Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005166.1 Hibiscus syriacus cultivar Beakdansim tig00011654_pilon, whole genome shotgun sequence
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: 110631
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:3989 original size:19 final size:18
Alignment explanation
Indices: 3961--3996 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
3951 TACAAGTTCT
*
3961 AAATTATATTATTTTAAA
1 AAATTATATTAATTTAAA
3979 AAATATATATTAATTTAA
1 AAAT-TATATTAATTTAA
3997 GACTAGATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTATATTAATTTAAA
Found at i:7725 original size:18 final size:18
Alignment explanation
Indices: 7702--7736 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7692 ACTGTATATT
*
7702 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
7720 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
7737 CCTTAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:8580 original size:63 final size:63
Alignment explanation
Indices: 8440--8559 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 63
8430 AATGCATCCT
*
8440 TTAACGAGTGCATCGATGCACTACTTATGCATCGAAACACAAATTGCATTCGATGTTTTCATC
1 TTAAGGAGTGCATCGATGCACTACTTATGCATCGAAACACAAATTGCATTCGATGTTTTCATC
* * ** *
8503 TTAAGGGGTGCATCGGTGCACT-CATTATGCATCGATGCACTAATTGCATTCGATGTT
1 TTAAGGAGTGCATCGATGCACTAC-TTATGCATCGAAACACAAATTGCATTCGATGTT
8560 CATTTATTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
62 1 0.02
63 49 0.98
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (63 bp):
TTAAGGAGTGCATCGATGCACTACTTATGCATCGAAACACAAATTGCATTCGATGTTTTCATC
Found at i:26649 original size:20 final size:20
Alignment explanation
Indices: 26624--26679 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
26614 GCTCTTTCGA
26624 AGAGTTTCAAAACTTTCCCC
1 AGAGTTTCAAAACTTTCCCC
*
26644 AGAGTTTAAAAACTTTCCCC
1 AGAGTTTCAAAACTTTCCCC
*
26664 AGAGTTTCGAAACTTT
1 AGAGTTTCAAAACTTT
26680 GTGTGCATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (20 bp):
AGAGTTTCAAAACTTTCCCC
Found at i:27208 original size:43 final size:43
Alignment explanation
Indices: 27132--27400 Score: 333
Period size: 43 Copynumber: 6.2 Consensus size: 43
27122 GCTAAAGTTC
* * * *** *
27132 GCGGCGTTTGGTAACAAAAAACACCGCAATAGGTAACGATATATA
1 GCGGCGTTT-GT-CCAACAAACGCCGCAATAGGTGTTGATATTTA
27177 GCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGATATTTA
*
27220 GCGGCGTTTGTCCAACAAACACCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGATATTTA
* * *
27263 GTGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATTTA
1 GCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGATATTTA
* * *
27306 GCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATTTA
1 GCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGATATTTA
* * * * *
27349 GCGGCATTTTTTCC-ACAAACGTCGCAATAGGTCTTGAGATTTA
1 GCGGC-GTTTGTCCAACAAACGCCGCAATAGGTGTTGATATTTA
27392 GCGGCGTTT
1 GCGGCGTTT
27401 TTTCCATAAA
Statistics
Matches: 205, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
42 3 0.01
43 184 0.90
44 9 0.04
45 9 0.04
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
GCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGATATTTA
Found at i:27418 original size:43 final size:43
Alignment explanation
Indices: 27175--27402 Score: 350
Period size: 43 Copynumber: 5.3 Consensus size: 43
27165 TAACGATATA
* *
27175 TAGCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGATATT
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
* * *
27218 TAGCGGCGTTTGTCCAACAAACACCGCAATAGGTGTTGATATT
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
*
27261 TAGTGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
*
27304 TAGCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATT
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
* * *
27347 TAGCGGCATTTTTTCC-ACAAACGTCGCAATAGGTCTTGAGATT
1 TAGCGGC-GTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
27390 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
27403 TCCATAAACA
Statistics
Matches: 173, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
42 5 0.03
43 161 0.93
44 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (43 bp):
TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
Found at i:27445 original size:86 final size:86
Alignment explanation
Indices: 27150--27466 Score: 320
Period size: 86 Copynumber: 3.7 Consensus size: 86
27140 TGGTAACAAA
*** * * ** * *
27150 AAACACCGCAATAGGTAACGATATATAGCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGAT
1 AAACACCGCAATAGGTGTTGGTATTTAGCGGATTTTTTCCAACAAACGCCGCAATAGGTGTTGAG
*
27215 ATTTAGCGGCG-TTTGTCCAAC
66 ATTTAGCGGCGTTTTTTCC-AC
* * **
27236 AAACACCGCAATAGGTGTTGATATTTAGTGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAG
1 AAACACCGCAATAGGTGTTGGTATTTAGCGGATTTTTTCCAACAAACGCCGCAATAGGTGTTGAG
*
27301 ATTTAGCGGCGTTTTTCCCAC
66 ATTTAGCGGCGTTTTTTCCAC
* * *
27322 AAACGCCGCAATAGGTGTTGAG-ATTTAGCGGCATTTTTTCC-ACAAACGTCGCAATAGGTCTTG
1 AAACACCGCAATAGGTGTTG-GTATTTAGCGG-ATTTTTTCCAACAAACGCCGCAATAGGTGTTG
*
27385 AGATTTAGCGGCGTTTTTTCCAT
64 AGATTTAGCGGCGTTTTTTCCAC
* * * * ** *
27408 AAACACCGCAAAAGAT-CTGGTATATAGCCGTG-TTTTTTAGAACAAACGCCGCAAAAGGT
1 AAACACCGCAATAGGTGTTGGTATTTAG-CG-GATTTTTTCCAACAAACGCCGCAATAGGT
27467 AATATCTATA
Statistics
Matches: 197, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
84 1 0.01
85 13 0.07
86 170 0.86
87 13 0.07
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (86 bp):
AAACACCGCAATAGGTGTTGGTATTTAGCGGATTTTTTCCAACAAACGCCGCAATAGGTGTTGAG
ATTTAGCGGCGTTTTTTCCAC
Found at i:27445 original size:129 final size:129
Alignment explanation
Indices: 27172--27466 Score: 319
Period size: 129 Copynumber: 2.3 Consensus size: 129
27162 AGGTAACGAT
* * * *
27172 ATATAGCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCCAACA
1 ATATAGCCGCGTTTTTACAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTGTCCAACA
* * * * * * *
27237 AACACCGCAATAGGTGTTGATATTTAGTGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAG
66 AACACCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCAACAAACACCGCAAAAGATGCTGAG
* * * * * *
27301 ATTTAGCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCATTTTTTCC-AC
1 ATATAGCCGCGTTTTTACAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGC-GTTTGTCCAAC
** *
27365 AAACGTCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTTCC-ATAAACACCGCAAAAGAT-CTG-
65 AAACACCGCAATAGGTCTTGAGATTTAGCGGCG-TTTTTCCAACAAACACCGCAAAAGATGCTGA
27427 G
129 G
* * *
27428 TATATAGCCGTGTTTTTTAGAACAAACGCCGCAAAAGGT
1 -ATATAGCCGCG-TTTTTACAACAAACGCCGCAATAGGT
27467 AATATCTATA
Statistics
Matches: 139, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
127 1 0.01
128 10 0.07
129 115 0.83
130 13 0.09
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (129 bp):
ATATAGCCGCGTTTTTACAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTGTCCAACA
AACACCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCAACAAACACCGCAAAAGATGCTGAG
Found at i:27640 original size:21 final size:21
Alignment explanation
Indices: 27614--27672 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
27604 ATTTTCCAAT
*
27614 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
27635 AAACTTAAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
**
27656 AAAAATGAAATCCATAA
1 AAACTTGAAATCCATAA
27673 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:32274 original size:42 final size:41
Alignment explanation
Indices: 32228--32306 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
32218 ACCTTTTATC
*
32228 ATTTTATAGCGGCGTTT-TCTAAAAAACGCCGCTAAAGTACAT
1 ATTTT-TAGCGGCATTTGTCT-AAAAACGCCGCTAAAGTACAT
* *
32270 ATTTTTTGCGGCATTTGTGTAAAAACGCCGCTAAAGT
1 ATTTTTAGCGGCATTTGTCTAAAAACGCCGCTAAAGT
32307 TCTAATATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 26 0.79
42 7 0.21
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (41 bp):
ATTTTTAGCGGCATTTGTCTAAAAACGCCGCTAAAGTACAT
Found at i:32492 original size:84 final size:84
Alignment explanation
