
46939089 AAATAGAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (29 bp):
TTAAAATTAATAATCCTAATATAATTATA
Found at i:46939681 original size:16 final size:16
Alignment explanation
Indices: 46939662--46939713 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 16
46939652 TCTTTTTCTT
46939662 TTTTTTTATTTATTTA
1 TTTTTTTATTTATTTA
46939678 TTTTGATTTATATTTATTTA
1 -TTT--TTT-TATTTATTTA
*
46939698 TTTTTATATTT-TTTA
1 TTTTTTTATTTATTTA
46939713 T
1 T
46939714 GCTTTAGGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 5 0.16
16 5 0.16
17 5 0.16
19 6 0.19
20 10 0.32
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTTTATTTATTTA
Found at i:46939703 original size:10 final size:10
Alignment explanation
Indices: 46939670--46939713 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
46939660 TTTTTTTTTA
46939670 TTTATTTATT
1 TTTATTTATT
* *
46939680 TTGATTTATA
1 TTTATTTATT
46939690 TTTATTTATT
1 TTTATTTATT
*
46939700 TTTATAT-TT
1 TTTATTTATT
46939709 TTTAT
1 TTTAT
46939714 GCTTTAGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (10 bp):
TTTATTTATT
Found at i:46940765 original size:4 final size:4
Alignment explanation
Indices: 46940731--46940792 Score: 51
Period size: 4 Copynumber: 15.5 Consensus size: 4
46940721 CCAAATAAGT
*
46940731 AATA AAT- AATAA AATAA AATA AAGT- AATA AATA AAGTA AA-G AATA
1 AATA AATA AAT-A AAT-A AATA AA-TA AATA AATA AA-TA AATA AATA
46940776 AATA AATA AAT- AATA AA
1 AATA AATA AATA AATA AA
46940793 AATTGGGTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
3 9 0.18
4 27 0.55
5 13 0.27
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:46940785 original size:8 final size:7
Alignment explanation
Indices: 46940724--46940792 Score: 57
Period size: 8 Copynumber: 8.9 Consensus size: 7
46940714 TTAATATCCA
*
46940724 AATAAGT
1 AATAAAT
46940731 AATAAAT
1 AATAAAT
46940738 AATAAAAT
1 AAT-AAAT
46940746 AAAATAAAGT
1 --AATAAA-T
46940756 AATAAAT
1 AATAAAT
*
46940763 AAAGTAAAG
1 -AA-TAAAT
46940772 AATAAAT
1 AATAAAT
46940779 AAATAAAT
1 -AATAAAT
46940787 AATAAA
1 AATAAA
46940793 AATTGGGTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
7 20 0.38
8 21 0.40
9 7 0.13
10 4 0.08
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (7 bp):
AATAAAT
Found at i:46947260 original size:29 final size:29
Alignment explanation
Indices: 46947228--46947283 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
46947218 AAATAAAATC
*
46947228 TTAAAATTAAATAATCCTTA-ATAATTATA
1 TTAAAATT-AATAATCCTAATATAATTATA
* *
46947257 TTAATATTAATTATCCTAATATAATTA
1 TTAAAATTAATAATCCTAATATAATTA
46947284 AAATAGAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (29 bp):
TTAAAATTAATAATCCTAATATAATTATA
Found at i:46955135 original size:17 final size:17
Alignment explanation
Indices: 46955113--46955145 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
46955103 AAAAACAGGA
*
46955113 TCAAAAGTGTTTTTAAC
1 TCAAAAGTATTTTTAAC
46955130 TCAAAAGTATTTTTAA
1 TCAAAAGTATTTTTAA
46955146 AAAATAATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.42
Consensus pattern (17 bp):
TCAAAAGTATTTTTAAC
Found at i:46956003 original size:55 final size:55
Alignment explanation
Indices: 46955938--46956049 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
46955928 ATTAACCAAC
*
46955938 AAAAATATTAATTATAAATAATAATGTGTGAAAATCGCTAAGTTAATTTTAACTA
1 AAAAATATTAATTAGAAATAATAATGTGTGAAAATCGCTAAGTTAATTTTAACTA
46955993 AAAAATATTAATTAGAAATAATAATGTGTGAAAATCGCTAAGTTAATTTTAACTA
1 AAAAATATTAATTAGAAATAATAATGTGTGAAAATCGCTAAGTTAATTTTAACTA
46956048 AA
1 AA
46956050 GATGTTTGTG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (55 bp):
AAAAATATTAATTAGAAATAATAATGTGTGAAAATCGCTAAGTTAATTTTAACTA
Found at i:46956386 original size:23 final size:24
Alignment explanation
Indices: 46956355--46956400 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
46956345 TATGTGATAT
*
46956355 AAATTATATAT-AAAAGTAAAATA
1 AAATGATATATAAAAAGTAAAATA
46956378 AAATGATATATACAAAAGTAAAA
1 AAATGATATATA-AAAAGTAAAA
46956401 AATAGATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
25 10 0.50
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (24 bp):
AAATGATATATAAAAAGTAAAATA
Found at i:46961111 original size:45 final size:45
Alignment explanation
Indices: 46961047--46961132 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
46961037 ACCTCTGTCT
*
46961047 CATCACTGATTGTATCTTTGCCTTCTAATTCAGGATCTACTGTTC
1 CATCACTGACTGTATCTTTGCCTTCTAATTCAGGATCTACTGTTC
* * *
46961092 CATCACTGACTGTATCTTTGCCTTTTAGTTTAGGATCTACT
1 CATCACTGACTGTATCTTTGCCTTCTAATTCAGGATCTACT
46961133 ATTTTATCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (45 bp):
CATCACTGACTGTATCTTTGCCTTCTAATTCAGGATCTACTGTTC
Found at i:46961142 original size:45 final size:45
Alignment explanation
Indices: 46961047--46961162 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 45
46961037 ACCTCTGTCT
* *
46961047 CATCACTGATTGTATCTTTGCCTTCTAATTCAGGATCTACTGTTC
1 CATCACTGACTGTATCTTTGCCTTCTAATTCAGGATCTACTATTC
* * * *
46961092 CATCACTGACTGTATCTTTGCCTTTTAGTTTAGGATCTACTATTT
1 CATCACTGACTGTATCTTTGCCTTCTAATTCAGGATCTACTATTC
* * * * *
46961137 TATCACCGGCTGTACCTTTCCCTTCT
1 CATCACTGACTGTATCTTTGCCTTCT
46961163 GGTTCAGGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.43
Consensus pattern (45 bp):
CATCACTGACTGTATCTTTGCCTTCTAATTCAGGATCTACTATTC
Found at i:46964588 original size:29 final size:28
Alignment explanation
Indices: 46964554--46964649 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 28
46964544 AGCCTTTCAT
46964554 AATTTTTAAAATTTTTAATTAGCTCTCAA
1 AATTTTTAAAA-TTTTAATTAGCTCTCAA
* * *
46964583 AATTTTTAAAATTCTCATTAGCTTCTTAA
1 AATTTTTAAAATTTTAATTAGC-TCTCAA
* *
46964612 AATTTTTGAAAATTTTAATCAGACCCTCCAA
1 AATTTTT-AAAATTTTAATTAG-CTCT-CAA
46964643 AATTTTT
1 AATTTTT
46964650 GGATGTTCTC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
28 9 0.16
29 23 0.42
30 13 0.24
31 10 0.18
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (28 bp):
AATTTTTAAAATTTTAATTAGCTCTCAA
Found at i:46966264 original size:14 final size:14
Alignment explanation
Indices: 46966245--46966282 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
46966235 GTTTGACAGT
*
46966245 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
46966259 AAAATGATTTCTGG
1 AAAATGATTTCCGG
46966273 AAAATGATTT
1 AAAATGATTT
46966283 ACTAGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:46969359 original size:18 final size:18
Alignment explanation
Indices: 46969338--46969388 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
46969328 AGGAATGAAG
46969338 GAAGGGAGAAGAATGGAT
1 GAAGGGAGAAGAATGGAT
* *** *
46969356 GAAGGTAGCTTACTGGAT
1 GAAGGGAGAAGAATGGAT
46969374 GAAGGGAGAAGAATG
1 GAAGGGAGAAGAATG
46969389 CCTGAGAGCT
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.41, T:0.16
Consensus pattern (18 bp):
GAAGGGAGAAGAATGGAT
Found at i:46970878 original size:22 final size:22
Alignment explanation
Indices: 46970837--46970878 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46970827 TAGTATTTTT
*
46970837 AAAAATAAAAATTAATTAAAGA
1 AAAAATAAAAATTAAATAAAGA
46970859 AAAAATAATAAA-TAAATAAA
1 AAAAATAA-AAATTAAATAAA
46970879 AACAAGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAAATAAAAATTAAATAAAGA
Found at i:46973881 original size:30 final size:31
Alignment explanation
Indices: 46973833--46973891 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
46973823 TGAATTTATT
*
