Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 205 of 226
Found at i:64793815 original size:28 final size:28
Alignment explanation
Indices: 64793783--64793845 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
64793773 AAACTCATAA
*
64793783 TAAGTGTTGAGCTACCT-CAAATGAACAG
1 TAAGTGGTGAGCT-CCTGCAAATGAACAG
* *
64793811 TAAGTGGTGAGCTCTTGCAAATGAATAG
1 TAAGTGGTGAGCTCCTGCAAATGAACAG
64793839 TAAGTGG
1 TAAGTGG
64793846 CAAGCTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (28 bp):
TAAGTGGTGAGCTCCTGCAAATGAACAG
Found at i:64799246 original size:25 final size:24
Alignment explanation
Indices: 64799218--64799271 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
64799208 GAAAATTGTG
*
64799218 AAAAAAAAAAACTCTTTAAAAGTTT
1 AAAAAAAAAAA-TATTTAAAAGTTT
* * *
64799243 AAAAAATAAAATATTTGAAATTTT
1 AAAAAAAAAAATATTTAAAAGTTT
64799267 AAAAA
1 AAAAA
64799272 TTTATGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAAAAAAAAATATTTAAAAGTTT
Found at i:64807728 original size:8 final size:8
Alignment explanation
Indices: 64807715--64807744 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
64807705 TCTTAATGTT
64807715 TTTTTTTC
1 TTTTTTTC
64807723 TTTTTTTCC
1 TTTTTTT-C
64807732 TTTTTTTC
1 TTTTTTTC
64807740 TTTTT
1 TTTTT
64807745 CGATTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:64815388 original size:50 final size:50
Alignment explanation
Indices: 64815334--64815528 Score: 153
Period size: 50 Copynumber: 3.9 Consensus size: 50
64815324 AATTTGTTCC
*
64815334 ACTACACTGCTAGGGAAGTGAGATTCGCCATTGTGGTTTTAATCTTTTTA
1 ACTACACTGCTAGGGAAGTGAGATTCGCCATTGTGGCTTTAATCTTTTTA
* * * * * **
64815384 ACTACAATG-TCGGGGAAGAGAGATTCACCGA-TGTGGCTTTAATCTGTTCC
1 ACTACACTGCT-AGGGAAGTGAGATTCGCC-ATTGTGGCTTTAATCTTTTTA
* * * * * *
64815434 ACTGCACTGCCAGGGAAGTAAGATTTGCTATTGTAGCTTTAATCTTTTTA
1 ACTACACTGCTAGGGAAGTGAGATTCGCCATTGTGGCTTTAATCTTTTTA
* * * ** **
64815484 ACTGCATTG-TCGGGAAAGCAAGATTCGCTGTTGTGGCTTTAATCT
1 ACTACACTGCTAGGG-AAGTGAGATTCGCCATTGTGGCTTTAATCT
64815529 GTTACATCGC
Statistics
Matches: 112, Mismatches: 28, Indels: 10
0.75 0.19 0.07
Matches are distributed among these distances:
49 5 0.04
50 106 0.95
51 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (50 bp):
ACTACACTGCTAGGGAAGTGAGATTCGCCATTGTGGCTTTAATCTTTTTA
Found at i:64815449 original size:100 final size:100
Alignment explanation
Indices: 64815328--64815531 Score: 275
Period size: 100 Copynumber: 2.0 Consensus size: 100
64815318 AACTTCAATT
* * * *
64815328 TGTTCCACTACACTGCTAGGGAAGTGAGATTCGCCATTGTGGTTTTAATCTTTTTAACTACAATG
1 TGTTCCACTACACTGCCAGGGAAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTACAATG
*
64815393 TCGGGGAAG-AGAGATTCACCGATGTGGCTTTAATC
66 TCGGGAAAGCA-AGATTCACCGATGTGGCTTTAATC
* * * * *
64815428 TGTTCCACTGCACTGCCAGGGAAGTAAGATTTGCTATTGTAGCTTTAATCTTTTTAACTGCATTG
1 TGTTCCACTACACTGCCAGGGAAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTACAATG
* * *
64815493 TCGGGAAAGCAAGATTCGCTGTTGTGGCTTTAATC
66 TCGGGAAAGCAAGATTCACCGATGTGGCTTTAATC
64815528 TGTT
1 TGTT
64815532 ACATCGCCTG
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
100 89 0.99
101 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (100 bp):
TGTTCCACTACACTGCCAGGGAAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTACAATG
TCGGGAAAGCAAGATTCACCGATGTGGCTTTAATC
Found at i:64815734 original size:44 final size:45
Alignment explanation
Indices: 64815650--64815773 Score: 130
Period size: 44 Copynumber: 2.8 Consensus size: 45
64815640 CCTTCATTTT
* * *
64815650 AATCCGCTCCACTGTAATCTCAAGGA-A-ATAGGATTACTGGCTTA
1 AATCTGCTCCACTGTAATCTC-AGGAGAGATAAGATTTCTGGCTTA
* *
64815694 AATCTGCTCCGCTGTAATCTC-GGAGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGAGAGATAAGATTTCTGGCTTA
* * * *
64815738 AATCTACTCCATTGTAACCTCAGG-GAGATGAGATTT
1 AATCTGCTCCACTGTAATCTCAGGAGAGATAAGATTT
64815774 GAAATTCTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.04
43 1 0.01
44 61 0.91
45 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
AATCTGCTCCACTGTAATCTCAGGAGAGATAAGATTTCTGGCTTA
Found at i:64815914 original size:175 final size:175
Alignment explanation
Indices: 64815694--64816122 Score: 671
Period size: 175 Copynumber: 2.5 Consensus size: 175
64815684 TACTGGCTTA
* * * * * ** *
64815694 AATCTGCTCCGCTGTAATCTC-GGAGAGATAAGATTTCTGGCTTCAATCTACTCCATTGTAACCT
1 AATCTGCTCCACTGTAATCTCAGG-GAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCT
* *
64815758 CAGGGAGATGAGATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGAT
65 CAGGGAGATAAGATTTGAAATTCTTCGGTCTATTCCCCTATAATCTCAGGGAGATAAGACCTGAT
* *
