Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007735.1 Hibiscus syriacus cultivar Beakdansim tig00109992_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: 534668
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 3
Found at i:1770 original size:23 final size:21
Alignment explanation
Indices: 1697--1806 Score: 66
Period size: 23 Copynumber: 5.1 Consensus size: 21
1687 TAAAACAATT
*
1697 AAATAATAAATATTAAGAAA-
1 AAATAATAAAAATTAAGAAAC
* **
1717 TAA-AATAAAAAATT-A-AATT
1 AAATAAT-AAAAATTAAGAAAC
1736 AAATAATAAAAACATTAAGAAAC
1 AAATAAT-AAAA-ATTAAGAAAC
* * **
1759 AAATAAATAAAAAGTTCATAATT
1 AAAT-AATAAAAA-TTAAGAAAC
1782 AAATAATAAAATATTAAGAAAC
1 AAATAATAAAA-ATTAAGAAAC
1804 AAA
1 AAA
1807 ATAAATAAGG
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
18 2 0.03
19 6 0.09
20 16 0.24
21 3 0.04
22 17 0.25
23 20 0.30
24 3 0.04
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (21 bp):
AAATAATAAAAATTAAGAAAC
Found at i:1786 original size:46 final size:42
Alignment explanation
Indices: 1744--1897 Score: 206
Period size: 40 Copynumber: 3.6 Consensus size: 42
1734 TTAAATAATA
1744 AAAACATTAAGAAACAAATAAATAAAAAGTTCATAATTAAATAAT
1 AAAACATTAAGAAACAAATAAATAAAAAGTTCATAATT--A-AAT
* ** *
1789 AAAATATTAAGAAACAAAATAAATAAGGAGTCCATAATTAAAT
1 AAAACATTAAGAAAC-AAATAAATAAAAAGTTCATAATTAAAT
*
1832 -AAACATTAAGAAACAAAT-AA-AAAAAGTTTATAATTAAAT
1 AAAACATTAAGAAACAAATAAATAAAAAGTTCATAATTAAAT
1871 AAAACATTAAGAAACAAATAAATAAAA
1 AAAACATTAAGAAACAAATAAATAAAA
1898 TAAGTCTATC
Statistics
Matches: 96, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
39 15 0.16
40 20 0.21
41 6 0.06
42 17 0.18
43 3 0.03
44 1 0.01
45 14 0.15
46 20 0.21
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (42 bp):
AAAACATTAAGAAACAAATAAATAAAAAGTTCATAATTAAAT
Found at i:1858 original size:85 final size:87
Alignment explanation
Indices: 1693--1896 Score: 248
Period size: 85 Copynumber: 2.4 Consensus size: 87
1683 CAATTAAAAC
* *
1693 AATTAAATAAT-AAATATTAAGAAATAAAATAAA-AAATTAAATTAAATAATAAAAACATTAAGA
1 AATTAAATAATAAAATATTAAGAAACAAAATAAATAAAGTAAATTAAATAATAAAAACATTAAGA
1756 AACAAATAAATAAAAAGTTCAT
66 AACAAATAAATAAAAAGTTCAT
** * *
1778 AATTAAATAATAAAATATTAAGAAACAAAATAAATAAGGAGTCCA-TAATTAA-ATAAACATTAA
1 AATTAAATAATAAAATATTAAGAAACAAAATAAATAA--AGTAAATTAAATAATAAAAACATTAA
*
1841 GAAACAAAT-AA-AAAAAGTTTAT
64 GAAACAAATAAATAAAAAGTTCAT
*
1863 AATT--A-AATAAAACATTAAGAAAC-AAATAAATAAA
1 AATTAAATAATAAAATATTAAGAAACAAAATAAATAAA
1897 ATAAGTCTAT
Statistics
Matches: 107, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
79 1 0.01
81 10 0.09
82 17 0.16
83 1 0.01
85 25 0.23
86 23 0.21
87 21 0.20
88 6 0.06
89 3 0.03
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (87 bp):
AATTAAATAATAAAATATTAAGAAACAAAATAAATAAAGTAAATTAAATAATAAAAACATTAAGA
AACAAATAAATAAAAAGTTCAT
Found at i:2318 original size:21 final size:21
Alignment explanation
Indices: 2292--2345 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
2282 ACCTGCGGTA
*
2292 GTGGCATCTGAAATGGTTGCG
1 GTGGCATCTGAAATGGTTACG
2313 GTGGCATCTGAAATGGTTACG
1 GTGGCATCTGAAATGGTTACG
2334 GTGGCATC-GAAA
1 GTGGCATCTGAAA
2346 ACGACTGCGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (21 bp):
GTGGCATCTGAAATGGTTACG
Found at i:5595 original size:182 final size:182
Alignment explanation
Indices: 5278--5731 Score: 743
Period size: 182 Copynumber: 2.5 Consensus size: 182
5268 ACTTTTTTAC
* * *
5278 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACTTG-T-TATTGTTATGGATCGA
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * *
5341 TAAATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
* * *
5406 CGTCGATACTTATAATAAAGTATCTACACTTTCAACATATCCGATAGCTCTT
131 CGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTT
5458 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
5523 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
* *
5588 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
131 CGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTT
* **
5640 TACCTGTTTTGTCATTTATAGACCGGTTTTGTCAT-TTGTTTACCTGTTATATTGTTATGGATCG
1 TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATT-TTTACCTGTTATATTGTTATGGATCG
5704 ATACATTTTTATAAAGTATCGACACTTT
65 ATACATTTTTATAAAGTATCGACACTTT
5732 CAATATATCT
Statistics
Matches: 256, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
180 43 0.17
181 3 0.01
182 210 0.82
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (182 bp):
TACCAGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAG
CGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTT
Found at i:5799 original size:112 final size:112
Alignment explanation
Indices: 5602--5992 Score: 703
Period size: 112 Copynumber: 3.5 Consensus size: 112
5592 GATACTTATA
* *
5602 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
5667 TTTGTCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
5714 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
5779 TTTGTCTTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
5826 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTTTTCATTTATAGACCGG
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTG-TTTTGTCATTTATAGACCGG
5891 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
65 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
5939 ATAAAGTATCGACACTTTC-ATATATCCGATAGCGCTTTACCTGTTTTGTCATTT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTT
5993 TTTTACCTGT
Statistics
Matches: 268, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
111 10 0.04
112 173 0.65
113 85 0.32
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:5994 original size:91 final size:92
Alignment explanation
Indices: 5890--6084 Score: 356
Period size: 91 Copynumber: 2.1 Consensus size: 92
5880 TTATAGACCG
5890 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
*
5955 TTC-ATATATCCGATAGCGCTTTACCT
66 TTCAATATATACGATAGCGCTTTACCT
*
5981 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
*
6046 TTCAATATATACGGTAGCGCTTTACCT
66 TTCAATATATACGATAGCGCTTTACCT
6073 GTTTTGTCATTT
1 GTTTTGTCATTT
6085 ATAGACCGGT
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
91 67 0.67
92 33 0.33
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.48
Consensus pattern (92 bp):
GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTCAATATATACGATAGCGCTTTACCT
Found at i:6277 original size:112 final size:112
Alignment explanation
Indices: 5981--6307 Score: 602
Period size: 111 Copynumber: 2.9 Consensus size: 112
5971 CGCTTTACCT
*
5981 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
*
6046 TTCAATATATACGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCG
66 TTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCG
*
6093 GTTTTGTCA-TTTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
*
6157 TTCAATATATCCGGTAGCGCTTTACCTGTTTTTTCATTTATAGACCG
66 TTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCG
6204 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
*
6269 TTCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTT
66 TTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTT
6308 TTTTACCTGT
Statistics
Matches: 207, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
111 107 0.52
112 100 0.48
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (112 bp):
GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCG
Found at i:6300 original size:315 final size:314
Alignment explanation
Indices: 5665--6579 Score: 1667
Period size: 315 Copynumber: 2.9 Consensus size: 314
5655 TTATAGACCG
* *
5665 GTTTTGTCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACT
*
5730 TTCAATATAT-CTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCTTTTTTTTA
66 TTCAATATATAC-GGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTC-ATTTTTTA
5794 CCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAG
129 CCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAG
5859 CGCTTTACCTGTTTTTTTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATG
194 CGCTTTACCTG-TTTTTTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATG
5924 GATCGATACATTTTTATAAAGTATCGACACTTTCATATATCCGATAGCGCTTTACCT
258 GATCGATACATTTTTATAAAGTATCGACACTTTCATATATCCGATAGCGCTTTACCT
5981 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACT
*
6046 TTCAATATATACGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACA
66 TTCAATATATACGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACC
6111 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCG
131 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCG
6176 CTTTACCTGTTTTTTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGAT
196 CTTTACCTGTTTTTTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGAT
6241 CGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCT
261 CGATACATTTTTATAAAGTATCGACACTTTC-ATATATCCGATAGCGCTTTACCT
6296 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACT
6361 TTCAATATATACGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACC
66 TTCAATATATACGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACC
*
6426 TGTTATATTGTTATGGATCGATACA-TTTTATAAAGTATCGACACTTTC-A-ATATCCGGTAGCA
131 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCG
* * * *
6488 CTTTACCTGTTTTGTCATTTATAAACCGATTTTGTCATTTTTTTACCTGTTATATTGTTATTGAT
196 CTTTACCTGTTTTTTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGAT
* *
6553 CAATATATTTTTATAAAGTATCGACAC
261 CGATACATTTTTATAAAGTATCGACAC
6580 AAACTGACAA
Statistics
Matches: 585, Mismatches: 12, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
312 98 0.17
313 1 0.00
314 110 0.19
315 259 0.44
316 116 0.20
317 1 0.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.46
Consensus pattern (314 bp):
GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACT
TTCAATATATACGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACC
TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCG
CTTTACCTGTTTTTTCATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGGAT
CGATACATTTTTATAAAGTATCGACACTTTCATATATCCGATAGCGCTTTACCT
Found at i:6310 original size:92 final size:92
Alignment explanation
Indices: 6204--6399 Score: 365
Period size: 92 Copynumber: 2.1 Consensus size: 92
6194 TTATAGACCG
6204 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
*
6269 TTCAATATATCCGATAGCGCTTTACCT
66 TTCAATATATACGATAGCGCTTTACCT
*
6296 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
*
6361 TTCAATATATACGGTAGCGCTTTACCT
66 TTCAATATATACGATAGCGCTTTACCT
6388 GTTTTGTCATTT
1 GTTTTGTCATTT
6400 ATAGACCGGT
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 101 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (92 bp):
GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTCAATATATACGATAGCGCTTTACCT
Found at i:6357 original size:204 final size:200
Alignment explanation
Indices: 6093--6507 Score: 733
Period size: 204 Copynumber: 2.1 Consensus size: 200
6083 TTATAGACCG
6093 GTTTTGTCA-TTTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
* *
6157 TTCAATATATCCGGTAGCGCTTTACCTGTTTTTTCATTTATAGACCGGTTTTGTCATTTTTTTAC
66 TTCAATATATACGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCA-TTTTTTAC