46973833 CACTAAACTTTGAATTTTAA-TTAATTTTGG
1 CACTAAACTTTGAATTTTAACTAAATTTTGG
*
46973863 CACT-AACTTTGATTTTTTAACTAAATTTT
1 CACTAAACTTTGA-ATTTTAACTAAATTTT
46973892 TACTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
30 10 0.40
31 7 0.28
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (31 bp):
CACTAAACTTTGAATTTTAACTAAATTTTGG
Found at i:46981265 original size:21 final size:20
Alignment explanation
Indices: 46981232--46981278 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
46981222 AAGAAATATA
**
46981232 TAAAAA-TACATAAATATTTT
1 TAAAAATTACAT-AATAAATT
*
46981252 TAAAAATTATATAATAAATT
1 TAAAAATTACATAATAAATT
46981272 TAAAAAT
1 TAAAAAT
46981279 ATAAAACGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAAATTACATAATAAATT
Found at i:46988189 original size:15 final size:15
Alignment explanation
Indices: 46988169--46988201 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
46988159 TTATTCAAAC
46988169 ATTTATTTTTTGAAA
1 ATTTATTTTTTGAAA
46988184 ATTTATTTTTTGAAA
1 ATTTATTTTTTGAAA
46988199 ATT
1 ATT
46988202 GTTTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTTATTTTTTGAAA
Found at i:46988279 original size:13 final size:12
Alignment explanation
Indices: 46988239--46988270 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
46988229 TTAAAATTTT
*
46988239 TAAAAAATATTA
1 TAAAAAATATAA
46988251 TAAAAAATATAA
1 TAAAAAATATAA
46988263 TAAAAAAT
1 TAAAAAAT
46988271 TTAAATAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAAAAATATAA
Found at i:46988315 original size:9 final size:10
Alignment explanation
Indices: 46988293--46988339 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
46988283 TTGAATAAAC
46988293 AAATATTATA
1 AAATATTATA
46988303 AAATATT-TA
1 AAATATTATA
*
46988312 AAATATACATTTA
1 AAATAT---TATA
46988325 AAATATTATA
1 AAATATTATA
46988335 AAATA
1 AAATA
46988340 AATAATAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 8 0.25
10 15 0.47
12 1 0.03
13 8 0.25
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATATTATA
Found at i:46988461 original size:101 final size:102
Alignment explanation
Indices: 46988273--46988468 Score: 313
Period size: 101 Copynumber: 1.9 Consensus size: 102
46988263 TAAAAAATTT
* *
46988273 AAATAAACGTTTGAATAAACAAATATTATAAAATATTTAAAATATACATTTAAAATATTATAAAA
1 AAATAAACGTTTGAATAAACAAATATTATAAAACATTTAAAATATAAATTTAAAATATTATAAAA
* ***
46988338 TAAATAATAAAC-AATTTTAAAAAACAAATTTTCAAA
66 CAAATAATAAACAAATAAAAAAAAACAAATTTTCAAA
* *
46988374 AAATAAATGTTTGAATAAACAGATATTATAAAACATTTAAAATATAAATTTAAAATATTATAAAA
1 AAATAAACGTTTGAATAAACAAATATTATAAAACATTTAAAATATAAATTTAAAATATTATAAAA
46988439 CAAATAATAAACAAATAAAAAAAAACAAAT
66 CAAATAATAAACAAATAAAAAAAAACAAAT
46988469 AAAAAAGAGA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 72 0.84
102 14 0.16
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.30
Consensus pattern (102 bp):
AAATAAACGTTTGAATAAACAAATATTATAAAACATTTAAAATATAAATTTAAAATATTATAAAA
CAAATAATAAACAAATAAAAAAAAACAAATTTTCAAA
Found at i:46988466 original size:14 final size:14
Alignment explanation
Indices: 46988447--46988474 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46988437 AACAAATAAT
46988447 AAACAAATAAAAAA
1 AAACAAATAAAAAA
46988461 AAACAAATAAAAAA
1 AAACAAATAAAAAA
46988475 GAGAGGAAAA
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:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (14 bp):
AAACAAATAAAAAA
Found at i:46991819 original size:3 final size:3
Alignment explanation
Indices: 46991813--46991869 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
46991803 ACTAATTAGG
* * * *
46991813 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA ATA TTA CTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
46991861 TTA TCA TTA
1 TTA TTA TTA
46991870 CATTTCCATT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:46991833 original size:15 final size:15
Alignment explanation
Indices: 46991813--46991870 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
46991803 ACTAATTAGG
46991813 TTATTATTATTACTA
1 TTATTATTATTACTA
*
46991828 TTATTATTATTATTA
1 TTATTATTATTACTA
* *
46991843 TTATTAATATTACTG
1 TTATTATTATTACTA
*
46991858 TTATTATCATTAC
1 TTATTATTATTAC
46991871 ATTTCCATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (15 bp):
TTATTATTATTACTA
Found at i:46991983 original size:8 final size:8
Alignment explanation
Indices: 46991972--46991998 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
46991962 TATAATTTTA
46991972 ATATACAT
1 ATATACAT
46991980 ATATACAT
1 ATATACAT
46991988 ATATACAT
1 ATATACAT
46991996 ATA
1 ATA
46991999 CATACTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATACAT
Found at i:47004349 original size:45 final size:45
Alignment explanation
Indices: 47004176--47004358 Score: 172
Period size: 45 Copynumber: 4.1 Consensus size: 45
47004166 ATTGATTGAA
* * *
47004176 GAAGATTGTAGATCTTGTCTTCCTGTATTGGTAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
* * * * * *** * * *
47004221 GAAAACA-CAAACCTTATCTTCCTG-AACAGCAGTGGAGTAGGTT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
* * ***
47004264 GAAGATAGGAGATCTTGTCTTCCTGTATTGGAAACAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
*
47004309 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
47004354 GAAGA
1 GAAGA
47004359 AACCAGCCTC
Statistics
Matches: 100, Mismatches: 36, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
43 17 0.17
44 26 0.26
45 57 0.57
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATC
Found at i:47004840 original size:21 final size:21
Alignment explanation
Indices: 47004814--47004857 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
47004804 TTGGCATTGT
* *
47004814 AGTGGAATAGATTAAAGTTGA
1 AGTGGAACAGATTAAAGCTGA
*
47004835 AGTGGAACGGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
47004856 AG
1 AG
47004858 GCAGCGAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.23
Consensus pattern (21 bp):
AGTGGAACAGATTAAAGCTGA
Found at i:47006672 original size:3 final size:3
Alignment explanation
Indices: 47006666--47006731 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
47006656 ACTAATTAGG
* * * *
47006666 TTA TTA TTA TTA CTA TTA TTA TCA TTA TTA TTA GTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
47006714 TTA CTG TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA
47006732 CATTTCCATT
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:47006873 original size:12 final size:11
Alignment explanation
Indices: 47006858--47006890 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
47006848 ATATACATAC
47006858 TTATATATCTTT
1 TTATATAT-TTT
47006870 TTATATATTTT
1 TTATATATTTT
47006881 TTATA-ATTTT
1 TTATATATTTT
47006891 ATTCATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 8 0.38
12 8 0.38
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATATATTTT
Found at i:47007903 original size:2 final size:2
Alignment explanation
Indices: 47007896--47007921 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47007886 TGTATGTGAT
47007896 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
47007922 CATTATAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:47009166 original size:16 final size:16
Alignment explanation
Indices: 47009145--47009175 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47009135 GTAAAAAATA
47009145 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
47009161 ATATAACATTTATAA
1 ATATAAAATTTATAA
