Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 63 of 230
Found at i:17370528 original size:15 final size:15
Alignment explanation
Indices: 17370460--17370521 Score: 54
Period size: 16 Copynumber: 4.0 Consensus size: 15
17370450 TTATTCTGCA
17370460 AAAATAAAA-ATAAAT
1 AAAATAAAATA-AAAT
* *
17370475 AAAAATAAAACAAACTT
1 -AAAATAAAATAAA-AT
* *
17370492 GAAACAAAATAAAAT
1 AAAATAAAATAAAAT
17370507 AAAATAAAATAAAAT
1 AAAATAAAATAAAAT
17370522 TACATAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 14 0.38
16 21 0.57
17 2 0.05
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:17380456 original size:12 final size:12
Alignment explanation
Indices: 17380439--17380469 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
17380429 ACATTGAGGG
17380439 TAATGTGTAATT
1 TAATGTGTAATT
17380451 TAATGTGTAATT
1 TAATGTGTAATT
17380463 TAA-GTGT
1 TAATGTGT
17380470 GGGAAGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (12 bp):
TAATGTGTAATT
Found at i:17383714 original size:16 final size:15
Alignment explanation
Indices: 17383695--17383724 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17383685 CTAAAATGTA
17383695 TAAATAAAATTAAATG
1 TAAATAAAA-TAAATG
17383711 TAAATAAAATAAAT
1 TAAATAAAATAAAT
17383725 TTTAAGTTCT
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:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
TAAATAAAATAAATG
Found at i:17385578 original size:50 final size:50
Alignment explanation
Indices: 17385501--17385632 Score: 117
Period size: 50 Copynumber: 2.6 Consensus size: 50
17385491 TCATCTTGCT
* * *
17385501 CCACTGCAACTT-TAGGGAGATAAGATTTGGTA-TAATAAATTCAATCCAAC
1 CCACTGCAACTTCAAGGG-TATATGATTT-GTAGTAATAAATTCAATCCAAC
** ** *
17385551 CCACTAG-AACTTCAAGGGTATATGATTTGTAGTTGTAGCTTCATTCCAAC
1 CCACT-GCAACTTCAAGGGTATATGATTTGTAGTAATAAATTCAATCCAAC
* * *
17385601 TCACTGCAACTTCAAGGGTATAGGAATTGTAG
1 CCACTGCAACTTCAAGGGTATATGATTTGTAG
17385633 CTTCATCTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
49 4 0.06
50 58 0.87
51 5 0.07
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (50 bp):
CCACTGCAACTTCAAGGGTATATGATTTGTAGTAATAAATTCAATCCAAC
Found at i:17385677 original size:188 final size:189
Alignment explanation
Indices: 17385369--17385717 Score: 449
Period size: 188 Copynumber: 1.9 Consensus size: 189
17385359 GCTCCATTGC
* ** *
17385369 AACTTCAAGGTGATAAGATTTGTTGTTGTAGCTTCATTGTAACCCACTACAACCTTAGGGGGTAT
1 AACTTCAAGGTGATAAGATTTGTAGTTGTAGCTTCATTCCAACCCACTACAACCTTAGAGGGTAT
* * * *
17385434 AGGAATTGTAGTTTCAATCCAATCCACTGCAACTTCAGATATATAGGAGTTGTAGCTTC-ATCT-
66 AGGAATTGTAGCTTCAATCCAATCCACTGCAACTTCAGAGAGATAAGAGTTGTAGCTTCAATCTA
* *
17385497 TGCTCCACTGCAACTTTAGGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTAG
131 T--TCCACTGCAACTTCAAGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTAG
* * *
17385558 AACTTCAAGG-GTATATGATTTGTAGTTGTAGCTTCATTCCAACTCACTGCAA-CTTCA-AGGGT
1 AACTTCAAGGTG-ATAAGATTTGTAGTTGTAGCTTCATTCCAACCCACTACAACCTT-AGAGGGT
*** * *
17385620 ATAGGAATTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAAT
64 ATAGGAATTGTAGCTTCAATC-CAATCCACTGCAACTTCAGAGAGATAAGAGTTGTAGCTTCAAT
17385684 CTATTCCACTGCAACTTCAAGGAGATAAGATTTG
128 CTATTCCACTGCAACTTCAAGGAGATAAGATTTG
17385718 CTATGGTAGA
Statistics
Matches: 137, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
187 3 0.02
188 84 0.61
189 49 0.36
190 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (189 bp):
AACTTCAAGGTGATAAGATTTGTAGTTGTAGCTTCATTCCAACCCACTACAACCTTAGAGGGTAT
AGGAATTGTAGCTTCAATCCAATCCACTGCAACTTCAGAGAGATAAGAGTTGTAGCTTCAATCTA
TTCCACTGCAACTTCAAGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTAG
Found at i:17385769 original size:138 final size:139
Alignment explanation
Indices: 17385441--17386095 Score: 593
Period size: 138 Copynumber: 4.7 Consensus size: 139
17385431 TATAGGAATT
* * ** * *
17385441 GTAGTTTCAATCCAATCCACTGCAACTTC-AGATATATAGGAGTTGTAGCTTC-ATCTTGCTCCA
1 GTAGTTTCATTCCAACCCACTGCAACTTCAAG-GGTATAGGAATTGTAGCTTCAATCTTGATCCA
* ** * **
17385504 CTGCAACTTTAGGGAGATAAGATTTGGTATAATAAATTCAATCCAACCCACTAG-AACTTCAAGG
65 CTGCAACTTCAGGGAGATAAGATTT-G-----TAGCTTCAATCTATTCCACT-GCAACTTCAAGG
* * *
17385568 -GTATATGATTTG-TAGTT
123 AG-ATAAGATTTGCCA-TA
* * *
17385585 GTAGCTTCATTCCAACTCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTC-ATCTTGCTCCAC
1 GTAGTTTCATTCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTTGATCCAC
17385649 TGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTATTCCACTGCAACTTCAAGGAGATAAGA
66 TGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTATTCCACTGCAACTTCAAGGAGATAAGA
* *
17385714 TTTGCTATG
131 TTTGCCATA
* ** *** * * * *
17385723 GTAGATTCAATT-TGATTTACTGCAACTTTATGGGTATAGGATTTGTAGCTTCAAT-TTGTTCCA
1 GTAGTTTC-ATTCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTTGATCCA
* **
17385786 CTGCAACTTCAGGGAGATAAGATCTGTAGCTTCAATCTGCTCCACTGCAACTTC-AGAGAGATAA
65 CTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTATTCCACTGCAACTTCAAG-GAGATAA
*
17385850 GATTCGCCATA
129 GATTTGCCATA
*
17385861 GTAGTTTCATTCCAACCCACTACAACTTCAAGGGTATA-GAGATTGTAGCTTCAATC-TGATCCA
1 GTAGTTTCATTCCAACCCACTGCAACTTCAAGGGTATAGGA-ATTGTAGCTTCAATCTTGATCCA
* * * * * * * *
17385924 CTGCAACTTCATGGATATAGGATTCGTCA-CTTC-ATCT-TTCCCCACTGTAACTTTAGGGAGAC
65 CTGCAACTTCAGGGAGATAAGATTTGT-AGCTTCAATCTATT--CCACTGCAACTTCAAGGAGAT
* *
17385986 AAGATTTTCCATC
127 AAGATTTGCCATA
* * * *
17385999 GTAGTTTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATC-TGATCCAC
1 GTAGTTTCATTCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTTGATCCAC
* * *
17386063 TGCAACTTCAGGGATATAGGATTTGAAGCTTCA
66 TGCAACTTCAGGGAGATAAGATTTGTAGCTTCA
17386096 TTTTGCTCTA
Statistics
Matches: 432, Mismatches: 62, Indels: 39
0.81 0.12 0.07
Matches are distributed among these distances:
136 1 0.00
137 13 0.03
138 327 0.76
139 11 0.03
143 1 0.00
144 77 0.18
145 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (139 bp):
GTAGTTTCATTCCAACCCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTTGATCCAC
TGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTATTCCACTGCAACTTCAAGGAGATAAGA
TTTGCCATA
Found at i:17385913 original size:276 final size:275
Alignment explanation
Indices: 17385585--17386125 Score: 660
Period size: 276 Copynumber: 2.0 Consensus size: 275
17385575 ATTTGTAGTT
* * *
17385585 GTAGCTTCATTCCAACTCACTGCAACTTCAAGGGTATAGGAATTGTAGCTTC-ATCTTGCTCCAC
1 GTAGCTTCATTCCAACCCACTACAACTTCAAGGGTATAGGAATTGTAGCTTCAATC-TGATCCAC
* *
17385649 TGCAACTTCAGGGAGATAAGATTTGT-AGCTTCAATCTATT-CCACTGCAACTTCAAGGAGATAA
65 TGCAACTTCAGGGAGATAAGATTCGTCA-CTTC-ATCT-TTCCCACTGCAACTTCAAGGAGACAA
* * ** ** * * * **
17385712 GATTTGCTATGGTAGATTCAATT-TGATTTACTGCAACTTTATGGGTATAGGATTTGTAGCTTCA
127 GATTTGCCATCGTAGATTC-ATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCA
* * *
17385776 ATTTGTTCCACTGCAACTTCAGGGAGATAAGATCTGTAGCTTCAATCTGCTCCACTGCAACTTCA
191 ATCTGATCCACTGCAACTTCAGGGAGATAAGATCTGAAGCTTCAATCTGCTCCACTGCAACTTCA
17385841 GAGAGATAAGATTCGCCATA
256 GAGAGATAAGATTCGCCATA
*
17385861 GTAGTTTCATTCCAACCCACTACAACTTCAAGGGTATA-GAGATTGTAGCTTCAATCTGATCCAC
1 GTAGCTTCATTCCAACCCACTACAACTTCAAGGGTATAGGA-ATTGTAGCTTCAATCTGATCCAC
* * * * * *
17385925 TGCAACTTCATGGATATAGGATTCGTCACTTCATCTTTCCCCACTGTAACTTTAGGGAGACAAGA
65 TGCAACTTCAGGGAGATAAGATTCGTCACTTCATCTTT-CCCACTGCAACTTCAAGGAGACAAGA
* *
17385990 TTTTCCATCGTAGTTTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATC
129 TTTGCCATCGTAGATTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATC
* * * * * * * *
17386055 TGATCCACTGCAACTTCAGGGATATAGGATTTGAAGCTTCATTTTGCTCTACTGTAACTTTAGAG
194 TGATCCACTGCAACTTCAGGGAGATAAGATCTGAAGCTTCAATCTGCTCCACTGCAACTTCAGAG
17386120 AGATAA
259 AGATAA
17386126 AATTTGCAGT
Statistics
Matches: 223, Mismatches: 36, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
274 2 0.01
275 9 0.04
276 208 0.93
277 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (275 bp):
GTAGCTTCATTCCAACCCACTACAACTTCAAGGGTATAGGAATTGTAGCTTCAATCTGATCCACT
GCAACTTCAGGGAGATAAGATTCGTCACTTCATCTTTCCCACTGCAACTTCAAGGAGACAAGATT
TGCCATCGTAGATTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATCTG
ATCCACTGCAACTTCAGGGAGATAAGATCTGAAGCTTCAATCTGCTCCACTGCAACTTCAGAGAG
ATAAGATTCGCCATA
Found at i:17386071 original size:182 final size:182
Alignment explanation
Indices: 17385877--17386312 Score: 522
Period size: 182 Copynumber: 2.4 Consensus size: 182
17385867 TCATTCCAAC
* *
17385877 CCACTACAACTTCAAGGG-TATAGAGA-TTGTAGCTTCAATCTGATCCACTGCAACTTCATG-GA
1 CCACTGCAACTTC-AGGGATATAG-GATTTGTAGCTTCAATCTGCTCCACTGCAACTTCA-GAGA
* ** * * * * *
17385939 TATAGGATTCGTCA-CTTCATCTTTCCCCACTGTAACTTTAGGGAGACAAGATTTTCCATCGTAG
63 GATAAAATTCG-CAGCTTCATCTTGCCCCACTGCAACTTCAGGGAGACAAGATTTGCCACCGTAG
* * *
17386003 TTTCATTCCAACCTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATCTGAT
127 TTTCATTCCAACCCACTGCAACTTCAAGGGTATAGAAAGTATAGCTTCAATCTGAT
* * * * * *
17386059 CCACTGCAACTTCAGGGATATAGGATTTGAAGCTTCATTTTGCTCTACTGTAACTTTAGAGAGAT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
* * * * *
17386124 AAAATTTGCAGTTTCATCTTGCTCCACTGCAACTTCAGGGGGATAAGATTTGCCACCGTAGTTTC
66 AAAATTCGCAGCTTCATCTTGCCCCACTGCAACTTCAGGGAGACAAGATTTGCCACCGTAGTTTC
* * * *
17386189 ATTCCAACCCACTGTAACTTCAAGGGTATGGAAATTATTGCTTCAATCTGAT
131 ATTCCAACCCACTGCAACTTCAAGGGTATAGAAAGTATAGCTTCAATCTGAT
*
17386241 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCTCCACTGCAACTTCAGAAAGA
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCAATC-TGCTCCACTGCAACTTCAGAGAGA
*
17386305 TAAGATTC
65 TAAAATTC
17386313 ATTATGGTGA
Statistics
Matches: 212, Mismatches: 37, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
