Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 67 of 250
Found at i:20600952 original size:15 final size:15
Alignment explanation
Indices: 20600928--20600957 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20600918 TTTATATCTT
20600928 TATAAATTTTTTAAA
1 TATAAATTTTTTAAA
*
20600943 TATAATTTTTTTAAA
1 TATAAATTTTTTAAA
20600958 GGGTTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATAAATTTTTTAAA
Found at i:20603657 original size:18 final size:18
Alignment explanation
Indices: 20603634--20603670 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
20603624 TGGAAAAAAC
20603634 TATTTTTATACCTAGATG
1 TATTTTTATACCTAGATG
20603652 TATTTTTATACCTAGATG
1 TATTTTTATACCTAGATG
20603670 T
1 T
20603671 TCTAAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (18 bp):
TATTTTTATACCTAGATG
Found at i:20606054 original size:19 final size:19
Alignment explanation
Indices: 20606030--20606078 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
20606020 TTATAACTTA
20606030 TAAATAAATAAAATTA-TAC
1 TAAATAAATAAAATTAGT-C
* *
20606049 TAAATATATAATATTAGTC
1 TAAATAAATAAAATTAGTC
20606068 TAATATAAATA
1 TAA-ATAAATA
20606079 TTAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAATAAATAAAATTAGTC
Found at i:20606987 original size:26 final size:26
Alignment explanation
Indices: 20606945--20606995 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
20606935 AAGCACTGAA
* *
20606945 AAACAAAGTTATTCCAATTT-TTTTG
1 AAACAAAATTATCCCAATTTGTTTTG
20606970 AAACGAAAATTATCCCAATTTGTTTT
1 AAAC-AAAATTATCCCAATTTGTTTT
20606996 TAAAATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 14 0.64
27 4 0.18
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (26 bp):
AAACAAAATTATCCCAATTTGTTTTG
Found at i:20608315 original size:21 final size:20
Alignment explanation
Indices: 20608291--20608339 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
20608281 TTTTATATAA
**
20608291 ATTATTTATATTAAATTTTTT
1 ATTATTTAT-TTAAAAATTTT
20608312 ATTA-TTATTTAAAAATTTT
1 ATTATTTATTTAAAAATTTT
20608331 ATATATTTA
1 AT-TATTTA
20608340 GTAGTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.46
20 6 0.25
21 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTATTTATTTAAAAATTTT
Found at i:20608837 original size:29 final size:28
Alignment explanation
Indices: 20608772--20608846 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
20608762 AAACTTTTTT
* *
20608772 AAAATTAAAAAAATCATAATTATCTTAA
1 AAAATTAAAAAATTCATAATCATCTTAA
20608800 AAATTATTAAAAAATTCA-AATCATTCATTAA
1 AAA--ATTAAAAAATTCATAATCA-TC-TTAA
* *
20608831 AAAATTATAAATTTCA
1 AAAATTAAAAAATTCA
20608847 GAAAACAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 3 0.08
29 15 0.38
30 14 0.36
31 7 0.18
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (28 bp):
AAAATTAAAAAATTCATAATCATCTTAA
Found at i:20613592 original size:15 final size:15
Alignment explanation
Indices: 20613572--20613605 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
20613562 GAGTTCCATA
*
20613572 AGAAATATATCAGCC
1 AGAAATATATCAACC
*
20613587 AGAAATTTATCAACC
1 AGAAATATATCAACC
20613602 AGAA
1 AGAA
20613606 CCACAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (15 bp):
AGAAATATATCAACC
Found at i:20615934 original size:39 final size:40
Alignment explanation
Indices: 20615827--20616051 Score: 230
Period size: 39 Copynumber: 5.7 Consensus size: 40
20615817 TGAAATGATG
* * * *
20615827 TCCGGGCTAAGTCCCGAAGGC-TTTGT-CTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
20615866 TCCGGACTAAGAT-CTGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20615906 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAA
*
20615946 TCC-GGTTAAGTCCCGAAGGCATTT-TGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20615984 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20616025 TGACCGGGCTATGT-CCGAAGGCATTTG
1 T--CCGGGCTAAGTCCCGAAGGCATTTG
20616052 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
38 6 0.04
39 74 0.47
40 50 0.32
41 4 0.03
42 13 0.08
43 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20623910 original size:40 final size:40
Alignment explanation
Indices: 20623764--20623986 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
20623754 TTGAATGATG
* * * *
20623764 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
20623804 TCCGGACTAAGAT-CCGAAGG--TTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20623842 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20623881 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20623921 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20623962 -CCGGGCTATA-TCCTGAAGGCATTTG
1 TCCGGGCTA-AGTCCCGAAGGCATTTG
20623987 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
37 7 0.04
38 15 0.09
39 32 0.20
40 103 0.64
41 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20624004 original size:80 final size:80
Alignment explanation
Indices: 20623764--20624019 Score: 208
Period size: 80 Copynumber: 3.2 Consensus size: 80
20623754 TTGAATGATG
* * * * * * *
20623764 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGG--T
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** *
20623825 TTGTGCGAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* *
20623842 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
20623906 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
20623921 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATA-TCCTGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTA-AGTCCCGAAGGCAT
*
20623984 TTGAACGAG-GAGCTATA
64 TTGAACGAGTGA-CTAAA
* *
20624001 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
20624020 TACGTGATTT
Statistics
Matches: 151, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
76 1 0.01
77 32 0.21
78 18 0.12
79 40 0.26
80 57 0.38
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:20627363 original size:44 final size:44
Alignment explanation
Indices: 20627284--20627370 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
20627274 TTGATTATCA
* ** *
20627284 CCTGGGAAAGGCTAATGTTGGGCAATTTAGAAATTCCTGTAATT
1 CCTGGGAAAAGCTAATGTTGGGCAAACTAGAAATTCCCGTAATT
* * *
20627328 CCTGGGAAAAGCTAATGTTGTGCAAACTCGTAATTCCCGTAAT
1 CCTGGGAAAAGCTAATGTTGGGCAAACTAGAAATTCCCGTAAT
20627371 AATCCATTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
CCTGGGAAAAGCTAATGTTGGGCAAACTAGAAATTCCCGTAATT
Found at i:20634084 original size:77 final size:80
Alignment explanation
Indices: 20633917--20634096 Score: 201
Period size: 76 Copynumber: 2.3 Consensus size: 80
20633907 GCTACTCGTT
* **
20633917 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
20633982 ATTTAGTAACTCGCAC
65 ATATAGTAACTAGCAC
* **
20633998 CAATG-CTTCGGG-CTTAGCCCGAAT-TAGTAACTCGCAC-AATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
20634058 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
20634074 CAAAGCCTTCGGGACTTAGCCCG
1 CAAAGCCTTCGGGACTTAGCCCG
20634097 GACATCATCG
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
75 3 0.04
76 28 0.33
77 24 0.29
78 18 0.21
79 7 0.08
80 1 0.01
81 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:20634098 original size:40 final size:39
Alignment explanation
Indices: 20633898--20634098 Score: 196
Period size: 40 Copynumber: 5.1 Consensus size: 39
20633888 CGGAATTTAA
** *
20633898 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAA-GCCTTCGGGACTTAGC
* *
20633938 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAA-GCCTTCGGGACTTAGC
* *
20633978 CCGGATTTAGTAACTCGCACCAATG-CTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCA-CAAAGCCTTCGGGACTTAGC
* * *
20634016 CCGAAT-TAGTAACTCGCACAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAAGCCTTCGGGA-CTTAGC
* * *
20634054 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAAGCCTTCGGGACTTAGC
20634094 CCGGA
1 CCGGA
20634099 CATCATCGAA
Statistics
Matches: 136, Mismatches: 17, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
36 7 0.05
37 16 0.12
38 20 0.15
39 13 0.10
40 74 0.54
41 6 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAAGCCTTCGGGACTTAGC
Found at i:20642119 original size:79 final size:81
Alignment explanation
Indices: 20641948--20642125 Score: 217
Period size: 79 Copynumber: 2.2 Consensus size: 81
20641938 GAATCACGTA
* *
20641948 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
* *
20642012 GTAACTCGCACCAATG
66 GTAACTAGCACCAAAG
**
20642028 CCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCAC-AATGCCTTC-GGATCTTAGTCCGGATAT
1 CCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGAT-T
*
20642089 T-GTCACTTAGCA-CAAAG
64 TAGTAAC-TAGCACCAAAG
20642106 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
20642126 CATCATTCGA
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
77 3 0.03
78 35 0.41
79 39 0.45
80 9 0.10
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (81 bp):
CCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
GTAACTAGCACCAAAG
Found at i:20642125 original size:40 final size:40
Alignment explanation
Indices: 20641948--20642125 Score: 206
Period size: 40 Copynumber: 4.5 Consensus size: 40
20641938 GAATCACGTA
* *
20641948 CCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAA-G
* *
20641988 CCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA-CAAAG
*
20642028 CCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAATG
1 CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAAG
* * *
20642066 CCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAGCCCGGATATTAGTAAC-TCGCACAAAG
20642106 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
20642126 CATCATTCGA
Statistics
Matches: 120, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
37 2 0.02
38 10 0.08
39 37 0.31
40 65 0.54
41 6 0.05
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAAG
Found at i:20653073 original size:38 final size:38
Alignment explanation
Indices: 20652973--20653136 Score: 211
Period size: 38 Copynumber: 4.2 Consensus size: 38
20652963 TCGAAATATG
* *
20652973 ATATCTGGGTTAAATCCCGCAGGCTTCGTGCTTGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