64815823 ACGATCTACTCTACTGTAATTTTAGAGAGATAAGATCCTTTATTTT
130 ACGATCTACTCTACTGTAATTTCAGAGAGAGAAGATCCTTTATTTT
* *
64815869 AATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTTCGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
* * * *
64815934 AGGGATATAAGATTTGAAATTCTTCGGTTTATTCCCCTATAATCTTAGGGAGATAAGACCTGATG
66 AGGGAGATAAGATTTGAAATTCTTCGGTCTATTCCCCTATAATCTCAGGGAGATAAGACCTGATA
64815999 CGATCTACTCTACTGTAATTTCAGAGAGAGAAGATCCTTTATTTT
131 CGATCTACTCTACTGTAATTTCAGAGAGAGAAGATCCTTTATTTT
*
64816044 AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTTAATCTGCTCCGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
64816109 AGGGAGATAAGATT
66 AGGGAGATAAGATT
64816123 CTTTATTTTA
Statistics
Matches: 231, Mismatches: 22, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
175 229 0.99
176 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (175 bp):
AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
AGGGAGATAAGATTTGAAATTCTTCGGTCTATTCCCCTATAATCTCAGGGAGATAAGACCTGATA
CGATCTACTCTACTGTAATTTCAGAGAGAGAAGATCCTTTATTTT
Found at i:64815928 original size:219 final size:219
Alignment explanation
Indices: 64815549--64815948 Score: 712
Period size: 219 Copynumber: 1.8 Consensus size: 219
64815539 CTGAAAAGTA
*
64815549 AGATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACT
1 AGATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACT
*
64815614 CTATTGTAATTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAAT
66 CTACTGTAATTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAAT
64815679 AGGATTACTGGCTTAAATCTGCTCCGCTGTAATCTC-GGAGAGATAAGATTTCTGGCTTCAATCT
131 AGGATTACTGGCTTAAATCTGCTCCGCTGTAATCTCAGG-GAGATAAGATTTCTGGCTTCAATCT
64815743 ACTCCATTGTAACCTCAGGGAGATG
195 ACTCCATTGTAACCTCAGGGAGATG
64815768 AGATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACT
1 AGATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACT
* * *
64815833 CTACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAAT
66 CTACTGTAATTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAAT
* * *
64815898 AGGATTACTGGCTTCAATCTGCTTCGCTGTAATCTCAGGGATATAAGATTT
131 AGGATTACTGGCTTAAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
64815949 GAAATTCTTC
Statistics
Matches: 172, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
219 170 0.99
220 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (219 bp):
AGATTTGAAATTCTTCGGTCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACT
CTACTGTAATTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAAT
AGGATTACTGGCTTAAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTA
CTCCATTGTAACCTCAGGGAGATG
Found at i:64816060 original size:219 final size:216
Alignment explanation
Indices: 64815567--64816249 Score: 502
Period size: 219 Copynumber: 3.1 Consensus size: 216
64815557 AATTCTTCGG
* * * * * * * *
64815567 TCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTATTGTAATTTCAGAGA
1 TCTACTCCACTGTAATCTCAGAGAGAGAAGACCTGATACAATCTACTCCACTGTAATTTCAGAGA
64815632 GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAATAGGATTACTGGCTTAAAT
66 GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAATAGGATTACTGGCTTAAAT
* * *
64815697 CTGCTCCGCTGTAATCTCGGAGAGATAAGATTTCTGGCTTCAATCTACTCCATTGTAACCTCAGG
131 CTGCTCCGCTGTAATCTCGGAGAGATAAGATTTATGGCTTCAATCTACTCCACTATAACCTCAGG
* ** * *
64815762 GAGATGAGATTTGAAATTCTTCGG
196 GAGATAAGACCTG-AA-T-TGCGA
* * * * * * *
64815786 TCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAATTTTAGAGA
1 TCTACTCCACTGTAATCTCAGAGAGAGAAGACCTGATACAATCTACTCCACTGTAATTTCAGAGA
* * *
64815851 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAAT
66 GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAATAGGATTACTGGCTTAAAT
* * * ** * * * *
64815916 CTGCTTCGCTGTAATCTCAGG-GATATAAGATTTGAAAT-TCTTCGGTTTATTCCCCTATAATCT
131 CTGCTCCGCTGTAATCTC-GGAGAGATAAGATTT---ATGGCTTCAATCTACTCCACTATAACCT
*
64815979 TAGGGAGATAAGACCTG-A-TGCGA
192 CAGGGAGATAAGACCTGAATTGCGA
* * * ** * *
64816002 TCTACTCTACTGTAATTTCAGAGAGAGAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAG
1 TCTACTCCACTGTAATCTCAGAGAGAGAAGA-CC-TGA-TACAATCTACTCCACTGTAATTTCAG
* * * * * * * * * * ***
64816067 GGAAATAGGATTACTGGC--TTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT-CTTTAT
63 AGAGATAAGA-TCCT-TCATTTTAATCCGCTCCACTGTAATCTCAAGGAAATAGGATTAC-TGGC
* * * * * * * * *
64816129 TTTAATCCGCTCCACTGTAATTTTAGG-GAGAT-AGAATTACTAGCTTCAATCTACTCCGCTGTA
125 TTAAATCTGCTCCGCTGTAA-TCTCGGAGAGATAAGATTTA-TGGCTTCAATCTACTCCACTATA
* * * *
64816192 ATCTCAGGGAGATAAGATCTGAAATTCTTCGG
188 ACCTCAGGGAGATAAGACCTG-AA-T-TGCGA
* *
