Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 74 of 187
Found at i:21722760 original size:15 final size:15
Alignment explanation
Indices: 21722727--21722766 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
21722717 GCGATTTCCT
* *
21722727 GATTTGTAGGTTTTTG
1 GATTT-TAGGGTTTAG
21722743 GATTTTAGGGTTTAG
1 GATTTTAGGGTTTAG
21722758 GATTTTAGG
1 GATTTTAGG
21722767 ATTTTGGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (15 bp):
GATTTTAGGGTTTAG
Found at i:21724228 original size:18 final size:17
Alignment explanation
Indices: 21724195--21724234 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
21724185 ATATTTCTAA
**
21724195 TTTTTTATTATTTTATT
1 TTTTTTATTAAATTATT
21724212 TATTTTTATTAAATTATT
1 T-TTTTTATTAAATTATT
21724230 TTTTT
1 TTTTT
21724235 ATAAGTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTATTAAATTATT
Found at i:21726059 original size:11 final size:11
Alignment explanation
Indices: 21726040--21726069 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
21726030 TCCAAACAAA
*
21726040 AATAACAATAT
1 AATAGCAATAT
21726051 AATAGCAATAT
1 AATAGCAATAT
21726062 AATAGCAA
1 AATAGCAA
21726070 ACGACATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (11 bp):
AATAGCAATAT
Found at i:21728733 original size:21 final size:20
Alignment explanation
Indices: 21728707--21728760 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 20
21728697 AATAGCGGTG
21728707 GCGGTGAGATTAATTACTGTA
1 GCGGTGAGATTAA-TACTGTA
*
21728728 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATT-AATACTGTA
21728749 GCGGTGAGATTA
1 GCGGTGAGATTA
21728761 GAAACAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.35, T:0.30
Consensus pattern (20 bp):
GCGGTGAGATTAATACTGTA
Found at i:21738054 original size:12 final size:13
Alignment explanation
Indices: 21738037--21738073 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
21738027 GAACCGGACA
21738037 CGAACCGAA-CTC
1 CGAACCGAAGCTC
21738049 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
21738061 CGAACCGTAGCTC
1 CGAACCGAAGCTC
21738074 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:21741864 original size:15 final size:15
Alignment explanation
Indices: 21741844--21741897 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
21741834 TATGTGATAA
21741844 TAATTAATATAATAT
1 TAATTAATATAATAT
21741859 TAATTAATATAATAT
1 TAATTAATATAATAT
* * * *
21741874 CATATCAATACAAAAT
1 TA-ATTAATATAATAT
21741890 TAATTAAT
1 TAATTAAT
21741898 TTGGTGATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 21 0.66
16 11 0.34
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATTAATATAATAT
Found at i:21742182 original size:23 final size:22
Alignment explanation
Indices: 21742134--21742182 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
21742124 TATATAAGAG
*
21742134 AAATTAAATATATTTTTTAATT
1 AAATTAAATATATTTTTTAATA
21742156 AAATTAAATATCA-TTTTTATATA
1 AAATTAAATAT-ATTTTTTA-ATA
21742179 AAAT
1 AAAT
21742183 GGTAATCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATTAAATATATTTTTTAATA
Found at i:21744269 original size:17 final size:18
Alignment explanation
Indices: 21744238--21744272 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21744228 ATCTTATTTT
*
21744238 AGGATTTTTATTATTTAA
1 AGGAGTTTTATTATTTAA
21744256 AGGAGTTTTA-TATTTAA
1 AGGAGTTTTATTATTTAA
21744273 TTATTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (18 bp):
AGGAGTTTTATTATTTAA
Found at i:21746880 original size:25 final size:25
Alignment explanation
Indices: 21746801--21746917 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 25
21746791 GGGTCTTTTT
21746801 GAGCTTCCCGAT-TAATGGCTCTCCG
1 GAGCTTCCCGATAT-ATGGCTCTCCG
* * * **
21746826 AAGCTTCCTG--ATATGGCTCGCTT
1 GAGCTTCCCGATATATGGCTCTCCG
* *
21746849 GAACTTCCCGATATATGGCTATCCG
1 GAGCTTCCCGATATATGGCTCTCCG
* **
21746874 GAGCTTCCCGTTA-ATGGCTCTTTG
1 GAGCTTCCCGATATATGGCTCTCCG
* *
21746898 GAGCTACCCGTTAT-TGGCTC
1 GAGCTTCCCGATATATGGCTC
21746918 GCATGAGCAT
Statistics
Matches: 70, Mismatches: 18, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
23 15 0.21
24 27 0.39
25 28 0.40
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTCTCCG
Found at i:21746900 original size:24 final size:24
Alignment explanation
Indices: 21746775--21746917 Score: 83
Period size: 24 Copynumber: 5.8 Consensus size: 24
21746765 GTCTTTTCGT
* * *
21746775 GAGCTTCCCGATTAAAGGGTCTTTTT
1 GAGCTTCCCG-TTAATGGCTC-TTTG
**
21746801 GAGCTTCCCGATTAATGGCTCTCCG
1 GAGCTTCCCG-TTAATGGCTCTTTG
* * * *
21746826 AAGCTTCCTGAT-ATGGCTCGCTT-
1 GAGCTTCCCGTTAATGGCTC-TTTG
* * * **
21746849 GAACTTCCCGATATATGGCTATCCG
1 GAGCTTCCCGTTA-ATGGCTCTTTG
21746874 GAGCTTCCCGTTAATGGCTCTTTG
1 GAGCTTCCCGTTAATGGCTCTTTG
* *
21746898 GAGCTACCCGTTATTGGCTC
1 GAGCTTCCCGTTAATGGCTC
21746918 GCATGAGCAT
Statistics
Matches: 88, Mismatches: 25, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
23 16 0.18
24 27 0.31
25 26 0.30
26 19 0.22
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTTTG
Found at i:21746916 original size:48 final size:48
Alignment explanation
Indices: 21746775--21746916 Score: 117
Period size: 48 Copynumber: 2.9 Consensus size: 48
21746765 GTCTTTTCGT
* * * * *
21746775 GAGCTTCCCGATTAAAGGGTCTTTTTGAGCTTCCCGATTAATGGCTCTCCG
1 GAGCTTCCCG-TTAATGGCTC-GTTTGAGCTTCCCG-TTATTGGCTATCCG
* * * * * *
21746826 AAGCTTCCTGAT-ATGGCTCGCTTGAACTTCCCGATATATGGCTATCCG
1 GAGCTTCCCGTTAATGGCTCGTTTGAGCTTCCCGTTAT-TGGCTATCCG
*
21746874 GAGCTTCCCGTTAATGGCTC-TTTGGAGCTACCCGTTATTGGCT
1 GAGCTTCCCGTTAATGGCTCGTTT-GAGCTTCCCGTTATTGGCT
21746917 CGCATGAGCA
Statistics
Matches: 70, Mismatches: 18, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
47 2 0.03
48 36 0.51
49 23 0.33
50 1 0.01
51 8 0.11
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (48 bp):
GAGCTTCCCGTTAATGGCTCGTTTGAGCTTCCCGTTATTGGCTATCCG
Found at i:21749806 original size:25 final size:24
Alignment explanation
Indices: 21749778--21749869 Score: 85
Period size: 25 Copynumber: 3.7 Consensus size: 24
21749768 TCTTAATATA
21749778 TGGCTCTCTTGAGCTTCTCGTTATC
1 TGGCTCTCTTGAGCTTCTCGTTA-C
** * *
21749803 TGGCTCTCACGAGCTTCCCGATAAC
1 TGGCTCTCTTGAGCTTCTCG-TTAC
* *
21749828 TGGCTCTTTTGAGCTTCTCGATTAA
1 TGGCTCTCTTGAGCTTCTCG-TTAC
* *
21749853 TAGCTCTCTAGAGCTTC
1 TGGCTCTCTTGAGCTTC
21749870 CTGATATTAG
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
25 51 0.96
26 2 0.04
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (24 bp):
TGGCTCTCTTGAGCTTCTCGTTAC
Found at i:21749859 original size:50 final size:50
Alignment explanation
Indices: 21749778--21749875 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
21749768 TCTTAATATA
* *
21749778 TGGCTCTCTTGAGCTTCTCGTTATCTGGCTCTC-ACGAGCTTCCCGATAAC
1 TGGCTCTCTTGAGCTTCTCGTTATATAGCTCTCTA-GAGCTTCCCGATAAC
* *
21749828 TGGCTCTTTTGAGCTTCTCGATTA-ATAGCTCTCTAGAGCTTCCTGATA
1 TGGCTCTCTTGAGCTTCTCG-TTATATAGCTCTCTAGAGCTTCCCGATA
21749876 TTAGCTCGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 38 0.90
51 4 0.10
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.37
Consensus pattern (50 bp):
TGGCTCTCTTGAGCTTCTCGTTATATAGCTCTCTAGAGCTTCCCGATAAC
Found at i:21749957 original size:25 final size:25
Alignment explanation
Indices: 21749899--21749972 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 25
21749889 GCTTCCTGAT
** *
21749899 TATGGCTCTTATGAGTTTTTCGTTA
1 TATGGCTCAAATGAGTTTCTCGTTA
*** *
21749924 TACAACTCACATGAGTTTCTCGTTA
1 TATGGCTCAAATGAGTTTCTCGTTA
*
21749949 TATGGCTCAAATGAGCTTCTCGTT
1 TATGGCTCAAATGAGTTTCTCGTT
21749973 TACACGTCTA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.42
Consensus pattern (25 bp):
TATGGCTCAAATGAGTTTCTCGTTA
Found at i:21755401 original size:28 final size:28
Alignment explanation
Indices: 21755361--21755416 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
21755351 AGCTGTCGCG
21755361 GTTTGTGCTTCTATAATTCAATTTTGAT
1 GTTTGTGCTTCTATAATTCAATTTTGAT
21755389 GTTTGTGCTTCTATAATTCAATTTTGAT
1 GTTTGTGCTTCTATAATTCAATTTTGAT
21755417 TTACTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.11, G:0.14, T:0.54
Consensus pattern (28 bp):
GTTTGTGCTTCTATAATTCAATTTTGAT
Found at i:21766012 original size:30 final size:30
Alignment explanation
Indices: 21765978--21766040 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
21765968 ACTTAACAAG
21765978 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
21766008 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
21766038 CAA
1 CAA
21766041 TAAAATAAGT
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:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:21766089 original size:11 final size:11
Alignment explanation
Indices: 21766075--21766117 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
21766065 AAACAATAAC
21766075 AGCAAAATAGT
1 AGCAAAATAGT
* *
21766086 AGCAACATAAT
1 AGCAAAATAGT
* *
21766097 AGTAAAATGGT
1 AGCAAAATAGT
21766108 AGCAAAATAG
1 AGCAAAATAG
21766118 AGAGAAAACA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (11 bp):
AGCAAAATAGT
Found at i:21766095 original size:22 final size:22
Alignment explanation
Indices: 21766070--21766112 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
21766060 TATTCAAACA
21766070 ATAACAGCAAAATAGTAGCAAC
1 ATAACAGCAAAATAGTAGCAAC
* * *
21766092 ATAATAGTAAAATGGTAGCAA
1 ATAACAGCAAAATAGTAGCAA
21766113 AATAGAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (22 bp):
ATAACAGCAAAATAGTAGCAAC
Found at i:21766125 original size:22 final size:22
Alignment explanation
Indices: 21766069--21766125 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
21766059 ATATTCAAAC
* *
21766069 AATAACAGCAAAATAGTAGCAA
1 AATAAGAGTAAAATAGTAGCAA
* * *
21766091 CATAATAGTAAAATGGTAGCAA
1 AATAAGAGTAAAATAGTAGCAA
21766113 AATAGAGAG-AAAA
1 AATA-AGAGTAAAA
21766126 CAACAAGAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.58, C:0.09, G:0.18, T:0.16
Consensus pattern (22 bp):
AATAAGAGTAAAATAGTAGCAA
Found at i:21767082 original size:19 final size:17
Alignment explanation
Indices: 21767038--21767086 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 17
21767028 TGTTTGATTG
21767038 TTTATTAATATTAATATT
1 TTTATTAAT-TTAATATT
21767056 TTTAATTAGATTTAAATATT
1 TTT-ATTA-ATTT-AATATT
21767076 TTTATTAATTT
1 TTTATTAATTT
21767087 TAAACAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 7 0.25
19 10 0.36
20 11 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTATTAATTTAATATT
Found at i:21767088 original size:19 final size:19
Alignment explanation
Indices: 21767038--21767090 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
21767028 TGTTTGATTG
*
21767038 TTTATTAATATT-AATATT
1 TTTATTAATTTTAAATATT
21767056 TTTAATTAGA-TTTAAATATT
1 TTT-ATTA-ATTTTAAATATT
21767076 TTTATTAATTTTAAA
1 TTTATTAATTTTAAA
21767091 CAATAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 4 0.13
19 16 0.53
20 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTATTAATTTTAAATATT
Found at i:21772115 original size:32 final size:32
Alignment explanation
Indices: 21772074--21772136 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
21772064 AACCCCTCTT
*
21772074 CACAGAACAGAAATAAGTAAGGGTTTAAGGGC
1 CACAGAACAGAAATAAGTAAGGGCTTAAGGGC
21772106 CACAGAACAGAAATAAGTAAGGGCTTAAGGG
1 CACAGAACAGAAATAAGTAAGGGCTTAAGGG
21772137 ATCCCCTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.29, T:0.14
Consensus pattern (32 bp):
CACAGAACAGAAATAAGTAAGGGCTTAAGGGC
Found at i:21775701 original size:132 final size:132
Alignment explanation
Indices: 21775558--21775819 Score: 434
Period size: 132 Copynumber: 2.0 Consensus size: 132
21775548 TTCAACCTAC
* * * **
21775558 TCCACTACTGCTTATGGAAATGAGCTCTGTAATCTTCAATCTATTCCACTGCCAACCAGGGAGAT
1 TCCACTACTGCTTAGGGAAATAAGATCTAAAATCTTCAATCTATTCCACTGCCAACCAGGGAGAT
*
21775623 AGAATTACTGGCCTCAATGTACTCCACTGTAACCACATGGAGGTAAAATCTACCATCTTCGATCT
66 AGAATTACTGGCCTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCTACCATCTTCGATCT
21775688 GT
131 GT
*
21775690 TCCACTACTGCTTAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGCCAACCAGGGAGAT
1 TCCACTACTGCTTAGGGAAATAAGATCTAAAATCTTCAATCTATTCCACTGCCAACCAGGGAGAT
* * *
21775755 AGAATTACTGGCTTCAATGTACTCCACTGTAATCACAAGGAGGTAAAATCTGCCATCTTCGATCT
66 AGAATTACTGGCCTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCTACCATCTTCGATCT
21775820 TTAATCTATT
