Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 248 of 295
Found at i:79787632 original size:80 final size:79
Alignment explanation
Indices: 79787564--79787852 Score: 257
Period size: 80 Copynumber: 3.6 Consensus size: 79
79787554 TATAAATTGG
* *
79787564 GGGTACTTTGGTAATTTTACAAGTCGA-GGTATTTCAG-AAGTTCTATAAATCAAGGGTATTTCA
1 GGGTACTTTGGTAATTTTACAA-TCGACGGTATTTCAGTAA-TT-TATAAATCGAGGGTATTTCG
* *
79787627 ATAATTTTGCAAACTGA
63 ATAATTTTACAAACCGA
* * * **
79787644 GGGTA-TTTCGATAATTTTACAAATCGAGGGTATTTTAGTAATTT-TACAATCGACAGTATTTCG
1 GGGTACTTT-GGTAATTTTAC-AATCGACGGTATTTCAGTAATTTATA-AATCGAGGGTATTTCG
*
79787707 ATAATTTTACAAATCGA
63 ATAATTTTACAAACCGA
* * * * * * * *
79787724 GGGTATTTTAGTAATTTTACAATCGACGATATTTCGGTAATTTTACAAATCGAGGATATTTGGGT
1 GGGTACTTTGGTAATTTTACAATCGACGGTATTTCAGTAA-TTTATAAATCGAGGGTATTTCGAT
*
79787789 AATTTTATAAACCG-
65 AATTTTACAAACCGA
**
79787803 GGGATACTTTGGTAATTTTACAA-CTGGGGGTATTTCAGTAATTTGATAAA
1 GGG-TACTTTGGTAATTTTACAATC-GACGGTATTTCAGTAATTT-ATAAA
79787853 CTAAAGTATT
Statistics
Matches: 168, Mismatches: 30, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
79 28 0.17
80 121 0.72
81 17 0.10
82 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (79 bp):
GGGTACTTTGGTAATTTTACAATCGACGGTATTTCAGTAATTTATAAATCGAGGGTATTTCGATA
ATTTTACAAACCGA
Found at i:79787789 original size:27 final size:27
Alignment explanation
Indices: 79787545--79787825 Score: 209
Period size: 27 Copynumber: 10.5 Consensus size: 27
79787535 GAGGGTAAAA
* * * *
79787545 CGGTAATTTTATAAATTGGGGGTACTTT
1 CGGTAATTTTACAAATCGAGGATA-TTT
*
79787573 -GGTAATTTTACAAGTCGAGG-TATTT
1 CGGTAATTTTACAAATCGAGGATATTT
* * * * *
79787598 CAG-AAGTTCTATAAATCAAGGGTATTT
1 CGGTAA-TTTTACAAATCGAGGATATTT
** * *
79787625 CAATAATTTTGCAAA-CTGAGGGTATTT
1 CGGTAATTTTACAAATC-GAGGATATTT
* *
79787652 CGATAATTTTACAAATCGAGGGTATTT
1 CGGTAATTTTACAAATCGAGGATATTT
** *
79787679 TAGTAATTTTAC-AATCGA-CAGTATTT
1 CGGTAATTTTACAAATCGAGGA-TATTT
* *
79787705 CGATAATTTTACAAATCGAGGGTATTT
1 CGGTAATTTTACAAATCGAGGATATTT
** *
79787732 TAGTAATTTTAC-AATCGACGATATTT
1 CGGTAATTTTACAAATCGAGGATATTT
79787758 CGGTAATTTTACAAATCGAGGATATTT
1 CGGTAATTTTACAAATCGAGGATATTT
* * * *
79787785 GGGTAATTTTATAAACCGGGGATACTTT
1 CGGTAATTTTACAAATCGAGGATA-TTT
79787813 -GGTAATTTTACAA
1 CGGTAATTTTACAA
79787826 CTGGGGGTAT
Statistics
Matches: 203, Mismatches: 39, Indels: 23
0.77 0.15 0.09
Matches are distributed among these distances:
25 5 0.02
26 57 0.28
27 135 0.67
28 6 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
CGGTAATTTTACAAATCGAGGATATTT
Found at i:79789482 original size:17 final size:16
Alignment explanation
Indices: 79789461--79789522 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
79789451 TTCATGATCA
79789461 ATTTCAATTCAATTC-C
1 ATTTCAATTC-ATTCTC
*
79789477 ATTTTCATTTCATTCTC
1 A-TTTCAATTCATTCTC
79789494 ATTTCAATTTCATT-TC
1 ATTTCAA-TTCATTCTC
*
79789510 ATATTCAAATCAT
1 AT-TTCAATTCAT
79789523 ATATTGCCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 18 0.46
17 21 0.54
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTCAATTCATTCTC
Found at i:79793188 original size:24 final size:25
Alignment explanation
Indices: 79793150--79793198 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
79793140 ACAATAAGTA
79793150 AATACAAAAAAAAGAAACTCTAATC
1 AATACAAAAAAAAGAAACTCTAATC
79793175 AATAC-AAAAAAAGAAACTCTAATC
1 AATACAAAAAAAAGAAACTCTAATC
79793199 TAAGGTAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.63, C:0.16, G:0.04, T:0.16
Consensus pattern (25 bp):
AATACAAAAAAAAGAAACTCTAATC
Found at i:79795953 original size:16 final size:17
Alignment explanation
Indices: 79795922--79795959 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
79795912 TCACCTTTTT
79795922 TTCTATTTACTTTATTC
1 TTCTATTTACTTTATTC
*
79795939 TTCTATTTA-TTTATTT
1 TTCTATTTACTTTATTC
79795955 TTCTA
1 TTCTA
79795960 ATTCACCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.68
Consensus pattern (17 bp):
TTCTATTTACTTTATTC
Found at i:79801627 original size:29 final size:30
Alignment explanation
Indices: 79801594--79801652 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
79801584 TATGCATGAA
79801594 ATTGCACA-AAA-TCAAAGTTCATGTATAAC
1 ATTGCACATAAACT-AAAGTTCATGTATAAC
79801623 ATTGCACATTAAACTAAAGTTCATGTATAA
1 ATTGCACA-TAAACTAAAGTTCATGTATAA
79801653 TTACGAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 8 0.30
31 18 0.67
32 1 0.04
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (30 bp):
ATTGCACATAAACTAAAGTTCATGTATAAC
Found at i:79802301 original size:18 final size:17
Alignment explanation
Indices: 79802272--79802354 Score: 55
Period size: 18 Copynumber: 4.6 Consensus size: 17
79802262 TATCGTTAAT
79802272 ATTTTAAAATATAATATTA
1 ATTTT-AAATATAA-ATTA
*
79802291 ATTTTAAATAT--TTCTA
1 ATTTTAAATATAAAT-TA
*
79802307 AGTATTT-AATATTAATTA
1 A-T-TTTAAATATAAATTA
79802325 ATTATTAAATATAAATTA
1 ATT-TTAAATATAAATTA
*
79802343 TATTCTAAATAT
1 -ATTTTAAATAT
79802355 TTAACTATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 17
0.71 0.05 0.23
Matches are distributed among these distances:
15 1 0.02
16 4 0.08
17 9 0.17
18 29 0.56
19 9 0.17
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (17 bp):
ATTTTAAATATAAATTA
Found at i:79808248 original size:16 final size:15
Alignment explanation
Indices: 79808222--79808251 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
79808212 ACTAGATCGG
79808222 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
79808237 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
79808252 TCGGCATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:79808974 original size:28 final size:27
Alignment explanation
Indices: 79808942--79809043 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 27
79808932 ACTTGTTATA
*
79808942 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTGATATTGATAT
*
79808970 GGGCTAGGCCCAGTATACTTTGATATTG-TAAG
1 GGGCTAGGCCCAG---A--TTGATATTGAT-AT
*
79809002 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTA-GGCCCAGATTGATATTGATAT
79809030 GGGCTAAGGCCCAG
1 GGGCT-AGGCCCAG
79809044 TTAACTTTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
27 7 0.11
28 27 0.44
29 2 0.03
30 2 0.03
31 1 0.02
32 15 0.25
33 7 0.11
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTGATATTGATAT
Found at i:79811688 original size:3 final size:3
Alignment explanation
Indices: 79811680--79811708 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
79811670 GGATGTTTTG
79811680 ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
79811709 TAGTATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:79813081 original size:30 final size:30
Alignment explanation
Indices: 79813045--79813104 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
79813035 ATGTGACAAC
79813045 TGCCAGGATACGTGGAAGCCACAATAAATT
1 TGCCAGGATACGTGGAAGCCACAATAAATT
79813075 TGCCAGGATACGTGGAAGCCACAATAAATT
1 TGCCAGGATACGTGGAAGCCACAATAAATT
79813105 CATCCTTGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (30 bp):
TGCCAGGATACGTGGAAGCCACAATAAATT
Found at i:79816613 original size:27 final size:26
Alignment explanation
Indices: 79816549--79816660 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
79816539 AGCATGGCTG
** *
79816549 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* * *
79816575 CCAGATATAGATAACCGTGGCAGAACCA
1 CCAGA-ACAGATAA-TGTGGCAGAGCCA
79816603 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
79816630 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
79816657 CCAG
1 CCAG
79816661 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.72
28 14 0.20
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:79816641 original size:54 final size:54
Alignment explanation
Indices: 79816549--79816660 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
79816539 AGCATGGCTG
* * *
79816549 CCAGAACAGATAATGTGATAGAGTCACCAGATATAGATAACCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAACCGTGGCAGAACCA
* ** * *
79816603 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAACCGTGGCAGAACCA
79816657 CCAG
1 CCAG
79816661 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAACCGTGGCAGAACCA
Found at i:79818123 original size:24 final size:24
Alignment explanation
Indices: 79818091--79818164 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
79818081 ACACAGTTCA
* *
79818091 CCCTAATCAGCTACTAAATCCTCT
1 CCCTGATCAGCTCCTAAATCCTCT
79818115 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTGATCAGCTCCTAAATCCTCT
79818139 CCCTTG-TCAGCTCCTAAATCCTCT
1 CCC-TGATCAGCTCCTAAATCCTCT
79818163 CC
1 CC
79818165 AGATAGACTT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 45 0.96
25 2 0.04
ACGTcount: A:0.22, C:0.42, G:0.07, T:0.30
Consensus pattern (24 bp):
CCCTGATCAGCTCCTAAATCCTCT
Found at i:79819213 original size:19 final size:17
Alignment explanation
Indices: 79819183--79819233 Score: 84
Period size: 17 Copynumber: 2.9 Consensus size: 17
79819173 AAAGGAAGGT
79819183 TTTTACAAAGAGAGAATG
1 TTTT-CAAAGAGAGAATG
79819201 TTTTCAAAGAGAGAATG
1 TTTTCAAAGAGAGAATG
*
79819218 TTTTCAAAGGGAGAAT
1 TTTTCAAAGAGAGAAT
