Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 204 of 311
Found at i:70310952 original size:16 final size:16
Alignment explanation
Indices: 70310902--70310955 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
70310892 TTTGGTTCGC
*
70310902 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
70310918 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
* *
70310934 TGTAATGGATTAGATG
1 TGTAATGGAATAGAGG
70310950 TGTAAT
1 TGTAAT
70310956 AGCAAATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:70311268 original size:54 final size:54
Alignment explanation
Indices: 70311210--70311388 Score: 146
Period size: 57 Copynumber: 3.1 Consensus size: 54
70311200 ATTAAAATAT
70311210 ATAATTTAATAAAAATTTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAAATTTTAATAATTAATATTCTTATATGAATTTACTCAAATC
* * * * * * *
70311264 ATAATATATGATACTATAAAATATAAATTAACATAATTATTATTAAAT-ATATTATAATTAAAAT
1 ATAAT-T-T-A-A-TA-AAAATTTTAA-TAA-TTAA-TATTCTTATATGA-ATT-T-ACTCAAAT
*
70311328 AT
54 -C
70311330 ATAATTTAAT-AAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAAATT-TTAATAATTAATATTCTTATATGAATTTACTCAAATC
70311384 ATAAT
1 ATAAT
70311389 ATATGATACT
Statistics
Matches: 94, Mismatches: 16, Indels: 30
0.67 0.11 0.21
Matches are distributed among these distances:
54 10 0.11
55 7 0.07
56 2 0.02
57 13 0.14
58 5 0.05
59 10 0.11
60 11 0.12
61 4 0.04
62 5 0.05
63 13 0.14
64 2 0.02
65 7 0.07
66 5 0.05
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (54 bp):
ATAATTTAATAAAAATTTTAATAATTAATATTCTTATATGAATTTACTCAAATC
Found at i:70311270 original size:61 final size:61
Alignment explanation
Indices: 70311205--70311515 Score: 199
Period size: 61 Copynumber: 5.2 Consensus size: 61
70311195 TTATAATTAA
70311205 AATATATAATTTAATAAAAATTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAAATTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * *
70311266 AATATATGA--TACTATAAAA-TAT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAATTTAATA-AAAATTTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCA
*
70311324 A
61 T
70311325 AATATATAATTTAAT-AAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAAATT-TTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * *
70311386 AATATATGA--TACTATAAAATATAAATTAAATTAATTATTTTTAAATAT-AATTTAAT--AA--
1 AATATATAATTTAATA-AAAATTTTAA-T-AATTAA-TATTCTT--ATATGAATTTACTCAAATC
70311444 A-
60 AT
* * * *
70311445 AATATATAATTTAAT-AAAATTATTAATAGTAAATA-TCATTATATGAATTTACTAAAATTAT
1 AATATATAATTTAATAAAAATT-TTAATAATTAATATTC-TTATATGAATTTACTCAAATCAT
70311506 AATATATAAT
1 AATATATAAT
70311516 ACTATAAAAT
Statistics
Matches: 188, Mismatches: 32, Indels: 60
0.67 0.11 0.21
Matches are distributed among these distances:
55 4 0.02
56 8 0.04
57 8 0.04
58 10 0.05
59 47 0.25
60 27 0.14
61 51 0.27
62 12 0.06
63 10 0.05
64 7 0.04
65 4 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAAATTTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:70311325 original size:120 final size:120
Alignment explanation
Indices: 70311173--70311540 Score: 573
Period size: 120 Copynumber: 3.1 Consensus size: 120
70311163 ATCATATTTA
*
70311173 AACATAATTACTATTAAATATATTATAATTAAAATATATAATTTAATAAAAATT-TTAATAATTA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAAT-AAAATTATTAATAATTA
70311237 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
70311293 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
70311358 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * * *
70311413 AA-ATTAATTATTTTTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTATTAATAGTA
1 AACA-TAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTATTAATAATT
* * * *
70311476 AATA-TCATTATATGAATTTACTAAAATTATAATATATAATACTATAAAATATAATTT
64 AATATTC-TTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
70311533 AAAATAAT
1 AACATAAT
70311541 AAAATTTGAA
Statistics
Matches: 233, Mismatches: 10, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
119 9 0.04
120 220 0.94
121 4 0.02
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:70311338 original size:14 final size:15
Alignment explanation
Indices: 70311289--70311340 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
70311279 ATAAAATATA
70311289 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
70311304 TATTAAATATATTAT
1 AATTAAATATATTAT
70311319 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
70311332 AATTTAATA
1 AATTAAATA
70311341 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:70311532 original size:38 final size:37
Alignment explanation
Indices: 70311448--70311534 Score: 90
Period size: 38 Copynumber: 2.3 Consensus size: 37
70311438 TAATAAAAAT
*
70311448 ATATAATTTAATAAAATTATTAATAGTAAATATCATT
1 ATATAATTTAATAAAATTATTAATAGTAAATATCATA
*
70311485 ATATGAATTTACTAAAATTA-TAATA-TATAATA-CTATAAA
1 ATAT-AATTTAATAAAATTATTAATAGTA-AATATC-AT--A
70311524 ATATAATTTAA
1 ATATAATTTAA
70311535 AATAATAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
36 3 0.07
37 15 0.36
38 20 0.48
39 4 0.10
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (37 bp):
ATATAATTTAATAAAATTATTAATAGTAAATATCATA
Found at i:70311879 original size:11 final size:12
Alignment explanation
Indices: 70311849--70311884 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
70311839 ATGTATTAAT
70311849 TTATTTTTCATA
1 TTATTTTTCATA
*
70311861 TTATTTTTGATA
1 TTATTTTTCATA
70311873 TTATTTTT-ATA
1 TTATTTTTCATA
70311884 T
1 T
70311885 CATGTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (12 bp):
TTATTTTTCATA
Found at i:70311899 original size:23 final size:24
Alignment explanation
Indices: 70311838--70311900 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
70311828 TAATTTATTG
70311838 CATGTATTAATTTATTTTTCATAT
1 CATGTATTAATTTATTTTTCATAT
* * *
70311862 TAT-TTTTGATATTATTTTT-ATAT
1 CATGTATTAAT-TTATTTTTCATAT
70311885 CATGTATTAATTTATT
1 CATGTATTAATTTATT
70311901 GCATGTTTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 16 0.52
24 15 0.48
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (24 bp):
CATGTATTAATTTATTTTTCATAT
Found at i:70318656 original size:29 final size:29
Alignment explanation
Indices: 70318613--70318676 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
70318603 TTAGCCTTGT
* * *
70318613 TTGATTCCTTTTAATAGTAGAGGGACTAAA
1 TTGA-TCCATTTAATAGCAGAAGGACTAAA
* *
70318643 TTGATCCATTTAATAGCAGAAGGATTAAT
1 TTGATCCATTTAATAGCAGAAGGACTAAA
70318672 TTGAT
1 TTGAT
70318677 TAGATACCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (29 bp):
TTGATCCATTTAATAGCAGAAGGACTAAA
Found at i:70328092 original size:14 final size:14
Alignment explanation
Indices: 70328073--70328104 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
70328063 TTTATATCAT
70328073 TAAAAAGTATCAAA
1 TAAAAAGTATCAAA
70328087 TAAAAAGTATCAAA
1 TAAAAAGTATCAAA
70328101 TAAA
1 TAAA
70328105 GTCGCTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (14 bp):
TAAAAAGTATCAAA
Found at i:70329607 original size:38 final size:38
Alignment explanation
Indices: 70329565--70329640 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
70329555 AGTTGAAGAG
*
70329565 AGTATTAAACTGTTCGCAAGAAGTCAATTGAATTTTAA
1 AGTATTAAACTGTTCACAAGAAGTCAATTGAATTTTAA
70329603 AGTATTAAACTGTTCACAAGAAGTCAATTGAATTTTAA
1 AGTATTAAACTGTTCACAAGAAGTCAATTGAATTTTAA
70329641 CTTAATTGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (38 bp):
AGTATTAAACTGTTCACAAGAAGTCAATTGAATTTTAA
Found at i:70330775 original size:14 final size:15
Alignment explanation
Indices: 70330740--70330795 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
70330730 AATTCAGTAT
* *
70330740 TTAAGTTTTCAATAC
1 TTAATTTTTCAACAC
70330755 TTAATTTTTCAACAC
1 TTAATTTTTCAACAC
* * *
70330770 TTATTTTTTCAGCAT
1 TTAATTTTTCAACAC
70330785 TTAATTTTTCA
1 TTAATTTTTCA
70330796 GTTTATCAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.04, T:0.54
Consensus pattern (15 bp):
TTAATTTTTCAACAC
Found at i:70335931 original size:128 final size:128
Alignment explanation
Indices: 70335700--70335938 Score: 286
Period size: 128 Copynumber: 1.9 Consensus size: 128
70335690 GACAAGGAAA
* * * *
70335700 AGCCACACGAGTGAGTGGGATTTCACATGGGCCTGGGAGAAGCGAAAGAAACCCTACACGGCCAA
1 AGCCACACGAGCGAGTGGGATCTCACATGGGCCTGGGAGAAGCGAAAGAAACACTACACGACCAA
*
70335765 GCCACACGGTCGTGTGCGATTCCACACGGGCATAGGAGAAGCAAAGGGGATCATACACGGATG
66 GCCACACGGTCGTGTGCGAATCCACACGGGCATAGGAGAAGCAAAGGGGATCATACACGGATG
* * * * * **
70335828 AGCCACACGGGCGTGTGGGATCTCACATGGGCTTGGGAGAAGTGAAGGAGATTAC-ACACGACCA
1 AGCCACACGAGCGAGTGGGATCTCACATGGGCCTGGGAGAAGCGAAAGA-AACACTACACGACCA
* * * *
70335892 AGCCACACGAGT-GTGTG-GAATCTTACATGGGCGTGGGAGAAGCAAAG
65 AGCCACACG-GTCGTGTGCGAATC-CACACGGGCATAGGAGAAGCAAAG
70335939 AAAAACACAC
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
127 4 0.04
128 84 0.91
129 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.33, T:0.15
Consensus pattern (128 bp):
AGCCACACGAGCGAGTGGGATCTCACATGGGCCTGGGAGAAGCGAAAGAAACACTACACGACCAA
GCCACACGGTCGTGTGCGAATCCACACGGGCATAGGAGAAGCAAAGGGGATCATACACGGATG
Found at i:70335949 original size:64 final size:64
Alignment explanation
Indices: 70335699--70335950 Score: 181
Period size: 64 Copynumber: 3.9 Consensus size: 64
70335689 AGACAAGGAA
* * * * * *
70335699 AAGCCACACGAGTGAGTGGGATTTCACATGGGCCTGGGAGAAGCGAAA-G-AAACCCTACACGGC
1 AAGCCACACGAGTGTGTGGAATCTCACATGGGCATGGGAGAAGC-AAAGGAAAACAC-ACACGAC
70335762 C
64 C
* * * ** * *
70335763 AAGCCACACG-GTCGTGTGCGATTC-CACACGGGCATAGGAGAAGCAAAGGGGATCATACACGGA
1 AAGCCACACGAGT-GTGTG-GAATCTCACATGGGCATGGGAGAAGCAAAGGAAAACACACAC-GA
*
70335826 -T
63 CC
* * * * * ** * **
70335827 GAGCCACACGGGCGTGTGGGATCTCACATGGGCTTGGGAGAAGTGAAGGAGATTACACACGACC
1 AAGCCACACGAGTGTGTGGAATCTCACATGGGCATGGGAGAAGCAAAGGAAAACACACACGACC
* * *
70335891 AAGCCACACGAGTGTGTGGAATCTTACATGGGCGTGGGAGAAGCAAAGAAAAACACACAC
1 AAGCCACACGAGTGTGTGGAATCTCACATGGGCATGGGAGAAGCAAAGGAAAACACACAC
70335951 AACTTGGCAC
Statistics
Matches: 142, Mismatches: 38, Indels: 16
0.72 0.19 0.08
Matches are distributed among these distances:
63 10 0.07
64 126 0.89
65 6 0.04
ACGTcount: A:0.32, C:0.23, G:0.32, T:0.14
Consensus pattern (64 bp):
AAGCCACACGAGTGTGTGGAATCTCACATGGGCATGGGAGAAGCAAAGGAAAACACACACGACC