20653011 ATATCTGGGTTGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATC-CGG--GTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
20653052 ATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * * *
20653090 ATATCCAGGTTAAATCCCGTAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
20653128 ATATTCGGG
1 ATATCCGGG
20653137 CCTTTAAGCC
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
38 73 0.66
39 2 0.02
40 2 0.02
41 33 0.30
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:20653226 original size:45 final size:46
Alignment explanation
Indices: 20653130--20653242 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
20653120 CTGGTATTAT
* * * * *
20653130 ATTCGGGCCTTT-AAGCCTAACAGACTATTATGCCGGTGAGACATT
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAGACATG
20653175 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-ATG
1 ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAGACATG
20653219 ATATCGGGCC--TCGAGCCTAGCAGG
1 AT-TCGGGCCTTTCGAGCCTAGCAGG
20653243 TGAAATGCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
43 14 0.23
44 4 0.07
45 20 0.33
46 23 0.38
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (46 bp):
ATTCGGGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAGACATG
Found at i:20656678 original size:43 final size:42
Alignment explanation
Indices: 20656581--20656685 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
20656571 CTCATCCATA
* *
20656581 ATGAACTCGAACCTCTCAACAAGTTCAAGTGCCACATAAATC
1 ATGAACTCGGACCACTCAACAAGTTCAAGTGCCACATAAATC
* * * * *
20656623 ACGAACTTGGACCACTCAACAAGTTC-GGATTCTCACATATATC
1 ATGAACTCGGACCACTCAACAAGTTCAAG-TGC-CACATAAATC
20656666 ATGAACTCGGACCACTCAAC
1 ATGAACTCGGACCACTCAAC
20656686 GAGCTCGAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 24 0.46
43 27 0.52
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (42 bp):
ATGAACTCGGACCACTCAACAAGTTCAAGTGCCACATAAATC
Found at i:20675761 original size:119 final size:120
Alignment explanation
Indices: 20675579--20675794 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 120
20675569 TCCTCGTTCA
** *
20675579 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* *
20675644 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTATCCTGGATTCACTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTATCCTGGATTCACTAACTCGCACC
* **
20675699 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTAACTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGAATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* *
20675761 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
20675795 GCCCGGACAT
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 59 0.71
120 20 0.24
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTATCCTGGATTCACTAACTCGCACC
Found at i:20675785 original size:79 final size:79
Alignment explanation
Indices: 20675608--20675799 Score: 212
Period size: 79 Copynumber: 2.4 Consensus size: 79
20675598 CCGGTTATAG
* * * * *
20675608 TAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAC
1 TAACTAGCACAAA-GCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATACCTTCGGGAC
20675673 TTATCCTGGATTCAC
65 TTATCCTGGATTCAC
* *
20675688 TAACTCGCACCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCACAAATACCTTC-GGAT
1 TAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATACCTTCGGGA-
**
20675751 CTTAGTCC-GGATAT-GG
64 CTTA-TCCTGGAT-TCAC
*
20675767 TCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 TAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
20675800 GACATCATTC
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
78 3 0.03
79 55 0.57
80 35 0.36
81 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (79 bp):
TAACTAGCACAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCACAAATACCTTCGGGACT
TATCCTGGATTCAC
Found at i:20675801 original size:40 final size:40
Alignment explanation
Indices: 20675577--20675801 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
20675567 GCTCCTCGTT
* *
20675577 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
20675617 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
20675657 CAAATGCCTTCGGGACTTATCCTGGAT-TCACTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATAT-AGTAACTCGCA
* *
20675697 CCAATGCCTTCGGG-CTTAGCCC-GAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
20675736 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
20675777 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20675802 CATCATTCAA
Statistics
Matches: 156, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
38 4 0.03
39 26 0.17
40 112 0.72
41 14 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:20683683 original size:79 final size:79
Alignment explanation
Indices: 20683580--20683801 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 79
20683570 GCTCCTCGTT
* *
20683580 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGA
*
20683645 TTTAGTAACTCGCA
66 ATTAGTAACTCGCA
* *
20683659 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-
*
20683722 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
* * * * *
20683738 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
20683801 G
64 G
20683802 GACATCATTC
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 11 0.09
79 96 0.77
80 17 0.14
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGA
ATTAGTAACTCGCA
Found at i:20683803 original size:40 final size:40
Alignment explanation
Indices: 20683580--20683803 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
20683570 GCTCCTCGTT
* *
20683580 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
20683620 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
20683659 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
20683699 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
20683738 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
20683779 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20683804 CATCATTCAA
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 68 0.42
40 80 0.49
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:20689918 original size:26 final size:27
Alignment explanation
Indices: 20689889--20689939 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
20689879 AATCATGCAT
* *
20689889 CACATAGGGGCA-AAACAGTCATTTGC
1 CACATAGAGGCATAAACAATCATTTGC
20689915 CACATAGAGGCATAAACAATCATTT
1 CACATAGAGGCATAAACAATCATTT
20689940 TATCAATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.22
Consensus pattern (27 bp):
CACATAGAGGCATAAACAATCATTTGC
Found at i:20691056 original size:23 final size:24
Alignment explanation
Indices: 20691006--20691081 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
20690996 AATGGGGACA
* *
20691006 GGAAATAGCAAATTGGCAGT--AG
1 GGAAATAGCAAATCGACAGTAAAG
20691028 GGAAATAGC-AATC-AGCAGTAAAG
1 GGAAATAGCAAATCGA-CAGTAAAG
*
20691051 GGAAATAGCAAATCGACAGTAGAG
1 GGAAATAGCAAATCGACAGTAAAG
20691075 GGAAATA
1 GGAAATA
20691082 AAATCAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 7 0.15
22 9 0.20
23 11 0.24
24 18 0.39
25 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.29, T:0.14
Consensus pattern (24 bp):
GGAAATAGCAAATCGACAGTAAAG
Found at i:20694635 original size:19 final size:18
Alignment explanation
Indices: 20694607--20694650 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
20694597 ATGAAATTTT
*
20694607 AATTAGTATTATGAGAGAA
1 AATTATTATTATGAGA-AA
*
20694626 AATTATTATTATTAGAAA
1 AATTATTATTATGAGAAA
20694644 AA-TATTA
1 AATTATTA
20694651 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (18 bp):
AATTATTATTATGAGAAA
Found at i:20697155 original size:20 final size:20
Alignment explanation
Indices: 20697132--20697170 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
20697122 TAAACATGGT
20697132 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
20697152 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
20697171 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:20697304 original size:24 final size:24
Alignment explanation
Indices: 20697220--20697351 Score: 212
Period size: 25 Copynumber: 5.4 Consensus size: 24
20697210 GGAGGAAGTG
20697220 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
20697244 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
20697269 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
20697294 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
20697318 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
20697341 TAAAAGAGGCT
1 TAAAAG-GGCT
20697352 AGGCCTCCAG
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
23 18 0.17
24 38 0.37
25 48 0.46
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:20697317 original size:49 final size:49
Alignment explanation
Indices: 20697222--20697374 Score: 213
Period size: 50 Copynumber: 3.1 Consensus size: 49
20697212 AGGAAGTGTA
*
20697222 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTATGCCCCAGTTATGAT
*
20697272 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATGAT
*
20697320 AAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGATATATGAT
1 AAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAG-T-TATGAT
20697371 AAAG
1 AAAG
20697375 CAGCTATGCT
Statistics
Matches: 94, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
47 23 0.24
48 16 0.17
49 24 0.26
50 27 0.29
51 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATGAT
Found at i:20697594 original size:31 final size:31
Alignment explanation
Indices: 20697559--20697622 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
20697549 TGTTTACAGT
*
20697559 AAAGGCTTCGGCCCAATAATGTGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* **
20697590 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
20697621 AA
1 AA
20697623 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:20699939 original size:15 final size:13
Alignment explanation
Indices: 20699909--20699959 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
20699899 TATTCAAAAA
20699909 TTATTTTTTGTGT
1 TTATTTTTTGTGT
20699922 TTATTTTTTGTG-
1 TTATTTTTTGTGT
* *