64816224 TCTATTCCACTGTAATCTCAGGGAGA
1 TCTACTCCACTGTAATCTCAGAGAGA
64816250 TAGGATTATT
Statistics
Matches: 372, Mismatches: 74, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
215 1 0.00
216 29 0.08
217 35 0.09
218 8 0.02
219 237 0.64
220 7 0.02
221 29 0.08
222 26 0.07
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (216 bp):
TCTACTCCACTGTAATCTCAGAGAGAGAAGACCTGATACAATCTACTCCACTGTAATTTCAGAGA
GATAAGATCCTTCATTTTAATCCGCTCCACTGTAATCTCAAGGAAATAGGATTACTGGCTTAAAT
CTGCTCCGCTGTAATCTCGGAGAGATAAGATTTATGGCTTCAATCTACTCCACTATAACCTCAGG
GAGATAAGACCTGAATTGCGA
Found at i:64816089 original size:44 final size:44
Alignment explanation
Indices: 64816044--64816273 Score: 203
Period size: 44 Copynumber: 5.2 Consensus size: 44
64816034 CCTTTATTTT
* *
64816044 AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
* * *** *
64816088 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT-CTTTATTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTAC-TGGCTTC
* * * * *
64816132 AATCCGCTCCACTGTAATTTTAGGGAGATAGAATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
* * * * *
64816176 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-T--ACTGGCTTC
** ** *
64816222 GGTCTATTCCACTGTAATCTCAGGGAGATAGGATTATTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
64816266 AATCTGCT
1 AATCTGCT
64816274 TCCTTACACT
Statistics
Matches: 144, Mismatches: 36, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
43 3 0.02
44 103 0.72
45 3 0.02
46 33 0.23
47 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
Found at i:64816132 original size:88 final size:88
Alignment explanation
Indices: 64815694--64816273 Score: 388
Period size: 88 Copynumber: 6.6 Consensus size: 88
64815684 TACTGGCTTA
* * * * ** *
64815694 AATCTGCTCCGCTGTAATCTC-GGAGAGATAAGATTTCTGGCTTCAATCTACTCCATTGTAACCT
1 AATCTGCTCCACTGTAATCTCAGG-GAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCT
* **
64815758 CAGGGAGATGAGATT-TGAAATTCTT
65 CAGGGAGATAAGATTCT-TTATT-TT
** ** * * * * * * * ** *
64815783 CGGTCTATTCCCCTGTAATCTCAGGGAGATAAGA--CCT-GATACGATCTACTCTACTGTAATTT
1 -AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCT
* * *
64815845 TAGAGAGATAAGATCCTTTATTTT
65 CAGGGAGATAAGATTCTTTATTTT
* * *
64815869 AATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTTCGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
* **
64815934 AGGGATATAAGATT-TGAAATTCTT
66 AGGGAGATAAGATTCT-TTATT-TT
** * ** * * * * * * * * * ** *
64815958 CGGTTTATTCCCCTATAATCTTAGGGAGATAAGA--CCT-GATGCGATCTACTCTACTGTAATTT
1 -AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCT
* * *
64816020 CAGAGAGAGAAGATCCTTTATTTT
65 CAGGGAGATAAGATTCTTTATTTT
* *
64816044 AATCTGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTTAATCTGCTCCGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
64816109 AGGGAGATAAGATTCTTTATTTT
66 AGGGAGATAAGATTCTTTATTTT
* * * * * *
64816132 AATCCGCTCCACTGTAATTTTAGGGAGATAGAATTACTAGCTTCAATCTACTCCGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
**
64816197 AGGGAGATAAGA-TCTGAAATTCTT
66 AGGGAGATAAGATTCT-TTATT-TT
** ** *
64816221 CGGTCTATTCCACTGTAATCTCAGGGAGATAGGATTATTGGCTTCAATCTGCT
1 -AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCT
64816274 TCCTTACACT
Statistics
Matches: 364, Mismatches: 111, Indels: 30
0.72 0.22 0.06
Matches are distributed among these distances:
85 48 0.13
86 4 0.01
87 71 0.20
88 147 0.40
89 4 0.01
90 88 0.24
91 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (88 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTC
AGGGAGATAAGATTCTTTATTTT
Found at i:64816400 original size:129 final size:129
Alignment explanation
Indices: 64816242--64816517 Score: 419
Period size: 129 Copynumber: 2.1 Consensus size: 129
64816232 ACTGTAATCT
* *
64816242 CAGGGAGATAGGA-TTATTGGCTTCAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTT
1 CAGGGAGATAGGACTT-GTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTT
* *
64816306 CGATATGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCCAACCTAATCCACTGCTGAC
65 CGATATGCTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCCAACCTAATCCACTGCTGAC
* *
64816371 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGTCGTCTTC
1 CAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * * * **
64816436 GATCTGCTCTGCTATTGCTTAGGAAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGGT
66 GATATGCTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCCAACCTAATCCACTGCTGAC
*
64816500 CAGGGAGCTAGGACTTGT
1 CAGGGAGATAGGACTTGT
64816518 AATCTTCAAC
Statistics
Matches: 132, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