47009176 ATTGTCCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:47010181 original size:11 final size:10
Alignment explanation
Indices: 47010159--47010201 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 10
47010149 TATGCTAATA
47010159 TTTT-TGATT
1 TTTTATGATT
47010168 TTTTATGAATT
1 TTTTATG-ATT
47010179 TTTTATGATT
1 TTTTATGATT
47010189 CTTTTATGATT
1 -TTTTATGATT
47010200 TT
1 TT
47010202 AATTTACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.13
10 7 0.23
11 20 0.65
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (10 bp):
TTTTATGATT
Found at i:47010200 original size:21 final size:20
Alignment explanation
Indices: 47010159--47010201 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
47010149 TATGCTAATA
47010159 TTTTTGATTTTTTATGAATT
1 TTTTTGATTTTTTATGAATT
47010179 TTTTATGATTCTTTTATG-ATT
1 TTTT-TGATT-TTTTATGAATT
47010200 TT
1 TT
47010202 AATTTACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 10 0.48
22 7 0.33
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (20 bp):
TTTTTGATTTTTTATGAATT
Found at i:47015056 original size:11 final size:11
Alignment explanation
Indices: 47015040--47015070 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
47015030 AAGTATGGGT
47015040 AGGTATGGGAA
1 AGGTATGGGAA
*
47015051 AGGTATGGGCA
1 AGGTATGGGAA
47015062 AGGTATGGG
1 AGGTATGGG
47015071 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:47019147 original size:18 final size:18
Alignment explanation
Indices: 47019124--47019180 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
47019114 CCCAACTACT
*
47019124 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
47019142 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
47019160 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
47019178 GTA
1 GTA
47019181 AACGGTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:47034386 original size:266 final size:266
Alignment explanation
Indices: 47033912--47034443 Score: 992
Period size: 266 Copynumber: 2.0 Consensus size: 266
47033902 GCGGATACAT
*
47033912 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCGTTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
47033977 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
* *
47034042 TTGCTCACTAAACCTCATGGTTCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCGAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
* *
47034107 ATTCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTCGGGCCACAGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
47034172 TCCTTC
261 TCCTTC
47034178 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
* *
47034243 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCTGGGCTGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
*
47034308 TTGCTCATTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
131 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
47034373 ATCCTTGTCACATTAAATTCTCGGGCCACAGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
196 ATCCTTGTCACATTAAATTCTCGGGCCACAGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
47034438 TCCTTC
261 TCCTTC
47034444 TCTTATCATG
Statistics
Matches: 258, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
266 258 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (266 bp):
ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
ATCCTTGTCACATTAAATTCTCGGGCCACAGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
TCCTTC
Found at i:47035515 original size:32 final size:32
Alignment explanation
Indices: 47035479--47035543 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
47035469 TTTAAAAAAA
47035479 TTACTTGGATAAATCAAAATGGAAAAATGCCT
1 TTACTTGGATAAATCAAAATGGAAAAATGCCT
47035511 TTACTTGGATAAATCAAAATGGAAAAATGCCT
1 TTACTTGGATAAATCAAAATGGAAAAATGCCT
47035543 T
1 T
47035544 CTTATCTCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (32 bp):
TTACTTGGATAAATCAAAATGGAAAAATGCCT
Found at i:47041482 original size:30 final size:30
Alignment explanation
Indices: 47041447--47041509 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
47041437 AAAATTTTTA
47041447 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
47041477 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
47041507 TTG
1 TTG
47041510 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:47045593 original size:18 final size:18
Alignment explanation
Indices: 47045557--47045593 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47045547 TTGGTTTTCA
* *
47045557 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCAAAT
47045575 AATTCGAATAAATCAAAT
1 AATTCGAATAAATCAAAT
47045593 A
1 A
47045594 CCAAACTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:47045770 original size:25 final size:24
Alignment explanation
Indices: 47045736--47045786 Score: 93
Period size: 25 Copynumber: 2.1 Consensus size: 24
47045726 ACTTTGGAAG
47045736 TTAGTTTCTTTGTGCAAAATTATTT
1 TTAGTTTCTTTGTGCAAAATT-TTT
47045761 TTAGTTTCTTTGTGCAAAATTTTT
1 TTAGTTTCTTTGTGCAAAATTTTT
47045785 TT
1 TT
47045787 CTTGTGCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.22, C:0.08, G:0.12, T:0.59
Consensus pattern (24 bp):
TTAGTTTCTTTGTGCAAAATTTTT
Found at i:47046059 original size:31 final size:32
Alignment explanation
Indices: 47046015--47046074 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
47046005 ATTTATTATT
* *
47046015 TTTTCTTTGTTCTTAAATTTCTTCTTTTAGTG
1 TTTTCGTTGTTCTTAAATTTCTTATTTTAGTG
*
47046047 TTTTCGTT-TTCTTTAATTTCTTATTTTA
1 TTTTCGTTGTTCTTAAATTTCTTATTTTA
47046075 TTTGGTGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.13, C:0.12, G:0.07, T:0.68
Consensus pattern (32 bp):
TTTTCGTTGTTCTTAAATTTCTTATTTTAGTG
Found at i:47046217 original size:15 final size:16
Alignment explanation
Indices: 47046199--47046230 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47046189 AAGATCAAAA
47046199 TTATTA-AATAAAATT
1 TTATTATAATAAAATT
47046214 TTATTATAATAAAATT
1 TTATTATAATAAAATT
47046230 T
1 T
47046231 AATTTCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTATAATAAAATT
Found at i:47047661 original size:32 final size:37
Alignment explanation
Indices: 47047621--47047693 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
47047611 GACATAAAGT
47047621 AATATATTTATAA-AT-T-TAATA-TATATTATAATAA
1 AATAT-TTTATAATATATATAATATTATATTATAATAA
* *
47047655 AATATTTTTTAATATATATTATATTATATTATAATAA
1 AATATTTTATAATATATATAATATTATATTATAATAA
47047692 AA
1 AA
47047694 CAAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
33 6 0.18
34 7 0.21
35 1 0.03
36 4 0.12
37 15 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (37 bp):
AATATTTTATAATATATATAATATTATATTATAATAA
Found at i:47047719 original size:21 final size:21
Alignment explanation
Indices: 47047687--47047729 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
47047677 ATTATATTAT
* *
47047687 AATAAAACAAAATAAATAAAG
1 AATAAAACAAAAGAAAGAAAG
47047708 AATAAATA-AAAAGAAAGAAAG
1 AATAAA-ACAAAAGAAAGAAAG
47047729 A
1 A
47047730 TAGAAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (21 bp):
AATAAAACAAAAGAAAGAAAG
Found at i:47047724 original size:4 final size:4
Alignment explanation
Indices: 47047717--47047783 Score: 52
Period size: 4 Copynumber: 17.0 Consensus size: 4
47047707 GAATAAATAA
* *
47047717 AAAG AAAG AAAG ATAG AAATG AAACAG AAAG -AA- AAAG AGAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG AAAG AAAG
*
47047766 AAA- AAA- AAGG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG
47047784 GAAGGAGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
3 9 0.18
4 35 0.69
5 3 0.06
6 3 0.06
7 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.24, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:47047765 original size:18 final size:18
Alignment explanation
Indices: 47047715--47047783 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
47047705 AAGAATAAAT
*
47047715 AAAAA-GAAAGAAAGATA
1 AAAAAGGAAAGAAAGAAA
* * *
47047732 GAAATGAAACAGAAAG-AA
1 AAAAAGGAA-AGAAAGAAA
*
47047750 AAAGAGAGAAAGAAAGAAA
1 AAAAAG-GAAAGAAAGAAA
47047769 AAAAAGGAAAGAAAG
1 AAAAAGGAAAGAAAG
47047784 GAAGGAGAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
17 3 0.08
18 21 0.54
19 15 0.38
ACGTcount: A:0.72, C:0.01, G:0.23, T:0.03
Consensus pattern (18 bp):
AAAAAGGAAAGAAAGAAA
Found at i:47048477 original size:24 final size:24
Alignment explanation
Indices: 47048450--47048496 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
47048440 ATTGAAATGG
47048450 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
47048474 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
47048497 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:47052172 original size:12 final size:13
Alignment explanation
Indices: 47052157--47052217 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 13
47052147 AAAATATGTA
47052157 AATAAATAA-AAT
1 AATAAATAACAAT
* *
47052169 AATAAAAAACCAT
1 AATAAATAACAAT
47052182 AA-AAATAACAAT
1 AATAAATAACAAT
* *
47052194 AAT-AACAATAAT
1 AATAAATAACAAT
47052206 AAT-AATAACAAT
1 AATAAATAACAAT
47052218 GAAAGTCAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 35 0.90
13 4 0.10
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAAATAACAAT
Found at i:47052203 original size:15 final size:15
Alignment explanation
Indices: 47052180--47052217 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
47052170 ATAAAAAACC
*
47052180 ATAAAAATAACAATA
1 ATAACAATAACAATA
*
47052195 ATAACAATAATAATA
1 ATAACAATAACAATA
47052210 ATAACAAT
1 ATAACAAT
47052218 GAAAGTCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAACAATAACAATA
Found at i:47056136 original size:39 final size:38
Alignment explanation
Indices: 47056019--47056137 Score: 113
Period size: 36 Copynumber: 3.2 Consensus size: 38
47056009 GATCCGATTG
* *
47056019 AAACACGAGAATTTCTTGTTTTGAAAACACGAGAATTTTA
1 AAACACGAG-ATTT-TTTTTTTGAAAACACGAAAATTTTA
* * * *
47056059 AGACA-TA-ATATTTTTTTT-AAAAC-C-AAAATTTATG
1 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTT-TA
47056093 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTTCA
1 AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTT-A
47056132 AAACAC
1 AAACAC
47056138 CGAAATTTGT
Statistics
Matches: 62, Mismatches: 10, Indels: 15
0.71 0.11 0.17
Matches are distributed among these distances:
33 6 0.10
34 6 0.10
35 6 0.10
36 16 0.26
37 8 0.13
38 2 0.03
39 14 0.23
40 4 0.06
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (38 bp):
AAACACGAGATTTTTTTTTTGAAAACACGAAAATTTTA
Found at i:47056153 original size:72 final size:73
Alignment explanation
Indices: 47056017--47056153 Score: 156
Period size: 72 Copynumber: 1.9 Consensus size: 73
47056007 GTGATCCGAT
* * * * *
47056017 TGAAACACGAGAATTTCTTGTTTTGAAAACACGAGAATTTTAAGACATAATATTTTTTTTAAAAC
1 TGAAACACGAGAATTTCTTGTTTTGAAAACACGAAAATTTTAAAACAGAATA-TTTTGTGAAAAC
47056082 CAAAATTTA
65 CAAAATTTA
*
47056091 TGAAACACGAG-ATTT-TTTTTTTGAAAACACGAAAATTTTCAAAACACCGAA-A-TTTGTGAAA
1 TGAAACACGAGAATTTCTTGTTTTGAAAACACGAAAATTTT-AAAACA--GAATATTTTGTGAAA
47056152 AC
63 AC
47056154 AAGAGGATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
72 31 0.57
73 9 0.17
74 12 0.22
75 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (73 bp):
TGAAACACGAGAATTTCTTGTTTTGAAAACACGAAAATTTTAAAACAGAATATTTTGTGAAAACC
AAAATTTA
Found at i:47056240 original size:18 final size:18
Alignment explanation
Indices: 47056201--47056240 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
47056191 GAAAATTTCG
* *
47056201 AAAACATGTATTTTTTTT
1 AAAACATGAATTTTTTTA
47056219 AAAACATGAATTTTTTTA
1 AAAACATGAATTTTTTTA
47056237 AAAA
1 AAAA
47056241 AACACGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (18 bp):
AAAACATGAATTTTTTTA
Found at i:47056302 original size:18 final size:18
Alignment explanation
Indices: 47056108--47056342 Score: 111
Period size: 17 Copynumber: 12.6 Consensus size: 18
47056098 CGAGATTTTT
47056108 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
47056126 -TTTTCAAAACACCG-AAA
1 TTTTTGAAAACA-CGAAAA
* * **
47056143 TTTGTGAAAACAAGAGGA
1 TTTTTGAAAACACGAAAA
*
47056161 TTTTTG-AAATACGAAAA
1 TTTTTGAAAACACGAAAA
*
47056178 ATTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * * **
47056196 -TTTCGAAAACATGTATT
1 TTTTTGAAAACACGAAAA
* * **
47056213 TTTTTTAAAACATGAATT
1 TTTTTGAAAACACGAAAA
* *
47056231 TTTTTAAAAAAACACGAGAATT
1 TTTTT--GAAAACACGA-AA-A
47056253 TTTTTGAAAACACGAAAACA
1 TTTTTGAAAACACG-AAA-A
47056273 TGAAAATTTTGAAAACACGAAAA
1 T-----TTTTGAAAACACGAAAA
*
47056296 TTTTTG-AAACACAAAAA
1 TTTTTGAAAACACGAAAA
* *
47056313 TTTTTAGAAGACACTAAAAA
1 TTTTT-GAAAACAC-GAAAA
*
47056333 TTTTGGAAAA
1 TTTTTGAAAA
47056343 TGGATTTTTT
Statistics
Matches: 168, Mismatches: 31, Indels: 35
0.72 0.13 0.15
Matches are distributed among these distances:
17 53 0.32
18 52 0.31
19 9 0.05
20 28 0.17
21 2 0.01
22 6 0.04
23 2 0.01
24 3 0.02
25 13 0.08
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:47063620 original size:21 final size:21
Alignment explanation
Indices: 47063594--47063638 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
47063584 TCGACTTCGA
47063594 CTTCGTGCATCACTGTTTTCC
1 CTTCGTGCATCACTGTTTTCC
47063615 CTTCGTGCATCACTGTTTTCC
1 CTTCGTGCATCACTGTTTTCC
47063636 CTT
1 CTT
47063639 TTTACTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.33, G:0.13, T:0.44
Consensus pattern (21 bp):
CTTCGTGCATCACTGTTTTCC
Found at i:47067452 original size:17 final size:17
Alignment explanation
Indices: 47067426--47067569 Score: 130
Period size: 17 Copynumber: 8.4 Consensus size: 17
47067416 ACAAATTTTT
47067426 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
47067444 TTTTCAAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
* **
47067461 TTTTTGAAAACAAGAGGA
1 TTTTT-AAAACACGAAAA
* *
47067479 TTTTTGAAATACGAAAAA
1 TTTTTAAAACACG-AAAA
*
47067497 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
47067514 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
*
47067531 TTTTTGAAA-ACGAAAA
1 TTTTTAAAACACGAAAA
* *
47067547 TTTTTGAAACACAAAAA
1 TTTTTAAAACACGAAAA
47067564 TTTTTA
1 TTTTTA
47067570 GAAGACACTA
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
16 15 0.15
17 57 0.56
18 30 0.29
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:47067472 original size:35 final size:35
Alignment explanation
Indices: 47067426--47067588 Score: 170
Period size: 35 Copynumber: 4.7 Consensus size: 35
47067416 ACAAATTTTT
**
47067426 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* ** *
47067461 TTTTTGAAAACAAGAGGATTTTTGAAATA-CGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCG-AAA
* *
47067496 ATTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
**
47067531 TTTTTG-AAA-ACGAAAATTTTTGAAACACAAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* * *
47067564 TTTTTAGAAGACACTAAAAATTTTG
1 TTTTT-GAAAACACGAAAATTTTTG
47067589 GAAAATGGAT