79819234 ACTGAACAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 28 0.88
18 4 0.12
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
TTTTCAAAGAGAGAATG
Found at i:79819245 original size:18 final size:18
Alignment explanation
Indices: 79819222--79819257 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
79819212 AGAATGTTTT
79819222 CAAAGGGAGAATACTGAA
1 CAAAGGGAGAATACTGAA
79819240 CAAAGGGAGAATACTGAA
1 CAAAGGGAGAATACTGAA
79819258 AGTAAGATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.28, T:0.11
Consensus pattern (18 bp):
CAAAGGGAGAATACTGAA
Found at i:79819444 original size:8 final size:8
Alignment explanation
Indices: 79819431--79819457 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
79819421 TATTGTGGCT
79819431 TCCACGTA
1 TCCACGTA
79819439 TCCACGTA
1 TCCACGTA
79819447 TCCACGTA
1 TCCACGTA
79819455 TCC
1 TCC
79819458 TGGCATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.41, G:0.11, T:0.26
Consensus pattern (8 bp):
TCCACGTA
Found at i:79824440 original size:26 final size:26
Alignment explanation
Indices: 79824404--79824487 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
79824394 TGATACAAAT
79824404 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
79824430 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
79824456 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
79824482 TGATAA
1 TGATAA
79824488 GAATTTAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:79829127 original size:40 final size:40
Alignment explanation
Indices: 79829105--79829243 Score: 217
Period size: 40 Copynumber: 3.5 Consensus size: 40
79829095 CACTCGAATA
* *
79829105 CCTTTGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
79829145 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
79829185 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
79829225 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
79829244 TTATCATCCA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 92 0.99
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:79830625 original size:72 final size:72
Alignment explanation
Indices: 79830491--79830819 Score: 423
Period size: 72 Copynumber: 4.6 Consensus size: 72
79830481 TTTTATATAC
* * * * * *
79830491 AAAATCAAATATAAACAACTATTGATAAAGCTA-ATTTAGTATAAATAAGTGGAACATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTAAGCATAAATAAGTAGAACATAAATTCA
79830555 ATATCCA
66 ATATCCA
* * *
79830562 AAAACCAAACATAAACAATTATTGATAAAACTAGATTAAGCATAAATAAGCAGACCATAAATTCA
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTAAGCATAAATAAGTAGAACATAAATTCA
79830627 ATATCCA
66 ATATCCA
* * * * * * *
79830634 AAAATCAAACATAAACAACTGTTGATAAAATTAGATTGCA-CATAAACAAGTATAACTTAAATTC
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATT-AAGCATAAATAAGTAGAACATAAATTC
79830698 AATATCCA
65 AATATCCA
* * *
79830706 AAAGCCAAACATAAACAACTGTTGATAAAACTAGATTACA-CCTAAATAAGTAGAACATAAATTC
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTA-AGCATAAATAAGTAGAACATAAATTC
79830770 AATATCCA
65 AATATCCA
* *
79830778 AAAACCAAACATTAACAACTATTGATAAAACTAG-TTTAGCAT
1 AAAACCAAACATAAACAACTATTGATAAAACTAGATTAAGCAT
79830820 TGTTGTTTAG
Statistics
Matches: 222, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
70 1 0.00
71 33 0.15
72 187 0.84
73 1 0.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.25
Consensus pattern (72 bp):
AAAACCAAACATAAACAACTATTGATAAAACTAGATTAAGCATAAATAAGTAGAACATAAATTCA
ATATCCA
Found at i:79831259 original size:21 final size:19
Alignment explanation
Indices: 79831234--79831279 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
79831224 TTTCTTTTTT
79831234 TCATTTCCATAAATGTGAACA
1 TCATTT-CA-AAATGTGAACA
79831255 TCATTT-AAAATGTGAACA
1 TCATTTCAAAATGTGAACA
79831273 TCATTTC
1 TCATTTC
79831280 TCACATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 17 0.71
19 1 0.04
21 6 0.25
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCATTTCAAAATGTGAACA
Found at i:79831267 original size:18 final size:18
Alignment explanation
Indices: 79831244--79831278 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
79831234 TCATTTCCAT
79831244 AAATGTGAACATCATTTA
1 AAATGTGAACATCATTTA
79831262 AAATGTGAACATCATTT
1 AAATGTGAACATCATTT
79831279 CTCACATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (18 bp):
AAATGTGAACATCATTTA
Found at i:79832832 original size:30 final size:31
Alignment explanation
Indices: 79832798--79832861 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
79832788 ATTTATTTTA
*
79832798 TTGTTAATT-TTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTATTATTATTATTTTAGAA-GCAT
79832828 TTGTTAATTATTATTATTATTTTAGAAGCAT
1 TTGTTAATTATTATTATTATTTTAGAAGCAT
79832859 TTG
1 TTG
79832862 CTTGTTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 9 0.29
31 20 0.65
32 2 0.06
ACGTcount: A:0.28, C:0.05, G:0.11, T:0.56
Consensus pattern (31 bp):
TTGTTAATTATTATTATTATTTTAGAAGCAT
Found at i:79834252 original size:22 final size:22
Alignment explanation
Indices: 79834200--79834253 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
79834190 ATTGAATCAA
* *
79834200 AGAAAGGAAAATAAGCTTTTGG
1 AGAAAAGAAAATAAGCTTTTGC
* *
79834222 AGAAGAGAAAATGAGCTTTTGC
1 AGAAAAGAAAATAAGCTTTTGC
*
79834244 ATAAAAGAAA
1 AGAAAAGAAA
79834254 GCAGTCGATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.50, C:0.06, G:0.24, T:0.20
Consensus pattern (22 bp):
AGAAAAGAAAATAAGCTTTTGC
Found at i:79837393 original size:24 final size:24
Alignment explanation
Indices: 79837366--79837421 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
79837356 TAAAAGCAAC
*
79837366 ATAGAATACGTCGTAAAGGCGTTT
1 ATAGAATACGTCGTAAAGGCATTT
*
79837390 ATAGAATTCGTCGTAAAGGCATTT
1 ATAGAATACGTCGTAAAGGCATTT
79837414 ATAGAATA
1 ATAGAATA
79837422 TGTCAAAAAG
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:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAGAATACGTCGTAAAGGCATTT
Found at i:79837456 original size:23 final size:23
Alignment explanation
Indices: 79837432--79837514 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 23
79837422 TGTCAAAAAG
* * *
79837432 GCCAAACAGAATACGCCACGCAG
1 GCCAAACAAAATACGCCACACAA
*
79837455 GCCATACAAAATACGCCACACAA
1 GCCAAACAAAATACGCCACACAA
* *
79837478 GCCAAACAAAATATGCCACAAAA
1 GCCAAACAAAATACGCCACACAA
*
79837501 GCCAAACAGAATAC
1 GCCAAACAAAATAC
79837515 TCCATAAAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.48, C:0.31, G:0.13, T:0.07
Consensus pattern (23 bp):
GCCAAACAAAATACGCCACACAA
Found at i:79839868 original size:40 final size:41
Alignment explanation
Indices: 79839819--79839899 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 41
79839809 TTTTTTTAAA
79839819 AAAATATAATTTTTATA-TCTTTTTAATAGTTTTT-AAATTTT
1 AAAATATAATTTTTATACT-TTTTTAA-AGTTTTTAAAATTTT
*
79839860 AAAA-ATAATTTTTATACTTTTTTAAATTTTTTAAAATTTT
1 AAAATATAATTTTTATACTTTTTTAAAGTTTTTAAAATTTT
79839900 GAAAGTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
39 6 0.16
40 26 0.70
41 5 0.14
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (41 bp):
AAAATATAATTTTTATACTTTTTTAAAGTTTTTAAAATTTT
Found at i:79849587 original size:19 final size:19
Alignment explanation
Indices: 79849563--79849603 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
79849553 ATTTAATCTT
79849563 AATTCTAATAAAATTATAA
1 AATTCTAATAAAATTATAA
* *
79849582 AATTCTCATAAAATTTTAA
1 AATTCTAATAAAATTATAA
79849601 AAT
1 AAT
79849604 ATAAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTCTAATAAAATTATAA
Found at i:79854659 original size:17 final size:17
Alignment explanation
Indices: 79854637--79854675 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
79854627 TATTGAGGTT
79854637 AAATATAA-ATATTAATA
1 AAATATAATATA-TAATA
*
79854654 AAATATAATATATATTA
1 AAATATAATATATAATA
79854671 AAATA
1 AAATA
79854676 ATTTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATATATAATA
Found at i:79857237 original size:12 final size:13
Alignment explanation
Indices: 79857213--79857237 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79857203 TTTTTCACAT
79857213 CACTTTTCAAAAA
1 CACTTTTCAAAAA
79857226 CACTTTTCAAAA
1 CACTTTTCAAAA
79857238 GCATTGCCAA
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:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (13 bp):
CACTTTTCAAAAA
Found at i:79862362 original size:2 final size:2
Alignment explanation
Indices: 79862355--79862381 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
79862345 CTTACACCCT
79862355 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
79862382 TAATGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:79863046 original size:41 final size:42
Alignment explanation
Indices: 79862979--79863083 Score: 151
Period size: 41 Copynumber: 2.5 Consensus size: 42
79862969 AAATTAGGTT
79862979 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
1 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
* *
79863021 TAATATCAT-AAAATTAAAATGGGATGAAATGATTAAGTAAA
1 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
* *
79863062 TAATAATGATAATAA-TAAAATA
1 TAAT-ATCATAAAAATTAAAATA