129 130 0.98
130 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (129 bp):
CAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
GATATGCTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCCAACCTAATCCACTGCTGAC
Found at i:64816640 original size:173 final size:173
Alignment explanation
Indices: 64816351--64816714 Score: 674
Period size: 173 Copynumber: 2.1 Consensus size: 173
64816341 TGTAATTTCC
*
64816351 CAACCTAATCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
1 CAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * *
64816416 AGATAAGATTCGTCGTCTTCGATCTGCTCTGCTATTGCTTAGGAAGACAAGATCTGTAATTTCCC
66 AGATAAGATTCGGCGTCTTCGATCTGCTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCC
64816481 AACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGTAATCTT
131 AACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGTAATCTT
64816524 CAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
1 CAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* *
64816589 AGATAAGATTCGGCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCCC
66 AGATAAGATTCGGCGTCTTCGATCTGCTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCC
64816654 AACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGTAATCTT
131 AACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGTAATCTT
64816697 CAACCTATTCCACTGCTG
1 CAACCTATTCCACTGCTG
64816715 GTTAAGGAGC
Statistics
Matches: 185, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
173 185 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (173 bp):
CAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
AGATAAGATTCGGCGTCTTCGATCTGCTCCGCTACTGCTTAGGAAGACAAGATCTGTAATTTCCC
AACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGTAATCTT
Found at i:64818961 original size:5 final size:6
Alignment explanation
Indices: 64818953--64818986 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
64818943 TCTTTTGCTT
* *
64818953 TTTTGT TTTTGA TTTTGT TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
64818987 TTTTAATTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (6 bp):
TTTTGA
Found at i:64818968 original size:12 final size:12
Alignment explanation
Indices: 64818953--64818987 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
64818943 TCTTTTGCTT
64818953 TTTTGTTTTTGA
1 TTTTGTTTTTGA
64818965 TTTTGTTTTTGA
1 TTTTGTTTTTGA
64818977 TTTTGATTTTT
1 TTTTG-TTTTT
64818988 TTTAATTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.09, C:0.00, G:0.14, T:0.77
Consensus pattern (12 bp):
TTTTGTTTTTGA
Found at i:64818973 original size:18 final size:17
Alignment explanation
Indices: 64818951--64818990 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
64818941 TTTCTTTTGC
*
64818951 TTTTTTGTTTTTGATTT
1 TTTTTTGATTTTGATTT
64818968 TGTTTTTGATTTTGATTT
1 T-TTTTTGATTTTGATTT
64818986 TTTTT
1 TTTTT
64818991 AATTGCATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.07, C:0.00, G:0.12, T:0.80
Consensus pattern (17 bp):
TTTTTTGATTTTGATTT
Found at i:64834160 original size:2 final size:2
Alignment explanation
Indices: 64834153--64834192 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
64834143 TAGATAACAC
* *
64834153 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64834193 TTTAGAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:64845002 original size:24 final size:24
Alignment explanation
Indices: 64844951--64845002 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
64844941 CAAAGCCACT
* **
64844951 AAAAACATTAAAATAAATGTTTCT
1 AAAAAAATTAAAATAAATGTTTAA
64844975 AAAAAAATTAAAAATAAAT-TTTAA
1 AAAAAAATT-AAAATAAATGTTTAA
64844999 AAAA
1 AAAA
64845003 GTCTTTATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAAAAATTAAAATAAATGTTTAA
Found at i:64846218 original size:7 final size:7
Alignment explanation
Indices: 64846206--64846231 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
64846196 GAAATGAGCA
64846206 TGATATG
1 TGATATG
64846213 TGATATG
1 TGATATG
64846220 TGATATG
1 TGATATG
64846227 TGATA
1 TGATA
64846232 CAATTTGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (7 bp):
TGATATG
Found at i:64847881 original size:29 final size:30
Alignment explanation
Indices: 64847794--64847880 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 30
64847784 TTCACTCAAC
*
64847794 GTGCAATATTATACAT-AAAGTTTGATTTT
1 GTGCAATTTTATACATGAAAGTTTGATTTT
* * **
64847823 GTGCAATGTTATATATG-AAGTTCAATTTT
1 GTGCAATTTTATACATGAAAGTTTGATTTT
*
64847852 GTGCAATTTTATACATGAAATTTTGATTT
1 GTGCAATTTTATACATGAAAGTTTGATTT
64847881 GATTCAATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 39 0.83