Indices: 32275--32496 Score: 252
Period size: 84 Copynumber: 2.6 Consensus size: 84
32265 TACATATTTT
* * * * * * *
32275 TTGCGGCATTTGTGTAAAAACGCCGCTAAAGTTCTAATATGTTGCAGCGTTTATTAGAAAAAAAG
1 TTGCAGCATTTGTATAAAAACGCCGCTAAAGTACTAATCTGTTGCGGCGTTTGTCAGAAAAAAAG
32340 CCACTATAGGAGAACTCTA
66 CCACTATAGGAGAACTCTA
** * * *
32359 TTGTGGCATTTTTATAAAAACGCCGCTAAAGTACAAATCTTTTGCGGCGTTTGTCAGAAAAAAAT
1 TTGCAGCATTTGTATAAAAACGCCGCTAAAGTACTAATCTGTTGCGGCGTTTGTCAGAAAAAAA-
*
32424 GCCACTATA-GATGGAC-CTA
65 GCCACTATAGGA-GAACTCTA
* * *
32443 TTGCAG-AGTTTGTATAAAAACTCCGCTAAAGTACTACTCTGTTGTGGCGTTTGT
1 TTGCAGCA-TTTGTATAAAAACGCCGCTAAAGTACTAATCTGTTGCGGCGTTTGT
32497 TGAAAAACGT
Statistics
Matches: 116, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
83 1 0.01
84 103 0.89
85 12 0.10
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (84 bp):
TTGCAGCATTTGTATAAAAACGCCGCTAAAGTACTAATCTGTTGCGGCGTTTGTCAGAAAAAAAG
CCACTATAGGAGAACTCTA
Found at i:34422 original size:22 final size:22
Alignment explanation
Indices: 34396--34453 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
34386 ACAACATTAG
*
34396 ATAATGTCACAACATCATGGTA
1 ATAATATCACAACATCATGGTA
34418 ATAATATCACAACATCATGGTA
1 ATAATATCACAACATCATGGTA
*
34440 ACAATATCACAACA
1 ATAATATCACAACA
34454 AAATACCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (22 bp):
ATAATATCACAACATCATGGTA
Found at i:38945 original size:16 final size:16
Alignment explanation
Indices: 38926--38959 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38916 ATATATATTG
38926 TTATTTTTCTGATTTT
1 TTATTTTTCTGATTTT
* *
38942 TTATTTTTGTTATTTT
1 TTATTTTTCTGATTTT
38958 TT
1 TT
38960 TACTTTCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (16 bp):
TTATTTTTCTGATTTT
Found at i:39115 original size:17 final size:15
Alignment explanation
Indices: 39086--39120 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
39076 ATAATATAAT
39086 AAATTCAAGTAGATA
1 AAATTCAAGTAGATA
39101 AAATTGCAAGATAGATA
1 AAATT-CAAG-TAGATA
39118 AAA
1 AAA
39121 ATACATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 4 0.22
17 9 0.50
ACGTcount: A:0.57, C:0.06, G:0.14, T:0.23
Consensus pattern (15 bp):
AAATTCAAGTAGATA
Found at i:43272 original size:50 final size:50
Alignment explanation
Indices: 43204--43328 Score: 173
Period size: 50 Copynumber: 2.5 Consensus size: 50
43194 TTAGCAGAAA
* * *
43204 AGCGCG-CCCCTGCACCGCGCTATATGTTGATTTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGGTGATCTGGCGCCACGTGGGTAT
* *
43253 AGCGCGCCCCCTGCCCCGCGATATACGGTGATCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGGTGATCTGGCGCCACGTGGGTAT
*
43303 AGCGCACCCCCTG-ATCCGCGCTATAC
1 AGCGCGCCCCCTGCA-CCGCGCTATAC
43329 ATGGGTATCT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 6 0.09
50 60 0.91
ACGTcount: A:0.15, C:0.36, G:0.29, T:0.20
Consensus pattern (50 bp):
AGCGCGCCCCCTGCACCGCGCTATACGGTGATCTGGCGCCACGTGGGTAT
Found at i:43510 original size:13 final size:14
Alignment explanation
Indices: 43482--43510 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43472 ATATTTTATA
43482 ATGTTTTTACTATT
1 ATGTTTTTACTATT
43496 ATGTTTTTACT-TT
1 ATGTTTTTACTATT
43509 AT
1 AT
43511 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (14 bp):
ATGTTTTTACTATT
Found at i:43779 original size:111 final size:111
Alignment explanation
Indices: 43585--43806 Score: 399
Period size: 111 Copynumber: 2.0 Consensus size: 111
43575 TGGAAATCAT
* *
43585 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
* * *
43650 TATTTAGTTGATTTATTTAATGCATTATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
43696 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
43761 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
43807 TTTTTGTAAT
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:46082 original size:50 final size:50
Alignment explanation
Indices: 45979--46089 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 50
45969 TAGCGCGAAT
* * * * * *
45979 CAGGGGGCGCGCTAGACCCATGTGGCGCCAGATCACCGTATATCACGGGG
1 CAGGGGGCGCGCTAGACCCACGTGACGCCAAATCACCATATAGCACAGGG
* * * *
46029 CAGGGGGCGCGCTATACCCACGTGACGCCAAATCAGCATATAGCGCAGTG
1 CAGGGGGCGCGCTAGACCCACGTGACGCCAAATCACCATATAGCACAGGG
46079 CAGGGGGCGCG
1 CAGGGGGCGCG
46090 TTTTTCTGCT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.22, C:0.30, G:0.36, T:0.13
Consensus pattern (50 bp):
CAGGGGGCGCGCTAGACCCACGTGACGCCAAATCACCATATAGCACAGGG
Found at i:46402 original size:21 final size:22
Alignment explanation
Indices: 46367--46408 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
46357 GATTAAATTT
46367 ATTAAATTAAATTAAAATTATG
1 ATTAAATTAAATTAAAATTATG
*
46389 ATTAAATT-AATTAAATTTAT
1 ATTAAATTAAATTAAAATTAT
46409 AAATATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTAAATTAAATTAAAATTATG
Found at i:46407 original size:40 final size:44
Alignment explanation
Indices: 46358--46445 Score: 112
Period size: 45 Copynumber: 2.1 Consensus size: 44
46348 TAATTAGATG
* *
46358 ATTAAATTTATTAA-ATTAAA-TTAAA-AT-TATGATTAAATTA
1 ATTAAATTTATAAATATTAAAGTTAAATATATATAATTAAATTA
*
46398 ATTAAATTTATAAATATTAAAGGTTAAATATATATAATTATATTA
1 ATTAAATTTATAAATATTAAA-GTTAAATATATATAATTAAATTA
46443 ATT
1 ATT
46446 TTACTAACTG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
40 13 0.32
41 6 0.15
43 5 0.12
44 2 0.05
45 14 0.35
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.45
Consensus pattern (44 bp):
ATTAAATTTATAAATATTAAAGTTAAATATATATAATTAAATTA
Found at i:50104 original size:3 final size:3
Alignment explanation
Indices: 50096--50148 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
50086 TTTGAGCGGT
50096 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50144 TTA TT
1 TTA TT
50149 GAAGAGAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50708 original size:12 final size:12
Alignment explanation
Indices: 50687--50716 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50677 TCTCGGGTCA
50687 GGTCGGGGTCGT
1 GGTCGGGGTCGT
*
50699 GGTCGTGGTCGT
1 GGTCGGGGTCGT
50711 GGTCGG
1 GGTCGG
50717 TCATTGGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.57, T:0.27
Consensus pattern (12 bp):
GGTCGGGGTCGT
Found at i:50930 original size:29 final size:30
Alignment explanation
Indices: 50864--50931 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
50854 CTTATACCCC
* *
50864 CAATTTTTTTGTATTTATAATTAGGGTCAT
1 CAATTTTTTTATATTTATAATTAGGGACAT
*
50894 CAATTTTTTTATATTTATAATTA-GGACCT
1 CAATTTTTTTATATTTATAATTAGGGACAT
50923 CTAATTTTT
1 C-AATTTTT
50932 ATAATTTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (30 bp):
CAATTTTTTTATATTTATAATTAGGGACAT
Found at i:51113 original size:116 final size:116
Alignment explanation
Indices: 50899--51136 Score: 282
Period size: 116 Copynumber: 2.0 Consensus size: 116
50889 GTCATCAATT
* * *
50899 TTTTTATATTTATAATTAGGACCTCTAATTTTTATAATTTCATAAAATTTTTAGGTTCTAACCCT
1 TTTTTATATTTATAATTAGGACCTCTAATTTTTAAAATTTCATAAAATGTTTAGGTTCTAACACT
*
50964 CTTTGTCCATGTCTCTTATTAAATAATTTAATTTTAAATTAAATTTAACCA
66 CTTTGTCCATGTCTCTTATTAAATAATTCAATTTTAAATTAAATTTAACCA
* * * * * *
51015 TTTTTGTATTTATAATTAAGGCCCT-TAATTTTTAAAATTTCATAAAATGTTTAGTTTTTGACAT
1 TTTTTATATTTATAATT-AGGACCTCTAATTTTTAAAATTTCATAAAATGTTTAGGTTCTAACAC
* * * * * * *
51079 TCTTTTTCTAT-TCCTCTTATTTATTCATTCAATTTTGAATTAAATTTAATCA
65 TCTTTGTCCATGT-CTCTTATTAAATAATTCAATTTTAAATTAAATTTAACCA
51131 TGTTTT
1 T-TTTT
51137 TCTCTTTTTT
Statistics
Matches: 102, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
115 1 0.01
116 91 0.89
117 10 0.10
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (116 bp):
TTTTTATATTTATAATTAGGACCTCTAATTTTTAAAATTTCATAAAATGTTTAGGTTCTAACACT
CTTTGTCCATGTCTCTTATTAAATAATTCAATTTTAAATTAAATTTAACCA
Found at i:52502 original size:36 final size:36
Alignment explanation
Indices: 52431--52503 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
52421 GTTGGAAAAT
* *
52431 ATTTATATATTTTCTTTAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATGAAAATCATAAA
*