Found at i:70337295 original size:20 final size:20
Alignment explanation
Indices: 70337270--70337315 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
70337260 CCGGATTCTT
70337270 CTTCAAGACTAAAGACCTCC
1 CTTCAAGACTAAAGACCTCC
* * *
70337290 CTTCAAGACTGAAGATCTTC
1 CTTCAAGACTAAAGACCTCC
70337310 CTTCAA
1 CTTCAA
70337316 TTTCCTTCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.26
Consensus pattern (20 bp):
CTTCAAGACTAAAGACCTCC
Found at i:70338268 original size:25 final size:24
Alignment explanation
Indices: 70338205--70338270 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 24
70338195 ATTTTCTTTC
70338205 TTTATTATTTGTTAT-AT-TATTTA
1 TTTATTATTT-TTATAATCTATTTA
*
70338228 TTT-TTA-TTTTACTAATCTATTTT
1 TTTATTATTTTTA-TAATCTATTTA
70338251 TTTATTATTTTTATTAATCT
1 TTTATTATTTTTA-TAATCT
70338271 TATACTTAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
20 3 0.08
21 3 0.08
22 5 0.14
23 11 0.31
24 3 0.08
25 11 0.31
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTATTATTTTTATAATCTATTTA
Found at i:70343140 original size:44 final size:45
Alignment explanation
Indices: 70343025--70343177 Score: 168
Period size: 44 Copynumber: 3.4 Consensus size: 45
70343015 ACTCGGGAAA
* * * * * *
70343025 CTCGCACACTTAGTGCCAAATA-A-ATATCCGAAGCTGTATCAAT
1 CTCGCACACTAAGTGCCAAATATATATAGCTGAAGCTATCTCGAT
70343068 CTCGCACACTAAGTGCCAATATACATATATATAGCTGAAGCTATCTCGAT
1 CTCGCACACTAAGTGCC---A-A-ATATATATAGCTGAAGCTATCTCGAT
*
70343118 CTCGCACACTAAGTG-CAAATATATATAGCTGAAGCTATCTTGAT
1 CTCGCACACTAAGTGCCAAATATATATAGCTGAAGCTATCTCGAT
*
70343162 TTCGCACACTAAGTGC
1 CTCGCACACTAAGTGC
70343178 ACATAATTAG
Statistics
Matches: 94, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
43 16 0.17
44 39 0.41
45 1 0.01
46 2 0.02
47 1 0.01
48 3 0.03
49 2 0.02
50 30 0.32
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (45 bp):
CTCGCACACTAAGTGCCAAATATATATAGCTGAAGCTATCTCGAT
Found at i:70344654 original size:16 final size:16
Alignment explanation
Indices: 70344633--70344667 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
70344623 CCAATATCTA
* *
70344633 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
70344649 ATTATCACATTTACAC
1 ATTATCACATTTACAC
70344665 ATT
1 ATT
70344668 TATTCATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:70345531 original size:20 final size:21
Alignment explanation
Indices: 70345486--70345531 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
70345476 CTTTAATTAT
*
70345486 TATATTATATAACTATTATCA
1 TATATTATATAACTAATATCA
70345507 T-TATTATATAA-TACATAT-A
1 TATATTATATAACTA-ATATCA
70345526 TATATT
1 TATATT
70345532 TAGTTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 4 0.18
20 17 0.77
21 1 0.05
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (21 bp):
TATATTATATAACTAATATCA
Found at i:70347110 original size:24 final size:26
Alignment explanation
Indices: 70347074--70347122 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
70347064 TCAAACATGC
70347074 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
70347099 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
70347123 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:70348642 original size:26 final size:26
Alignment explanation
Indices: 70348611--70348690 Score: 142
Period size: 26 Copynumber: 3.1 Consensus size: 26
70348601 TGAAATGTCC
*
70348611 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAACCCATT
70348637 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAACCCATT
*
70348663 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAATATTTACCTAACCCATT
70348689 AT
1 AT
70348691 TAGTTTGTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (26 bp):
ATCATGGAATATTTACCTAACCCATT
Found at i:70355879 original size:6 final size:6
Alignment explanation
Indices: 70355868--70355899 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
70355858 GGATTCATCA
70355868 TCTTGC TCTTGC TCTTGC TCTTGC TCTTGC TC
1 TCTTGC TCTTGC TCTTGC TCTTGC TCTTGC TC
70355900 ATCATGTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.16, T:0.50
Consensus pattern (6 bp):
TCTTGC
Found at i:70366257 original size:39 final size:39
Alignment explanation
Indices: 70366213--70366371 Score: 264
Period size: 39 Copynumber: 4.1 Consensus size: 39
70366203 ATTATATTAT
* *
70366213 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
70366252 CAGCACGAAGCCTGCGGGACTTTGGCCCAGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
70366291 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
70366330 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
70366369 CAG
1 CAG
70366372 TGTCTTGCAT
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:70374329 original size:6 final size:6
Alignment explanation
Indices: 70374320--70374403 Score: 114
Period size: 6 Copynumber: 14.0 Consensus size: 6
70374310 TATACCTATA
*
70374320 TATATG TATATG CATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* * * * *
70374368 TATATG TGTATG TGTATG TGTATG TTTATG TGTATG
1 TATATG TATATG TATATG TATATG TATATG TATATG
70374404 CGTGTTATGG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.27, C:0.01, G:0.21, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:70374717 original size:22 final size:22
Alignment explanation
Indices: 70374692--70374757 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
70374682 TAATTATACA
70374692 TAGTTTTAATTGGTATAATAAT
1 TAGTTTTAATTGGTATAATAAT
* *
70374714 TAG-TTTAGTT--T-T--TAAA
1 TAGTTTTAATTGGTATAATAAT
70374730 TAGTTTTAATTGGTATAATAAT
1 TAGTTTTAATTGGTATAATAAT
70374752 TAGTTT
1 TAGTTT
70374758 AGTTTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
16 6 0.18
17 6 0.18
18 1 0.03
19 2 0.06
20 1 0.03
21 6 0.18
22 12 0.35
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (22 bp):
TAGTTTTAATTGGTATAATAAT
Found at i:70374733 original size:38 final size:38
Alignment explanation
Indices: 70374691--70374771 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
70374681 TTAATTATAC
70374691 ATAGTTTTAATTGGTATAATAATTAGTTTAGTTTTTAA
1 ATAGTTTTAATTGGTATAATAATTAGTTTAGTTTTTAA
70374729 ATAGTTTTAATTGGTATAATAATTAGTTTAGTTTTTAA
1 ATAGTTTTAATTGGTATAATAATTAGTTTAGTTTTTAA
70374767 A-AGTT
1 ATAGTT
70374772 ACATATTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.09
38 39 0.91
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.52
Consensus pattern (38 bp):
ATAGTTTTAATTGGTATAATAATTAGTTTAGTTTTTAA
Found at i:70376820 original size:17 final size:16
Alignment explanation
Indices: 70376800--70376840 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
70376790 TTTTGTTGAC
*
70376800 TTTAGATTTCGGTTAAT
1 TTTAGATTT-GGATAAT
*
70376817 TTTAGATTTTGATAAT
1 TTTAGATTTGGATAAT
70376833 TTTAGATT
1 TTTAGATT
70376841 CTAGTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.27, C:0.02, G:0.15, T:0.56
Consensus pattern (16 bp):
TTTAGATTTGGATAAT
Found at i:70382795 original size:19 final size:20
Alignment explanation
Indices: 70382763--70382808 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
70382753 AAATTTAAAA
70382763 TTTTAATAACTTTTTAAG-AT
1 TTTTAATAAC-TTTTAAGAAT
*
70382783 TTTTATTAA-TTTTAAGAAT
1 TTTTAATAACTTTTAAGAAT
70382802 TTTTAAT
1 TTTTAAT
70382809 TGTTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 7 0.30
19 8 0.35
20 8 0.35
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTAATAACTTTTAAGAAT
Found at i:70384151 original size:17 final size:17
Alignment explanation
Indices: 70384125--70384168 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
70384115 CAAGACTTAT
70384125 GTAGTGTTTTTAATTAA
1 GTAGTGTTTTTAATTAA
*
70384142 GTAGTATTTTTAATTAA
1 GTAGTGTTTTTAATTAA
70384159 GTAGTGTTTT
1 GTAGTGTTTT
70384169 AAGACATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (17 bp):
GTAGTGTTTTTAATTAA
Found at i:70399052 original size:37 final size:36
Alignment explanation
Indices: 70398956--70399065 Score: 102
Period size: 37 Copynumber: 3.0 Consensus size: 36
70398946 TACAAGATAA
* *
70398956 AAATTAAATTAA-ATTCAA-TATTAAGATAATCACTTT
1 AAATTAAATTAATATTAAACTATTAAGATAATTA--TT
* *
70398992 AATCTTAAATTAATA-AAATACTATTAAGATAATTATT
1 AA-ATTAAATTAATATTAA-ACTATTAAGATAATTATT
*
70399029 AAATTAAATTTAATATTAAACTATTAAAATAA-TATT
1 AAATTAAA-TTAATATTAAACTATTAAGATAATTATT
70399065 A
1 A
70399066 TTTTTGGAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
36 12 0.20
37 32 0.52
38 4 0.07
39 13 0.21
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (36 bp):
AAATTAAATTAATATTAAACTATTAAGATAATTATT
Found at i:70412157 original size:90 final size:90
Alignment explanation
Indices: 70412006--70412187 Score: 339
Period size: 90 Copynumber: 2.0 Consensus size: 90
70411996 TAGGCACTTC
70412006 CACACGGGTAATCTACACGCCCGTGTGTCATGTCCATGTCGACTAAGAACCAACTAAGTATTGTA
1 CACACGGGTAATCTACACGCCCGTGTGTCATGTCCATGTCGACTAAGAACCAACTAAGTATTGTA
70412071 CACGGCCTAGGCACCTTCACACGGG
66 CACGGCCTAGGCACCTTCACACGGG
*
70412096 CACACGGGTAGA-CTACACGCCCGTGTGTCATGTCCATGTCGACTAAGAACCAACTCAGTATTGT
1 CACACGGGTA-ATCTACACGCCCGTGTGTCATGTCCATGTCGACTAAGAACCAACTAAGTATTGT
70412160 ACACGGCCTAGGCACCTTCACACGGG
65 ACACGGCCTAGGCACCTTCACACGGG
70412186 CA
1 CA
70412188 TGGCACACGG
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
90 89 0.99
91 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (90 bp):
CACACGGGTAATCTACACGCCCGTGTGTCATGTCCATGTCGACTAAGAACCAACTAAGTATTGTA
CACGGCCTAGGCACCTTCACACGGG
Found at i:70413307 original size:13 final size:13
Alignment explanation
Indices: 70413289--70413313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70413279 TTAAAACTAA
70413289 AATTAACTAAATT
1 AATTAACTAAATT
70413302 AATTAACTAAAT
1 AATTAACTAAAT
70413314 AACACTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAACTAAATT
Found at i:70425150 original size:20 final size:20
Alignment explanation
Indices: 70425125--70425171 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
70425115 ATAATGATAA
70425125 ATTTATTTT-TTAATATTTAT
1 ATTTATTTTGTTAAT-TTTAT
70425145 ATTTATTTTGTTAATTTTAT
1 ATTTATTTTGTTAATTTTAT
70425165 ATTTATT
1 ATTTATT
70425172 CTACTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
ATTTATTTTGTTAATTTTAT