181 10 0.05
182 202 0.95
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (182 bp):
CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGAT
AAAATTCGCAGCTTCATCTTGCCCCACTGCAACTTCAGGGAGACAAGATTTGCCACCGTAGTTTC
ATTCCAACCCACTGCAACTTCAAGGGTATAGAAAGTATAGCTTCAATCTGAT
Found at i:17386086 original size:94 final size:94
Alignment explanation
Indices: 17385965--17386268 Score: 259
Period size: 94 Copynumber: 3.3 Consensus size: 94
17385955 TCATCTTTCC
* * * *
17385965 CCACTGTAACTTTAGGGAGACAAGATTTTCCATCGTAGTTTCATTCCAACCTACTGCAACTTCAG
1 CCACTGCAACTTCAGGGAGATAAGATTTTCCATCGTAGTTTCATTCCAACCTACTGTAACTTCAG
*
17386030 GGGTATAGAAAGTGTAGCTTCAATCTGAT
66 GGGTATAGAAATTGTAGCTTCAATCTGAT
* * * * *** *
17386059 CCACTGCAACTTCAGGGATATAGGA--TT---T-GAAGCTTCATT-TTGCTCTACTGTAACTTTA
1 CCACTGCAACTTCAGGGAGATAAGATTTTCCATCGTAGTTTCATTCCAAC-CTACTGTAACTTCA
* * * *
17386117 GAGAG-ATA-AAATTTGCAGTTTC-ATCTTGCT
65 G-GGGTATAGAAA-TTGTAGCTTCAATC-TGAT
* * * * *
17386147 CCACTGCAACTTCAGGGGGATAAGATTTGCCACCGTAGTTTCATTCCAACCCACTGTAACTTCAA
1 CCACTGCAACTTCAGGGAGATAAGATTTTCCATCGTAGTTTCATTCCAACCTACTGTAACTTCAG
* * *
17386212 GGGTATGGAAATTATTGCTTCAATCTGAT
66 GGGTATAGAAATTGTAGCTTCAATCTGAT
* *
17386241 CCACTGCAACTTCAGGGATATAGGATTT
1 CCACTGCAACTTCAGGGAGATAAGATTT
17386269 GTAGCTTCAT
Statistics
Matches: 156, Mismatches: 40, Indels: 28
0.70 0.18 0.12
Matches are distributed among these distances:
87 7 0.04
88 57 0.37
89 3 0.02
90 1 0.01
92 2 0.01
93 2 0.01
94 77 0.49
95 7 0.04
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (94 bp):
CCACTGCAACTTCAGGGAGATAAGATTTTCCATCGTAGTTTCATTCCAACCTACTGTAACTTCAG
GGGTATAGAAATTGTAGCTTCAATCTGAT
Found at i:17386299 original size:44 final size:44
Alignment explanation
Indices: 17385602--17386299 Score: 300
Period size: 44 Copynumber: 15.3 Consensus size: 44
17385592 CATTCCAACT
*
17385602 CACTGCAACTTCAAGGG-TATAGGAATTGTAGCTTCATCTTGCTC
1 CACTGCAACTTC-AGGGATATAGGATTTGTAGCTTCATCTTGCTC
* *
17385646 CACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTAT--TC
1 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCT-TGCTC
* * * * * *
17385690 CACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAAT-TTGATT
1 CACTGCAACTTCAGGGATATAGGA--T--T-T-GTAGCTTC-ATCTTGCTC
* * *
17385740 TACTGCAACTTTATGGG-TATAGGATTTGTAGCTTCAAT-TTGTTC
1 CACTGCAACTTCA-GGGATATAGGATTTGTAGCTTC-ATCTTGCTC
* * *
17385784 CACTGCAACTTCAGGGAGATAAGATCTGTAGCTTCAATC-TGCTC
1 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCTC
* * * * ***
17385828 CACTGCAACTTCAGAGAGATAAGATTCGCCATAGTAGTTTCATTCCAAC-C
1 CACTGCAACTTCAGGGATATAGGATT-----T-GTAGCTTCA-TCTTGCTC
* *
17385878 CACTACAACTTCAAGGG-TATAGAGA-TTGTAGCTTCAATC-TGATC
1 CACTGCAACTTC-AGGGATATAG-GATTTGTAGCTTC-ATCTTGCTC
* * * *
17385922 CACTGCAACTTCATGGATATAGGATTCGTCA-CTTCATCTTTCCC
1 CACTGCAACTTCAGGGATATAGGATTTGT-AGCTTCATCTTGCTC
* * * * * * * *
17385966 CACTGTAACTTTAGGGAGACAAGATTTTCCATCGTAGTTTCA--TTCCAAC
1 CACTGCAACTTCAGGGATATAGGA--TT---T-GTAGCTTCATCTTGC-TC
* * ** *
17386015 CTACTGCAACTTCAGGGGTATAGAAAGTGTAGCTTCAATC-TGATC
1 C-ACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCTC
* *
17386060 CACTGCAACTTCAGGGATATAGGATTTGAAGCTTCATTTTGCTC
1 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTC
* * * * * ** * *
17386104 TACTGTAACTTTAGAGAGATAAAATTTGCAGTTTCATCTTGCTC
1 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTC
** * * ***
17386148 CACTGCAACTTCAGGGGGATAAGATTTGCCACCGTAGTTTCATTCCAAC-C
1 CACTGCAACTTCAGGGATATAGGATTT------GTAGCTTCA-TCTTGCTC
* * * * *
17386198 CACTGTAACTTCAAGGG-TAT-GGAAATTATTGCTTCAATC-TGATC
1 CACTGCAACTTC-AGGGATATAGG-ATTTGTAGCTTC-ATCTTGCTC
17386242 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTC
1 CACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTC
17386286 CACTGCAACTTCAG
1 CACTGCAACTTCAG
17386300 AAAGATAAGA
Statistics
Matches: 493, Mismatches: 104, Indels: 114
0.69 0.15 0.16
Matches are distributed among these distances:
43 24 0.05
44 320 0.65
45 15 0.03
46 6 0.01
48 6 0.01
49 8 0.02
50 99 0.20
51 15 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
CACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTC
Found at i:17397922 original size:21 final size:19
Alignment explanation
Indices: 17397880--17397924 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
17397870 TAACTATAAT
*
17397880 AAAATAAAATAACTACATA
1 AAAATAAAAAAACTACATA
*
17397899 AAAATAAATAAAACATAGATA
1 AAAATAAA-AAAAC-TACATA
17397920 AAAAT
1 AAAAT
17397925 TTGAAATCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 10 0.45
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAATAAAAAAACTACATA
Found at i:17403610 original size:21 final size:21
Alignment explanation
Indices: 17403584--17403625 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17403574 AACATCAAAT
17403584 TAAACATAAAATCATGTACTA
1 TAAACATAAAATCATGTACTA
17403605 TAAACATAAAATCATGTACTA
1 TAAACATAAAATCATGTACTA
17403626 AAGCAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (21 bp):
TAAACATAAAATCATGTACTA
Found at i:17404055 original size:22 final size:22
Alignment explanation
Indices: 17404030--17404072 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17404020 TTTAACACAT
*
17404030 AAACATTCAATTATATTGGCAC
1 AAACAATCAATTATATTGGCAC
17404052 AAACAATCAATTATATTGGCA
1 AAACAATCAATTATATTGGCA
17404073 TAATACATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.30
Consensus pattern (22 bp):
AAACAATCAATTATATTGGCAC
Found at i:17406671 original size:17 final size:19
Alignment explanation
Indices: 17406624--17406673 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
17406614 AAAAGAATAG
*
17406624 AAAAGAAATAAAAAGAGAT
1 AAAAGAATTAAAAAGAGAT
*
17406643 -AAATAATGTAAAAA-A-AT
1 AAAAGAAT-TAAAAAGAGAT
17406660 AAAAGAATTAAAAA
1 AAAAGAATTAAAAA
17406674 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 8 0.31
18 12 0.46
19 6 0.23
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (19 bp):
AAAAGAATTAAAAAGAGAT
Found at i:17410707 original size:33 final size:34
Alignment explanation
Indices: 17410655--17410722 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
17410645 TAAACTAATT
*
17410655 TTTATTTTTAATTTAATTTAATACTTAATGTATA
1 TTTATTTTTAATTTAATTTAATACTTAATATATA
* * *
17410689 TTTA-TTTTATTTTTATTTAATGCTTAATATATA
1 TTTATTTTTAATTTAATTTAATACTTAATATATA
17410722 T
1 T
17410723 GCATTATACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (34 bp):
TTTATTTTTAATTTAATTTAATACTTAATATATA
Found at i:17414619 original size:3 final size:3
Alignment explanation
Indices: 17414613--17414647 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
17414603 TAAAAGAAAA
17414613 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
17414648 TGGAAATAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17421758 original size:103 final size:104
Alignment explanation
Indices: 17421579--17421843 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
17421569 AACCGTTATT
* * * *
17421579 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
17421644 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
17421682 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
17421746 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
17421786 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
17421844 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:17422205 original size:30 final size:29
Alignment explanation
Indices: 17422171--17422235 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17422161 TAATCCACCA
17422171 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
17422201 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
17422231 CCCAA
1 CCCAA
17422236 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:17422209 original size:31 final size:30
Alignment explanation
Indices: 17422178--17422235 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17422168 CCACCCAACT
17422178 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
17422208 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
17422236 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:17433054 original size:103 final size:102
Alignment explanation
Indices: 17432869--17433131 Score: 393
Period size: 104 Copynumber: 2.6 Consensus size: 102
17432859 AACCGTTATT
* * * * *
17432869 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGAATCAGCACTTAGCAACCCCTTGGGGAAT
1 GGTGGATATCGCACTTAGCACCACCAATGAATGGGGAATCAGCACTTAGCAACCCCTGGGGGAAT
** *
17432934 CAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 CAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
17432970 GGTGGATATCGCACTTAGCACCACCAATGAACTGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAA-TGGGGAATCAGCACTTAGCAACCCCT-GGGGGA
17433035 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
64 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
17433074 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAAT-GGGGAATCAGCACTTAGCAACCCCT
17433132 TTATGTACAA
Statistics
Matches: 147, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
101 28 0.19
102 25 0.17
103 29 0.20
104 65 0.44
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (102 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATGGGGAATCAGCACTTAGCAACCCCTGGGGGAAT
CAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:17433493 original size:30 final size:29
Alignment explanation
Indices: 17433459--17433523 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17433449 TAATCCACCA
17433459 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
17433489 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