52467 ATTTATATAATTTT-TTTATAAAACTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAAATGAAAATCATAAA
52503 A
1 A
52504 AGATTTAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 18 0.56
37 14 0.44
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAAATGAAAATCATAAA
Found at i:53781 original size:2 final size:2
Alignment explanation
Indices: 53774--53814 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
53764 ACCTATGAAT
53774 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
53815 TCATTGAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:58131 original size:11 final size:11
Alignment explanation
Indices: 58115--58200 Score: 52
Period size: 11 Copynumber: 7.5 Consensus size: 11
58105 ATGATAAAAT
58115 AGAAAAAATAA
1 AGAAAAAATAA
*
58126 AG-AAAAATGA
1 AGAAAAAATAA
*
58136 AGAAATAAAGAA
1 AGAAA-AAATAA
*
58148 ATAAGAAAAT--
1 AGAA-AAAATAA
58158 AGAAACACAATAAA
1 AGAAA-A-AAT-AA
58172 ACGAAAAAATAA
1 A-GAAAAAATAA
*
58184 ATAAAAAATAA
1 AGAAAAAATAA
*
58195 ATAAAA
1 AGAAAA
58201 CAAAATAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
9 1 0.02
10 13 0.22
11 22 0.37
12 13 0.22
13 4 0.07
14 2 0.03
15 4 0.07
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (11 bp):
AGAAAAAATAA
Found at i:58141 original size:18 final size:19
Alignment explanation
Indices: 58110--58148 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
58100 AACATATGAT
58110 AAAATAGAAAAAATAAAGA
1 AAAATAGAAAAAATAAAGA
*
58129 AAAAT-GAAGAAATAAAGA
1 AAAATAGAAAAAATAAAGA
58147 AA
1 AA
58149 TAAGAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (19 bp):
AAAATAGAAAAAATAAAGA
Found at i:58189 original size:10 final size:10
Alignment explanation
Indices: 58176--58218 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
58166 AATAAAACGA
58176 AAAAATAAAT
1 AAAAATAAAT
58186 AAAAAATAAAT
1 -AAAAATAAAT
58197 AAAACA-AAAT
1 AAAA-ATAAAT
*
58207 AAAAATATAT
1 AAAAATAAAT
58217 AA
1 AA
58219 TAACATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 1 0.03
10 17 0.59
11 11 0.38
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:58211 original size:11 final size:11
Alignment explanation
Indices: 58175--58221 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
58165 CAATAAAACG
58175 AAAAAATAAAT
1 AAAAAATAAAT
58186 AAAAAATAAAT
1 AAAAAATAAAT
*
58197 AAAACA-AAAT
1 AAAAAATAAAT
58207 AAAAATATATAAT
1 AAAAA-ATA-AAT
58220 AA
1 AA
58222 CATATAAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 8 0.26
11 17 0.55
12 1 0.03
13 5 0.16
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:58211 original size:20 final size:22
Alignment explanation
Indices: 58182--58223 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
58172 ACGAAAAAAT
58182 AAATAAAAAATAAATAA-AACA
1 AAATAAAAAATAAATAATAACA
*
58203 AAAT-AAAAATATATAATAACA
1 AAATAAAAAATAAATAATAACA
58224 TATAAGCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (22 bp):
AAATAAAAAATAAATAATAACA
Found at i:58228 original size:20 final size:20
Alignment explanation
Indices: 58179--58228 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
58169 AAAACGAAAA
58179 AATAA-ATA-AAAAATAAAT
1 AATAACATATAAAAATAAAT
* *
58197 AA-AACAAAATAAAAATATAT
1 AATAAC-ATATAAAAATAAAT
58217 AATAACATATAA
1 AATAACATATAA
58229 GCAAGATACT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
17 2 0.08
18 2 0.08
19 2 0.08
20 16 0.64
21 3 0.12
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (20 bp):
AATAACATATAAAAATAAAT
Found at i:58431 original size:3 final size:3
Alignment explanation
Indices: 58388--58414 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
58378 ATATGCATAT
58388 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
58415 CTATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:58482 original size:22 final size:21
Alignment explanation
Indices: 58434--58482 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
58424 TATAATAACT
*
58434 AAATATGAGAAAAAATTAATA
1 AAATATGAGAAAAAAATAATA
58455 ATAATA-GAGAAACAAAATAATGA
1 A-AATATGAGAAA-AAAATAAT-A
58478 AAATA
1 AAATA
58483 AATATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 7 0.29
22 15 0.62
23 2 0.08
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.20
Consensus pattern (21 bp):
AAATATGAGAAAAAAATAATA
Found at i:58499 original size:52 final size:52
Alignment explanation
Indices: 58454--58554 Score: 125
Period size: 52 Copynumber: 1.9 Consensus size: 52
58444 AAAAATTAAT
* *
58454 AATAATAGAGAAACAAAAT-AATGAAAATAA-ATATAATAATAAAAAATAATAAA
1 AATAA-AGAGAAA-AAAATAAAAGAAAATAAGATAGAAT-ATAAAAAATAATAAA
* *
58507 AATAAAGAGTAAAAAATAAAAGAAAATAAGATAGAATATAAAATATAA
1 AATAAAGAGAAAAAAATAAAAGAAAATAAGATAGAATATAAAAAATAA
58555 AATATATACA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
51 5 0.12
52 26 0.62
53 11 0.26
ACGTcount: A:0.71, C:0.01, G:0.08, T:0.20
Consensus pattern (52 bp):
AATAAAGAGAAAAAAATAAAAGAAAATAAGATAGAATATAAAAAATAATAAA
Found at i:58502 original size:13 final size:13
Alignment explanation
Indices: 58468--58527 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 13
58458 ATAGAGAAAC
58468 AAAATAATGAAAAT
1 AAAATAAT-AAAAT
58482 AAATATAATAATAA-
1 AAA-ATAATAA-AAT
58496 AAAATAATAAAAAT
1 AAAATAAT-AAAAT
58510 AAAGAGTAA-AAAAT
1 AAA-A-TAATAAAAT
58524 AAAA
1 AAAA
58528 GAAAATAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 8 0.20
14 21 0.52
15 8 0.20
16 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:59774 original size:2 final size:2
Alignment explanation
Indices: 59767--59863 Score: 185
Period size: 2 Copynumber: 48.5 Consensus size: 2
59757 TATGTAAATA
59767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59809 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
59851 AT AT AT AC AT AT A
1 AT AT AT AT AT AT A
59864 AATTATGTAA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 93 1.00
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60809 original size:110 final size:110
Alignment explanation
Indices: 60655--60861 Score: 333
Period size: 110 Copynumber: 1.9 Consensus size: 110
60645 AACTGGGAAA
* * *
60655 TTGTTTGTTGACAGCCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCTAATA
1 TTGTTTGTTGACAACCAGCCGCCCCTTCATTGCGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
*
60720 TCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAGCTGAAAAG
66 TCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAGCTGAAAAG
* * * *
60765 TTGTTTGTTGACAATCAGTCGCCTCTTCATTGCGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATA
1 TTGTTTGTTGACAACCAGCCGCCCCTTCATTGCGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
*
60830 TCCTTCGCTGTGAAGTTGAAATTGGCTCTGAA
66 TCCTTCGCTGTGAAGTTGAAATTGACTCTGAA
60862 ATTAGGAAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 88 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (110 bp):
TTGTTTGTTGACAACCAGCCGCCCCTTCATTGCGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATA
TCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAGCTGAAAAG
Found at i:65565 original size:15 final size:16
Alignment explanation
Indices: 65541--65573 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
65531 TTAAATTCGA
65541 AAGAAAATAGA-AATG
1 AAGAAAATAGACAATG
*
65556 AAGAAGATAGACAATG
1 AAGAAAATAGACAATG
65572 AA
1 AA
65574 TTCAAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.64, C:0.03, G:0.21, T:0.12
Consensus pattern (16 bp):
AAGAAAATAGACAATG
Found at i:71409 original size:13 final size:13
Alignment explanation
Indices: 71391--71415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71381 CACTCAAAAA
71391 CGGGTTTAGAGCT
1 CGGGTTTAGAGCT
71404 CGGGTTTAGAGC
1 CGGGTTTAGAGC
71416 CTTAAGTGAA
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:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (13 bp):
CGGGTTTAGAGCT
Found at i:72013 original size:27 final size:26
Alignment explanation
Indices: 71966--72043 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
71956 AAAAGGTGAT
* **
71966 GAAAATAAATTAAGATTAAAAATAAA
1 GAAAATAAATGAAGAACAAAAATAAA
*
71992 GAAAATGAAATGAAGAAC-AAAATAGA