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 120 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAAATAAGATCTAAAATCTTCAATCTATTCCACTGCCAACCAGGGAGAT
AGAATTACTGGCCTCAATGTACTCCACTGTAACCACAAGGAGGTAAAATCTACCATCTTCGATCT
GT
Found at i:21775707 original size:88 final size:88
Alignment explanation
Indices: 21775440--21775711 Score: 221
Period size: 88 Copynumber: 3.1 Consensus size: 88
21775430 CGCAACGTCG
*
21775440 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAAT-TCACCATC
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTATGGAGGTAAAATCT-ACCATC
*
21775504 TTCGATCTGCTCCACTACTGCTTA
65 TTCGATCTGTTCCACTACTGCTTA
* * * *** ** ** * ** ***
21775528 GGGTGACAGAATCTGCAATCTTCAACCTACTCCAC--T-ACTGCTTATGGAAATGAGCTCTGTAA
1 GGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTAAC--CTTATGGAGGTAAAATCTACCA
* * * ** *
21775590 TCTTCAATCTATTCCACTGCCAAC-CA
63 TCTTCGATCTGTTCCACT-ACTGCTTA
* **
21775616 GGGAGATAGAATTACTGGCCTCAATGTACTCCACTGTAACCACATGGAGGTAAAATCTACCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTATGGAGGTAAAATCTACCATCT
21775681 TCGATCTGTTCCACTACTGCTTA
66 TCGATCTGTTCCACTACTGCTTA
21775704 GGGAGATA
1 GGGAGATA
21775712 AGATCTAAAA
Statistics
Matches: 126, Mismatches: 49, Indels: 18
0.65 0.25 0.09
Matches are distributed among these distances:
86 2 0.02
87 18 0.14
88 84 0.67
89 20 0.16
90 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (88 bp):
GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTTATGGAGGTAAAATCTACCATCT
TCGATCTGTTCCACTACTGCTTA
Found at i:21775783 original size:43 final size:43
Alignment explanation
Indices: 21775591--21775878 Score: 125
Period size: 44 Copynumber: 6.4 Consensus size: 43
21775581 GCTCTGTAAT
*
21775591 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGG
1 CTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTACTGG
* * * * * * ***
21775634 CCTCAATGTACTCCACTG-TAACCACATGGAGGTAAAATCTACCAT
1 CTTCAATCTACTCCACTGCCAA-C-CAGGGAGATAGAAT-TACTGG
* ** * ** * ****
21775679 CTTCGATCTGTTCCACT-ACTGCTTAGGGAGATA-AGATCTAAAAT
1 CTTCAATCTACTCCACTGCCAAC-CAGGGAGATAGA-AT-TACTGG
*
21775723 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGG
1 CTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTACTGG
* * * * * *
21775766 CTTCAATGTACTCCACTG-TAATCACAAGGAGGTAAAATCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAA-C-CAGGGAGATAGAAT-T---A-C-T-G-G
* *
21775818 CTTTAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGG
1 CTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTACTGG
*
21775861 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
21775879 TAATCACAAG
Statistics
Matches: 175, Mismatches: 52, Indels: 36
0.67 0.20 0.14
Matches are distributed among these distances:
42 4 0.02
43 51 0.29
44 64 0.37
45 20 0.11
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 2 0.01
51 12 0.07
52 16 0.09
53 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTACTGG
Found at i:21775884 original size:95 final size:95
Alignment explanation
Indices: 21775721--21776154 Score: 746
Period size: 95 Copynumber: 4.6 Consensus size: 95
21775711 AAGATCTAAA
*
21775721 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
1 ATCTTTAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
21775786 ATCACAAGGAGGTAAAATCTGCCATCTTCG
66 ATCACAAGGAGGTAAAATCTGCCATCTTCG
21775816 ATCTTTAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
1 ATCTTTAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
21775881 ATCACAAGGAGGTAAAATCTGCCATCTTCG
66 ATCACAAGGAGGTAAAATCTGCCATCTTCG
*
21775911 ATCTTTAATCTATTCCACTGCCAACCAAGGAGATAGAATTA-TCGGCTTCAATGTACTCCACTGT
1 ATCTTTAATCTATTCCACTGCCAACCAGGGAGATAGAATTACT-GGCTTCAATGTACTCCACTGT
* *
21775975 AGTCACAGGGAGGTAAAATCTGCCATCTTCG
65 AATCACAAGGAGGTAAAATCTGCCATCTTCG
*
21776006 ATCTTTAATCTATTCCACTGCCAACCAAGGAGATAGAATTA-TCGGCTTCAATGTACTCCACTGT
1 ATCTTTAATCTATTCCACTGCCAACCAGGGAGATAGAATTACT-GGCTTCAATGTACTCCACTGT
* *
21776070 AGTCACAGGGAGGTAAAATCTGCCATCTTCG
65 AATCACAAGGAGGTAAAATCTGCCATCTTCG
* * *
21776101 ATATTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGATTCAATGT
1 ATCTTTAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGT
21776155 CTGTTTAAAT
Statistics
Matches: 329, Mismatches: 8, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
94 1 0.00
95 327 0.99
96 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (95 bp):
ATCTTTAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
ATCACAAGGAGGTAAAATCTGCCATCTTCG
Found at i:21776208 original size:190 final size:189
Alignment explanation
Indices: 21775724--21776214 Score: 562
Period size: 190 Copynumber: 2.6 Consensus size: 189
21775714 ATCTAAAATC
* * * * *
21775724 TTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTA-CTGGCTTCAATGTACTCCACTGTAAT
1 TTCAATCTATTCCACTGCCAACCAAGGAGATAGAATTATC-GGATTCAATGTACTCAAATGCAAT
* ** * * * *
21775788 CACAAGGAGGTAAAATCTGCCATCTTCGATCTTTAATCTATTCCACTGCCAACCAGGGAGATAGA
65 CACAGGGAAATAAAATCTGCCATCGTC-AGCTTCAATCTATTCCACTGCCAACCAAGGAGATAGA
*
21775853 ATTACTGGCTTCAATGTACTCCACTGTAATCACAAGGAGGTAAAATCTGCCATCTTCGATC
129 ATTACTGGCTTCAATGTACTCCACTGTAATCACAAGGAGGTAAAATCTGCCATCTTCGATA
* * * * * *
21775914 TTTAATCTATTCCACTGCCAACCAAGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTC
1 TTCAATCTATTCCACTGCCAACCAAGGAGATAGAATTATCGGATTCAATGTACTCAAATGCAATC
** * * *
21775979 ACAGGGAGGTAAAATCTGCCATCTTCGATCTTTAATCTATTCCACTGCCAACCAAGGAGATAGAA
66 ACAGGGAAATAAAATCTGCCATCGTC-AGCTTCAATCTATTCCACTGCCAACCAAGGAGATAGAA
* *
21776044 TTA-TCGGCTTCAATGTACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCGATA
130 TTACT-GGCTTCAATGTACTCCACTGTAATCACAAGGAGGTAAAATCTGCCATCTTCGATA
* *
21776104 TTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTA-CTGGATTCAATGT-CTGTTTAAATGC
1 TTCAATCTATTCCACTGCCAACCAAGGAGATAGAATTATC-GGATTCAATGTAC---TCAAATGC
** * * *
21776167 AATGTCGGGGAAATAAGAT-TCGCCGTCGT-AGCTTCAATCTATTCCACT
62 AATCACAGGGAAATAAAATCT-GCCATCGTCAGCTTCAATCTATTCCACT
21776215 ACATCCCCAG
Statistics
Matches: 268, Mismatches: 26, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
189 3 0.01
190 241 0.90
191 2 0.01
192 22 0.08
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (189 bp):
TTCAATCTATTCCACTGCCAACCAAGGAGATAGAATTATCGGATTCAATGTACTCAAATGCAATC
ACAGGGAAATAAAATCTGCCATCGTCAGCTTCAATCTATTCCACTGCCAACCAAGGAGATAGAAT
TACTGGCTTCAATGTACTCCACTGTAATCACAAGGAGGTAAAATCTGCCATCTTCGATA
Found at i:21776274 original size:100 final size:100
Alignment explanation
Indices: 21776158--21777096 Score: 961
Period size: 100 Copynumber: 9.5 Consensus size: 100
21776148 TCAATGTCTG
* * * * * * * *
21776158 TTTAAATGCAATGTCGGGGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACATCCCC
1 TTTAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC
* * *
21776223 AGGGAAAGTAAGATTCGTCGTTGTGGCCTCAATCT
66 TGGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCT
* * * * * *
21776258 TTTAATTGCAATGTCGGGGAAG-CAGATTCACCGTTGTAGCTTCAATTTGTTCCACTGCACCGCT
1 TTTAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC
* *
21776322 TGGGAAAGTAAGATTCGTCGTGGTGGCTTCAATCT
66 TGGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCT
* * *
21776357 TTTAATTGCAATGTTGGAGAAGCT-AGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCA-CTG
1 TTTAATTGCAATGTCGGGGAAG-TGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATC-G
* * *
21776420 CCTGGGAAAGTAAGATTCACTGTTGTAGCTTCAATCT
64 CCTGGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCT
* * * * * * *
21776457 TTTAATTGTAATATCAGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTTCGCTACATCGCC
1 TTTAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC
21776522 T-GGAAAGTAAGATTCGCCGTTGTGGCTTCAATCT
66 TGGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCT
* * * * ** *
21776556 TTAAAATCGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTTCGCTTTATTGC
1 TT-TAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * *
21776621 CT-TG-AAGTGAGATTCGCCGTCGTAGCTTCAATCT
65 CTGGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCT
**** * *
21776655 GTTCCGCTGC-ATCGCCTGGG-A---AG--T---C---GTAGCTTCAATCTGTTCCGCTGCATCG
1 -TTTAATTGCAAT-GTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCG
* * *
21776707 CCTGGG-AAGTAAGATTCACCATTGTGGCTTAAATCT
64 CCTGGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCT
* * * * *
21776743 TTTAAATTACAATGTCGGGGAAGTAAGATTTGCCGTCGTAGCTTTAATCTGTTCCGCTGCATCGC
1 TTT-AATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGC
*
21776808 CTGGG-AAGTAAGATTCACCGTTGTGGCTTCAATCT
65 CTGGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCT
* *
21776843 TTAAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCTGCTGCATCGC
1 TT-TAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGC
* * *
21776908 CT-GG-AAGTAAGATTCACCGTCGTGGCTTCAATAT
65 CTGGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCT
* * * * *
21776942 TTTAAATTGCAATGTCGGGGAAGTGAGATTCACCGTCGTAACTTTAATTTGTTCCGCTGCATCGC
1 TTT-AATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * *
21777007 CTAGGAAGGTAAGATTCGCCATTGTGGCCTCAATCT
65 CTGGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCT
* ** *
21777043 TTTAATTGCAATATCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCC
1 TTTAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCC
21777097 ACTGTACCGC
Statistics
Matches: 703, Mismatches: 109, Indels: 54
0.81 0.13 0.06
Matches are distributed among these distances:
87 28 0.04
88 32 0.05
89 3 0.00
90 1 0.00
92 2 0.00
93 1 0.00
94 1 0.00
95 2 0.00
97 1 0.00
98 3 0.00
99 241 0.34
100 360 0.51
101 28 0.04
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (100 bp):
TTTAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC
TGGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCT
Found at i:21776351 original size:51 final size:51
Alignment explanation
Indices: 21776174--21776454 Score: 161
Period size: 51 Copynumber: 5.6 Consensus size: 51
21776164 TGCAATGTCG
* * * * * **
21776174 GGGAAA-TAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACA-TCCCCA
1 GGGAAAGTAAGATTCGCCGTGGTAGCTTCAATTTGTTCCACTGCACT-GCTT
* * * * * * * *
21776224 GGGAAAGTAAGATTCGTCGTTGTGGCCTCAATCTT-TT-AATTGCAATG-TC
1 GGGAAAGTAAGATTCGCCGTGGTAGCTTCAAT-TTGTTCCACTGCACTGCTT
* * * * *
21776273 GGGGAAG-CAGATTCACCGTTGTAGCTTCAATTTGTTCCACTGCACCGCTT
1 GGGAAAGTAAGATTCGCCGTGGTAGCTTCAATTTGTTCCACTGCACTGCTT
* * * * *
21776323 GGGAAAGTAAGATTCGTCGTGGTGGCTTCAATCTT-TT-AATTGCAATG-TT
1 GGGAAAGTAAGATTCGCCGTGGTAGCTTCAAT-TTGTTCCACTGCACTGCTT
* * *
21776372 -GGAGAAGCT-AGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCT
1 GGGA-AAG-TAAGATTCGCCGTGGTAGCTTCAATTTGTTCCACTGCACTGCTT
* * *
21776423 GGGAAAGTAAGATTCACTGTTGTAGCTTCAAT
1 GGGAAAGTAAGATTCGCCGTGGTAGCTTCAAT
21776455 CTTTTAATTG
Statistics
Matches: 174, Mismatches: 42, Indels: 29
0.71 0.17 0.12
Matches are distributed among these distances:
47 2 0.01
48 25 0.14
49 39 0.22
50 32 0.18
51 70 0.40
52 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (51 bp):
GGGAAAGTAAGATTCGCCGTGGTAGCTTCAATTTGTTCCACTGCACTGCTT
Found at i:21776529 original size:199 final size:200
Alignment explanation
Indices: 21776158--21777096 Score: 1002
Period size: 199 Copynumber: 4.8 Consensus size: 200
21776148 TCAATGTCTG
* * * * *
21776158 TTTAAA-TGCAATGTCGGGGAAATAAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACATCCC
1 TTTAAATTGCAATGTCGGGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* ** * *
21776222 CAGGGAAAGTAAGATTCGTCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGC-AGATT
66 CTGGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATATCGGGGAAGCGAGATT
* * * * ** *
21776286 CACCGTTGTAGCTTCAATTTGTTCCACTGCACCGCTTGGGAAAGTAAGATTCGTCGTGGTGGCTT
131 CACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT-GGAAAGTAAGATTCACCGTTGTGGCTT
21776351 CAATCT
195 CAATCT
* * * *
21776357 TTT-AATTGCAATGTTGGAGAAGCT-AGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCA-CT
1 TTTAAATTGCAATGTCGGGGAAG-TAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATC-
* * * *
21776419 GCCTGGGAAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTAATTGTAATATCAGGGAAGCGAGA
64 GCCTGGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATATCGGGGAAGCGAGA
* * *
21776484 TTCACCGTTGTAGCTTCAATCTGTTTCGCTACATCGCCTGGAAAGTAAGATTCGCCGTTGTGGCT
129 TTCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAAGTAAGATTCACCGTTGTGGCT
21776549 TCAATCT
194 TCAATCT
* * ** * * ** *