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
33 27 0.26
34 6 0.06
35 60 0.57
36 12 0.11
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
Found at i:47075972 original size:20 final size:19
Alignment explanation
Indices: 47075934--47075980 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
47075924 NNNNNNNTTT
47075934 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
47075954 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
47075973 -TTTTGAAA
1 TTTTTGAAA
47075981 AATAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:47076354 original size:8 final size:8
Alignment explanation
Indices: 47076341--47076428 Score: 83
Period size: 8 Copynumber: 11.0 Consensus size: 8
47076331 TTGAAACTCT
47076341 TTTTTTTC
1 TTTTTTTC
47076349 TTTTTTTC
1 TTTTTTTC
47076357 TTCTTTTTTCC
1 -T-TTTTTT-C
47076368 TTTTTTTC
1 TTTTTTTC
*
47076376 -TCTTTTC
1 TTTTTTTC
47076383 TTTTTTTC
1 TTTTTTTC
*
47076391 -TTCTTTC
1 TTTTTTTC
*
47076398 TTTTTCTC
1 TTTTTTTC
47076406 -TTTTTTC
1 TTTTTTTC
* *
47076413 TTTCTCTC
1 TTTTTTTC
47076421 TTTTTTTC
1 TTTTTTTC
47076429 CTTGCCTGCT
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
7 18 0.28
8 31 0.48
9 7 0.11
10 7 0.11
11 1 0.02
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:47076387 original size:15 final size:15
Alignment explanation
Indices: 47076338--47076415 Score: 74
Period size: 15 Copynumber: 5.3 Consensus size: 15
47076328 GAATTGAAAC
47076338 TCTTTTTTT-TC-TT
1 TCTTTTTTTCTCTTT
* *
47076351 T-TTTTCTTCTTTTT
1 TCTTTTTTTCTCTTT
47076365 TCCTTTTTTTCTCTTT
1 T-CTTTTTTTCTCTTT
47076381 TCTTTTTTTCT-TCTT
1 TCTTTTTTTCTCT-TT
* *
47076396 TCTTTTTCTCTTTTT
1 TCTTTTTTTCTCTTT
47076411 TCTTT
1 TCTTT
47076416 CTCTCTTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
12 6 0.11
13 2 0.04
14 4 0.07
15 29 0.54
16 13 0.24
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TCTTTTTTTCTCTTT
Found at i:47076387 original size:23 final size:22
Alignment explanation
Indices: 47076357--47076431 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 22
47076347 TCTTTTTTTC
*
47076357 TTCTTTTTTCCTTTTTTTCTCTT
1 TTCTTTTTTCC-TTCTTTCTCTT
*
47076380 TTCTTTTTTTCTTCTTTCT-TT
1 TTCTTTTTTCCTTCTTTCTCTT
*
47076401 TTCTCTTTT--TTCTTTCTC-T
1 TTCTTTTTTCCTTCTTTCTCTT
*
47076420 CT-TTTTTTCCTT
1 TTCTTTTTTCCTT
47076432 GCCTGCTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
18 5 0.11
19 10 0.23
20 2 0.05
21 10 0.23
22 7 0.16
23 10 0.23
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (22 bp):
TTCTTTTTTCCTTCTTTCTCTT
Found at i:47076399 original size:38 final size:36
Alignment explanation
Indices: 47076344--47076428 Score: 113
Period size: 34 Copynumber: 2.4 Consensus size: 36
47076334 AAACTCTTTT
*
47076344 TTTTCTTTTTTTCTTCTT-TTTTCCT-TTTTTTCTC
1 TTTTCTTTTTTTCTTCTTCTTTTTCTCTTTTTTCTC
47076378 TTTTCTTTTTTTCTTCTTTCTTTTTCTCTTTTTTCT-
1 TTTTCTTTTTTTCTTC-TTCTTTTTCTCTTTTTTCTC
47076414 TTCTCTCTTTTTTTC
1 TT-T-TCTTTTTTTC
47076429 CTTGCCTGCT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
34 16 0.36
35 2 0.04
36 8 0.18
37 9 0.20
38 10 0.22
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (36 bp):
TTTTCTTTTTTTCTTCTTCTTTTTCTCTTTTTTCTC
Found at i:47076420 original size:15 final size:15
Alignment explanation
Indices: 47076351--47076426 Score: 89
Period size: 15 Copynumber: 4.9 Consensus size: 15
47076341 TTTTTTTCTT
47076351 TTTTTCTTCTTTTTTCC
1 TTTTTC-TCTTTTTT-C
* *
47076368 TTTTTTTCTCTTTTC
1 TTTTTCTCTTTTTTC
* *
47076383 TTTTTTTCTTCTTTC
1 TTTTTCTCTTTTTTC
47076398 TTTTTCTCTTTTTTC
1 TTTTTCTCTTTTTTC
*
47076413 TTTCTCTCTTTTTT
1 TTTTTCTCTTTTTT
47076427 TCCTTGCCTG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
15 40 0.77
16 7 0.13
17 5 0.10
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCTCTTTTTTC
Found at i:47076558 original size:14 final size:15
Alignment explanation
Indices: 47076541--47076580 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
47076531 GCTGTTTTTT
47076541 CTTTTTTTTTGGGC-
1 CTTTTTTTTTGGGCG
47076555 CTTTTCTTTTTGGGCTG
1 CTTTT-TTTTTGGGC-G
47076572 CTTTTTTTT
1 CTTTTTTTT
47076581 GCTTTGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.22
15 9 0.39
16 4 0.17
17 5 0.22
ACGTcount: A:0.00, C:0.15, G:0.17, T:0.68
Consensus pattern (15 bp):
CTTTTTTTTTGGGCG
Found at i:47076596 original size:31 final size:32
Alignment explanation
Indices: 47076556--47076629 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
47076546 TTTTTGGGCC
*
47076556 TTTTCTTTTTGGGCTGCTTT-TTTTTGCTTTG-G
1 TTTT-TTTTTGGGCTGATTTGTTTTT-CTTTGTG
*
47076588 TTTTTTTTTGGGCTGATTTGTTTTTTTTTGTG
1 TTTTTTTTTGGGCTGATTTGTTTTTCTTTGTG
47076620 TTGTTTTTTT
1 TT-TTTTTTT
47076630 TAATTAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
31 18 0.49
32 12 0.32
33 7 0.19
ACGTcount: A:0.01, C:0.07, G:0.20, T:0.72
Consensus pattern (32 bp):
TTTTTTTTTGGGCTGATTTGTTTTTCTTTGTG
Found at i:47076745 original size:14 final size:14
Alignment explanation
Indices: 47076723--47076757 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
47076713 GATTGTTAAA
47076723 TTTTT-TTTCTTTT
1 TTTTTCTTTCTTTT
47076736 TTTTTCTTTCTTTT
1 TTTTTCTTTCTTTT
*
47076750 TCTTTCTT
1 TTTTTCTT
47076758 CTTCTTCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTCTTTCTTTT
Found at i:47076755 original size:10 final size:10
Alignment explanation
Indices: 47076726--47076772 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
47076716 TGTTAAATTT
*
47076726 TTTTTCTTTT
1 TTTTTCTTTC
47076736 TTTTTCTTTC
1 TTTTTCTTTC
47076746 TTTTTCTTTC
1 TTTTTCTTTC
*
47076756 TTCTTC-TTC
1 TTTTTCTTTC
*
47076765 TTCTTCTT
1 TTTTTCTT
47076773 CTTCTCCTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 9 0.26
10 25 0.74
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:47076759 original size:3 final size:3
Alignment explanation
Indices: 47076743--47076777 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
47076733 TTTTTTTTCT
*
47076743 TTC TTT TTC TTTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC T
47076778 CCTCCTACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:47077162 original size:29 final size:29
Alignment explanation
Indices: 47077129--47077239 Score: 91
Period size: 30 Copynumber: 3.7 Consensus size: 29
47077119 TGTAATTTTT
*
47077129 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
47077158 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
47077188 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* *
47077217 GGAAAAGTTTAGGGGTCAAAATG
1 AGAAAA-TTTA-GGGTTAAAATG
47077240 CGCCCTCTCC
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
29 14 0.21
30 51 0.76
31 2 0.03
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:47077184 original size:30 final size:30
Alignment explanation
Indices: 47077144--47077239 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
47077134 ATTTAGGATT
*
47077144 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
47077174 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
47077204 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
47077234 AAAATG
1 AAAATG
47077240 CGCCCTCTCC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.04
30 55 0.96
ACGTcount: A:0.45, C:0.03, G:0.24, T:0.28
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:47086111 original size:3 final size:3
Alignment explanation
Indices: 47086103--47086128 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47086093 AAGTTAATGG