Found at i:70425391 original size:19 final size:19
Alignment explanation
Indices: 70425346--70425408 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
70425336 GTATATTATA
*
70425346 TCAAAAAATAATTTAAAAAT
1 TCAAAAAAT-ATTTAAAATT
70425366 T-ATAAAAATATTTAAAATT
1 TCA-AAAAATATTTAAAATT
70425385 TCAAAAAATA---AAAATT
1 TCAAAAAATATTTAAAATT
70425401 TCAAAAAA
1 TCAAAAAA
70425409 AAAAACATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
16 14 0.35
19 18 0.45
20 8 0.20
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TCAAAAAATATTTAAAATT
Found at i:70425406 original size:15 final size:15
Alignment explanation
Indices: 70425379--70425413 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
70425369 AAAAATATTT
70425379 AAAATTTCAAAAAATA
1 AAAATTTCAAAAAA-A
70425395 AAAATTTCAAAAAAA
1 AAAATTTCAAAAAAA
70425410 AAAA
1 AAAA
70425414 CATAAAGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAATTTCAAAAAAA
Found at i:70428723 original size:47 final size:48
Alignment explanation
Indices: 70428612--70428834 Score: 231
Period size: 47 Copynumber: 4.7 Consensus size: 48
70428602 GTGATTGTGT
* * * * * *
70428612 GCCAGTGTAAAACATGTCTGGGACAT-GCATCGGAC-ACATTATGAGA
1 GCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTAGATGATGATA
* * *
70428658 GCCAGTATAAGACGATGTCTAGGACATGGCATCGGCGTAGA-GACGAGT-
1 GCCAGTGTAAGAC-ATGTCTAGGACATGGCATCGGCCTAGATGATGA-TA
* * *
70428706 GCCAATGTAAGACATGTCTGGGACAT-GCATCGGCCTCGATGATGATA
1 GCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTAGATGATGATA
* * *
70428753 GCCAGTGTAAGACATGTCTGGGGCATGGCATCGGCCTTGATGATGATA
1 GCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTAGATGATGATA
* *
70428801 GGCAGTGTAAGACCATGTCTAAGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTAGGACATGGCATCG
70428835 ACAACTTATC
Statistics
Matches: 147, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
46 23 0.16
47 52 0.35
48 52 0.35
49 20 0.14
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (48 bp):
GCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTAGATGATGATA
Found at i:70428771 original size:94 final size:94
Alignment explanation
Indices: 70428610--70428787 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 94
70428600 GGGTGATTGT
* *
70428610 GTGCCAGTGTAAAACATGTCTGGGACATGCATCGGACACATTATGAGAGCCAGTATAAGACGATG
1 GTGCCAATGTAAAACATGTCTGGGACATGCATCGGACACATGATGAGAGCCAGTATAAGACGATG
70428675 TCTAGGACATGGCATCGGCGTAGAGACGA
66 TCTAGGACATGGCATCGGCGTAGAGACGA
* * * * *
70428704 GTGCCAATGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTAAGAC-AT
1 GTGCCAATGTAAAACATGTCTGGGACATGCATCGGACAC-ATGATGAGAGCCAGTATAAGACGAT
* *
70428768 GTCTGGGGCATGGCATCGGC
65 GTCTAGGACATGGCATCGGC
70428788 CTTGATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 55 0.74
95 19 0.26
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (94 bp):
GTGCCAATGTAAAACATGTCTGGGACATGCATCGGACACATGATGAGAGCCAGTATAAGACGATG
TCTAGGACATGGCATCGGCGTAGAGACGA
Found at i:70435516 original size:23 final size:22
Alignment explanation
Indices: 70435490--70435595 Score: 117
Period size: 23 Copynumber: 4.6 Consensus size: 22
70435480 TGGTAAACTC
70435490 CTCT-TGAGCTGATAGACAGTAAG
1 CTCTATGAGCTGA-A-ACAGTAAG
*
70435513 CTCTACTGAGTTGAAACAGTAAG
1 CTCTA-TGAGCTGAAACAGTAAG
70435536 CTCTGATGAGCTG-AACAGTAAG
1 CTCT-ATGAGCTGAAACAGTAAG
70435558 CTCATATGAGCTGAGAACAGTAAG
1 CTC-TATGAGCTGA-AACAGTAAG
*
70435582 CTCTTACGAGCTGA
1 CTC-TATGAGCTGA
70435596 TATATAGATA
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
22 20 0.27
23 23 0.32
24 23 0.32
25 7 0.10
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (22 bp):
CTCTATGAGCTGAAACAGTAAG
Found at i:70435555 original size:22 final size:21
Alignment explanation
Indices: 70435505--70435595 Score: 101
Period size: 22 Copynumber: 4.0 Consensus size: 21
70435495 GAGCTGATAG
*
70435505 ACAGTAAGCTCTACTGAGTTGAA
1 ACAGTAAGCTCTA-TGAGCTG-A
70435528 ACAGTAAGCTCTGATGAGCTGA
1 ACAGTAAGCTCT-ATGAGCTGA
70435550 ACAGTAAGCTCATATGAGCTGAGA
1 ACAGTAAGCTC-TATGAGCT--GA
*
70435574 ACAGTAAGCTCTTACGAGCTGA
1 ACAGTAAGCTC-TATGAGCTGA
70435596 TATATAGATA
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
22 21 0.34
23 19 0.31
24 21 0.34
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (21 bp):
ACAGTAAGCTCTATGAGCTGA
Found at i:70435613 original size:50 final size:47
Alignment explanation
Indices: 70435495--70435620 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 47
70435485 AACTCCTCTT
* *
70435495 GAGCTGATAGACAGTAAGCTC-TACTGAGTTGAAACAGTAAGCTCTGAT
1 GAGCTGATA-ACAGTAAGCTCATA-TGAGCTGAAACAGTAAGCTCTGAC
*
70435543 GAGCTG--AACAGTAAGCTCATATGAGCTGAGAACAGTAAGCTCTTAC
1 GAGCTGATAACAGTAAGCTCATATGAGCTGA-AACAGTAAGCTCTGAC
* *
70435589 GAGCTGATATATAGATAAGCTCATACGAGCTG
1 GAGCTGATA-ACAG-TAAGCTCATATGAGCTG
70435621 CGGTGAGTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
45 18 0.27
46 23 0.34
48 7 0.10
49 3 0.04
50 16 0.24
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (47 bp):
GAGCTGATAACAGTAAGCTCATATGAGCTGAAACAGTAAGCTCTGAC
Found at i:70437224 original size:13 final size:13
Alignment explanation
Indices: 70437206--70437238 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
70437196 CAACATTTGA
70437206 AAGACTACGAAAT
1 AAGACTACGAAAT
70437219 AAGACTACGAAAT
1 AAGACTACGAAAT
70437232 AAGACTA
1 AAGACTA
70437239 GAATGCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.15
Consensus pattern (13 bp):
AAGACTACGAAAT
Found at i:70442173 original size:18 final size:17
Alignment explanation
Indices: 70442126--70442183 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
70442116 CTAAAGGTAT
70442126 TGAATAATTGACTGTTAC
1 TGAA-AATTGACTGTTAC
* *
70442144 TGCAAGACTGACTGTTAC
1 TG-AAAATTGACTGTTAC
* *
70442162 TGAACAATTGACCGTTAT
1 TGAA-AATTGACTGTTAC
70442180 TGAA
1 TGAA
70442184 GAATCGATGG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
17 2 0.06
18 28 0.88
19 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (17 bp):
TGAAAATTGACTGTTAC
Found at i:70444356 original size:49 final size:49
Alignment explanation
Indices: 70444280--70444403 Score: 160
Period size: 49 Copynumber: 2.5 Consensus size: 49
70444270 GATGCCAACA
* * *
70444280 CCATGTCCCCGACATGGTCGTACACTGGCTTTCATATAGCAAG-GTCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGC-AGTGTCGATG
* * * *
70444330 CCATGTCCAAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGTCGATG
70444379 CCATGTCCCAGACAGGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
70444404 AACACACAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
48 1 0.02
49 52 0.80
50 12 0.18
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGTCGATG
Found at i:70449587 original size:27 final size:27
Alignment explanation
Indices: 70449557--70449608 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
70449547 AACCTCTAAT
**
70449557 TAATGTACTTCTTTTGAAACTCTTCAC
1 TAATGTACTTCTTTCAAAACTCTTCAC
70449584 TAATGTACTTCTTTCAAAACTCTTC
1 TAATGTACTTCTTTCAAAACTCTTC
70449609 CTAGAACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (27 bp):
TAATGTACTTCTTTCAAAACTCTTCAC
Found at i:70451721 original size:49 final size:49
Alignment explanation
Indices: 70451635--70451767 Score: 135
Period size: 49 Copynumber: 2.7 Consensus size: 49
70451625 TGGGTTAAGA
* * * * *
70451635 TGCCGACGCCATGT-CCAGGACATGGCCTTACACTGGCTTTCATATAGCGAG
1 TGCCGATGCCATATCCCA-GACA-GGTCTTACACTGGCTCTCACATAGCG-G
* * * *
70451686 -GCCGATGCCATATCCTAGACAGGTCTTACATTGGCTCTCACCTATCGG
1 TGCCGATGCCATATCCCAGACAGGTCTTACACTGGCTCTCACATAGCGG
*
70451734 TGTCGATGCCATATCCCAGACAGGTCTTACACTG
1 TGCCGATGCCATATCCCAGACAGGTCTTACACTG
70451768 ACACACAACA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 50 0.74
50 15 0.22
51 2 0.03
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.26
Consensus pattern (49 bp):
TGCCGATGCCATATCCCAGACAGGTCTTACACTGGCTCTCACATAGCGG
Found at i:70451974 original size:94 final size:94
Alignment explanation
Indices: 70451791--70452001 Score: 246
Period size: 94 Copynumber: 2.2 Consensus size: 94
70451781 TGACGCCATC
* ** *
70451791 TCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCTGATACATGTCCCAGACATGTCTTAC
1 TCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATACATGTCCCAGACATGTCTTAC
* * *
70451856 ACTAGCTCTCGTCTCAATGTCGATGCATG
66 ACTAGCTCTCATATCAATGCCGATGCATG
* * * * *
70451885 TCCTAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGA-AGCATGTCTCATACATGTCTTA
1 TCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATA-CATGTCCCAGACATGTCTTA
* **
70451949 CACTGGCTCTCATAT-TTTGGCCGATGCATG
65 CACTAGCTCTCATATCAAT-GCCGATGCATG
*
70451979 TCCCAAACATGTCTTACACTAGC
1 TCCCAGACATGTCTTACACTAGC
70452002 ACACAAATGA
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
93 2 0.02
94 95 0.98
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (94 bp):
TCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATACATGTCCCAGACATGTCTTAC
ACTAGCTCTCATATCAATGCCGATGCATG
Found at i:70451989 original size:46 final size:47
Alignment explanation
Indices: 70451835--70451998 Score: 165
Period size: 46 Copynumber: 3.5 Consensus size: 47
70451825 GAGGCTGATA
* * * * *
70451835 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-GTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATATCTATGGCCGATG
* * *
70451881 CATGTCCTAGACATGTCTTACACTGGCT-TAAATATCTCGA-GGCCGAAG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATATCT--ATGGCCGATG
* * *
70451929 CATGTCTCATACATGTCTTACACTGGCTCTCATAT-TTTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATATCTATGGCCGATG
*
70451975 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
70451999 AGCACACAAA
Statistics
Matches: 96, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 58 0.60
47 1 0.01
48 35 0.36
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATATCTATGGCCGATG
Found at i:70453866 original size:19 final size:19
Alignment explanation
Indices: 70453844--70453883 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
70453834 AGTGAAATGG
*
70453844 TAAC-AAAATAGTGAAAAAA
1 TAACAAAAAAAGT-AAAAAA
70453863 TAACAAAAAAAGTAAAAAA
1 TAACAAAAAAAGTAAAAAA
70453882 TA
1 TA
70453884 GCAAGGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.15