21776556 TTAAAATCGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTTCGCTTTATTGC
1 TTTAAATTGCAATGTCGGGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * * * **** ***
21776621 CT-TG-AAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGC---ATC--GCCTG-G-GA-
66 CTGGGAAAGTAAGATTCACCGTTGTGGCTTCAATCT-TTTAATTGCAATATCGGGGAAGCGAGAT
* * *
21776676 --A--GTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCACCATTGTGGCTT
130 TCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAAGTAAGATTCACCGTTGTGGCTT
*
21776737 AAATCT
195 CAATCT
* * *
21776743 TTTAAATTACAATGTCGGGGAAGTAAGATTTGCCGTCGTAGCTTTAATCTGTTCCGCTGCATCGC
1 TTTAAATTGCAATGTCGGGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * *
21776808 CTGGG-AAGTAAGATTCACCGTTGTGGCTTCAATCTTTAAAATTGCAATGTCGGGGAAGTGAGAT
66 CTGGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTT-TAATTGCAATATCGGGGAAGCGAGAT
* * *
21776872 TCGCCGTTGTAGCTTCAATCTGTTCTGCTGCATCGCCTGG-AAGTAAGATTCACCGTCGTGGCTT
130 TCACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAAGTAAGATTCACCGTTGTGGCTT
*
21776936 CAATAT
195 CAATCT
* * * * *
21776942 TTTAAATTGCAATGTCGGGGAAGTGAGATTCACCGTCGTAACTTTAATTTGTTCCGCTGCATCGC
1 TTTAAATTGCAATGTCGGGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * * * *
21777007 CTAGGAAGGTAAGATTCGCCATTGTGGCCTCAATCTTTTAATTGCAATATCGGGGAAGCAAGATT
66 CTGGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATATCGGGGAAGCGAGATT
* *
21777072 CGCTGTTGTAGCTTCAATCTGTTCC
131 CACCGTTGTAGCTTCAATCTGTTCC
21777097 ACTGTACCGC
Statistics
Matches: 614, Mismatches: 103, Indels: 46
0.80 0.13 0.06
Matches are distributed among these distances:
187 116 0.19
188 30 0.05
189 1 0.00
191 2 0.00
192 2 0.00
193 3 0.00
194 3 0.00
195 2 0.00
196 3 0.00
198 29 0.05
199 273 0.44
200 150 0.24
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (200 bp):
TTTAAATTGCAATGTCGGGGAAGTAAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
CTGGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTAATTGCAATATCGGGGAAGCGAGATT
CACCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAAGTAAGATTCACCGTTGTGGCTTC
AATCT
Found at i:21776585 original size:50 final size:49
Alignment explanation
Indices: 21776158--21777091 Score: 293
Period size: 50 Copynumber: 19.0 Consensus size: 49
21776148 TCAATGTCTG
* ** *
21776158 TTTAAATGCAATGTCGGGGAAATAAGATTCGCCGTCGTAGCTTCAATCT
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
** * * ** * * * * *
21776207 ATTCCACTAC-ATCCCCAGGGAAAGTAAGATTCGTCGTTGTGGCCTCAATCT
1 -TTTAATTGCAAT-GTC-GGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
*
21776258 TTTAATTGCAATGTCGGGGAAGC-AGATTCACCGTTGTAGCTTCAAT-T
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
* * ** * * * * * *
21776305 TGTTCCACTGCACCGCTTGGGAAAGTAAGATTCGTCGTGGTGGCTTCAATCT
1 T-TT-AATTGCAATG-TCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
* * *
21776357 TTTAATTGCAATGTTGGAGAAGCTAGATTCGCCGTTGTAGCTTCAATCT
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
** * * * * * * *
21776406 GTTCCACTGCACTGCCTGGGAAAGTAAGATTCACTGTTGTAGCTTCAATCT
1 -TTTAATTGCAATGTC-GGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
* * * * *
21776457 TTTAATTGTAATATCAGGGAAGCGAGATTCACCGTTGTAGCTTCAATCT
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
* * * * * * *
21776506 GTT--TCGCTACATCGCCTGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCT
1 TTTAATTGC-A-AT-GTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
* * *
21776556 TTAAAATCGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCT
1 TT-TAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
** * * *** ** *
21776606 GTTTCGCTT-TATTG-CCTTGAAGTGAGATTCGCCGTCGTAGCTTCAATCT
1 -TTT-AATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
**** **
21776655 GTTCCGCTGC-ATCG-CCTGG--G-AAG--T---C---GTAGCTTCAATCT
1 -TTTAATTGCAAT-GTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
**** * * * * * * *
21776693 GTTCCGCTGC-ATCGCCTGGGAAGTAAGATTCACCATTGTGGCTTAAATCT
1 -TTTAATTGCAAT-GTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
* * * * *
21776743 TTTAAATTACAATGTCGGGGAAGTAAGATTTGCCGTCGTAGCTTTAATCT
1 TTT-AATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
**** * * * * *
21776793 GTTCCGCTGC-ATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCT
1 -TTTAATTGCAAT-GTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
* **
21776843 TTAAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCT
1 TT-TAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
** ** * * * * *
21776893 GTTCT-GCTGC-ATCG-CCTGGAAGTAAGATTCACCGTCGTGGCTTCAATAT
1 -TT-TAATTGCAAT-GTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
** * * * *
21776942 TTTAAATTGCAATGTCGGGGAAGTGAGATTCACCGTCGTAACTTTAAT-T
1 TTT-AATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
*** * ** * * * *
21776991 TGTTCCGCTGC-ATCGCCTAGGAAGGTAAGATTCGCCATTGTGGCCTCAATCT
1 T-TT-AATTGCAAT-GTCGGGGAA-GCAAGATTCGCCGTTGTAGCTTCAATCT
* *
21777043 TTTAATTGCAATATCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCT
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
21777092 GTTCCACTGT
Statistics
Matches: 643, Mismatches: 192, Indels: 99
0.69 0.21 0.11
Matches are distributed among these distances:
38 27 0.04
39 3 0.00
41 2 0.00
42 3 0.00
44 2 0.00
46 2 0.00
47 7 0.01
48 26 0.04
49 181 0.28
50 267 0.42
51 114 0.18
52 5 0.01
53 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (49 bp):
TTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
Found at i:21776690 original size:38 final size:38
Alignment explanation
Indices: 21776639--21776716 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
21776629 GAGATTCGCC
21776639 GTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
1 GTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
21776677 GTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
1 GTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
21776715 GT
1 GT
21776717 AAGATTCACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.29
Consensus pattern (38 bp):
GTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
Found at i:21776809 original size:287 final size:287
Alignment explanation
Indices: 21776181--21776939 Score: 805
Period size: 287 Copynumber: 2.6 Consensus size: 287
21776171 TCGGGGAAAT
* * * * * **
21776181 AAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACATCCCCAGGGAAAGTAAGATTCGTCGTTG
1 AAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTACATCGCC-TGGAAAGTAAGATTCACCGTTG
* * * * *
21776246 TGGCCTCAATCTTT-TAATTGCAATGTCGGGGAAGC-AGATTCACCGTTGTAGCTTCAATTTGTT
65 TGGCTTCAATCTTTAAAATCGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTT
** * * ** * * **** *
21776309 CCACTGCACCGCTTGGGAAAGTAAGATTCGTCGTGGTGGCTTCAATCT-TTTAATTGCAAT-G-T
130 CTGCTGCATCGCCT-GG-AAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCC
21776371 TGGAGAAGCTAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCACTGCCTGGGAAAGTAAGAT
192 TGG-G-A---AG--T---C---GTAGCTTCAATCTGTTCCACTGCACTGCCTGGGAAAGTAAGAT
** * **
21776436 TCACTGTTGTAGCTTCAATCTTTTAATTGTAATATCAGGGAAGC
244 TCACCATTGTAGCTTAAATCTTTTAATTACAATATCAGGGAAGC
* * * *
21776480 GAGATTCACCGTTGTAGCTTCAATCTGTTTCGCTACATCGCCTGGAAAGTAAGATTCGCCGTTGT
1 AAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTACATCGCCTGGAAAGTAAGATTCACCGTTGT
21776545 GGCTTCAATCTTTAAAATCGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTT-
66 GGCTTCAATCTTTAAAATCGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTC
** * * * *
21776609 TCGCTTTATTGCCTTGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGG
131 T-GCTGCATCGCCTGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGG
* *
21776674 GAAGTCGTAGCTTCAATCTGTTCCGCTGCA-TCGCCTGGG-AAGTAAGATTCACCATTGTGGCTT
195 GAAGTCGTAGCTTCAATCTGTTCCACTGCACT-GCCTGGGAAAGTAAGATTCACCATTGTAGCTT
* * *
21776737 AAATCTTTTAAATTACAATGTCGGGGAAGT
259 AAATCTTTT-AATTACAATATCAGGGAAGC
** * * *
21776767 AAGATTTGCCGTCGTAGCTTTAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGT
1 AAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTACATCGCCTGGAAAGTAAGATTCACCGTTGT
* *
21776832 GGCTTCAATCTTTAAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTC
66 GGCTTCAATCTTTAAAATCGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTC
*
21776897 TGCTGCATCGCCTGGAAGTAAGATTCACCGTCGTGGCTTCAAT
131 TGCTGCATCGCCTGGAAGTAAGATTCACCGTCGTAGCTTCAAT
21776940 ATTTTAAATT
Statistics
Matches: 392, Mismatches: 59, Indels: 30
0.81 0.12 0.06
Matches are distributed among these distances:
286 30 0.08
287 198 0.51
288 1 0.00
290 1 0.00
293 1 0.00
295 2 0.01
298 62 0.16
299 62 0.16
300 35 0.09
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (287 bp):
AAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTACATCGCCTGGAAAGTAAGATTCACCGTTGT
GGCTTCAATCTTTAAAATCGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTC
TGCTGCATCGCCTGGAAGTAAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGG
AAGTCGTAGCTTCAATCTGTTCCACTGCACTGCCTGGGAAAGTAAGATTCACCATTGTAGCTTAA
ATCTTTTAATTACAATATCAGGGAAGC
Found at i:21777215 original size:43 final size:43
Alignment explanation
Indices: 21777168--21777480 Score: 124
Period size: 44 Copynumber: 7.2 Consensus size: 43
21777158 GCAAGATCTG
*
21777168 TTGTCTTCAACCAGCTCCACTACAACCGCGAGAGCCAAGGTTT
1 TTGTCTTCAACCAGCTCCACTACAACCGCGAGAGGCAAGGTTT
* * * * * * * * *
21777211 TTGTCTTCGATCTGCTTCGCTGTCAA-GGC-AGGAAGGCAAGATCTG
1 TTGTCTTCAACCAGCTCCACT-ACAACCGCGA-G-AGGCAAGGT-TT
* *
21777256 TTGTCTTCAACCAGCTCCACTACAACTGAGAGAGGCAAGGTTT
1 TTGTCTTCAACCAGCTCCACTACAACCGCGAGAGGCAAGGTTT
* * * * * * * *
21777299 GTGTCTTCGATCTA-CTTCGCTGTCAA--G-GTAGGAAGGCAAGATCTG
1 TTGTCTTC-AACCAGCTCCACT-ACAACCGCG-A-G-AGGCAAGGT-TT
* *
21777344 TTGTCTTCAACCAGCTCCACTACAA--TCGAGAGGTAAGGTTT
1 TTGTCTTCAACCAGCTCCACTACAACCGCGAGAGGCAAGGTTT
* * * * * * * * * *
21777385 GTGTCTTCGATCTGCTTCGCTGTCAA-GGC-AGGAAGGCAAGATCTG
1 TTGTCTTCAACCAGCTCCACT-ACAACCGCGA-G-AGGCAAGGT-TT
*
21777430 TTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTT
1 TTGTCTTCAACCAGCTCCACTACAACCGCGAGAGGCAAGGTTT
*
21777473 GTGTCTTC
1 TTGTCTTC
21777481 GATCTGCTTC
Statistics
Matches: 188, Mismatches: 61, Indels: 42
0.65 0.21 0.14
Matches are distributed among these distances:
41 17 0.09
42 14 0.07
43 44 0.23
44 60 0.32
45 51 0.27
46 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (43 bp):
TTGTCTTCAACCAGCTCCACTACAACCGCGAGAGGCAAGGTTT
Found at i:21777258 original size:88 final size:88
Alignment explanation
Indices: 21777121--21777526 Score: 642
Period size: 88 Copynumber: 4.6 Consensus size: 88
21777111 GAAAGTTAGA
* *
21777121 TTTGCTGTCTTAGATCTGC-TCTGTTGTCAA--CAGGAAGGCAAGATCTGTTGTCTTCAACCAGC
1 TTTG-TGTCTTCGATCTGCTTC-GCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGC
* *
21777183 TCCACTACAACCGCGAGAGCCAAGG
64 TCCACTACAACCGAGAGAGGCAAGG
*
21777208 TTTTTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
*
21777273 CACTACAACTGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* *
21777296 TTTGTGTCTTCGATCTACTTCGCTGTCAAGGTAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
* *
21777361 CACTACAATC--GAGAGGTAAGG
66 CACTACAACCGAGAGAGGCAAGG
21777382 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
21777447 CACTACAACCGAGAGAGGCAAGG
66 CACTACAACCGAGAGAGGCAAGG
* * *
21777470 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAAGCAAGATATGATGTCTTCA
1 TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCA
21777527 TTGATCTGTT
Statistics
Matches: 295, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
86 102 0.35
87 5 0.02
88 188 0.64
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (88 bp):
TTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTC
CACTACAACCGAGAGAGGCAAGG
Found at i:21777444 original size:174 final size:175
Alignment explanation
Indices: 21777151--21777526 Score: 646
Period size: 174 Copynumber: 2.1 Consensus size: 175
21777141 CTGTTGTCAA
*
21777151 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGCGAGAGCCAAGGTTTTTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAA-CGCGAGAGCCAAGGTTTGTGTC
21777216 TTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAA
65 TTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAA
*
21777281 CTGAGAGAGGCAAGGTTTGTGTCTTCGATCTACTTCGCTGTCAAGG
130 CCGAGAGAGGCAAGGTTTGTGTCTTCGATCTACTTCGCTGTCAAGG
* * **
21777327 TAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAA-TCGAGAGGTAAGGTTTGTGTCT