17433519 CCCAA
1 CCCAA
17433524 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:17433497 original size:31 final size:30
Alignment explanation
Indices: 17433466--17433523 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17433456 CCACCCAACT
17433466 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
17433496 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
17433524 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:17437116 original size:12 final size:15
Alignment explanation
Indices: 17437086--17437119 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
17437076 GCTTCTCACC
17437086 TATTAATTACAATAT
1 TATTAATTACAATAT
17437101 TATTAATTACAATAT
1 TATTAATTACAATAT
17437116 TATT
1 TATT
17437120 TAGTCACGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTAATTACAATAT
Found at i:17438618 original size:12 final size:12
Alignment explanation
Indices: 17438601--17438625 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17438591 CAGAGGCTAT
17438601 TAACAATATTTA
1 TAACAATATTTA
17438613 TAACAATATTTA
1 TAACAATATTTA
17438625 T
1 T
17438626 GTTATAAAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:17445849 original size:45 final size:45
Alignment explanation
Indices: 17445793--17445887 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
17445783 TACTATGTGA
* *
17445793 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
17445838 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
17445883 ACCGA
1 ACCGA
17445888 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:17471685 original size:13 final size:13
Alignment explanation
Indices: 17471667--17471696 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17471657 GGATTGGAAC
17471667 AAGCAACAACAAG
1 AAGCAACAACAAG
*
17471680 AAGCAACAATAAG
1 AAGCAACAACAAG
17471693 AAGC
1 AAGC
17471697 GATGGTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.20, G:0.17, T:0.03
Consensus pattern (13 bp):
AAGCAACAACAAG
Found at i:17476184 original size:19 final size:18
Alignment explanation
Indices: 17476138--17476186 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
17476128 GATAGAATTT
*
17476138 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
17476157 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
17476175 TTGTATTAAAAT
1 TTGTA-TAAAAT
17476187 TTTTGGGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:17476257 original size:130 final size:130
Alignment explanation
Indices: 17476060--17476449 Score: 739
Period size: 130 Copynumber: 3.0 Consensus size: 130
17476050 ATGATTTAAG
*
17476060 TTTGGGGTTTGGAAACAC--AGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCA
1 TTTGGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCA
17476123 TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
66 TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
17476188 TTTGGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCA
1 TTTGGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCA
17476253 TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
66 TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
* *
17476318 TTGGGGGTGTGGAAACACAAAGATTTATATATTTTTTCATACCTAATTTTACTTAAAATCATGCA
1 TTTGGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCA
17476383 TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
66 TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
17476448 TT
1 TT
17476450 GAACATGTTA
Statistics
Matches: 257, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
128 17 0.07
130 240 0.93
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (130 bp):
TTTGGGGTGTGGAAACACAAAGATTTATATACTTTTTCATACCTAATTTTACTTAAAATCATGCA
TTTTCGATAGAATTTTTGTCATAAAATAATTAATTTTTATAAAATAATTAAATTGTATTAAAATT
Found at i:17476314 original size:19 final size:18
Alignment explanation
Indices: 17476268--17476316 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
17476258 GATAGAATTT
*
17476268 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
17476287 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
17476305 TTGTATTAAAAT
1 TTGTA-TAAAAT
17476317 TTTGGGGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:17476444 original size:19 final size:18
Alignment explanation
Indices: 17476398--17476446 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
17476388 GATAGAATTT
*
17476398 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
17476417 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
17476435 TTGTATTAAAAT
1 TTGTA-TAAAAT
17476447 TTTGAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:17477079 original size:14 final size:14
Alignment explanation
Indices: 17477056--17477085 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17477046 CATCCCTCAT
*
17477056 TCACATCTCTTCTC
1 TCACAACTCTTCTC
17477070 TCACAACTCTTCTC
1 TCACAACTCTTCTC
17477084 TC
1 TC
17477086 CTCTCTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:17477884 original size:137 final size:138
Alignment explanation
Indices: 17477637--17477909 Score: 327
Period size: 137 Copynumber: 2.0 Consensus size: 138
17477627 CTGTAAAATA
* * * *
17477637 GGTCTACTCACACAAGCTATCGGTCGGAACGTAAGCTACACGATGCTACTTACACAAGCTATCGA
1 GGTCTACTCACACAAGCTATCAGTCGAAACGTAAGCTACACGATGCTACTCACACAAGCTATCAA
** * * ** *
17477702 GTATCCGCAACTAATGTCGAACCTCATCCACTTGTAGGACATTCAAGACCAGTACCCA-AAACAT
66 GTATCCGCAACTAATACCGAAACTCAGCCACCGGTAGGACATTCAAGACCAGCA-CCAGAAACAT
*
17477766 GGTAACCTT
130 CGTAACCTT
* * * * *
17477775 GGTCTACTCATACAAGCTATCAGTCGAAACGT-AGCTACACGGTGTTACTCACATAAGCTGTCAA
1 GGTCTACTCACACAAGCTATCAGTCGAAACGTAAGCTACACGATGCTACTCACACAAGCTATCAA
* * *
17477839 GTATCTGCAAC-ACATACCGAAACTTAGCCACCGGTAGGACATTCAAGACTAGCACCAGAAACAT
66 GTATCCGCAACTA-ATACCGAAACTCAGCCACCGGTAGGACATTCAAGACCAGCACCAGAAACAT
17477903 CGTAACC
130 CGTAACC
17477910 CTAATGACAT
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
136 4 0.04
137 80 0.71
138 29 0.26
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (138 bp):
GGTCTACTCACACAAGCTATCAGTCGAAACGTAAGCTACACGATGCTACTCACACAAGCTATCAA
GTATCCGCAACTAATACCGAAACTCAGCCACCGGTAGGACATTCAAGACCAGCACCAGAAACATC
GTAACCTT
Found at i:17485257 original size:25 final size:27
Alignment explanation
Indices: 17485209--17485265 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
17485199 TAGCTCGTTA
*
17485209 AAAATTGTCAAAAATTTTACT-GGGGT
1 AAAATCGTCAAAAATTTTACTGGGGGT
*
17485235 AAAATCGTC-AAAATTTTATTGGGGGT
1 AAAATCGTCAAAAATTTTACTGGGGGT
17485261 AAAAT
1 AAAAT
17485266 ATAGATGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (27 bp):
AAAATCGTCAAAAATTTTACTGGGGGT
Found at i:17491595 original size:31 final size:31
Alignment explanation
Indices: 17491529--17491595 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
17491519 ATTTTTTTAT
* *
17491529 TTAATTGTGATATATTAACTAATGTAATAAT
1 TTAATTGGGATATATTAACTAATGTAATAAC
* * **
17491560 TTAATTGGGATGTATTAACTATTGTGGTAAC
1 TTAATTGGGATATATTAACTAATGTAATAAC
17491591 TTAAT
1 TTAAT
17491596 ATGGTCAGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (31 bp):
TTAATTGGGATATATTAACTAATGTAATAAC
Found at i:17495922 original size:12 final size:12
Alignment explanation
Indices: 17495905--17495929 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17495895 GATAAATATA
17495905 TTTTTATATTAT
1 TTTTTATATTAT
17495917 TTTTTATATTAT
1 TTTTTATATTAT
17495929 T
1 T
17495930 CATATATCAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTATATTAT
Found at i:17497716 original size:24 final size:23
Alignment explanation
Indices: 17497689--17497737 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
17497679 CACTATAATC
* * *
17497689 AACTTTTCACCTTTCATATTCCTT
1 AACTCTTCACATTTCAT-CTCCTT
17497713 AACTCTTCACATTTCATCTCCTT
1 AACTCTTCACATTTCATCTCCTT
17497736 AA
1 AA
17497738 AACCCCTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (23 bp):
AACTCTTCACATTTCATCTCCTT
Found at i:17498001 original size:32 final size:32
Alignment explanation
Indices: 17497965--17498068 Score: 104
Period size: 31 Copynumber: 3.3 Consensus size: 32
17497955 AATAAATACC
*
17497965 AAAAATTTATTTTAAAAATTAAAATAAAAATTA
1 AAAAAATTATTTTAAAAA-TAAAATAAAAATTA
* ** * *
17497998 AAAAAAGTATTTTAAAAAT-ATTTTAAAATTT
1 AAAAAATTATTTTAAAAATAAAATAAAAATTA
** *
17498029 AAAAAATTATTTTAAAAA-AATTTTAAAATTA
1 AAAAAATTATTTTAAAAATAAAATAAAAATTA
17498060 AAAAAATTA
1 AAAAAATTA
17498069 AAAAAAGTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
31 45 0.73
32 1 0.02
33 16 0.26
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.38
Consensus pattern (32 bp):
AAAAAATTATTTTAAAAATAAAATAAAAATTA
Found at i:17498019 original size:11 final size:11
Alignment explanation
Indices: 17497999--17498056 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
17497989 TAAAAATTAA
17497999 AAAAAGTATTTT
1 AAAAA-TATTTT
17498011 AAAAATATTTT
1 AAAAATATTTT
*
17498022 --AAA-ATTTA
1 AAAAATATTTT
17498030 AAAAATTATTTT
1 AAAAA-TATTTT
*
17498042 AAAAAAATTTT
1 AAAAATATTTT
17498053 AAAA
1 AAAA
17498057 TTAAAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 4 0.10
9 3 0.08
10 3 0.08
11 15 0.38
12 14 0.36
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:17498033 original size:19 final size:20
Alignment explanation
Indices: 17498006--17498045 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
17497996 TAAAAAAAGT
*
17498006 ATTTTAAAAA-TATTTTAAA
1 ATTTAAAAAATTATTTTAAA
17498025 ATTTAAAAAATTATTTTAAA
1 ATTTAAAAAATTATTTTAAA
17498045 A
1 A
17498046 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTAAAAAATTATTTTAAA
Found at i:17498033 original size:31 final size:30