20699934 --AATTTATGTGT
1 TTATTTTTTGTGT
*
20699945 TAATTTTTTGTGT
1 TTATTTTTTGTGT
20699958 TT
1 TT
20699960 TAATTTTACT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 8 0.27
13 22 0.73
ACGTcount: A:0.14, C:0.00, G:0.16, T:0.71
Consensus pattern (13 bp):
TTATTTTTTGTGT
Found at i:20701180 original size:43 final size:42
Alignment explanation
Indices: 20701076--20701343 Score: 186
Period size: 43 Copynumber: 6.2 Consensus size: 42
20701066 AGGATTTTCA
* * * ** *
20701076 ATATATGATTACGTGTAAGACCATGTATGGGACATCGGCATCG
1 ATATGTGATT-CGTGTAAGACCACGTCTGGGATGTTGGCATCG
* * *
20701119 -TATTTGATTCGCGTAAGACCACGTCTGTGATGTTGGCATCG
1 ATATGTGATTCGTGTAAGACCACGTCTGGGATGTTGGCATCG
* ** *
20701160 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCG
1 ATATGTGATT-CGTGTAAGACCACGTCTGGGATGTTGGCATCG
* * *
20701203 -TATTTGATTCGTGTAAGTACC-CTATCTGGGACAG-TGGCATCG
1 ATATGTGATTCGTGTAAG-ACCAC-GTCTGGGA-TGTTGGCATCG
*
20701245 ATATGTGATTCCATGTAAGACCACGTCTGGGATGTTGGCATTGTACG
1 ATATGTGATT-CGTGTAAGACCACGTCTGGGATGTTGGCA---T-CG
* * ****
20701292 ATATGTG-TGTGCGAGTAAGACCACGTTTAATTTGTTGGCATCG
1 ATATGTGAT-T-CGTGTAAGACCACGTCTGGGATGTTGGCATCG
20701335 ATATGTGAT
1 ATATGTGAT
20701344 CCCGATATGT
Statistics
Matches: 177, Mismatches: 33, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
41 33 0.19
42 42 0.24
43 58 0.33
44 10 0.06
46 2 0.01
47 32 0.18
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
ATATGTGATTCGTGTAAGACCACGTCTGGGATGTTGGCATCG
Found at i:20701231 original size:42 final size:42
Alignment explanation
Indices: 20701076--20701276 Score: 210
Period size: 43 Copynumber: 4.7 Consensus size: 42
20701066 AGGATTTTCA
* *
20701076 ATATATGATTACGTGTAAGACCATGTATGGGACATCGGCATCG
1 ATATGTGATT-CGTGTAAGACCATGTCTGGGACATCGGCATCG
* * * * ** *
20701119 -TATTTGATTCGCGTAAGACCACGTCTGTGATGTTGGCATCG
1 ATATGTGATTCGTGTAAGACCATGTCTGGGACATCGGCATCG
20701160 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCG
1 ATATGTGATT-CGTGTAAGACCATGTCTGGGACATCGGCATCG
* * *
20701203 -TATTTGATTCGTGTAAGTACCCTATCTGGGACAGT-GGCATCG
1 ATATGTGATTCGTGTAAG-ACCATGTCTGGGACA-TCGGCATCG
* *
20701245 ATATGTGATTCCATGTAAGACCACGTCTGGGA
1 ATATGTGATT-CGTGTAAGACCATGTCTGGGA
20701277 TGTTGGCATT
Statistics
Matches: 129, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
41 33 0.26
42 44 0.34
43 45 0.35
44 7 0.05
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
ATATGTGATTCGTGTAAGACCATGTCTGGGACATCGGCATCG
Found at i:20701285 original size:85 final size:84
Alignment explanation
Indices: 20701076--20701276 Score: 271
Period size: 84 Copynumber: 2.4 Consensus size: 84
20701066 AGGATTTTCA
* * *
20701076 ATATATGATTACGTGTAAGACCATGTATGGGACATCGGCATCGTATTTGATTCGCGTAAGACCAC
1 ATATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTCGCGTAAGACCAC
* * *
20701141 GTCTGTGATGTTGGCATCG
66 ATCTGGGAAGTTGGCATCG
* *
20701160 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTCGTGTAAGTACC-
1 ATATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTCGCGTAAG-ACCA
20701224 CTATCTGGGACAG-TGGCATCG
65 C-ATCTGGGA-AGTTGGCATCG
* *
20701245 ATATGTGATTCCATGTAAGACCACGTCTGGGA
1 ATATGTGATTACATGTAAGACCATGTCTGGGA
20701277 TGTTGGCATT
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
84 58 0.55
85 46 0.44
86 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (84 bp):
ATATGTGATTACATGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTCGCGTAAGACCAC
ATCTGGGAAGTTGGCATCG
Found at i:20702735 original size:13 final size:14
Alignment explanation
Indices: 20702707--20702739 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
20702697 CATTTCAACC
*
20702707 ATGTTTATATTTAT
1 ATGTTTATATTGAT
20702721 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
20702734 ATGTTT
1 ATGTTT
20702740 GTTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:20704061 original size:48 final size:48
Alignment explanation
Indices: 20704007--20704143 Score: 157
Period size: 48 Copynumber: 2.9 Consensus size: 48
20703997 TGCTCATATT
*
20704007 GATGCCAATGTCATGTCCCAAACATGGTCTTATATGGGATCACATAAC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTATATGGGATCACATAAC
* * * * *
20704055 GATGCCAATGCCGTGTACCAAACATGGTCTTACATGGGATCATATATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTATATGGGATCACATAAC
* * * * * * *
20704103 AATGCCGATGCCATATCCCAGATATGGCCTTATACGGGATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTATATGGGATC
20704144 TCATCAACAC
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAAACATGGTCTTATATGGGATCACATAAC
Found at i:20706742 original size:17 final size:18
Alignment explanation
Indices: 20706715--20706750 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
20706705 TCTGATTCAA
20706715 CACTCGACTCACATTGAG
1 CACTCGACTCACATTGAG
20706733 CACT-GACTCACATTGAG
1 CACTCGACTCACATTGAG
20706750 C
1 C
20706751 TCTCTTGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (18 bp):
CACTCGACTCACATTGAG
Found at i:20707959 original size:27 final size:27
Alignment explanation
Indices: 20707928--20708199 Score: 312
Period size: 27 Copynumber: 10.1 Consensus size: 27
20707918 GTAGGGTAAA
* *
20707928 TCAGTCATTTTACCTTACAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* * *
20707955 ACAGTCATTTTATCCTACAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* * * *
20707982 ACAGTCATATTACCTTATAGGGGCATT
1 TCAGTCATTTTACCCTATAGGGGTATT
20708009 TCAGTCATTTTACCCTATAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* * *
20708036 TTAGTCATTTTACCCTACAAGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* * *
20708063 TCGGTCATTTTACCTTATGGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* * *
20708090 TCGGTCATTTTACCTTATGGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* *
20708117 TCAATCATTTTACCCTATAAGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
** *
20708144 TTGGTCATTTTACCCTATGGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
*
20708171 TCAGCCATTTTACCCTAT-GAGGGTATT
1 TCAGTCATTTTACCCTATAG-GGGTATT
20708198 TC
1 TC
20708200 GGCCCAACAT
Statistics
Matches: 210, Mismatches: 34, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 209 1.00
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (27 bp):
TCAGTCATTTTACCCTATAGGGGTATT
Found at i:20708018 original size:81 final size:81
Alignment explanation
Indices: 20707928--20708199 Score: 357
Period size: 81 Copynumber: 3.4 Consensus size: 81
20707918 GTAGGGTAAA
* * * * * * *
20707928 TCAGTCATTTTACCTTACAGGGGTATTACAGTCATTTTATCCTACAGGGGTATTACAGTCATATT
1 TCAGTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTACAAGGGTATTTCGGTCATTTT
* *
20707993 ACCTTATAGGGGCATT
66 ACCTTATGGGGGTATT
* *
20708009 TCAGTCATTTTACCCTATAGGGGTATTTTAGTCATTTTACCCTACAAGGGTATTTCGGTCATTTT
1 TCAGTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTACAAGGGTATTTCGGTCATTTT
20708074 ACCTTATGGGGGTATT
66 ACCTTATGGGGGTATT
* * * * *
20708090 TCGGTCATTTTACCTTATGGGGGTATTTCAATCATTTTACCCTATAAGGGTATTTTGGTCATTTT
1 TCAGTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTACAAGGGTATTTCGGTCATTTT
*
20708155 ACCCTATGGGGGTATT
66 ACCTTATGGGGGTATT
* *
20708171 TCAGCCATTTTACCCTAT-GAGGGTATTTC
1 TCAGTCATTTTACCTTATAG-GGGTATTTC
20708200 GGCCCAACAT
Statistics
Matches: 168, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 1 0.01
81 167 0.99
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (81 bp):
TCAGTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTACAAGGGTATTTCGGTCATTTT
ACCTTATGGGGGTATT
Found at i:20711169 original size:38 final size:38
Alignment explanation
Indices: 20711127--20711205 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
20711117 ATTATGCAAC
*
20711127 ATGTACCATTGTAAAACCCTAAACCCGACCTAGATGTT
1 ATGTACCATTGTAAAACCCCAAACCCGACCTAGATGTT
*
20711165 ATGTACCATTGTAAAACCCCAAACCCGGCCTAGATGTT
1 ATGTACCATTGTAAAACCCCAAACCCGACCTAGATGTT
20711203 ATG
1 ATG
20711206 GCCAAATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (38 bp):
ATGTACCATTGTAAAACCCCAAACCCGACCTAGATGTT
Found at i:20711811 original size:34 final size:34
Alignment explanation
Indices: 20711739--20711811 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
20711729 AGTAACAGTC
* *
20711739 CAGTATCAGTTTGGGCCTTAGCCCATTACAGTAT
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
* * *
20711773 CAGTATCTGTGTGGGCCTTAGCCCATTTCATTAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
20711807 CAGTA
1 CAGTA
20711812 ACATAAATGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
Found at i:20714212 original size:44 final size:44
Alignment explanation
Indices: 20714161--20714245 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
20714151 TATGTAATCT
* *
20714161 GAACTCATTGAGTTGT-GTCTGAGTTCATGATATATGTGACAGCA
1 GAACTCATTGAGTTATGGTC-GAGTTCATGATATATATGACAGCA
*
20714205 GAACTCATTGAGTTATGGTCGAGTTCGTGATATATATGACA
1 GAACTCATTGAGTTATGGTCGAGTTCATGATATATATGACA
20714246 CATGTTTTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 34 0.92
45 3 0.08
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (44 bp):
GAACTCATTGAGTTATGGTCGAGTTCATGATATATATGACAGCA
Found at i:20717967 original size:40 final size:40
Alignment explanation
Indices: 20717731--20717953 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
20717721 TTGAATGATG
* * * *
20717731 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
20717771 TCCGGACTAAGAT-CCGAAGGCATTTGT--GAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20717809 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20717848 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20717888 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20717929 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20717954 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
37 13 0.08
38 15 0.09
39 19 0.12
40 106 0.66
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20723648 original size:26 final size:26
Alignment explanation
Indices: 20723618--20723668 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
20723608 ACCAATGAAC
*
20723618 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
20723644 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