Consensus pattern (19 bp):
TAACAAAAAAAGTAAAAAA
Found at i:70455536 original size:16 final size:16
Alignment explanation
Indices: 70455502--70455537 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
70455492 ATCTAGGGGA
*
70455502 TTTTCATTTTTTTTAT
1 TTTTCATTTTATTTAT
70455518 TTTTC-TTTTATTTAT
1 TTTTCATTTTATTTAT
70455533 TTTTC
1 TTTTC
70455538 CTGATTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCATTTTATTTAT
Found at i:70459441 original size:66 final size:67
Alignment explanation
Indices: 70459312--70459441 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 67
70459302 GGGATGTATC
*
70459312 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
70459377 AGGACA
62 AGGACA
* *
70459383 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
70459442 TTCACCATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.16
68 1 0.02
71 21 0.38
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:70462230 original size:14 final size:16
Alignment explanation
Indices: 70462201--70462232 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
70462191 CTTTAAATTG
70462201 TTCTATTATGTAAAAT
1 TTCTATTATGTAAAAT
70462217 TTCTATT-T-TAAAAT
1 TTCTATTATGTAAAAT
70462231 TT
1 TT
70462233 TCTTTATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (16 bp):
TTCTATTATGTAAAAT
Found at i:70462300 original size:31 final size:33
Alignment explanation
Indices: 70462244--70462305 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
70462234 CTTTATACTT
*
70462244 TTGTTTTCAAAATTTATACATTATACATTATATA
1 TTGTTTTCAAAATCTATA-ATTATACATTATATA
70462278 TTGTTTT-AAAATCTAT-ATTATACATTAT
1 TTGTTTTCAAAATCTATAATTATACATTAT
70462306 TTTTTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 12 0.44
33 8 0.30
34 7 0.26
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (33 bp):
TTGTTTTCAAAATCTATAATTATACATTATATA
Found at i:70467220 original size:19 final size:19
Alignment explanation
Indices: 70467196--70467241 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
70467186 GACGCCTCTG
70467196 TTTGCATT-CATCCCATGCA
1 TTTGCATTGCATCCCAT-CA
*
70467215 TTTGCATTGCATCGCATCA
1 TTTGCATTGCATCCCATCA
*
70467234 TATGCATT
1 TTTGCATT
70467242 AGATTTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (19 bp):
TTTGCATTGCATCCCATCA
Found at i:70470615 original size:18 final size:20
Alignment explanation
Indices: 70470592--70470630 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
70470582 ATCAGTGGAC
70470592 TTTTAC-TGT-TTTTGGTTT
1 TTTTACTTGTATTTTGGTTT
*
70470610 TTTTACTTTTATTTTGGTTT
1 TTTTACTTGTATTTTGGTTT
70470630 T
1 T
70470631 GGTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.08, C:0.05, G:0.13, T:0.74
Consensus pattern (20 bp):
TTTTACTTGTATTTTGGTTT
Found at i:70471351 original size:176 final size:174
Alignment explanation
Indices: 70470943--70471563 Score: 761
Period size: 176 Copynumber: 3.6 Consensus size: 174
70470933 CTTCATCCTG
* * *
70470943 CTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGTTCCATTGCCGATACATGGTG
1 CTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAG
* * * * *
70471008 ATAAGATTCGCCATCTTTGATCCGCTGCGCTACAACTTCAGGGAAATAAGA--T---CTTCAGTC
66 ATAAGATTCGCCATCTTCGATCTGCTCCACTACAACTTCAGGGGAATAAGACTTCAACTTCAGTC
* *
70471068 TGCTTCCTTTCTACCTCAGGAAGATAAGACTCA-TCTT---C-A
131 TGCTTCCTTACTACCTCAGGAAGATAAGACTCATTTTTAACCTA
* * * *
70471107 -ACT-TT-CTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCTATTGCCGATATATGAAG
1 CTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAG
* * * **
70471169 ATAAGATTCGCCATCTTTGGTCTGTTCCACTACTGCTT-AGGGGAATAAGACCTTCAAACTTCAG
66 ATAAGATTCGCCATCTTCGATCTGCTCCACTACAACTTCAGGGGAATAAGA-CTTC-AACTTCAG
*
70471233 TCTGCTTCCTTACTACCTCAAGAAGATAAGACTCATTATTTAACCTA
129 TCTGCTTCCTTACTACCTCAGGAAGATAAGACTCATT-TTTAACCTA
* * *
70471280 CTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTACCGATACATGGAG
1 CTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAG
* ** *
70471345 ATAAGATTCTCCATCTTCGATCTGCTCCGGTGCAACTTCA-GGGAGATAAGATCTTCAATCTTCA
66 ATAAGATTCGCCATCTTCGATCTGCTCCACTACAACTTCAGGGGA-ATAAGA-CTTCAA-CTTCA
* *
70471409 GTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTA
128 GTCTGCTTCCTTACTACCTCAGGAAGATAAGACTCATT-TTTAACCTA
* * *
70471457 CTCTCTTGCTACCTCGGAGAGATAAGGCTGGTAG-TAAAATCTGTTCCATTGCCGATACATGGAG
1 CTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAG
* *
70471521 ATAAGATTCACCATCTTCGATCTGCTCCACTACAACTTTAGGG
66 ATAAGATTCGCCATCTTCGATCTGCTCCACTACAACTTCAGGG
70471564 AGATAAAATT
Statistics
Matches: 387, Mismatches: 50, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
160 11 0.03
161 82 0.21
162 2 0.01
163 3 0.01
167 39 0.10
168 1 0.00
169 2 0.01
172 1 0.00
173 1 0.00
174 2 0.01
175 2 0.01
176 148 0.38
177 93 0.24
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (174 bp):
CTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAG
ATAAGATTCGCCATCTTCGATCTGCTCCACTACAACTTCAGGGGAATAAGACTTCAACTTCAGTC
TGCTTCCTTACTACCTCAGGAAGATAAGACTCATTTTTAACCTA
Found at i:70471431 original size:45 final size:43
Alignment explanation
Indices: 70471382--70471482 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 43
70471372 CGGTGCAACT
** *
70471382 TCAGGGAGATAAGATCTTCAATCTTCAGTCTGCT-TCCTTGCTACC
1 TCAGGGAGATAAGA-C-TCAATCTTCAACCTACTCT-CTTGCTACC
* *
70471427 TCAGGAAGATAAGACTCATTCTTCAACCTACTCTCTTGCTACC
1 TCAGGGAGATAAGACTCAATCTTCAACCTACTCTCTTGCTACC
70471470 TC-GGAGAGATAAG
1 TCAGG-GAGATAAG
70471483 GCTGGTAGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
42 2 0.04
43 31 0.65
44 2 0.04
45 13 0.27
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
TCAGGGAGATAAGACTCAATCTTCAACCTACTCTCTTGCTACC
Found at i:70472703 original size:13 final size:13
Alignment explanation
Indices: 70472679--70472712 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
70472669 TTAGCCTCTC
70472679 CTTTTCTCTTTTTT
1 CTTTT-TCTTTTTT
70472693 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
70472706 CATTTTT
1 C-TTTTT
70472713 AATGAGTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:70474026 original size:45 final size:45
Alignment explanation
Indices: 70473956--70474049 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
70473946 AAGATCTCAC
70473956 CATTTAAGACATAATCATAAACTAGCCTTCTCAACGTCCTTTTGT
1 CATTTAAGACATAATCATAAACTAGCCTTCTCAACGTCCTTTTGT
**
70474001 CATTTAAGACATAATCATAGGCTAGCCTTCTCAACGTCCTTTTGT
1 CATTTAAGACATAATCATAAACTAGCCTTCTCAACGTCCTTTTGT
70474046 CATT
1 CATT
70474050 CTCTGTTGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (45 bp):
CATTTAAGACATAATCATAAACTAGCCTTCTCAACGTCCTTTTGT
Found at i:70489730 original size:46 final size:46
Alignment explanation
Indices: 70489663--70489930 Score: 251
Period size: 46 Copynumber: 5.8 Consensus size: 46
70489653 TGTAACCTGC
* * **
70489663 CCATAAGCGAACTCGGGCTCAACTCAATGAGCTCGGGGGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* * * *
70489709 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCAT
* * * *
70489759 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* * *
70489802 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCAT
* * *
70489852 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
*
70489895 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
70489931 ATGCCCAAAT
Statistics
Matches: 176, Mismatches: 32, Indels: 28
0.75 0.14 0.12
Matches are distributed among these distances:
43 10 0.06
44 4 0.02
45 5 0.03
46 86 0.49
47 53 0.30
48 5 0.03
49 3 0.02
50 10 0.06
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:70489777 original size:93 final size:93
Alignment explanation
Indices: 70489670--70489935 Score: 460
Period size: 93 Copynumber: 2.9 Consensus size: 93
70489660 TGCCCATAAG
* * * ** * *
70489670 CGAACTCGGGCTCAACTCAATGAGCTCGGGGGTTTGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
70489735 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
70489763 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
70489828 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
70489856 CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
70489921 ACGAGCTCGGATGCC
66 ACGAGCTCGGATGCC
70489936 CAAATATCCT
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 164 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:70491759 original size:30 final size:30
Alignment explanation
Indices: 70491724--70491785 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
70491714 TAAATTCAGT
70491724 AAAAACCATAATAAATTTACATATCACTTA
1 AAAAACCATAATAAATTTACATATCACTTA
70491754 AAAAACCATAATAAATTTACATATCACTTA
1 AAAAACCATAATAAATTTACATATCACTTA
70491784 AA
1 AA
70491786 TGCTTAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (30 bp):
AAAAACCATAATAAATTTACATATCACTTA
Found at i:70495770 original size:47 final size:47
Alignment explanation
Indices: 70495661--70495771 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
70495651 CCGGGATAAG
* * *
70495661 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
70495708 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
70495755 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
70495772 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:70498892 original size:23 final size:25
Alignment explanation
Indices: 70498856--70498909 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
70498846 GAAATCCTCA
70498856 CATATATATATACCAA-AGAT-TTT
1 CATATATATATACCAATAGATGTTT
*
70498879 CATATAT-TAGTACCAATTGATGTTT
1 CATATATATA-TACCAATAGATGTTT
70498904 CATATA
1 CATATA
70498910 AAAGAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 13 0.48
24 3 0.11
25 9 0.33
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (25 bp):
CATATATATATACCAATAGATGTTT
Found at i:70499817 original size:31 final size:32
Alignment explanation
Indices: 70499774--70499842 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
70499764 CAACCCAAAC
* *
70499774 TCAAT-AACTTAAATAAAAACTTTTGAATAGT
1 TCAATGAACTTAAATAAAAACTTTCGAATAAT
*
70499805 TCAATGAA-TTAAATGAAAACTTTCGAATAAT
1 TCAATGAACTTAAATAAAAACTTTCGAATAAT
*
70499836 TTAATGA
1 TCAATGA
70499843 TCAAATTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (32 bp):
TCAATGAACTTAAATAAAAACTTTCGAATAAT