47086103 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
47086129 ACAATCCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:47087360 original size:27 final size:27
Alignment explanation
Indices: 47087322--47087379 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
47087312 AGATATATGT
*
47087322 TAATGCTCAATTTATAACTGCTAAAAG
1 TAATGCTCAATTTATAACAGCTAAAAG
*
47087349 TAATGCTCAATTTATAAGAGCTAAAAG
1 TAATGCTCAATTTATAACAGCTAAAAG
47087376 TAAT
1 TAAT
47087380 ATATTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (27 bp):
TAATGCTCAATTTATAACAGCTAAAAG
Found at i:47089454 original size:18 final size:18
Alignment explanation
Indices: 47089431--47089469 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
47089421 AGAACTTTTT
*
47089431 CAATCCTGTTAAGTCAAG
1 CAATCCCGTTAAGTCAAG
*
47089449 CAATCCCGTTAAGTCGAG
1 CAATCCCGTTAAGTCAAG
47089467 CAA
1 CAA
47089470 GCAGGCGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (18 bp):
CAATCCCGTTAAGTCAAG
Found at i:47089608 original size:2 final size:2
Alignment explanation
Indices: 47089601--47089671 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
47089591 AAATAGAAAA
47089601 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
47089643 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
47089672 AAAGAAAACA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47092201 original size:26 final size:26
Alignment explanation
Indices: 47092171--47092227 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
47092161 ATTTAACATT
*
47092171 AAAATTTTATTAATATGAAATAATAA
1 AAAATTTTATTAAAATGAAATAATAA
** *
47092197 AAAATTTTATTAAAATTTATTAATAA
1 AAAATTTTATTAAAATGAAATAATAA
47092223 AAAAT
1 AAAAT
47092228 GAACTCTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
AAAATTTTATTAAAATGAAATAATAA
Found at i:47098697 original size:16 final size:17
Alignment explanation
Indices: 47098671--47098705 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
47098661 TTAGTTTTAG
47098671 TTTAAGTTTTTTTATGT
1 TTTAAGTTTTTTTATGT
47098688 TTTAAG-TTTTTTATGT
1 TTTAAGTTTTTTTATGT
47098704 TT
1 TT
47098706 AAAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTAAGTTTTTTTATGT
Found at i:47098706 original size:15 final size:16
Alignment explanation
Indices: 47098665--47098707 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
47098655 AAGTTTTTAG
47098665 TTTTA-GTTTAAGTTT
1 TTTTATGTTTAAGTTT
47098680 TTTTATGTTTTAAG-TT
1 TTTTATG-TTTAAGTTT
47098696 TTTTATGTTTAA
1 TTTTATGTTTAA
47098708 AATATATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 10 0.38
16 10 0.38
17 6 0.23
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (16 bp):
TTTTATGTTTAAGTTT
Found at i:47098706 original size:22 final size:22
Alignment explanation
Indices: 47098681--47098741 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
47098671 TTTAAGTTTT
*
47098681 TTTATGTTTTAAGTTTTTTATG
1 TTTAAGTTTTAAGTTTTTTATG
** *
47098703 TTTAAAATATATA-TTTTTTATG
1 TTTAAGTTTTA-AGTTTTTTATG
*
47098725 TTTAAGTTTTTAGTTTT
1 TTTAAGTTTTAAGTTTT
47098742 AGTTTTGACT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.66
Consensus pattern (22 bp):
TTTAAGTTTTAAGTTTTTTATG
Found at i:47103457 original size:9 final size:9
Alignment explanation
Indices: 47103437--47103489 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
47103427 GGTTGCAAAA
*
47103437 AGGACAATG
1 AGGACGATG
*
47103446 ACGACGATG
1 AGGACGATG
* * *
47103455 ACGATGATT
1 AGGACGATG
47103464 AGGACGATG
1 AGGACGATG
47103473 AGGACGAT-
1 AGGACGATG
47103481 AGGACGATG
1 AGGACGATG
47103490 TTTCTTCAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
8 8 0.22
9 28 0.78
ACGTcount: A:0.36, C:0.13, G:0.36, T:0.15
Consensus pattern (9 bp):
AGGACGATG
Found at i:47103962 original size:23 final size:24
Alignment explanation
Indices: 47103920--47103967 Score: 57
Period size: 23 Copynumber: 2.0 Consensus size: 24
47103910 ACATGAAATG
47103920 ATTTAAATAGTATTTATTAT-TAT
1 ATTTAAATAGTATTTATTATGTAT
47103943 ATTTAAA-ATGTATGTT-TTATGTAT
1 ATTTAAATA-GTAT-TTATTATGTAT
47103967 A
1 A
47103968 ATGATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
22 1 0.05
23 15 0.68
24 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAAATAGTATTTATTATGTAT
Found at i:47104126 original size:9 final size:9
Alignment explanation
Indices: 47104112--47104153 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
47104102 TGTGGTAGTA
47104112 ACAATTAAT
1 ACAATTAAT
47104121 ACAATTAAT
1 ACAATTAAT
47104130 ACAATT-A-
1 ACAATTAAT
47104137 ACAATT-A-
1 ACAATTAAT
47104144 ACAATTAAT
1 ACAATTAAT
47104153 A
1 A
47104154 ATTTGATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 13 0.42
8 2 0.06
9 16 0.52
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (9 bp):
ACAATTAAT
Found at i:47105221 original size:29 final size:28
Alignment explanation
Indices: 47105161--47105220 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
47105151 GATTTCACGG
47105161 AAAATGGCCCATTCCGATAAATAATAAA
1 AAAATGGCCCATTCCGATAAATAATAAA
* * *
47105189 AAAATCGGCCCATTTCGGTAAAT-TTAAA
1 AAAAT-GGCCCATTCCGATAAATAATAAA
47105217 AAAA
1 AAAA
47105221 ACTGCTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (28 bp):
AAAATGGCCCATTCCGATAAATAATAAA
Found at i:47105461 original size:16 final size:16
Alignment explanation
Indices: 47105442--47105483 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
47105432 TAATTTGATA
47105442 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
47105458 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
47105474 TAGTTTTAAT
1 TAATTTTAAT
47105484 TTTAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:47105467 original size:22 final size:23
Alignment explanation
Indices: 47105457--47105518 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
47105447 TTAATAACAA
* *
47105457 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
47105479 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
47105502 TTAATTTTAATCAAAAA
1 TTAATTTTAAT-AAAAA
47105519 ATGGATCGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 15 0.42
24 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:47107985 original size:30 final size:31
Alignment explanation
Indices: 47107928--47107988 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
47107918 AAAATGGTTG
47107928 CTAAACTATTCAAAAGTTTTCATTTAAGTCA
1 CTAAACTATTCAAAAGTTTTCATTTAAGTCA
* * *
47107959 CTAAACTATTTAGAA-TTTTTATTTAAGTCA
1 CTAAACTATTCAAAAGTTTTCATTTAAGTCA
47107989 TTGAGCTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.43
Consensus pattern (31 bp):
CTAAACTATTCAAAAGTTTTCATTTAAGTCA
Found at i:47111157 original size:16 final size:18
Alignment explanation
Indices: 47111126--47111158 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
47111116 ATTTACTTTA
47111126 ATGTATTTAGTATTTTTG
1 ATGTATTTAGTATTTTTG
47111144 ATGTA-TTA-TATTTTT
1 ATGTATTTAGTATTTTT
47111159 TAAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (18 bp):
ATGTATTTAGTATTTTTG
Found at i:47113643 original size:24 final size:23
Alignment explanation
Indices: 47113616--47113685 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
47113606 TGTTGATAAG
47113616 AAATAATAATATATAAATATTTAA
1 AAATAATAATA-ATAAATATTTAA
47113640 AAATACAT-ATAAATAAATATTTAA
1 AAATA-ATAAT-AATAAATATTTAA
**
47113664 AAATTGTAATAATAAA-ATTTAA
1 AAATAATAATAATAAATATTTAA
47113686 TTTTATATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 6 0.15
23 7 0.17
24 25 0.61