20723669 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:20723708 original size:103 final size:104
Alignment explanation
Indices: 20723524--20723746 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
20723514 AATGGATATC
20723524 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
20723589 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
20723628 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
20723692 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
20723731 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
20723747 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 94 0.84
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:20724108 original size:29 final size:29
Alignment explanation
Indices: 20724075--20724138 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
20724065 TAATCCACCA
20724075 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
20724104 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
20724134 CCCAA
1 CCCAA
20724139 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:20724112 original size:30 final size:30
Alignment explanation
Indices: 20724082--20724138 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20724072 CCACCCAACT
20724082 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
20724111 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
20724139 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:20728916 original size:40 final size:40
Alignment explanation
Indices: 20728678--20728902 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
20728668 TTGAATGATG
* * * *
20728678 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
20728718 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20728758 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20728797 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20728837 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20728878 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20728903 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20728925 original size:119 final size:119
Alignment explanation
Indices: 20728685--20728935 Score: 278
Period size: 119 Copynumber: 2.1 Consensus size: 119
20728675 ATGTCCGGGC
*
20728685 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* ** *
20728750 ATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGAGT
* * * **
20728804 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * * *
20728867 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-AGT
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCCGAGT
* *
20728923 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
20728936 TATGTGATTT
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 77 0.69
120 31 0.28
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGAGT
Found at i:20734245 original size:15 final size:15
Alignment explanation
Indices: 20734225--20734282 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
20734215 GTATCTTGGG
*
20734225 TTTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
*
20734240 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
20734255 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
20734270 TTTCTTTATTCTG
1 TTTCTTTATTCTG
20734283 TTTTCTTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.11
15 28 0.78
16 4 0.11
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:20735880 original size:49 final size:48
Alignment explanation
Indices: 20735808--20735951 Score: 164
Period size: 49 Copynumber: 2.9 Consensus size: 48
20735798 GCCGAAGCTA
*
20735808 TCTGGTA-AGCATAGTATCCTGCACTTAGTACTACACATGCGACCAATAG
1 TCTGGTACA-CATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT-G
* * *
20735857 TCTGGTACACATAGTAGCCTGCACTTAGTATTACACATGTGATCACAATT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATG
* * * *
20735907 TTTGGGAACGCATAGTAGCCTACACTTAGTACTACACATGCGACC
1 TCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
20735952 TCACAATAGA
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
49 38 0.47
50 5 0.06
51 38 0.47
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (48 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATG
Found at i:20740437 original size:43 final size:43
Alignment explanation
Indices: 20740382--20740536 Score: 206
Period size: 43 Copynumber: 3.7 Consensus size: 43
20740372 ATATCGTACA
*
20740382 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * *
20740425 ATGCCACCGTCCCAGATAGGGTCTTACATG-AATCAAATA-CG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * *
20740466 ATGTCGATGTCCCAGACATGGTCTTACACGTAATCACATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
20740509 ATGCCAACGTCCCAGACATGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
20740537 CGAGAGCACA
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
41 25 0.27
42 16 0.17
43 52 0.56
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:20744463 original size:23 final size:22
Alignment explanation
Indices: 20744412--20744464 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
20744402 CCTCGTCTTT
*
20744412 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
20744434 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
20744457 TTCTTTTC
1 TTCTTTTC
20744465 AATTTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.19
23 14 0.54
24 5 0.19
ACGTcount: A:0.09, C:0.25, G:0.02, T:0.64
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:20753710 original size:80 final size:80
Alignment explanation
Indices: 20753575--20753782 Score: 242
Period size: 80 Copynumber: 2.6 Consensus size: 80
20753565 TGAATGATAT
* * * * * *
20753575 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTTTATCCAGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCAGGCTAAGACCCGAAGGCATTTA
* * *
20753640 TGCTAG-TGATTTTAC
66 TGCGAGTTG-CTATAC
20753655 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCAGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCAGGCTAAGACCCGAAGGCATTT
*
20753719 GTGCGAGTTGCTATAC
65 ATGCGAGTTGCTATAC
* * ** *
20753735 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCAGGCTAA
20753783 ATTTCGAAGA
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
79 8 0.07
80 97 0.88
81 5 0.05
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCAGGCTAAGACCCGAAGGCATTTA
TGCGAGTTGCTATAC
Found at i:20753719 original size:40 final size:40
Alignment explanation
Indices: 20753571--20753782 Score: 214
Period size: 40 Copynumber: 5.3 Consensus size: 40
20753561 CATTTGAATG
* * * *
20753571 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * * *
20753611 TTATCCAGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
20753651 TTACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* *
20753691 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * ** *
20753731 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
20753771 ATATCC-GGCTAA
1 ATATCCGGGCTAA
20753783 ATTTCGAAGA
Statistics
Matches: 149, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 7 0.05
40 139 0.93
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:20755764 original size:21 final size:21
Alignment explanation
Indices: 20755740--20755781 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
20755730 CATTAAATGA
20755740 GCACAAAATACAACCCATTGT
1 GCACAAAATACAACCCATTGT
*
20755761 GCACAGAATACAACCCATTGT
1 GCACAAAATACAACCCATTGT
20755782 ACACCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.29, G:0.12, T:0.19
Consensus pattern (21 bp):
GCACAAAATACAACCCATTGT
Found at i:20757342 original size:56 final size:56
Alignment explanation
Indices: 20757255--20757361 Score: 205
Period size: 56 Copynumber: 1.9 Consensus size: 56
20757245 CATGGCATCA
*
20757255 ATATATGTGTGCGAGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTGACTCTG
1 ATATATGTGTGCGAGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGACTCTG
20757311 ATATATGTGTGCGAGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGA
1 ATATATGTGTGCGAGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGA
20757362 TTACATGTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGACTCTG
Found at i:20759495 original size:17 final size:18
Alignment explanation
Indices: 20759473--20759506 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20759463 CACATTGAAG
20759473 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
20759490 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
20759507 CTTCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:20761932 original size:29 final size:29
Alignment explanation
Indices: 20761872--20761960 Score: 126
Period size: 29 Copynumber: 3.1 Consensus size: 29
20761862 ACATACATGT
* *
20761872 ATATGGCCCACTAGGCCC-AATCTCATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
20761900 ATATGGTCCATTGGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
20761929 ATATGGCCCATTAGGCCCAAATCACATAC
1 ATATGGCCCATTAGGCCCAAATCACATTC
20761958 ATA
1 ATA
20761961 GTCTTGCTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 15 0.28
29 38 0.72
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:20768647 original size:30 final size:30
Alignment explanation
Indices: 20768590--20768647 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20768580 ATTTTTGAGC
*
20768590 TTAGGGGAAAAATTGTAATTCTGCAAAGGT
1 TTAGGGGAAAAATTGTAATTCTCCAAAGGT
* *
20768620 TTAGGGGCAAAATTGTAATTTTCCAAAG
1 TTAGGGGAAAAATTGTAATTCTCCAAAG
20768648 TTTGAGTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (30 bp):
TTAGGGGAAAAATTGTAATTCTCCAAAGGT
Found at i:20769252 original size:44 final size:44
Alignment explanation
Indices: 20769187--20769270 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
20769177 TTGATATCTC
*
20769187 AAAGTCCATGGTAGTACCATGGCAATTAAGGAAGAATTGAAGGA
1 AAAGTCCATGGTAGTAACATGGCAATTAAGGAAGAATTGAAGGA
* * *
20769231 AAAGTCCATGTTCA-TAACATGGCATTTAAGGAGGAATTGA
1 AAAGTCCATGGT-AGTAACATGGCAATTAAGGAAGAATTGA
20769271 CGGTTAAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTAGTAACATGGCAATTAAGGAAGAATTGAAGGA