Found at i:70507579 original size:5 final size:5
Alignment explanation
Indices: 70507569--70507607 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
70507559 AAAAAATGTA
70507569 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
70507608 ATAGAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:70508656 original size:6 final size:6
Alignment explanation
Indices: 70508647--70508671 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
70508637 AAATCAAATT
70508647 ACATGC ACATGC ACATGC ACATGC A
1 ACATGC ACATGC ACATGC ACATGC A
70508672 ATAATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (6 bp):
ACATGC
Found at i:70513752 original size:24 final size:24
Alignment explanation
Indices: 70513720--70513775 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
70513710 CTAGACTAAT
*
70513720 CAGAGTTTGATTGAAATAAATAAA
1 CAGAGTTTGATTGAAACAAATAAA
*
70513744 CAGAGTTTGGTTGAAACAAATAAA
1 CAGAGTTTGATTGAAACAAATAAA
*
70513768 CAAAGTTT
1 CAGAGTTT
70513776 AACTGAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (24 bp):
CAGAGTTTGATTGAAACAAATAAA
Found at i:70513782 original size:24 final size:24
Alignment explanation
Indices: 70513731--70513783 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
70513721 AGAGTTTGAT
* * ***
70513731 TGAAATAAATAAACAGAGTTTGGT
1 TGAAACAAATAAACAAAGTTTAAC
70513755 TGAAACAAATAAACAAAGTTTAAC
1 TGAAACAAATAAACAAAGTTTAAC
70513779 TGAAA
1 TGAAA
70513784 GATTATTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.25
Consensus pattern (24 bp):
TGAAACAAATAAACAAAGTTTAAC
Found at i:70517090 original size:46 final size:48
Alignment explanation
Indices: 70517016--70517124 Score: 123
Period size: 46 Copynumber: 2.3 Consensus size: 48
70517006 CACATTATGG
* * * * * *
70517016 GAGCCAGTGTAAGACATGTTTGGGACAT-GCATCGGCATTG-AGACGA
1 GAGCCAATGTAAGACATGTCTAGAACATGGCATCGACACTGAAGACGA
* *
70517062 GAGCTAATGTAAGACATGTCTAGAACATGGCATCGACACTGATAGATGA
1 GAGCCAATGTAAGACATGTCTAGAACATGGCATCGACACTGA-AGACGA
70517111 GAGCCAATGTAAGA
1 GAGCCAATGTAAGA
70517125 ATTGTCTGGG
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
46 23 0.45
47 10 0.20
49 18 0.35
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (48 bp):
GAGCCAATGTAAGACATGTCTAGAACATGGCATCGACACTGAAGACGA
Found at i:70519452 original size:126 final size:126
Alignment explanation
Indices: 70519300--70519578 Score: 355
Period size: 126 Copynumber: 2.2 Consensus size: 126
70519290 TGTCGAATTT
* * ** * * * *
70519300 CCAAATACGAAACATTGCCTAATTTTAATTTGAGAACACATGGATGAAATTTCAAAAGGATATTC
1 CCAAACACGAAATATTGCCTCGTTTTAATTTAAGAAAACATAGACGAAATTTCAAAAGGATATTC
* * *
70519365 TGGATTTTAGTCGAATAGA-AAATTGAAGCCCAGCACGATTGGGCAAAACCTCTCAAACCCC
66 TGGATTCTAGTCG-ATAGAGAAATCGAAACCCAGCACGATTGGGCAAAACCTCTCAAACCCC
*
70519426 CCAAACAC-AAGATATTGCCTCGTTTTAATTTAAGAAAACATAGACGAAATTTCACAAGGATATT
1 CCAAACACGAA-ATATTGCCTCGTTTTAATTTAAGAAAACATAGACGAAATTTCAAAAGGATATT
* * **** *
70519490 CTGTATTCTAGTCGATTGAGAAATCGAAACCCAGCACGATTGGGCATGGTCTCTCAAACTCC
65 CTGGATTCTAGTCGATAGAGAAATCGAAACCCAGCACGATTGGGCAAAACCTCTCAAACCCC
70519552 CCAAACACGAAATATTGCCTCGTTTTA
1 CCAAACACGAAATATTGCCTCGTTTTA
70519579 GCTTTTTTAA
Statistics
Matches: 131, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
125 6 0.05
126 123 0.94
127 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (126 bp):
CCAAACACGAAATATTGCCTCGTTTTAATTTAAGAAAACATAGACGAAATTTCAAAAGGATATTC
TGGATTCTAGTCGATAGAGAAATCGAAACCCAGCACGATTGGGCAAAACCTCTCAAACCCC
Found at i:70520035 original size:3 final size:3
Alignment explanation
Indices: 70519958--70520018 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
70519948 AAATAGCAAA
* * *
70519958 AAT AAT AAT GAT GAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
70520006 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
70520019 GAGGTAAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:70521936 original size:178 final size:178
Alignment explanation
Indices: 70521718--70522929 Score: 1841
Period size: 178 Copynumber: 6.8 Consensus size: 178
70521708 GTTAAGGCTT
* * * * * *
70521718 GTATCTTCAACTTTCTCTCCTACTATCTGAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
1 GTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
* * * *
70521783 GCCGATACGTAGAGATAAGACTCGCCATTTCTGATCTACTCCATAGCTGATACATGGAGATAAGA
66 GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGA
* *
70521848 TCTATAATTTGCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTC
131 TCTATAATTTGCAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTC
70521896 GTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
1 GTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
* * * * *
70521961 GCCGATACATGGAGATAAGACTTGCCATTTTTTATCTGCTCTATAGCCAATACATGGAGATAAGA
66 GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGA
* * * * * *
70522026 TATATAATTTGCAGTATGCTTCCTTGCTACCTTAGGGAGTTAAGGCTT
131 TCTATAATTTGCAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* * * * *
70522074 GTATCTTCAACTTGCTCTCCTACTATCTGAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
1 GTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
* * * *
70522139 GCCGATACGTAGAGATAAGACTCGCCATTTCTGATCTACTCCATAGCTGATACATGGAGATAAGA
66 GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGA
* * *
70522204 TCTATAATTTACAGTCTGATTCCTTGCTACCTCAGGAAGATAAGACTC
131 TCTATAATTTGCAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTC
70522252 GTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
1 GTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
* * *
70522317 GCCGATACATGGAGATAAGACTCGCCATTTTTTATCTGCTCCATAGCCAATACATGGAGATAAGA
66 GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGA
* *
70522382 TCTATAATTTACAGTATGCTTCCTTGCTACCTTAGGAAGATAAGACTC
131 TCTATAATTTGCAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* *
70522430 GTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTACTTCATA
1 GTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
* * *
70522495 GCCGATACATGGAGATAAGACTCGCCATTTTTGATCTGCTCCATAGCCAATACATGGAGAGAAGA
66 GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGA
70522560 TCTATAATTTGCAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTC
131 TCTATAATTTGCAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* * *
70522608 GTATCTTCAACCTACTCTCTTGCTACCTCAGAGAGATAAGGCTGGTAGCTAAAATCTGCTCCATA
1 GTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
* * * * *
70522673 GTCGATACATAGAGATAAGACTAGCCATTTCTGATATGCTCCATAGCCGATACATGGAGATAAAA
66 GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGA
* *
70522738 TCTATAATTTGCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTC
131 TCTATAATTTGCAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* *
70522786 GTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTTCATA
1 GTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
* * * * * *
70522851 CCCGATACACGGAGATAAGACTCACTATTTCTGATCTACTCCATAGCTGATACATGGAGATAAGA
66 GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGA
70522916 GTC-ATAATTTGCAG
131 -TCTATAATTTGCAG
70522930 CTTGTTACCC
Statistics
Matches: 937, Mismatches: 96, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
178 935 1.00
179 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (178 bp):
GTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATA
GCCGATACATGGAGATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGA
TCTATAATTTGCAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTC
Found at i:70523132 original size:64 final size:64
Alignment explanation
Indices: 70523030--70523156 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 64
70523020 TCATGTATCT
* * * * *
70523030 ATGCTTATGCCAAATAGTTATGATGCTATGATCGAAATGAGTTAAACGCTCCTAGCTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAACGCTCCTAGCTAGATGTG
* *
70523094 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAGCTAGATGT
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAACGCTCCTAGCTAGATGT
70523157 ACTACGAATG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAACGCTCCTAGCTAGATGTG
Found at i:70524967 original size:19 final size:20
Alignment explanation
Indices: 70524926--70524968 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
70524916 TGTGATTATC
*
70524926 AATATCGATATAACATGAAA
1 AATATAGATATAACATGAAA
* *
70524946 AATATAGAT-TAATATGATA
1 AATATAGATATAACATGAAA
70524965 AATA
1 AATA
70524969 GCATTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (20 bp):
AATATAGATATAACATGAAA
Found at i:70530392 original size:64 final size:64
Alignment explanation
Indices: 70530287--70530411 Score: 232
Period size: 64 Copynumber: 2.0 Consensus size: 64
70530277 GAAAGTCGCA
* *
70530287 TTGACAAATTCTAATGACCGAAAGGAACACTCAATTGCTTCATCATCATTCTCGATGTACGACG
1 TTGACAAATTCCAATGACCGAAAGGAACACTCAATTACTTCATCATCATTCTCGATGTACGACG
70530351 TTGACAAATTCCAATGACCGAAAGGAACACTCAATTACTTCATCATCATTCTCGATGTACG
1 TTGACAAATTCCAATGACCGAAAGGAACACTCAATTACTTCATCATCATTCTCGATGTACG
70530412 GCTCGTCACT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (64 bp):
TTGACAAATTCCAATGACCGAAAGGAACACTCAATTACTTCATCATCATTCTCGATGTACGACG
Found at i:70536854 original size:126 final size:125
Alignment explanation
Indices: 70536642--70536918 Score: 317
Period size: 126 Copynumber: 2.2 Consensus size: 125
70536632 ATCGAATTTT
* * * * * *
70536642 CAAATACGAAACATTGCCTCA-TTTTAATTTGAGAAGACATGGATGAATTTCAAAAGGATATTCT
1 CAAACACGAAATATTGCCT-AGTTTTAATTTAAGAAAACATAGACGAATTTCAAAAGGATATTCT
* *
70536706 GTATTTTAGTCGAATGGAAAATCGAAGCCCAGCACGATTAGGCACGACCTCCCAAACCCCC
65 GTATTCTAGTCGAATGGAAAATCGAAACCCAGCACGATTAGGCACGACCTCCCAAACCCCC
* * *
70536767 CAAACAC-AAGATATTGTCTAGTTTTAATTTAAGAAAACATAGACGAAATTTCACAAGGATATTT
1 CAAACACGAA-ATATTGCCTAGTTTTAATTTAAGAAAACATAGACG-AATTTCAAAAGGATATTC
* * * ** * *
70536831 TGTATTCTAGTTG-ATTGAGAAATCGAAACCCAGCACGATTGGGCACGGTCTCTCAAACTCCC
64 TGTATTCTAGTCGAATGGA-AAATCGAAACCCAGCACGATTAGGCACGACCTCCCAAACCCCC
* *
70536893 CAAATACGAAATATTGCCTCGTTTTA
1 CAAACACGAAATATTGCCTAGTTTTA
70536919 GCTTTTTAAA
Statistics
Matches: 126, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
124 3 0.02
125 37 0.29
126 84 0.67
127 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (125 bp):