25 3 0.07
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (23 bp):
AAATAATAATAATAAATATTTAA
Found at i:47113756 original size:6 final size:6
Alignment explanation
Indices: 47113747--47113773 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
47113737 AATTAAAATA
47113747 ATTAAT ATTAAT ATTAAT ATTAAT ATT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATT
47113774 TATAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTAAT
Found at i:47114514 original size:10 final size:11
Alignment explanation
Indices: 47114487--47114515 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
47114477 TTTTTTTGAA
47114487 AATATTTTTTT
1 AATATTTTTTT
47114498 AATATTTTTTT
1 AATATTTTTTT
47114509 AA-ATTTT
1 AATATTTT
47114516 ATATATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:47121566 original size:39 final size:39
Alignment explanation
Indices: 47121512--47121589 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
47121502 GACATATTTG
47121512 CCTCAATAATTCCCAAATTCTGACCACAAAGAACAAAAA
1 CCTCAATAATTCCCAAATTCTGACCACAAAGAACAAAAA
47121551 CCTCAATAATTCCCAAATTCTGACCACAAAGAACAAAAA
1 CCTCAATAATTCCCAAATTCTGACCACAAAGAACAAAAA
47121590 TTTTTTGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.49, C:0.28, G:0.05, T:0.18
Consensus pattern (39 bp):
CCTCAATAATTCCCAAATTCTGACCACAAAGAACAAAAA
Found at i:47122950 original size:25 final size:26
Alignment explanation
Indices: 47122904--47122958 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
47122894 TTAGAACGTA
* * *
47122904 ATTTTTTAAAAATTTAATTTATTTAT
1 ATTTTATAAAAATTCAATTTATTAAT
*
47122930 ATTTTATATAAATTCAA-TTATTAAT
1 ATTTTATAAAAATTCAATTTATTAAT
47122955 ATTT
1 ATTT
47122959 AAAATATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTTTATAAAAATTCAATTTATTAAT
Found at i:47127120 original size:46 final size:46
Alignment explanation
Indices: 47127067--47127459 Score: 543
Period size: 46 Copynumber: 8.3 Consensus size: 46
47127057 TGACAAGTGG
* *
47127067 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
47127113 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
47127159 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGACCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
47127211 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGACCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
*
47127257 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
47127303 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
** *
47127355 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
** *
47127401 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
47127447 AAAGTGATAAGTG
1 AAAGTGATAAGTG
47127460 GCTACACTTA
Statistics
Matches: 322, Mismatches: 13, Indels: 24
0.90 0.04 0.07
Matches are distributed among these distances:
46 235 0.73
52 87 0.27
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
Found at i:47127216 original size:98 final size:97
Alignment explanation
Indices: 47127047--47127459 Score: 531
Period size: 98 Copynumber: 4.3 Consensus size: 97
47127037 TTTGAGTACT
* * *
47127047 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 TCTGATCAAGTGACAAGT-GAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
47127112 CAAAGTGATAAGTGATAGCTTCGGCTACACTTA
65 CAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * *
47127145 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGACCAAGTGA
1 TCTGATCAAGTGACAAGTG-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
*
47127210 CAAAGTGATAAGTGATAGCTTCGGCTATACTTA
65 CAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
47127243 TCTGACCAAGTGAC-----AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 TCTGATCAAGTGACAAGTGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
*
47127303 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * *
47127341 TCTGATCAAGAGAC-----AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 TCTGATCAAGTGACAAGTGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
**
47127401 AAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
47127433 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGAC-AAGTGA-AAGTG
47127460 GCTACACTTA
Statistics
Matches: 287, Mismatches: 14, Indels: 27
0.88 0.04 0.08
Matches are distributed among these distances:
92 86 0.30
97 1 0.00
98 195 0.68
99 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (97 bp):
TCTGATCAAGTGACAAGTGAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
AAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:47127262 original size:144 final size:144
Alignment explanation
Indices: 47127067--47127459 Score: 669
Period size: 144 Copynumber: 2.7 Consensus size: 144
47127057 TGACAAGTGG
*
47127067 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
*
47127132 TCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 TCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
47127197 TCTGACCAAGTGAC
131 TCTGACCAAGAGAC
*
47127211 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGACCAAGTGACAAAGTGATAAGTGATAGCT
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
47127276 TCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 TCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
47127341 TCTGATCAAGAGAC
131 TCTGACCAAGAGAC
** * *
47127355 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCT
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
* * *
47127420 TTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
66 TCAGCTACACTTATCTGATCAAGTGAC-AAGTGAAAAGTG
47127460 GCTACACTTA
Statistics
Matches: 235, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
144 224 0.95
145 11 0.05
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (144 bp):
AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
TCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
TCTGACCAAGAGAC
Found at i:47127495 original size:36 final size:37
Alignment explanation
Indices: 47127423--47127495 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
47127413 GATAGCTTTA
47127423 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
47127460 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
47127496 ATCATACGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 12 0.34
37 23 0.66
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:47134425 original size:26 final size:27
Alignment explanation
Indices: 47134356--47134426 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 27
47134346 GTGGAGGGCC
47134356 TGCCAAAGGCGGCACCAGACGTGCCAG
1 TGCCAAAGGCGGCACCAGACGTGCCAG
* * * * *
47134383 TGGCAGAGGCGGCACCA-AGGTGTCAT
1 TGCCAAAGGCGGCACCAGACGTGCCAG
*
47134409 TGCCACAGGCGGCACCAG
1 TGCCAAAGGCGGCACCAG
47134427 CCCCTTATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 21 0.58
27 15 0.42
ACGTcount: A:0.24, C:0.31, G:0.35, T:0.10
Consensus pattern (27 bp):
TGCCAAAGGCGGCACCAGACGTGCCAG
Found at i:47134516 original size:20 final size:20
Alignment explanation
Indices: 47134458--47134518 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
47134448 CATTCGACTG
47134458 AAGGAGAAGAAAGAAAAAAGG-
1 AAGGAGAAG-AAG-AAAAAGGA
*
47134479 AAGGAGAAGAA-AGGAAAGGA
1 AAGGAGAAGAAGA-AAAAGGA
47134499 AAGGAGAAGAAGAAAAAGGA
1 AAGGAGAAGAAGAAAAAGGA
47134519 GGAGACACGG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 1 0.03
19 5 0.14
20 19 0.54
21 10 0.29
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (20 bp):
AAGGAGAAGAAGAAAAAGGA
Found at i:47134742 original size:70 final size:70