Found at i:20769470 original size:47 final size:47
Alignment explanation
Indices: 20769410--20769531 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
20769400 GCATTGGCAC
*
20769410 TAAGACAAGGATACCATGTAAGACCATGTTTGGAATATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
20769457 TAAGACAATGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *
20769504 TAAGATAAGGATATCATCTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
20769532 CCAAGGCAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:20769574 original size:54 final size:54
Alignment explanation
Indices: 20769510--20769915 Score: 397
Period size: 54 Copynumber: 7.6 Consensus size: 54
20769500 TTGGTAAGAT
* * * * *
20769510 AAGGATATCATCTAAGACCATGCCAAGGCAAGACATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * * *
20769564 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* * * *
20769619 AAAGG-TCCCATGTAAGACTATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGAC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
*** **
20769672 AAGGATACCATGTAAGACCATG-TTTGGAACATGGCATT--TG-G-----TAAGAT
1 AAGGATACCATGTAAGACCATGCCAAGG--CATGGCATTGATGAGTTCTATAAGGC
* *
20769719 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * * * *
20769773 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATTAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
* *
20769828 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * *
20769881 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCA
20769916 ATGGTAAGTT
Statistics
Matches: 291, Mismatches: 44, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
46 9 0.03
47 26 0.09
48 3 0.01
49 1 0.00
51 1 0.00
52 12 0.04
53 53 0.18
54 94 0.32
55 84 0.29
56 8 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:20769817 original size:209 final size:209
Alignment explanation
Indices: 20769457--20769903 Score: 822
Period size: 209 Copynumber: 2.1 Consensus size: 209
20769447 TGGCATTTGG
*
20769457 TAAGACAATGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATC
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATC
20769522 TAAGACCATGCCAAGGCAAGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCAAGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
*
20769587 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACTATGCCAAGGCATGG
131 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
20769652 CATTGGTGAGTTCA
196 CATTGGTGAGTTCA
*
20769666 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATC
* *
20769731 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCAAGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
*
20769796 CAAGACATGGCATTGATGAGTTACTATTAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
20769861 CATTGGTGAGTTCA
196 CATTGGTGAGTTCA
* *
20769875 TAAGGCAAGGATACCACGTAAGACCATGT
1 TAAGACAAGGATACCATGTAAGACCATGT
20769904 CAAGACATGG
Statistics
Matches: 230, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
209 230 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (209 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATC
TAAGACCATGCCAAGGCAAGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
CATTGGTGAGTTCA
Found at i:20769860 original size:155 final size:154
Alignment explanation
Indices: 20769564--20769864 Score: 367
Period size: 155 Copynumber: 1.9 Consensus size: 154
20769554 TCTATAAGGC
* * **
20769564 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCA
1 AAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGAACCA
* * *
20769629 TGTAAGACTATGCCAAGGCATGGCATTGGTGAGTTCATAAGACAAGGATACCATGTAAGACCATG
66 TGTAAGACCATGCCAAGACATGGCATTGATGAGTTCATAAGACAAGGATACCATGTAAGACCATG
***
20769694 TTTGGAACATGGCATTTGGTAAGAT
131 CAAGG-ACATGGCATTTGGTAAGAT
* * *
20769719 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGC-AAGGAAATC
1 AAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGG-AACC
* * * *
20769782 ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATTAGGCAAAGG-TCCCATGTAAGAC
65 ATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-C-ATAAGAC-AAGGATACCATGTAAGAC
20769846 CATGCCAAGG-CATGGCATT
127 CATG-CAAGGACATGGCATT
20769865 GGTGAGTTCA
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
153 4 0.03
154 42 0.34
155 51 0.41
156 21 0.17
157 6 0.05
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (154 bp):
AAGGAAATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGAACCA
TGTAAGACCATGCCAAGACATGGCATTGATGAGTTCATAAGACAAGGATACCATGTAAGACCATG
CAAGGACATGGCATTTGGTAAGAT
Found at i:20770062 original size:17 final size:16
Alignment explanation
Indices: 20770029--20770062 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20770019 CTTATTTAAT
*
20770029 ATTGAGATTGTAAGTA
1 ATTGAGATTATAAGTA
20770045 ATTGAGATTATCAAGTA
1 ATTGAGATTAT-AAGTA
20770062 A
1 A
20770063 GCGATAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATTGAGATTATAAGTA
Found at i:20774508 original size:43 final size:43
Alignment explanation
Indices: 20774461--20774620 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 43
20774451 AATGCCAACG
* * *
20774461 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTT
1 TCCCAGAAGTGGTCTTACACGTAATCACATATCGATGCCACTA
* * *
20774504 TCCCAGATAG-GGTCTTACACG-AATCAAATAT-GATGTCGA-TG
1 TCCCAGA-AGTGGTCTTACACGTAATCACATATCGATG-CCACTA
* *
20774545 TCTCAGAAATGGTCTTACACGTAATCACATATCGATGCCAAC-A
1 TCCCAGAAGTGGTCTTACACGTAATCACATATCGATGCC-ACTA
* * *
20774588 TCCTAGACGTGGTCTTACATGTAATCACATATC
1 TCCCAGAAGTGGTCTTACACGTAATCACATATC
20774621 AGAAATCCTA
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 22 0.23
42 21 0.22
43 50 0.53
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (43 bp):
TCCCAGAAGTGGTCTTACACGTAATCACATATCGATGCCACTA
Found at i:20780121 original size:30 final size:30
Alignment explanation
Indices: 20780087--20780147 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
20780077 TCCTTAACTC
20780087 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
20780117 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
20780147 A
1 A
20780148 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:20781982 original size:16 final size:16
Alignment explanation
Indices: 20781947--20781997 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
20781937 GTAGATTGAC
* *
20781947 AAATCCCGAAAAGCCA
1 AAATACCGAAAAGCCG
*
20781963 AAATACCGAAAAGCTG
1 AAATACCGAAAAGCCG
* *
20781979 AAATGCCAAAAAGCCG
1 AAATACCGAAAAGCCG
20781995 AAA
1 AAA
20781998 GGTTGGCCAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.53, C:0.24, G:0.16, T:0.08
Consensus pattern (16 bp):
AAATACCGAAAAGCCG
Found at i:20782253 original size:28 final size:29
Alignment explanation
Indices: 20782213--20782324 Score: 122
Period size: 28 Copynumber: 4.0 Consensus size: 29
20782203 CATGACTGTA
* *
20782213 AATGTGATTTGGGTCTAGT-GGCCATATG
1 AATGTGATTTGGGCCTAATAGGCCATATG
* * *
20782241 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATAGGCCATATG
*
20782270 AATGTGAATT-GGCCTAATAGGCCATATG
1 AATGTGATTTGGGCCTAATAGGCCATATG
* * *
20782298 AAAGAGA-TTGGGCCTAGTAGGCCATAT
1 AATGTGATTTGGGCCTAATAGGCCATAT
20782325 ATATATAGGT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
27 2 0.03
28 53 0.75
29 16 0.23
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATAGGCCATATG
Found at i:20799127 original size:40 final size:40
Alignment explanation
Indices: 20798943--20799124 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
20798933 ACTTGAATTC
* * *
20798943 TCGCACACTGAGTGCCAATACTTAGCCGAAGCTATTTC-AA
1 TCGCACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAA
*
20798983 TCTCGCACATTAAGTGCCATACATAGCCGAAGCTATCTCGAA
1 --TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
* *
20799025 TCGCACAGTAAGTGCCATACATAGCCAAAGCTATCTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
* *
20799065 TCGTACACTAAGTGCCATACGTAGCCGAAGCTATCTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
20799105 TCGCACACTAAGTGCCATAC
1 TCGCACACTAAGTGCCATAC
20799125 GTAACCAAAT
Statistics
Matches: 128, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
40 93 0.73
41 19 0.15
42 16 0.12
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
Found at i:20802900 original size:24 final size:23
Alignment explanation
Indices: 20802856--20802900 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
20802846 GTTTATCTAC
*
20802856 AATATAAACATTAAATTTAATTT
1 AATATAAACATTAAATATAATTT
20802879 AATATTAAACTATTAAA-ATAAT
1 AATA-TAAAC-ATTAAATATAAT
20802901 ATTATTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 9 0.47
25 6 0.32
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
AATATAAACATTAAATATAATTT
Found at i:20808562 original size:24 final size:24
Alignment explanation
Indices: 20808530--20808602 Score: 137
Period size: 24 Copynumber: 3.0 Consensus size: 24
20808520 ATCAACACCC
20808530 ATCATGAACATACTTTCATTTGTG
1 ATCATGAACATACTTTCATTTGTG
20808554 ATCATGAACATACTTTCATTTGTG
1 ATCATGAACATACTTTCATTTGTG
*
20808578 ATCATGAACATAATTTCATTTGTG
1 ATCATGAACATACTTTCATTTGTG
20808602 A
1 A
20808603 GTTATCTTAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (24 bp):
ATCATGAACATACTTTCATTTGTG
Found at i:20812878 original size:18 final size:19
Alignment explanation
Indices: 20812849--20812887 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
20812839 CTAAAAAATG
20812849 ATAAATAATATTTCAAAAA
1 ATAAATAATATTTCAAAAA
*
20812868 ATAAA-AATATTTTAAAAA
1 ATAAATAATATTTCAAAAA
20812886 AT
1 AT
20812888 TTAAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAATAATATTTCAAAAA
Found at i:20813870 original size:17 final size:19
Alignment explanation
Indices: 20813848--20813887 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
20813838 GATGTCTCGT
*
20813848 TCATTTT-C-AAAATTTAA
1 TCATTTTGCAAAAAGTTAA
20813865 TCATTTTGCAAAAAGTTAA
1 TCATTTTGCAAAAAGTTAA
20813884 TCAT
1 TCAT
20813888 ATTAAATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 1 0.05
19 12 0.60
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (19 bp):
TCATTTTGCAAAAAGTTAA
Found at i:20816562 original size:16 final size:17
Alignment explanation