CAAACACGAAATATTGCCTAGTTTTAATTTAAGAAAACATAGACGAATTTCAAAAGGATATTCTG
TATTCTAGTCGAATGGAAAATCGAAACCCAGCACGATTAGGCACGACCTCCCAAACCCCC
Found at i:70537400 original size:18 final size:18
Alignment explanation
Indices: 70537335--70537413 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
70537325 AAATAATAAT
*
70537335 AATAATAATAA-AGGTAAA
1 AATAATACTAATA-GTAAA
* *
70537353 AATAATAATTATAG--AA
1 AATAATACTAATAGTAAA
70537369 AATAAT-CGTAATAGTAAA
1 AATAATAC-TAATAGTAAA
*
70537387 AATAATACTGATAGTAATAA
1 AATAATACTAATAGT-A-AA
70537407 AATAATA
1 AATAATA
70537414 GAGGTTGAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
16 13 0.26
18 25 0.50
19 3 0.06
20 9 0.18
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.28
Consensus pattern (18 bp):
AATAATACTAATAGTAAA
Found at i:70540638 original size:7 final size:7
Alignment explanation
Indices: 70540626--70540678 Score: 67
Period size: 7 Copynumber: 8.0 Consensus size: 7
70540616 GTTAATATAT
70540626 TATTTAA
1 TATTTAA
70540633 TATTTAA
1 TATTTAA
70540640 -ATTTAA
1 TATTTAA
*
70540646 TATTT-T
1 TATTTAA
70540652 TATTTAA
1 TATTTAA
70540659 -ATTTAA
1 TATTTAA
*
70540665 TTTTTAA
1 TATTTAA
70540672 TATTTAA
1 TATTTAA
70540679 AATAAGAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 17 0.44
7 22 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTTAA
Found at i:70540638 original size:25 final size:25
Alignment explanation
Indices: 70540610--70540664 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
70540600 TTAAAGTTAT
*
70540610 TTTAAGGTTAATA-TATTATTTAATA
1 TTTAAAGTTAATATTATTATTTAA-A
* *
70540635 TTTAAATTTAATATTTTTATTTAAA
1 TTTAAAGTTAATATTATTATTTAAA
70540660 TTTAA
1 TTTAA
70540665 TTTTTAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTAAAGTTAATATTATTATTTAAA
Found at i:70540639 original size:19 final size:20
Alignment explanation
Indices: 70540623--70540679 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
70540613 AAGGTTAATA
70540623 TATTATTTAATATTTAAATT
1 TATTATTTAATATTTAAATT
* *
70540643 TAATATTT-TTATTTAAATT
1 TATTATTTAATATTTAAATT
70540662 TAATT-TTTAATATTTAAA
1 T-ATTATTTAATATTTAAA
70540680 ATAAGAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTATTTAATATTTAAATT
Found at i:70540645 original size:13 final size:13
Alignment explanation
Indices: 70540627--70540679 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
70540617 TTAATATATT
70540627 ATTTAATATTTAA
1 ATTTAATATTTAA
**
70540640 ATTTAATATTTTT
1 ATTTAATATTTAA
70540653 ATTTAA-ATTTAA
1 ATTTAATATTTAA
*
70540665 TTTTTAATATTTAA
1 -ATTTAATATTTAA
70540679 A
1 A
70540680 ATAAGAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 4 0.12
13 22 0.69
14 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTAATATTTAA
Found at i:70540670 original size:26 final size:26
Alignment explanation
Indices: 70540617--70540676 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
70540607 TATTTTAAGG
*
70540617 TTAATA-TATTATTTAATATTTAAAT
1 TTAATATTTTTATTTAATATTTAAAT
*
70540642 TTAATATTTTTATTTAA-ATTTAATTT
1 TTAATATTTTTATTTAATATTTAA-AT
70540668 TTAATATTT
1 TTAATATTT
70540677 AAAATAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 12 0.39
26 19 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
TTAATATTTTTATTTAATATTTAAAT
Found at i:70541441 original size:20 final size:21
Alignment explanation
Indices: 70541416--70541461 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
70541406 TACTAAAAAA
*
70541416 TTAAAAAATTATAAAA-ATAC
1 TTAAAAAAATATAAAATATAC
70541436 TTAAAAAAATATAAAATATAC
1 TTAAAAAAATATAAAATATAC
*
70541457 ATAAA
1 TTAAA
70541462 TTATCATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (21 bp):
TTAAAAAAATATAAAATATAC
Found at i:70561849 original size:20 final size:20
Alignment explanation
Indices: 70561817--70561855 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
70561807 ATTTAATGGT
70561817 TATATTTAAATATT-TAAAA
1 TATATTTAAATATTCTAAAA
*
70561836 TATAGTTTATATATTCTAAA
1 TATA-TTTAAATATTCTAAA
70561856 TAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATTTAAATATTCTAAAA
Found at i:70565287 original size:31 final size:29
Alignment explanation
Indices: 70565219--70565305 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 29
70565209 TTTAAAAAAA
70565219 AATGAGAGTCTAATTGAAAATTTTAAAGTTTT
1 AATGAGA-T-TAA-TGAAAATTTTAAAGTTTT
* *
70565251 TATGAGATTAATGAGAATTTTCAAACGTTTT
1 AATGAGATTAATGAAAATTTT-AAA-GTTTT
* *
70565282 AATGAGCTTAATTAAAATTTTAAA
1 AATGAGATTAATGAAAATTTTAAA
70565306 AAAAATTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 9 0.19
30 9 0.19
31 23 0.49
32 6 0.13
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.40
Consensus pattern (29 bp):
AATGAGATTAATGAAAATTTTAAAGTTTT
Found at i:70569469 original size:9 final size:9
Alignment explanation
Indices: 70569455--70569489 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
70569445 TGAATTTCTA
70569455 TTTTAAAAC
1 TTTTAAAAC
70569464 TTTTAAAAC
1 TTTTAAAAC
70569473 TTTTAAAAC
1 TTTTAAAAC
70569482 TTTCTAAA
1 TTT-TAAA
70569490 TGATGAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 21 0.84
10 4 0.16
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (9 bp):
TTTTAAAAC
Found at i:70573513 original size:16 final size:16
Alignment explanation
Indices: 70573479--70573531 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
70573469 ATGGCATTAG
70573479 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
70573495 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* * *
70573511 TCATACCATACTCAAA
1 TCATGCAATACTCAAT
70573527 TCATG
1 TCATG
70573532 AGTATATAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 5 0.17
16 20 0.69
17 4 0.14
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.32
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:70573770 original size:40 final size:41
Alignment explanation
Indices: 70573716--70573827 Score: 147
Period size: 41 Copynumber: 2.8 Consensus size: 41
70573706 ACCGGTTTGG
* **
70573716 CACCTAGTGCCTCATCGGAT-AATTTGAAGTAGTAAATTGA
1 CACCTAGTGTCTCATCGGATAAATCCGAAGTAGTAAATTGA
* * *
70573756 CACCCAGTGTCTCATTGAATAAATCCGAAGTAGTAAATTGA
1 CACCTAGTGTCTCATCGGATAAATCCGAAGTAGTAAATTGA
*
70573797 CACCTAGTGTCTCATCGGTTAAA-CCGAAGTA
1 CACCTAGTGTCTCATCGGATAAATCCGAAGTA
70573828 AGTTGGAACC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 24 0.39
41 37 0.61
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
CACCTAGTGTCTCATCGGATAAATCCGAAGTAGTAAATTGA
Found at i:70574776 original size:25 final size:24
Alignment explanation
Indices: 70574744--70574800 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
70574734 TTTTTTTTTC
70574744 TTTC-TTTTCTTTCTTTCATTTCTG
1 TTTCATTTTCTTTCTTTC-TTTCTG
* *
70574768 TTTCATTTTGTTTCTTTCTTTCTT
1 TTTCATTTTCTTTCTTTCTTTCTG
70574792 TATTCATTT
1 T-TTCATTT
70574801 ACTTATTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTCATTTTCTTTCTTTCTTTCTG
Found at i:70574882 original size:29 final size:28
Alignment explanation
Indices: 70574818--70574882 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
70574808 TGTTTTGTTT
* * *
70574818 TATTATATTTACTTTATTATTAGTATAT
1 TATTATATTTACTTAAATATTAGTATAA
70574846 TATATATATTTACTTAAATATTAAGTA-ACA
1 TAT-TATATTTACTTAAATATT-AGTATA-A
70574876 TATTATA
1 TATTATA
70574883 ATATATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 3 0.10
29 21 0.68
30 7 0.23
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (28 bp):
TATTATATTTACTTAAATATTAGTATAA
Found at i:70584650 original size:19 final size:20
Alignment explanation
Indices: 70584619--70584656 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
70584609 TTTTAGCTTA
70584619 TTTTAGATAAAAA-ATTTAT
1 TTTTAGATAAAAACATTTAT
70584638 TTTTA-ATATAAAACATTTA
1 TTTTAGATA-AAAACATTTA
70584657 GCTTTAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 9 0.53
20 5 0.29
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
TTTTAGATAAAAACATTTAT
Found at i:70584662 original size:20 final size:20
Alignment explanation
Indices: 70584625--70584663 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
70584615 CTTATTTTAG
**
70584625 ATAAAAAATTTATTTTTAAT
1 ATAAAAAATTTAGCTTTAAT
*
70584645 ATAAAACATTTAGCTTTAA
1 ATAAAAAATTTAGCTTTAA
70584664 CCCCTCTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (20 bp):
ATAAAAAATTTAGCTTTAAT
Found at i:70586297 original size:22 final size:23
Alignment explanation
Indices: 70586254--70586299 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
70586244 AATTATAAGT
70586254 ATTATATAAAAAATATAATTAAA
1 ATTATATAAAAAATATAATTAAA
*
70586277 ATTA-ATAATAAAAT-TATTTAAA
1 ATTATATAA-AAAATATAATTAAA
70586299 A
1 A
70586300 AATAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTATATAAAAAATATAATTAAA
Found at i:70587853 original size:30 final size:30
Alignment explanation
Indices: 70587817--70587879 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
70587807 ATTTATTTTA
70587817 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
70587847 TTGTTAATTTTGTTATTATTTTAGATACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
70587877 TTG
1 TTG
70587880 ATTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:70593544 original size:12 final size:12
Alignment explanation
Indices: 70593527--70593551 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
70593517 TAATTGAACC
70593527 TATTTTATTTAA
1 TATTTTATTTAA
70593539 TATTTTATTTAA
1 TATTTTATTTAA
70593551 T
1 T
70593552 TAAATTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTTATTTAA
Found at i:70600414 original size:14 final size:14
Alignment explanation
Indices: 70600395--70600422 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
70600385 TTTGAATAGG
70600395 CATGAATGGATATA
1 CATGAATGGATATA
70600409 CATGAATGGATATA
1 CATGAATGGATATA
70600423 TATATGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
CATGAATGGATATA
Found at i:70600474 original size:29 final size:29
Alignment explanation
Indices: 70600431--70600512 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
70600421 TATATATGTG
*
70600431 AATTATCGAGCACTAAGTGCGCGAAG-AA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
*
70600459 AGATTAACGAGCACTAAGTGTGCGAAGTAA