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACGCGAGAGCCAAGGTTTGTGTCT
21777391 TCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAAC
66 TCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAAC
*
21777456 CGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAAGG
131 CGAGAGAGGCAAGGTTTGTGTCTTCGATCTACTTCGCTGTCAAGG
* * *
21777501 CAGGAAAGCAAGATATGATGTCTTCA
1 CAGGAAGGCAAGATCTGTTGTCTTCA
21777527 TTGATCTGTT
Statistics
Matches: 189, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
174 148 0.78
176 41 0.22
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (175 bp):
CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACGCGAGAGCCAAGGTTTGTGTCT
TCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAAC
CGAGAGAGGCAAGGTTTGTGTCTTCGATCTACTTCGCTGTCAAGG
Found at i:21778666 original size:43 final size:43
Alignment explanation
Indices: 21778601--21778702 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 43
21778591 TGCCCCGATC
*
21778601 TGAT-CAAAATTTGAGCTGCTCTGATCACCTCATG-CCCTAATT-
1 TGATCCAAAATTTGAGCTGCTCTGATCACCTAATGTCCC--ATTA
21778643 TGATCCAAAATTTGAG-TCGCTCTGATCACCTAATGTCCCATTA
1 TGATCCAAAATTTGAGCT-GCTCTGATCACCTAATGTCCCATTA
*
21778686 TGATCAAAAATTTGAGC
1 TGATCCAAAATTTGAGC
21778703 CGCCCTTTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
42 8 0.15
43 42 0.79
44 3 0.06
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (43 bp):
TGATCCAAAATTTGAGCTGCTCTGATCACCTAATGTCCCATTA
Found at i:21779639 original size:14 final size:15
Alignment explanation
Indices: 21779620--21779650 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21779610 TATTTTTGAC
21779620 TTTGATT-ATTTTTT
1 TTTGATTGATTTTTT
21779634 TTTGATTGATTTTTT
1 TTTGATTGATTTTTT
21779649 TT
1 TT
21779651 GAGTCTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (15 bp):
TTTGATTGATTTTTT
Found at i:21782840 original size:16 final size:16
Alignment explanation
Indices: 21782819--21782859 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
21782809 AATAATGGAA
21782819 ATATATAAAAACATGT
1 ATATATAAAAACATGT
* **
21782835 ATATATGAAAGTATGT
1 ATATATAAAAACATGT
21782851 ATATATAAA
1 ATATATAAA
21782860 TTAAGGAGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (16 bp):
ATATATAAAAACATGT
Found at i:21786309 original size:20 final size:20
Alignment explanation
Indices: 21786284--21786336 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
21786274 TGGGTACTCG
* *
21786284 TATTTTTTAGTATTCCCTTA
1 TATTTTTTAGTAATCCCTAA
21786304 TATTTTTT-GATAATCCCTAA
1 TATTTTTTAG-TAATCCCTAA
21786324 TATTTTTTTAGTA
1 TA-TTTTTTAGTA
21786337 CTTTCTCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 1 0.04
20 18 0.64
21 8 0.29
22 1 0.04
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (20 bp):
TATTTTTTAGTAATCCCTAA
Found at i:21786371 original size:20 final size:20
Alignment explanation
Indices: 21786327--21786377 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
21786317 TCCCTAATAT
* **
21786327 TTTTTTAGTACTTTCTCATTT
1 TTTTTT-GTATTTTCTCATAA
21786348 TTTTTTGTATTTTCTCATAA
1 TTTTTTGTATTTTCTCATAA
21786368 TTTTTTGTAT
1 TTTTTTGTAT
21786378 GCCCTAAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTTTTGTATTTTCTCATAA
Found at i:21786510 original size:19 final size:18
Alignment explanation
Indices: 21786478--21786521 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
21786468 CCTCATGTTT
*
21786478 TTTTTGGTATTCTCATATAA
1 TTTTT-GTACTCTCATAT-A
*
21786498 TTTTTGTACTCTCTTATA
1 TTTTTGTACTCTCATATA
21786516 TTTTTG
1 TTTTTG
21786522 AGTACTCGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 10 0.45
20 5 0.23
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.61
Consensus pattern (18 bp):
TTTTTGTACTCTCATATA
Found at i:21786528 original size:20 final size:20
Alignment explanation
Indices: 21786478--21786528 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
21786468 CCTCATGTTT
*
21786478 TTTTTGGTATTCTCATATAA
1 TTTTTGGTACTCTCATATAA
*
21786498 TTTTT-GTACTCTCTTAT-A
1 TTTTTGGTACTCTCATATAA
21786516 TTTTTGAGTACTC
1 TTTTTG-GTACTC
21786529 GTATCTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 6 0.22
19 10 0.37
20 11 0.41
ACGTcount: A:0.20, C:0.14, G:0.10, T:0.57
Consensus pattern (20 bp):
TTTTTGGTACTCTCATATAA
Found at i:21786989 original size:20 final size:20
Alignment explanation
Indices: 21786947--21786991 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
21786937 TTTTGTATAC
*
21786947 TTTTTAGTATTACCTCATAA
1 TTTTTAGTATTACCGCATAA
** *
21786967 TTTTTAGTATTTTCGCATGA
1 TTTTTAGTATTACCGCATAA
21786987 TTTTT
1 TTTTT
21786992 TTTTTACTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.58
Consensus pattern (20 bp):
TTTTTAGTATTACCGCATAA
Found at i:21787112 original size:37 final size:38
Alignment explanation
Indices: 21787016--21787112 Score: 99
Period size: 37 Copynumber: 2.5 Consensus size: 38
21787006 TTTTTTATTT
* *
21787016 CCTTATAATATTTGGTATTCCCTCGTAATACTTGGTACT
1 CCTTATAATTTTTGGTATTCCCTC-TAATACTTGGTACC
* ** *
21787055 CCTTCATATTTTTTTATATTCCCT-T-ATATTTGGTATCC
1 CCTT-ATAATTTTTGGTATTCCCTCTAATACTTGGTA-CC
21787093 CCTTATAATTTTTGGTATTC
1 CCTTATAATTTTTGGTATTC
21787113 TCATAATTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
37 22 0.47
38 6 0.13
39 4 0.09
40 15 0.32
ACGTcount: A:0.21, C:0.20, G:0.09, T:0.51
Consensus pattern (38 bp):
CCTTATAATTTTTGGTATTCCCTCTAATACTTGGTACC
Found at i:21787916 original size:20 final size:21
Alignment explanation
Indices: 21787868--21787916 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
21787858 ATCAAAAGGG
* *
21787868 TACCAAAAAATTATGAGAGAA
1 TACCAAAAAATAATGAGAAAA
* *
21787889 TA-TAAAAAAAAATGAGAAAA
1 TACCAAAAAATAATGAGAAAA
21787909 TACCAAAA
1 TACCAAAA
21787917 TACATAAAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.65, C:0.08, G:0.10, T:0.16
Consensus pattern (21 bp):
TACCAAAAAATAATGAGAAAA
Found at i:21788837 original size:2 final size:2
Alignment explanation
Indices: 21788830--21788878 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
21788820 ATACTATGAT
21788830 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
21788872 TC TC TC T
1 TC TC TC T
21788879 TTTGATGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:21795543 original size:28 final size:27
Alignment explanation
Indices: 21795503--21795578 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 27
21795493 TTTATTCAGT
* *
21795503 AAAACTCCTATTTTATTGGGATTGAATC
1 AAAACTCC-ATTTTATTGGGATTAAATA
21795531 AAAACTCTCATTTTATTGGGATTAAATA
1 AAAACTC-CATTTTATTGGGATTAAATA
21795559 AAAACTCCCATTTTATTGGG
1 AAAACT-CCATTTTATTGGG
21795579 GTTCATGATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 42 0.95
29 2 0.05
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.38
Consensus pattern (27 bp):
AAAACTCCATTTTATTGGGATTAAATA
Found at i:21799549 original size:25 final size:25
Alignment explanation
Indices: 21799518--21799585 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
21799508 TAAGCCCTCT
21799518 CGAGCTTCCCGTTATATAGTTCTTG
1 CGAGCTTCCCGTTATATAGTTCTTG
* *
21799543 TGAGCTTCCCGTTATATGGTTCTTG
1 CGAGCTTCCCGTTATATAGTTCTTG
21799568 CGAGCTTCCCGTTA-ATAG
1 CGAGCTTCCCGTTATATAG
21799586 CTTTTAAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 3 0.08
25 36 0.92
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (25 bp):
CGAGCTTCCCGTTATATAGTTCTTG
Found at i:21799729 original size:25 final size:25
Alignment explanation
Indices: 21799663--21799733 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 25
21799653 GTCCCGTTAT
21799663 ATGGCTCTTCGTGAGCTTTCCGATTA
1 ATGGCTCTTCGTGAGC-TTCCGATTA
* *
21799689 AAGGCTCTTTGTGAGCTTCCTGATTA
1 ATGGCTCTTCGTGAGCTTCC-GATTA
21799715 ATGGCTCTTCG-GAGCTTCC
1 ATGGCTCTTCGTGAGCTTCC
21799734 CGGTATGACT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.30
26 28 0.70
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (25 bp):
ATGGCTCTTCGTGAGCTTCCGATTA
Found at i:21799852 original size:73 final size:72
Alignment explanation
Indices: 21799700--21799856 Score: 165
Period size: 73 Copynumber: 2.2 Consensus size: 72
21799690 AGGCTCTTTG
* **
21799700 TGAGCTTCCTGATTAATGGCTCTTCGGAGCTTCCCGGTATGACTCGCTTGAACTTCCCGATATAT
1 TGAGCTTCCTGATTAATGGCTCTTCGGAGCTACCCGGTATGACTCGCACGAACTTCCCGATATAT
21799765 AGCTATC
66 AGCTATC
* * ** * *
21799772 TGAAGCTT-CTCGATTAATGGCTCTTCGGAGCTACCTGTTATTTTCTCGCACGAGCTTCCCGA-C
1 TG-AGCTTCCT-GATTAATGGCTCTTCGGAGCTACCCGGTA-TGACTCGCACGAACTTCCCGATA
* *
21799835 TATGGCTCTC
63 TATAGCTATC
21799845 ATGAGCTTCCTG
1 -TGAGCTTCCTG
21799857 TTATTTAGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
72 4 0.06
73 45 0.65
74 20 0.29
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (72 bp):
TGAGCTTCCTGATTAATGGCTCTTCGGAGCTACCCGGTATGACTCGCACGAACTTCCCGATATAT
AGCTATC
Found at i:21799899 original size:50 final size:49
Alignment explanation
Indices: 21799824--21799918 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 49
21799814 TTCTCGCACG
* **
21799824 AGCTTCCCGACTATGGCTCTCATGAGCTTCCTGTTATTTAGCTCGGATA
1 AGCTTCCCGACTATGGCTCACATGAGCTTCCCATTATTTAGCTCGGATA
*
21799873 AGCTTCCCGTTAC-ATGGCTCACATGAGCTTCCCATTATTTGGCTCG
1 AGCTTCCCG--ACTATGGCTCACATGAGCTTCCCATTATTTAGCTCG
21799919 AGAGTGTGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 9 0.22
50 29 0.73
51 2 0.05
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (49 bp):
AGCTTCCCGACTATGGCTCACATGAGCTTCCCATTATTTAGCTCGGATA
Found at i:21799901 original size:25 final size:25
Alignment explanation
Indices: 21799823--21799905 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
21799813 TTTCTCGCAC
*
21799823 GAGCTTCCCG--ACTATGGCTCTCAT
1 GAGCTTCCCGTTAC-ATGGCTCACAT
* ** * **
21799847 GAGCTTCCTGTTATTTAGCTCGGAT
1 GAGCTTCCCGTTACATGGCTCACAT
*
21799872 AAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGTTACATGGCTCACAT
21799897 GAGCTTCCC
1 GAGCTTCCC
21799906 ATTATTTGGC
Statistics
Matches: 43, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
24 9 0.21
25 33 0.77
26 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTACATGGCTCACAT
Found at i:21799915 original size:25 final size:25
Alignment explanation
Indices: 21799837--21799917 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
21799827 TTCCCGACTA
* *
21799837 TGGCTCTCATGAGCTTCCTGTTATT
1 TGGCTCACATGAGCTTCCCGTTATT
* ** * **
21799862 TAGCTCGGATAAGCTTCCCGTTACA
1 TGGCTCACATGAGCTTCCCGTTATT
*
21799887 TGGCTCACATGAGCTTCCCATTATT
1 TGGCTCACATGAGCTTCCCGTTATT
21799912 TGGCTC
1 TGGCTC
21799918 GAGAGTGTGC
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCCGTTATT
Found at i:21806938 original size:288 final size:287
Alignment explanation
Indices: 21806412--21806990 Score: 953
Period size: 288 Copynumber: 2.0 Consensus size: 287
21806402 GATTGGAGTT
* *
21806412 AAGTGAGTTTATAAGATTAAATTTGATGAAAACAAAAAAGTGAATGAACACAAGGCCAAGCTTGT
1 AAGTAAGTTTATAAGATTAAATTTGATGAAAACAAAAAAGAGAATGAACACAAGGCCAAGCTTGT
*
21806477 AGTGAAGGAGTATGCATAAAAACATGGGGTGGATGACATAGAAGTTTTTACCCGTGACATGTAAA
66 AGTGAAGGAGTATGCATAAAAACATGGGCTGGATGACATAGAAGTTTTTACCCGTGACATGTAAA
* *
21806542 TAGACAATTCAATTAGTGATAGCACTTGCAACTCAAAGGGGATGGTCCATATACTAACTAGACAA
131 TAGACAATTCAATTAGTGATACCACTTGCAACTCAAAAGGGATGGTCCATATACTAACTAGACAA
*
21806607 GTCATCATTTTTTACATGGTGAGTTGCATGAAATGTCTTTGTGGAACAATCTTGTGGTTATGTGT
196 GTCAGCATTTTTTACATGGTGAGTTGCATGAAATGTCTTTGTGGAACAATCTTGTGGTTATGTGT
*
21806672 AAAA-GGGAGGTGAGCAAAAGGATTAC
261 AAAAGGGGAGGTAAGCAAAAGGATTAC
**
21806698 AAGTAAGTTTATAAGATTAAATTTGATGAAAATGAAAAAGAGAATGAACACAAGGCCAAGCTTGT
1 AAGTAAGTTTATAAGATTAAATTTGATGAAAACAAAAAAGAGAATGAACACAAGGCCAAGCTTGT
* * * *
21806763 ATTGAAGGGGTATGCATAACAACATGGGCTGGATGACATAGAATTTTTTACACCTGTGACATGTA
66 AGTGAAGGAGTATGCATAAAAACATGGGCTGGATGACATAGAAGTTTTTAC-CC-GTGACATGTA
* **
21806828 TATAGACAATTCAATTAGTGATACCACTTGCATGTCAAAAGGGATGGTCCATATACTAACTAGAC
129 AATAGACAATTCAATTAGTGATACCACTTGCAACTCAAAAGGGATGGTCCATATACTAACTAGAC
* * *
21806893 AAGTTAGCATTTTTTATATGGTGAGTTGCATGAAATGTTTTTGTGGAACAATCTTGTGGTTATGT
194 AAGTCAGCATTTTTTACATGGTGAGTTGCATGAAATGTCTTTGTGGAACAATCTTGTGGTTATGT
*
21806958 GTAAAAGGGGGGGTAAGCAAAAGGATTAC
259 GTAAAAGGGGAGGTAAGCAAAAGGATTAC
21806987 AAGT
1 AAGT
21806991 TAAAAAAGGC
Statistics
Matches: 270, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
286 107 0.40
287 2 0.01
288 137 0.51
289 24 0.09
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (287 bp):