79863084 TAAAATAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 34 0.61
42 19 0.34
43 3 0.05
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (42 bp):
TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
Found at i:79869182 original size:18 final size:18
Alignment explanation
Indices: 79869159--79869233 Score: 123
Period size: 18 Copynumber: 4.2 Consensus size: 18
79869149 CCCAACTACT
*
79869159 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
79869177 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
79869195 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
79869213 GTTTACGTGAATAGCACC
1 GTATACGTGAATAGTACC
79869231 GTA
1 GTA
79869234 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:79869818 original size:22 final size:21
Alignment explanation
Indices: 79869766--79869819 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
79869756 TTGACCTTTC
*
79869766 CAAGGGATGGGTAGGTATGGA
1 CAAGGGATGGGAAGGTATGGA
* * * *
79869787 AAATGTATGGGCAAGGTATGGG
1 CAAGGGATGGG-AAGGTATGGA
79869809 CAAGGGATGGG
1 CAAGGGATGGG
79869820 TATATTCTAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.30, C:0.06, G:0.46, T:0.19
Consensus pattern (21 bp):
CAAGGGATGGGAAGGTATGGA
Found at i:79873692 original size:17 final size:17
Alignment explanation
Indices: 79873667--79873704 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
79873657 GTTATGTGAA
79873667 AAATCAAA-TAAAAAATT
1 AAATCAAATTAAAAAA-T
*
79873684 AAATTAAATTAAAAAAT
1 AAATCAAATTAAAAAAT
79873701 AAAT
1 AAAT
79873705 AAGCATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATCAAATTAAAAAAT
Found at i:79874196 original size:29 final size:30
Alignment explanation
Indices: 79874164--79874227 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
79874154 ATAGTTCAAA
*
79874164 TACTACATT-AGATATTT-TCAAAGTACAAG
1 TACTACATTGA-ACATTTATCAAAGTACAAG
* *
79874193 TACTACATTGAACATTTATGAAAGTACATG
1 TACTACATTGAACATTTATCAAAGTACAAG
79874223 TACTA
1 TACTA
79874228 AATGTGATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (30 bp):
TACTACATTGAACATTTATCAAAGTACAAG
Found at i:79879444 original size:27 final size:28
Alignment explanation
Indices: 79879360--79879457 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
79879350 CATGAGATTG
* * * *
79879360 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
79879389 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
79879417 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
79879444 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
79879458 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:79879468 original size:27 final size:27
Alignment explanation
Indices: 79879388--79879470 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
79879378 TAAATTGTAC
* *
79879388 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
79879416 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
79879443 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
79879470 A
1 A
79879471 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:79879471 original size:29 final size:27
Alignment explanation
Indices: 79879360--79879471 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
79879350 CATGAGATTG
** * *
79879360 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
79879389 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
79879417 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
79879444 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
79879472 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:79887536 original size:27 final size:28
Alignment explanation
Indices: 79887452--79887549 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
79887442 CATGAGATTG
* * * *
79887452 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
79887481 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
79887509 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
79887536 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
79887550 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:79887560 original size:27 final size:27
Alignment explanation
Indices: 79887480--79887562 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
79887470 TAAATTGTAC
* *
79887480 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
79887508 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
79887535 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
79887562 A
1 A
79887563 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:79887563 original size:29 final size:27
Alignment explanation
Indices: 79887452--79887563 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
79887442 CATGAGATTG
** * *
79887452 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
79887481 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
79887509 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
79887536 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
79887564 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:79893293 original size:14 final size:14
Alignment explanation
Indices: 79893274--79893300 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
79893264 TATTCCTAAA
79893274 TTGTTTTATAAAGG
1 TTGTTTTATAAAGG
79893288 TTGTTTTATAAAG
1 TTGTTTTATAAAG
79893301 AATTACCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (14 bp):
TTGTTTTATAAAGG
Found at i:79894244 original size:9 final size:9
Alignment explanation
Indices: 79894219--79894253 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
79894209 AGAAGAGACT
79894219 GAGAGAGA-
1 GAGAGAGAG
79894227 GAGAGAGAG
1 GAGAGAGAG
*
79894236 GACAGAGAG
1 GAGAGAGAG
79894245 GAGAGAGAG
1 GAGAGAGAG
79894254 CATTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.46, C:0.03, G:0.51, T:0.00
Consensus pattern (9 bp):
GAGAGAGAG
Found at i:79894903 original size:3 final size:3
Alignment explanation
Indices: 79894897--79894979 Score: 166
Period size: 3 Copynumber: 27.7 Consensus size: 3
79894887 TATTTATTAT
79894897 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
79894945 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
79894980 TTATTATCAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:79895070 original size:38 final size:39
Alignment explanation
Indices: 79895027--79895110 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
79895017 TATTCTTTTC
* * *
79895027 TTTATTTGCTTATTTTC-AATTTTTTT-TATTTTTTTGTT
1 TTTATTTGCTTATTTACTAATTTTTTTATAATTTGTTG-T
* *
79895065 TTTATTTGTTTATTTACTTATTTTTTTATAATTTGTTGT
1 TTTATTTGCTTATTTACTAATTTTTTTATAATTTGTTGT
79895104 TTTATTT
1 TTTATTT
79895111 TTATTCTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 15 0.38
39 16 0.41
40 8 0.21
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (39 bp):
TTTATTTGCTTATTTACTAATTTTTTTATAATTTGTTGT
Found at i:79895170 original size:38 final size:38
Alignment explanation
Indices: 79895103--79895178 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
79895093 TAATTTGTTG
* *
79895103 TTTTATTTTTATTCTATTTCTTTTATTATTTATCTTAT
1 TTTTATTTTTATTCTACTTCTTTTATTATTTATATTAT
*
79895141 TTTTAATTTTT-TTCT-CTTCTTATTGTTATTTATATTAT
1 TTTT-ATTTTTATTCTACTTCTT-TTATTATTTATATTAT
79895179 CGCATTCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 5 0.15
38 22 0.67
39 6 0.18
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.72
Consensus pattern (38 bp):
TTTTATTTTTATTCTACTTCTTTTATTATTTATATTAT
Found at i:79901473 original size:19 final size:19
Alignment explanation
Indices: 79901449--79901487 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
79901439 CATATGAAGT
*
79901449 AGATTTCCTGGTGATGGAC
1 AGATTTCCTGCTGATGGAC
79901468 AGATTTCCTGCTGATGGAC
1 AGATTTCCTGCTGATGGAC
79901487 A
1 A
79901488 TTAAGCTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (19 bp):
AGATTTCCTGCTGATGGAC
Found at i:79901943 original size:58 final size:58
Alignment explanation
Indices: 79901863--79901978 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 58
79901853 TTCTGATGGA
* * *
79901863 TAAACGAAGAAAAAGTTAGAGAAGAAGTAGAAAAGGAGAAGAGCACGATTAAGTGAAG
1 TAAAAGAAGAAAAAGTTAGAGAAGAAGCAGAAAAGGAGAAGAGCACGATTAAGCGAAG
* * * *
79901921 TAAAAGAAGAAAGAGTTGGAGAAGAAGCAGAAAATGAGAAGAGTACGATTAAGCGAAG
1 TAAAAGAAGAAAAAGTTAGAGAAGAAGCAGAAAAGGAGAAGAGCACGATTAAGCGAAG
79901979 AAGAAGTCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.53, C:0.05, G:0.30, T:0.12
Consensus pattern (58 bp):
TAAAAGAAGAAAAAGTTAGAGAAGAAGCAGAAAAGGAGAAGAGCACGATTAAGCGAAG
Found at i:79906857 original size:44 final size:44
Alignment explanation
Indices: 79906762--79906860 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
79906752 AGTTATTATG
* * *
79906762 GCGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCC
1 GCGAATCTTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGAC
* * ** * * *
79906806 ACTAATCTTATCTCCCTAAAGTTACAGTAGAGTATATTGAGGAT
1 GCGAATCTTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGAC
79906850 GCGAATCTTAT
1 GCGAATCTTAT
79906861 TTCCTTGAAG
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (44 bp):
GCGAATCTTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGAC
Found at i:79907196 original size:140 final size:133
Alignment explanation
Indices: 79906997--79907353 Score: 387
Period size: 140 Copynumber: 2.6 Consensus size: 133
79906987 CTAAAACCAT
* **
79906997 AAACCTTATCTCCCTGAAGTTATAATGGAGCAGGTTGAAACGACAAGTCTTATCTCCCTGAAGTT
1 AAACCTTATCTCCCTGAAGTTATAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTT
* * * *
79907062 GCAATGGAGCAGA-CTGAAGATAGCGAATCTTATTTCCCTGAAGTT-ACAGTAGAACAGATTAAA
66 GCAGTGGAGCAGATC-GAAGATAGCAAATCTTATCTCCCTAAAGTTGA-AGTAGAACAGA-TAAA
*
79907125 GCTGCAAATTAC
128 -AT-C----TAC
* * * *
79907137 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTA-TAGATCTTATCTCCCTGAAGG
1 AAACCTTATCTCCCTGAAGTTATAGTGGAGCAGGTTGAAATTACAAG-TCTTATCTCCCTGAAGT
* * * * *
79907201 TGCAGTGGAGTAGATCGAATATAGCAAATCTTATCTCTCTAAAGTTGAGGTAGACCAGATAAAAT
65 TGCAGTGGAGCAGATCGAAGATAGCAAATCTTATCTCCCTAAAGTTGAAGTAGAACAGATAAAAT
*
79907266 CTAT
130 CTAC
* * * *
79907270 AAACCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCGGAAGTT
1 AAACCTTATCTCCCTGAAGTTATAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTT
* *
79907335 GCAGTGGAGTAAATCGAAG
66 GCAGTGGAGCAGATCGAAG
79907354 CGACAATTTC
Statistics
Matches: 185, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
133 73 0.39
134 2 0.01
137 1 0.01
138 1 0.01
139 6 0.03
140 100 0.54
141 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (133 bp):
AAACCTTATCTCCCTGAAGTTATAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATCGAAGATAGCAAATCTTATCTCCCTAAAGTTGAAGTAGAACAGATAAAATC
TAC
Found at i:79907344 original size:44 final size:44
Alignment explanation
Indices: 79907130--79907345 Score: 195
Period size: 44 Copynumber: 4.9 Consensus size: 44
79907120 TTAAAGCTGC
* *
79907130 AAATTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTG
1 AAATTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTG
* * * * *
79907174 AAATTATAGATCTTATCTCCCTGAAGGTGCAGTGGAGTAGATCG
1 AAATTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTG
* * * ** * *
79907218 -AATATAGCAAATCTTATCTCTCTAAAGTTG-AGGTAGACCA-GATA
1 AAAT-TA-CAAATCTTATCTCCCTGAAGTTGCA-GTGGAGTAGGTTG
* * *
79907262 AAATCTATAAACCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTG
1 AAAT-TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTG
* * *
79907307 AAGTTACAAGTCTTATCTCCCGGAAGTTGCAGTGGAGTA
1 AAATTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTA
79907346 AATCGAAGCG
Statistics
Matches: 131, Mismatches: 35, Indels: 12
0.74 0.20 0.07
Matches are distributed among these distances:
43 3 0.02
44 94 0.72
45 34 0.26
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (44 bp):
AAATTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTG
Found at i:79907571 original size:21 final size:18
Alignment explanation
Indices: 79907546--79907590 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
79907536 TGGCCGAAAT
79907546 AATAAATAAAACCCAAAACCA
1 AATAAATAAAA-CCAAAA--A
*
79907567 AATAAGTAAAACCAAAAA
1 AATAAATAAAACCAAAAA
79907585 AATAAA
1 AATAAA
79907591 AAGTCCAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 6 0.27
20 6 0.27
21 10 0.45
ACGTcount: A:0.71, C:0.16, G:0.02, T:0.11
Consensus pattern (18 bp):
AATAAATAAAACCAAAAA
Found at i:79908672 original size:23 final size:22
Alignment explanation
Indices: 79908627--79908672 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
79908617 CAACCAATCC
*
79908627 AATTCAACATATTTTCAAGATA
1 AATTCAACATATTTTCAAAATA
79908649 AATTCATACATATTTAT-AAAATA
1 AATTCA-ACATATTT-TCAAAATA
79908672 A
1 A
79908673 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (22 bp):
AATTCAACATATTTTCAAAATA
Found at i:79911073 original size:918 final size:917
Alignment explanation
Indices: 79909263--79911278 Score: 3597
Period size: 918 Copynumber: 2.2 Consensus size: 917
79909253 AACCTTGCAG
79909263 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAAC-ACAATTACTCTAATGAGCTTGGATCTGACT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGACT
*
79909327 TACCAGTCCAGGCTAAATTCAGACCCTAATTCGGATAACCCGTCCGGGCTAAATCCATTTTCCAC
66 TACCAGTCCAGGCTAAATTCAGACCCTAATTCGGATTACCCGTCCGGGCTAAATCCATTTTCCAC
*
79909392 ATATTCTTCGGGAGGGCTATATCAGGATAAGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCA
131 ATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCA
* * * *
79909457 ATTTCTTTTCACAGATCCATCGAATTTTCCTTTTATTCAACCGAGATTTCTTCCCCTTTTATCAA
196 ATTCCTTTTCAAAGATCCATCAAATTTTCCTTTCATTCAACCGAGATTTCTTCCCCTTTTATCAA
*
79909522 ATATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATCAAAAACATG
261 ATATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATAAAAAACATG
*
79909587 CATTTCAAGCATTTAAGAATATAATTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACA
326 CATTTCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACA
*
79909652 AAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTCTGG
391 AAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTATGG
79909717 ATCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATA
456 ATCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATA
*
79909782 ATTCAACTATTTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATTTATCA
521 ATTCAACTATTTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCA
*
79909847 ATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAGGTTAGTACAAAAATTTCCATG
586 ATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATG
79909912 TACCAATAATATATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTT
651 TACCAATAATATATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTT
*
79909977 TTTCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGT
716 TTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGT
* *
79910042 AGATTTCCTGGTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACTCTCG
781 ACATTTCCTGGTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACCCTCG
* * *
79910107 CTAACCTCAACCGTGCAGTGGGATTACCAATCCAGGCTAAATCCCCTGCAATATAAACTTATAGA
846 CGAACCTCAACCGTGCAGCGGGATTACCAATCCAGGCTAAATCCCCTGCAATATAAACTCATAGA
79910172 GTATTGT
911 GTATTGT
* * * * *
79910179 CGTGATTACCAGTCTAGGCCAAATCCCCTGCAACGATAATTACTCTAATGAGCTTGTATCTGACT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGACT
* * * *
79910244 TACCAGTCCAGGCTAAATTCAGATCCTAATTCGGATTACCCGTCCAGGCGAAATCCATTTTCTAC
66 TACCAGTCCAGGCTAAATTCAGACCCTAATTCGGATTACCCGTCCGGGCTAAATCCATTTTCCAC
*
79910309 ATATTCTTCGAGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCA
131 ATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCA
* *
79910374 ATTCCTTTTCAAAGATCCATCAAATTTTCCTTTCATTCAACTGGGATTTCTTCCCCTTTTATCAA
196 ATTCCTTTTCAAAGATCCATCAAATTTTCCTTTCATTCAACCGAGATTTCTTCCCCTTTTATCAA
*
79910439 ATATATCAATGTTTCATAAATTTCTATATAATGAACATTCAAATCATATTCATATAAAAAAACAT
261 ATATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATAT-AAAAAACAT
79910504 GCATTTCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAAC
325 GCATTTCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAAC
79910569 AAAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTATG
390 AAAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTATG
79910634 GATCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTAT
455 GATCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTAT
*
79910699 AATTCAACTATTTATACTTACCTCATATTTTCAATACAATACAATACAATAAACATTCATATATC
520 AATTCAACTATTTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATC
*
79910764 CATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCAT
585 AATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCAT
*
79910829 GTACCAATAATATATACCATGATTGATGAGCTCATCAATACCATTATTTCCATTTCCTTGTTATT
650 GTACCAATAATATATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATT
*
79910894 TTTCCATATTTATGCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTG
715 TTTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTG
*
79910959 TACATTTCC-GAGTCCGTGAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACCC-
780 TACATTTCCTG-GTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACCCT
* * * *
79911022 CTGCGAACCTCAACCTTGCAGCGGGATTACTAGTCGAGGCTAAATCCCCTGCAATATAAACTCAT
844 C-GCGAACCTCAACCGTGCAGCGGGATTACCAATCCAGGCTAAATCCCCTGCAATATAAACTCAT
79911087 AGAGTATTGT
908 AGAGTATTGT
79911097 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGACT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGACT
* *
79911162 TGCCAGTCTAGGCTAAATTCAGACCCTAATTCGGATTACCCGTCCGGGCTAAATCCATTTTCCAC
66 TACCAGTCCAGGCTAAATTCAGACCCTAATTCGGATTACCCGTCCGGGCTAAATCCATTTTCCAC
* *
79911227 ATATTCTTCGGGAGGGCTATATTAGGATAGGATCACCCGTCCAGGCTAGATC
131 ATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATC
79911279 AATTTCTATT
Statistics
Matches: 1043, Mismatches: 53, Indels: 6
0.95 0.05 0.01
Matches are distributed among these distances:
916 31 0.03
917 266 0.26
918 746 0.72
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (917 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGCAACGACAATTACTCTAATGAGCTTGGATCTGACT
TACCAGTCCAGGCTAAATTCAGACCCTAATTCGGATTACCCGTCCGGGCTAAATCCATTTTCCAC
ATATTCTTCGGGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGATCCTTTTTACCGTCA
ATTCCTTTTCAAAGATCCATCAAATTTTCCTTTCATTCAACCGAGATTTCTTCCCCTTTTATCAA