1 A-ATTATCGAGCACTAAGTGTGCGAAGTAA
*
70600489 AACTATCGAGCACTAAGTGTGCGA
1 AATTATCGAGCACTAAGTGTGCGA
70600513 TCTCATTGCA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
28 1 0.02
29 44 0.92
30 3 0.06
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.20
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCGAAGTAA
Found at i:70608038 original size:29 final size:29
Alignment explanation
Indices: 70607995--70608105 Score: 179
Period size: 29 Copynumber: 3.8 Consensus size: 29
70607985 TATATATATG
70607995 AATTATCGAGCACTAAGTGTGCGAAG-AA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
*
70608023 AGATTAACGAGCACTAAGTGTGCGAAGTAA
1 A-ATTATCGAGCACTAAGTGTGCGAAGTAA
*
70608053 AATTATTGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
*
70608082 AACTATCGAGCACTAAGTGTGCGA
1 AATTATCGAGCACTAAGTGTGCGA
70608106 TCTCATTGCA
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
28 1 0.01
29 72 0.95
30 3 0.04
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCGAAGTAA
Found at i:70609807 original size:16 final size:16
Alignment explanation
Indices: 70609786--70609816 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
70609776 TATTTCTATG
70609786 TCATCAGATATTTTCC
1 TCATCAGATATTTTCC
70609802 TCATCAGATATTTTC
1 TCATCAGATATTTTC
70609817 AGACTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (16 bp):
TCATCAGATATTTTCC
Found at i:70618597 original size:26 final size:26
Alignment explanation
Indices: 70618558--70618607 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
70618548 GCAAAAATTC
70618558 CTTCTGAAATTAAACCGT-CACATATA
1 CTTCTGAAATTAAA-CGTACACATATA
70618584 CTTCTGAAGA-TAAACGTACACATA
1 CTTCTGAA-ATTAAACGTACACATA
70618608 GAATGCCCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 3 0.14
26 18 0.82
27 1 0.05
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (26 bp):
CTTCTGAAATTAAACGTACACATATA
Found at i:70621324 original size:39 final size:40
Alignment explanation
Indices: 70621251--70621406 Score: 163
Period size: 39 Copynumber: 4.0 Consensus size: 40
70621241 GAATTCCATC
* * *
70621251 ACCAACACAAAGCCTACGGGACTTTAAGCCCGGATATAGT
1 ACCAACACGAAGCCTGCGGGACCTTAAGCCCGGATATAGT
* *
70621291 ACCAATACGAAGCCTGC-GGACCTTAAGTCCGGATATAGT
1 ACCAACACGAAGCCTGCGGGACCTTAAGCCCGGATATAGT
* * * * * *
70621330 ACCAGCACGAAGACTGC-GGATCTTAAGTCCGGATACAAT
1 ACCAACACGAAGCCTGCGGGACCTTAAGCCCGGATATAGT
* * * *
70621369 TCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATA
1 ACCAACACGAAGCCTGCGGGACCTTAAGCCCGGATATA
70621407 CATCAAATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 68 0.70
40 29 0.30
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (40 bp):
ACCAACACGAAGCCTGCGGGACCTTAAGCCCGGATATAGT
Found at i:70650254 original size:8 final size:8
Alignment explanation
Indices: 70650241--70650275 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
70650231 GTAGATCGGA
70650241 AAAAGCCG
1 AAAAGCCG
70650249 AAAAGCCG
1 AAAAGCCG
*
70650257 AAATGCCG
1 AAAAGCCG
*
70650265 AAAAGTCG
1 AAAAGCCG
70650273 AAA
1 AAA
70650276 TACCGAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.51, C:0.20, G:0.23, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:70650266 original size:16 final size:16
Alignment explanation
Indices: 70650245--70650283 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
70650235 ATCGGAAAAA
70650245 GCCGAAAAGCCGAAAT
1 GCCGAAAAGCCGAAAT
*
70650261 GCCGAAAAGTCGAAAT
1 GCCGAAAAGCCGAAAT
*
70650277 ACCGAAA
1 GCCGAAA
70650284 GGCTGAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.08
Consensus pattern (16 bp):
GCCGAAAAGCCGAAAT
Found at i:70650291 original size:24 final size:24
Alignment explanation
Indices: 70650241--70650291 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
70650231 GTAGATCGGA
*
70650241 AAAAGCCGAAAAGCCGAAATGCCG
1 AAAAGCCGAAAAGCCGAAAGGCCG
* *
70650265 AAAAGTCGAAATA-CCGAAAGGCTG
1 AAAAGCCGAAA-AGCCGAAAGGCCG
70650289 AAA
1 AAA
70650292 GTTTGCTGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.49, C:0.20, G:0.24, T:0.08
Consensus pattern (24 bp):
AAAAGCCGAAAAGCCGAAAGGCCG
Found at i:70650458 original size:29 final size:27
Alignment explanation
Indices: 70650398--70650513 Score: 90
Period size: 29 Copynumber: 4.1 Consensus size: 27
70650388 AAAAAATAAA
* *
70650398 AAATTACATTTTACCCCAAACTTTTCCT
1 AAATTTCATTTTACCCTAAACTTTT-CT
*
70650426 AAATTTCATTTTGACCCTTAAACTTTTTT
1 AAATTTCATTTT-ACCC-TAAACTTTTCT
** * *
70650455 AAATTTCACTTAGACCCTAAAATTTCCTT
1 AAATTTCA-TTTTACCCTAAACTTTTC-T
* *
70650484 AAATTGCATTTTAACCTTAAA-TTTTCT
1 AAATTTCATTTT-ACCCTAAACTTTTCT
70650511 AAA
1 AAA
70650514 AATTACATTT
Statistics
Matches: 70, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
27 4 0.06
28 24 0.34
29 32 0.46
30 10 0.14
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.43
Consensus pattern (27 bp):
AAATTTCATTTTACCCTAAACTTTTCT
Found at i:70650744 original size:13 final size:14
Alignment explanation
Indices: 70650728--70650765 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
70650718 GAGAAAAAAG
70650728 AGCAAAAAAATT-C
1 AGCAAAAAAATTCC
*
70650741 AGCAAAAAATTTTCC
1 AGCAAAAAA-ATTCC
70650756 AGCAAAAAAA
1 AGCAAAAAAA
70650766 AACAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 9 0.43
14 2 0.10
15 10 0.48
ACGTcount: A:0.61, C:0.16, G:0.08, T:0.16
Consensus pattern (14 bp):
AGCAAAAAAATTCC
Found at i:70651543 original size:16 final size:18
Alignment explanation
Indices: 70651503--70651544 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
70651493 TTTTTATAAC
*
70651503 TATATTATGTACATATATA
1 TATATT-TGTACATATACA
70651522 TATATTTGTACATAT-CA
1 TATATTTGTACATATACA
70651539 T-TATTT
1 TATATTT
70651545 TATATTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 2 0.09
18 9 0.41
19 6 0.27
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (18 bp):
TATATTTGTACATATACA
Found at i:70663820 original size:87 final size:86
Alignment explanation
Indices: 70663692--70664255 Score: 570
Period size: 87 Copynumber: 6.7 Consensus size: 86
70663682 TTTGTCAAAA
* *
70663692 AAAAAGTCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
70663757 ATGTTTTTCAGTTTATATTTTGT
65 CTGTTTTTCAATTTATATTTT-T
* * *
70663780 AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGTTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * *
70663845 TGTTCTT-AA-TGACTGTTTTT
66 TGTTTTTCAATTTA-TATTTTT
70663865 --AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
70663928 TGTTTTTTCCAATCTATATGTTTC
66 TG-TTTTT-CAATTTATAT-TTTT
* *
70663952 AAAAATCAACTCATATTGCGAGAGGTG-GATTGAGCCTCAGGACACGTTGAGGTATTTTCGATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
70664016 CCGTTTTTCAATTTATGTTTTT
65 CTGTTTTTCAATTTATATTTTT
* * * * *
70664038 CAAAAATCAATTCATATTACTAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA-TT
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
70664102 C-----TT---TTT-T-TTTTT
65 CTGTTTTTCAATTTATATTTTT
* ** * **
70664114 AAAAAGTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
70664179 CTGTCTTTC-----A-A-----
65 CTGTTTTTCAATTTATATTTTT
* *
70664190 AAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
70664255 T
64 T
70664256 TTTGCTTTTT
Statistics
Matches: 403, Mismatches: 50, Indels: 57
0.79 0.10 0.11
Matches are distributed among these distances:
75 35 0.09
76 55 0.14
77 25 0.06
78 3 0.01
81 2 0.00
82 2 0.00
83 62 0.15
84 4 0.01
85 3 0.01
86 16 0.04
87 124 0.31
88 12 0.03
89 60 0.15
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAATTTATATTTTT
Found at i:70663902 original size:170 final size:174
Alignment explanation
Indices: 70663701--70664101 Score: 555
Period size: 172 Copynumber: 2.3 Consensus size: 174
70663691 AAAAAAGTCG
70663701 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATG-TTTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTT
* * * *
70663765 -CAGTTTATAT-TTTGTAAAAATCAATTCATATTGCGAGAGGT-GAGTTGAGCCTCAGGACACGC
66 CCAATCTATATGTTT-CAAAAATCAACTCATATTGCGAGAGGTGGA-TTGAGCCTCAGGACACGC
* * *
70663827 TGAGTTATTTTTAATTTCTGTTCTT-AA-TGACTGTTTTT-AAATCA
129 TGAGGTATTTTCAATTTCCGTTCTTCAATTGA-TGTTTTTAAAATCA
* *
70663871 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTT
*
70663936 CCAATCTATATGTTTCAAAAATCAACTCATATTGCGAGAGGTGGATTGAGCCTCAGGACACGTTG
66 CCAATCTATATGTTTCAAAAATCAACTCATATTGCGAGAGGTGGATTGAGCCTCAGGACACGCTG
* * *
70664001 AGGTATTTTCGATTTCCGTTTTTCAATTTATGTTTTTCAAAAATCA
131 AGGTATTTTCAATTTCCGTTCTTCAATTGATGTTTTT--AAAATCA
* * * *
70664047 ATTCATATTACTAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
70664102 CTTTTTTTTT
Statistics
Matches: 204, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
170 57 0.28
171 5 0.02
172 70 0.34
173 14 0.07
174 2 0.01
176 56 0.27
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (174 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTTT
CCAATCTATATGTTTCAAAAATCAACTCATATTGCGAGAGGTGGATTGAGCCTCAGGACACGCTG
AGGTATTTTCAATTTCCGTTCTTCAATTGATGTTTTTAAAATCA
Found at i:70664065 original size:259 final size:253
Alignment explanation
Indices: 70663692--70664182 Score: 659
Period size: 259 Copynumber: 1.9 Consensus size: 253
70663682 TTTGTCAAAA
*
70663692 AAAAAGTCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* * *
70663757 ATGTTTTTCAGTTTATATTTTGTAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 ACGTTTTTCAATTTATATTTTGTAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGGA
* * * *
70663822 CACGCTGAGTTATTTTTAATTTCTGTTCTTAATGACTGTTTT-TAAA-TCAACTCATATTGCGAG
131 CACGCTGAGGTAATTTCAA-TTCT-TT-TT--T---T-TTTTAAAAAGTCAACTCATATTGCGAG
** * *
70663885 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTTCCAATCTATATGTT
187 AAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGTTTTTTCCAATCTATATGTT
70663950 TC
252 TC
* * *
70663952 AAAAA-TCAACTCATATTGCGAGAGGTG-GATTGAGCCTCAGGACACGTTGAGGTATTTTCGATT
1 AAAAAGTCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * * *
70664015 TCCGTTTTTCAATTTATGTTTT-TCAAAAATCAATTCATATTACTAGAGGTGAGTTGAGCCTCGG
65 TACGTTTTTCAATTTATATTTTGT-AAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCAG
*
70664079 GACACGCTGAGGTAATTTCAATTCTTTTTTTTTTTAAAAAGTTAACTCATATTGCGAGAAATGAG