Alignment explanation
Indices: 17497991--17498097 Score: 119
Period size: 31 Copynumber: 3.5 Consensus size: 30
17497981 AATTAAAATA
*
17497991 AAAATTAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTTAAAAAA-TATTTTAAAAATATTTT
*
17498022 AAAATTTAAAAAATTATTTTAAAAAAATTTT
1 AAAATTTAAAAAA-TATTTTAAAAATATTTT
**
17498053 AAAA-TTAAAAAA-ATTAAAAAAAGTATTTT
1 AAAATTTAAAAAATATTTTAAAAA-TATTTT
*
17498082 AAAATTAAATAAAATA
1 AAAATTTAA-AAAATA
17498098 AAAAAATAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
28 8 0.12
29 9 0.14
30 11 0.17
31 36 0.55
32 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAATTTAAAAAATATTTTAAAAATATTTT
Found at i:17498073 original size:17 final size:17
Alignment explanation
Indices: 17498040--17498073 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17498030 AAAAATTATT
**
17498040 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTAAAAAA
17498057 TTAAAAAAATTAAAAAA
1 TTAAAAAAATTAAAAAA
17498074 AGTATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAAAAATTAAAAAA
Found at i:17498074 original size:29 final size:29
Alignment explanation
Indices: 17498011--17498103 Score: 109
Period size: 29 Copynumber: 3.1 Consensus size: 29
17498001 AAAGTATTTT
**
17498011 AAAAATATTTTAAAATTTAAAAAATTATTTTA
1 AAAAATATTTTAAAA-TTAAAAAA--ATTAAA
17498043 AAAAA-ATTTTAAAATTAAAAAAATTAAA
1 AAAAATATTTTAAAATTAAAAAAATTAAA
*
17498071 AAAAGTATTTTAAAATTAAATAAAA-TAAA
1 AAAAATATTTTAAAATTAAA-AAAATTAAA
17498100 AAAA
1 AAAA
17498104 TAAAAATATT
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
28 8 0.14
29 22 0.39
30 12 0.21
31 9 0.16
32 5 0.09
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (29 bp):
AAAAATATTTTAAAATTAAAAAAATTAAA
Found at i:17498095 original size:39 final size:37
Alignment explanation
Indices: 17498022--17498109 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 37
17498012 AAAATATTTT
* *
17498022 AAAATTTAAAAAATTATTTTAAAAAAATTTTAAAATTAAA
1 AAAATTAAAAAAAGTATTTTAAAAAAA--TTAAAA-TAAA
17498062 AAAATTAAAAAAAGTATTTTAAAATTAAA-TAAAATAAA
1 AAAATTAAAAAAAGTATTTTAAAA--AAATTAAAATAAA
17498100 AAAA-TAAAAA
1 AAAATTAAAAA
17498110 TATTTATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
37 6 0.14
38 8 0.18
39 5 0.11
40 22 0.50
42 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (37 bp):
AAAATTAAAAAAAGTATTTTAAAAAAATTAAAATAAA
Found at i:17512029 original size:35 final size:34
Alignment explanation
Indices: 17511980--17512047 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 34
17511970 TTCAATTTTG
17511980 GAAAGTAATAATTATAATTCAATAAATACATTTA
1 GAAAGTAATAATTATAATTCAATAAATACATTTA
* * **
17512014 GAAAGTGATAAATTATCATTCAATGGATACATTT
1 GAAAGTAAT-AATTATAATTCAATAAATACATTT
17512048 TCATGGGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 8 0.28
35 21 0.72
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.35
Consensus pattern (34 bp):
GAAAGTAATAATTATAATTCAATAAATACATTTA
Found at i:17512350 original size:17 final size:17
Alignment explanation
Indices: 17512330--17512362 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17512320 ATTTAATATA
17512330 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
17512347 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
17512363 TAAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:17512838 original size:19 final size:21
Alignment explanation
Indices: 17512814--17512854 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
17512804 TTTGTGCAGT
17512814 TAATAATGAAA-AAAAT-TAA
1 TAATAATGAAATAAAATGTAA
17512833 TAATAATGAAATAAAATGTAA
1 TAATAATGAAATAAAATGTAA
17512854 T
1 T
17512855 TTTAAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.55
20 5 0.25
21 4 0.20
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
TAATAATGAAATAAAATGTAA
Found at i:17519844 original size:6 final size:6
Alignment explanation
Indices: 17519833--17519865 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
17519823 GGAACTGTGT
17519833 GGGTGA GGGTGA GGGTGA GGGTGA GGGTGA GGG
1 GGGTGA GGGTGA GGGTGA GGGTGA GGGTGA GGG
17519866 GAAGGGGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.70, T:0.15
Consensus pattern (6 bp):
GGGTGA
Found at i:17522301 original size:2 final size:2
Alignment explanation
Indices: 17522294--17522318 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17522284 AAAAGAATAA
17522294 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 A
17522319 AAAGAAGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17523717 original size:19 final size:18
Alignment explanation
Indices: 17523695--17523750 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
17523685 TTATATATTT
17523695 TTTTATGATTTTTATAAAA
1 TTTTA-GATTTTTATAAAA
* **
17523714 TTTTACATTTTTAATAATT
1 TTTTAGATTTTT-ATAAAA
17523733 TTTTACGATTTTTATAAA
1 TTTTA-GATTTTTATAAA
17523751 TCTAATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 6 0.20
19 18 0.60
20 6 0.20
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (18 bp):
TTTTAGATTTTTATAAAA
Found at i:17523756 original size:28 final size:30
Alignment explanation
Indices: 17523725--17523795 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 30
17523715 TTTACATTTT
*
17523725 TAATAATTTTTTACGATTTTTA-T-AAATC
1 TAATAATTTTTTAAGATTTTTATTAAAATC
** * *
17523753 TAATAAAATTTTAATATTTTTATTAAAATT
1 TAATAATTTTTTAAGATTTTTATTAAAATC
17523783 TAATAATTTTTTA
1 TAATAATTTTTTA
17523796 TAACTTTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 18 0.53
29 1 0.03
30 15 0.44
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (30 bp):
TAATAATTTTTTAAGATTTTTATTAAAATC
Found at i:17523779 original size:20 final size:20
Alignment explanation
Indices: 17523756--17523793 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17523746 ATAAATCTAA
17523756 TAAAATTTTAAT-ATTTTTAT
1 TAAAA-TTTAATAATTTTTAT
17523776 TAAAATTTAATAATTTTT
1 TAAAATTTAATAATTTTT
17523794 TATAACTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAAATTTAATAATTTTTAT
Found at i:17523804 original size:30 final size:28
Alignment explanation
Indices: 17523723--17523806 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
17523713 ATTTTACATT
*
17523723 TTTAATAATTTTTTACGATTTTTA-TAAA
1 TTTAATAATTTTTTA-TATTTTTATTAAA
* * *
17523751 TCTAATAAAATTTTAATATTTTTATTAAAA
1 TTTAAT-AATTTTTTATATTTTTATT-AAA
*
17523781 TTTAATAATTTTTTATAACTTTTATT
1 TTTAATAATTTTTTAT-ATTTTTATT
17523807 GATTTTTACT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 12 0.27
29 16 0.36
30 16 0.36
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTAATAATTTTTTATATTTTTATTAAA
Found at i:17527158 original size:3 final size:3
Alignment explanation
Indices: 17527150--17527194 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
17527140 ATATGTCCAT
17527150 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17527195 AAGAGATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17536661 original size:58 final size:60
Alignment explanation
Indices: 17536599--17536712 Score: 151
Period size: 61 Copynumber: 1.9 Consensus size: 60
17536589 ACTTTAATAC
* *
17536599 TAAATTAATATAATACTTAT-T-AAGATAAATATTAGATTAAATTTAATATTAAATCTGT
1 TAAATTAATAGAATACTTATCTAAAGATAAATATTAAATTAAATTTAATATTAAATCTGT
* * **
17536657 TAAATTAATAGAATATTTATCTAGAATATAAATATTAAATTATTTTTAATATTAAA
1 TAAATTAATAGAATACTTATCTA-AAGATAAATATTAAATTAAATTTAATATTAAA
17536713 ATAATCATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 18 0.38
59 1 0.02
61 28 0.60
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (60 bp):
TAAATTAATAGAATACTTATCTAAAGATAAATATTAAATTAAATTTAATATTAAATCTGT
Found at i:17536709 original size:17 final size:18
Alignment explanation
Indices: 17536687--17536735 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 18
17536677 CTAGAATATA
17536687 AATATTAAATTAT-TTTT
1 AATATTAAATTATATTTT
*
17536704 AATATTAAAATAATCATTTT
1 AATATT-AAATTAT-ATTTT
17536724 AATATTAAATTA
1 AATATTAAATTA
17536736 ATAAAATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 6 0.22
18 6 0.22
19 5 0.19
20 10 0.37
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATTAAATTATATTTT
Found at i:17536725 original size:20 final size:20
Alignment explanation
Indices: 17536700--17536737 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17536690 ATTAAATTAT
17536700 TTTTAATATTAAAATAATCA
1 TTTTAATATTAAAATAATCA
*
17536720 TTTTAATATTAAATTAAT
1 TTTTAATATTAAAATAAT
17536738 AAAATACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTAATATTAAAATAATCA
Found at i:17536795 original size:68 final size:72
Alignment explanation
Indices: 17536656--17536798 Score: 161
Period size: 68 Copynumber: 2.0 Consensus size: 72
17536646 ATTAAATCTG
* * ** *
17536656 TTAAATTAATAGAATATTTATCTAGAATATAAATATTAAATTATTTTTAATATTAAAATAATCAT
1 TTAAATTAATAAAATATCTATCTAGAATATAAATATTAAATTAAATTTAATATTAAAATAATCAA
**
17536721 TTTAATA
66 CATAATA
* *
17536728 TTAAATTAATAAAATA-CTATC-A-AA-ATAATTATTAAATTAAATTTAGTATTAAAACT-ATCA
1 TTAAATTAATAAAATATCTATCTAGAATATAAATATTAAATTAAATTTAATATTAAAA-TAATCA
17536788 ACATAATA
65 ACATAATA
17536796 TTA
1 TTA
17536799 TTTTTGAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
68 38 0.62
69 3 0.05
70 1 0.02
71 4 0.07
72 15 0.25
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (72 bp):
TTAAATTAATAAAATATCTATCTAGAATATAAATATTAAATTAAATTTAATATTAAAATAATCAA
CATAATA
Found at i:17543569 original size:32 final size:32
Alignment explanation
Indices: 17543528--17543597 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
17543518 TTTCGAGAAA
17543528 ATATGTTTAATATTTCACAACTCAACATGTTC
1 ATATGTTTAATATTTCACAACTCAACATGTTC
17543560 ATATGTTTAATATTTCACAACTCAACATGTTC