ATATATCAATGTTTCATAAATTTCCATATAATGAACATTCAAATCATATTCATATAAAAAACATG
CATTTCAAGCATTTAAGAATATAAGTCAAGTTACATGAACTTACCTTGATACTTGTTTGTAAACA
AAAAAAATCTACTAATCCTGAACTTTTTCCTTTCCTCGATCTAGCTTCGTATTTGAATCTTATGG
ATCTAAATAAATAAATTTAATTATCAATTTAATACATTTCATGTTCATATGCAACATTCTCTATA
ATTCAACTATTTATACTTACCTAATATTTTCAATACAATACAATACAATAAACATTCATATATCA
ATTCAATGCATTATTACCCTAATATGCACAAACTCAACATTCAAGTTAGTACAAAAATTTCCATG
TACCAATAATATATACCATGATTGATGAGCTCATCAATACCATGATTTCCATTTCCTTGTTATTT
TTCCATATTTATCCCGTTGAATTTATCGGAATTTCGATGGATTTTCAGAGGTACACTTTTAGTGT
ACATTTCCTGGTCCGTCAATTCTTATTCATGTGCGCACATTTCCATTTCAGAGAGCACACCCTCG
CGAACCTCAACCGTGCAGCGGGATTACCAATCCAGGCTAAATCCCCTGCAATATAAACTCATAGA
GTATTGT
Found at i:79912539 original size:3 final size:3
Alignment explanation
Indices: 79912531--79912564 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
79912521 CTCTACTTAT
*
79912531 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
79912565 CATTTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:79912721 original size:16 final size:16
Alignment explanation
Indices: 79912700--79912743 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
79912690 ATTATTTATC
79912700 TTATTTTTATTTCTTA
1 TTATTTTTATTTCTTA
*
79912716 TTATTTTT-TGCTCTTA
1 TTATTTTTAT-TTCTTA
*
79912732 TTATTGTTATTT
1 TTATTTTTATTT
79912744 ATATTATCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.73
Consensus pattern (16 bp):
TTATTTTTATTTCTTA
Found at i:79913725 original size:13 final size:13
Alignment explanation
Indices: 79913702--79913752 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
79913692 AGTTCTTCAT
*
79913702 TGCTTTTGAAAAG
1 TGCTTTGGAAAAG
*
79913715 TGCTGTGGAAAAG
1 TGCTTTGGAAAAG
* *
79913728 TGCTTTTGAGAAG
1 TGCTTTGGAAAAG
79913741 TGCTTTGGAAAA
1 TGCTTTGGAAAA
79913753 ATTTAAGTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.33
Consensus pattern (13 bp):
TGCTTTGGAAAAG
Found at i:79913741 original size:26 final size:26
Alignment explanation
Indices: 79913702--79913752 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
79913692 AGTTCTTCAT
79913702 TGCTTTTGAAAAGTGCTGTGGAAAAG
1 TGCTTTTGAAAAGTGCTGTGGAAAAG
* *
79913728 TGCTTTTGAGAAGTGCTTTGGAAAA
1 TGCTTTTGAAAAGTGCTGTGGAAAA
79913753 ATTTAAGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.33
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGCTGTGGAAAAG
Found at i:79924482 original size:30 final size:28
Alignment explanation
Indices: 79924418--79924482 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
79924408 TACCACATTG
*
79924418 GACATTTTCAAAGTACAATTACAATATT
1 GACATTTTAAAAGTACAATTACAATATT
*
79924446 GAACATTTATAAAAGTACATTTACTAA-ATGT
1 G-ACATTT-TAAAAGTACAATTAC-AATAT-T
79924477 GACATT
1 GACATT
79924483 ATCTCGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 1 0.03
29 6 0.19
30 20 0.65
31 4 0.13
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.35
Consensus pattern (28 bp):
GACATTTTAAAAGTACAATTACAATATT
Found at i:79937878 original size:40 final size:40
Alignment explanation
Indices: 79937795--79938017 Score: 168
Period size: 40 Copynumber: 5.6 Consensus size: 40
79937785 TTGAATGCTG
* * * * *
79937795 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* *
79937835 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
** * *
79937875 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * **
79937915 TCC-GAGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGA-CTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * * *
79937955 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
79937994 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
79938018 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
39 36 0.23
40 110 0.70
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:79937932 original size:80 final size:79
Alignment explanation
Indices: 79937795--79938019 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 79
79937785 TTGAATGCTG
* * * * * * * *
79937795 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCG-GACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGAG-CTAAG-TCCCGAAGGCAT
79937858 TTGTGCGAGATACTAAA
63 TTGTGCGAGATACTAAA
* * * *
79937875 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGAGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGAGCTAAGTCCCGAAGGCATTT
* **
79937940 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
79937955 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGAGCTAAGTCCCGAAGGCATTTG
79938020 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 35 0.29
80 82 0.67
81 5 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGAGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:79947989 original size:69 final size:70
Alignment explanation
Indices: 79947857--79947989 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
79947847 TAGTTTATTA
* * * * * *
79947857 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCGAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
79947922 CTTAG
66 CTTAG
79947927 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
79947990 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 34 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:79949839 original size:48 final size:48
Alignment explanation
Indices: 79949768--79950007 Score: 399
Period size: 48 Copynumber: 5.0 Consensus size: 48
79949758 CACAAGATTA
79949768 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
79949816 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
79949864 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
*
79949914 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
79949962 AGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
79950008 GGAGGTGTGG
Statistics
Matches: 182, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
48 135 0.74
49 4 0.02
50 43 0.24
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:79950023 original size:98 final size:96
Alignment explanation
Indices: 79949768--79950007 Score: 399
Period size: 98 Copynumber: 2.5 Consensus size: 96
79949758 CACAAGATTA
79949768 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
79949833 AAAGCCGAATGGCTAATGTGAAATATGTATG
66 AAAGCCGAATGGCTAATGTGAAATATGTATG
* *
79949864 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTG
*
79949929 GTAAAGCCGAATGGCTAGTGTGAAATATGTATG
64 GTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
79949962 AGATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
79950008 GGAGGTGTGG
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
96 41 0.31
97 4 0.03
98 88 0.66
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (96 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:79950198 original size:37 final size:37
Alignment explanation
Indices: 79950143--79950257 Score: 221
Period size: 37 Copynumber: 3.1 Consensus size: 37
79950133 ACATGAAACT
79950143 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
*
79950180 TGGAAATATATTCTGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
79950217 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
79950254 TGGA
1 TGGA
79950258 GATTTCATCT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (37 bp):
TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
Found at i:79953599 original size:40 final size:40
Alignment explanation
Indices: 79953555--79953656 Score: 186
Period size: 40 Copynumber: 2.5 Consensus size: 40
79953545 AACCAAGTAG
*
79953555 CTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
*
79953595 CTTCGGGACTTAGCCTGGTTATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
79953635 CTTCGGGACTTAGCCCGGTTAT
1 CTTCGGGACTTAGCCCGGTTAT
79953657 CATCCGAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
Found at i:79960661 original size:40 final size:40
Alignment explanation
Indices: 79960606--79960787 Score: 319
Period size: 40 Copynumber: 4.5 Consensus size: 40
79960596 AACCAAGTAG
* *
79960606 CTTCGAGATTTAGCCCGGTTATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
*
79960646 CTTCGGGACTTAGCCCGGTTATAGTAACTCGGACAAATGC
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
79960686 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
79960726 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
* *
79960766 CTTTGGGACTTTGCCCGGTTAT
1 CTTCGGGACTTAGCCCGGTTAT
79960788 CATCCGAATA
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 136 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
Found at i:79963132 original size:28 final size:28
Alignment explanation
Indices: 79963092--79963198 Score: 135
Period size: 28 Copynumber: 3.8 Consensus size: 28
79963082 GCAATCAAAT
* *
79963092 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
79963120 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
79963148 ATGGCACTTAGTGTGC-AAGATATTGAGA
1 ATGGCACTTAGTGTACGAA-ATATTGAGA
* * * *
79963176 ATGACACTTCGTGTCCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
79963199 CGAATGATTC
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 67 0.94
29 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:79963461 original size:41 final size:40