6222 CTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGATAGC
130 CTGTTATATTGTTATGGATCGATACA-TTTTATAAAGTATCGACACTTTC-A-ATATCCGATAGC
*
6287 GCTTTACCT
192 ACTTTACCT
* *
6296 GTTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACT
1 GTTTTGTCATTTTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
6361 TTCAATATATACGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACC
66 TTCAATATATACGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACC
*
6426 TGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTCAATATCCGGTAGCACTT
131 TGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTCAATATCCGATAGCACTT
6491 TACCT
196 TACCT
6496 GTTTTGTCATTT
1 GTTTTGTCATTT
6508 ATAAACCGAT
Statistics
Matches: 205, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
200 31 0.15
201 1 0.00
202 23 0.11
203 43 0.21
204 107 0.52
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.46
Consensus pattern (200 bp):
GTTTTGTCATTTTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTCAATATATACGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACC
TGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTCAATATCCGATAGCACTT
TACCT
Found at i:6571 original size:110 final size:112
Alignment explanation
Indices: 6297--6579 Score: 475
Period size: 108 Copynumber: 2.6 Consensus size: 112
6287 GCTTTACCTG
6297 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTT
1 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTT
* * *
6362 TCAATATATACGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGG
66 TCAATATATACGGTAGCACTTTACCTGTTTTGTCATTTATAAACCGA
*
6409 TTTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTATAAAGTATCGACACTT
1 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTT
*
6472 TC-A-ATATCCGGTAGCACTTTACCTGTTTTGTCATTTATAAACCGA
66 TCAATATATACGGTAGCACTTTACCTGTTTTGTCATTTATAAACCGA
* *
6517 TTTTGTCATTTTTTTACCTGTTATATTGTTATTGATCAATATATTTTTATAAAGTATCGACAC
1 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACAC
6580 AAACTGACAA
Statistics
Matches: 161, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
108 46 0.29
109 32 0.20
110 42 0.26
111 33 0.20
112 8 0.05
ACGTcount: A:0.25, C:0.14, G:0.13, T:0.47
Consensus pattern (112 bp):
TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTT
TCAATATATACGGTAGCACTTTACCTGTTTTGTCATTTATAAACCGA
Found at i:6784 original size:24 final size:24
Alignment explanation
Indices: 6752--6808 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
6742 TAAATATTAT
6752 TTATTATTATTATTATTATT-ATAA
1 TTATTATTATT-TTATTATTAATAA
*
6776 TTATTATTATTTTTTTATTAATAA
1 TTATTATTATTTTATTATTAATAA
*
6800 ATATTATTA
1 TTATTATTA
6809 CAGGCCCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.23
24 23 0.77
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TTATTATTATTTTATTATTAATAA
Found at i:6808 original size:3 final size:3
Alignment explanation
Indices: 6746--6795 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
6736 TTCATTTAAA
* *
6746 TAT TATT TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT T-T TTT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6791 TAT TA
1 TAT TA
6796 ATAAATATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8190 original size:21 final size:21
Alignment explanation
Indices: 8166--8205 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8156 TATTGTTTTA
*
8166 ATTTTACTTGTTA-TATATATT
1 ATTTTA-TTATTATTATATATT
8187 ATTTTATTATTATTATATA
1 ATTTTATTATTATTATATA
8206 GTCATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTTATTATTATTATATATT
Found at i:8472 original size:22 final size:23
Alignment explanation
Indices: 8441--8486 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
8431 CCTTTTCTGA
*
8441 TATTTCTAAATAAATAAA-TATT
1 TATTTATAAATAAATAAATTATT
*
8463 TATTTATAAATATATAAATTATT
1 TATTTATAAATAAATAAATTATT
8486 T
1 T
8487 TTTTCTCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTTATAAATAAATAAATTATT
Found at i:16139 original size:18 final size:19
Alignment explanation
Indices: 16111--16147 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
16101 AGATGGCAAT
*
16111 CATTCTTTACATTTTTTTA
1 CATTCTTTACATTTATTTA
16130 CATT-TTTACATTTATTTA
1 CATTCTTTACATTTATTTA
16148 TTTCATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (19 bp):
CATTCTTTACATTTATTTA
Found at i:19676 original size:8 final size:8
Alignment explanation
Indices: 19659--19702 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
19649 ATTATGCTTG
19659 AAGAAAAA
1 AAGAAAAA
19667 AAGAACAAA
1 AAGAA-AAA
19676 AA-AGAAAA
1 AAGA-AAAA
19684 AAGAAAGAA
1 AAGAAA-AA
19693 AAGAAAAA
1 AAGAAAAA
19701 AA
1 AA
19703 AGGGGTCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 17 0.53
9 15 0.47
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:19678 original size:11 final size:10
Alignment explanation
Indices: 19662--19700 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
19652 ATGCTTGAAG
19662 AAAAAAAGAA
1 AAAAAAAGAA
*
19672 CAAAAAAGAA
1 AAAAAAAGAA
19682 AAAAGAAAGAA
1 AAAA-AAAGAA
19693 AAGAAAAA
1 AA-AAAAA
19701 AAAGGGGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 12 0.48
11 11 0.44
12 2 0.08
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:19694 original size:16 final size:17
Alignment explanation
Indices: 19663--19701 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
19653 TGCTTGAAGA
19663 AAAAAAGAACAAAAAAG
1 AAAAAAGAACAAAAAAG
*
19680 AAAAAAGAA-AGAAAAG
1 AAAAAAGAACAAAAAAG
19696 AAAAAA
1 AAAAAA
19702 AAGGGGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (17 bp):
AAAAAAGAACAAAAAAG
Found at i:19702 original size:17 final size:18
Alignment explanation
Indices: 19659--19702 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
19649 ATTATGCTTG
19659 AAGAAAAAAAGAACAAAA
1 AAGAAAAAAAGAACAAAA
*
19677 AAG-AAAAAAGAA-AGAA
1 AAGAAAAAAAGAACAAAA
19693 AAGAAAAAAA
1 AAGAAAAAAA
19703 AGGGGTCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 6 0.25
17 15 0.62
18 3 0.12
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAAGAACAAAA
Found at i:21352 original size:114 final size:115
Alignment explanation
Indices: 20974--21429 Score: 772
Period size: 115 Copynumber: 4.0 Consensus size: 115
20964 AGCAAGTGCC
*
20974 ATGTGCTCATAGTAGAAATAAGAATACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
* * *
21039 ATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGGTTTGAAAGATAA
66 ATCTGGTTTGGTAGGAACCACAAAAACCAATCATTGGATTTGAAAGATAA
*
21089 ATGTGCTCATAGTAGAAATAAGAGGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
* *
21154 ATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATAA
66 ATCTGGTTTGGTAGGAACCACAAAAACCAATCATTGGATTTGAAAGATAA
*
21204 ATGTGCTCATAGTATAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
*
21269 ATCTGGTTTGGTAGGAACCAC-AGAACCAATCATTGGATTTGAAAGATAA
66 ATCTGGTTTGGTAGGAACCACAAAAACCAATCATTGGATTTGAAAGATAA
*
21318 ATGTGCTCATAGTAGAAATAAGAATACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
* * * *
21383 ATATGGTTTGGTAGGAACCAC-AGAACCAATCATTGGAATTAAAAGAT
66 ATCTGGTTTGGTAGGAACCACAAAAACCAATCATTGGATTTGAAAGAT
21430 GAACTACATG
Statistics
Matches: 328, Mismatches: 13, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
114 134 0.41
115 194 0.59
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (115 bp):
ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
ATCTGGTTTGGTAGGAACCACAAAAACCAATCATTGGATTTGAAAGATAA
Found at i:21376 original size:229 final size:229
Alignment explanation
Indices: 20974--21429 Score: 770
Period size: 229 Copynumber: 2.0 Consensus size: 229
20964 AGCAAGTGCC
*
20974 ATGTGCTCATAGTAGAAATAAGAATACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
* * *
21039 ATCTGGTTTGGTATGAACCCCAAAAACCAATCATTGGGTTTGAAAGATAAATGTGCTCATAGTAG
66 ATCTGGTTTGGTAGGAACCACAAAAACCAATCATTGGATTTGAAAGATAAATGTGCTCATAGTAG
* * *
21104 AAATAAGAGGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG
131 AAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGGTAGG
* * *
21169 AACCCCAAAAACCAATCATTGGATTTGAAAGATAA
196 AACCAC-AAAACCAATCATTGGAATTAAAAGATAA
*
21204 ATGTGCTCATAGTATAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
*
21269 ATCTGGTTTGGTAGGAACCAC-AGAACCAATCATTGGATTTGAAAGATAAATGTGCTCATAGTAG
66 ATCTGGTTTGGTAGGAACCACAAAAACCAATCATTGGATTTGAAAGATAAATGTGCTCATAGTAG
*
21333 AAATAAGAATACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGGTAGG
131 AAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGGTAGG
*
21398 AACCACAGAACCAATCATTGGAATTAAAAGAT
196 AACCACAAAACCAATCATTGGAATTAAAAGAT
21430 GAACTACATG
Statistics
Matches: 212, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
228 23 0.11
229 107 0.50
230 82 0.39
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (229 bp):
ATGTGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
ATCTGGTTTGGTAGGAACCACAAAAACCAATCATTGGATTTGAAAGATAAATGTGCTCATAGTAG
AAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGGTAGG
AACCACAAAACCAATCATTGGAATTAAAAGATAA
Found at i:22326 original size:113 final size:113
Alignment explanation
Indices: 22159--22440 Score: 412
Period size: 113 Copynumber: 2.5 Consensus size: 113
22149 TTCCAGTTCG
* *
22159 AGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAG-GGAAAGTTCATAATGAGAAGAACTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAGAACTTGTT
** ** * *
22223 CAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGGAA
65 CAACTTTTTGTTCAAAACCATCACTTGATGGATCAACATTGCCAGAGAA
22272 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
22337 AACTTTTTGTTCAAAACCATCACTTGTTGGATCAGCTTTTCCAGAGAA
66 AACTTTTTGTTCAAAACCATCACTTGATGGATCAACATTGCCAGAGAA
22385 AGTTCATAATGAGAAGAACTCATCTG-A-AA--AAGAAGAAGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
22441 CATCTGAAAG
Statistics
Matches: 156, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
109 27 0.17
111 2 0.01
112 1 0.01
113 125 0.80
114 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.27
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTTGTTCAAAACCATCACTTGATGGATCAACATTGCCAGAGAA
Found at i:22431 original size:36 final size:34
Alignment explanation
Indices: 22384--22472 Score: 151
Period size: 36 Copynumber: 2.6 Consensus size: 34
22374 TTTCCAGAGA
22384 AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTG--AAAGAAG
22420 AAGTTCATAATGAGAAGAACTCATCTGAAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAAGAAG
*
22454 AAATTCATAATGAGAAGAA
1 AAGTTCATAATGAGAAGAA
22473 TTTGTTCAAC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
34 25 0.48
36 27 0.52
ACGTcount: A:0.51, C:0.10, G:0.19, T:0.20
Consensus pattern (34 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAAGAAG
Found at i:22461 original size:34 final size:35
Alignment explanation
Indices: 22381--22472 Score: 150
Period size: 34 Copynumber: 2.6 Consensus size: 35
22371 GCTTTTCCAG
22381 AGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGA
1 AGAAA-TTCATAATGAGAAGAACTCATCTG-AAAAGA
*
22418 AGAAGTTCATAATGAGAAGAACTCATCTG-AAAGA
1 AGAAATTCATAATGAGAAGAACTCATCTGAAAAGA
22452 AGAAATTCATAATGAGAAGAA
1 AGAAATTCATAATGAGAAGAA
22473 TTTGTTCAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
34 25 0.47
36 24 0.45