1 GAAAAT-AAATGAAGAACAAAAATAAA
*
72018 CAAAATAAATGATA-AACAATAAATAA
1 GAAAATAAATGA-AGAACAA-AAATAA
72044 CATAATCAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
25 9 0.21
26 20 0.48
27 13 0.31
ACGTcount: A:0.68, C:0.04, G:0.10, T:0.18
Consensus pattern (26 bp):
GAAAATAAATGAAGAACAAAAATAAA
Found at i:72141 original size:17 final size:19
Alignment explanation
Indices: 72111--72148 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
72101 AACATATGAT
72111 AAAATAGAAAAAATAA-AA
1 AAAATAGAAAAAATAAGAA
*
72129 AAAAT-GAAGAAATAAGAA
1 AAAATAGAAAAAATAAGAA
72147 AA
1 AA
72149 TAGAAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (19 bp):
AAAATAGAAAAAATAAGAA
Found at i:72397 original size:18 final size:19
Alignment explanation
Indices: 72374--72432 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
72364 GCATATGCAT
72374 ATATAATA-ATAATACTAA
1 ATATAATATATAATACTAA
*
72392 ATATAA-ATATAA-A-TAT
1 ATATAATATATAATACTAA
72408 ATATATATATATAATAGCTAA
1 ATATA-ATATATAATA-CTAA
72429 ATAT
1 ATAT
72433 GAGAAAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
16 7 0.21
17 3 0.09
18 16 0.48
19 1 0.03
21 6 0.18
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (19 bp):
ATATAATATATAATACTAA
Found at i:72630 original size:32 final size:32
Alignment explanation
Indices: 72594--72655 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
72584 ATCAAGGGCC
*
72594 AAATAAAAGTAATAACAGAGGGGGTTAATTTG
1 AAATAAAAGCAATAACAGAGGGGGTTAATTTG
72626 AAATAAAAGCAATAACAGAGGGGGTTAATT
1 AAATAAAAGCAATAACAGAGGGGGTTAATT
72656 AAAAAGACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.48, C:0.05, G:0.24, T:0.23
Consensus pattern (32 bp):
AAATAAAAGCAATAACAGAGGGGGTTAATTTG
Found at i:73437 original size:2 final size:2
Alignment explanation
Indices: 73430--73480 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
73420 TATGTAAATA
73430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73472 AT AT AT AT A
1 AT AT AT AT A
73481 ACATATAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:75041 original size:13 final size:13
Alignment explanation
Indices: 75025--75087 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
75015 GACTTATTAT
75025 ATAAAATTATTTA
1 ATAAAATTATTTA
75038 ATAAAATTATTTAA
1 ATAAAATTATTT-A
* *
75052 ATGTAAATTATATA
1 AT-AAAATTATTTA
* *
75066 A-AACATGA-TTA
1 ATAAAATTATTTA
75077 ATAAAATTATT
1 ATAAAATTATT
75088 GGCATTGATC
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
11 3 0.08
12 9 0.24
13 13 0.34
14 5 0.13
15 8 0.21
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:76296 original size:63 final size:66
Alignment explanation
Indices: 76206--76502 Score: 190
Period size: 63 Copynumber: 4.2 Consensus size: 66
76196 TTTCAAAAAC
* * * * * *
76206 CTTTTGAAAGTATATATATTATATAGTTTTGAAAT-TTTT-TATATAATGTATGGTTTTTGAAA-
1 CTTTTGAAA--ATATATAATATATAGTTTTGAAATATTTTGAAAATAATATATAGTTTTTAAAAC
76268 ATG
64 ATG
*
76271 CTTTTGGAAATATATAATATATAGTTTTGAAATCATTTTGAAAATAATATATAGTTTTTAAAACA
1 CTTTTGAAAATATATAATATATAGTTTTGAAAT-ATTTTGAAAATAATATATAGTTTTTAAAACA
*
76336 TT
65 TG
* * *
76338 TTTTTGAAAACTTATATAATATATAGTTTTGAAAATCTTTGTGAAAATTATATAATATGTAATTT
1 CTTTTGAAAA--TATATAATATATAGTTTTG-AAATATTT-TGAAAATAATAT-ATA-GT--TTT
* *
76403 GAAAAACATT
58 -TAAAACATG
* * * * * *
76413 TTTTTAGAAAAATTATATAATATATAATTTTAAAAACATTTTTTGAAAACTTATATAATATTTTT
1 CTTTT-G-AAAA-TATATAATATATAGTTTT--GAA-ATATTTTGAAAA-TAATAT-ATAGTTTT
76478 TAAAATCAT-
58 TAAAA-CATG
76487 -TTTTGAAAAATATATA
1 CTTTTG-AAAATATATA
76503 GTTTGGAATT
Statistics
Matches: 194, Mismatches: 18, Indels: 34
0.79 0.07 0.14
Matches are distributed among these distances:
63 23 0.12
65 12 0.06
66 18 0.09
67 10 0.05
69 22 0.11
70 15 0.08
71 9 0.05
72 8 0.04
73 4 0.02
74 7 0.04
75 19 0.10
76 19 0.10
77 13 0.07
78 15 0.08
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (66 bp):
CTTTTGAAAATATATAATATATAGTTTTGAAATATTTTGAAAATAATATATAGTTTTTAAAACAT
G
Found at i:76310 original size:34 final size:35
Alignment explanation
Indices: 76244--76502 Score: 155
Period size: 36 Copynumber: 7.2 Consensus size: 35
76234 TTGAAATTTT
* * *
76244 TTATATAATGTATGGTTTTTGAAAATGCTTTTGGAAA
1 TTATATAATATATAG-TTTTGAAAAT-CTTTTGAAAA
76281 -TATATAATATATAGTTTTG-AAATCATTTTG--AA
1 TTATATAATATATAGTTTTGAAAATC-TTTTGAAAA
* *
76313 --A-ATAATATATAGTTTTTAAAACATTTTTTTGAAAA
1 TTATATAATATATAG-TTTTGAAA-A-TCTTTTGAAAA
76348 CTTATATAATATATAGTTTTGAAAATCTTTGTGAAAA
1 -TTATATAATATATAGTTTTGAAAATCTTT-TGAAAA
* * *
76385 TTATATAATATGTA-ATTTGAAAAACATTTTTTTAGAAAAA
1 TTATATAATATATAGTTTTG--AAA-A-TCTTTT-G-AAAA
* * *
76425 TTATATAATATATAATTTTAAAAACATTTTTTGAAAA
1 TTATATAATATATAGTTTT-GAAA-ATCTTTTGAAAA
76462 CTTATATAATAT-T--TTTT-AAAATCATTTTTGAAAA
1 -TTATATAATATATAGTTTTGAAAATC--TTTTGAAAA
*
76496 ATATATA
1 TTATATA
76503 GTTTGGAATT
Statistics
Matches: 185, Mismatches: 14, Indels: 50
0.74 0.06 0.20
Matches are distributed among these distances:
30 11 0.06
31 5 0.03
32 6 0.03
33 16 0.09
34 19 0.10
35 15 0.08
36 29 0.16
37 15 0.08
38 22 0.12
39 22 0.12
40 22 0.12
41 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (35 bp):
TTATATAATATATAGTTTTGAAAATCTTTTGAAAA
Found at i:76429 original size:76 final size:72
Alignment explanation
Indices: 76281--76502 Score: 253
Period size: 76 Copynumber: 3.1 Consensus size: 72
76271 CTTTTGGAAA
* *
76281 TATATAATATATAGTTTTG-AAATCATTTTGAAAATAATAT-ATA-GTTTTTAAAACATTTTTTT
1 TATATAATATATAGTTTTGAAAATCATTTTGAAAATTATATAATATGTTTTAAAAACATTTTTTT
*
76343 GAAAACT
66 GAAAAAT
76350 TATATAATATATAGTTTTGAAAATC-TTTGTGAAAATTATATAATATGTAATTTGAAAAACATTT
1 TATATAATATATAGTTTTGAAAATCATTT-TGAAAATTATATAATATGT--TTT-AAAAACATTT
76414 TTTTAGAAAAAT
62 TTTT-GAAAAAT
* * * *
76426 TATATAATATATAATTTT-AAAAACATTTTTTGAAAACTTATATAATATTTTTTAAAATCA--TT
1 TATATAATATATAGTTTTGAAAATCA--TTTTGAAAA-TTATATAATATGTTTTAAAAACATTTT
76488 TTTGAAAAA-
63 TTTGAAAAAT
76497 TATATA
1 TATATA
76503 GTTTGGAATT
Statistics
Matches: 134, Mismatches: 7, Indels: 22
0.82 0.04 0.13
Matches are distributed among these distances:
69 22 0.16
70 16 0.12
71 9 0.07
72 8 0.06
73 5 0.04
74 3 0.02
75 24 0.18
76 26 0.19
77 6 0.04
78 15 0.11
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (72 bp):
TATATAATATATAGTTTTGAAAATCATTTTGAAAATTATATAATATGTTTTAAAAACATTTTTTT
GAAAAAT
Found at i:76434 original size:40 final size:39
Alignment explanation
Indices: 76314--76473 Score: 177
Period size: 40 Copynumber: 4.2 Consensus size: 39
76304 CATTTTGAAA
* ** *
76314 ATAATATATAGTTTTTAAAACATTTTTTTGAAAACTTAT
1 ATAATATATAATTTGAAAAACATTTTTTTGAAAAATTAT
* * *
76353 ATAATATATAGTTTTG--AAA-ATCTTTGTG-AAAATTAT
1 ATAATATATA-ATTTGAAAAACATTTTTTTGAAAAATTAT
*
76389 ATAATATGTAATTTGAAAAACATTTTTTTAGAAAAATTAT
1 ATAATATATAATTTGAAAAACATTTTTTT-GAAAAATTAT
* *
76429 ATAATATATAATTTTAAAAACA-TTTTTTGAAAACTTAT
1 ATAATATATAATTTGAAAAACATTTTTTTGAAAAATTAT
76467 ATAATAT
1 ATAATAT
76474 TTTTTAAAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
35 4 0.04
36 16 0.16
37 10 0.10
38 25 0.24
39 17 0.17
40 31 0.30
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (39 bp):
ATAATATATAATTTGAAAAACATTTTTTTGAAAAATTAT
Found at i:76588 original size:20 final size:21
Alignment explanation
Indices: 76550--76593 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
76540 AAAAAATATT
76550 TTTAAATATATATTATATGTG
1 TTTAAATATATATTATATGTG
76571 TTTATAATA-ATA-TATATGTG
1 TTTA-AATATATATTATATGTG
76591 TTT
1 TTT
76594 TTTGTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.50
21 7 0.32
22 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (21 bp):
TTTAAATATATATTATATGTG
Found at i:77772 original size:2 final size:2
Alignment explanation
Indices: 77765--77808 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
77755 TTATAATTAC
77765 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77807 AT
1 AT
77809 TTACCTATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77843 original size:16 final size:17
Alignment explanation
Indices: 77816--77858 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