Alignment explanation
Indices: 79963371--79963518 Score: 136
Period size: 41 Copynumber: 3.6 Consensus size: 40
79963361 TGGGCTTCGG
* *
79963371 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTAA
1 GCCTAGCAGGC-AAAATGCCGGTG-AATGAT-TCGGGCTTAAA
* *
79963414 GCCTAGCAGGCAAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCAAAATGCCGGTGAATGA-TTCGGGCTTAAA
* **** *
79963455 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCAAAATGCCGGTGAATG-ATTCGGGCTTAAA
* *
79963495 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCAAAATGCCGGTGA
79963519 TTTGATAAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
40 30 0.35
41 32 0.38
42 12 0.14
43 11 0.13
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (40 bp):
GCCTAGCAGGCAAAATGCCGGTGAATGATTCGGGCTTAAA
Found at i:79963519 original size:40 final size:41
Alignment explanation
Indices: 79963371--79963518 Score: 149
Period size: 40 Copynumber: 3.6 Consensus size: 41
79963361 TGGGCTTCGG
79963371 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTT-AA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGG-TTTAAA
* * * **
79963414 GCCTAGCAGGCAAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
* ***
79963455 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
*
79963495 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
79963519 TTTGATAAAA
Statistics
Matches: 83, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
40 33 0.40
41 27 0.33
42 11 0.13
43 12 0.14
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGTTTAAA
Found at i:79965483 original size:18 final size:18
Alignment explanation
Indices: 79965457--79965491 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79965447 TCGTAACATT
*
79965457 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
79965475 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
79965492 CATCCTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:79966176 original size:26 final size:26
Alignment explanation
Indices: 79966118--79966227 Score: 179
Period size: 26 Copynumber: 4.3 Consensus size: 26
79966108 GATAAATTGT
*
79966118 GCCCTTTT-GATAAACTGGGGCA-AA
1 GCCCTTTTCAATAAACTGGGGCATAA
*
79966142 GCCCTTTTCATTAAACTGGGGCATAA
1 GCCCTTTTCAATAAACTGGGGCATAA
79966168 GCCCTTTTCAATAAACTGGGGCATAA
1 GCCCTTTTCAATAAACTGGGGCATAA
*
79966194 GCCCTTTTCAATAAACTAGGGCATAA
1 GCCCTTTTCAATAAACTGGGGCATAA
79966220 GCCCTTTT
1 GCCCTTTT
79966228 GCACTTCCTC
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
24 8 0.10
25 12 0.15
26 60 0.75
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (26 bp):
GCCCTTTTCAATAAACTGGGGCATAA
Found at i:79966308 original size:11 final size:11
Alignment explanation
Indices: 79966277--79966352 Score: 56
Period size: 11 Copynumber: 7.5 Consensus size: 11
79966267 TTATGAATAC
79966277 ATCATGTGCAT
1 ATCATGTGCAT
* *
79966288 TTCA--TACAT
1 ATCATGTGCAT
79966297 ATCATGTGCAT
1 ATCATGTGCAT
*
79966308 ATCA--TACAT
1 ATCATGTGCAT
*
79966317 GTCATGTGCAT
1 ATCATGTGCAT
*
79966328 ATCA--TACAT
1 ATCATGTGCAT
*
79966337 GTCATGTGCAT
1 ATCATGTGCAT
79966348 ATCAT
1 ATCAT
79966353 ATCAACCATG
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
9 21 0.45
11 26 0.55
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:79966362 original size:25 final size:24
Alignment explanation
Indices: 79966305--79966363 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 24
79966295 ATATCATGTG
79966305 CATATCATACATGTCATGTGCATAT
1 CATATCA-ACATGTCATGTGCATAT
79966330 C--AT--ACATGTCATGTGCATAT
1 CATATCAACATGTCATGTGCATAT
79966350 CATATCAACCATGT
1 CATATCAA-CATGT
79966364 ATATCATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
20 18 0.62
22 2 0.07
23 2 0.07
24 1 0.03
25 6 0.21
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (24 bp):
CATATCAACATGTCATGTGCATAT
Found at i:79966363 original size:20 final size:20
Alignment explanation
Indices: 79966277--79966353 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
79966267 TTATGAATAC
*
79966277 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
79966297 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
79966317 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
79966337 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
79966354 TCAACCATGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:79966363 original size:40 final size:40
Alignment explanation
Indices: 79966279--79966371 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
79966269 ATGAATACAT
* **
79966279 CATGTGCATTTCATACATATCATGTGCATATCATACATGT
1 CATGTGCATATCATACATATCATGTGCATATCATACATAC
*
79966319 CATGTGCATATCATACATGTCATGTGCATATCATATCA-AC
1 CATGTGCATATCATACATATCATGTGCATATCATA-CATAC
79966359 CATGT--ATATCATA
1 CATGTGCATATCATA
79966372 TCCCATGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
38 8 0.17
40 38 0.79
41 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (40 bp):
CATGTGCATATCATACATATCATGTGCATATCATACATAC
Found at i:79966379 original size:16 final size:17
Alignment explanation
Indices: 79966346--79966381 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
79966336 TGTCATGTGC
79966346 ATATCATATCAACCATGT
1 ATATCATATC-ACCATGT
79966364 ATATCATATC-CCATGT
1 ATATCATATCACCATGT
79966380 AT
1 AT
79966382 CAAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATCATATCACCATGT
Found at i:79972085 original size:18 final size:18
Alignment explanation
Indices: 79972059--79972093 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79972049 TCGTAACGTT
*
79972059 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
79972077 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
79972094 CGTCCTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:79972783 original size:26 final size:26
Alignment explanation
Indices: 79972700--79972834 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
79972690 CTGGAGGCCT
79972700 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
79972724 AGCCCTTTT-GATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
79972748 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
79972774 AGCCCTTTTCAATAAATTGGGACATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
79972800 AGCCCCTTTCAATAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
79972826 AGCCCTTTT
1 AGCCCTTTT
79972835 GCACTTCCTC
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
23 7 0.07
24 24 0.24
25 13 0.13
26 57 0.56
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:79972909 original size:20 final size:20
Alignment explanation
Indices: 79972884--79972960 Score: 118
Period size: 20 Copynumber: 3.9 Consensus size: 20
79972874 TTATGAATAC
*
79972884 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
79972904 ATCATGTCCATATCATACAT
1 ATCATGTGCATATCATACAT
*
79972924 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
79972944 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
79972961 TCAACAATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:79972970 original size:25 final size:24
Alignment explanation
Indices: 79972912--79972966 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 24
79972902 ATATCATGTC
79972912 CATATCATACATGTCATGTGCATAT
1 CATATCA-ACATGTCATGTGCATAT
79972937 C--AT--ACATGTCATGTGCATAT
1 CATATCAACATGTCATGTGCATAT
79972957 CATATCAACA
1 CATATCAACA
79972967 ATGTATATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
20 18 0.69
22 2 0.08
23 2 0.08
24 3 0.12
25 1 0.04
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (24 bp):
CATATCAACATGTCATGTGCATAT
Found at i:79973052 original size:25 final size:25
Alignment explanation
Indices: 79973006--79973053 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
79972996 ATAAGTAAAC
* * * *
79973006 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
79973031 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
79973054 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:79978530 original size:15 final size:17
Alignment explanation
Indices: 79978500--79978531 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
79978490 AGCAATATCT
79978500 TTTTATGCATTTATATA
1 TTTTATGCATTTATATA
79978517 TTTTATG-A-TTATATA
1 TTTTATGCATTTATATA
79978532 AATGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTTATGCATTTATATA
Found at i:79985337 original size:30 final size:30
Alignment explanation
Indices: 79985292--79985357 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
79985282 AATGTAGGGG
* *
79985292 TCACATGGCCATGTGGCCAATCCGTGTGAC
1 TCACACGGCCATGTGGCCAAGCCGTGTGAC
* *
79985322 TTACACGGCCGTGTGGCCAAGCCGTGTGAC
1 TCACACGGCCATGTGGCCAAGCCGTGTGAC
79985352 TCACAC
1 TCACAC
79985358 AGCTAAGACA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.32, G:0.27, T:0.21
Consensus pattern (30 bp):
TCACACGGCCATGTGGCCAAGCCGTGTGAC
Found at i:80002845 original size:17 final size:17
Alignment explanation
Indices: 80002823--80002861 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
80002813 TATTGAGGTT
80002823 AAATATAA-ATATTAATA
1 AAATATAATATA-TAATA
*
80002840 AAATATAATATATATTA
1 AAATATAATATATAATA
80002857 AAATA
1 AAATA