37 4 0.08
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.20
Consensus pattern (35 bp):
AGAAATTCATAATGAGAAGAACTCATCTGAAAAGA
Found at i:22535 original size:143 final size:145
Alignment explanation
Indices: 22271--22760 Score: 826
Period size: 143 Copynumber: 3.4 Consensus size: 145
22261 TTGCCAGGGA
*
22271 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTGTT
*
22336 CAACTTTTTGTTCAAAACCATCACTTGTTGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAG
62 CAACTTTTTGTTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAG
*
22401 AACTCATCTGAAAAAGAAG
127 AACTCATCTGAAGAAGAAG
22420 AAGTTCATAATGAGAAGAACTCATCTG-A-AAGAAGAAATTCATAATGAGAAGAATTTGTTCAAC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAC
22483 TTTTTGTTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
66 TTTTTGTTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
22548 CATCTGAAGAAGAAG
131 CATCTGAAGAAGAAG
22563 AAGTTCATAATGAGAAGAACTCATCTG-A-AAGAAGAAATTCATAATGAGAAGAATTTGTTCAAC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAC
* * * * *
22626 CTTTTGTTCAAATCCATCACTTGATAGATCAGCTTTTCTAGAGAAAGTTCATAATGAGAAGAGCT
66 TTTTTGTTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
22691 CATCTGAAGAAGAAG
131 CATCTGAAGAAGAAG
* *
22706 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATAAGAAGAA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAA
22761 CTCATCTGAA
Statistics
Matches: 329, Mismatches: 10, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
143 268 0.81
144 3 0.01
145 24 0.07
146 4 0.01
147 2 0.01
148 1 0.00
149 27 0.08
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.26
Consensus pattern (145 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAC
TTTTTGTTCAAAACCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
CATCTGAAGAAGAAG
Found at i:22574 original size:36 final size:36
Alignment explanation
Indices: 22527--22795 Score: 223
Period size: 36 Copynumber: 7.5 Consensus size: 36
22517 TTTCCAGAGA
22527 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
22563 AAGTTCATAATGAGAAGAACTCATCTG-A-AAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
* * ** * *** ***
22597 AAATTCATAATGAGAAGAATTTGT-TCAACCTTTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAA---GAAGAAG
* * * * **
22635 AAATCCATCACTTGA-TAGATCAGCTTTTCT--AG-AGAA-
1 AAGTTCAT-A-ATGAGAAGA--A-CTCATCTGAAGAAGAAG
*
22671 A-GTTCATAATGAGAAGAGCTCATCTGAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
22706 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
*
22742 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
*
22778 AAGTTCACAATGAGAAGA
1 AAGTTCATAATGAGAAGA
22796 GCTTGTTCAA
Statistics
Matches: 186, Mismatches: 30, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
31 5 0.03
33 6 0.03
34 35 0.19
35 6 0.03
36 112 0.60
37 1 0.01
38 8 0.04
39 4 0.02
40 3 0.02
41 2 0.01
42 3 0.02
43 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.24
Consensus pattern (36 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAG
Found at i:22712 original size:179 final size:189
Alignment explanation
Indices: 22527--22919 Score: 531
Period size: 179 Copynumber: 2.1 Consensus size: 189
22517 TTTCCAGAGA
*
22527 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATGAGAAGAACTCATCTG-A
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATAAGAAGAACTCATCTGAA
* * *
22591 -AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTCA-AA-TCCAT-C-A-C-TTG
66 GAAGAAGAAATTCACAATGAGAAGAACTTGTTCAACCTTTTG--CATAATTCCATACAAGCATAG
* * *
22649 A-TAG-ATCAGCTTTTCTAGAGAAAGTTCATAATGAGAAGAGCTCATCTG-AAG-AAGAAG
129 ATTAGCATCAACCTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAGAAAGAAG
22706 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATAAGAAGAACTCATCTGAA
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATAAGAAGAACTCATCTGAA
* * *
22771 GAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGA
66 GAAGAAGAAATTCACAATGAGAAGAACTTGTTCAACCTTTTGCATAATTCCAT-AC--AAGC--A
22836 TAGATTAGCATCAACCTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAA
126 TAGATTAGCATCAACCTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTG--AAAGAAAGAA
22901 G
189 G
22902 AAGTTCATAATGAGAAGA
1 AAGTTCATAATGAGAAGA
22920 GCTTATTCAA
Statistics
Matches: 185, Mismatches: 10, Indels: 21
0.86 0.05 0.10
Matches are distributed among these distances:
179 64 0.35
180 3 0.02
181 41 0.22
183 1 0.01
186 1 0.01
187 1 0.01
190 3 0.02
191 3 0.02
192 41 0.22
195 3 0.02
196 24 0.13
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.24
Consensus pattern (189 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCATAATAAGAAGAACTCATCTGAA
GAAGAAGAAATTCACAATGAGAAGAACTTGTTCAACCTTTTGCATAATTCCATACAAGCATAGAT
TAGCATCAACCTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAGAAAGAAG
Found at i:22930 original size:124 final size:122
Alignment explanation
Indices: 22742--23024 Score: 360
Period size: 124 Copynumber: 2.3 Consensus size: 122
22732 GAAGAAGAAG
* *
22742 AAGTTCATAATAAGAAGAACTCATCTG---AAG-AAGAAGAAGTTCACAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTATT
* * * * * *
22803 CAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATCAACCTTTCTAG-AGA
66 CAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACC---CCAGTAGA
*
22862 AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTATT
* * * * *
22927 CAACCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCATCCCCAGTGGA
66 CAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACCCCAGTAGA
22984 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
1 AAGTTCATAATGAGAAGAACTCATCTGAA-AAAGA-AAGAA
23025 TTTATTCAAC
Statistics
Matches: 142, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
120 26 0.18
121 3 0.02
122 31 0.22
123 8 0.06
124 74 0.52
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (122 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTATT
CAACCTTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCAACCCCAGTAGA
Found at i:23174 original size:3 final size:3
Alignment explanation
Indices: 23159--23216 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
23149 TTCATTTAAA
* * *
23159 TAT TAT T-T ATAT TAT TAT TAT TAT TAT AAT AAT AAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
23204 TAT T-T TAT AAT TA
1 TAT TAT TAT TAT TA
23217 ATAAATATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 3 0.06
3 44 0.92
4 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:23206 original size:27 final size:27
Alignment explanation
Indices: 23167--23229 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
23157 AATATTATTT
23167 ATATTATTATTATTATTATAA-TAATAA
1 ATATTATTATTATT-TTATAATTAATAA
*
23194 TTATTATTATTATTTTATAATTAATAA
1 ATATTATTATTATTTTATAATTAATAA
23221 ATATTATTA
1 ATATTATTA
23230 CAGGCCCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
ATATTATTATTATTTTATAATTAATAA
Found at i:24809 original size:18 final size:17
Alignment explanation
Indices: 24776--24811 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24766 ATTATAAAAA
24776 AAATTATAATTTAATTT
1 AAATTATAATTTAATTT
*
24793 AAATTATTATATTAATTT
1 AAATTATAAT-TTAATTT
24811 A
1 A
24812 TTAATATCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTATAATTTAATTT
Found at i:24895 original size:23 final size:26
Alignment explanation
Indices: 24863--24912 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
24853 CATTTTCTGA
*
24863 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
24886 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
24912 T
1 T
24913 TTTCTCATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 5 0.22
26 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:28745 original size:25 final size:25
Alignment explanation
Indices: 28711--28761 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
28701 TTATTCTGCT
*
28711 AAAGTTCATAGTAAGTGATGAGTCC
1 AAAGTTCATAGTAAGTGATGAATCC
28736 AAAGTTCATAGTAAGTGATGAATCC
1 AAAGTTCATAGTAAGTGATGAATCC
28761 A
1 A
28762 TTCTTCTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAGTTCATAGTAAGTGATGAATCC
Found at i:29532 original size:32 final size:32
Alignment explanation
Indices: 29496--29561 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
29486 CGTATGGTGA
29496 TTGCTTGTTTTGGCCTTCAACATTTTGCCATT
1 TTGCTTGTTTTGGCCTTCAACATTTTGCCATT
29528 TTGCTTGTTTTGGCCTTCAACATTTTGCCATT
1 TTGCTTGTTTTGGCCTTCAACATTTTGCCATT
29560 TT
1 TT
29562 CAGTATTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.12, C:0.21, G:0.15, T:0.52
Consensus pattern (32 bp):
TTGCTTGTTTTGGCCTTCAACATTTTGCCATT
Found at i:32127 original size:25 final size:26
Alignment explanation
Indices: 32079--32127 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
32069 TTTATTTTGT
*
32079 TTTTAAAAAATTAAATATTTTTTATA
1 TTTTAAAAAATTAAATATTATTTATA
**
32105 TTTTAAAAGTTTAAA-ATTATTTA
1 TTTTAAAAAATTAAATATTATTTA
32128 AGAGTTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTTAAAAAATTAAATATTATTTATA
Found at i:32606 original size:4 final size:4
Alignment explanation
Indices: 32597--33400 Score: 1395
Period size: 4 Copynumber: 202.5 Consensus size: 4
32587 ACCTTTGTAG
*
32597 ACAT ACAT ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
32645 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
32693 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
32741 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
32789 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT --AT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
32835 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
32883 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
32931 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
32979 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
33027 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
33075 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
33121 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
33169 ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
33215 ACAT ACAT ACAT ACAT ACAT ATAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* ** * * * *
33263 GCAT GTAT ACAT ACAT ACAT GCAT GCAT ACAT GCAT ACAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
33311 ACAT ACAT ACAT GCAT GCAT GCAT GCAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
33359 ACAT GCAT GCAT GCAT GCAT ACAC ACAT ACAC ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
33401 GCACGCACGC
Statistics
Matches: 772, Mismatches: 22, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
2 6 0.01
4 766 0.99
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:33410 original size:8 final size:8
Alignment explanation
Indices: 33399--33686 Score: 246
Period size: 8 Copynumber: 36.2 Consensus size: 8
33389 ACACATACAT
*
33399 ACGCACGC
1 ACGCACAC
*
33407 ACGCACGC
1 ACGCACAC
*
33415 ACGCACGC
1 ACGCACAC
*
33423 ACGCACGC
1 ACGCACAC
33431 ACG--CAC
1 ACGCACAC
*
33437 ACGCACGC
1 ACGCACAC
33445 ACGCACAC
1 ACGCACAC
* *
33453 ACACGCAC
1 ACGCACAC
*
33461 ACACACAC
1 ACGCACAC
*
33469 GCGCACAC
1 ACGCACAC
*
33477 ACACACAAAC
1 ACGCAC--AC
*
33487 ACACACAC
1 ACGCACAC