77806 TATTTACCTA
77816 TTATTTTATTCCTTT-TT
1 TTATTTT-TTCCTTTATT
77833 TTATTTTTTCCTTTATT
1 TTATTTTTTCCTTTATT
77850 TCTATTTTT
1 T-TATTTTT
77859 ATATATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.29
17 10 0.42
18 7 0.29
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (17 bp):
TTATTTTTTCCTTTATT
Found at i:77865 original size:2 final size:2
Alignment explanation
Indices: 77858--77890 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
77848 TTTCTATTTT
*
77858 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
77891 TTATTGCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:77939 original size:4 final size:4
Alignment explanation
Indices: 77930--78000 Score: 60
Period size: 4 Copynumber: 17.5 Consensus size: 4
77920 ATTCTTGTTC
*
77930 TTAT TTAT TTAT TTAT TTAT GGTATAT GTTA- TTA- TTAT TT-T TTGT
1 TTAT TTAT TTAT TTAT TTAT --T-TAT -TTAT TTAT TTAT TTAT TTAT
77975 ATTAT TTAT TTAT TTAT TT-T TTAT TT
1 -TTAT TTAT TTAT TTAT TTAT TTAT TT
78001 CACTTCTTTC
Statistics
Matches: 59, Mismatches: 1, Indels: 14
0.80 0.01 0.19
Matches are distributed among these distances:
3 12 0.20
4 36 0.61
5 5 0.08
6 3 0.05
7 3 0.05
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:77976 original size:22 final size:24
Alignment explanation
Indices: 77930--77996 Score: 86
Period size: 22 Copynumber: 2.9 Consensus size: 24
77920 ATTCTTGTTC
* *
77930 TTATTTATTTATTTATTTATGGTA
1 TTATTTATTTATTTATTTTTTGTA
77954 -TATGTTA-TTA-TTATTTTTTGTA
1 TTAT-TTATTTATTTATTTTTTGTA
77976 TTATTTATTTATTTATTTTTT
1 TTATTTATTTATTTATTTTTT
77997 ATTTCACTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 13 0.35
23 12 0.32
24 12 0.32
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (24 bp):
TTATTTATTTATTTATTTTTTGTA
Found at i:82720 original size:247 final size:247
Alignment explanation
Indices: 82083--82827 Score: 1028
Period size: 247 Copynumber: 3.0 Consensus size: 247
82073 TATCTGCCAA
* * *
82083 CAAAGACCTTCGAGTTTGACTACGCTCAACTCAAAGGCATATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTTGACTACACTCAACTCAAAGGCACATCATTTGCAGCATAACTTAAGTCG
* * * * *
82148 AGAAGGGCTATCTGCCAACCAAAGACCTTCAAGTTCGATTACGCTCAACTTCGAAA-GTATATCA
66 AGAAGGGCTATCTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TC-AAAGGCATATCA
* **
82212 TTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAATAAAAGACCTTCGA-TTTCGACTACG
129 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTT-GACTACG
* * * * * * * *
82276 CTCAGATCCAAGGCACATCATTTACAGCATAACTCAAGGCTATAAGGGTTATCTGTCAC
193 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG----CTATCAC
* *
82335 CAAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
1 C-AAAGACCTTCGAGTTTGACTACACTCAACTCAAAGGCACATCATTTGCAGCATAACTTAAGTC
* * *
82400 GAGAAGGGCTATCTATCAACCAAAGACCTTCGAGTTCGACTATGCTCAGCTCGAAGGCATATCAT
65 GAGAAGGGCTATCTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCAT
*
82465 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCAAGTTTGACTACGCT
130 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCT
*
82530 CAGCTCCAAGGCACAACATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC-C
195 CAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCAC
* * * * * * *
82582 CAAAGACCCTCGAGTTTGATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGC
1 CAAAGACCTTCGAGTTTGACTACACTCAAC-TCAAAGGCACATCATTTGCAGCATAACTTAAGTC
* * * * *
82647 TAGAAGGGTTATCTGTCATCAAAAGAACTTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCAT
65 GAGAAGGGCTATCTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCAT
*
82712 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCT
130 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCT
*
82777 CAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATC
195 CAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC
82828 TGCCAACTGA
Statistics
Matches: 443, Mismatches: 46, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
246 26 0.06
247 200 0.45
248 4 0.01
251 2 0.00
252 106 0.24
253 105 0.24
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (247 bp):
CAAAGACCTTCGAGTTTGACTACACTCAACTCAAAGGCACATCATTTGCAGCATAACTTAAGTCG
AGAAGGGCTATCTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCATT
TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGCTC
AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCAC
Found at i:82726 original size:331 final size:333
Alignment explanation
Indices: 82042--82862 Score: 1125
Period size: 331 Copynumber: 2.5 Consensus size: 333
82032 TTAAAGACAA
* * * *
82042 CATTTGTAGCATAACTCAAGGT-TAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTTGACTA
1 CATTTGCAGCATAACTTAA-GTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
*
82105 CGCTCAACTCAAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAA
65 CGCTCAGCTCAAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAA
* * * * * *
82170 AGACCTTCAAGTTCGATTACGCTCAACTTCGAAAGTATATCATTTGTAGCATAACTTAAGTCGAG
130 AGACCTTCAAGTTCGACTACGCTCAACTTCCAAAGCACAACATTTGCAGCATAACTTAAGTCGAG
* * *
82235 AAGGGTTATCTGCCAATAAAAGACCTTCGATTTCGACTACGCTCAGATCCAAGGCACATCATTTA
195 AAGGGCTATC-GCC---AAAAGACCCTCGATTTCGACTACACTCAGATCCAAGGCACATCATTTA
* *
82300 CAGCATAACTCAAGGCTATAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACACTCAA
256 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAACTTCGAGTTCGACTACACTCAA
*
82365 CTCCAAGGCACAT
321 CTCAAAGGCACAT
* ** *
82378 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTATCAACCAAAGACCTTCGAGTTCGACTAT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * *
82443 GCTCAGCTCGAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
66 GCTCAGCTCAAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAA
* * * *
82508 GACCTTCAAGTTTGACTACGCTCAGC-TCCAAGGCACAACATTTGCAGCATAGCTTAAGTCGAGA
131 GACCTTCAAGTTCGACTACGCTCAACTTCCAAAGCACAACATTTGCAGCATAACTTAAGTCGAGA
* * *
82572 AGGGCTATC-CC-AAAGACCCTCGAGTTT-GATTACACTCA-ACTTCGAGGGCACATCATTTACA
196 AGGGCTATCGCCAAAAGACCCTCGA-TTTCGACTACACTCAGA--TCCAAGGCACATCATTTACA
* * *
82633 GCATAACTCAAGGCTAGAAGGGTTATCTGTCATCAAAAGAACTTCGAGTTCGACTACGCTCAGCT
258 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAACTTCGAGTTCGACTACACTCAACT
*
82698 CAAAGGCATAT
323 CAAAGGCACAT
82709 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * * **
82774 GCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACTGAA
66 GCTCAGCTCAAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAA
** * *
82839 GACCTTTGAGTTCGATTACACTCA
131 GACCTTCAAGTTCGACTACGCTCA
82863 GCTCAGAGGT
Statistics
Matches: 429, Mismatches: 51, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
329 1 0.00
330 20 0.05
331 228 0.53
334 2 0.00
335 2 0.00
336 71 0.17
337 105 0.24
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (333 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCAAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAA
GACCTTCAAGTTCGACTACGCTCAACTTCCAAAGCACAACATTTGCAGCATAACTTAAGTCGAGA
AGGGCTATCGCCAAAAGACCCTCGATTTCGACTACACTCAGATCCAAGGCACATCATTTACAGCA
TAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAACTTCGAGTTCGACTACACTCAACTCAA
AGGCACAT
Found at i:82864 original size:84 final size:84
Alignment explanation
Indices: 82042--82866 Score: 966
Period size: 84 Copynumber: 9.9 Consensus size: 84
82032 TTAAAGACAA
* * * *
82042 CATTTGTAGCATAACTCAAGGT-TAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTTGACTA
1 CATTTGCAGCATAACTTAA-GTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
* * *
82105 CGCTCAACTCAAAGGCATAT
65 CGCTCAGCTCCAAGGCACAT
* * * *
82125 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCAAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * * * *
82190 GCTCAACTTCGAAAGTATAT
66 GCTCAGC-TCCAAGGCACAT
* ** *
82210 CATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAATAAAAGACCTTCGATTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
*
82275 GCTCAGATCCAAGGCACAT
66 GCTCAGCTCCAAGGCACAT
* * * * * *
82294 CATTTACAGCATAACTCAAGGCTATAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTA
* *
82358 CACTCAACTCCAAGGCACAT
65 CGCTCAGCTCCAAGGCACAT
* ** *
82378 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTATCAACCAAAGACCTTCGAGTTCGACTAT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
82443 GCTCAGCTCGAAGGCATAT
66 GCTCAGCTCCAAGGCACAT
* *
82462 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCAAGTTTGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
*
82527 GCTCAGCTCCAAGGCACAA
66 GCTCAGCTCCAAGGCACAT
* * * * *
82546 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA--T--C--CCAAAGACCCTCGAGTTTGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * * *
82605 ACTCAACTTCGAGGGCACAT
66 GCTCAGC-TCCAAGGCACAT
* * * * * * * *
82625 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCATCAAAAGAACTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
82690 GCTCAGCTCAAAGGCATAT
66 GCTCAGCTCCAAGGCACAT
82709 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
82774 GCTCAGCTCCAAGGCACAT
66 GCTCAGCTCCAAGGCACAT
* * * ** * *
82793 CATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACTGAAGACCTTTGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
*
82858 ACTCAGCTC
66 GCTCAGCTC
82867 AGAGGTAAAT
Statistics
Matches: 627, Mismatches: 103, Indels: 23
0.83 0.14 0.03
Matches are distributed among these distances:
78 26 0.04
79 36 0.06
80 1 0.00
81 1 0.00
82 3 0.00
83 35 0.06
84 427 0.68
85 98 0.16
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (84 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACAT
Found at i:82950 original size:415 final size:418
Alignment explanation
Indices: 82052--82915 Score: 1076
Period size: 415 Copynumber: 2.1 Consensus size: 418
82042 CATTTGTAGC
** * * * * * *
82052 ATAACTCAAGGTTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTTGACTACGCTCAACTCA
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCGTCAAGTTCGACTACACTCAGCTCC
* * *
82116 AAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCAAG
66 AAGGCACAACATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA-CT-CC-ACCAAAGACCCTCAAG
* * * ** * *
82181 TTCGATTACGCTCAACTTCGAAAGTATATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCT
128 TTCGATTACACTCAACTTCGAAAGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCT
* * *
82246 GCCAATAAAAGACCTTCGATTTCGACTACGCTCAGATCCAAGGCACATCATTTACAGCATAACTC
193 GCCAATAAAAGAACTTCGAGTTCGACTACGCTCAGATCAAAGGCACATCATTTACAGCATAACTC
* * *
82311 AAGGCTATAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCAC
258 AAGGCGAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCAC
* *
82376 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTATCAACCAAAGACCTTCGAGTTCGACT
323 ATCATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTACCAACCAAAGACCTTCGAGTTCGACT
** * * **
82441 ATGCTCAGCTCGAAGGCATATCATTTGCAGC
388 ACACTCAGCTCGAAGGCAAATCATTTACAAA
* * * * * *
82472 ATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCAAGTTTGACTACGCTCAGCTCC
1 ATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCGTCAAGTTCGACTACACTCAGCTCC
* *
82537 AAGGCACAACATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA-T-C-CCAAAGACCCTCGAGTTT
66 AAGGCACAACATTTGCAGCATAGCTTAAGTCGAGAAGGGCTACTCCACCAAAGACCCTCAAGTTC
** * *
82599 GATTACACTCAACTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
131 GATTACACTCAACTTCGAAAGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCC
* * * *
82664 -ATCAAAAGAACTTCGAGTTCGACTACGCTCAGCTCAAAGGCATATCATTTGCAGCATAACTTAA
196 AAT-AAAAGAACTTCGAGTTCGACTACGCTCAGATCAAAGGCACATCATTTACAGCATAACTCAA
* * *
82728 GTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACA
260 GGCGAGAAGGGTTATCTGCC-ACCAAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACA
* * ** * *
82792 TCATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACTGAAGACCTTTGAGTTCGATTA
324 TCATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTACCAACCAAAGACCTTCGAGTTCGACTA
*
82857 CACTCAGCTC-AGAGGTAAATCAATTTTACAAA
389 CACTCAGCTCGA-AGGCAAATC-A-TTTACAAA
*
82889 ATAGCTCAAGGCAAGAAGGGTTATCTG
1 ATAACTCAAGGCAAGAAGGGTTATCTG
82916 TCAATGAAAT
Statistics
Matches: 383, Mismatches: 55, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
414 3 0.01
415 249 0.65
416 4 0.01
417 29 0.08
419 1 0.00
420 27 0.07
421 70 0.18
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (418 bp):
ATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCGTCAAGTTCGACTACACTCAGCTCC
AAGGCACAACATTTGCAGCATAGCTTAAGTCGAGAAGGGCTACTCCACCAAAGACCCTCAAGTTC
GATTACACTCAACTTCGAAAGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCC
AATAAAAGAACTTCGAGTTCGACTACGCTCAGATCAAAGGCACATCATTTACAGCATAACTCAAG
GCGAGAAGGGTTATCTGCCACCAAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATC
ATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTACCAACCAAAGACCTTCGAGTTCGACTACA
CTCAGCTCGAAGGCAAATCATTTACAAA
Found at i:83594 original size:36 final size:37
Alignment explanation
Indices: 83543--83786 Score: 197
Period size: 36 Copynumber: 6.7 Consensus size: 37
83533 CTAAAATATG
*
83543 TATAT-TATATATATAGTTTCGAAAACCTTTTGAAAA
1 TATATATATATATATAGTTTTGAAAACCTTTTGAAAA
****
83579 TATATATATAT-TATAGTTTTGAATTTTTTTTGAAAA
1 TATATATATATATATAGTTTTGAAAACCTTTTGAAAA
* * * * *
83615 CATATATA-ATGTATGGTTTTTGAAAATGCTTTTG-GAA
1 TATATATATATATATAG-TTTTGAAAA-CCTTTTGAAAA
* *
83652 -ATATATA-ATATATAGTTTTGAAATCATTTTGAAAA
1 TATATATATATATATAGTTTTGAAAACCTTTTGAAAA
* *
83687 TA-ATATATAATATATAGTTTTTAAAACATTTTTTTGAAAA
1 TATATATAT-ATATATAGTTTTGAAAAC---CTTTTGAAAA
83727 CT-TATATA-ATATATAGTTTTGAAAACCTTTTTGAAAA
1 -TATATATATATATATAGTTTTGAAAACC-TTTTGAAAA
*
83764 T-TATA-AAATATATAG-TTTGAAAA
1 TATATATATATATATAGTTTTGAAAA
83787 ACATTTTTTT
Statistics
Matches: 170, Mismatches: 23, Indels: 31
0.76 0.10 0.14
Matches are distributed among these distances:
34 5 0.03
35 26 0.15
36 63 0.37
37 39 0.23
38 5 0.03
39 17 0.10
40 9 0.05
41 6 0.04
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (37 bp):
TATATATATATATATAGTTTTGAAAACCTTTTGAAAA
Found at i:83744 original size:76 final size:73
Alignment explanation
Indices: 83570--83852 Score: 275
Period size: 76 Copynumber: 3.8 Consensus size: 73
83560 TTCGAAAACC
* ** * * *
83570 TTTTGAAAATATATATATATTATAGTTTTGAATTTTTTTTGAAAACATATATAATGTATGGTTTT
1 TTTTGAAAATATATA-ATA-TATAGTTTTGAAATCATTTTGAAAATATATATAATATATAGTTTT
* **
83635 TGAAA-ATGC
64 TAAAACATTT
*
83644 TTTTGGAAATATATAATATATAGTTTTGAAATCATTTTGAAAATAATATATAATATATAGTTTTT
1 TTTTGAAAATATATAATATATAGTTTTGAAATCATTTTGAAAAT-ATATATAATATATAGTTTTT
83709 AAAACATTT
65 AAAACATTT
* * *
83718 TTTTGAAAACTTATATAATATATAGTTTTGAAAACCTTTTTGAAAAT-TATAAAATATATAGTTT
1 TTTTGAAAA--TATATAATATATAGTTTTG-AAATCATTTTGAAAATATATATAATATATAGTTT
**
83782 GAAAAACATTT
63 TTAAAACATTT
* * *
83793 TTTTAGAAAAATTATATAATATATAATTTTAAAAACATTTTTTGAAAACT-TATATAATAT
1 TTTT-G-AAAA-TATATAATATATAGTTTTGAAATCA--TTTTGAAAA-TATATATAATAT
83853 TTTTTAAAAT
Statistics
Matches: 178, Mismatches: 21, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
72 22 0.12
73 24 0.13
74 24 0.13
75 33 0.19
76 38 0.21
77 27 0.15
78 10 0.06
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.46
Consensus pattern (73 bp):
TTTTGAAAATATATAATATATAGTTTTGAAATCATTTTGAAAATATATATAATATATAGTTTTTA
AAACATTT
Found at i:85212 original size:16 final size:17
Alignment explanation
Indices: 85183--85225 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
85173 TATATTACTA
85183 TTATTTTATTCCTTT-TT
1 TTATTTT-TTCCTTTATT
85200 TTATTTTTTCCTTTATT
1 TTATTTTTTCCTTTATT
85217 TCTATTTTT
1 T-TATTTTT
85226 ATATATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.29
17 10 0.42
18 7 0.29
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (17 bp):
TTATTTTTTCCTTTATT
Found at i:85232 original size:2 final size:2
Alignment explanation
Indices: 85225--85263 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
85215 TTTCTATTTT
*
85225 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85264 TATTGCTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:85311 original size:4 final size:4
Alignment explanation
Indices: 85302--85365 Score: 53