1 ATATGTTTAATATTTCACAACTCAACATGTTC
17543592 ACTATG
1 A-TATG
17543598 ACATGATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 33 0.89
33 4 0.11
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (32 bp):
ATATGTTTAATATTTCACAACTCAACATGTTC
Found at i:17548490 original size:52 final size:53
Alignment explanation
Indices: 17548423--17548545 Score: 144
Period size: 52 Copynumber: 2.3 Consensus size: 53
17548413 GGCTTTGTAA
* * **
17548423 AGGTTGGGATGGATTGTTTGGAG-AATGCATATACATGATATTTGG-TTTGCGG
1 AGGTTCGGTTGGATTGTAAGGAGAAAT-CATATACATGATATTTGGTTTTGCGG
* * *
17548475 AGGTTCAGG-TGGATTGTAAGGAGAAATTATATGCATGATATTTGGTTTTGTGG
1 AGGTTC-GGTTGGATTGTAAGGAGAAATCATATACATGATATTTGGTTTTGCGG
17548528 AGGTTCGGTTGGATTGTA
1 AGGTTCGGTTGGATTGTA
17548546 CAGAGACATA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
52 35 0.57
53 26 0.43
ACGTcount: A:0.24, C:0.05, G:0.34, T:0.37
Consensus pattern (53 bp):
AGGTTCGGTTGGATTGTAAGGAGAAATCATATACATGATATTTGGTTTTGCGG
Found at i:17552112 original size:27 final size:27
Alignment explanation
Indices: 17552074--17552128 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
17552064 ATTTTGGATG
17552074 ATCCGAATCCAATGATAGTTAGACCAT
1 ATCCGAATCCAATGATAGTTAGACCAT
17552101 ATCCGAATCCAATGATAGTTAGACCAT
1 ATCCGAATCCAATGATAGTTAGACCAT
17552128 A
1 A
17552129 CATTTAAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (27 bp):
ATCCGAATCCAATGATAGTTAGACCAT
Found at i:17553030 original size:3 final size:3
Alignment explanation
Indices: 17553016--17553060 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
17553006 TTCCTTTGTT
*
17553016 ATC ATT ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
17553061 TATTAAAGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:17567481 original size:22 final size:21
Alignment explanation
Indices: 17567427--17567488 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
17567417 CATTTAGTTT
*
17567427 TTTG-TTTTATTTCT-TTTTC
1 TTTGTTTTTATTTCTATTTTA
*
17567446 TTTTTCTTTCTATTTCTATTGTTA
1 TTTGT-TTT-TATTTCTATT-TTA
17567470 TTTGTTTTTATTT-TATTTT
1 TTTGTTTTTATTTCTATTTT
17567489 CTAGATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
19 3 0.09
20 2 0.06
21 7 0.20
22 12 0.34
23 5 0.14
24 6 0.17
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTGTTTTTATTTCTATTTTA
Found at i:17567486 original size:27 final size:26
Alignment explanation
Indices: 17567446--17567518 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 26
17567436 TTTCTTTTTC
* *
17567446 TTTTTCTTTCTATTTCTATTGTTATTTG
1 TTTTTATTT-TATTTCTATT-TTATATG
*
17567474 TTTTTATTTTATTTTCTAGATTTATATG
1 TTTTTATTTTA-TTTCTA-TTTTATATG
17567502 -TTTTATTTTATTT-TATT
1 TTTTTATTTTATTTCTATT
17567519 ATGCACTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 1 0.03
25 2 0.05
26 3 0.08
27 12 0.31
28 20 0.51
29 1 0.03
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (26 bp):
TTTTTATTTTATTTCTATTTTATATG
Found at i:17569033 original size:16 final size:16
Alignment explanation
Indices: 17569013--17569081 Score: 93
Period size: 16 Copynumber: 4.3 Consensus size: 16
17569003 TTGGTTCGCT
*
17569013 GTAATGGAATAGAAGT
1 GTAATGGAATAGAAGC
*
17569029 GTAATGGAATAGAGGC
1 GTAATGGAATAGAAGC
* *
17569045 ATAATGGAATAGATGC
1 GTAATGGAATAGAAGC
*
17569061 GTAATGGAATAGAGGC
1 GTAATGGAATAGAAGC
17569077 GTAAT
1 GTAAT
17569082 AGGTAATTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.41, C:0.04, G:0.32, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAAGC
Found at i:17569055 original size:32 final size:32
Alignment explanation
Indices: 17569014--17569081 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
17569004 TGGTTCGCTG
*
17569014 TAATGGAATAGAAGTGTAATGGAATAGAGGCA
1 TAATGGAATAGAAGCGTAATGGAATAGAGGCA
* *
17569046 TAATGGAATAGATGCGTAATGGAATAGAGGCG
1 TAATGGAATAGAAGCGTAATGGAATAGAGGCA
17569078 TAAT
1 TAAT
17569082 AGGTAATTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.41, C:0.04, G:0.31, T:0.24
Consensus pattern (32 bp):
TAATGGAATAGAAGCGTAATGGAATAGAGGCA
Found at i:17569148 original size:44 final size:46
Alignment explanation
Indices: 17569063--17569155 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
17569053 ATAGATGCGT
* *
17569063 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATAG
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTGAATAG
* *
17569109 AATGGAATAGAGGCGTAGT-GAT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTGAATAG
17569153 AAT
1 AAT
17569156 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.53
45 2 0.05
46 18 0.42
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTGAATAG
Found at i:17569151 original size:39 final size:44
Alignment explanation
Indices: 17569063--17569173 Score: 124
Period size: 39 Copynumber: 2.6 Consensus size: 44
17569053 ATAGATGCGT
* *
17569063 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATAG
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTT--ATAG
*
17569109 AATGGAATAGAGGCGTAGT-GAT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTATAG
*
17569148 AATGGAATAGAGGTGTAATAGCATAA
1 AATGGAATAGAGGCGTAATAG-ATAA
17569174 GGAAAAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
39 18 0.32
40 2 0.04
41 2 0.04
42 1 0.02
43 1 0.02
44 13 0.23
45 2 0.04
46 18 0.32
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTATAG
Found at i:17569325 original size:26 final size:26
Alignment explanation
Indices: 17569296--17569435 Score: 96
Period size: 26 Copynumber: 5.5 Consensus size: 26
17569286 TTAATCATAT
*
17569296 TTTAACATAAATATTATTAAATATAA
1 TTTAATATAAATATTATTAAATATAA
* *
17569322 TTTAATAAAAATATATAATTTAATA-AA
1 TTTAATATAAATAT-T-ATTAAATATAA
* * * *
17569349 -AT-ATATGAAT-TTACTAAA-ATCA
1 TTTAATATAAATATTATTAAATATAA
* *
17569371 --TAATATATAATACTATAAAATATAA
1 TTTAATATA-AATATTATTAAATATAA
* *
17569396 TTTAAAATAATTATTATTAAATATAA
1 TTTAATATAAATATTATTAAATATAA
*
17569422 TTTAATAAAAATAT
1 TTTAATATAAATAT
17569436 ATAATTTGAT
Statistics
Matches: 84, Mismatches: 21, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
21 2 0.02
22 9 0.11
23 4 0.05
24 6 0.07
25 9 0.11
26 38 0.45
27 9 0.11
28 7 0.08
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (26 bp):
TTTAATATAAATATTATTAAATATAA
Found at i:17569339 original size:18 final size:18
Alignment explanation
Indices: 17569316--17569449 Score: 81
Period size: 18 Copynumber: 7.9 Consensus size: 18
17569306 ATATTATTAA
17569316 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
17569334 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
17569351 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
17569369 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* * *
17569385 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
17569404 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
17569416 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
17569434 ATATAATTTGATAAAA
1 ATATAATTTAATAAAA
17569450 TTATTTAGTA
Statistics
Matches: 87, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 4 0.05
16 8 0.09
17 20 0.23
18 42 0.48
19 5 0.06
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:17569524 original size:21 final size:21
Alignment explanation
Indices: 17569481--17569524 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17569471 TATATGAATT
*
17569481 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
17569502 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
17569523 TA
1 TA
17569525 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:17600828 original size:20 final size:20
Alignment explanation
Indices: 17600805--17600844 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17600795 AAATGAAATG
*
17600805 AAATGTAATGAAATGGTTTA
1 AAATGCAATGAAATGGTTTA
*
17600825 AAATGCAATGGAATGGTTTA
1 AAATGCAATGAAATGGTTTA
17600845 GCAACAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.33
Consensus pattern (20 bp):
AAATGCAATGAAATGGTTTA
Found at i:17609486 original size:24 final size:24
Alignment explanation
Indices: 17609459--17609510 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
17609449 TTAGCAAGTC
*
17609459 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
17609483 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
17609507 AAAT
1 AAAT
17609511 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:17612011 original size:43 final size:41
Alignment explanation
Indices: 17611871--17612031 Score: 144
Period size: 43 Copynumber: 3.8 Consensus size: 41
17611861 CGTACAATGC
* ** * *
17611871 CAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGC
1 CAACGTCCCAGACATGGTCTTACA-CAAAACACA-ATCGATGT
** * * * *
17611914 CATTGTCCCATACAGGGTCTTCCACAAATCA-AATACGATGT
1 CAACGTCCCAGACATGGTCTTACACAAAACACAAT-CGATGT
* *
17611955 CAATGTCCTAGACATGGTCTTACACATAAACACAAGTCGATGT
1 CAACGTCCCAGACATGGTCTTACACA-AAACACAA-TCGATGT
17611998 CAACGTCCCAGACATGGTCTTACACGAAAACACA
1 CAACGTCCCAGACATGGTCTTACAC-AAAACACA
17612032 TATCAAAATC
Statistics
Matches: 96, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.02
41 27 0.28
42 9 0.09
43 56 0.58
44 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (41 bp):
CAACGTCCCAGACATGGTCTTACACAAAACACAATCGATGT
Found at i:17619741 original size:21 final size:20
Alignment explanation
Indices: 17619703--17619746 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
17619693 TACAACAACC
* *
17619703 TTAACTATCACTGTTAACTG
1 TTAACTATAACTGCTAACTG
17619723 TTAACTACTAACTGCTAACTG
1 TTAACTA-TAACTGCTAACTG
17619744 TTA
1 TTA
17619747 TAACAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (20 bp):
TTAACTATAACTGCTAACTG