AAGTAAGTTTATAAGATTAAATTTGATGAAAACAAAAAAGAGAATGAACACAAGGCCAAGCTTGT
AGTGAAGGAGTATGCATAAAAACATGGGCTGGATGACATAGAAGTTTTTACCCGTGACATGTAAA
TAGACAATTCAATTAGTGATACCACTTGCAACTCAAAAGGGATGGTCCATATACTAACTAGACAA
GTCAGCATTTTTTACATGGTGAGTTGCATGAAATGTCTTTGTGGAACAATCTTGTGGTTATGTGT
AAAAGGGGAGGTAAGCAAAAGGATTAC
Found at i:21808031 original size:46 final size:46
Alignment explanation
Indices: 21807940--21808037 Score: 144
Period size: 47 Copynumber: 2.1 Consensus size: 46
21807930 CTTGCAATTC
*
21807940 AACAGGCTCACACTTTGCTTACTGTCTTCAACAGGCTCACAACTTT
1 AACAGGCTCACACTTGGCTTACTGTCTTCAACAGGCTCACAACTTT
* *
21807986 AACAGGCTCGCACTCTGGCTTACTGTCTTCAACAGGCTCGC-ACTTT
1 AACAGGCTCACACT-TGGCTTACTGTCTTCAACAGGCTCACAACTTT
*
21808032 TACAGG
1 AACAGG
21808038 GATCGCACCT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
46 23 0.49
47 24 0.51
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (46 bp):
AACAGGCTCACACTTGGCTTACTGTCTTCAACAGGCTCACAACTTT
Found at i:21808403 original size:18 final size:18
Alignment explanation
Indices: 21808375--21808419 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
21808365 CTAAGCTCAC
* *
21808375 AGCTTGCACATCTTGCTG
1 AGCTCGCACATCTCGCTG
* *
21808393 AGTTCGCACATCTCGTTG
1 AGCTCGCACATCTCGCTG
21808411 AGCTCGCAC
1 AGCTCGCAC
21808420 CACTTGATAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (18 bp):
AGCTCGCACATCTCGCTG
Found at i:21811800 original size:42 final size:42
Alignment explanation
Indices: 21811738--21811982 Score: 355
Period size: 42 Copynumber: 5.8 Consensus size: 42
21811728 GTTTACAAAC
*
21811738 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCACTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* * * *
21811780 AAAAATGCCGCTAAATACCATGTTCTTTAGAGGCGCTTAGAG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
21811822 AAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
21811864 AAAAACGCCGCTATAGACCATGTTCTTTAGCGGCACTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* * * *
21811906 AAAAATGCCGCTAAATACCATGTTCTTTAGAGGCGCTTAGAG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
21811948 AAAAACACCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
21811983 TTTTTTATTA
Statistics
Matches: 177, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 177 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:21812004 original size:42 final size:42
Alignment explanation
Indices: 21811955--21812323 Score: 544
Period size: 42 Copynumber: 8.8 Consensus size: 42
21811945 GAGAAAAACA
* *
21811955 CCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTAT-TAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT-TCTAAGCG
* * *
21811997 GCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCA
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
*
21812039 CCTCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTT-TAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTTTCTAAGCG
* *
21812081 CCACTAAAGAACATGGTCTATAGCGGCGTTTTTTTCTAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
21812123 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
* *
21812165 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAGTG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
* *
21812207 CCGCTAAAAAACATGGTCTCTAGCGGCGTTTTTTTCTAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
** * * *
21812249 CCGCTAAAGAACATTATCTTTAGCAGCATTTTTTTCAAAGCG
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
*
21812291 CCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
1 CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
21812324 ATACAAAAAC
Statistics
Matches: 296, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
41 5 0.02
42 287 0.97
43 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (42 bp):
CCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCG
Found at i:21812017 original size:84 final size:83
Alignment explanation
Indices: 21811743--21812323 Score: 352
Period size: 84 Copynumber: 6.9 Consensus size: 83
21811733 CAAACAAAAA
* * * * ** * * *
21811743 CGCCGCTAAAGACCATGTTCTTTAGCGGCACTTAGAAAAAAATGCCGCTAAATACCATGTTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAGATAAAAACACCGCTAAAGAACATGGTCTTT
* ****** *
21811808 AGAGGCGCTTAGAGAAAAA
66 AGCGGCG-TTTTTTTTAAG
* * * * * * * *
21811827 CACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTATAGACCATGTTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAGATAAAAACACCGCTAAAGAACATGGTCTTT
* ****** *
21811892 AGCGGCACTTAGAAAAAAA
66 AGCGGC-GTTTTTTTTAAG
* * * * * * * *
21811911 TGCCGCTAAATACCATGTTCTTTAGAGGCGCTTAGAGAAAAACACCGCTAAAGATCATGTTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAGATAAAAACACCGCTAAAGAACATGGTCTTT
21811976 AGCGGCGTTTTTTATTAAG
66 AGCGGCGTTTTTT-TTAAG
* * * *** ** * *
21811995 CGGCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCACCTCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAGATAAAAACACCGCTAAAGAACATGGTCTTT
21812060 AGCGGCGTTTCTTTTTAAG
66 AGCGGCGTTT-TTTTTAAG
* * * *** ** * *
21812079 CGCCACTAAAGAACATGGTCTATAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAGATAAAAACACCGCTAAAGAACATGGTCTTT
21812144 AGCGGCGTTTTTTTCTAAG
66 AGCGGCGTTTTTTT-TAAG
* *** ** *** * *
21812163 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAGTGCCGCTAAAAAACATGGTCTCT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAGATAAAAACACCGCTAAAGAACATGGTCTTT
21812228 AGCGGCGTTTTTTTCTAAG
66 AGCGGCGTTTTTTT-TAAG
** * ** *** * * * *
21812247 CGCCGCTAAAGAACATTATCTTTAGCAGCATTTTTTTCAAAGCGCCGCTAAAGAACATGTTCTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAGATAAAAACACCGCTAAAGAACATGGTCTTT
21812312 AGCGGCGTTTTT
66 AGCGGCGTTTTT
21812324 ATACAAAAAC
Statistics
Matches: 428, Mismatches: 65, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
83 6 0.01
84 419 0.98
85 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (83 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAGATAAAAACACCGCTAAAGAACATGGTCTTT
AGCGGCGTTTTTTTTAAG
Found at i:21812023 original size:126 final size:126
Alignment explanation
Indices: 21811738--21811982 Score: 481
Period size: 126 Copynumber: 1.9 Consensus size: 126
21811728 GTTTACAAAC
21811738 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCACTTAGAAAAAAATGCCGCTAAATACCATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCACTTAGAAAAAAATGCCGCTAAATACCATGT
21811803 TCTTTAGAGGCGCTTAGAGAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
66 TCTTTAGAGGCGCTTAGAGAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
*
21811864 AAAAACGCCGCTATAGACCATGTTCTTTAGCGGCACTTAGAAAAAAATGCCGCTAAATACCATGT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCACTTAGAAAAAAATGCCGCTAAATACCATGT
21811929 TCTTTAGAGGCGCTTAGAGAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCG
66 TCTTTAGAGGCGCTTAGAGAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCG
21811983 TTTTTTATTA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 118 1.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (126 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCACTTAGAAAAAAATGCCGCTAAATACCATGT
TCTTTAGAGGCGCTTAGAGAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:21812046 original size:126 final size:126
Alignment explanation
Indices: 21811786--21812318 Score: 465
Period size: 126 Copynumber: 4.2 Consensus size: 126
21811776 AGAAAAAAAT
* * * * *
21811786 GCCGCTAAATACCATGTTCTTTAGAGGCGCTTAGAGAAAAACACCGCTAAAGATCATGTTCTTTA
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAGAAAAACACCGCTAAAGAACATGGTCTTTA
* ****** * * * * * ***** **
21811851 GCGGCGCTTAGAAAAAAACGCCGCTATAGACCATGTTCTTTAGCGGCACTTAGAAAAAAAT
66 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCAAAGC
* * * * *
21811912 GCCGCTAAATACCATGTTCTTTAGAGGCGCTTAGAGAAAAACACCGCTAAAGATCATGTTCTTTA
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAGAAAAACACCGCTAAAGAACATGGTCTTTA
* * * *
21811977 GCGGCGTTTTTTAT-TAAGCGGCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGC
66 GCGGCGTTTTTT-TCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCAAAGC
* * * * ****** * * * *
21812038 ACCTCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTTTAAGCGCCACTAAAGAACATGGTCTATA
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAGAAAAACACCGCTAAAGAACATGGTCTTTA
* *
21812103 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGC
66 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCAAAGC
* * ****** *** * *
21812164 GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAGTGCCGCTAAAAAACATGGTCTCTA
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAGAAAAACACCGCTAAAGAACATGGTCTTTA
** *
21812229 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATTATCTTTAGCAGCATTTTTTTCAAAGC
66 GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCAAAGC
21812290 GCCGCTAAAGAACATGTTCTTTAGCGGCG
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG
21812319 TTTTTATACA
Statistics
Matches: 349, Mismatches: 56, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
125 1 0.00
126 348 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (126 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAGAAAAACACCGCTAAAGAACATGGTCTTTA
GCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCAAAGC
Found at i:21819819 original size:28 final size:28
Alignment explanation
Indices: 21819781--21819839 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
21819771 TTCACTTGTC
*
21819781 AAAATGTTACTGCTTAATACCCTAAACA
1 AAAACGTTACTGCTTAATACCCTAAACA
21819809 AAAACGTTACTGCTTAATACCCTAAACA
1 AAAACGTTACTGCTTAATACCCTAAACA
21819837 AAA
1 AAA
21819840 TAAATTGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (28 bp):
AAAACGTTACTGCTTAATACCCTAAACA
Found at i:21821755 original size:7 final size:7
Alignment explanation
Indices: 21821745--21821806 Score: 61
Period size: 7 Copynumber: 8.9 Consensus size: 7
21821735 CATAAATTCT
21821745 AAACCCC
1 AAACCCC
21821752 AAACCCC
1 AAACCCC
**
21821759 AAAAACC
1 AAACCCC
21821766 AAACCCC
1 AAACCCC
21821773 AAACCCC
1 AAACCCC
***
21821780 AAACTTT
1 AAACCCC
21821787 AAACCCC
1 AAACCCC
* *
21821794 AAATCTC
1 AAACCCC
21821801 AAACCC
1 AAACCC
21821807 TAAAAGTCAA
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.47, C:0.45, G:0.00, T:0.08
Consensus pattern (7 bp):
AAACCCC
Found at i:21821810 original size:21 final size:21
Alignment explanation
Indices: 21821743--21821810 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
21821733 ATCATAAATT
*
21821743 CTAAACCCCAAACCCCAAAAAC
1 CTAAACCCCAAACCCC-AAACC
*
21821765 C-AAACCCCAAACCCCAAACT
1 CTAAACCCCAAACCCCAAACC
* * *
21821785 TTAAACCCCAAATCTCAAACC
1 CTAAACCCCAAACCCCAAACC
21821806 CTAAA
1 CTAAA
21821811 AGTCAAAACC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 3 0.08
21 34 0.89
22 1 0.03
ACGTcount: A:0.47, C:0.43, G:0.00, T:0.10
Consensus pattern (21 bp):
CTAAACCCCAAACCCCAAACC
Found at i:21823204 original size:114 final size:113
Alignment explanation
Indices: 21823004--21823216 Score: 277
Period size: 114 Copynumber: 1.9 Consensus size: 113
21822994 CGTTTTTCCT
* * * *
21823004 AGCGCTACTAATTCTAATCTACCTCAAGACTAAACGCTGCGTTTTAGATAAGATATTTTGCAGCG
1 AGCGCCACTAACTCTAATCTACCTCAAGACCAAACGATGCGTTTTAGATAAGATATTTTGCAGCG
*
21823069 CGTTCAGACAGACGCCGCTAATACTG-TGCTTTAGCGGCATGTTCTCCAA
66 CGTT-AGACAAACGCCGCTAATACTGCT-CTTTAGCGGCATGTTCTCCAA
* * * **
21823118 AGCGCCACTAACTCTAATCTACCTCAAGACCAAACGATGCGTTTTGGTTAAGATCTTTTGTGGCG
1 AGCGCCACTAACTCTAATCTACCTCAAGACCAAACGATGCGTTTTAGATAAGATATTTTGCAGCG
*
21823183 CTTGTT-GTCAAACGCCGCTAATACTGCTCTTTAG
66 C--GTTAGACAAACGCCGCTAATACTGCTCTTTAG
21823217 TTTTAATATA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
114 81 0.95
115 1 0.01
116 3 0.04
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (113 bp):
AGCGCCACTAACTCTAATCTACCTCAAGACCAAACGATGCGTTTTAGATAAGATATTTTGCAGCG
CGTTAGACAAACGCCGCTAATACTGCTCTTTAGCGGCATGTTCTCCAA
Found at i:21823286 original size:88 final size:88
Alignment explanation
Indices: 21823132--21823292 Score: 198
Period size: 88 Copynumber: 1.8 Consensus size: 88
21823122 CCACTAACTC
* * * * ****
21823132 TAATCTACCTCAAGACCAAACGATGCGTTTTGGTTAAGATCTTTTGTGGCGCTTGTTGTCAAACG
1 TAATATACCTCAAAACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCAAATCAAACG
*
21823197 CCGCTAATACTGCTCTTTAGTTT
66 CCACTAATACTGCTCTTTAGTTT
* * *
21823220 TAATATACCTCAAAACCAAATGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAAT-AAAC