Period size: 4 Copynumber: 15.5 Consensus size: 4
85292 ATTCTTGTTC
*
85302 TTAT TTAT TTAT TTAT TTAT GGTATAT GTTA- TTA- TTAT TT-T TTGT
1 TTAT TTAT TTAT TTAT TTAT --T-TAT -TTAT TTAT TTAT TTAT TTAT
85347 ATTAT TTAT TTAT TTAT TT
1 -TTAT TTAT TTAT TTAT TT
85366 TTATTTCACT
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
3 9 0.17
4 33 0.62
5 5 0.09
6 3 0.06
7 3 0.06
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:85348 original size:22 final size:24
Alignment explanation
Indices: 85302--85367 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 24
85292 ATTCTTGTTC
*
85302 TTATTTATTTATTTATTTATGGTA
1 TTATTTATTTATTTATTTTTGGTA
*
85326 -TATGTTA-TTA-TTATTTTTTGTA
1 TTAT-TTATTTATTTATTTTTGGTA
85348 TTATTTATTTATTTATTTTT
1 TTATTTATTTATTTATTTTT
85368 ATTTCACTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 13 0.36
23 12 0.33
24 11 0.31
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (24 bp):
TTATTTATTTATTTATTTTTGGTA
Found at i:85349 original size:15 final size:14
Alignment explanation
Indices: 85306--85371 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
85296 TTGTTCTTAT
85306 TTATTTATTTATTTA
1 TTATTTATTTA-TTA
** *
85321 TGGTATATGTTATTA
1 TTATTTAT-TTATTA
*
85336 TTATTTTTTGTATTA
1 TTATTTATT-TATTA
*
85351 TTTATTTATTTATTT
1 -TTATTTATTTATTA
85366 TTATTT
1 TTATTT
85372 CACTTCTTTC
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
14 7 0.18
15 21 0.54
16 11 0.28
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (14 bp):
TTATTTATTTATTA
Found at i:86255 original size:15 final size:16
Alignment explanation
Indices: 86225--86259 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
86215 TATATATATA
86225 TATTTATAGTTATTTTT
1 TATTTATAG-TATTTTT
86242 TATTTATA-TATTTTT
1 TATTTATAGTATTTTT
86257 TAT
1 TAT
86260 ATAATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
17 8 0.44
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TATTTATAGTATTTTT
Found at i:86479 original size:4 final size:4
Alignment explanation
Indices: 86470--86535 Score: 52
Period size: 4 Copynumber: 16.5 Consensus size: 4
86460 ATTCTTGTTC
86470 TTAT TTAT TTAT TTAT GGTATAT GTTA- TTA- TTA- TTAT TT-T TGTA-
1 TTAT TTAT TTAT TTAT --T-TAT -TTAT TTAT TTAT TTAT TTAT T-TAT
86514 TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TT
86536 TTATTTCACT
Statistics
Matches: 55, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
3 13 0.24
4 34 0.62
5 2 0.04
6 3 0.05
7 3 0.05
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:90115 original size:18 final size:18
Alignment explanation
Indices: 90075--90116 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
90065 AAACTGGGTG
**
90075 ATTTTAATAAAACATTTT
1 ATTTTAATAAAACATTCA
90093 ATTTTAATAAAACA-TCA
1 ATTTTAATAAAACATTCA
90110 AGTTTTA
1 A-TTTTA
90117 GGGTCTGCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTTTAATAAAACATTCA
Found at i:93272 original size:3 final size:3
Alignment explanation
Indices: 93252--93291 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
93242 ATATAATATG
* *
93252 TAA TAT TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
93292 GTATTAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:93859 original size:15 final size:14
Alignment explanation
Indices: 93786--93900 Score: 86
Period size: 13 Copynumber: 8.4 Consensus size: 14
93776 ATTAACAAAT
93786 TATAATTTATATT-A
1 TATAA-TTATATTAA
93800 T-TAATTAT-TTAA
1 TATAATTATATTAA
*
93812 T-TAA-TAGAGTTAA
1 TATAATTATA-TTAA
*
93825 TATAAACTATCATT--
1 TAT-AATTAT-ATTAA
93839 TATAATTAATATTAA
1 TATAATT-ATATTAA
*
93854 TATAATTATA-TAT
1 TATAATTATATTAA
93867 TATAATTATATTAA
1 TATAATTATATTAA
93881 TATAAGTTATATT-A
1 TATAA-TTATATTAA
93895 TATAAT
1 TATAAT
93901 ATAGTATAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 25
0.74 0.04 0.22
Matches are distributed among these distances:
11 4 0.05
12 9 0.11
13 27 0.32
14 23 0.27
15 16 0.19
16 4 0.05
17 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.50
Consensus pattern (14 bp):
TATAATTATATTAA
Found at i:93870 original size:28 final size:27
Alignment explanation
Indices: 93821--93896 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 27
93811 ATTAATAGAG
93821 TTAATATAAACTATCAT-TTATAATTAATA
1 TTAATAT-AACTAT-ATATTATAATT-ATA
*
93850 TTAATATAATTATATATTATAATTATA
1 TTAATATAACTATATATTATAATTATA
*
93877 TTAATATAAGT-TATATTATA
1 TTAATATAACTATATATTATA
93897 TAATATAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 9 0.20
27 15 0.34
28 13 0.30
29 7 0.16
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (27 bp):
TTAATATAACTATATATTATAATTATA
Found at i:93898 original size:28 final size:28
Alignment explanation
Indices: 93821--93900 Score: 94
Period size: 28 Copynumber: 2.8 Consensus size: 28
93811 ATTAATAGAG
*
93821 TTAATATAAACTATCATT-TATAATTAATA
1 TTAATAT-AATTAT-ATTATATAATTAATA
93850 TTAATATAATTATA-TATTATAATT-ATA
1 TTAATATAATTATATTA-TATAATTAATA
93877 TTAATATAAGTTATATTATATAAT
1 TTAATATAA-TTATATTATATAAT
93901 ATAGTATAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
26 1 0.02
27 13 0.28
28 23 0.50
29 9 0.20
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (28 bp):
TTAATATAATTATATTATATAATTAATA
Found at i:94108 original size:77 final size:78
Alignment explanation
Indices: 93968--94111 Score: 186
Period size: 77 Copynumber: 1.9 Consensus size: 78
93958 TATAGTTTAT
* * * * *
93968 AAACTATAGTTAATATAATTAATATTAATATAGTATATGGTTTATAGACTATAATTAATATTAAT
1 AAACTATAGTTAATATAATTAATATTAATATAGAATATAGTTTATAAACTATAACTAACATTAAT
94033 ACTATATTAATAC
66 ACTATATTAATAC
* *
94046 AAACTATAGTTAATAT-ATTAATATTAATGTA-AACTATAGTTTATAAACTATCTACT-ACATTA
1 AAACTATAGTTAATATAATTAATATTAATATAGAA-TATAGTTTATAAACTAT-AACTAACATTA
94108 ATAC
64 ATAC
94112 AAATTATAGT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
76 1 0.02
77 38 0.67
78 18 0.32
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.41
Consensus pattern (78 bp):
AAACTATAGTTAATATAATTAATATTAATATAGAATATAGTTTATAAACTATAACTAACATTAAT
ACTATATTAATAC
Found at i:94120 original size:36 final size:36
Alignment explanation
Indices: 94080--94158 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
94070 TAATGTAAAC
*
94080 TATAGTTTATAAACTATCTACTACATTAATACAAAT
1 TATAGTTTATAAACTATATACTACATTAATACAAAT
* * *
94116 TATAGTTTATAAACTATATGCTATATTAATATAAAT
1 TATAGTTTATAAACTATATACTACATTAATACAAAT
94152 TATAGTT
1 TATAGTT
94159 AATATAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (36 bp):
TATAGTTTATAAACTATATACTACATTAATACAAAT
Found at i:94155 original size:15 final size:15
Alignment explanation
Indices: 94137--94187 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
94127 AACTATATGC
94137 TATATTAATATAAAT
1 TATATTAATATAAAT
94152 TATAGTTAATAT-AAT
1 TATA-TTAATATAAAT
* *
94167 TAACATTAATATAAAC
1 T-ATATTAATATAAAT
94183 TATAT
1 TATAT
94188 AGTACATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (15 bp):
TATATTAATATAAAT
Found at i:94178 original size:31 final size:33
Alignment explanation
Indices: 94010--94186 Score: 102
Period size: 36 Copynumber: 5.3 Consensus size: 33
94000 GTATATGGTT
* *
94010 TATAGACTATAATTAATATTAATACTAT--ATTAA
1 TATAAACTATAGTTAATA-TAATA-TATACATTAA
* *
94043 TACAAACTATAGTTAATAT-AT-TA-ATATTAA
1 TATAAACTATAGTTAATATAATATATACATTAA
* *
94073 TGTAAACTATAGTTTATA-AACTATCTACTACATTAA
1 TATAAACTATAGTTAATATAA-TA--TA-TACATTAA
* * * *
94109 TACAAATTATAGTTTATA-AACTATATGCTATATTAA
1 TATAAACTATAGTTAATATAA-TATA---TACATTAA
*
94145 TATAAATTATAGTTAATATAAT-TA-ACATTAA
1 TATAAACTATAGTTAATATAATATATACATTAA
94176 TATAAACTATA
1 TATAAACTATA
94187 TAGTACATTA
Statistics
Matches: 117, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
29 2 0.02
30 21 0.18
31 19 0.16
32 1 0.01
33 15 0.13
34 4 0.03
35 2 0.02
36 51 0.44
37 2 0.02
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (33 bp):
TATAAACTATAGTTAATATAATATATACATTAA
Found at i:94210 original size:20 final size:21
Alignment explanation
Indices: 94169--94210 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