Found at i:17620499 original size:3 final size:3
Alignment explanation
Indices: 17620491--17620518 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17620481 AGAGTGTTTT
17620491 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17620519 GAGAAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:17623108 original size:16 final size:16
Alignment explanation
Indices: 17623089--17623124 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17623079 AATAGGGCTA
17623089 TAATGGAATAAAATTG
1 TAATGGAATAAAATTG
* *
17623105 TAATGGAATAGAGTTG
1 TAATGGAATAAAATTG
17623121 TAAT
1 TAAT
17623125 TAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (16 bp):
TAATGGAATAAAATTG
Found at i:17626206 original size:24 final size:24
Alignment explanation
Indices: 17626172--17626223 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
17626162 TTTCTAGAAG
* **
17626172 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
17626196 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
17626220 ATTT
1 ATTT
17626224 GACTTTGATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:17630619 original size:24 final size:24
Alignment explanation
Indices: 17630585--17630636 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
17630575 TTTCTAGAAG
* **
17630585 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
17630609 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
17630633 ATTT
1 ATTT
17630637 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:17631404 original size:44 final size:44
Alignment explanation
Indices: 17631341--17631429 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
17631331 CTATCCATGC
*
17631341 AGTTCTTATATATGTGTATACAATCTGATTAATATATTTTAAAT
1 AGTTCTTATATATGTGTATACAATCTAATTAATATATTTTAAAT
*
17631385 AGTTCTTATATATGTGTATACAATTTAATTAATATATTTTAAAT
1 AGTTCTTATATATGTGTATACAATCTAATTAATATATTTTAAAT
17631429 A
1 A
17631430 TACTCCGTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (44 bp):
AGTTCTTATATATGTGTATACAATCTAATTAATATATTTTAAAT
Found at i:17637474 original size:19 final size:19
Alignment explanation
Indices: 17637437--17637474 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
17637427 TCCATTTTAT
17637437 CAAAATAATATCCAAAAATC
1 CAAAATAATAT-CAAAAATC
17637457 CAAAATTAATAT-AAAAAT
1 CAAAA-TAATATCAAAAAT
17637475 AAAAATACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (19 bp):
CAAAATAATATCAAAAATC
Found at i:17637673 original size:21 final size:21
Alignment explanation
Indices: 17637649--17637701 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
17637639 CCTTGTATAA
17637649 AATTTAATTTGAGCATTT-A-AT
1 AATTTAATTTGA--ATTTCACAT
* *
17637670 AATTTTATTTTAATTTCACAT
1 AATTTAATTTGAATTTCACAT
17637691 AATTTAATTTG
1 AATTTAATTTG
17637702 TTTCTACAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 4 0.15
20 1 0.04
21 21 0.81
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (21 bp):
AATTTAATTTGAATTTCACAT
Found at i:17639474 original size:14 final size:14
Alignment explanation
Indices: 17639455--17639484 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17639445 TTACCAATTC
*
17639455 AACATAAACTTCCA
1 AACATAAACATCCA
17639469 AACATAAACATCCA
1 AACATAAACATCCA
17639483 AA
1 AA
17639485 TCACTATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.17
Consensus pattern (14 bp):
AACATAAACATCCA
Found at i:17639826 original size:20 final size:20
Alignment explanation
Indices: 17639801--17639862 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
17639791 GAAGTACAAA
17639801 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * **
17639821 CAGGGGTACCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCATT
*
17639841 CAGGGGCATGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
17639861 CA
1 CA
17639863 AGGGTACCAA
Statistics
Matches: 29, Mismatches: 11, Indels: 4
0.66 0.25 0.09
Matches are distributed among these distances:
19 1 0.03
20 26 0.90
21 2 0.07
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.21
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:17639901 original size:40 final size:40
Alignment explanation
Indices: 17639753--17639902 Score: 194
Period size: 40 Copynumber: 3.8 Consensus size: 40
17639743 GAGTTACTGG
* * * * *
17639753 AGTACAAATAGAGGCACGTAAGTGCATT-TAGGAGTACTGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAAGG-GTACCGA
*
17639793 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACCGA
* *
17639833 AGTACAAACAGGGGCATGTATGTGCATTCAAGGGTACCAA
1 AGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACCGA
* *
17639873 AGTATAAACAGGAGCACGTATGTGCATTCA
1 AGTACAAACAGGGGCACGTATGTGCATTCA
17639903 TTCAATAGTT
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 95 0.98
41 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.21
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACCGA
Found at i:17643794 original size:19 final size:19
Alignment explanation
Indices: 17643757--17643794 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17643747 GTAATTAAAC
*
17643757 TTGAAAATTGGACCTGAGA
1 TTGAAAATTGGACCCGAGA
17643776 TTGAAAATTAGG-CCCGAGA
1 TTGAAAATT-GGACCCGAGA
17643795 ACACAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (19 bp):
TTGAAAATTGGACCCGAGA
Found at i:17644131 original size:20 final size:20
Alignment explanation
Indices: 17644106--17644202 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 20
17644096 ATTCAAAAAA
*
17644106 TAATATTATTTTAATAGATT
1 TAATATTAATTTAATAGATT
*
17644126 TAATATTAAATT--TA-ATT
1 TAATATTAATTTAATAGATT
* *
17644143 TAATATTTATCTTGTAGATAAATAT
1 TAATA-TTA-ATT-TA-ATAGAT-T
*
17644168 T-CTATTAATTTAATAGATT
1 TAATATTAATTTAATAGATT
17644187 TAATATTAAATTTAAT
1 TAATATT-AATTTAAT
17644203 CTAATATTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
17 8 0.14
18 5 0.08
19 3 0.05
20 20 0.34
21 10 0.17
22 2 0.03
23 5 0.08
24 4 0.07
25 2 0.03
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (20 bp):
TAATATTAATTTAATAGATT
Found at i:17644181 original size:61 final size:58
Alignment explanation
Indices: 17644108--17644240 Score: 203
Period size: 61 Copynumber: 2.2 Consensus size: 58
17644098 TCAAAAAATA
* *
17644108 ATATTATTTTAATAGATTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATC-T-TA-ATAAATATT
* *
17644169 CTATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTAATAAGTATT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATT
17644227 ATATTAATTTAATA
1 ATATTAATTTAATA
17644241 TTAAGGTGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
58 21 0.31
59 2 0.03
60 1 0.01
61 43 0.64
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (58 bp):
ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATT
Found at i:17648345 original size:45 final size:45
Alignment explanation
Indices: 17648270--17648362 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 45
17648260 CTTGTCAAAG
* * * *
17648270 GATGTCATAGCGTCTTTCAGCCATGATCTTAGTCCTATT-TATCAT
1 GATGTCATAACGTATTTCAGCCATGATCTTACTCAT-TTATATCAT
*
17648315 GATGTCATAATGTATTTCAGCCATTG-TCTTACTCATTTATATCAT
1 GATGTCATAACGTATTTCAGCCA-TGATCTTACTCATTTATATCAT
17648360 GAT
1 GAT
17648363 ACCATATCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 2 0.05
45 37 0.90
46 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (45 bp):
GATGTCATAACGTATTTCAGCCATGATCTTACTCATTTATATCAT
Found at i:17652199 original size:26 final size:26
Alignment explanation
Indices: 17652170--17652219 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17652160 TGTTCAATAC
17652170 CTTTTTCCA-ATTGTTTTTACTTTTCA
1 CTTTTTCCATATT-TTTTTACTTTTCA
* *
17652196 CTTTTTCTATATTTTTTTTCTTTT
1 CTTTTTCCATATTTTTTTACTTTT
17652220 TCGCACATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.12, C:0.16, G:0.02, T:0.70
Consensus pattern (26 bp):
CTTTTTCCATATTTTTTTACTTTTCA
Found at i:17653763 original size:13 final size:13
Alignment explanation
Indices: 17653740--17653778 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
17653730 CAAATAATAT
17653740 TAATAAAAATAAAA
1 TAAT-AAAATAAAA
17653754 TAATAAAATAAAA
1 TAATAAAATAAAA
17653767 TAATAAAA-AAAA
1 TAATAAAATAAAA
17653779 CTATCGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 4 0.16
13 17 0.68
14 4 0.16
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
TAATAAAATAAAA
Found at i:17660451 original size:20 final size:20
Alignment explanation
Indices: 17660426--17660464 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
17660416 TGAGTTATTT
17660426 AAGCAAGCA-AGTAAGTAAAC
1 AAGCAAG-AGAGTAAGTAAAC
17660446 AAGCAAGAGAGTAAGTAAA
1 AAGCAAGAGAGTAAGTAAA
17660465 GAAGAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.10, G:0.23, T:0.10
Consensus pattern (20 bp):
AAGCAAGAGAGTAAGTAAAC
Found at i:17665882 original size:13 final size:13
Alignment explanation
Indices: 17665864--17665913 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
17665854 TTAACAATTC
17665864 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
*
17665877 TTTTGAAAGGTGT
1 TTTTGAAAAGTGT
***
17665890 TGGGGAAAAGTGT
1 TTTTGAAAAGTGT
17665903 TTTTGAAAAGT
1 TTTTGAAAAGT
17665914 TTGATTTAAG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:17667428 original size:15 final size:16
Alignment explanation
Indices: 17667408--17667444 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
17667398 TCACTATCAA
17667408 TAATAAAATGA-GACT
1 TAATAAAATGACGACT
*
17667423 TAAT-AATTGACGACT
1 TAATAAAATGACGACT
17667438 TAATAAA
1 TAATAAA
17667445 TGTATATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 12 0.63
16 2 0.11
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (16 bp):
TAATAAAATGACGACT