**
33495 ACATACAC
1 ACGCACAC
*
33503 ACGCGCAC
1 ACGCACAC
33511 A--CACAC
1 ACGCACAC
33517 ACGCACAC
1 ACGCACAC
33525 A--CACAC
1 ACGCACAC
33531 ACGCACAC
1 ACGCACAC
33539 ACGCACACGC
1 ACGCACA--C
*
33549 ACACACAC
1 ACGCACAC
*
33557 ACGCGCAC
1 ACGCACAC
*
33565 ACACACAC
1 ACGCACAC
*
33573 ACGCGCAC
1 ACGCACAC
* *
33581 GCACACAC
1 ACGCACAC
*
33589 GCGCACAC
1 ACGCACAC
*
33597 ACGCACGC
1 ACGCACAC
* *
33605 GCACACAC
1 ACGCACAC
*
33613 GCGCACAC
1 ACGCACAC
33621 ACGCACAC
1 ACGCACAC
33629 ACGCACAC
1 ACGCACAC
33637 ACGCACAC
1 ACGCACAC
33645 ACGCACAC
1 ACGCACAC
33653 ACGCACAC
1 ACGCACAC
*
33661 ACGCACGC
1 ACGCACAC
*
33669 ACACACAC
1 ACGCACAC
*
33677 ACACACAC
1 ACGCACAC
33685 AC
1 AC
33687 ATACATGATT
Statistics
Matches: 234, Mismatches: 36, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
6 16 0.07
8 203 0.87
10 15 0.06
ACGTcount: A:0.36, C:0.49, G:0.14, T:0.00
Consensus pattern (8 bp):
ACGCACAC
Found at i:33687 original size:14 final size:14
Alignment explanation
Indices: 33379--33687 Score: 213
Period size: 14 Copynumber: 22.1 Consensus size: 14
33369 ATGCATGCAT
*
33379 ACACACATACACAC
1 ACACACACACACAC
* * * *
33393 ATACATACGCACGC
1 ACACACACACACAC
* * *
33407 ACGCACGCACGCAC
1 ACACACACACACAC
* * * *
33421 GCACGCACGCACGC
1 ACACACACACACAC
* * *
33435 ACACGCACGCACGC
1 ACACACACACACAC
*
33449 ACACACACGCACAC
1 ACACACACACACAC
* *
33463 ACACACGCGCACAC
1 ACACACACACACAC
*
33477 ACACACAAACACAC
1 ACACACACACACAC
*
33491 ACACACATACACAC
1 ACACACACACACAC
* *
33505 GCGCACACACACAC
1 ACACACACACACAC
*
33519 GCACACACACACAC
1 ACACACACACACAC
* *
33533 GCACACACGCACAC
1 ACACACACACACAC
* *
33547 GCACACACACACGC
1 ACACACACACACAC
*
33561 GCACACACACACAC
1 ACACACACACACAC
* * *
33575 GCGCACGCACACAC
1 ACACACACACACAC
* * *
33589 GCGCACACACGCAC
1 ACACACACACACAC
* * * *
33603 GCGCACACACGCGC
1 ACACACACACACAC
*
33617 ACACACGCACACAC
1 ACACACACACACAC
* *
33631 GCACACACGCACAC
1 ACACACACACACAC
* *
33645 ACGCACACACGCAC
1 ACACACACACACAC
* *
33659 ACACGCACGCACAC
1 ACACACACACACAC
33673 ACACACACACACAC
1 ACACACACACACAC
33687 A
1 A
33688 TACATGATTA
Statistics
Matches: 237, Mismatches: 58, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 237 1.00
ACGTcount: A:0.38, C:0.48, G:0.13, T:0.01
Consensus pattern (14 bp):
ACACACACACACAC
Found at i:40779 original size:63 final size:61
Alignment explanation
Indices: 40658--40793 Score: 145
Period size: 63 Copynumber: 2.2 Consensus size: 61
40648 CATGTTGACT
* *
40658 ATTAAACTT-TTAAAATTTATAAAATAATTATTAAATTTATCAAATTATTTCAATATAATA
1 ATTAAATTTATTAAAATTTATAAAATAATCATTAAATTTATCAAATTATTTCAATATAATA
* * *
40718 ATTATATTTTATTAAAATATTATAAAATAGTCATTAAATTTTAAT-TAATT-TTTACAA-ATAAT
1 ATTA-AATTTATTAAAAT-TTATAAAATAATCATTAAA-TTT-ATCAAATTATTT-CAATATAAT
*
40780 C
61 A
40781 ATTAAATTTATTA
1 ATTAAATTTATTA
40794 TATTTTACAC
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
60 4 0.06
61 3 0.05
62 15 0.24
63 29 0.46
64 10 0.16
65 2 0.03
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (61 bp):
ATTAAATTTATTAAAATTTATAAAATAATCATTAAATTTATCAAATTATTTCAATATAATA
Found at i:41086 original size:30 final size:31
Alignment explanation
Indices: 41023--41103 Score: 119
Period size: 30 Copynumber: 2.6 Consensus size: 31
41013 TAAAAAAATA
*
41023 AAATTGATATTTTATATAAAGTTTAAAGGTT
1 AAATTAATATTTTATATAAAGTTTAAAGGTT
* *
41054 AAATTAATATTTTATATGAAGTTT-ATGGTT
1 AAATTAATATTTTATATAAAGTTTAAAGGTT
*
41084 AAATTAATATTTTATCTAAA
1 AAATTAATATTTTATATAAA
41104 ATTATGAGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 23 0.51
31 22 0.49
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.47
Consensus pattern (31 bp):
AAATTAATATTTTATATAAAGTTTAAAGGTT
Found at i:43666 original size:36 final size:36
Alignment explanation
Indices: 43619--43692 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
43609 GATAAAGTCC
43619 CTGTTAAATTTAAGTCACCACCTATTATTGTTGTTA
1 CTGTTAAATTTAAGTCACCACCTATTATTGTTGTTA
* *
43655 CTGTTGAATTTAAGTCCCCACCTATTATTGTTGTTA
1 CTGTTAAATTTAAGTCACCACCTATTATTGTTGTTA
43691 CT
1 CT
43693 ATAATATTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (36 bp):
CTGTTAAATTTAAGTCACCACCTATTATTGTTGTTA
Found at i:43802 original size:3 final size:3
Alignment explanation
Indices: 43796--43920 Score: 214
Period size: 3 Copynumber: 41.7 Consensus size: 3
43786 TTTTTATCCA
* *
43796 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
43844 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
43892 TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
43921 AATATATTAA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 114 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:44466 original size:20 final size:21
Alignment explanation
Indices: 44443--44483 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44433 GACAGAACCG
*
44443 GAGAAA-AAGAAAAAAAAACA
1 GAGAAAGAAAAAAAAAAAACA
44463 GAGAAAGAAAAAAAAAAAACA
1 GAGAAAGAAAAAAAAAAAACA
44484 ACAACAGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (21 bp):
GAGAAAGAAAAAAAAAAAACA
Found at i:45357 original size:19 final size:19
Alignment explanation
Indices: 45319--45354 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
45309 TAATTTAGTC
45319 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
45338 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
45355 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:45420 original size:20 final size:21
Alignment explanation
Indices: 45383--45423 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
45373 AGAATTTTTC
**
45383 TTTTATTATATTGTTAAATAT
1 TTTTATTATATTCATAAATAT
45404 TTTTA-TATATTCATAAATAT
1 TTTTATTATATTCATAAATAT
45424 ATATAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:56782 original size:9 final size:9
Alignment explanation
Indices: 56768--56813 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
56758 ATTATGCTTG
56768 AAGAAAAGA
1 AAGAAAAGA
56777 AAGAAAAAGA
1 AAG-AAAAGA
56787 AA-AAAA-A
1 AAGAAAAGA
*
56794 AGGAAAAGA
1 AAGAAAAGA
*
56803 GAGAAAAGA
1 AAGAAAAGA
56812 AA
1 AA
56814 AAGAAAATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
7 2 0.07
8 8 0.27
9 12 0.40
10 8 0.27
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
AAGAAAAGA
Found at i:56787 original size:6 final size:6
Alignment explanation
Indices: 56776--56820 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
56766 TGAAGAAAAG
*
56776 AAAGAA AAAGAA AAA-AA AAGGAA AAGAGAGA AAAGAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AA-AGA-A AAAGAA AAAGAA AA
56821 TGGAGGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 4 0.12
6 22 0.65
7 5 0.15
8 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:56799 original size:26 final size:26
Alignment explanation
Indices: 56770--56820 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
56760 TATGCTTGAA
56770 GAAAAGAAAGAAAAAGAAAAA-AAAAG
1 GAAAAGAAAG-AAAAGAAAAAGAAAAG
*
56796 GAAAAGAGAGAAAAGAAAAAGAAAA
1 GAAAAGAAAGAAAAGAAAAAGAAAA
56821 TGGAGGGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (26 bp):
GAAAAGAAAGAAAAGAAAAAGAAAAG
Found at i:57188 original size:19 final size:20
Alignment explanation
Indices: 57155--57196 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
57145 TTCAAGTTCA
*
57155 ATTTATTGGAGATTCAATTT
1 ATTTATTGGAAATTCAATTT
57175 ATTT-TTGGAAATTCAATTT
1 ATTTATTGGAAATTCAATTT
57194 ATT
1 ATT
57197 CTTTTCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (20 bp):
ATTTATTGGAAATTCAATTT
Found at i:58043 original size:83 final size:83
Alignment explanation
Indices: 57942--58267 Score: 546
Period size: 83 Copynumber: 3.9 Consensus size: 83
57932 TGTGATATCC
57942 CAGAACCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAG
1 CAGAACCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAG
58007 TTATCTGATCTGGTTTGG
66 TTATCTGATCTGGTTTGG
* *
58025 CAGAACCAATCATTGAATTTGGAAGATGAATGTGCTCATAACATCTTTTGGAAGTGTTCTTTGAG
1 CAGAACCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAG
58090 TTATCTGATCTGGTTTGG
66 TTATCTGATCTGGTTTGG
* * * *
58108 CAGAACCAATCAGTGAGTTTAGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGA
*
58172 GTTATCTGATCTGATTTGG
65 GTTATCTGATCTGGTTTGG
* * *
58191 CAGAACCAATCATTGAATTCGGAACATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAG
1 CAGAACCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAG
58256 TTATCTGATCTG
66 TTATCTGATCTG
58268 ATTCAGTAGG
Statistics
Matches: 225, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
82 1 0.00
83 223 0.99
84 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (83 bp):
CAGAACCAATCATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAG
TTATCTGATCTGGTTTGG
Found at i:59320 original size:114 final size:114
Alignment explanation
Indices: 59022--59642 Score: 1034
Period size: 114 Copynumber: 5.5 Consensus size: 114
59012 GAAAGATCAG
59022 CTTTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
59086 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAT
66 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAT
59135 CTTTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
*
59199 GAAGAATTTATTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAT
66 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAT
*
59248 CTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
**
59313 GAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGGATTAT
66 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAT
*
59362 CTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
**
59427 GAAGAATTTGTTCAACCTTTTTTCTGAATTCATCAAATTGATGGATTAT
66 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAT
59476 CTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
1 CTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * * * *
59541 GAAGAACTTGTTCAATCTTTTGCTTGAATTCATC-ATTTGATGGATCAT
66 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAT
* ** * * *
59589 CATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAAAG-AGAAGAA
1 CTTTTCCAG-AGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
59643 TTTATTCAAT
Statistics
Matches: 487, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
113 150 0.31
114 337 0.69
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (114 bp):
CTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAT
Found at i:59786 original size:3 final size:3
Alignment explanation
Indices: 59780--59877 Score: 169
Period size: 3 Copynumber: 32.7 Consensus size: 3
59770 TTTTTATCCA
*
59780 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
59828 TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
59876 TA
1 TA
59878 AATATATTAA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:60425 original size:21 final size:20
Alignment explanation
Indices: 60400--60440 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
60390 GACAGAACCG
60400 GAGAAAAAGAAAAAAAAAACA
1 GAGAAAAA-AAAAAAAAAACA
*
60421 GAGAAAGAAAAAAAAAAACA
1 GAGAAAAAAAAAAAAAAACA
60441 ACAACAGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (20 bp):
GAGAAAAAAAAAAAAAAACA
Found at i:60443 original size:23 final size:21
Alignment explanation
Indices: 60400--60443 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