Indices: 20816541--20816573 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
20816531 CAGCAACAGG
20816541 GGCCCA-AACTCTGACT
1 GGCCCACAACTCTGACT
20816557 GGCCCATCAACTCTGAC
1 GGCCCA-CAACTCTGAC
20816574 CTTTTTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.39, G:0.18, T:0.18
Consensus pattern (17 bp):
GGCCCACAACTCTGACT
Found at i:20824101 original size:40 final size:40
Alignment explanation
Indices: 20824064--20824288 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
20824054 GCTACTCGTT
* *
20824064 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
20824104 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
20824144 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
20824184 CCAATGCCTTCGGG-CTTAGCCCGGAATTACTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
20824223 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
20824264 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
20824289 CATCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:20824248 original size:119 final size:120
Alignment explanation
Indices: 20824066--20824288 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
20824056 TACTCGTTCA
* *
20824066 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATACTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
20824131 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
20824186 AATGCCTTCGGG-CTTAGCCCGGA-ATTACTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TACTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
20824248 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
20824289 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATACTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:20832372 original size:39 final size:40
Alignment explanation
Indices: 20832222--20832428 Score: 217
Period size: 40 Copynumber: 5.2 Consensus size: 40
20832212 GCACATACGA
* *
20832222 AACCCGGATTTAGCAACTCGCACAAATGCCTTCGGGACTT
1 AACCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTT
*
20832262 AACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTT
1 AACCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTT
*
20832302 AACCC-GAATTTAGTAACTCGCACCAATGCCTTCGGG-CTT
1 AACCCGGAA-TTAGTAACTCGCACAAATGCCTTCGGGACTT
* * * *
20832341 AGCCCGGAATTACTATCTCGCACAAATGCCTT-TGGATCTT
1 AACCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTT
** * * *
20832381 AGTCCGG-ATATGGTCACTTAGCACAAA-GCCTTCGGGACTT
1 AACCCGGAAT-TAGTAAC-TCGCACAAATGCCTTCGGGACTT
*
20832421 AGCCCGGA
1 AACCCGGA
20832429 CATCATTCAA
Statistics
Matches: 143, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 31 0.22
40 99 0.69
41 11 0.08
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
AACCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTT
Found at i:20832412 original size:79 final size:79
Alignment explanation
Indices: 20832222--20832428 Score: 211
Period size: 79 Copynumber: 2.6 Consensus size: 79
20832212 GCACATACGA
* * * * * * *
20832222 AACCCGGATTTAGCAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAA
1 AACCCGAATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTACTAACTCGCACAA
20832287 ATGCCTTCGGGACTT
65 ATGCCTTCGGGACTT
* * * *
20832302 AACCCGAATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTACTATCTCGCACAA
1 AACCCGAATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGGAATTACTAACTCGCACAA
*
20832366 ATGCCTT-TGGATCTT
65 ATGCCTTCGGGA-CTT
** * * *
20832381 AGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AACCCGAATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCGGA
20832429 CATCATTCAA
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 3 0.03
79 57 0.53
80 44 0.41
81 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (79 bp):
AACCCGAATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTACTAACTCGCACAAA
TGCCTTCGGGACTT
Found at i:20840591 original size:27 final size:27
Alignment explanation
Indices: 20840534--20840593 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
20840524 ATACATCTCA
*
20840534 TAGGGGCATATCAGTCATTTTACCATG
1 TAGGGGCATATCAGTCATTTTACAATG
*
20840561 TAGGGGCATTTCAGTCATTTTATCAAT-
1 TAGGGGCATATCAGTCATTTTA-CAATG
20840588 TAGGGG
1 TAGGGG
20840594 GTCAAGGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (27 bp):
TAGGGGCATATCAGTCATTTTACAATG
Found at i:20842574 original size:24 final size:24
Alignment explanation
Indices: 20842542--20842590 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
20842532 TGGTCTTACA
20842542 CTGGCTTATCCATCAAGTCGATCC
1 CTGGCTTATCCATCAAGTCGATCC
20842566 CTGGCTTATCCATCAAGTCGATCC
1 CTGGCTTATCCATCAAGTCGATCC
20842590 C
1 C
20842591 ATGTCCCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.35, G:0.16, T:0.29
Consensus pattern (24 bp):
CTGGCTTATCCATCAAGTCGATCC
Found at i:20842703 original size:50 final size:49
Alignment explanation
Indices: 20842584--20842897 Score: 153
Period size: 46 Copynumber: 6.6 Consensus size: 49
20842574 TCCATCAAGT
* * *
20842584 CGATCCCATGTCCCAGACATGGTCTTACACTGACTATCGA-A-ATCAAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TC-ACATATC-CGTGC
* * * *
20842633 CGACGCCATGTCCTAAACATGGTCTTACACTGGCTCTCACATTTCCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCACATATCCGTGC
* * *
20842683 CGATGCCATGTTCCAGACATGGTCTTACACT-G--ACACATCT-CGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCACATATCCGT-GC
* * * *
20842729 CAATG-CATGTCCCAGACAT-GTCTTACACTGGCTT-GCATCTCAAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCACATATC-CGTGC
* * * *** * **
20842775 CGATG-CATGTCCCTGACAT-GACTTACACTAGC-TCTTGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCACATATCCGTGC
* * * * *
20842821 AGATGTCATGTCCCAAACATGGTCTTATACTGGC-TCTCATAAT--GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCACAT-ATCCGT-GC
* *
20842869 TGATG-CATGTCCCAAACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
20842898 AGCGCACGAA
Statistics
Matches: 211, Mismatches: 39, Indels: 33
0.75 0.14 0.12
Matches are distributed among these distances:
44 10 0.05
45 19 0.09
46 66 0.31
47 27 0.13
48 22 0.10
49 36 0.17
50 31 0.15
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCACATATCCGTGC
Found at i:20842783 original size:46 final size:48
Alignment explanation
Indices: 20842584--20842860 Score: 212
Period size: 46 Copynumber: 5.8 Consensus size: 48
20842574 TCCATCAAGT
* * * **
20842584 CGATCCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTCAAGGC
* * * * *
20842633 CGACGCCATGTCCTAAACATGGTCTTACACTGGCTCTCACATTTC-CGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCTCAAG-GC
* * * *
20842683 CGATGCCATGTTCCAGACATGGTCTTACACT-G-ACACATCTCGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC-AAGGC
*
20842729 CAATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TGCATCTCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCAAGGC
* * * ** *
20842775 CGATG-CATGTCCCTGACAT-GACTTACACTAGCTCTTGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAGGC
* * * *
20842821 AGATGTCATGTCCCAAACATGGTCTTATACTGGCTCTCAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
20842861 AATGTGGCTG
Statistics
Matches: 179, Mismatches: 37, Indels: 25
0.74 0.15 0.10
Matches are distributed among these distances:
44 10 0.06
45 15 0.08
46 60 0.34
47 13 0.07
48 15 0.08
49 33 0.18
50 32 0.18
51 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAGGC
Found at i:20847347 original size:17 final size:17
Alignment explanation
Indices: 20847319--20847364 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
20847309 AAATGTCTTC
20847319 AATTTAGTAAAGAGGACT
1 AATTT-GTAAAGAGGACT
*
20847337 AATTTGTAAAGAGGATT
1 AATTTGTAAAGAGGACT
*
20847354 GATTTGTAAAG
1 AATTTGTAAAG
20847365 TGCCAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.33
Consensus pattern (17 bp):
AATTTGTAAAGAGGACT
Found at i:20848908 original size:50 final size:49
Alignment explanation
Indices: 20848836--20849022 Score: 225
Period size: 50 Copynumber: 3.7 Consensus size: 49
20848826 AACAATCCGG
*
20848836 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCATTTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAATCATTTGA
* *
20848886 TACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCA-TTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAA-TCATTTGA
* * * * *
20848936 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-CAGTATGA
1 -TACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC-TAATCA-TTTGA
*
20848987 TACACGTAGTAGCCTACACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
20849023 TATTCACAAT
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
49 2 0.02
50 74 0.64
51 40 0.34
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAATCATTTGA
Found at i:20848954 original size:51 final size:50
Alignment explanation
Indices: 20848793--20849022 Score: 218
Period size: 50 Copynumber: 4.6 Consensus size: 50
20848783 CGAATATGCA
* * * * * * *
20848793 TAGTAGCATGCACTTAGTACTACACATGCGGTCAACAATC--CGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCAA-AGTCATTGATACACG
* ** *
20848842 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCA-TCATTTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCA-TTGATACACG
* * *
20848892 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCATTGA-TACACG
* * *
20848943 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGT-A-TGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCAA-AGTCATTGATACACG
*
20848993 TAGTAGCCTACACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
20849023 TATTCACAAT
Statistics
Matches: 149, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.01
48 1 0.01
49 28 0.19
50 74 0.50
51 38 0.26
52 3 0.02
53 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCATTGATACACG
Found at i:20855561 original size:8 final size:8
Alignment explanation
Indices: 20855548--20855588 Score: 55
Period size: 8 Copynumber: 4.8 Consensus size: 8
20855538 CTTATATTTT
20855548 TTTTTTAC
1 TTTTTTAC
20855556 TTTTTTTTAC
1 --TTTTTTAC
20855566 TTTTTTAAC
1 TTTTTT-AC
20855575 TTTTTTAC
1 TTTTTTAC
20855583 TTTTTT
1 TTTTTT