1 TAATATACCTCAAAACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTT-CAAATCAAAC
21823284 GCCACTAAT
65 GCCACTAAT
21823293 GATATTCTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
88 59 0.98
89 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (88 bp):
TAATATACCTCAAAACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCAAATCAAACG
CCACTAATACTGCTCTTTAGTTT
Found at i:21826634 original size:32 final size:32
Alignment explanation
Indices: 21826593--21826657 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
21826583 TCAGGGAGAT
*
21826593 AGGATTTGCTTTCTTGGGTCTGCTCCACTGCA
1 AGGATTTGCTTTCTTGGGTCTACTCCACTGCA
21826625 AGGATTTGCTTTCTTGGGTCTACTCCACTGCA
1 AGGATTTGCTTTCTTGGGTCTACTCCACTGCA
21826657 A
1 A
21826658 CTTCAGGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (32 bp):
AGGATTTGCTTTCTTGGGTCTACTCCACTGCA
Found at i:21826910 original size:129 final size:129
Alignment explanation
Indices: 21826629--21826931 Score: 364
Period size: 129 Copynumber: 2.3 Consensus size: 129
21826619 ACTGCAAGGA
* ** * * *
21826629 TTTGCTTTCTTGGGTCTACTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTCT
1 TTTGCGTTCTTGAATCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATATACTCTCT
* * * *
21826694 GTAACTTCAGAGAGATAAGATTCGAGATTTTAATCCGCTTCACAGCAATTTCAGGGAGATAGGG
66 GCAACTTCAGAGAGATAAGATTCGAGATTTTAATCCGCTCCACAGCAACTTCAGAGAGATAGGG
* ** * *
21826758 TTTGCTTTCTTGGGTCTGCTCCACTGCAACTTTAGGGAGATAAGACCCGATGTGATATACTCTAC
1 TTTGCGTTCTTGAATCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATATACTCT-C
* *
21826823 TGCAACTTCAGAGAGAT-A-ATCTCTGTGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAG
65 TGCAACTTCAGAGAGATAAGAT-TC-GAGATTTTAATCCGCTCCACAGCAACTTCAGAGAGATAG
*
21826886 GAT
128 G-G
21826889 TATTG-GTT-TT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 T-TTGCGTTCTTGAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
21826932 TTCGCCATCT
Statistics
Matches: 153, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
128 2 0.01
129 91 0.59
130 54 0.35
131 3 0.02
132 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (129 bp):
TTTGCGTTCTTGAATCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGCGATATACTCTCT
GCAACTTCAGAGAGATAAGATTCGAGATTTTAATCCGCTCCACAGCAACTTCAGAGAGATAGGG
Found at i:21826965 original size:45 final size:44
Alignment explanation
Indices: 21826642--21827197 Score: 180
Period size: 44 Copynumber: 12.8 Consensus size: 44
21826632 GCTTTCTTGG
* ** * *
21826642 GTCTACTCCACTGCAACTTCAGGGAGATAAGACCCGA-TGC-GA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTA
* * *
21826684 -TCTGCT-CTCTGTAACTTCAGAGAGATAAGA-TTCGAGATT--TTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT---GATTACTTA
* * * * * * ** * * *
21826726 ATCCGCTTCACAGCAATTTCAGGGAGATAGGGTTTGCTTTCTTGG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTT-A
* ** * *
21826771 GTCTGCTCCACTGCAACTTTAGGGAGATAAGACCCGA-T-GTGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTA
* * * * **
21826813 -TATACTCTACTGCAACTTCAGAGAGATAATCTCTGTGATT--TTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAA-GACT-TGATTACTTA
* * * * **
21826856 ATCCGCTCCACTGCAACTTCAGAGAGATAGGA-TT-ATTGGTTTTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATT--ACTTA
*
21826900 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCA-T-CTTCA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G--ATTACTT-A
*
21826945 GTCTG-TCTTACTGCAACTTCA-GGAGGATAAGACTTGATTACTTA
1 GTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTA
** * * *
21826989 GTCTGCTCCACTGCAACTTCAGGGAGATAACTCTAGA-TGC-GA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTA
* * * *
21827031 -TCTGCT-CTCTGTAACTTCAGAGAGATAAGA-TCTG-TTATTTTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGATTA-CTTA
* ** ** *
21827073 ATCCACTCCACTATAACTTCAGGGAGATAGGA-TT-ATTAGCTTTA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTA-C-TTA
* * *
21827117 ATCTGCTCCACTGCAACTTCAGGGAGATAGGA-TT-ATTGGCTTCA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATT-ACTT-A
** * * *
21827161 AACCGCTCCACTGTAACTTCAGGGAGATAAGATTTGA
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGA
21827198 CATCTTCAAT
Statistics
Matches: 384, Mismatches: 87, Indels: 82
0.69 0.16 0.15
Matches are distributed among these distances:
39 1 0.00
40 45 0.12
41 36 0.09
42 10 0.03
43 24 0.06
44 201 0.52
45 62 0.16
46 3 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTA
Found at i:21827603 original size:44 final size:43
Alignment explanation
Indices: 21827548--21827878 Score: 324
Period size: 44 Copynumber: 7.7 Consensus size: 43
21827538 CTATTTTCAG
* * *
21827548 CCTACTCCACTGCTGACTAGGGAGATAGGACCTACAATCTTCAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGA-CTACAATCTTTAA
* * *
21827592 TCTATTCCACTGCTG-CCTAGGGAGATAGAATTCT-CAATCTTCAA
1 CCTATTCCACTGCTGACC-AGGGAGATAGGA--CTACAATCTTTAA
*
21827636 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGACT-ACAATCTTTAA
* *
21827680 CCTATTCCACTGCT-ATCTAGGGAGATA-G---A-ATTCTTTAA
1 CCTATTCCACTGCTGA-CCAGGGAGATAGGACTACAATCTTTAA
* * *
21827718 TCTATTCCACTGCTG-CTGAGAGAGATAGGATTCT-CAAT-TTTCAA
1 CCTATTCCACTGCTGAC-CAGGGAGATAGGA--CTACAATCTTT-AA
** *
21827762 CCTATTCCACTAATGACCAGGGAGATAGGATTTACAATCTTTAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGA-CTACAATCTTTAA
* *
21827806 CCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAA
1 CCTATTCCACTGCTGACCAGGGAGATAGGACT-ACAATCTTTAA
21827850 CCTATTCCACTGCTGACCAGGGAGATAGG
1 CCTATTCCACTGCTGACCAGGGAGATAGG
21827879 GCTGGGGTCA
Statistics
Matches: 242, Mismatches: 25, Indels: 40
0.79 0.08 0.13
Matches are distributed among these distances:
37 1 0.00
38 29 0.12
39 2 0.01
42 1 0.00
43 10 0.04
44 191 0.79
45 8 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (43 bp):
CCTATTCCACTGCTGACCAGGGAGATAGGACTACAATCTTTAA
Found at i:21827743 original size:38 final size:38
Alignment explanation
Indices: 21827673--21827751 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
21827663 GGATTCACAA
* *
21827673 TCTTTAACCTATTCCACTGCTATCTAGGGAGATAGAAT
1 TCTTTAACCTATTCCACTGCTAGCTAGAGAGATAGAAT
* *
21827711 TCTTTAATCTATTCCACTGCT-GCTGAGAGAGATAGGAT
1 TCTTTAACCTATTCCACTGCTAGCT-AGAGAGATAGAAT
21827749 TCT
1 TCT
21827752 CAATTTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (38 bp):
TCTTTAACCTATTCCACTGCTAGCTAGAGAGATAGAAT
Found at i:21827751 original size:126 final size:126
Alignment explanation
Indices: 21827585--21827838 Score: 402
Period size: 126 Copynumber: 2.0 Consensus size: 126
21827575 GGACCTACAA
* **
21827585 TCTTCAATCTATTCCACTGCTGCCTAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCT
1 TCTTCAATCTATTCCACTGCTGCCTAGAGAGATAGAATTCTCAATCTTCAACCTATTCCACTAAT
*
21827650 GACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTATCTAGGGAGATAGAAT
66 GACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTATCCAGGGAGATAGAAT
* * *
21827711 TCTTTAATCTATTCCACTGCTG-CTGAGAGAGATAGGATTCTCAATTTTCAACCTATTCCACTAA
1 TCTTCAATCTATTCCACTGCTGCCT-AGAGAGATAGAATTCTCAATCTTCAACCTATTCCACTAA
* * *
21827775 TGACCAGGGAGATAGGATTTACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGAT
65 TGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTATCCAGGGAGATAGAAT
21827837 TC
1 TC
21827839 ACAATCTTTA
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
125 2 0.02
126 115 0.98
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (126 bp):
TCTTCAATCTATTCCACTGCTGCCTAGAGAGATAGAATTCTCAATCTTCAACCTATTCCACTAAT
GACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTATCCAGGGAGATAGAAT
Found at i:21827835 original size:170 final size:170
Alignment explanation
Indices: 21827553--21827877 Score: 480
Period size: 170 Copynumber: 1.9 Consensus size: 170
21827543 TTCAGCCTAC
* * **
21827553 TCCACTGCTGACTAGGGAGATAGGACCTACAATCTTCAATCTATTCCACTGCTGCCTAGGGAGAT
1 TCCACTGCTGACTAGAGAGATAGGACCTACAATCTTCAACCTATTCCACTAATGCCTAGGGAGAT
21827618 AGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCT
66 AGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCT
*
21827683 ATTCCACTGCT-ATCTAGGGAGATAGAATTCTTTAATCTAT
131 ATTCCACTGCTGA-CCAGGGAGATAGAATTCTTTAATCTAT
* *
21827723 TCCACTGCTG-CTGAGAGAGATAGGATTCT-CAATTTTCAACCTATTCCACTAATGACC-AGGGA
1 TCCACTGCTGACT-AGAGAGATAGGA-CCTACAATCTTCAACCTATTCCACTAATG-CCTAGGGA
* * *
21827785 GATAGGATT-TACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTA
63 GATAGAATTCT-CAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
21827849 ACCTATTCCACTGCTGACCAGGGAGATAG
127 ACCTATTCCACTGCTGACCAGGGAGATAG
21827878 GGCTGGGGTC
Statistics
Matches: 140, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
169 3 0.02
170 132 0.94
171 5 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (170 bp):
TCCACTGCTGACTAGAGAGATAGGACCTACAATCTTCAACCTATTCCACTAATGCCTAGGGAGAT
AGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCT
ATTCCACTGCTGACCAGGGAGATAGAATTCTTTAATCTAT
Found at i:21827878 original size:88 final size:88
Alignment explanation
Indices: 21827548--21827878 Score: 380
Period size: 88 Copynumber: 3.8 Consensus size: 88
21827538 CTATTTTCAG
* * * * *
21827548 CCTACTCCACTGCTGACTAGGGAGATAGGA-CCTACAATCTTCAATCTATTCCACTGCTG-CCTA
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTTAACCTATTCCACTGCTGACC-A
* *
21827611 GGGAGATAGAATTCT-CAATCTTCAA
64 GGGAGATAGGATT-TACAATCTTTAA
*
21827636 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCT-ATCTAG
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGA-CCAG
*
21827700 GGAGATA-G----A-ATTCTTTAA
65 GGAGATAGGATTTACAATCTTTAA
* * * * **
21827718 TCTATTCCACTGCTG-CTGAGAGAGATAGGATTCTCAAT-TTTCAACCTATTCCACTAATGACCA
1 CCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTT-AACCTATTCCACTGCTGACCA
21827781 GGGAGATAGGATTTACAATCTTTAA
64 GGGAGATAGGATTTACAATCTTTAA
*
21827806 CCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGG
1 CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGG
21827871 GAGATAGG
66 GAGATAGG
21827879 GCTGGGGTCA
Statistics
Matches: 205, Mismatches: 23, Indels: 30
0.79 0.09 0.12
Matches are distributed among these distances:
81 4 0.02
82 63 0.31
83 2 0.01
87 1 0.00
88 129 0.63
89 6 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (88 bp):
CCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACCAGG
GAGATAGGATTTACAATCTTTAA
Found at i:21827937 original size:88 final size:87
Alignment explanation
Indices: 21827866--21828291 Score: 476
Period size: 88 Copynumber: 4.7 Consensus size: 87
21827856 CCACTGCTGA
* * * *
21827866 CCAGGGAGATAGGGCTGGGGTCATCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
1 CCAGGGAGGTAAGGCTGGTGT-ATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
*
21827931 TTTTTAACCTGCTCCGCTGCAAC
65 TTTTTAGCCTGCTCCGCTGCAAC
* * ** * *
21827954 CCAGGGAGGTAAGGCTGGTGTCTTGGTGTTTTCAATCTGCTTCATTGTCGGTGTAGGAAGGCAAT
1 CCAGGGAGGTAA-----G-G-C-TGGTG-TATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG
*
21828019 ATCTGCTATTTTTAGTCTGCTCCGCTGCAAC
57 ATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
* * * *
21828050 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAAGG-AAGATCTGTT
1 CCAGGGAGGTAAGGCTGGTGT-ATCGATCTGCTTCGCTGTCGGTGCAGG-AAGGCAAGATCTGCT
*
21828114 ATTTTTAGTCTGCTCCGCTGCAAC
64 ATTTTTAGCCTGCTCCGCTGCAAC
* *
21828138 CCAGGGAGGTAAGGCTGGTGTATTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTA
1 CCAGGGAGGTAAGGCTGGTGTA-TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
* * *
21828203 TTTTTAGCCTACTCCACTACAAC
65 TTTTTAGCCTGCTCCGCTGCAAC
* * * * *
21828226 CTAGGGAGGCAAGGCTGGTGTATTCGATTTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTACTA
1 CCAGGGAGGTAAGGCTGGTGTA-TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
21828291 T
65 T
21828292 CTTCACTGAT
Statistics
Matches: 294, Mismatches: 31, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
87 5 0.02
88 204 0.69
89 5 0.02
90 1 0.00
91 1 0.00
93 1 0.00
94 1 0.00
95 1 0.00
96 74 0.25
97 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (87 bp):
CCAGGGAGGTAAGGCTGGTGTATCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
TTTTAGCCTGCTCCGCTGCAAC
Found at i:21828061 original size:44 final size:43
Alignment explanation
Indices: 21828012--21828146 Score: 103
Period size: 44 Copynumber: 3.1 Consensus size: 43
21828002 CGGTGTAGGA
21828012 AGGCAATATCTGCTATTTTTAGTCTGCTCCGCTGCAACCCAGGG
1 AGGCAA-ATCTGCTATTTTTAGTCTGCTCCGCTGCAACCCAGGG