129 GACACGCTGAGGTAATTTCAATTCTTTTTTTTTTTAAAAAGTCAACTCATATTGCGAGAAATGAG
*
70664144 TTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGT
194 TTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGT
70664183 CTTTCAAAAA
Statistics
Matches: 206, Mismatches: 21, Indels: 16
0.85 0.09 0.07
Matches are distributed among these distances:
250 4 0.02
251 4 0.02
252 57 0.28
254 1 0.00
256 2 0.01
257 2 0.01
258 6 0.03
259 125 0.61
260 5 0.02
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (253 bp):
AAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
ACGTTTTTCAATTTATATTTTGTAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGGA
CACGCTGAGGTAATTTCAATTCTTTTTTTTTTTAAAAAGTCAACTCATATTGCGAGAAATGAGTT
GAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGTTTTTTCCAATCTATATGTTTC
Found at i:70664144 original size:76 final size:75
Alignment explanation
Indices: 70664020--70664336 Score: 271
Period size: 77 Copynumber: 4.2 Consensus size: 75
70664010 CGATTTCCGT
* * * * * *
70664020 TTTTCAATTTATGT-TTTTCAAAAA-TCAATTCATATTACTAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTTTTTCTTTTTAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
70664083 CGCTGAGGTA
66 CGCTGAGGTA
* * * ** **
70664093 ATTTCAATTCTTTTTTTTTTTAAAAAGTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
1 TTTTCAATT-TTTTTCTTTTTAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGAC
**
70664158 ACATTGAGGTA
65 ACGCTGAGGTA
* * ** * * * *
70664169 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGGTCA
1 TTTTCAATTTTTTTCTTTTTAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GA
70664234 CACGCTGAGGTA
64 CACGCTGAGGTA
* * * * *
70664246 TTTTCAATTTTTTGCTTTTTCAAAAGATCAACTCATAATT-CGAGAGGTGAGTTGAACTTCGGGT
1 TTTTCAATTTTTTTCTTTTTAAAAAG-TCAACTCAT-ATTGCGAGAGGTGAGTTGAGCCTCGGGA
* * * *
70664310 CGCATCCGAGCTA
64 CAC-GCTGAGGTA
70664323 TTTTCAATTTTTTT
1 TTTTCAATTTTTTT
70664337 TGTTTTACAA
Statistics
Matches: 187, Mismatches: 49, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
73 8 0.04
74 3 0.02
75 48 0.26
76 49 0.26
77 51 0.27
78 25 0.13
79 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (75 bp):
TTTTCAATTTTTTTCTTTTTAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
CGCTGAGGTA
Found at i:70664226 original size:151 final size:151
Alignment explanation
Indices: 70664020--70664300 Score: 372
Period size: 153 Copynumber: 1.9 Consensus size: 151
70664010 CGATTTCCGT
* * * * *
70664020 TTTTCAATTTATGTTTTTCAAAAATCAATTCATATTACTAGAGGTGAGTTGAGCCTC-GG-GACA
1 TTTTCAATTTATGTCTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTAAGCCTCAGGTCACA
** *
70664083 CGCTGAGGTAATTTCAATTCTTTTTTTTTTTAAAAAG-TTAACTCAT-ATTGCGAGAAATGAGTT
66 CGCTGAGGTAATTTCAATT-TTTTGCTTTTTAAAAAGATCAACTCATAATT-CGAGAAATGAGTT
70664146 GAGCCTCAAGACACATTGAGGTA
129 GAGCCTCAAGACACATTGAGGTA
* *
70664169 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGGTCA
1 TTTTCAATTTATGTCTTTC--AAAAATCAACTCATATTACAAGAGGTGAGTTAAGCCTCAGGTCA
* * **
70664234 CACGCTGAGGTATTTTCAATTTTTTGCTTTTTCAAAAGATCAACTCATAATTCGAGAGGTGAGTT
64 CACGCTGAGGTAATTTCAATTTTTTGCTTTTTAAAAAGATCAACTCATAATTCGAGAAATGAGTT
70664299 GA
129 GA
70664301 ACTTCGGGTC
Statistics
Matches: 112, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
149 17 0.15
151 34 0.30
152 16 0.14
153 42 0.38
154 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (151 bp):
TTTTCAATTTATGTCTTTCAAAAATCAACTCATATTACAAGAGGTGAGTTAAGCCTCAGGTCACA
CGCTGAGGTAATTTCAATTTTTTGCTTTTTAAAAAGATCAACTCATAATTCGAGAAATGAGTTGA
GCCTCAAGACACATTGAGGTA
Found at i:70664336 original size:78 final size:79
Alignment explanation
Indices: 70664020--70664335 Score: 225
Period size: 76 Copynumber: 4.2 Consensus size: 79
70664010 CGATTTCCGT
* * * * *
70664020 TTTTCAA-TTTATG-TTTTTC--AAAAATCAATTCATATTACTAGAGGTGAGTTGAGCCTC-GG-
1 TTTTCAATTTTTTGCTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGGT
* *
70664079 GACACGCTGAGGTA
66 CACACGCTGAGCTA
* ** * * * ** * *
70664093 ATTTCAATTCTTTT--TTTTTTTAAAAAGTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
1 TTTTCAATT-TTTTGCTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGG
** *
70664156 --ACACATTGAGGTA
65 TCACACGCTGAGCTA
* *
70664169 TTTTCAA-TTTCTG-TCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGGT
1 TTTTCAATTTTTTGCTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGGT
*
70664232 CACACGCTGAGGTA
66 CACACGCTGAGCTA
* * * *
70664246 TTTTCAATTTTTTGCTTTTTC-AAAAGATCAACTCATAATT-CGAGAGGTGAGTTGAA-CTTCGG
1 TTTTCAATTTTTTGCTTTTTCAAAAAAATCAACTCAT-ATTGCAAGAGGTGAGTT-AAGCCTCAG
*
70664308 GTCGCATC-C-GAGCTA
64 GTCACA-CGCTGAGCTA
70664323 TTTTCAATTTTTT
1 TTTTCAATTTTTT
70664336 TTGTTTTACA
Statistics
Matches: 195, Mismatches: 35, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
73 6 0.03
74 9 0.05
75 43 0.22
76 48 0.25
77 37 0.19
78 41 0.21
79 11 0.06
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (79 bp):
TTTTCAATTTTTTGCTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGGT
CACACGCTGAGCTA
Found at i:70664569 original size:30 final size:30
Alignment explanation
Indices: 70664529--70664639 Score: 127
Period size: 30 Copynumber: 3.7 Consensus size: 30
70664519 CAAAAAATAA
* * *
70664529 AAATTGCATTTTTACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGACCCCTAAACTTTCT-TT
*
70664559 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
* *
70664589 AAATTTCACTTAGACCCCTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
* *
70664619 AAATTACATTTT-AACCCTAAA
1 AAATTTCATTTTGACCCCTAAA
70664640 TTTTGTAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
29 8 0.12
30 60 0.87
31 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTTT
Found at i:70665724 original size:17 final size:15
Alignment explanation
Indices: 70665668--70665715 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
70665658 CGAATTTAAT
*
70665668 ATATATATTTT-TAT
1 ATATATATTTTGTAC
*
70665682 A-ACTATATTATGTAC
1 ATA-TATATTTTGTAC
70665697 ATATATATTTTGTAC
1 ATATATATTTTGTAC
70665712 ATAT
1 ATAT
70665716 CATTATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 1 0.04
14 8 0.29
15 18 0.64
16 1 0.04
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (15 bp):
ATATATATTTTGTAC
Found at i:70665877 original size:19 final size:19
Alignment explanation
Indices: 70665802--70665877 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 19
70665792 TAGATATTAT
70665802 TATTATTATTATTAT-TACA
1 TATTATTATT-TTATGTACA
* *
70665821 TA-TATTTATTATATGCATATA
1 TATTA-TTATTTTATG--TACA
70665842 TATATATGTATTTTTATGTACA
1 TAT-TAT-TA-TTTTATGTACA
70665864 TATTATTATTTTAT
1 TATTATTATTTTAT
70665878 ATTATTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
18 5 0.11
19 13 0.29
20 2 0.04
21 8 0.18
22 7 0.16
23 4 0.09
24 6 0.13
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (19 bp):
TATTATTATTTTATGTACA
Found at i:70666809 original size:28 final size:29
Alignment explanation
Indices: 70666777--70666928 Score: 143
Period size: 29 Copynumber: 5.3 Consensus size: 29
70666767 GTGAGCATGA
* * *
70666777 ATAT-AATGTGATTTGGGCAGGATGGGCC
1 ATATGAATGTGAATTGGGCCGAATGGGCC
* * *
70666805 ATATAAATGAG-ATTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCGAATGGGCC
*
70666833 ATATGAATGTCAATTGGGCCTG-ATGGGCC
1 ATATGAATGTGAATTGGGCC-GAATGGGCC
* *
70666862 ATATGAACGTGAATTGGGCCGAATGGGCA
1 ATATGAATGTGAATTGGGCCGAATGGGCC
* *
70666891 ATAT-AA-GTGAGATTGGGCCTAGTGGGCC
1 ATATGAATGTGA-ATTGGGCCGAATGGGCC
*
70666919 ATATGCATGT
1 ATATGAATGT
70666929 ATGTAGGGGT
Statistics
Matches: 101, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
27 4 0.04
28 46 0.46
29 49 0.49
30 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCGAATGGGCC
Found at i:70666906 original size:57 final size:58
Alignment explanation
Indices: 70666797--70666923 Score: 156
Period size: 57 Copynumber: 2.2 Consensus size: 58
70666787 ATTTGGGCAG
* *
70666797 GATGGGCCATAT-AAATGAGATTGGGCCTAATGGGCCATATGAATGTCAATTGGGCCT
1 GATGGGCCATATGAAATGAGATTGGGCCGAATGGGCAATATGAATGTCAATTGGGCCT
* *
70666854 GATGGGCCATATGAACGTGA-ATTGGGCCGAATGGGCAATAT-AA-GTGAGATTGGGCCT
1 GATGGGCCATATGAA-ATGAGATTGGGCCGAATGGGCAATATGAATGTCA-ATTGGGCCT
70666911 -AGTGGGCCATATG
1 GA-TGGGCCATATG
70666924 CATGTATGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
56 4 0.06
57 34 0.55
58 21 0.34
59 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (58 bp):
GATGGGCCATATGAAATGAGATTGGGCCGAATGGGCAATATGAATGTCAATTGGGCCT
Found at i:70671631 original size:37 final size:38
Alignment explanation
Indices: 70671525--70671643 Score: 186
Period size: 38 Copynumber: 3.2 Consensus size: 38
70671515 TTTAAGCTCA
* * * *
70671525 GATATAATACCAGCACTAGGCCTGTGGGATTGAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
*
70671563 GATATAATACCAGCACGAAGCCTGCGAGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
70671601 GATATAATACCAGCA-GAAGCCTGCGGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
70671638 GATATA
1 GATATA
70671644 TTTCTAGCAT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
37 27 0.36
38 48 0.64
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (38 bp):
GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
Found at i:70671662 original size:75 final size:78
Alignment explanation
Indices: 70671493--70671681 Score: 181
Period size: 75 Copynumber: 2.5 Consensus size: 78
70671483 GAATCCAGTC
* * * * * * * *
70671493 ACCAACACAAAACCTACGAG-ACTTTAAGCTCAGATATAATACCAGCACTAGGCCTGTGGGATTG
1 ACCAGCACGAAACCTGCGAGTA-TTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTG
70671557 AACCCGGATATAAT
65 AACCCGGATATAAT
* *
70671571 ACCAGCACGAAGCCTGCGAG-ATTTAA-CCCGGATATAATACCAGCA-GAAGCCTGCGGGATTTA
1 ACCAGCACGAAACCTGCGAGTATTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTGA
*
70671633 ACCCGGATATATT
66 ACCCGGATATAAT
* * * * *
70671646 TCTAGCA-TATAACCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AACCTGCGAGTATTTAAGCCCGGATA
70671682 CACATCAAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
74 1 0.01
75 38 0.42
76 22 0.24
77 13 0.14
78 17 0.19
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (78 bp):
ACCAGCACGAAACCTGCGAGTATTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTGA
ACCCGGATATAAT
Done.