60390 GACAGAACCG
*
60400 GAGAAAAAGAAAAAAAAAACA
1 GAGAAAAAAAAAAAAAAAACA
60421 GAGAAAGAAAAAAAAAAACAACA
1 GAGAAA-AAAAAAAAAAA-AACA
60444 ACAGCTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 10 0.50
23 4 0.20
ACGTcount: A:0.80, C:0.07, G:0.14, T:0.00
Consensus pattern (21 bp):
GAGAAAAAAAAAAAAAAAACA
Found at i:61308 original size:19 final size:19
Alignment explanation
Indices: 61270--61305 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
61260 TAATTTAGTC
61270 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
61289 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
61306 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:67100 original size:17 final size:18
Alignment explanation
Indices: 67080--67113 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
67070 AAATAAAAAA
67080 TAAAAAAAAAT-CTAATT
1 TAAAAAAAAATACTAATT
*
67097 TAAAATAAAATACTAAT
1 TAAAAAAAAATACTAAT
67114 AAAATCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAAAAAATACTAATT
Found at i:69208 original size:21 final size:20
Alignment explanation
Indices: 69174--69213 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
69164 AAGCTTTATA
69174 TTTATTATACAATTATAACTT
1 TTTATTATACAATTA-AACTT
**
69195 TTTATTATTTAATTAAACT
1 TTTATTATACAATTAAACT
69214 AAATCCACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTATTATACAATTAAACTT
Found at i:76881 original size:16 final size:16
Alignment explanation
Indices: 76860--76890 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
76850 TTCTTGTTAG
*
76860 AAAATAATATTATTAC
1 AAAATAATAATATTAC
76876 AAAATAATAATATTA
1 AAAATAATAATATTA
76891 GCATTCACTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATAATAATATTAC
Found at i:77225 original size:20 final size:20
Alignment explanation
Indices: 77215--77284 Score: 140
Period size: 20 Copynumber: 3.5 Consensus size: 20
77205 CACATTAATG
77215 AGATAAATCTCATATCAATT
1 AGATAAATCTCATATCAATT
77235 AGATAAATCTCATATCAATT
1 AGATAAATCTCATATCAATT
77255 AGATAAATCTCATATCAATT
1 AGATAAATCTCATATCAATT
77275 AGATAAATCT
1 AGATAAATCT
77285 TATTTTTCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (20 bp):
AGATAAATCTCATATCAATT
Found at i:77246 original size:40 final size:40
Alignment explanation
Indices: 77202--77284 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
77192 GTAAAAGTTG
*
77202 TCTCACATTAATGAGATAAATCTCATATCAATTAGATAAA
1 TCTCACATCAATGAGATAAATCTCATATCAATTAGATAAA
* *
77242 TCTCATATCAATTAGATAAATCTCATATCAATTAGATAAA
1 TCTCACATCAATGAGATAAATCTCATATCAATTAGATAAA
77282 TCT
1 TCT
77285 TATTTTTCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (40 bp):
TCTCACATCAATGAGATAAATCTCATATCAATTAGATAAA
Found at i:83716 original size:17 final size:17
Alignment explanation
Indices: 83690--83727 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
83680 ATTTAAGGTA
83690 AAATATATTAAATAA-T
1 AAATATATTAAATAACT
*
83706 AAATATAATTATATAACT
1 AAATAT-ATTAAATAACT
83724 AAAT
1 AAAT
83728 CAAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 8 0.42
18 5 0.26
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATATATTAAATAACT
Found at i:85509 original size:17 final size:16
Alignment explanation
Indices: 85469--85509 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
85459 TTTTAAAAAG
85469 AAAATA-AT-AAATAA
1 AAAATATATAAAATAA
*
85483 AAAATTTATAAAATAA
1 AAAATATATAAAATAA
85499 AAATATATATA
1 AAA-ATATATA
85510 TATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 5 0.23
15 2 0.09
16 9 0.41
17 6 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATATATAAAATAA
Found at i:87813 original size:26 final size:26
Alignment explanation
Indices: 87776--87841 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
87766 CAAAGCCCGA
*
87776 AGGCCCGGTTACAAAGCAAGGCACAC
1 AGGCCCGATTACAAAGCAAGGCACAC
87802 AGGCCCGATTACAAAGCAAGGCACAC
1 AGGCCCGATTACAAAGCAAGGCACAC
* *
87828 ATGCTCGATTACAA
1 AGGCCCGATTACAA
87842 CGAGCCTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.36, C:0.29, G:0.23, T:0.12
Consensus pattern (26 bp):
AGGCCCGATTACAAAGCAAGGCACAC
Found at i:89131 original size:6 final size:6
Alignment explanation
Indices: 89120--89149 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
89110 ATAATAGGAT
89120 TATTAA TATTAA TATTAA TATTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA
89150 ATACTATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TATTAA
Found at i:90436 original size:41 final size:41
Alignment explanation
Indices: 90361--90712 Score: 318
Period size: 41 Copynumber: 8.6 Consensus size: 41
90351 TGACAGAGTA
* * **
90361 GTACTTTAGCGGTGTTTTTA-A-AAACGCCGCTATAGACGA
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* * * *
90400 GCATTTTAGTGGCGTTTTTATACAAACGCCGTTATAGACTT
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* *
90441 GTACTTTAGTGGCGTTTTTATACAAATGTCGCTATAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* **
90482 GTACTTTAGTGGC-TTTTTTTACAAACGTAGCTATAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* * * *
90522 GTGA-TTTAGTGGTGTTTTTATACAAATGTCGCTAAAGACTC
1 GT-ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
** * * * *
90563 GTGTTTTATTGGTGTTTTTATACAAACGCCACTATTGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* ** * *
90604 TTGTTTTAGTGGCGTTTTTATATAAATGCCGCTGA-AGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCT-ATAGACTC
* * * * *
90645 ATACTTTAGCGGCTTTTTTTATAAAAACGCCGCTATTGACTC
1 GTACTTTAGTGGC-GTTTTTATACAAACGCCGCTATAGACTC
* * *
90687 TTATTTTAGTGGCATTTTTATACAAA
1 GTACTTTAGTGGCGTTTTTATACAAA
90713 TGCCTCTAAA
Statistics
Matches: 257, Mismatches: 48, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
39 16 0.06
40 35 0.14
41 173 0.67
42 33 0.13
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (41 bp):
GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
Found at i:90519 original size:122 final size:120
Alignment explanation
Indices: 90361--90714 Score: 273
Period size: 122 Copynumber: 2.9 Consensus size: 120
90351 TGACAGAGTA
*
90361 GTACTTTAGCGGTGTTTTTAAAAACGCCGCTATAGA-CGAGCATTTTAGTGGCGTTTTTATACAA
1 GTACTTTAGCGGTGTTTTTAAAAACGCAGCTATAGACCGAG-A-TTTAGTGGCGTTTTTATACAA
* * *
90425 ACGCCGTTATAGACTTGTACTTTAGTGGCGTTTTTATACAAATGTCGCTATAGACTC
64 ACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAATGTCGCTATAGACTC
* * * * * *
90482 GTACTTTAGTGGCTTTTTTTACAAACGTAGCTATAGACTCGTGATTTAGTGGTGTTTTTATACAA
1 GTACTTTAGCGG-TGTTTTTAAAAACGCAGCTATAGAC-CGAGATTTAGTGGCGTTTTTATACAA
* * ** * * * * * *
90547 ATGTCGCTAAAGACTCGTGTTTTATTGGTGTTTTTATACAAACGCCACTATTGACTC
64 ACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAATGTCGCTATAGACTC
* ** * * * * * * *
90604 TTGTTTTAGTGGCGTTTTTATATAAATGCCGCTGA-AGACTC-ATACTTTAGCGGCTTTTTTTAT
1 GTACTTTAGCGGTGTTTTTA-A-AAACGCAGCT-ATAGAC-CGAGA-TTTAGTGGC-GTTTTTAT
* ** * * *
90667 AAAAACGCCGCTATTGACTCTTATTTTAGTGGCATTTTTATACAAATG
60 ACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAATG
90715 CCTCTAAACC
Statistics
Matches: 180, Mismatches: 45, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
121 17 0.09
122 94 0.52
123 21 0.12
124 48 0.27
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (120 bp):
GTACTTTAGCGGTGTTTTTAAAAACGCAGCTATAGACCGAGATTTAGTGGCGTTTTTATACAAAC
GCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAATGTCGCTATAGACTC
Found at i:90614 original size:163 final size:164
Alignment explanation
Indices: 90403--90714 Score: 400
Period size: 163 Copynumber: 1.9 Consensus size: 164
90393 TAGACGAGCA
**
90403 TTTTAGTGGCGTTTTTATACAAACGCCGTTATAGACTTGTACTTTAGTGGCGTTTTTATACAAAT
1 TTTTAGTGGCGTTTTTATACAAACGCCACTATAGACTTGTA-TTTAGTGGCGTTTTTATACAAAT
* * * * *
90468 GTCGCT-ATAGACTCGTACTTTAGTGGC-TTTTTT-TACAAACGTAGCTATAGACTCGTGA-TTT
65 GCCGCTGA-AGACTCATACTTTAGCGGCTTTTTTTATAAAAACGCAGCTATAGACTC-TGATTTT
**
90529 AGTGGTGTTTTTATACAAATGTCGCTAAAGACTCGTG
128 AGTGGCATTTTTATACAAATGTCGCTAAAGACTCGTG
* * * *
90566 TTTTATTGGTGTTTTTATACAAACGCCACTATTGACTCTTGT-TTTAGTGGCGTTTTTATATAAA
1 TTTTAGTGGCGTTTTTATACAAACGCCACTATAGA--CTTGTATTTAGTGGCGTTTTTATACAAA
* * *
90630 TGCCGCTGAAGACTCATACTTTAGCGGCTTTTTTTATAAAAACGCCGCTATTGACTCTTATTTTA
64 TGCCGCTGAAGACTCATACTTTAGCGGCTTTTTTTATAAAAACGCAGCTATAGACTCTGATTTTA
90695 GTGGCATTTTTATACAAATG
129 GTGGCATTTTTATACAAATG
90715 CCTCTAAACC
Statistics
Matches: 127, Mismatches: 16, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
163 74 0.58
164 9 0.07
165 44 0.35
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (164 bp):
TTTTAGTGGCGTTTTTATACAAACGCCACTATAGACTTGTATTTAGTGGCGTTTTTATACAAATG
CCGCTGAAGACTCATACTTTAGCGGCTTTTTTTATAAAAACGCAGCTATAGACTCTGATTTTAGT
GGCATTTTTATACAAATGTCGCTAAAGACTCGTG
Found at i:93264 original size:43 final size:43
Alignment explanation
Indices: 93215--93432 Score: 249
Period size: 43 Copynumber: 5.1 Consensus size: 43
93205 AAGGTAATTA
* * * *
93215 GCGGCGTTTGTATCAAAAAACACCGCTATAGATAT-GACATTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTCGACCTTTT
* * *
93258 ACGGCGTTTGTTCCAAAAACGTCGATATAGATCTCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
* * ** *
93301 GCGGTGTTTGTTCTAAAAACGCCTTTATAAATCTCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
* * * *
93344 GCGGCGTTTGTTCTAAAGACGCTGCTATAGATCTCGACTTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
* * *
93387 GCGGCGTTTGTTCCTAAAACGCCGCTATAGATCTTGACCTATT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
93430 GCG
1 GCG
93433 ACATTTTTTT
Statistics
Matches: 146, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
42 18 0.12
43 128 0.88
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (43 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTT
Found at i:94118 original size:15 final size:15
Alignment explanation
Indices: 94100--94128 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
94090 TTTAAAATTT
94100 ATTTTTAAAAATTAA
1 ATTTTTAAAAATTAA
94115 ATTTTTAAAAATTA
1 ATTTTTAAAAATTA
94129 CCTAATTGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTTTAAAAATTAA
Found at i:101876 original size:18 final size:17
Alignment explanation
Indices: 101855--101888 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
101845 TTTTACTAAT
*
101855 AGAG-GAAATATTACAA
1 AGAGAGAAAGATTACAA
101871 AGAGAGAAAGATTACAA
1 AGAGAGAAAGATTACAA
101888 A
1 A
101889 TAGTCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.59, C:0.06, G:0.21, T:0.15
Consensus pattern (17 bp):
AGAGAGAAAGATTACAA
Found at i:108529 original size:44 final size:46
Alignment explanation
Indices: 108444--108530 Score: 115
Period size: 47 Copynumber: 1.9 Consensus size: 46
108434 GCTTGAATTA
* *
108444 TGCATTAAATAACCTCTGAAAAAGTAGTTGAAACAATGCATTATTGT
1 TGCAATAAATAACCTCT-AAAAAGTAGCTGAAACAATGCATTATTGT
* *
108491 TGCAATAAATGACCTCT-AAAAGTAGCT-AAACAGTGCATTA
1 TGCAATAAATAACCTCTAAAAAGTAGCTGAAACAATGCATTA
108531 ATTGAGCACC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 12 0.33
45 9 0.25
47 15 0.42
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (46 bp):
TGCAATAAATAACCTCTAAAAAGTAGCTGAAACAATGCATTATTGT
Found at i:108649 original size:275 final size:275
Alignment explanation
Indices: 108130--108796 Score: 937
Period size: 275 Copynumber: 2.4 Consensus size: 275