** * * * * * *** *
21828056 AGGCAAGGCTGGT-GTCTTCGATCTGCTTCGCTGTCAGTGCAGGAA
1 AGGCAAATCTGCTATTTTTAG-TCTGCTCCGCTG-CAACCCAGG-G
*
21828101 AGG-AAGATCTGTTATTTTTAGTCTGCTCCGCTGCAACCCAGGG
1 AGGCAA-ATCTGCTATTTTTAGTCTGCTCCGCTGCAACCCAGGG
21828144 AGG
1 AGG
21828147 TAAGGCTGGT
Statistics
Matches: 64, Mismatches: 22, Indels: 11
0.66 0.23 0.11
Matches are distributed among these distances:
42 4 0.06
43 18 0.28
44 20 0.31
45 18 0.28
46 4 0.06
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (43 bp):
AGGCAAATCTGCTATTTTTAGTCTGCTCCGCTGCAACCCAGGG
Found at i:21828082 original size:43 final size:41
Alignment explanation
Indices: 21828034--21828176 Score: 106
Period size: 43 Copynumber: 3.3 Consensus size: 41
21828024 CTATTTTTAG
21828034 TCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGA
1 TCTGCTCCGCTGCAACCCAGGGAGG-AAGGCTGGTGT-TTCGA
* *** * * * * **
21828077 TCTGCTTCGCTGTCAGTGCAGGAAAGGAAGATCTGTTATTTTTA
1 TCTGCTCCGCTG-CAACCCAGG-GAGGAAG-GCTGGTGTTTCGA
21828121 GTCTGCTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTATTCGA
1 -TCTGCTCCGCTGCAACCCAGGGAGG-AAGGCTGGTGT-TTCGA
* *
21828165 TTTGCTTCGCTG
1 TCTGCTCCGCTG
21828177 TCGGTGCAGG
Statistics
Matches: 72, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
43 29 0.40
44 24 0.33
45 19 0.26
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (41 bp):
TCTGCTCCGCTGCAACCCAGGGAGGAAGGCTGGTGTTTCGA
Found at i:21828286 original size:176 final size:180
Alignment explanation
Indices: 21827892--21828291 Score: 531
Period size: 176 Copynumber: 2.2 Consensus size: 180
21827882 GGGGTCATCA
21827892 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
* * * *
21827957 GGGAGGTAAGGCTGGTGTCTTGGTGTTTTCAATCTGCTTCATTGTCGGTGTAGGAAGGCAATATC
66 GGGAGGTAA----GGTGTCTTGGTGTATTCAATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATC
* * * * * *
21828022 TGCTATTTTTAGTCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCG
127 TACTATTTTTAGCCTACTCCACTACAACCCAGGGAGGCAAGGCTGGTGTATTCG
* * **
21828076 ATCTGCTTCGCTGTCAGTGCAGGAAAGG-AAGATCTGTTATTTTTAGTCTGCTCCGCTGCAACCC
1 ATCTGCTTCGCTGTCGGTGCAGG-AAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
* * *
21828140 AGGGAGGTAA-G-G-C-TGGTGTATTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTAC
65 AGGGAGGTAAGGTGTCTTGGTGTATTCAATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTAC
*
21828201 TATTTTTAGCCTACTCCACTACAACCTAGGGAGGCAAGGCTGGTGTATTCG
130 TATTTTTAGCCTACTCCACTACAACCCAGGGAGGCAAGGCTGGTGTATTCG
* * *
21828252 ATTTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTACTAT
1 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
21828292 CTTCACTGAT
Statistics
Matches: 191, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
175 4 0.02
176 115 0.60
177 1 0.01
178 1 0.01
179 1 0.01
184 65 0.34
185 4 0.02
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (180 bp):
ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCA
GGGAGGTAAGGTGTCTTGGTGTATTCAATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTACT
ATTTTTAGCCTACTCCACTACAACCCAGGGAGGCAAGGCTGGTGTATTCG
Found at i:21839412 original size:5 final size:5
Alignment explanation
Indices: 21839404--21839428 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21839394 TATAATATAT
21839404 TTTCC TTTCC TTTCC TTTCC TTTCC
1 TTTCC TTTCC TTTCC TTTCC TTTCC
21839429 ACCACTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCC
Found at i:21847105 original size:103 final size:104
Alignment explanation
Indices: 21846926--21847190 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
21846916 AACCGTTATT
* * * *
21846926 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
21846991 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
21847029 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
21847094 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
21847133 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
21847191 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:21847552 original size:30 final size:29
Alignment explanation
Indices: 21847518--21847582 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21847508 TAATCCACCA
21847518 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
21847548 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
21847578 CCCAA
1 CCCAA
21847583 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:21847556 original size:31 final size:30
Alignment explanation
Indices: 21847525--21847582 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21847515 CCACCCAACT
21847525 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
21847555 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
21847583 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:21853097 original size:15 final size:15
Alignment explanation
Indices: 21853077--21853133 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
21853067 ATTCAATATT
21853077 AATATTTTAATAATA
1 AATATTTTAATAATA
*
21853092 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
21853111 AATATATTAATAATA
1 AATATTTTAATAATA
21853126 AATATTTT
1 AATATTTT
21853134 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:21870164 original size:18 final size:18
Alignment explanation
Indices: 21870133--21870167 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21870123 AATAATTTAG
*
21870133 GAAAATTTGGAAAAATAT
1 GAAAATTTGCAAAAATAT
*
21870151 GAAAATTTTCAAAAATA
1 GAAAATTTGCAAAAATA
21870168 GGGGACACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.29
Consensus pattern (18 bp):
GAAAATTTGCAAAAATAT
Found at i:21872089 original size:25 final size:25
Alignment explanation
Indices: 21872055--21872126 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
21872045 AATCACAATC
*
21872055 AAAGCTTCAAGCACATAATTATATA
1 AAAGCTTCAAACACATAATTATATA
* *
21872080 AAAGCTTCAAACAAATAATTATATC
1 AAAGCTTCAAACACATAATTATATA
*
21872105 AAATCTTCAAACACATAATTAT
1 AAAGCTTCAAACACATAATTAT
21872127 CACCAAAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.29
Consensus pattern (25 bp):
AAAGCTTCAAACACATAATTATATA
Found at i:21880297 original size:16 final size:16
Alignment explanation
Indices: 21880276--21880307 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21880266 ACTTCCTAGT
21880276 TTCACACTCGGAACCC
1 TTCACACTCGGAACCC
21880292 TTCACACTCGGAACCC
1 TTCACACTCGGAACCC
21880308 GAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.44, G:0.12, T:0.19
Consensus pattern (16 bp):
TTCACACTCGGAACCC
Found at i:21885363 original size:2 final size:2
Alignment explanation
Indices: 21885356--21885401 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
21885346 TAAAGGGATA
21885356 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
21885398 AG AG
1 AG AG
21885402 TTACAAGAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21885483 original size:6 final size:6
Alignment explanation
Indices: 21885474--21885501 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21885464 AAGAAGAAGA
21885474 AGTGGG AGTGGG AGTGGG AGTGGG AGTG
1 AGTGGG AGTGGG AGTGGG AGTGGG AGTG
21885502 AATTGAGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.64, T:0.18
Consensus pattern (6 bp):
AGTGGG
Found at i:21886369 original size:18 final size:19
Alignment explanation
Indices: 21886325--21886372 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
21886315 CACTAAAATA
*
21886325 TAACTCTCTCCATTCTCTC
1 TAACTCTCTCAATTCTCTC
*
21886344 TAA-ACTCTCAATTCTCTC
1 TAACTCTCTCAATTCTCTC
21886362 -AACTCTCTCAA
1 TAACTCTCTCAA
21886373 ATTTATCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 2 0.08
18 20 0.80
19 3 0.12
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (19 bp):
TAACTCTCTCAATTCTCTC
Found at i:21889109 original size:25 final size:28
Alignment explanation
Indices: 21889081--21889135 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 28
21889071 TGAATGAATA
21889081 GATTTTGTACA-AAAAAAAT-TG-TAAT
1 GATTTTGTACACAAAAAAATATGTTAAT
*
21889106 GATTTTTTACACAAAAAAATATGTTAAT
1 GATTTTGTACACAAAAAAATATGTTAAT
21889134 GA
1 GA
21889136 CGTTGAAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 10 0.38
26 8 0.31
27 2 0.08
28 6 0.23
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.36
Consensus pattern (28 bp):
GATTTTGTACACAAAAAAATATGTTAAT
Found at i:21893913 original size:25 final size:26
Alignment explanation
Indices: 21893867--21893915 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
21893857 TGAAAATGAA
*
21893867 TTTTTATTTTTAAATACTAAATATGT
1 TTTTTATTTTTAAATACAAAATATGT
21893893 TTTTTAATTTTTAAA-A-AAAATAT
1 TTTTT-ATTTTTAAATACAAAATAT
21893916 ATAAAGATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 6 0.29
27 9 0.43
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
TTTTTATTTTTAAATACAAAATATGT
Found at i:21895154 original size:19 final size:17
Alignment explanation
Indices: 21895130--21895164 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
21895120 ATTTTTTTAA
21895130 TGAATTTTTAATAATTTTT
1 TGAA-TTTTAA-AATTTTT
21895149 TGAATTTTAAAATTTT
1 TGAATTTTAAAATTTT
21895165 GAGAAATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
TGAATTTTAAAATTTTT
Found at i:21897235 original size:17 final size:17
Alignment explanation
Indices: 21897213--21897247 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
21897203 AGTAAGACTA
21897213 TAAAATAACAAAACTTC
1 TAAAATAACAAAACTTC
*
21897230 TAAAATAATAAAACTTC
1 TAAAATAACAAAACTTC
21897247 T
1 T
21897248 CTTTGGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATAACAAAACTTC
Found at i:21902546 original size:16 final size:16
Alignment explanation
Indices: 21902525--21902556 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21902515 TTAAATAAAG
21902525 AATAATCTTTGATGCA
1 AATAATCTTTGATGCA
21902541 AATAATCTTTGATGCA
1 AATAATCTTTGATGCA
21902557 CCGTCAATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
AATAATCTTTGATGCA
Found at i:21903456 original size:18 final size:20
Alignment explanation
Indices: 21903425--21903463 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
21903415 GATGCATATT
21903425 AATTTTTGAATTAATT-TAA
1 AATTTTTGAATTAATTATAA
*
21903444 AATTTTT-ATTTAATTATAA
1 AATTTTTGAATTAATTATAA
21903463 A
1 A
21903464 TTATTATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
AATTTTTGAATTAATTATAA
Found at i:21911985 original size:44 final size:42
Alignment explanation
Indices: 21911923--21912110 Score: 209
Period size: 42 Copynumber: 4.4 Consensus size: 42
21911913 ATGGCAGTAC
* * * *
21911923 ATGATTTCGTATATGACCACGTCTGAGACGTTGGCATCG-AT
1 ATGATTTTGTGTAAGACCACGTCTGAGACATTGGCATCGTAT
* * *
21911964 TTGAGATTTACGTGTAAGACCATGTCT-AGGACATTGGCATCGTAT
1 AT--GATTT-TGTGTAAGACCACGTCTGA-GACATTGGCATCGTAT
* * * *
21912009 ATGATTTTGTGTAAGATCATGTTTGGGACATTGGCATCGTAT
1 ATGATTTTGTGTAAGACCACGTCTGAGACATTGGCATCGTAT
* *
21912051 ATGATTTTGTGTAAGACCACATCTGGGACATTGGCATCGTAT
1 ATGATTTTGTGTAAGACCACGTCTGAGACATTGGCATCGTAT
21912093 ATGATTTTGTGTAAGACC
1 ATGATTTTGTGTAAGACC
21912111 TTGTCAAGGT
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.01
42 86 0.68
43 11 0.09
44 26 0.20
45 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (42 bp):
ATGATTTTGTGTAAGACCACGTCTGAGACATTGGCATCGTAT
Found at i:21912030 original size:42 final size:42
Alignment explanation
Indices: 21911975--21912115 Score: 228
Period size: 42 Copynumber: 3.4 Consensus size: 42
21911965 TGAGATTTAC
*
21911975 GTGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTTT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTT
* *
21912017 GTGTAAGATCATGTTTGGGACATTGGCATCGTATATGATTTT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTT
**
21912059 GTGTAAGACCACATCTGGGACATTGGCATCGTATATGATTTT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTT
*
21912101 GTGTAAGACCTTGTC
1 GTGTAAGACCATGTC
21912116 AAGGTTAGTG
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTT
Found at i:21912128 original size:84 final size:84
Alignment explanation
Indices: 21911975--21912131 Score: 215
Period size: 84 Copynumber: 1.9 Consensus size: 84
21911965 TGAGATTTAC
** * *** *
21911975 GTGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTTTGTGTAAGATCATGTTTGGGACAT
1 GTGTAAGACCACATCTAGGACATTGGCATCGTATATGATTTTGTGTAAGACCATGTCAAGGACAG
21912040 TGGCATCGTATATGATTTT
66 TGGCATCGTATATGATTTT
* * **
21912059 GTGTAAGACCACATCTGGGACATTGGCATCGTATATGATTTTGTGTAAGACCTTGTCAAGGTTAG
1 GTGTAAGACCACATCTAGGACATTGGCATCGTATATGATTTTGTGTAAGACCATGTCAAGGACAG