30 8 0.17
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (30 bp):
GTGCAATTTTATACATGAAAGTTTGATTTT
Found at i:64852431 original size:15 final size:15
Alignment explanation
Indices: 64852411--64852444 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
64852401 GCTTCTGTGG
64852411 GATCGTCTTATGCTA
1 GATCGTCTTATGCTA
64852426 GATCGTCTTATGCTA
1 GATCGTCTTATGCTA
64852441 GATC
1 GATC
64852445 AACGCTTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (15 bp):
GATCGTCTTATGCTA
Found at i:64853557 original size:10 final size:10
Alignment explanation
Indices: 64853542--64853579 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
64853532 CCCCAAATTA
64853542 TTTTTTTTTC
1 TTTTTTTTTC
*
64853552 TTTTTTTTTG
1 TTTTTTTTTC
*
64853562 TTTTTTTCTC
1 TTTTTTTTTC
64853572 TTTTTTTT
1 TTTTTTTT
64853580 ATGCTTTAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:64853567 original size:18 final size:19
Alignment explanation
Indices: 64853544--64853579 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
64853534 CCAAATTATT
64853544 TTTTTTTCT-TTTTTTTTG
1 TTTTTTTCTCTTTTTTTTG
64853562 TTTTTTTCTCTTTTTTTT
1 TTTTTTTCTCTTTTTTTT
64853580 ATGCTTTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (19 bp):
TTTTTTTCTCTTTTTTTTG
Found at i:64853567 original size:20 final size:20
Alignment explanation
Indices: 64853542--64853579 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
64853532 CCCCAAATTA
*
64853542 TTTTTTTTTCTTTTTTTTTG
1 TTTTTTTCTCTTTTTTTTTG
64853562 TTTTTTTCTCTTTTTTTT
1 TTTTTTTCTCTTTTTTTT
64853580 ATGCTTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (20 bp):
TTTTTTTCTCTTTTTTTTTG
Found at i:64854619 original size:9 final size:10
Alignment explanation
Indices: 64854605--64854651 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
64854595 ATTAATATCT
64854605 AAAT-AAGTA
1 AAATAAAGTA
*
64854614 AAATAAAATA
1 AAATAAAGTA
64854624 AAATAAAGTAA
1 AAATAAAGT-A
64854635 TAAATAAAGTA
1 -AAATAAAGTA
64854646 AAATAA
1 AAATAA
64854652 TAATAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 4 0.12
10 18 0.55
11 2 0.06
12 9 0.27
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAGTA
Found at i:64854639 original size:22 final size:23
Alignment explanation
Indices: 64854614--64854661 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
64854604 TAAATAAGTA
*
64854614 AAATAAAATAAAATAA-AGTAAT
1 AAATAAAATAAAATAATAATAAT
*
64854636 AAATAAAGTAAAATAATAATAAT
1 AAATAAAATAAAATAATAATAAT
64854659 AAA
1 AAA
64854662 AATTGGGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (23 bp):
AAATAAAATAAAATAATAATAAT
Found at i:64854641 original size:17 final size:17
Alignment explanation
Indices: 64854619--64854654 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
64854609 AAGTAAAATA
*
64854619 AAATAAAATAAAGTAAT
1 AAATAAAATAAAATAAT
*
64854636 AAATAAAGTAAAATAAT
1 AAATAAAATAAAATAAT
64854653 AA
1 AA
64854655 TAATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
AAATAAAATAAAATAAT
Found at i:64859274 original size:34 final size:34
Alignment explanation
Indices: 64859204--64859349 Score: 159
Period size: 34 Copynumber: 4.3 Consensus size: 34
64859194 AATTGATTGA
* * * *
64859204 TTATAAGTATATTATTTGTTACTGTA-TCGATCTG
1 TTATAAGCATATTAATTGCTACCGTACT-GATCTG
* *
64859238 TTATAAGCATATTAATTACTACCGTACTGATTTG
1 TTATAAGCATATTAATTGCTACCGTACTGATCTG
* * *
64859272 TTATAAGCATATTAATTGCGACCGTATTGATCTA
1 TTATAAGCATATTAATTGCTACCGTACTGATCTG
* * *
64859306 TTATATGCATATAAATTGCTACCATACTGATCTG
1 TTATAAGCATATTAATTGCTACCGTACTGATCTG
*
64859340 TAATAAGCAT
1 TTATAAGCAT
64859350 GTCATATTGC
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
34 91 0.99
35 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (34 bp):
TTATAAGCATATTAATTGCTACCGTACTGATCTG
Found at i:64859512 original size:45 final size:44
Alignment explanation
Indices: 64859456--64859651 Score: 153
Period size: 45 Copynumber: 4.4 Consensus size: 44
64859446 TATCTGCAAA
* * *
64859456 TTTGGTGTGCATCCACAGCCAAAGGTAGATTCTATCTACGGAATT
1 TTTGTTGTGTATCCACAGCCAAAGATAGATTCTATCTACGGAA-T
* * * * *
64859501 TTTGTTGTGCATCCACAGCCAGAGGT-GAATTCTATCTGCGGGAT
1 TTTGTTGTGTATCCACAGCCAAAGATAG-ATTCTATCTACGGAAT
* * * * * * *
64859545 TTTGCTGCGTATTCACAGCCAAAGATAAATTTTATTTGC-GAGAT
1 TTTGTTGTGTATCCACAGCCAAAGATAGATTCTATCTACGGA-AT
* * * * * *
64859589 TTTTTCTATGTACCCATAGCCAGAGATAGATTCTATCTACGGGAT
1 TTTGT-TGTGTATCCACAGCCAAAGATAGATTCTATCTACGGAAT
64859634 TTTGTTGTGTATCCACAG
1 TTTGTTGTGTATCCACAG
64859652 TCATTGGCAG
Statistics
Matches: 115, Mismatches: 31, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