108120 GTTAATGCAC
* * * ** * *
108130 CACTA-TTTCACCCATTTTTTGAATAGCTGCTTGAATTTTGCATTAGATAACCTCTGAAAAGTAG
1 CACTATTTTCACCCGTTTTATGAACAAATGCTTGAATTATGCATTAAATAACCTCTGAAAAGTAG
* *
108194 CTGAAACAATGCATTATTGCTT-CAATAAATGACCTCTGAAAAGTAGTTGAAACTATGCATTAAT
66 TTGAAACAATGCATTATTG-TTGCAATAAATGACCTCT-AAAAGTAGCTGAAACTATGCATTAAT
* * * *
108258 TGAGCACCGAAAAGTAGCTAAAGTAGTGAATAATTTATCTTGGTTAAAATATACGTTTTTTATGA
129 TGAGCACCGAAAAGTAGCTAAAGCAGTGAATAATTTAGCCTGGTTAAAATACACGTTTTTTATGA
* * *
108323 TTTGATGTGACAATTCAACATTGAAAAGTTTTCTAATTTAAGTTGATATATCACTGAGAAGTTGC
194 TTTGAAGTGACAATTCAACACTAAAAAGTTTTCTAATTTAAGTTGATATATCACTGAGAAGTTGC
*
108388 AGAAGATGATAATACAT
259 AGAAGATGATAATACAA
* * * * **
108405 CATTATTTTCACTCGTTTTCTGAAGAGTTGCTTGAATTATGCATTAAATAACCTCTGAAAAAGTA
1 CACTATTTTCACCCGTTTTATGAACAAATGCTTGAATTATGCATTAAATAACCTCTG-AAAAGTA
108470 GTTGAAACAATGCATTATTGTTGCAATAAATGACCTCTAAAAGTAGCT-AAAC-AGTGCATTAAT
65 GTTGAAACAATGCATTATTGTTGCAATAAATGACCTCTAAAAGTAGCTGAAACTA-TGCATTAAT
* * *
108533 TGAGCACCGAAAAGTAGTTGAAGCAGTGAATAATTTGGCCTGGTTAAAATACACGTTTTTTATGA
129 TGAGCACCGAAAAGTAGCTAAAGCAGTGAATAATTTAGCCTGGTTAAAATACACGTTTTTTATGA
* *
108598 TTTGAAGTGACAATTCAACACTAAAAAGTTTTCTGATTTAAGTTGATATATCATTGAGAAGTTGC
194 TTTGAAGTGACAATTCAACACTAAAAAGTTTTCTAATTTAAGTTGATATATCACTGAGAAGTTGC
*
108663 AGAAGATGATAATGCAA
259 AGAAGATGATAATACAA
* * * * *
108680 CACTATTTTCACCCGTTTTATGATCAAATGCTTGAATCATGCATTAAATGACATCTGAAAAGTAT
1 CACTATTTTCACCCGTTTTATGAACAAATGCTTGAATTATGCATTAAATAACCTCTGAAAAGTAG
* *
108745 TTGAAACAGTGCATTATTGTTGCAATAAATGACCTCTAAAATGTAACTGAAA
66 TTGAAACAATGCATTATTGTTGCAATAAATGACCTCTAAAA-GTAGCTGAAA
108797 GATTGAAGAT
Statistics
Matches: 349, Mismatches: 37, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
274 48 0.14
275 202 0.58
276 58 0.17
277 41 0.12
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (275 bp):
CACTATTTTCACCCGTTTTATGAACAAATGCTTGAATTATGCATTAAATAACCTCTGAAAAGTAG
TTGAAACAATGCATTATTGTTGCAATAAATGACCTCTAAAAGTAGCTGAAACTATGCATTAATTG
AGCACCGAAAAGTAGCTAAAGCAGTGAATAATTTAGCCTGGTTAAAATACACGTTTTTTATGATT
TGAAGTGACAATTCAACACTAAAAAGTTTTCTAATTTAAGTTGATATATCACTGAGAAGTTGCAG
AAGATGATAATACAA
Found at i:111044 original size:20 final size:19
Alignment explanation
Indices: 111019--111072 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
111009 GCGAAATAAA
111019 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
111039 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
111059 AATCGCAACGCGAT
1 AATCGCAACGCGAT
111073 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:111134 original size:21 final size:21
Alignment explanation
Indices: 111019--111134 Score: 67
Period size: 21 Copynumber: 5.6 Consensus size: 21
111009 GCGAAATAAA
*
111019 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
111039 AATCGCAAATC-AGTTCCCAG
1 AATCGCAACGCGATTTTCCAG
* **
111059 AATCGCAACGCGATTATGAAG
1 AATCGCAACGCGATTTTCCAG
* ** *
111080 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
***
111100 AATTCGCTTTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
111122 AATCGCAACGCGA
1 AATCGCAACGCGA
111135 ATATGAAAAT
Statistics
Matches: 68, Mismatches: 24, Indels: 7
0.69 0.24 0.07
Matches are distributed among these distances:
19 1 0.01
20 25 0.37
21 40 0.59
22 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:111147 original size:20 final size:20
Alignment explanation
Indices: 111122--111397 Score: 229
Period size: 20 Copynumber: 13.7 Consensus size: 20
111112 GATTTTCCAG
** *
111122 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
* **
111142 AATCGCTACGCGAA-CATATA
1 AATCGCAACGCGAATC-CGTA
*
111162 AATCGCAACGC-AATTC-TGA
1 AATCGCAACGCGAATCCGT-A
* * *
111181 CTATCGCAACGAGTATCCGTAA
1 -AATCGCAACGCGAATCCGT-A
*
111203 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
111223 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCGT-A
*
111244 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
111264 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
* *
111284 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGAATCCGTA
* *
111304 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
* *
111324 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
111344 AATCGCAATGAC-AATACGTAA
1 AATCGCAACG-CGAATCCGT-A
*
111365 AATCGCAACGCGCATCCGTA
1 AATCGCAACGCGAATCCGTA
111385 AATCGCAACGCGA
1 AATCGCAACGCGA
111398 TTTTTAAAGC
Statistics
Matches: 205, Mismatches: 39, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
18 1 0.00
19 3 0.01
20 146 0.71
21 53 0.26
22 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:111226 original size:81 final size:81
Alignment explanation
Indices: 111122--111397 Score: 299
Period size: 81 Copynumber: 3.4 Consensus size: 81
111112 GATTTTCCAG
* ** * * * * *
111122 AATCGCAACGCGAATATGAAAATCGCTACGCGAACATATAAATCGCAACGC-AATTC-TGACTAT
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACATATAAATCGCAACGCGTATCCGT-A-AAT
* *
111185 CGCAACGAGTATCCGTAA
64 CGCAACGAGAATACGTAA
* *
111203 AATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTA-AAATCGCAACGCGTATCCGTAAAT
1 AATCGCAACGCGTATCCGTAAATCGCAACG-CGA-ACATATAAATCGCAACGCGTATCCGTAAAT
111267 CGCAACGAGAATACGT-A
64 CGCAACGAGAATACGTAA
* * * ** *
111284 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAAATCG
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACATATAAATCGCAACGCGTATCCGTAAATCG
* *
111349 CAATGACAATACGTAA
66 CAACGAGAATACGTAA
*
111365 AATCGCAACGCGCATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
111398 TTTTTAAAGC
Statistics
Matches: 164, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
79 1 0.01
80 38 0.23
81 86 0.52
82 30 0.18
83 8 0.05
84 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (81 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACATATAAATCGCAACGCGTATCCGTAAATCG
CAACGAGAATACGTAA
Found at i:111298 original size:40 final size:41
Alignment explanation
Indices: 111183--111394 Score: 338
Period size: 41 Copynumber: 5.2 Consensus size: 41
111173 AATTCTGACT
* *
111183 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
111224 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
111265 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
111305 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
111345 ATCGCAATGACAATACGTAAAATCGCAACGCGCATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
111386 ATCGCAACG
1 ATCGCAACG
111395 CGATTTTTAA
Statistics
Matches: 158, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 75 0.47
41 83 0.53
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.18
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:111979 original size:20 final size:20
Alignment explanation
Indices: 111954--112044 Score: 105
Period size: 20 Copynumber: 4.5 Consensus size: 20
111944 TTCTAAACTT
* *
111954 AAAATCGTAACATGAAAATG
1 AAAATCGCAACACGAAAATG
111974 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
111994 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
*
112015 AAAATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
112034 AAAATCGCAAC
1 AAAATCGCAAC
112045 GAGATAATCG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.26
20 29 0.48
21 16 0.26
ACGTcount: A:0.51, C:0.19, G:0.18, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:112033 original size:19 final size:19
Alignment explanation
Indices: 111969--112045 Score: 91
Period size: 19 Copynumber: 3.9 Consensus size: 19
111959 CGTAACATGA
*
111969 AAATGAAAATCGCAACACG
1 AAATGAAAATCGCAACGCG
** *
111988 AAAATGACTATCGCAACGAGAG
1 -AAATGAAAATCGCAAC--GCG
112010 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
112029 AAATGAAAATCGCAACG
1 AAATGAAAATCGCAACG
112046 AGATAATCGC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 19 0.40
20 14 0.29
21 14 0.29
22 1 0.02
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.12
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:112044 original size:40 final size:41
Alignment explanation
Indices: 111969--112048 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 41
111959 CGTAACATGA
**
111969 AAATGAAAATCGCAACACGAAAATGACTATCGCAACGAGAG
1 AAATGAAAATCGCAACACGAAAATGAAAATCGCAACGAGAG
*
112010 AAATGAAAATCGCAACGCG-AAATGAAAATCGCAACGAGA
1 AAATGAAAATCGCAACACGAAAATGAAAATCGCAACGAGA
112049 TAATCGCAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 18 0.50
41 18 0.50
ACGTcount: A:0.50, C:0.19, G:0.20, T:0.11
Consensus pattern (41 bp):
AAATGAAAATCGCAACACGAAAATGAAAATCGCAACGAGAG
Found at i:112124 original size:33 final size:33
Alignment explanation
Indices: 112077--112168 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 33
112067 AAAATCGCAT
*
112077 TGCGATTTTCATTTCGCGTTGCTATTCTCTCGC
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGC
* * *
112110 TGCGATTTTTATTTCGCGTTTCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGC
** *
112143 TGCGATAGTCATTTCCGCATTGCGAT
1 TGCGATTTTCATTT-CGCGTTGCGAT
112169 AGTCATTCTC
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 40 0.82
34 9 0.18
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGC
Found at i:112195 original size:20 final size:20
Alignment explanation
Indices: 112133--112188 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
112123 TCGCGTTTCG
112133 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
112153 ATT-TC-CGCATTGCGATAGTC
1 ATTCTCTCG--TTGCGATAGTC
112173 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
112189 TTTCATTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 24 0.75
21 2 0.06
22 2 0.06
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:114215 original size:24 final size:24
Alignment explanation
Indices: 114181--114234 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
114171 CTGAAAAATC
114181 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
114205 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
114229 ATCAAA
1 ATCAAA
114235 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:114248 original size:24 final size:24
Alignment explanation
Indices: 114181--114248 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
114171 CTGAAAAATC
* * *
114181 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
114205 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
114229 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
114249 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:115064 original size:22 final size:21
Alignment explanation
Indices: 115030--115117 Score: 131
Period size: 21 Copynumber: 4.1 Consensus size: 21
115020 CGAATTCAGA
* *
115030 CGAATTAGGAAAATCGCAACG
1 CGAATTTGGGAAATCGCAACG
*
115051 CGAATTTGGGAAAATTGCAACG
1 CGAATTTGGG-AAATCGCAACG
115073 CGAATTTGGGAAATCGCAACG
1 CGAATTTGGGAAATCGCAACG
*
115094 CGAATTTGGGAAATCGCAATG
1 CGAATTTGGGAAATCGCAACG
115115 CGA
1 CGA
115118 TAGTCAGAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 41 0.67
22 20 0.33
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.19
Consensus pattern (21 bp):
CGAATTTGGGAAATCGCAACG
Found at i:115220 original size:20 final size:20
Alignment explanation
Indices: 115197--115384 Score: 139