Alignment explanation
Indices: 47134598--47134737 Score: 189
Period size: 67 Copynumber: 2.0 Consensus size: 70
47134588 GTATTATTTG
** * * *
47134598 TGTAAAAAACCAATGTTATGTAGTTTTATATTTTATTTAGCATATATTTTTTTATGAGATTTATT
1 TGTAAAAAACCAATGTTATGTAGCATTATATGTTAATTAGCATATATTTTTTTATGAAATTTATT
47134663 TAGCA
66 TAGCA
*
47134668 TGTAAAAAACTC-ATGTTATGTA-CATTCTATGTTAATTAG-ATATA-TTTTTTATGAAATTTAT
1 TGTAAAAAAC-CAATGTTATGTAGCATTATATGTTAATTAGCATATATTTTTTTATGAAATTTAT
47134729 TTAGCA
65 TTAGCA
47134735 TGT
1 TGT
47134738 TGTAATGAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
67 25 0.40
68 5 0.08
69 12 0.19
70 20 0.32
71 1 0.02
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (70 bp):
TGTAAAAAACCAATGTTATGTAGCATTATATGTTAATTAGCATATATTTTTTTATGAAATTTATT
TAGCA
Found at i:47135038 original size:159 final size:159
Alignment explanation
Indices: 47134823--47135717 Score: 1274
Period size: 158 Copynumber: 5.6 Consensus size: 159
47134813 TACAAAAAGA
* * * * *
47134823 AATAAAAAACGAAAATAGTATATTTACTGAAAGAAATAAAATTC--GAAAATAAGAAAATTACGA
1 AATAAAATACGAAAATAGTATATTT-TTGAAAGTAATAAAATCCGGGAAAA-AAGAAAAATACGA
* * * *
47134886 ACAAAGGGCCAAAATAATGATTTTTTACT-AATTTTTTTAAAAAACACACACTAAATTAATATAC
64 ACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTTTTTAAAAAA-ACACACTAAATTAATACAT
*
47134950 TTCAAACATAATGTAGTAAAATAATATAAAAT
128 TTCAAACATAATGTACTAAAATAATATAAAAT
* * *
47134982 AATAAAATACAAAAATAGTAT-TCTTTTGAAAGTAATAAAATTCGGGAAAAAAGAAAAATAAGAA
1 AATAAAATACGAAAATAGTATAT-TTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAA
* * * *
47135046 C-AAGGGCCAAAATAAGGGTTTTTTTTGCTAAATTTATAT-AAAAAACACAGTAAATTAATACAT
65 CAAAGGGCCAAAATAAGGG--TTTTTTACTAAATTTTTTTAAAAAAACACACTAAATTAATACAT
47135109 TTCAAACATAATGTACTAAAATAATATAAAAT
128 TTCAAACATAATGTACTAAAATAATATAAAAT
47135141 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATA-TTTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAA
* * *
47135206 CAAAGGGCCAAAATAAGGGTTTTTTACTAAA--TTTATATAAAAACAAACTAAATTAATACATTT
65 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTTTTTAAAAAAACACACTAAATTAATACATTT
47135269 CAAACATAATGTACTAAAATAATATAAAAT
130 CAAACATAATGTACTAAAATAATATAAAAT
47135299 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATA-TTTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAA
* * * *
47135364 TAAAAGGCCAAAATAAGGGTTTTTTACTAAATTTATTT-AAAAAA-ACACTAAATTAATAAATTT
65 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTTTTTAAAAAAACACACTAAATTAATACATTT
*
47135427 CAAACGTAATGTACTAAAATAATATAAAAT
130 CAAACATAATGTACTAAAATAATATAAAAT
* * * * *
47135457 AATAAAATACAAAAATAGTATATGTTTTGAAAATAATAAAATTCGGGAAAAAAGAAAAATATGTA
1 AATAAAATACGAAAATAGTATAT-TTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAA
* * * *
47135522 -AAAGGGCCAAAATAAGGGGTTTTTACTAAATTTATTT-AAAAAACACACTAAATCAATGCATTT
65 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTTTTTAAAAAAACACACTAAATTAATACATTT
47135585 CAAACATAATGTACTAAAATAATATAAAAT
130 CAAACATAATGTACTAAAATAATATAAAAT
* * *
47135615 AATAAAATATGAAAATAGCATATTTTTTAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAAC
1 AATAAAATACGAAAATAGTATATTTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAAC
*
47135680 AAAGGGCCAAAATAAGGATTTTTTACTAAATTTGTTTT
66 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTT-TTTT
47135718 GAAGTTGCAA
Statistics
Matches: 667, Mismatches: 53, Indels: 32
0.89 0.07 0.04
Matches are distributed among these distances:
157 82 0.12
158 379 0.57
159 120 0.18
160 61 0.09
161 25 0.04
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.28
Consensus pattern (159 bp):
AATAAAATACGAAAATAGTATATTTTTGAAAGTAATAAAATCCGGGAAAAAAGAAAAATACGAAC
AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTTTTTAAAAAAACACACTAAATTAATACATTTC
AAACATAATGTACTAAAATAATATAAAAT
Found at i:47136515 original size:45 final size:46
Alignment explanation
Indices: 47136448--47136571 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
47136438 CATATGACCT
*
47136448 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
47136491 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
47136537 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
47136572 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:47136554 original size:46 final size:45
Alignment explanation
Indices: 47136448--47136867 Score: 216
Period size: 37 Copynumber: 10.8 Consensus size: 45
47136438 CATATGACCT
*
47136448 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
47136491 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
47136537 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
47136574 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
47136611 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
47136648 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
47136685 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
47136722 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
47136759 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
47136796 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
47136833 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
47136868 CACTTATCAC
Statistics
Matches: 358, Mismatches: 9, Indels: 22
0.92 0.02 0.06
Matches are distributed among these distances:
37 282 0.79
39 2 0.01
40 3 0.01
42 1 0.00
43 9 0.03
44 6 0.02
45 21 0.06
46 34 0.09
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:47136575 original size:37 final size:37
Alignment explanation
Indices: 47136533--47136894 Score: 652
Period size: 37 Copynumber: 9.8 Consensus size: 37
47136523 AGCTGAAGCT
* **
47136533 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
47136570 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
47136607 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
47136644 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
47136681 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
47136718 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
47136755 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
47136792 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
47136829 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
47136866 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
47136895 AGTACTCAAA
Statistics
Matches: 315, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 315 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:47140487 original size:12 final size:12
Alignment explanation
Indices: 47140466--47140497 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
47140456 AGATCCTAAT
*
47140466 CTCGAACCGGAG
1 CTCGAGCCGGAG
47140478 CTCGAGCCGGAG
1 CTCGAGCCGGAG
47140490 CTCGAGCC
1 CTCGAGCC
47140498 AAATCGCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.38, G:0.34, T:0.09
Consensus pattern (12 bp):
CTCGAGCCGGAG
Found at i:47144429 original size:50 final size:50
Alignment explanation
Indices: 47144305--47144553 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
47144295 GATAATAACA
* * ** * *
47144305 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
47144356 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
47144406 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
47144456 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
47144511 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
47144554 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Done.