80002862 ATTTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATATATAATA
Found at i:80005397 original size:13 final size:13
Alignment explanation
Indices: 80005381--80005446 Score: 64
Period size: 13 Copynumber: 5.1 Consensus size: 13
80005371 TTTAAACCAA
80005381 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
80005394 ACTTCTT-AAAAGT
1 ACTT-TTCAAAAGC
* *
80005407 ACTTTTTC-ACATC
1 AC-TTTTCAAAAGC
*
80005420 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
80005433 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
80005446 A
1 A
80005447 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
12 5 0.12
13 33 0.79
14 4 0.10
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:80006578 original size:76 final size:77
Alignment explanation
Indices: 80006498--80006703 Score: 202
Period size: 76 Copynumber: 2.7 Consensus size: 77
80006488 TTTTCGTTGG
* * * *
80006498 CAAATATTTTATTTAACCCAACTTTTTTTGTATTGCCTTTATCTTCTCATGATTTATCCCAACCT
1 CAAATATTTGATCTAACCCAACTTTTTTTGTATTGCCTTTGTCTTCTCATGATTTATACCAACCT
80006563 CCTTATT-TTAA
66 CCTTATTGTTAA
** * * * *
80006574 CAAATATTTGGCCTAACCCAACCTTTTTT-AAGTTGCCTTTGT-TTGCTCTTGATTTATACCAAT
1 CAAATATTTGATCTAACCCAACTTTTTTTGTA-TTGCCTTTGTCTT-CTCATGATTTATACCAAC
* ** * *
80006637 TTTTTTTTTGTTGA
64 CTCCTTATTGTTAA
* * *
80006651 CAAATATTTGATCTAACCTAACCTTTTTTTGTATTGTCTTTGTCTGCTCATGA
1 CAAATATTTGATCTAACCCAA-CTTTTTTTGTATTGCCTTTGTCTTCTCATGA
80006704 ACTATTATTA
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
75 3 0.03
76 53 0.52
77 21 0.21
78 22 0.22
79 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.49
Consensus pattern (77 bp):
CAAATATTTGATCTAACCCAACTTTTTTTGTATTGCCTTTGTCTTCTCATGATTTATACCAACCT
CCTTATTGTTAA
Found at i:80009916 original size:39 final size:39
Alignment explanation
Indices: 80009885--80009973 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
80009875 GTTATGATTT
*
80009885 TTATTAATTTATATTTTAATAATAATTATGTTAAGAATG
1 TTATTAAATTATATTTTAATAATAATTATGTTAAGAATG
* *
80009924 TTATTAAATTGTA-TTTAATTAATAATTATGTTAA-AATA
1 TTATTAAATTATATTTTAA-TAATAATTATGTTAAGAATG
*
80009962 TGATTAAATTAT
1 TTATTAAATTAT
80009974 TTGTTTTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
38 18 0.41
39 26 0.59
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.51
Consensus pattern (39 bp):
TTATTAAATTATATTTTAATAATAATTATGTTAAGAATG
Found at i:80009968 original size:38 final size:38
Alignment explanation
Indices: 80009899--80009971 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
80009889 TAATTTATAT
* *
80009899 TTTAATAATAATTATGTTAAGAATGTTATTAAATTGTA
1 TTTAATAATAATTATGTTAAGAATATGATTAAATTGTA
80009937 TTTAATTAATAATTATGTTAA-AATATGATTAAATT
1 TTTAA-TAATAATTATGTTAAGAATATGATTAAATT
80009972 ATTTGTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
38 17 0.53
39 15 0.47
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (38 bp):
TTTAATAATAATTATGTTAAGAATATGATTAAATTGTA
Found at i:80010680 original size:2 final size:2
Alignment explanation
Indices: 80010673--80010701 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
80010663 CTTACACCCT
80010673 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
80010702 TTAATGCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:80011370 original size:42 final size:42
Alignment explanation
Indices: 80011311--80011416 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 42
80011301 AAATTAGGTT
80011311 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
1 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
* *
80011353 TAATATCATAAAAATTAAAATGGGATGAAATGATTAAGTAAA
1 TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
* *
80011395 TAATAATGATAATAA-TAAAATA
1 TAAT-ATCATAAAAATTAAAATA
80011417 TTAAAATAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 50 0.86
43 8 0.14
ACGTcount: A:0.58, C:0.03, G:0.10, T:0.29
Consensus pattern (42 bp):
TAATATCATAAAAATTAAAATAGGATGAAATGATTAACTAAA
Found at i:80013526 original size:22 final size:21
Alignment explanation
Indices: 80013474--80013527 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
80013464 TTGACCTTTT
*
80013474 CAAGGGATGGGTAGGTATGGG
1 CAAGGGATGGGAAGGTATGGG
* * *
80013495 AAATGTATGGGCAAGGTATGGG
1 CAAGGGATGGG-AAGGTATGGG
80013517 CAAGGGATGGG
1 CAAGGGATGGG
80013528 TATATTCTAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.28, C:0.06, G:0.48, T:0.19
Consensus pattern (21 bp):
CAAGGGATGGGAAGGTATGGG
Found at i:80017596 original size:18 final size:18
Alignment explanation
Indices: 80017573--80017647 Score: 123
Period size: 18 Copynumber: 4.2 Consensus size: 18
80017563 CCCAACTACT
*
80017573 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
80017591 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
80017609 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
80017627 GTTTACGTGAATAGCACC
1 GTATACGTGAATAGTACC
80017645 GTA
1 GTA
80017648 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:80018231 original size:22 final size:21
Alignment explanation
Indices: 80018179--80018232 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
80018169 TTGACCTTTC
*
80018179 CAAGGGATGGGTAGGTATGGA
1 CAAGGGATGGGAAGGTATGGA
* * * *
80018200 AAATGTATGGGCAAGGTATGGG
1 CAAGGGATGGG-AAGGTATGGA
80018222 CAAGGGATGGG
1 CAAGGGATGGG
80018233 TATATTCTAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.30, C:0.06, G:0.46, T:0.19
Consensus pattern (21 bp):
CAAGGGATGGGAAGGTATGGA
Found at i:80024134 original size:21 final size:20
Alignment explanation
Indices: 80024110--80024152 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
80024100 GACTAAATCG
80024110 AAAACAATAAAAAATTTTCAA
1 AAAACAAT-AAAAATTTTCAA
** *
80024131 AAAAGGATGAAAATTTTCAA
1 AAAACAATAAAAATTTTCAA
80024151 AA
1 AA
80024153 TGACCCCACG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (20 bp):
AAAACAATAAAAATTTTCAA
Found at i:80040109 original size:30 final size:30
Alignment explanation
Indices: 80040073--80040133 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
80040063 AAATTCAAAA
80040073 AGGCAAAAGTCATAAATAATAATCTTAGTC
1 AGGCAAAAGTCATAAATAATAATCTTAGTC
80040103 AGGCAAAAGTCATAAATAATAATCTTAGTC
1 AGGCAAAAGTCATAAATAATAATCTTAGTC
80040133 A
1 A
80040134 CAACTACTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (30 bp):
AGGCAAAAGTCATAAATAATAATCTTAGTC
Found at i:80046079 original size:41 final size:41
Alignment explanation
Indices: 80046011--80046193 Score: 242
Period size: 41 Copynumber: 4.4 Consensus size: 41
80046001 ATCCCGTACT
* * **
80046011 CTAAGTGCCAATACATAGCCAAGGCTATTTTAATCTCGCACA
1 CTAAGTGCC-ATACATAGCCAAAGCTATCTCGATCTCGCACA
* *
80046053 CTAAGTGCCATACATAAG-AAAAGCTATCTTGATCTCGCACA
1 CTAAGTGCCATACAT-AGCCAAAGCTATCTCGATCTCGCACA
* *
80046094 CTAAGTGCCATAAATAGCCGAAGCTATCTCGATCTCGCACA
1 CTAAGTGCCATACATAGCCAAAGCTATCTCGATCTCGCACA
**
80046135 CTAAGTGCCATACATAGCCAAAGCTATCTCGATCTCGTGCA
1 CTAAGTGCCATACATAGCCAAAGCTATCTCGATCTCGCACA
*
80046176 CTAAGTGCTATACATAGC
1 CTAAGTGCCATACATAGC
80046194 TAAATTTTTG
Statistics
Matches: 126, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 2 0.02
41 113 0.90
42 11 0.09
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (41 bp):
CTAAGTGCCATACATAGCCAAAGCTATCTCGATCTCGCACA
Found at i:80049608 original size:26 final size:26
Alignment explanation
Indices: 80049579--80049641 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
80049569 CCGATAGCTC
*
80049579 GTGTGAGCA-AGCCCATTTCACAACTT
1 GTGTGAGCATA-CCCATTTAACAACTT
* *
80049605 GTGTGAGCATACTCATTTAATAACTT
1 GTGTGAGCATACCCATTTAACAACTT
*
80049631 ATGTGAGCATA
1 GTGTGAGCATA
80049642 TATGTAAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 31 0.97
27 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (26 bp):
GTGTGAGCATACCCATTTAACAACTT
Found at i:80050002 original size:17 final size:17
Alignment explanation
Indices: 80049962--80050003 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
80049952 CAAGCTTGTG
80049962 GATATGATTGATGTTAT
1 GATATGATTGATGTTAT
*
80049979 GATTATGCTTG-TGTTAT
1 GA-TATGATTGATGTTAT
80049996 GCATATGA
1 G-ATATGA
80050004 AATGGGTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
GATATGATTGATGTTAT
Found at i:80051523 original size:17 final size:18
Alignment explanation
Indices: 80051497--80051533 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
80051487 CAATTTGGGC
80051497 CATGTAGGCCA-CACGGG
1 CATGTAGGCCAGCACGGG
*
80051514 CATGTGGGCCAGCACGGG
1 CATGTAGGCCAGCACGGG
80051532 CA
1 CA
80051534 AGGCACACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.22, C:0.30, G:0.38, T:0.11
Consensus pattern (18 bp):
CATGTAGGCCAGCACGGG
Found at i:80051942 original size:40 final size:40
Alignment explanation
Indices: 80051881--80051956 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
80051871 ACGGTACATT
* *
80051881 TGGTGTGTAGGGTTAGATGGGTTGATTATATCCCCATATC
1 TGGTGTGTAGGGCTAGATGGGTCGATTATATCCCCATATC
* * *
80051921 TGGTGTGTAGGGCTGGGTGGGTCGATTTTATCCCCA
1 TGGTGTGTAGGGCTAGATGGGTCGATTATATCCCCA
80051957 CATGGTGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.16, C:0.14, G:0.34, T:0.36
Consensus pattern (40 bp):