94159 AATATAATTA
94169 ACATTAATATAAACTATATAGT
1 ACATTAATATAAAC-ATATAGT
94191 ACATTAATATAAAC-TATAGT
1 ACATTAATATAAACATATAGT
94211 TTATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.30
22 14 0.70
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (21 bp):
ACATTAATATAAACATATAGT
Found at i:94227 original size:21 final size:21
Alignment explanation
Indices: 94198--94245 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
94188 AGTACATTAA
* * *
94198 TATAAACTATAGTTTATAAAT
1 TATATACTATAGGTTATAAAC
94219 TATATACTATAGGTTATAAAC
1 TATATACTATAGGTTATAAAC
94240 TATATA
1 TATATA
94246 GTACACTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (21 bp):
TATATACTATAGGTTATAAAC
Found at i:94250 original size:57 final size:55
Alignment explanation
Indices: 94116--94272 Score: 178
Period size: 57 Copynumber: 2.8 Consensus size: 55
94106 TAATACAAAT
* * *
94116 TATAGTTTATAAACTATAT-GCTATATTAATATAAATTATAGTTAATATAATTAACA
1 TATAG-TTATAAACTATATAG-TACATTAATATAAACTATAGTTTATATAATTAACA
* *
94172 T-TA-ATATAAACTATATAGTACATTAATATAAACTATAGTTTATA-AATTATATA
1 TATAGTTATAAACTATATAGTACATTAATATAAACTATAGTTTATATAATTA-ACA
* *
94225 CTATAGGTTATAAACTATATAGTACACTAATATAAACTATTGTTTATA
1 -TATA-GTTATAAACTATATAGTACATTAATATAAACTATAGTTTATA
94273 GACTATAGGT
Statistics
Matches: 87, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
52 5 0.06
53 37 0.43
54 2 0.02
55 4 0.05
56 1 0.01
57 38 0.44
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (55 bp):
TATAGTTATAAACTATATAGTACATTAATATAAACTATAGTTTATATAATTAACA
Found at i:94355 original size:64 final size:57
Alignment explanation
Indices: 94274--94395 Score: 172
Period size: 64 Copynumber: 2.0 Consensus size: 57
94264 TTGTTTATAG
*
94274 ACTATAGGTTACATATATAGTTTATATAAACTATATATAGATTGTATATATACATAATACATAT
1 ACTATAGGTTACATATATAGTTTACAT--A-TA-A-ATAGATTGTATATATACAT-ATAC-TAT
94338 ACTATAGGTTACATATATAGTTTACATATAAATAGATTGTATATATACATATACTAT
1 ACTATAGGTTACATATATAGTTTACATATAAATAGATTGTATATATACATATACTAT
94395 A
1 A
94396 GGTTATATAT
Statistics
Matches: 57, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
57 4 0.07
58 4 0.07
59 19 0.33
60 1 0.02
61 2 0.04
62 1 0.02
64 26 0.46
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.40
Consensus pattern (57 bp):
ACTATAGGTTACATATATAGTTTACATATAAATAGATTGTATATATACATATACTAT
Found at i:94396 original size:24 final size:23
Alignment explanation
Indices: 94351--94408 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
94341 ATAGGTTACA
*
94351 TATATAGTTTACATATAAATAGAT
1 TATATA-TATACATATAAATAGAT
* * *
94375 TGTATATATACATATACTATAGGT
1 TATATATATACATATA-AATAGAT
94399 TATATATATA
1 TATATATATA
94409 TAGGTTATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (23 bp):
TATATATATACATATAAATAGAT
Found at i:94410 original size:15 final size:16
Alignment explanation
Indices: 94386--94426 Score: 75
Period size: 15 Copynumber: 2.6 Consensus size: 16
94376 GTATATATAC
94386 ATATACTATAGGTTAT
1 ATATACTATAGGTTAT
94402 ATATA-TATAGGTTAT
1 ATATACTATAGGTTAT
94417 ATATACTATA
1 ATATACTATA
94427 CATAGTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (16 bp):
ATATACTATAGGTTAT
Found at i:94426 original size:20 final size:20
Alignment explanation
Indices: 94377--94442 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
94367 AAATAGATTG
94377 TATATATACATATACTATAGG-
1 TATATATAC-TATAC-ATAGGT
94398 T-TATATA-TAT--ATAGGT
1 TATATATACTATACATAGGT
*
94414 TATATATACTATACATAGTT
1 TATATATACTATACATAGGT
*
94434 TATACATAC
1 TATATATAC
94443 ATCTACTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
15 5 0.13
16 1 0.03
17 6 0.16
18 6 0.16
20 19 0.50
21 1 0.03
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (20 bp):
TATATATACTATACATAGGT
Found at i:94659 original size:2 final size:2
Alignment explanation
Indices: 94654--94691 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
94644 CTATATACTT
94654 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94692 CAATATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94765 original size:13 final size:13
Alignment explanation
Indices: 94734--94801 Score: 73
Period size: 13 Copynumber: 4.9 Consensus size: 13
94724 CATATTTTTT
*
94734 ATAGTTTATACATAT
1 ATAGTTTAT--ATAC
94749 ATAGTTTATATAC
1 ATAGTTTATATAC
*
94762 ATAGTTTATATAT
1 ATAGTTTATATAC
*
94775 ATAGTTCATATAAAC
1 ATAGTT--TATATAC
94790 ATAGTTTATATA
1 ATAGTTTATATA
94802 TATAACTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
13 26 0.57
15 20 0.43
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAGTTTATATAC
Found at i:94776 original size:28 final size:29
Alignment explanation
Indices: 94734--94864 Score: 112
Period size: 31 Copynumber: 4.5 Consensus size: 29
94724 CATATTTTTT
*
94734 ATAGTTTATACATATATAGTT-TATATAC
1 ATAGTTTATATATATATAGTTATATATAC
*
94762 ATAG-TT-TATATATATAGTTCATATAAAC
1 ATAGTTTATATATATATAGTT-ATATATAC
* *
94790 ATAGTTTATATATATA-ACTTATAATAATTAT
1 ATAGTTTATATATATATAGTTAT-AT-A-TAC
*
94821 ATAGTTTATAATATAAATATAGTT-TATATAT
1 ATAGTTTAT-ATAT--ATATAGTTATATATAC
94852 ATAG-TTATATATA
1 ATAGTTTATATATA
94865 AACTTATATT
Statistics
Matches: 86, Mismatches: 6, Indels: 23
0.75 0.05 0.20
Matches are distributed among these distances:
26 12 0.14
27 3 0.03
28 16 0.19
29 11 0.13
30 13 0.15
31 17 0.20
32 5 0.06
33 2 0.02
34 4 0.05
35 3 0.03
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.47
Consensus pattern (29 bp):
ATAGTTTATATATATATAGTTATATATAC
Found at i:94840 original size:18 final size:19
Alignment explanation
Indices: 94819--94854 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
94809 TATAATAATT
94819 ATATAGTTTATA-ATATAA
1 ATATAGTTTATATATATAA
94837 ATATAGTTTATATATATA
1 ATATAGTTTATATATATA
94855 GTTATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (19 bp):
ATATAGTTTATATATATAA
Found at i:94918 original size:9 final size:9
Alignment explanation
Indices: 94888--94920 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
94878 TTAATATAAA
94888 TTATATACT
1 TTATATACT
94897 TTA-ATACT
1 TTATATACT
*
94905 TTATATAGT
1 TTATATACT
94914 TTATATA
1 TTATATA
94921 TCGTTTACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (9 bp):
TTATATACT
Found at i:95152 original size:2 final size:2
Alignment explanation
Indices: 95147--95194 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
95137 TTATATACTT
95147 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
95189 TT TA TA
1 TA TA TA
95195 ATTTTTTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:95320 original size:15 final size:16
Alignment explanation
Indices: 95286--95335 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
95276 CTTTTGTGAT
95286 TTTTAATTTATTTCAA
1 TTTTAATTTATTTCAA
* *
95302 TTTTAA-TTCTTTCAC
1 TTTTAATTTATTTCAA
*
95317 TTTTATATGTA-TTCAA
1 TTTTA-ATTTATTTCAA
95333 TTT
1 TTT
95336 ATTCCTTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 12 0.44
16 14 0.52
17 1 0.04
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTAATTTATTTCAA
Found at i:97556 original size:27 final size:28
Alignment explanation
Indices: 97499--97556 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
97489 TGTAATTTTA
* * *
97499 ATTATTGTTAATATTTTATTTGTTTAGT
1 ATTATTGTTAATATTTTATTTCTATAAT
97527 ATTATT-TT-ATATTTTAATTTCTATAAT
1 ATTATTGTTAATATTTT-ATTTCTATAAT
97554 ATT
1 ATT
97557 TATTAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 13 0.50
28 6 0.23
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (28 bp):
ATTATTGTTAATATTTTATTTCTATAAT
Found at i:103613 original size:16 final size:16
Alignment explanation
Indices: 103588--103648 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
103578 TAATAAATAA
*
103588 ACGAACATAAACGAAT
1 ACGAACATAAACGAAC
*
103604 ACGAAAATAAACGAAC
1 ACGAACATAAACGAAC
*
103620 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
103636 ACGAACATAAACG
1 ACGAACATAAACG
103649 TTGGAGACCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.57, C:0.20, G:0.13, T:0.10
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Done.