43 1 0.01
44 46 0.40
45 67 0.58
46 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (44 bp):
TTTGTTGTGTATCCACAGCCAAAGATAGATTCTATCTACGGAAT
Found at i:64860795 original size:31 final size:31
Alignment explanation
Indices: 64860729--64860795 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
64860719 ATAATTTTTT
*
64860729 TAATTTAGGTAAAAAACACTTATCCCCTTCA
1 TAATTTAGGTAAAAAACACTTATCCACTTCA
* * *
64860760 -AATTTTGTGTAAAATACATTTATCCACTT-A
1 TAATTTAG-GTAAAAAACACTTATCCACTTCA
64860790 TAATTT
1 TAATTT
64860796 CAAGAATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.40
Consensus pattern (31 bp):
TAATTTAGGTAAAAAACACTTATCCACTTCA
Found at i:64867167 original size:96 final size:96
Alignment explanation
Indices: 64866995--64867209 Score: 225
Period size: 96 Copynumber: 2.2 Consensus size: 96
64866985 TTTTTTAGTA
* * * * *
64866995 AAAAATTAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAATTATTTAAAAGTCA
1 AAAAATTAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAAAAATTATTTAAAAATCA
* *
64867060 GATAAGGGTTTAGAGTTAAGGGTTTTTAAGG
66 GATAAGAGTTTAGAGTTAAGGGTTTTAAAGG
** * *
64867091 AAAAATTAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATT-GTAATTTTTTATAAAATT
1 AAAAATTAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAAAAATTATTTA-AAAATC
** ** * * *
64867155 TTATTCGAGTTTAGTGTTTAGGGTTTTAAAGT
65 AGATAAGAGTTTAGAGTTAAGGGTTTTAAAGG
* *
64867187 AAAAACTCAAATAAATTAAGGTT
1 AAAAA-TTAAATAAATTAGGGTT
64867210 TAGGGTTTAG
Statistics
Matches: 97, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
95 8 0.08
96 74 0.76
97 15 0.15
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.39
Consensus pattern (96 bp):
AAAAATTAAATAAATTAGGGTTCAAGGTTACTTGAGTAAATTAATTAAAAATTATTTAAAAATCA
GATAAGAGTTTAGAGTTAAGGGTTTTAAAGG
Found at i:64867486 original size:126 final size:126
Alignment explanation
Indices: 64867253--64867539 Score: 432
Period size: 126 Copynumber: 2.3 Consensus size: 126
64867243 TAATTTAAAG
* * *
64867253 AAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGTATACATTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGTAGACATTT
* * * *
64867318 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATTCTTTGTCAGCAGAAGTACTGAAAA
66 CTAAGCAAATAGTGTCAAAAACACTTTAAGCAAGATTCTTTGTCAGCAAAAGTACTGAAAA
* * * * *
64867379 AAGCTCCCAAGTGGACGCGCTTTTGCTACAATAGCTCTTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGTAGACATTT
*
64867444 CTAAGCAAATAGTGTCAAAAACACTTTAAGCAAGATGT-TTTGTCAGCAAAAGTACTGAAAG
66 CTAAGCAAATAGTGTCAAAAACACTTTAAGCAAGAT-TCTTTGTCAGCAAAAGTACTGAAAA
*
64867505 AAGCTCCCACGTGGACGCGCTTTTACTACAGTAGC
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
64867540 GCATGTTTGG
Statistics
Matches: 144, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
126 143 0.99
127 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGTAGACATTT
CTAAGCAAATAGTGTCAAAAACACTTTAAGCAAGATTCTTTGTCAGCAAAAGTACTGAAAA
Found at i:64870942 original size:21 final size:21
Alignment explanation
Indices: 64870918--64870958 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
64870908 CAGCTTCTGG
* *
64870918 CGGGGGTTGTGGTTGCTCCGC
1 CGGGGATTGTGGTTCCTCCGC
*
64870939 CGGGGATTTTGGTTCCTCCG
1 CGGGGATTGTGGTTCCTCCG
64870959 GTAGGCGATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.02, C:0.24, G:0.41, T:0.32
Consensus pattern (21 bp):
CGGGGATTGTGGTTCCTCCGC
Found at i:64873105 original size:11 final size:11
Alignment explanation
Indices: 64873091--64873155 Score: 71
Period size: 11 Copynumber: 5.9 Consensus size: 11
64873081 TTTAAATAGA
64873091 AATTTGAGAGG
1 AATTTGAGAGG
*
64873102 AATTTGAGAGA
1 AATTTGAGAGG
*
64873113 AAATTGAGAGG
1 AATTTGAGAGG
64873124 AATTTGAGA-G
1 AATTTGAGAGG
64873134 AATATT-AGAGAG
1 AAT-TTGAGAG-G
*
64873146 AAATTGAGAG
1 AATTTGAGAG
64873156 AAAGAATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 7 0.16
11 31 0.69
12 7 0.16
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.25
Consensus pattern (11 bp):
AATTTGAGAGG
Found at i:64873113 original size:22 final size:22
Alignment explanation
Indices: 64873088--64873158 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
64873078 TCTTTTAAAT
64873088 AGAAATTTGAGAGGAATTTGAG
1 AGAAATTTGAGAGGAATTTGAG
*
64873110 AGAAAATTGAGAGGAATTTGAG
1 AGAAATTTGAGAGGAATTTGAG
* *
64873132 AGAATATTAGAGA-GAAATTGAG
1 AGAA-ATTTGAGAGGAATTTGAG
64873154 AGAAA
1 AGAAA
64873159 GAATTTAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 1 0.02
22 37 0.84
23 6 0.14
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.23
Consensus pattern (22 bp):
AGAAATTTGAGAGGAATTTGAG