TGGTGTGTAGGGCTAGATGGGTCGATTATATCCCCATATC
Found at i:80053790 original size:16 final size:16
Alignment explanation
Indices: 80053769--80053800 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
80053759 GGCTAGTGTT
80053769 GGAGAGCTACTAGGGC
1 GGAGAGCTACTAGGGC
80053785 GGAGAGCTACTAGGGC
1 GGAGAGCTACTAGGGC
80053801 TTGTTTGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.44, T:0.12
Consensus pattern (16 bp):
GGAGAGCTACTAGGGC
Found at i:80058328 original size:17 final size:18
Alignment explanation
Indices: 80058306--80058341 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
80058296 CAATTTAGGC
*
80058306 CGTGTGGG-CCACATGGG
1 CGTGTGGGACCACAAGGG
80058323 CGTGTGGGACCACAAGGG
1 CGTGTGGGACCACAAGGG
80058341 C
1 C
80058342 ATGGCACACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.25, G:0.44, T:0.14
Consensus pattern (18 bp):
CGTGTGGGACCACAAGGG
Found at i:80070316 original size:27 final size:27
Alignment explanation
Indices: 80070286--80070463 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
80070276 ATATTGAGCC
* *
80070286 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
80070313 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
80070340 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
80070368 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
80070395 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
80070422 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
80070449 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
80070464 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:80070398 original size:55 final size:54
Alignment explanation
Indices: 80070286--80070463 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
80070276 ATATTGAGCC
* * * * *
80070286 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
80070340 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
80070395 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
80070449 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
80070464 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:80078305 original size:27 final size:27
Alignment explanation
Indices: 80078275--80078452 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
80078265 ATATTGAGCC
* *
80078275 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
80078302 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
80078329 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
80078357 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
80078384 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
80078411 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
80078438 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
80078453 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:80078387 original size:55 final size:54
Alignment explanation
Indices: 80078275--80078452 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
80078265 ATATTGAGCC
* * * * *
80078275 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
80078329 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
80078384 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
80078438 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
80078453 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:80080453 original size:28 final size:28
Alignment explanation
Indices: 80080422--80080493 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
80080412 TTGATATTTT
*
80080422 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
80080450 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* *
80080478 GTACACTGAGTGCCAT
1 GCACACTAAGTGCCAT
80080494 ATTTGATTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:80088071 original size:20 final size:19
Alignment explanation
Indices: 80088046--80088089 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
80088036 TGTGAATTTT
*
80088046 ATTGATGAGTATTTTATATA
1 ATTGATGAATATTTT-TATA
*
80088066 ATTGATTAATATTTTTATA
1 ATTGATGAATATTTTTATA
*
80088085 TTTGA
1 ATTGA
80088090 AATTATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (19 bp):
ATTGATGAATATTTTTATA
Found at i:80088318 original size:2 final size:2
Alignment explanation
Indices: 80088311--80088345 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
80088301 GGCGTACCTC
80088311 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
80088346 ATAGCAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:80088667 original size:26 final size:26
Alignment explanation
Indices: 80088638--80088727 Score: 82
Period size: 26 Copynumber: 3.6 Consensus size: 26
80088628 TTTGTTTTGT
80088638 TTAAAATATAGTTAAAAATACACATA
1 TTAAAATATAGTTAAAAATACACATA
* ** * *
80088664 TT-AATTGCATTTATCAAATTA-A-ATA
1 TTAAAATATAGTTA--AAAATACACATA
80088689 --AAAATATAGTTAAAAATACACATA
1 TTAAAATATAGTTAAAAATACACATA
80088713 TTAAAATATAGTTAA
1 TTAAAATATAGTTAA
80088728 GAATTAATTA
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
22 5 0.11
23 1 0.02
24 10 0.21
25 10 0.21
26 16 0.34
27 5 0.11
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.34
Consensus pattern (26 bp):
TTAAAATATAGTTAAAAATACACATA
Found at i:80088733 original size:49 final size:48
Alignment explanation
Indices: 80088640--80088734 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 48
80088630 TGTTTTGTTT
* * *
80088640 AAAATATAGTTAAAAATACACATATTAATTGCATTTATCAAATTAAATA
1 AAAATATAGTTAAAAATACACATATTAAATACAGTTA-CAAATTAAATA
*
80088689 AAAATATAGTTAAAAATACACATATTAAAATATAGTTA-AGAATTAA
1 AAAATATAGTTAAAAATACACATATT-AAATACAGTTACA-AATTAA
80088735 TTACATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
48 1 0.03
49 32 0.80
50 7 0.17
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (48 bp):
AAAATATAGTTAAAAATACACATATTAAATACAGTTACAAATTAAATA
Found at i:80088946 original size:16 final size:16
Alignment explanation
Indices: 80088925--80088971 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
80088915 TTTTATACTA
80088925 TTTTAATATTAAATAT
1 TTTTAATATTAAATAT
80088941 TTTTAATATTAAATAT
1 TTTTAATATTAAATAT
*
80088957 TTTTAAAATTAAATA
1 TTTTAATATTAAATA
80088972 ACATTAACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTAATATTAAATAT
Found at i:80091947 original size:29 final size:29
Alignment explanation
Indices: 80091887--80091952 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
80091877 GTGAATGTCA
* * * *
80091887 CAACATTGGGATCAGAATGCTCAATGCCG
1 CAACATTGAGATCAAAATGCCCAAGGCCG
**
80091916 CAACATTGAGATCAAAATGCCCAAGGTTG
1 CAACATTGAGATCAAAATGCCCAAGGCCG
80091945 CAACATTG
1 CAACATTG
80091953 CTGACAGATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (29 bp):
CAACATTGAGATCAAAATGCCCAAGGCCG
Found at i:80096625 original size:29 final size:29
Alignment explanation
Indices: 80096582--80096637 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
80096572 TTGACAAGTG
* *
80096582 AATGCCACAACATTGGGATCAGAATGCTC
1 AATGCCACAACATTGAGATCAAAATGCTC
* *
80096611 AATGCCGCAATATTGAGATCAAAATGC
1 AATGCCACAACATTGAGATCAAAATGC
80096638 CTAAGGTTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (29 bp):
AATGCCACAACATTGAGATCAAAATGCTC
Found at i:80099654 original size:40 final size:40
Alignment explanation
Indices: 80099545--80099639 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
80099535 CCATCTCCGT
* *
80099545 CCAACCCAACACACC-A-TGTGGGGATAAAATCGACCCAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATCGACCCAC
*
80099583 CCAACCCTACACACCAAGTATGGGGATAAAATCGACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATCGACCCAC
*
80099623 CCAGCCCTACACACCAA
1 CCAACCCTACACACCAA
80099640 TTGGTACTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 14 0.27
39 1 0.02
40 36 0.71
ACGTcount: A:0.37, C:0.38, G:0.14, T:0.12
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATCGACCCAC
Found at i:80108945 original size:26 final size:24
Alignment explanation
Indices: 80108912--80108966 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
80108902 AGAAAGAATC
80108912 AAAATTGATCATCAACTTTTTTTAA-A
1 AAAATTGA--ATCAA-TTTTTTTAATA
*
80108938 AAAATTGAATTAATTTTTTTAATA
1 AAAATTGAATCAATTTTTTTAATA
80108962 AAAAT
1 AAAAT
80108967 ACTAACTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 9 0.33
24 10 0.37
26 8 0.30
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (24 bp):
AAAATTGAATCAATTTTTTTAATA
Found at i:80112579 original size:20 final size:20
Alignment explanation
Indices: 80112554--80112594 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
80112544 TAAATTATTT
80112554 TTTAAAAA-TCATTAAAATTA
1 TTTAAAAAGT-ATTAAAATTA
*
80112574 TTTAAAAAGTATTAACATTA
1 TTTAAAAAGTATTAAAATTA
80112594 T
1 T
80112595 AAAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
TTTAAAAAGTATTAAAATTA
Found at i:80116545 original size:17 final size:19
Alignment explanation
Indices: 80116520--80116556 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
80116510 AGTGATGATG
*
80116520 ATAATAATA-TGAAA-AAT
1 ATAACAATAGTGAAATAAT
80116537 ATAACAATAGTGAAATAAT
1 ATAACAATAGTGAAATAAT
80116556 A
1 A
80116557 ATATAGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (19 bp):
ATAACAATAGTGAAATAAT
Done.