Period size: 20 Copynumber: 9.3 Consensus size: 20
115187 TTGTCGTTGT
115197 GATTTACGGATACGCATTGC
1 GATTTACGGATACGCATTGC
* * *
115217 GATTTACGTATTCTCATTGC
1 GATTTACGGATACGCATTGC
* * *
115237 GATTTACAGATACGCGTTAC
1 GATTTACGGATACGCATTGC
* * * * *
115257 GATTTATGTATTCTCCTTGC
1 GATTTACGGATACGCATTGC
*
115277 GATTTACGGATACGCGTTGC
1 GATTTACGGATACGCATTGC
* * * *
115297 GATTTTATGTAT-TGTCGTTGC
1 GA-TTTACGGATACG-CATTGC
*
115318 GATTTACGGATACGCGTTGC
1 GATTTACGGATACGCATTGC
*
115338 GATTTTACGGATACTCATTGC
1 GA-TTTACGGATACGCATTGC
*
115359 GATAGTTA-GAAT-CGCATTGC
1 GAT--TTACGGATACGCATTGC
115379 GATTTA
1 GATTTA
115385 TATGTTCACG
Statistics
Matches: 131, Mismatches: 31, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
18 3 0.02
20 88 0.67
21 37 0.28
22 3 0.02
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
GATTTACGGATACGCATTGC
Found at i:115359 original size:41 final size:41
Alignment explanation
Indices: 115168--115361 Score: 248
Period size: 40 Copynumber: 4.8 Consensus size: 41
115158 TACCGGAGAT
* * * *
115168 CGCGTTGTGATTTTACGTATTGTCGTTGTGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCATTGCGATTTACGGATA
* *
115209 CGCATTGCGA-TTTACGTATTCTCATTGCGATTTACAGATA
1 CGCGTTGCGATTTTACGTATTCTCATTGCGATTTACGGATA
* * *
115249 CGCGTTACGA-TTTATGTATTCTCCTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCATTGCGATTTACGGATA
* * *
115289 CGCGTTGCGATTTTATGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCATTGCGATTTACGGATA
* *
115330 CGCGTTGCGATTTTACGGATACTCATTGCGAT
1 CGCGTTGCGATTTTACGTATTCTCATTGCGAT
115362 AGTTAGAATC
Statistics
Matches: 133, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
40 70 0.53
41 63 0.47
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.40
Consensus pattern (41 bp):
CGCGTTGCGATTTTACGTATTCTCATTGCGATTTACGGATA
Found at i:115385 original size:81 final size:81
Alignment explanation
Indices: 115164--115422 Score: 247
Period size: 81 Copynumber: 3.2 Consensus size: 81
115154 GCGATACCGG
* * ** * * * *
115164 AGAT-CGCGTTGTGATTTTACGTATTGTCGTTGTGATTTACGGATACGCATTGCGATTTACGTAT
1 AGATACGCGTTGCGATTTTACGGATACTCATTGCGATTTACGAATACGCATTGCGATTTATGTAT
*
115228 TCTCATTGCGATTTAC
66 TCTCGTTGCGATTTAC
* * * * * * *
115244 AGATACGCGTTACGA-TTTATGTATTCTCCTTGCGATTTACGGATACGCGTTGCGATTTTATGTA
1 AGATACGCGTTGCGATTTTACGGATACTCATTGCGATTTACGAATACGCATTGCGA-TTTATGTA
*
115308 TTGTCGTTGCGATTTAC
65 TTCTCGTTGCGATTTAC
* *
115325 GGATACGCGTTGCGATTTTACGGATACTCATTGCGATAGTTA-GAAT-CGCATTGCGATTTATAT
1 AGATACGCGTTGCGATTTTACGGATACTCATTGCGAT--TTACGAATACGCATTGCGATTTATGT
* * *
115388 GTTCACGTTGCGATTTTC
64 ATTCTCGTTGCGATTTAC
* *
115406 ATATTCGCGTTGCGATT
1 AGATACGCGTTGCGATT
115423 CTGTAAAATC
Statistics
Matches: 148, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
80 39 0.26
81 77 0.52
82 26 0.18
83 3 0.02
84 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (81 bp):
AGATACGCGTTGCGATTTTACGGATACTCATTGCGATTTACGAATACGCATTGCGATTTATGTAT
TCTCGTTGCGATTTAC
Found at i:115398 original size:20 final size:20
Alignment explanation
Indices: 115375--115422 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
115365 TAGAATCGCA
*
115375 TTGCGATTTAT-ATGTTCACG
1 TTGCGATTT-TCATATTCACG
*
115395 TTGCGATTTTCATATTCGCG
1 TTGCGATTTTCATATTCACG
115415 TTGCGATT
1 TTGCGATT
115423 CTGTAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.46
Consensus pattern (20 bp):
TTGCGATTTTCATATTCACG
Found at i:128645 original size:19 final size:19
Alignment explanation
Indices: 128623--128662 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
128613 AAGGATTACC
*
128623 ATTAATTTCATTTATAAAT
1 ATTAATTTAATTTATAAAT
128642 ATTAATTTAATTTATAAAT
1 ATTAATTTAATTTATAAAT
128661 AT
1 AT
128663 CTAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTAATTTAATTTATAAAT
Found at i:129215 original size:23 final size:24
Alignment explanation
Indices: 129176--129220 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
129166 ATCACAAAAC
*
129176 AATGAATTATGATAATAATAAAGA
1 AATGAAGTATGATAATAATAAAGA
129200 AATGAAGTAT-ATAATAATAAA
1 AATGAAGTATGATAATAATAAA
129221 ATGTTATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (24 bp):
AATGAAGTATGATAATAATAAAGA
Found at i:130139 original size:23 final size:23
Alignment explanation
Indices: 130109--130153 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
130099 GTTTATCCTT
130109 TTTTTTAAATAATTTATCTTTAA
1 TTTTTTAAATAATTTATCTTTAA
* *
130132 TTTTTTAACTAATTTATTTTTA
1 TTTTTTAAATAATTTATCTTTA
130154 TATGTTGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTTAAATAATTTATCTTTAA
Found at i:137840 original size:21 final size:21
Alignment explanation
Indices: 137802--137841 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
137792 TTACTTAAAG
*
137802 TTTAAGTTAAAATTTTAATTT
1 TTTAAGTTAAAATATTAATTT
* *
137823 TTTAATTTAAACTATTAAT
1 TTTAAGTTAAAATATTAAT
137842 AATATTAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTAAGTTAAAATATTAATTT
Found at i:150916 original size:27 final size:27
Alignment explanation
Indices: 150886--150942 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
150876 CCACCTTCAC
* *
150886 CACTTTGAACTTGAAACTCCATAATAT
1 CACTTTGAACTTGAAACTCCACAACAT
*
150913 CACTTTGAACTTGAAAGTCCACAACAT
1 CACTTTGAACTTGAAACTCCACAACAT
150940 CAC
1 CAC
150943 CTAGCAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (27 bp):
CACTTTGAACTTGAAACTCCACAACAT
Found at i:154511 original size:18 final size:18
Alignment explanation
Indices: 154477--154543 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
154467 GTGTTATCTT
154477 TTTATTTTATTTATTCTA
1 TTTATTTTATTTATTCTA
*
154495 TTTATCTTT-TTTTTTCTA
1 TTTAT-TTTATTTATTCTA
* *
154513 TTT-TATTCATTCATT-TA
1 TTTAT-TTTATTTATTCTA
*
154530 TTTATTTTCTTTAT
1 TTTATTTTATTTAT
154544 ATTGATTTGT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
17 14 0.37
18 21 0.55
19 3 0.08
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATTTTATTTATTCTA
Found at i:154537 original size:28 final size:30
Alignment explanation
Indices: 154475--154539 Score: 73
Period size: 32 Copynumber: 2.2 Consensus size: 30
154465 TGGTGTTATC
* *
154475 TTTT-TATTTTATTTATTCTATTTATCTTTTT
1 TTTTCTATTTTATTCATTCTATTTA--TTTTA
154506 TTTTCTATTTTATTCATTC-ATTTA-TTTA
1 TTTTCTATTTTATTCATTCTATTTATTTTA
154534 TTTTCT
1 TTTTCT
154540 TTATATTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 9 0.29
31 9 0.29
32 13 0.42
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (30 bp):
TTTTCTATTTTATTCATTCTATTTATTTTA
Found at i:156428 original size:20 final size:21
Alignment explanation
Indices: 156382--156430 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
156372 TTAGACATAT
*
156382 TGTGCATTTTGTTTTTTTTCC
1 TGTGCATTTTGTTATTTTTCC
156403 TGTGCATTTTGTTATTTTT-C
1 TGTGCATTTTGTTATTTTTCC
*
156423 TTTGCATT
1 TGTGCATT
156431 CGCATTAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.08, C:0.12, G:0.14, T:0.65
Consensus pattern (21 bp):
TGTGCATTTTGTTATTTTTCC
Found at i:158780 original size:95 final size:94
Alignment explanation
Indices: 158610--158855 Score: 293
Period size: 95 Copynumber: 2.7 Consensus size: 94
158600 ACATTATAAT
* *
158610 ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCTGACTTTATG
1 ATTATATATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACACCCCGACTTTATG
* *
158675 GATAATATTCAGCTAGCATGATAAAGGTG
66 GATAAGATTCAGCTAACATGATAAAGGTG
* *
158704 ATTATACTATACAATAAAGCTTGAGCTGTCCCTCTA-AGGCAATTGGTTAAACTCCCCGGCTTTA
1 ATTATA-TATACAATAAAGCTTGAGCTGTCCCTCTAGA-GCAATTGGTTAAACACCCCGACTTTA
*
158768 TGGATAAGATTCAGCTAACCTGATAAA-G-G
64 TGGATAAGATTCAGCTAACATGATAAAGGTG
* *
158797 --TAT-T-TAC-AT--A--TTGAGCTGTCCCTCTA-ATACAATTGGTTAAACGCCCCGACTTTAT
1 ATTATATATACAATAAAGCTTGAGCTGTCCCTCTAGA-GCAATTGGTTAAACACCCCGACTTTAT
158852 GGAT
65 GGAT
158856 TCAGCTAGCC
Statistics
Matches: 139, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
83 45 0.32
85 1 0.01
87 2 0.01
88 3 0.02
89 1 0.01
91 3 0.02
93 1 0.01
94 8 0.06
95 75 0.54
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (94 bp):
ATTATATATACAATAAAGCTTGAGCTGTCCCTCTAGAGCAATTGGTTAAACACCCCGACTTTATG
GATAAGATTCAGCTAACATGATAAAGGTG
Found at i:159792 original size:17 final size:17
Alignment explanation
Indices: 159770--159813 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
159760 ATACATTTTA
159770 GGCATACATAAAAGCAT
1 GGCATACATAAAAGCAT
*
159787 GGCATACATAAGAGCAT
1 GGCATACATAAAAGCAT
* *
159804 CGCATCCATA
1 GGCATACATA
159814 GCATCGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (17 bp):
GGCATACATAAAAGCAT
Found at i:160306 original size:103 final size:103
Alignment explanation
Indices: 160165--160351 Score: 270
Period size: 103 Copynumber: 1.8 Consensus size: 103
160155 GACTAATTTA
* * **
160165 CTTAAAACAAATTTTGTCTCTCTTGAGACATTTTTCTCTTTAAAA-ATTTTTTGTCTCTCTTGAG
1 CTTAAAACAAATTGTGTCTCTCTTGAGACATGTTTCTC-TTAAAACAAATTTTGTCTCTCTTGAG
* *
160229 ACGGTTTCCCTTGAAACAAAAAACTTTGAATCTGTTTTC
65 ACAGTTTCCCTTAAAACAAAAAACTTTGAATCTGTTTTC
160268 CTTAAAACAAAGTTGTGTCTCTCTTGAGACA-GTTTCTCTTAAAACAAATTTTGTCTCTCTTGAG
1 CTTAAAACAAA-TTGTGTCTCTCTTGAGACATGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAG
* *
160332 ACATTTTCTCTTAAAACAAA
65 ACAGTTTCCCTTAAAACAAA
160352 TTTTGTCTCT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
102 6 0.08
103 50 0.68
104 18 0.24
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (103 bp):
CTTAAAACAAATTGTGTCTCTCTTGAGACATGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA
CAGTTTCCCTTAAAACAAAAAACTTTGAATCTGTTTTC
Found at i:160329 original size:36 final size:36
Alignment explanation
Indices: 160165--160387 Score: 221
Period size: 36 Copynumber: 6.3 Consensus size: 36
160155 GACTAATTTA
*
160165 CTTAAAACAAATTTTGTCTCTCTTGAGACATTTTTCT
1 CTTAAAACAAATTTTGTCTCTCTTGAGACA-GTTTCT
** * *
160202 CTTTAAAA-ATTTTTTGTCTCTCTTGAGACGGTTTCC
1 C-TTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
* *** *
160238 CTTGAAACAAA-----AAACT-TTGA-ATCTGTTT-T
1 CTTAAAACAAATTTTGTCTCTCTTGAGA-CAGTTTCT
*
160267 CCTTAAAACAAAGTTGTGTCTCTCTTGAGACAGTTTCT
1 -CTTAAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCT
*
160305 CTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCT
1 CTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
160341 CTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
1 CTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
*
160377 CTTGAAACAAA
1 CTTAAAACAAA
160388 ATCTTTGAAT
Statistics
Matches: 151, Mismatches: 22, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
29 1 0.01
30 19 0.13
31 2 0.01
35 5 0.03
36 76 0.50
37 40 0.26
38 8 0.05
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (36 bp):
CTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCT
Found at i:160461 original size:36 final size:36
Alignment explanation
Indices: 160402--160488 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 36
160392 TTGAATCTGT
* * * * *
160402 TTTC-CTTGAAACAAATCTCGTCTCCCTTGAGACAA
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
*
160437 TTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
*
160473 TTTCTCTTGAAACAAA
1 TTTCTCTTAAAACAAA
160489 ATCTTTGAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 4 0.09