Found at i:64873128 original size:33 final size:33
Alignment explanation
Indices: 64873091--64873155 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
64873081 TTTAAATAGA
64873091 AATTTGAGAGGAAT-TTGAGAGA-AAATTGAGAGG
1 AATTTGAGA-GAATATT-AGAGAGAAATTGAGAGG
64873124 AATTTGAGAGAATATTAGAGAGAAATTGAGAG
1 AATTTGAGAGAATATTAGAGAGAAATTGAGAG
64873156 AAAGAATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 9 0.30
33 21 0.70
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.25
Consensus pattern (33 bp):
AATTTGAGAGAATATTAGAGAGAAATTGAGAGG
Found at i:64889546 original size:25 final size:25
Alignment explanation
Indices: 64889518--64889566 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
64889508 TACAATCTAT
* *
64889518 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGCAGTCTCAATATATACTAC
*
64889543 CTATAGCAGTTTCAATATATACTA
1 CTATAGCAGTCTCAATATATACTA
64889567 TCAAAAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (25 bp):
CTATAGCAGTCTCAATATATACTAC
Found at i:64890209 original size:40 final size:42
Alignment explanation
Indices: 64890165--64890245 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 42
64890155 GGATAAAACA
*
64890165 AGAAAATGCTTCCTCAAGGAAGCG-TTT-TGTCCACGTGGAT
1 AGAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGAT
** **
64890205 AGAAAACGCTTCCTTGAGGGTGCGCTTTGTGTCCACGTGGA
1 AGAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGA
64890246 CAAAGCGCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 19 0.56
41 3 0.09
42 12 0.35
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (42 bp):
AGAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGAT
Found at i:64890564 original size:97 final size:95
Alignment explanation
Indices: 64890348--64890658 Score: 444
Period size: 97 Copynumber: 3.2 Consensus size: 95
64890338 ATTTTAGGGC
* * * * * *
64890348 TTTAAGGAAAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAATTAATTATAAATTTTAA
1 TTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAA
*
64890413 AAAATTAGATTAGGGTTTAGCGTTTATGGTT
66 AAAATTAGATTAGGGTTTAGTGTTTA-GGTT
* * *
64890444 TTTAAGGAAAAACTCAAACAAATTAGGGTTTAGGGTTACTTGAGTAAATTAAGTATAAATTTAAA
1 TTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTT-AA
*
64890509 AAAAATTAGATTAGGATTTAGTGTTTAGGTTT
65 AAAAATTAGATTAGGGTTTAGTGTTTAGG-TT
*
64890541 TTTAAGGAAAAAATAAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAA
1 TTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA-TTTAA
* *
64890606 AAAAATTAGATTGGGGTTTAGTATTTAAGGTT
65 AAAAATTAGATTAGGGTTTAGTGTTT-AGGTT
64890638 TTTAAGG-AAAAATCAAATAAA
1 TTTAAGGAAAAAATCAAATAAA
64890659 GGTAGTTGTT
Statistics
Matches: 192, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
96 69 0.36
97 117 0.61
98 6 0.03
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (95 bp):
TTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAAA
AAAATTAGATTAGGGTTTAGTGTTTAGGTT
Found at i:64890747 original size:19 final size:19
Alignment explanation
Indices: 64890707--64890747 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
64890697 AAAAATAAAC
*
64890707 TAATAAAATTAAATGTTTT
1 TAATAAAATTAAATGTTAT
64890726 TAATAACAATTAAAT-TTAT
1 TAATAA-AATTAAATGTTAT
64890745 TAA
1 TAA
64890748 AAGAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
TAATAAAATTAAATGTTAT
Found at i:64896761 original size:17 final size:17
Alignment explanation
Indices: 64896739--64896777 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
64896729 GTCTCAGCCA
*
64896739 TGTGAATCACACGGTCG
1 TGTGAATCACACGGCCG
*
64896756 TGTGAATCACACTGCCG
1 TGTGAATCACACGGCCG
64896773 TGTGA
1 TGTGA
64896778 CCCCTGCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (17 bp):
TGTGAATCACACGGCCG
Found at i:64902641 original size:20 final size:20
Alignment explanation
Indices: 64902616--64902660 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
64902606 TTTATATTAC
64902616 TTATATTGTTTCATTAAAAA
1 TTATATTGTTTCATTAAAAA
* *
64902636 TTATATTGTTTGATTAGAAA
1 TTATATTGTTTCATTAAAAA
64902656 TTATA
1 TTATA
64902661 ATTAACACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (20 bp):
TTATATTGTTTCATTAAAAA
Found at i:64904943 original size:55 final size:54
Alignment explanation
Indices: 64904856--64905003 Score: 138
Period size: 58 Copynumber: 2.6 Consensus size: 54
64904846 TTTTTATAGT
* * * *
64904856 ATTATATATTATGATTTTTTAATTCATA--TAATAATTATATTAACAATTTTATTAA
1 ATTATATATTAT--TTTATTAAATCATATTTAATAATTATATTAA-AATATGATTAA
* *
64904911 ATTATATATTATTTTATTAAATCATATTTAATAATAATTATGTTAAAATATGGTTAA
1 ATTATATATTATTTTATTAAATCATA-TT--TAATAATTATATTAAAATATGATTAA
* * *