Found at i:17669260 original size:34 final size:35
Alignment explanation
Indices: 17669216--17669282 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
17669206 CAGTAAAATA
*
17669216 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
17669250 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
17669283 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:17675648 original size:14 final size:14
Alignment explanation
Indices: 17675626--17675663 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
17675616 ATGTGTTTGG
17675626 TATAAAAAAATTTA
1 TATAAAAAAATTTA
*
17675640 TATATAAAAATTTA
1 TATAAAAAAATTTA
*
17675654 -ACAAAAAAAT
1 TATAAAAAAAT
17675664 ATTGAATAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
TATAAAAAAATTTA
Found at i:17675864 original size:21 final size:20
Alignment explanation
Indices: 17675840--17675878 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
17675830 AAATTAAAAT
17675840 AAATAAATAAATAATTTTTTA
1 AAATAAATAAAT-ATTTTTTA
* *
17675861 AAATTAATATATATTTTT
1 AAATAAATAAATATTTTT
17675879 ACCAAACAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATAAATAAATATTTTTTA
Found at i:17679846 original size:197 final size:199
Alignment explanation
Indices: 17679475--17679876 Score: 700
Period size: 197 Copynumber: 2.0 Consensus size: 199
17679465 ACTTTGAGTT
17679475 TTATTGAATCAACTAGTCATTAACCTAGTAGGGCCTCTCGGCCTTCCACTAACCTAATGAGTTGA
1 TTATTGAATCAACTAGTCATTAACCTAGTAGGGCCTCTCGGCCTTCCACTAACCTAATGAGTTGA
*
17679540 CAAGAACTACTTATCTCTCGATGTCATAGTTTAGACCGGATTGGGGTAAGGTTTTCACGGATAGA
66 CAAGAACTACTTA---CTC-A-GTCATAGTTTAGACCGAATTGGGGTAAGGTTTTCACGGATAGA
*
17679605 AAATACCAATTTTGAGTTCATTCCCACCTATATGACTTCCTAGGGTCATCAAGTCTAGGGTTTTA
126 AAATACCAATTTTGAGTTCAATCCCACCTATATGACTTCCTAGGGTCATCAAGTCTAGGGTTTTA
17679670 AGTTCTTCC
191 AGTTCTTCC
17679679 TTATTGAATCAACTAGTCATTAACCTAGTAGGGCCTCTCGGCCTTCCACTAACCTAATGAGTTGA
1 TTATTGAATCAACTAGTCATTAACCTAGTAGGGCCTCTCGGCCTTCCACTAACCTAATGAGTTGA
** *
17679744 CAAGAACTACTTA-TC-GTCATAGTTTAGACCGAATTGGGGTAAGGTTTTCACGGATAGCCAATG
66 CAAGAACTACTTACTCAGTCATAGTTTAGACCGAATTGGGGTAAGGTTTTCACGGATAGAAAATA
17679807 CCAATTTTGAGTTCAATCCCACCTATATGACTTCCTAGGGTCATCAAGTCTAGGGTTTTAAGTTC
131 CCAATTTTGAGTTCAATCCCACCTATATGACTTCCTAGGGTCATCAAGTCTAGGGTTTTAAGTTC
17679872 TTCC
196 TTCC
17679876 T
1 T
17679877 ATCCCAACCA
Statistics
Matches: 193, Mismatches: 5, Indels: 7
0.94 0.02 0.03
Matches are distributed among these distances:
197 113 0.59
200 2 0.01
204 78 0.40
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (199 bp):
TTATTGAATCAACTAGTCATTAACCTAGTAGGGCCTCTCGGCCTTCCACTAACCTAATGAGTTGA
CAAGAACTACTTACTCAGTCATAGTTTAGACCGAATTGGGGTAAGGTTTTCACGGATAGAAAATA
CCAATTTTGAGTTCAATCCCACCTATATGACTTCCTAGGGTCATCAAGTCTAGGGTTTTAAGTTC
TTCC
Found at i:17695659 original size:11 final size:11
Alignment explanation
Indices: 17695643--17695669 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17695633 ATGCTATTGA
17695643 AATGGGAATGT
1 AATGGGAATGT
17695654 AATGGGAATGT
1 AATGGGAATGT
17695665 AATGG
1 AATGG
17695670 AAACATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.26
Consensus pattern (11 bp):
AATGGGAATGT
Found at i:17695803 original size:13 final size:13
Alignment explanation
Indices: 17695785--17695832 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
17695775 AGTTTAGCAA
*
17695785 TGCTTTTGTAAGG
1 TGCTTTTGAAAGG
17695798 TGCTTTTGAAAGG
1 TGCTTTTGAAAGG
* * *
17695811 TGCTGTGGAAAAG
1 TGCTTTTGAAAGG
17695824 TGCTTTTGA
1 TGCTTTTGA
17695833 GAAATAACAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.21, C:0.08, G:0.31, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAGG
Found at i:17704656 original size:101 final size:102
Alignment explanation
Indices: 17704539--17704722 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 102
17704529 AAAGTGATGG
* * *
17704539 TCACGTGTGTATTACTATGTGCAGGCTACTACGTGTACCAGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
* *
17704602 ACTATTTACAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTACAAGCTACTATGCGTACCGGATAGTTTCGA
* * *
17704640 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
17704705 CTATGTACAAGCTACTAT
66 CTATGTACAAGCTACTAT
17704723 ATGAACCGAA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 5 0.07
101 37 0.51
102 31 0.42
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTACAAGCTACTATGCGTACCGGATAGTTTCGA
Found at i:17704668 original size:51 final size:51
Alignment explanation
Indices: 17704592--17704722 Score: 156
Period size: 51 Copynumber: 2.6 Consensus size: 51
17704582 TGATAGGTCG
* * *
17704592 CATGTGTAGTACTATTTACAGGCTACTATGCGTACCGGATAGT-TTCGATCA
1 CATGTGTAGTACTATGTACAAGCTACTATGCGTACCGGATAGTAAT-GATCA
* * * * * * *
17704643 CGTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGGTAATGGTCA
1 CATGTGTAGTACTATGTACAAGCTACTATGCGTACCGGATAGTAATGATCA
17704694 CATGTGTAGTACTATGTACAAGCTACTAT
1 CATGTGTAGTACTATGTACAAGCTACTAT
17704723 ATGAACCGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
51 65 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (51 bp):
CATGTGTAGTACTATGTACAAGCTACTATGCGTACCGGATAGTAATGATCA
Found at i:17704783 original size:45 final size:45
Alignment explanation
Indices: 17704727--17704821 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
17704717 TACTATATGA
* * *
17704727 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCC
*
17704772 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCC
17704817 ACCGA
1 ACCGA
17704822 GTATCTGCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCC
Found at i:17714591 original size:25 final size:25
Alignment explanation
Indices: 17714544--17714591 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
17714534 GACACACCAC
* *
17714544 AGCTCCTAAGAGCATCCCGTTATCT
1 AGCTCCTAAGAGCATCACATTATCT
* *
17714569 AGCTCTTATGAGCATCACATTAT
1 AGCTCCTAAGAGCATCACATTAT
17714592 ATGGCTCTCA
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:0.27, G:0.15, T:0.31
Consensus pattern (25 bp):
AGCTCCTAAGAGCATCACATTATCT
Found at i:17714705 original size:25 final size:26
Alignment explanation
Indices: 17714677--17714736 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
17714667 TGGCTCGTAT
**
17714677 GAGCTTCCCGATAAT-TGGCTCACAA
1 GAGCTTCCCGATAATACAGCTCACAA
* *
17714702 GAGCTTCCC-ATTATACAGCTCACAT
1 GAGCTTCCCGATAATACAGCTCACAA
17714727 GAGCTTCCCG
1 GAGCTTCCCG
17714737 TTACATGGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (26 bp):
GAGCTTCCCGATAATACAGCTCACAA
Found at i:17733243 original size:12 final size:12
Alignment explanation
Indices: 17733226--17733258 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
17733216 AATTGAATAA
17733226 AATGTAAAATTG
1 AATGTAAAATTG
*
17733238 AATGTAGAATTG
1 AATGTAAAATTG
17733250 AATGTAAAA
1 AATGTAAAA
17733259 ATAGGAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (12 bp):
AATGTAAAATTG
Found at i:17744422 original size:20 final size:21
Alignment explanation
Indices: 17744378--17744425 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
17744368 AAACATGTTA
*
17744378 ATTTTTAGTTAATTTTACAATT
1 ATTTTTAGTGAATTTTA-AATT
*
17744400 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTGAATTTTAAATT
17744420 ATTTTT
1 ATTTTT
17744426 GACAAATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.62
Consensus pattern (21 bp):
ATTTTTAGTGAATTTTAAATT
Found at i:17746134 original size:22 final size:22
Alignment explanation
Indices: 17746108--17746149 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17746098 TTTAAAAAGC
*
17746108 CATTTTTGTTAATCTATTTTTA
1 CATTTTGGTTAATCTATTTTTA
* *
17746130 CATTTTGGTTTATTTATTTT
1 CATTTTGGTTAATCTATTTT
17746150 CCTATTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (22 bp):
CATTTTGGTTAATCTATTTTTA
Found at i:17755516 original size:19 final size:18
Alignment explanation
Indices: 17755470--17755517 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
17755460 GATAGAATTT
*
17755470 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
17755489 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
17755507 TTGTATTAAAA
1 TTGTA-TAAAA
17755518 ATTTGAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:17760208 original size:30 final size:30
Alignment explanation
Indices: 17760151--17760209 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
17760141 GCCTTTTGAA
* *
17760151 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
17760181 AATATTTACAAAAAGAG-CAACCAAATTTT
1 AATATTTACAAAAAGAGAC-ACCAAATTTT
17760210 GAAAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:17770022 original size:149 final size:150
Alignment explanation
Indices: 17769745--17770138 Score: 473
Period size: 149 Copynumber: 2.6 Consensus size: 150
17769735 GATAATAACA
* **
17769745 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCT-GTACTGCCAATGCCATG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG-ACTGCCAATGCCATG
* * * *
17769807 TCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCT
65 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATGTCCCAGACATGATCT
* *
17769872 TACGATG-GACCTCTCATCTCGG
129 TAC-ATGAGACCTCTCATATCGC
* *
17769894 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGA-TGCCAATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGACTGCCAATGCCATGT
* * *
17769958 CCCAGACATGGTCTTACATGGGATGTTTTC-TGTAC-TGCCAATGCCATGTCCCAGATATGATCT
66 CCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTGCCAATGCCATGTCCCAGACATGATCT
**
17770021 TACATGAGAGTTCTCATATCGC
129 TACATGAGACCTCTCATATCGC
* * * *
17770043 TGCCCATGCCATGTCCCAGACATGGTCTTACGAT-GGACCTCTCATCTC-ATTGCCAACGCCATG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGACTGCCAATGCCATG
**
17770106 TCCCAGACATGGTCTTACATGGGACCTCTCATA
65 TCCCAGACATGGTCTTACATGGGAGTTCTCATA
17770139 ATTTCAATAA
Statistics
Matches: 212, Mismatches: 24, Indels: 18
0.83 0.09 0.07
Matches are distributed among these distances:
148 7 0.03
149 153 0.72
150 39 0.18
151 12 0.06
152 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (150 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGACTGCCAATGCCATGT
CCCAGACATGGTCTTACATGGGAGTTCTCATATCGTGCCAATGCCATGTCCCAGACATGATCTTA
CATGAGACCTCTCATATCGC
Found at i:17770052 original size:99 final size:100
Alignment explanation
Indices: 17769752--17770126 Score: 458
Period size: 100 Copynumber: 3.8 Consensus size: 100
17769742 ACATGCCAAA
17769752 GCCATGTCCCAGACATGGTCTTAC-ATGGGATGTTTTCTGTACTGCCAATGCCATGTCCCAGATA
1 GCCATGTCCCAGACATGGTCTTACGATGGGATGTTTTCTGTACTGCCAATGCCATGTCCCAGATA
*
17769816 TGGTCTTACATGAGAGTTCTCATATCGGTGCCCAT
66 TGGTCTTACATGAGAGTTCTCATATCGATGCCCAT
* ** * * *
17769851 GCCATGTCCCAGACATGGTCTTACGAT-GGACCTCTCATCTCG--GTGCCAACGCCATGTCCTAG
1 GCCATGTCCCAGACATGGTCTTACGATGGGA--TGTTTTCT-GTACTGCCAATGCCATGTCCCAG
* * ** * *
17769913 ACATGGTCTTACATGGGACCTCTCATCTCGATGCCAAT
63 ATATGGTCTTACATGAGAGTTCTCATATCGATGCCCAT
17769951 GCCATGTCCCAGACATGGTCTTAC-ATGGGATGTTTTCTGTACTGCCAATGCCATGTCCCAGATA
1 GCCATGTCCCAGACATGGTCTTACGATGGGATGTTTTCTGTACTGCCAATGCCATGTCCCAGATA
* *
17770015 TGATCTTACATGAGAGTTCTCATATCGCTGCCCAT
66 TGGTCTTACATGAGAGTTCTCATATCGATGCCCAT
* ** * * *
17770050 GCCATGTCCCAGACATGGTCTTACGAT-GGACCTCTCATCT-CATTGCCAACGCCATGTCCCAGA
1 GCCATGTCCCAGACATGGTCTTACGATGGGA--TGTTTTCTGTACTGCCAATGCCATGTCCCAGA
*
17770113 CATGGTCTTACATG
64 TATGGTCTTACATG
17770127 GGACCTCTCA
Statistics
Matches: 231, Mismatches: 35, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
97 1 0.00
98 5 0.02
99 103 0.45
100 111 0.48
101 10 0.04
102 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (100 bp):
GCCATGTCCCAGACATGGTCTTACGATGGGATGTTTTCTGTACTGCCAATGCCATGTCCCAGATA
TGGTCTTACATGAGAGTTCTCATATCGATGCCCAT
Found at i:17770084 original size:199 final size:199
Alignment explanation
Indices: 17769744--17770137 Score: 734
Period size: 199 Copynumber: 2.0 Consensus size: 199
17769734 TGATAATAAC
17769744 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTGTACTGCCAATGCCATGTC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTGTACTGCCAATGCCATGTC
* *
17769809 CCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTA
66 CCAGATATGATCTTACATGAGAGTTCTCATATCGCTGCCCATGCCATGTCCCAGACATGGTCTTA
* *
17769874 CGATGGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
131 CGATGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
17769939 CTCG
196 CTCG
*
17769943 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTGTACTGCCAATGCCATGTC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTGTACTGCCAATGCCATGTC
17770008 CCAGATATGATCTTACATGAGAGTTCTCATATCGCTGCCCATGCCATGTCCCAGACATGGTCTTA
66 CCAGATATGATCTTACATGAGAGTTCTCATATCGCTGCCCATGCCATGTCCCAGACATGGTCTTA
*
17770073 CGATGGACCTCTCATCTCATTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
131 CGATGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
17770138 AATTTCAATA
Statistics
Matches: 189, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
199 189 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (199 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTCTGTACTGCCAATGCCATGTC
CCAGATATGATCTTACATGAGAGTTCTCATATCGCTGCCCATGCCATGTCCCAGACATGGTCTTA
CGATGGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
CTCG
Found at i:17770131 original size:50 final size:50
Alignment explanation
Indices: 17769745--17770137 Score: 413
Period size: 50 Copynumber: 7.9 Consensus size: 50
17769735 GATAATAACA
* * ** *
17769745 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CAC
* * ** * **
17769794 TGCCAATGCCATGTCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAC
* **
17769844 TGCCCATGCCATGTCCCAGACATGGTCTTACGAT-GGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCAC
* *
17769894 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGA-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-AC
* ** *
17769944 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CAC
* * * ** * *
17769993 TGCCAATGCCATGTCCCAGATATGATCTTACATGAGAGTTCTCATATCGC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAC
* *
17770043 TGCCCATGCCATGTCCCAGACATGGTCTTACGAT-GGACCTCTCATCTCAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCAC
*
17770093 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
17770138 AATTTCAATA
Statistics
Matches: 287, Mismatches: 46, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
48 6 0.02
49 72 0.25
50 197 0.69
51 12 0.04
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAC
Found at i:17770170 original size:56 final size:49
Alignment explanation
Indices: 17769745--17770226 Score: 388
Period size: 50 Copynumber: 9.6 Consensus size: 49
17769735 GATAATAACA
* * ** * *
17769745 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT-GGACCTCTCATCT-CAT
* ** * **
17769794 TGCCAATGCCATGTCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GACCTCTCATCTCAT
* **
17769844 TGCCCATGCCATGTCCCAGACATGGTCTTACGATGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGACCTCTCATCTCAT
* *
17769894 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGA-
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT-GGACCTCTCATCTC-AT
* ** * *
17769944 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT-GGACCTCTCATCT-CAT
* * ** * **
17769993 TGCCAATGCCATGTCCCAGATATGATCTTACATGAGAGTTCTCATATCGC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GACCTCTCATCTCAT
*
17770043 TGCCCATGCCATGTCCCAGACATGGTCTTACGATGGACCTCTCATCTCAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGACCTCTCATCTCAT
* *
17770093 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT-GGACCTCTC---ATCTC-AT
* * *
17770147 AATGTCAATGCCATGTCCTAGACATGGTCTTACACTGG--CTCACA-CATCGA-
1 --TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGACCTCTCATC-TC-AT
* *
17770197 TGTCAATGCCATATCCCAGACATGGTCTTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTA
17770227 TACAAGATCG
Statistics
Matches: 361, Mismatches: 51, Indels: 43
0.79 0.11 0.09
Matches are distributed among these distances:
48 36 0.10
49 70 0.19
50 195 0.54
51 18 0.05
53 4 0.01
54 6 0.02
56 31 0.09
57 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGACCTCTCATCTCAT
Found at i:17770246 original size:48 final size:48
Alignment explanation
Indices: 17770148--17770246 Score: 117
Period size: 48 Copynumber: 2.1 Consensus size: 48
17770138 AATTTCAATA
* * ** * *
17770148 ATGTCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCACACATCG
1 ATGTCAATGCCATATCCCAGACATGGTCTTACACAAGATCACACACCG
* * *
17770196 ATGTCAATGCCATATCCCAGACATGGTCTTATACAAGATCGCATACCG
1 ATGTCAATGCCATATCCCAGACATGGTCTTACACAAGATCACACACCG
17770244 ATG
1 ATG
17770247 CCATATCCCA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
ATGTCAATGCCATATCCCAGACATGGTCTTACACAAGATCACACACCG
Found at i:17787902 original size:22 final size:22
Alignment explanation
Indices: 17787874--17787918 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
17787864 ATTCAACCAT
*
17787874 AAGATTAGTAGATTTCTGTAAC
1 AAGATTAGTAGATTTCTATAAC
*
17787896 AAGATTAGTATATTTCTATAAC
1 AAGATTAGTAGATTTCTATAAC
17787918 A
1 A
17787919 CCCCTAATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (22 bp):
AAGATTAGTAGATTTCTATAAC
Found at i:17791225 original size:31 final size:31
Alignment explanation
Indices: 17791187--17791251 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
17791177 TCCTTTCGGA
17791187 ATCCTTTACTTAGTAAATACACATTTTATTG
1 ATCCTTTACTTAGTAAATACACATTTTATTG
17791218 ATCCTTTACTTAGTAAATACACATTTTATTG
1 ATCCTTTACTTAGTAAATACACATTTTATTG
17791249 ATC
1 ATC
17791252 ATTATTTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (31 bp):
ATCCTTTACTTAGTAAATACACATTTTATTG
Found at i:17800253 original size:18 final size:18
Alignment explanation
Indices: 17800230--17800265 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17800220 TTAGCATACT
*
17800230 TTAGATTTATTGAAACCC
1 TTAGATTTATCGAAACCC
17800248 TTAGATTTATCGAAACCC
1 TTAGATTTATCGAAACCC
17800266 AACCCAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (18 bp):
TTAGATTTATCGAAACCC
Found at i:17802892 original size:49 final size:50
Alignment explanation
Indices: 17802828--17802948 Score: 140
Period size: 49 Copynumber: 2.4 Consensus size: 50
17802818 CGTATTTTCC
* * * * *
17802828 TCAATCTTTACAATCCCATTTCCTCAAAATCTCGT-CTTTTTCTCC-TTGTT
1 TCAATCTTTAAAATCCCATTTCATCAAAATCCCATAC--TTTCCCCTTTGTT
* *
17802878 T-AATCTGTAAAATCCCAGTTCATCAAAATCCCATACTTTCCCCTTTGTT
1 TCAATCTTTAAAATCCCATTTCATCAAAATCCCATACTTTCCCCTTTGTT
17802927 TCAATCTTTAAAATCCCATTTC
1 TCAATCTTTAAAATCCCATTTC
17802949 TTTAAAAACC
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
48 6 0.10
49 33 0.56
50 20 0.34
ACGTcount: A:0.26, C:0.29, G:0.04, T:0.41
Consensus pattern (50 bp):
TCAATCTTTAAAATCCCATTTCATCAAAATCCCATACTTTCCCCTTTGTT
Found at i:17806604 original size:18 final size:22
Alignment explanation
Indices: 17806562--17806606 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 22
17806552 ATTAAAATCG
17806562 ATTATTATAAGTACTAAATTTA
1 ATTATTATAAGTACTAAATTTA
17806584 ATTATT-TAAGT-CT-AA-TTA
1 ATTATTATAAGTACTAAATTTA
17806602 ATTAT
1 ATTAT
17806607 CTCACTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 2 0.09
21 5 0.22
22 6 0.26
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTATTATAAGTACTAAATTTA
Done.