36 39 0.91
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (36 bp):
TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:160462 original size:137 final size:139
Alignment explanation
Indices: 160165--160488 Score: 485
Period size: 137 Copynumber: 2.3 Consensus size: 139
160155 GACTAATTTA
**
160165 CTTAAAACAAATTTTGTCTCTCTTGAGACATTTTTCTCTTTAAAA-ATTTTTTGTCTCTCTTGAG
1 CTTAAAACAAATTTTGTCTCTCTTGAGACA-TTTTCTC-TTAAAACAAATTTTGTCTCTCTTGAG
* * *
160229 ACGGTTTCCCTTGAAACAAAAAACTTTGAATCTGTTTTCCTTAAAACAAAGTTGTGTCTCTCTTG
64 ACAGTTTCCCTTGAAACAAAAAACTTTGAATCTGTTTTCCTTAAAACAAAGTTGCGTCTCCCTTG
*
160294 AGACAGTTTCT
129 AGACAATTTCT
160305 CTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC
1 CTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC
* * *
160370 AGTTTCTCTTGAAAC-AAAATCTTTGAATCTGTTTTCCTTGAAACAAA-TCT-CGTCTCCCTTGA
66 AGTTTCCCTTGAAACAAAAAACTTTGAATCTGTTTTCCTTAAAACAAAGT-TGCGTCTCCCTTGA
160432 GACAATTTCT
130 GACAATTTCT
* * *
160442 TTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 CTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAA
160489 ATCTTTGAAT
Statistics
Matches: 170, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
137 64 0.38
138 37 0.22
139 39 0.23
140 30 0.18
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (139 bp):
CTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAC
AGTTTCCCTTGAAACAAAAAACTTTGAATCTGTTTTCCTTAAAACAAAGTTGCGTCTCCCTTGAG
ACAATTTCT
Found at i:160688 original size:36 final size:36
Alignment explanation
Indices: 160602--160690 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 36
160592 CTTTGAATTT
*
160602 GTTTTCCTTGAAACAAATATCGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATATCGTCTCCCTTGAGACA
** * * * * *
160638 GTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACG
1 GTTTCCCTTGAAACAAATATCGTCTCCCTTGAGACA
160674 GTTTCCCTTGAAACAAA
1 GTTTCCCTTGAAACAAA
160691 ATCTTTGAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.37
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATATCGTCTCCCTTGAGACA
Found at i:160744 original size:101 final size:101
Alignment explanation
Indices: 160300--160728 Score: 669
Period size: 101 Copynumber: 4.2 Consensus size: 101
160290 CTTGAGACAG
* * * * * *
160300 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTT
1 TTTC-CTTGAAACAAATCTCGTCTCCCTTGAGACAATTTCTTTTAAAACAAATTTTGTCTCTCTT
*
160365 GAGACAGTTTCTCTTGAAACAAAATCTTTGAATCTGT
65 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
160402 TTTCCTTGAAACAAATCTCGTCTCCCTTGAGACAATTTCTTTTAAAACAAATTTTGTCTCTCTTG
1 TTTCCTTGAAACAAATCTCGTCTCCCTTGAGACAATTTCTTTTAAAACAAATTTTGTCTCTCTTG
*
160467 AGACAGTTTCTCTTGAAACAAAATCTTTGAATCTGT
66 AGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
* * *
160503 TTTCTTTGAAACAAATCTCATCTCCCTTGAGACAATTTATTTTAAAACAAATTTTGTCTCTCTTG
1 TTTCCTTGAAACAAATCTCGTCTCCCTTGAGACAATTTCTTTTAAAACAAATTTTGTCTCTCTTG
* * *
160568 AGACGGTTTCCCTTGAAATAAAATCTTTGAATTTGT
66 AGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
* *
160604 TTTCCTTGAAACAAATATCGTCTCCCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTG
1 TTTCCTTGAAACAAATCTCGTCTCCCTTGAGACAATTTCTTTTAAAACAAATTTTGTCTCTCTTG
* *
160669 AGACGGTTTCCCTTGAAACAAAATCTTTGAATATGT
66 AGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
* *
160705 TTTCCTTTAAACAAATTTCGTCTC
1 TTTCCTTGAAACAAATCTCGTCTC
160729 ATTCGAGATA
Statistics
Matches: 305, Mismatches: 22, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
101 301 0.99
102 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (101 bp):
TTTCCTTGAAACAAATCTCGTCTCCCTTGAGACAATTTCTTTTAAAACAAATTTTGTCTCTCTTG
AGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
Found at i:160813 original size:35 final size:35
Alignment explanation
Indices: 160759--160920 Score: 172
Period size: 34 Copynumber: 4.7 Consensus size: 35
160749 ATGAACCAAT
** *
160759 CTTTGAAATTGTTTCTCTTGAAACACAAAAAAAAC
1 CTTTGAAACAGTTTCTCTTGAAACACAAAAAAAAA
* *
160794 CTTTGAAACAGTTTTTCTTGAAACACAAAAAAAAT
1 CTTTGAAACAGTTTCTCTTGAAACACAAAAAAAAA
** * *
160829 C-TTGGGACAATTTCTCTTGAAACAC--AAAAAAG
1 CTTTGAAACAGTTTCTCTTGAAACACAAAAAAAAA
* **
160861 CTTTAAAATTGTTTCTCTTGAAACA-AAAAAAAAA
1 CTTTGAAACAGTTTCTCTTGAAACACAAAAAAAAA
160895 CTTTGAAA-ATGTTTCTCTTGAAACAC
1 CTTTGAAACA-GTTTCTCTTGAAACAC
160921 CAAATCAAAG
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
32 7 0.07
33 17 0.16
34 48 0.46
35 32 0.31
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (35 bp):
CTTTGAAACAGTTTCTCTTGAAACACAAAAAAAAA
Found at i:160891 original size:67 final size:67
Alignment explanation
Indices: 160769--160920 Score: 182
Period size: 67 Copynumber: 2.2 Consensus size: 67
160759 CTTTGAAATT
* * *
160769 GTTTCTCTTGAAACACAAAAAAAACCTTTGAAACAGTTTTTCTTGAAACACAAAAAAAATCTTGG
1 GTTTCTCTTGAAACAC-AAAAAAACCTTTAAAACAGTTTCTCTTGAAACA-AAAAAAAAACTT-G
*
160834 GACAA
63 GAAAA
* ** *
160839 -TTTCTCTTGAAACAC-AAAAAAGCTTTAAAATTGTTTCTCTTGAAACAAAAAAAAAACTTTGAA
1 GTTTCTCTTGAAACACAAAAAAACCTTTAAAACAGTTTCTCTTGAAACAAAAAAAAAACTTGGAA
160902 AA
66 AA
160904 TGTTTCTCTTGAAACAC
1 -GTTTCTCTTGAAACAC
160921 CAAATCAAAG
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
65 4 0.06
66 11 0.15
67 42 0.58
69 15 0.21
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.30
Consensus pattern (67 bp):
GTTTCTCTTGAAACACAAAAAAACCTTTAAAACAGTTTCTCTTGAAACAAAAAAAAAACTTGGAA
AA
Found at i:162476 original size:18 final size:19
Alignment explanation
Indices: 162453--162493 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
162443 CATTTGTTTC
*
162453 TTTTATTGTTTTCATT-AT
1 TTTTATTATTTTCATTAAT
*
162471 TTTTATTATTTTCCTTAAT
1 TTTTATTATTTTCATTAAT
162490 TTTT
1 TTTT
162494 TTTACATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTATTATTTTCATTAAT
Found at i:162667 original size:12 final size:13
Alignment explanation
Indices: 162650--162678 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
162640 TAAGTTACTT
162650 TTTTGGT-TTATC
1 TTTTGGTGTTATC
162662 TTTTGGTGTTATC
1 TTTTGGTGTTATC
162675 TTTT
1 TTTT
162679 TATTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.69
Consensus pattern (13 bp):
TTTTGGTGTTATC
Found at i:162686 original size:5 final size:5
Alignment explanation
Indices: 162676--162760 Score: 51
Period size: 5 Copynumber: 18.2 Consensus size: 5
162666 GGTGTTATCT
* * *
162676 TTTTA TTTTA -TTTA TTCTA -TTTA TCTTT- TTTT- TTCTA TTTTA -TTCA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA
* *
162722 -TTTA -TTTA TTTT- TTTTA TATTGA TTTTA TTTTG TTTTA T
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA T
162761 AGTTATATCT
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
4 27 0.43
5 29 0.46
6 7 0.11
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:162691 original size:9 final size:9
Alignment explanation
Indices: 162677--162752 Score: 52
Period size: 9 Copynumber: 8.3 Consensus size: 9
162667 GTGTTATCTT
162677 TTTATTTTA
1 TTTATTTTA
*
162686 TTTATTCTA
1 TTTATTTTA
162695 TTTATCTTT-
1 TTTAT-TTTA
162704 TTT-TTTCTA
1 TTTATTT-TA
*
162713 TTT-TATTCA
1 TTTAT-TTTA
162722 TTTA-TTTA
1 TTTATTTTA
*
162730 TTTTTTTTA
1 TTTATTTTA
162739 TATTGATTTTA
1 T-TT-ATTTTA
162750 TTT
1 TTT
162753 TGTTTTATAG
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
7 2 0.04
8 8 0.15
9 29 0.55
10 8 0.15
11 6 0.11
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:162699 original size:26 final size:25
Alignment explanation
Indices: 162670--162739 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 25
162660 TCTTTTGGTG
*
162670 TTATCTTTTTATTTTATTTATTCTAT
1 TTATCTTTTTTTTTTATTTATTC-AT
162696 TTATCTTTTTTTTTCTATTTTATTCAT
1 TTATCTTTTTTTTT-TA-TTTATTCAT
162723 TTAT-TTATTTTTTTTAT
1 TTATCTT-TTTTTTTTAT
162740 ATTGATTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
25 1 0.03
26 17 0.43
27 15 0.38
28 7 0.17
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (25 bp):
TTATCTTTTTTTTTTATTTATTCAT
Found at i:162711 original size:18 final size:18
Alignment explanation
Indices: 162677--162739 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
162667 GTGTTATCTT
162677 TTTATTTTATTTATTCTA
1 TTTATTTTATTTATTCTA
*
162695 TTTATCTTT-TTTTTTCTA
1 TTTAT-TTTATTTATTCTA
*
162713 TTT-TATTCATTTATT-TA
1 TTTAT-TTTATTTATTCTA
*
162730 TTTTTTTTAT
1 TTTATTTTAT
162740 ATTGATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 12 0.32
18 22 0.59
19 3 0.08
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTATTTATTCTA
Found at i:162738 original size:21 final size:22
Alignment explanation
Indices: 162713--162760 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
162703 TTTTTTTCTA
*
162713 TTTTATTCATTTA-TTTATTTT-
1 TTTTATT-ATTGATTTTATTTTG
162734 TTTTA-TATTGATTTTATTTTG
1 TTTTATTATTGATTTTATTTTG
162755 TTTTAT
1 TTTTAT
162761 AGTTATATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 9 0.39
21 10 0.43
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTTATTATTGATTTTATTTTG
Found at i:162751 original size:32 final size:32
Alignment explanation
Indices: 162675--162737 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
162665 TGGTGTTATC
*
162675 TTTT-TATTTTATTTATTCTATTTATCTTTTT
1 TTTTCTATTTTATTCATTCTATTTATCTTTTT
162706 TTTTCTATTTTATTCATT-TATTTAT-TTTTT
1 TTTTCTATTTTATTCATTCTATTTATCTTTTT
162736 TT
1 TT
162738 ATATTGATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 11 0.37
32 12 0.40
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (32 bp):
TTTTCTATTTTATTCATTCTATTTATCTTTTT
Found at i:162752 original size:28 final size:28
Alignment explanation
Indices: 162670--162752 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 28
162660 TCTTTTGGTG
* *
162670 TTATC-TTTTTATTT-TATTTATTCTAT
1 TTATCTTTTTTTTTTATATTTATTTTAT
*
162696 TTATCTTTTTTTTTCTAT-TTTA-TTCAT
1 TTATCTTTTTTTTT-TATATTTATTTTAT
*
162723 TTAT-TTATTTTTTTTATATTGATTTTAT
1 TTATCTT-TTTTTTTTATATTTATTTTAT
162751 TT
1 TT
162753 TGTTTTATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
26 10 0.22
27 24 0.52
28 11 0.24
29 1 0.02
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (28 bp):
TTATCTTTTTTTTTTATATTTATTTTAT
Found at i:169803 original size:45 final size:45
Alignment explanation
Indices: 169717--169803 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
169707 CCATTTATTA
* *
169717 ACCATAAGCTTGTAAGCTTATTTTACCAAAATACTTACCATTTGT
1 ACCATAAGCTCGTAAGCTTATTTTACCAAAACACTTACCATTTGT
* *
169762 ACCATAAGCTCGTAAGCTTATTTTACCAATACACTTGCCATT
1 ACCATAAGCTCGTAAGCTTATTTTACCAAAACACTTACCATT
169804 ATTCCATAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (45 bp):
ACCATAAGCTCGTAAGCTTATTTTACCAAAACACTTACCATTTGT
Found at i:169985 original size:59 final size:59
Alignment explanation
Indices: 169893--170021 Score: 168
Period size: 59 Copynumber: 2.2 Consensus size: 59
169883 CGTAGTGCTA
* * * **
169893 TCCCGAGTATGACACATAAGGTCGTGTCCACCATTTGTACTAAGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAAGTATCCTTAAGTACAG
* * ** *
169952 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAAGTATCCTTAAGTACAG
170011 TCCCGAATATG
1 TCCCGAATATG
170022 CAGCTTGTTG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAAGTATCCTTAAGTACAG
Done.