21912124 TGGCATCG
66 TGGCATCG
21912132 ATAGTTGATT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 62 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (84 bp):
GTGTAAGACCACATCTAGGACATTGGCATCGTATATGATTTTGTGTAAGACCATGTCAAGGACAG
TGGCATCGTATATGATTTT
Found at i:21912734 original size:40 final size:40
Alignment explanation
Indices: 21912648--21912723 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
21912638 AATTTGAAAG
*
21912648 CATGGTTTATATGTTCATTGATAAATAAGATAAGTGAAGT
1 CATGGTTTATATGTTCATTGATAAATAAGATAAATGAAGT
21912688 CATGGTTTATATGTTCATTGATAAATAAGATAAATG
1 CATGGTTTATATGTTCATTGATAAATAAGATAAATG
21912724 TATGTGTGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (40 bp):
CATGGTTTATATGTTCATTGATAAATAAGATAAATGAAGT
Found at i:21914904 original size:13 final size:13
Alignment explanation
Indices: 21914886--21914929 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
21914876 ATTCAATTCG
*
21914886 ATGTTTAGACAGT
1 ATGTTTAGACAAT
*
21914899 ATGTTTAGATAAT
1 ATGTTTAGACAAT
*
21914912 ATGTTTAGACATT
1 ATGTTTAGACAAT
21914925 ATGTT
1 ATGTT
21914930 CATATAGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (13 bp):
ATGTTTAGACAAT
Found at i:21914948 original size:25 final size:24
Alignment explanation
Indices: 21914885--21914961 Score: 57
Period size: 26 Copynumber: 3.1 Consensus size: 24
21914875 TATTCAATTC
* * *
21914885 GATGTTTAGACAGTATGTTTAGATAA
1 GATGTTTAGACA-TAAGTTCAAAT-A
* * *
21914911 TATGTTTAGACATTATGTTCATATA
1 GATGTTTAGACA-TAAGTTCAAATA
21914936 GATGTTT-GAACATAAGTTCAAATA
1 GATGTTTAG-ACATAAGTTCAAATA
21914960 GA
1 GA
21914962 ACATAGGTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 13 0.30
25 10 0.23
26 20 0.47
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.39
Consensus pattern (24 bp):
GATGTTTAGACATAAGTTCAAATA
Found at i:21915224 original size:59 final size:58
Alignment explanation
Indices: 21915157--21915267 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
21915147 ATAGATAACA
* *
21915157 CCGACTTGTTATAAATCACTCACCGCAAAAATCTCACATTACAACCAGTAAAACTCTTC
1 CCGACTTGTTATAAATCACTCACC-CAAAAACCTCACAATACAACCAGTAAAACTCTTC
* * *
21915216 CCGACTTGTTATAAATTACTCACCCAAAAACCTTACAATACAAGCAGTAAAA
1 CCGACTTGTTATAAATCACTCACCCAAAAACCTCACAATACAACCAGTAAAA
21915268 TTCTCCAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 24 0.51
59 23 0.49
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (58 bp):
CCGACTTGTTATAAATCACTCACCCAAAAACCTCACAATACAACCAGTAAAACTCTTC
Found at i:21919453 original size:29 final size:29
Alignment explanation
Indices: 21919390--21919455 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
21919380 AGTTTAATTT
*
21919390 CCAAACTTTGGGGCAAAAGCGTAATTATG
1 CCAAAGTTTGGGGCAAAAGCGTAATTATG
** * *
21919419 TAAAAGTTTAGGGG-AAAATCGTAATTTTG
1 CCAAAGTTT-GGGGCAAAAGCGTAATTATG
21919448 CCAAAGTT
1 CCAAAGTT
21919456 AGAGTCGAGG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (29 bp):
CCAAAGTTTGGGGCAAAAGCGTAATTATG
Found at i:21919870 original size:50 final size:50
Alignment explanation
Indices: 21919795--21919985 Score: 247
Period size: 50 Copynumber: 3.8 Consensus size: 50
21919785 TTGGGTAAAT
* *
21919795 AGGTCCCGTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAG
*
21919845 AGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACTGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAG
** * * * * *
21919895 AGGTCCCCCGTAAGACCATGTGTGGGACATGGCATGGGCATTGATATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAG
* * * *
21919945 AGCATCCCATGTAAGACCATGTTTGGGACATGTCTTTGGCA
1 AG-GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
21919986 TGTTATTATC
Statistics
Matches: 122, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 91 0.75
51 31 0.25
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAG
Found at i:21920700 original size:16 final size:17
Alignment explanation
Indices: 21920679--21920715 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
21920669 GGATAGTATA
21920679 AAATGA-AT-TAGAATGT
1 AAATGATATATAGAAT-T
21920695 AAATGATATATAGAATT
1 AAATGATATATAGAATT
21920712 AAAT
1 AAAT
21920716 ATTATTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 7 0.37
18 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (17 bp):
AAATGATATATAGAATT
Found at i:21923271 original size:20 final size:20
Alignment explanation
Indices: 21923246--21923285 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21923236 AAAAAGGAAG
21923246 TTAGAAAAGAAATGAATCGA
1 TTAGAAAAGAAATGAATCGA
21923266 TTAGAAAAGAAATGAATCGA
1 TTAGAAAAGAAATGAATCGA
21923286 CTAGGATAAA
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:0.55, C:0.05, G:0.20, T:0.20
Consensus pattern (20 bp):
TTAGAAAAGAAATGAATCGA
Found at i:21926369 original size:7 final size:7
Alignment explanation
Indices: 21926357--21926382 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21926347 CATTTTCCTA
21926357 CTCTTTT
1 CTCTTTT
21926364 CTCTTTT
1 CTCTTTT
21926371 CTCTTTT
1 CTCTTTT
21926378 CTCTT
1 CTCTT
21926383 CTTCATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (7 bp):
CTCTTTT
Found at i:21941720 original size:21 final size:21
Alignment explanation
Indices: 21941602--21941720 Score: 69
Period size: 21 Copynumber: 5.7 Consensus size: 21
21941592 TGTTAACTCA
* *
21941602 TATGAGTTTCTGTTCAACCCT
1 TATGGGTTTCCGTTCAACCCT
* * * *
21941623 AATGGGTTTTCGTTCATCTCT
1 TATGGGTTTCCGTTCAACCCT
* * * * *
21941644 TTTGAGCTTCAGTTTAACCCT
1 TATGGGTTTCCGTTCAACCCT
* * * *
21941665 TATGGGTTTCCATTTAGCTCT
1 TATGGGTTTCCGTTCAACCCT
* *
21941686 TGTGAGCTTT-CGTTCAACCCT
1 TATG-GGTTTCCGTTCAACCCT
21941707 TATGGGTTTCCGTT
1 TATGGGTTTCCGTT
21941721 TAGCATTTAT
Statistics
Matches: 66, Mismatches: 30, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
20 4 0.06
21 58 0.88
22 4 0.06
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (21 bp):
TATGGGTTTCCGTTCAACCCT
Found at i:21941743 original size:42 final size:42
Alignment explanation
Indices: 21941602--21941746 Score: 159
Period size: 42 Copynumber: 3.5 Consensus size: 42
21941592 TGTTAACTCA
* * * * *
21941602 TATGAGTTTCTGTTCAACCCTAATGGGTTTTCGTTCATCTCT
1 TATGAGCTTCTGTTCAACCCTTATGGGTTTCCGTTTAGCTCT
* * * *
21941644 TTTGAGCTTCAGTTTAACCCTTATGGGTTTCCATTTAGCTCT
1 TATGAGCTTCTGTTCAACCCTTATGGGTTTCCGTTTAGCTCT
*
21941686 TGTGAGCTT-TCGTTCAACCCTTATGGGTTTCCGTTTAGCAT-T
1 TATGAGCTTCT-GTTCAACCCTTATGGGTTTCCGTTTAGC-TCT
*
21941728 TATGTGCTTCTGTTCAACC
1 TATGAGCTTCTGTTCAACC
21941747 TTTAGGCTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 83 0.98
43 2 0.02
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (42 bp):
TATGAGCTTCTGTTCAACCCTTATGGGTTTCCGTTTAGCTCT
Found at i:21944937 original size:10 final size:11
Alignment explanation
Indices: 21944914--21944939 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21944904 AGGCTTTATC
21944914 AAAATAAATAA
1 AAAATAAATAA
21944925 AAAATAAATAA
1 AAAATAAATAA
21944936 AAAA
1 AAAA
21944940 AGTCAGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:21954684 original size:20 final size:19
Alignment explanation
Indices: 21954623--21954694 Score: 56
Period size: 20 Copynumber: 3.7 Consensus size: 19
21954613 GTAGATGGTA
* *
21954623 TTTAATTAATTTTTTAA-AA
1 TTTAA-TAATTTTATAATAT
* *
21954642 TTTAAAAATATTTTTAATAT
1 TTTAATAAT-TTTATAATAT
* *
21954662 TTTTATAATGTTTATAATTT
1 TTTAATAAT-TTTATAATAT
21954682 TTTAATAATTTTA
1 TTTAATAATTTTA
21954695 ATGACTTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 3 0.07
19 16 0.37
20 24 0.56
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (19 bp):
TTTAATAATTTTATAATAT
Found at i:21955216 original size:32 final size:32
Alignment explanation
Indices: 21955180--21955243 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
21955170 GCTGCATTCC
21955180 AGTGTTAATGTAAAACATGTGATATTCTTTTT
1 AGTGTTAATGTAAAACATGTGATATTCTTTTT
21955212 AGTGTTAATGTAAAACATGTGATATTCTTTTT
1 AGTGTTAATGTAAAACATGTGATATTCTTTTT
21955244 CATAATGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.47
Consensus pattern (32 bp):
AGTGTTAATGTAAAACATGTGATATTCTTTTT
Found at i:21959745 original size:37 final size:37
Alignment explanation
Indices: 21959684--21959829 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
21959674 TACGTATGAT
* *
21959684 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
21959719 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
21959756 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
21959793 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
21959830 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:21959846 original size:46 final size:46
Alignment explanation
Indices: 21959793--21960061 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
21959783 TAAGTGTAGC
* **
21959793 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
21959839 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
21959885 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
21959937 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
21959983 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
21960035 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
21960062 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:21959912 original size:52 final size:52
Alignment explanation
Indices: 21959836--21960055 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
21959826 TAGCTAAAGC
* *
21959836 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
21959889 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
21959941 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
21959987 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
21960039 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
21960056 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:21959958 original size:98 final size:98
Alignment explanation
Indices: 21959793--21960061 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
21959783 TAAGTGTAGC
* * *
21959793 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
21959858 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
21959892 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
21959957 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
21959990 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
21960055 GATCAGA
66 GATCAGA
21960062 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:21987885 original size:111 final size:111
Alignment explanation
Indices: 21987709--21987909 Score: 339
Period size: 111 Copynumber: 1.8 Consensus size: 111
21987699 TTTGTATGTG
* * *
21987709 TATATATATACCTTGTTAGAAACTAGCTTAATTAAGGTAAGAACCTCACTTGCCTCATGATTTGG
1 TATATATAGACCTTGTTACAAACTAGCTTAATTAAGGTAAGAACCTCACTTGCCTAATGATTTGG
21987774 TATGTATATGTTGATATGAAATGATTGGTATGTCTATATATATATA
66 TATGTATATGTTGATATGAAATGATTGGTATGTCTATATATATATA
* ** *
21987820 TATATATAGACCTTGTTACAAACTAGCTTAATTAAGGTAATAACCTTTCTTGTCTAATGATTTGG
1 TATATATAGACCTTGTTACAAACTAGCTTAATTAAGGTAAGAACCTCACTTGCCTAATGATTTGG
21987885 TATGTATATGTTGATATGAAATGAT
66 TATGTATATGTTGATATGAAATGAT
21987910 ATGGATCAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 83 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.40
Consensus pattern (111 bp):
TATATATAGACCTTGTTACAAACTAGCTTAATTAAGGTAAGAACCTCACTTGCCTAATGATTTGG
TATGTATATGTTGATATGAAATGATTGGTATGTCTATATATATATA
Found at i:21995543 original size:27 final size:27
Alignment explanation
Indices: 21995512--21995567 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
21995502 GTTAAATCGG
21995512 TATGTTTATGCTAGTAATATATTTCAC
1 TATGTTTATGCTAGTAATATATTTCAC
21995539 TATGTTTATGCTAGTAATATATTTCAC
1 TATGTTTATGCTAGTAATATATTTCAC
21995566 TA
1 TA
21995568 AGAATTTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (27 bp):
TATGTTTATGCTAGTAATATATTTCAC
Found at i:22000059 original size:16 final size:16
Alignment explanation
Indices: 22000040--22000107 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
22000030 TATTAAACTT
*
22000040 AATTACTTTAATATTA
1 AATTAATTTAATATTA
*
22000056 AATTTAATATAATATTTA
1 AA-TTAATTTAATA-TTA
** *
22000074 TCTTGA-TTAATATTA
1 AATTAATTTAATATTA
*
22000089 TATTAATTTAATATTA
1 AATTAATTTAATATTA
22000105 AAT
1 AAT
22000108 CTTATTAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
15 7 0.17
16 18 0.45
17 12 0.30
18 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (16 bp):
AATTAATTTAATATTA
Done.