20855589 CTTATATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 14 0.47
9 8 0.27
10 8 0.27
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTAC
Found at i:20855561 original size:9 final size:9
Alignment explanation
Indices: 20855547--20855588 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
20855537 TCTTATATTT
20855547 TTTTTTTAC
1 TTTTTTTAC
20855556 TTTTTTTTAC
1 -TTTTTTTAC
*
20855566 TTTTTTAAC
1 TTTTTTTAC
20855575 -TTTTTTAC
1 TTTTTTTAC
20855583 TTTTTT
1 TTTTTT
20855589 CTTATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.24
9 13 0.45
10 9 0.31
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:20855633 original size:17 final size:17
Alignment explanation
Indices: 20855544--20855633 Score: 51
Period size: 18 Copynumber: 5.1 Consensus size: 17
20855534 GGTTCTTATA
**
20855544 TTTT-TTTTTTACTTTT
1 TTTTCTTTTTTAAGTTT
*
20855560 TTTTACTTTTTTAACTTT
1 TTTT-CTTTTTTAAGTTT
*
20855578 TTTACTTTTTTCTTATA-TTT
1 TTT--TCTTTT-TTA-AGTTT
*
20855598 TGTCTCTTTTTT-AGATTT
1 T-TTTCTTTTTTAAG-TTT
20855616 TTTTCTTTTTTAAGTTT
1 TTTTCTTTTTTAAGTTT
20855633 T
1 T
20855634 ATATTATTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
16 5 0.09
17 13 0.22
18 21 0.36
19 9 0.16
20 8 0.14
21 2 0.03
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTTTAAGTTT
Found at i:20855644 original size:55 final size:55
Alignment explanation
Indices: 20855548--20855651 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
20855538 CTTATATTTT
* *
20855548 TTTTTTACTTTTTTTTACTTTTTTAACTTTTTTACTTTTTTCTTATATTTTGTCTC
1 TTTTTTACATTTTTTTACTTTTTTAACTTTTATACTTTTTTCTTA-ATTTTGTCTC
* *
20855604 TTTTTTAGATTTTTTT-CTTTTTTAAGTTTTATA-TTATTTTCTTAATTT
1 TTTTTTACATTTTTTTACTTTTTTAACTTTTATACTT-TTTTCTTAATTT
20855652 ATTTTCCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
54 6 0.14
55 23 0.53
56 14 0.33
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (55 bp):
TTTTTTACATTTTTTTACTTTTTTAACTTTTATACTTTTTTCTTAATTTTGTCTC
Found at i:20855736 original size:21 final size:22
Alignment explanation
Indices: 20855707--20855752 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
20855697 TATATATTTA
20855707 AAATGTTTTATAATATT-TTTTT
1 AAATGTTTTA-AATATTATTTTT
*
20855729 AAAT-TTTTAATTATTATTTTT
1 AAATGTTTTAAATATTATTTTT
20855750 AAA
1 AAA
20855753 AATATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 13 0.59
22 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
AAATGTTTTAAATATTATTTTT
Found at i:20855755 original size:23 final size:23
Alignment explanation
Indices: 20855672--20855760 Score: 71
Period size: 22 Copynumber: 4.0 Consensus size: 23
20855662 TTTAATATAT
* *
20855672 ATTATTAATTTTAAAAAATTTGTA
1 ATTATTATTTTTAAAATATTT-TA
* *
20855696 A-TA-TATATTTAAAATGTTTTA
1 ATTATTATTTTTAAAATATTTTA
*
20855717 TAATATT-TTTTT-AAAT-TTTTA
1 -ATTATTATTTTTAAAATATTTTA
20855738 ATTATTATTTTTAAAAATATTTT
1 ATTATTATTTTT-AAAATATTTT
20855761 TTAACTTTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
20 5 0.10
21 12 0.23
22 17 0.33
23 12 0.23
24 6 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTATTATTTTTAAAATATTTTA
Found at i:20855817 original size:37 final size:36
Alignment explanation
Indices: 20855776--20855846 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
20855766 TTTATATATA
*
20855776 TATTTGTGAAATTAATTATTTATAAATTTTAAAAATG
1 TATTTGTCAAATTAATTATTTA-AAATTTTAAAAATG
* *
20855813 TATTTTTCAAATTAATTTTTTAAAATTTTAAAAA
1 TATTTGTCAAATTAATTATTTAAAATTTTAAAAA
20855847 AATAATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 12 0.39
37 19 0.61
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
TATTTGTCAAATTAATTATTTAAAATTTTAAAAATG
Found at i:20856429 original size:8 final size:8
Alignment explanation
Indices: 20856418--20856448 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
20856408 CATTTAAACA
20856418 TTTAAATT
1 TTTAAATT
20856426 TTTAAATT
1 TTTAAATT
20856434 TTTAAATT
1 TTTAAATT
20856442 TTTAAAT
1 TTTAAAT
20856449 AAAATTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTAAATT
Found at i:20856431 original size:16 final size:16
Alignment explanation
Indices: 20856410--20856447 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
20856400 ATATAAAACA
20856410 TTTAAACATTTAAATT
1 TTTAAACATTTAAATT
**
20856426 TTTAAATTTTTAAATT
1 TTTAAACATTTAAATT
20856442 TTTAAA
1 TTTAAA
20856448 TAAAATTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAAACATTTAAATT
Found at i:20856563 original size:29 final size:28
Alignment explanation
Indices: 20856525--20856587 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
20856515 AAATTCTATG
20856525 TAAAATTTAAAAAATA-TTTAAAGTCATT
1 TAAAATTTAAAAAATATTTTAAA-TCATT
20856553 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAAT-TTAAAAAATATTTTAAATCATT
*
20856582 TTAAAT
1 TAAAAT
20856588 CATTTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 6 0.19
29 20 0.62
30 6 0.19
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (28 bp):
TAAAATTTAAAAAATATTTTAAATCATT
Found at i:20856577 original size:9 final size:9
Alignment explanation
Indices: 20856565--20856633 Score: 66
Period size: 10 Copynumber: 7.3 Consensus size: 9
20856555 AAATATTAAA
20856565 AAATATTTT
1 AAATATTTT
20856574 AAATCATTTT
1 AAAT-ATTTT
20856584 AAATCATTTT
1 AAAT-ATTTT
*
20856594 AAATGTTTT
1 AAATATTTT
**
20856603 ATAATATTAA
1 A-AATATTTT
*
20856613 AAATATATT
1 AAATATTTT
*
20856622 AAATAATTT
1 AAATATTTT
20856631 AAA
1 AAA
20856634 AATATATTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
9 24 0.49
10 25 0.51
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (9 bp):
AAATATTTT
Found at i:20856587 original size:19 final size:18
Alignment explanation
Indices: 20856565--20856633 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
20856555 AAATATTAAA
20856565 AAATATTTTAAATCATTTT
1 AAATATTTTAAAT-ATTTT
*
20856584 AAATCATTTTAAATGTTTT
1 AAAT-ATTTTAAATATTTT
** *
20856603 ATAATATTAAAAATATATT
1 A-AATATTTTAAATATTTT
*
20856622 AAATAATTTAAA
1 AAATATTTTAAA
20856634 AATATATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
18 8 0.20
19 20 0.50
20 12 0.30
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (18 bp):
AAATATTTTAAATATTTT
Found at i:20856634 original size:20 final size:21
Alignment explanation
Indices: 20856603--20856641 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
20856593 TAAATGTTTT
20856603 ATAATATTAAAAATATATTAA
1 ATAATATTAAAAATATATTAA
20856624 ATAAT-TTAAAAATATATT
1 ATAATATTAAAAATATATT
20856642 TTTAATAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATATTAAAAATATATTAA
Found at i:20860158 original size:30 final size:30
Alignment explanation
Indices: 20860122--20860244 Score: 149
Period size: 30 Copynumber: 4.1 Consensus size: 30
20860112 GGTCAAATAG
* * * *
20860122 ACTCGAACCGCCTATATCCAGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
*
20860152 ACTCGAACCACCCATGTCCGGGTGATATAA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
*
20860182 ACTTGAACCACCCATGTCCGGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
* * *
20860212 AC-CAGAACTACCTATGTCCGGGTTATATGA
1 ACTC-GAACCACCCATGTCCGGGTGATATGA
20860242 ACT
1 ACT
20860245 GCTCTAGGAC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
30 80 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (30 bp):
ACTCGAACCACCCATGTCCGGGTGATATGA
Found at i:20861664 original size:19 final size:19
Alignment explanation
Indices: 20861640--20861681 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
20861630 TAAGTTTGGC
*
20861640 CTCAAGTCAAACCTTCGGA
1 CTCAAGTCAAACCTCCGGA
20861659 CTCAAGTCAAACCTCCGGA
1 CTCAAGTCAAACCTCCGGA
20861678 -TCAA
1 CTCAA
20861682 TACGACGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.19
Consensus pattern (19 bp):
CTCAAGTCAAACCTCCGGA
Found at i:20863548 original size:34 final size:33
Alignment explanation
Indices: 20863491--20863568 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
20863481 ATAAAATAAA
*
20863491 TAAACAAAATAAAATAAGAAAAAA-ACATAAAATT
1 TAAA-AAAATAAAAAAAGAAAAAAGACA-AAAATT
* * *
20863525 TCAAAAAAGTAAAAAAAGGAAAAAGACAAAATTT
1 T-AAAAAAATAAAAAAAGAAAAAAGACAAAAATT
20863559 TAAAAAAATA
1 TAAAAAAATA
20863569 TTTAAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
33 8 0.22
34 23 0.62
35 6 0.16
ACGTcount: A:0.72, C:0.05, G:0.06, T:0.17
Consensus pattern (33 bp):
TAAAAAAATAAAAAAAGAAAAAAGACAAAAATT
Found at i:20863597 original size:27 final size:28
Alignment explanation
Indices: 20863567--20863630 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 28
20863557 TTTAAAAAAA
* * *
20863567 TATTTAAAATATTATGATTTCTTATAT-
1 TATTTAAAAAATTATAATTTCTTAAATG
*
20863594 TA-TTAAAAAATTATAATTTTTTAAATG
1 TATTTAAAAAATTATAATTTCTTAAATG
20863621 TATTTAAAAA
1 TATTTAAAAA
20863631 TTGTATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 20 0.65
27 4 0.13
28 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (28 bp):
TATTTAAAAAATTATAATTTCTTAAATG
Found at i:20863638 original size:26 final size:26
Alignment explanation
Indices: 20863567--20863632 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
20863557 TTTAAAAAAA
* *
20863567 TATTTAAAATATTATGATTTCTTATAT
1 TATTTAAAA-ATTATAATTTCTTAAAT
* *
20863594 TATTAAAAAATTATAATTTTTTAAAT
1 TATTTAAAAATTATAATTTCTTAAAT
20863620 GTATTTAAAAATT
1 -TATTTAAAAATT
20863633 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TATTTAAAAATTATAATTTCTTAAAT
Found at i:20863815 original size:18 final size:18
Alignment explanation
Indices: 20863792--20863830 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
20863782 TAATATTTAA
* *
20863792 TATATTTTTTTTTAAATT
1 TATATTTATATTTAAATT
20863810 TATATTTATATTTAAATT
1 TATATTTATATTTAAATT
20863828 TAT
1 TAT
20863831 TAATAGTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATATTTATATTTAAATT
Found at i:20864116 original size:21 final size:21
Alignment explanation
Indices: 20864092--20864178 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 21
20864082 TAAAAAATAT
20864092 TTTTAAAAATAATAATTAAAA
1 TTTTAAAAATAATAATTAAAA
*
20864113 TTTTAAAAA-AATATTATAAAACA
1 TTTTAAAAATAATA--ATTAAA-A
*
20864136 TTTTAAATAT-AT-ATTACAAA
1 TTTTAAAAATAATAATTA-AAA
*
20864156 TTTTTTAAAATTAATAATATAAA
1 --TTTTAAAAATAATAAT-TAAA
20864179 TTAAATAAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
20 8 0.16
21 11 0.22
22 13 0.25
23 13 0.25
24 4 0.08
25 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTTAAAAATAATAATTAAAA
Found at i:20864179 original size:23 final size:22
Alignment explanation
Indices: 20864090--20864180 Score: 62
Period size: 23 Copynumber: 4.1 Consensus size: 22
20864080 GTTAAAAAAT
*
20864090 ATTTTTAAAAATAATAAT-TAA
1 ATTTTTTAAAATAATAATATAA
* * *
20864111 A-ATTTTAAAAAAATATTATAAA
1 ATTTTTTAAAATAATAATAT-AA
** * *
20864133 ACATTTT-AAATATATATTACAA
1 ATTTTTTAAAATA-ATAATATAA
20864155 ATTTTTTAAAATTAATAATATAA
1 ATTTTTTAAAA-TAATAATATAA
20864178 ATT
1 ATT
20864181 AAATAAGCAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
20 12 0.22
21 2 0.04
22 14 0.26
23 24 0.44
24 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTTTAAAATAATAATATAA
Found at i:20864213 original size:18 final size:18
Alignment explanation
Indices: 20864163--20864214 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
20864153 AAATTTTTTA
*
20864163 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
20864181 AAATAAGCAAAATAAATT
1 AAATAAATAATATAAATT
20864199 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
20864215 ACTTTAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:20864243 original size:18 final size:18
Alignment explanation
Indices: 20864222--20864310 Score: 55
Period size: 18 Copynumber: 5.1 Consensus size: 18
20864212 AAAACTTTAA
*
20864222 AAAGAAAAAAAATCTAAG
1 AAAGAAAAAAAATATAAG
* *
20864240 AAAGAGACAAAATATAAG
1 AAAGAAAAAAAATATAAG
*
20864258 --A-AAAAAAAGT-TAA-
1 AAAGAAAAAAAATATAAG
* *
20864271 AAAGTAAAAAAAGTA-AAA
1 AAAG-AAAAAAAATATAAG
20864289 AAAGTAAAAAAAAATATAAG
1 AAAG--AAAAAAAATATAAG
20864309 AA
1 AA
20864311 CCTGACAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
14 3 0.06
15 7 0.13
16 1 0.02
17 11 0.20
18 19 0.35
19 9 0.17
20 4 0.07
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.12
Consensus pattern (18 bp):
AAAGAAAAAAAATATAAG
Found at i:20864281 original size:9 final size:9
Alignment explanation
Indices: 20864259--20864300 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
20864249 AAATATAAGA
20864259 AAAAAAAGT
1 AAAAAAAGT
*
20864268 -TAAAAAGT
1 AAAAAAAGT
20864276 AAAAAAAGT
1 AAAAAAAGT
20864285 AAAAAAAGT
1 AAAAAAAGT
20864294 AAAAAAA
1 AAAAAAA
20864301 AATATAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:20865771 original size:50 final size:49
Alignment explanation
Indices: 20865662--20865891 Score: 241
Period size: 50 Copynumber: 4.6 Consensus size: 49
20865652 CTGATATGCA
* * * * *
20865662 TAGTAGCATGCACTTAGTACTACACATGCGA-TAAATAATTCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT-AATCATTTGATACACG
* *
20865711 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCATCATTTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTAATCATTTGATACACG
* * *
20865761 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCA-TTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTAA-TCATTTGA-TACACG
* * * *
20865812 TAGCAGCCTGCACTTAGTACTACACATGCGACTTAA-CAGTATGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC-TAATCA-TTTGATACACG
*
20865862 TAGTAGCCTACACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
20865892 TATTCAAAAT
Statistics
Matches: 150, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
49 30 0.20
50 80 0.53
51 40 0.27
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTAATCATTTGATACACG
Found at i:20865857 original size:101 final size:99
Alignment explanation
Indices: 20865662--20865891 Score: 275
Period size: 101 Copynumber: 2.3 Consensus size: 99
20865652 CTGATATGCA
* * * * *
20865662 TAGTAGCATGCACTTAGTACTACACATGCGATAAATAATTCGATACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATAAATAATTCGATACACATAGCAGCCTGCACTTA
* * * *
20865727 GTACTACACACGTGACCTCATCATTTGATACATG
66 GTACTACACACGCGACCTCAACATATGATACACG
* * *
20865761 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATT-GAGTACGCATAGCAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAT--AAATAATTCGA-TACACATAGCAGCCTGCAC
* *
20865825 TTAGTACTACACATGCGA-CTTAACAGTATGATACACG
63 TTAGTACTACACACGCGACCTCAACA-TATGATACACG
*
20865862 TAGTAGCCTACACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
20865892 TATTCAAAAT
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
99 29 0.26
100 7 0.06
101 76 0.68
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATAAATAATTCGATACACATAGCAGCCTGCACTTA
GTACTACACACGCGACCTCAACATATGATACACG
Found at i:20875680 original size:53 final size:54
Alignment explanation
Indices: 20875569--20875830 Score: 290
Period size: 54 Copynumber: 4.9 Consensus size: 54
20875559 TATCATACCA
* * * * *
20875569 ATGCCATATCCCGGATATGGTC-T-TACATGAAAACACTTATCACATT-TCTTC-G
1 ATGCCATAGCCCTGCTATGGTCTTATACA-GAAATCACTTATCAC-TTGTTTTCTG
*
20875621 ATGCCATAG-CCTAGCTATGGTCTTATAC-G-GATCACTTGTATCACTT-TATTTC-G
1 ATGCCATAGCCCT-GCTATGGTCTTATACAGAAATCAC-T-TATCACTTGT-TTTCTG
* *
20875674 AAGCCATAGTCCTGCTATGGTCTTATACAGAAATCACTTATCACTTGTTTTCTG
1 ATGCCATAGCCCTGCTATGGTCTTATACAGAAATCACTTATCACTTGTTTTCTG
20875728 ATGCCATAGCCCTGCTATGGTCTTATACAGAAATCACTTATCACTTGTTTTCTG
1 ATGCCATAGCCCTGCTATGGTCTTATACAGAAATCACTTATCACTTGTTTTCTG
* * ** *
20875782 ATGCCATAGCCCAGCTATGGTCTTATACGGGTATCACTCATCACTTGTT
1 ATGCCATAGCCCTGCTATGGTCTTATACAGAAATCACTTATCACTTGTT
20875831 GCCCTGGTCA
Statistics
Matches: 184, Mismatches: 15, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
51 6 0.03
52 21 0.11
53 46 0.25
54 106 0.58
55 5 0.03
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (54 bp):
ATGCCATAGCCCTGCTATGGTCTTATACAGAAATCACTTATCACTTGTTTTCTG
Found at i:20882805 original size:29 final size:29
Alignment explanation
Indices: 20882772--20882888 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
20882762 TCGCCCATCT
* *
20882772 CATTCATATTGCCCATTAGGCTCAATTCA
1 CATTCATATGGCCCATTAGGCCCAATTCA
* *
20882801 CATTCATATGGCCCATCAAGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAATTCA
* * * *
20882830 TATTCATATGGCCTATTAGGCCTAAATCA
1 CATTCATATGGCCCATTAGGCCCAATTCA
* * * *
20882859 CCTTTATATGGCCCGTTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAATTCA
20882888 C
1 C
20882889 CTTATATTCA
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (29 bp):
CATTCATATGGCCCATTAGGCCCAATTCA
Found at i:20886196 original size:54 final size:53
Alignment explanation
Indices: 20886039--20886224 Score: 216
Period size: 54 Copynumber: 3.5 Consensus size: 53
20886029 CTCGGATATG
* * * * *
20886039 GTCTTACACAGAAA-CACTTATCACATTTCTCCGATGCCATAGCCCAGCTATG
1 GTCTTATACGGAAATCACTTATCACTTTTATCCGATGCCATAGCCCAGCTATA
* * *
20886091 GTCTTATACGG--ATCACTTGTATCACTTTAATCCGAAGCCATAGCCCGGCTATA
1 GTCTTATACGGAAATCAC-T-TATCACTTTTATCCGATGCCATAGCCCAGCTATA
* *
20886144 ATCTTATACGGAAATCACTTATCACTTGTTTTCCGATGCCATAGCCCAGCTATA
1 GTCTTATACGGAAATCACTTATCACTT-TTATCCGATGCCATAGCCCAGCTATA
* *
20886198 GTCTTATATGGATATCACTTATCACTT
1 GTCTTATACGGAAATCACTTATCACTT
20886225 GTTGCCATGG
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
50 1 0.01
51 3 0.03
52 10 0.09
53 46 0.41
54 47 0.42
55 5 0.04
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (53 bp):
GTCTTATACGGAAATCACTTATCACTTTTATCCGATGCCATAGCCCAGCTATA
Found at i:20886227 original size:54 final size:52
Alignment explanation
Indices: 20886039--20886224 Score: 212
Period size: 53 Copynumber: 3.5 Consensus size: 52
20886029 CTCGGATATG
* * * * * *
20886039 GTCTTACACAGAAACACTTATCACATTTCTCCGATGCCATAGCCCAGCTATG
1 GTCTTATACGGAATCACTTATCACTTTTATCCGATGCCATAGCCCAGCTATA
* * *
20886091 GTCTTATACGG-ATCACTTGTATCACTTTAATCCGAAGCCATAGCCCGGCTATA
1 GTCTTATACGGAATCAC-T-TATCACTTTTATCCGATGCCATAGCCCAGCTATA
* *
20886144 ATCTTATACGGAAATCACTTATCACTTGTTTTCCGATGCCATAGCCCAGCTATA
1 GTCTTATACGG-AATCACTTATCACTT-TTATCCGATGCCATAGCCCAGCTATA
*
20886198 GTCTTATATGGATATCACTTATCACTT
1 GTCTTATACGGA-ATCACTTATCACTT
20886225 GTTGCCATGG
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
51 4 0.04
52 10 0.09
53 47 0.42
54 46 0.41
55 5 0.04
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (52 bp):
GTCTTATACGGAATCACTTATCACTTTTATCCGATGCCATAGCCCAGCTATA
Found at i:20886324 original size:17 final size:16
Alignment explanation
Indices: 20886304--20886337 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
20886294 CTATGTTTCA
*
20886304 TTCAATTTGATCATTTT
1 TTCAATTTCAT-ATTTT
20886321 TTCAATTTCATATTTT
1 TTCAATTTCATATTTT
20886337 T
1 T
20886338 ACATTGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.24, C:0.12, G:0.03, T:0.62
Consensus pattern (16 bp):
TTCAATTTCATATTTT
Found at i:20889124 original size:39 final size:39
Alignment explanation
Indices: 20889061--20889316 Score: 363
Period size: 39 Copynumber: 6.6 Consensus size: 39
20889051 TTCCAACCCA
* * *
20889061 AATGCCTTCGGAACTTAGCTCGGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
20889100 AATGCCTTCGGGACCTAGCCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* * *
20889139 AATGCCTTCGGGACTTAGCTCGAATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
20889178 AATGCCTTCGGGACTTAACCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
20889217 AATGCCTTCGGGACTTAACCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
20889256 AATGCCTTCGGGACTTAGCCCAGATATAAATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATAT-AATATCAGCACG
* * *
20889294 AAGGCCTGCGGGTCTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
20889317 TTAAAATCCT
Statistics
Matches: 197, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
38 19 0.10
39 172 0.87
40 6 0.03
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:20893072 original size:17 final size:17
Alignment explanation
Indices: 20893050--20893083 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20893040 TCCATCATAA
20893050 AAAATTAAAAAATTTAC
1 AAAATTAAAAAATTTAC
*
20893067 AAAATTACAAAATTTAC
1 AAAATTAAAAAATTTAC
20893084 CCCAAAGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATTAAAAAATTTAC
Done.