64904968 ATTATTTATTATTTTTATTAAATTATTTTTAATAAT
1 ATTATATATTA-TTTTATTAAATCATATTTAATAAT
64905004 AATCTTATTA
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
53 12 0.15
55 19 0.24
57 20 0.26
58 27 0.35
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (54 bp):
ATTATATATTATTTTATTAAATCATATTTAATAATTATATTAAAATATGATTAA
Found at i:64905015 original size:58 final size:57
Alignment explanation
Indices: 64904883--64905017 Score: 173
Period size: 58 Copynumber: 2.3 Consensus size: 57
64904873 TTTAATTCAT
* **
64904883 ATAATAATTATATTAACAATTTTATTAAATTATATATTATTTTATTAAATCATATTTA
1 ATAATAATTATATTAA-AATATGGTTAAATTATATATTATTTTATTAAATCATATTTA
* * * *
64904941 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGGTTAAATTATATATTA-TTTTATTAAATCATATTTA
64904999 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
64905018 TTAATAACAA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 18 0.27
58 48 0.72
59 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATCATATTTA
Found at i:64905205 original size:16 final size:16
Alignment explanation
Indices: 64905184--64905235 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
64905174 TAAATTATTG
64905184 ATTACAACTTTATTCC
1 ATTACAACTTTATTCC
* * *
64905200 ATTACAGCTCTATTCA
1 ATTACAACTTTATTCC
*
64905216 ATTAC-AGTTCTATTCC
1 ATTACAACTT-TATTCC
64905232 ATTA
1 ATTA
64905236 TAGTGAACCA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
15 1 0.04
16 27 0.96
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTACAACTTTATTCC
Found at i:64906572 original size:28 final size:28
Alignment explanation
Indices: 64906538--64906598 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
64906528 CTACTTGTAC
64906538 GAACCTATGTGCAACCCCCCTTAGGTGT
1 GAACCTATGTGCAACCCCCCTTAGGTGT
*
64906566 GAACCTATGTGCGACCCCCCTTAGGTGT
1 GAACCTATGTGCAACCCCCCTTAGGTGT
*
64906594 AAACC
1 GAACC
64906599 CCTAACTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (28 bp):
GAACCTATGTGCAACCCCCCTTAGGTGT
Found at i:64906649 original size:34 final size:34
Alignment explanation
Indices: 64906611--64906714 Score: 138
Period size: 34 Copynumber: 3.1 Consensus size: 34
64906601 TAACTATGCA
*
64906611 AGCTTATATGTTATACGAACCCTAGGAATGTGCG
1 AGCTTATATGTTATGCGAACCCTAGGAATGTGCG
* * *
64906645 AGCTTATATGTTATGCGAAGCCTAGGAATATGTG
1 AGCTTATATGTTATGCGAACCCTAGGAATGTGCG
* * *
64906679 AGCCTCTATG-TATGTGAACCCTAGGAATGTGCG
1 AGCTTATATGTTATGCGAACCCTAGGAATGTGCG
64906712 AGC
1 AGC
64906715 CTACATGCGA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 22 0.37
34 38 0.63
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (34 bp):
AGCTTATATGTTATGCGAACCCTAGGAATGTGCG
Found at i:64907962 original size:21 final size:21
Alignment explanation
Indices: 64907936--64907982 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
64907926 AATACTAGTG
64907936 ATGTTACTAAAATGAAATATA
1 ATGTTACTAAAATGAAATATA
* *
64907957 ATGTTACTATAATGGAATATA
1 ATGTTACTAAAATGAAATATA
64907978 ATGTT
1 ATGTT
64907983 GGATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
ATGTTACTAAAATGAAATATA
Found at i:64912093 original size:30 final size:30
Alignment explanation
Indices: 64912048--64912106 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
64912038 CACAATTGTG
64912048 TTAAACGAAGGTCGAAACCATCTATTTTCT
1 TTAAACGAAGGTCGAAACCATCTATTTTCT
* *
64912078 TTAATCGATGGTCGAAACCATCTATTTTC
1 TTAAACGAAGGTCGAAACCATCTATTTTC
64912107 ATATTCGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (30 bp):
TTAAACGAAGGTCGAAACCATCTATTTTCT
Found at i:64912404 original size:69 final size:69
Alignment explanation
Indices: 64912302--64912453 Score: 196
Period size: 69 Copynumber: 2.2 Consensus size: 69
64912292 TATACACTAC
* * *
64912302 CATGGTCCAACCATGGTATTACGTCTAAAAAACTATCATAGCCTCGCTATGGTCTTACGTAAACA
1 CATGGTCCAACCATAGTATTACGTCTAAAAAACTACCATAGCCTCGCTATGGTCTTACATAAACA
64912367 TTGT
66 TTGT
* * * * * *
64912371 CATGGTCCAGCCATAGTCTTGCGTCTGAAAAACTGCCATAGCCTTGCTATGGTCTTACATAAACA
1 CATGGTCCAACCATAGTATTACGTCTAAAAAACTACCATAGCCTCGCTATGGTCTTACATAAACA
*
64912436 TTGC
66 TTGT
* *
64912440 CATAGTGCAACCAT
1 CATGGTCCAACCAT
64912454 GGTTTTGTAT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (69 bp):
CATGGTCCAACCATAGTATTACGTCTAAAAAACTACCATAGCCTCGCTATGGTCTTACATAAACA
TTGT
Found at i:64923722 original size:9 final size:9
Alignment explanation
Indices: 64923685--64923730 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
64923675 GGTTGCAAAA
64923685 AGGACGATG
1 AGGACGATG
* *
64923694 ACGATGATG
1 AGGACGATG
*
64923703 ACGACGATG
1 AGGACGATG
64923712 AGGACGATG
1 AGGACGATG
*
64923721 AGGATGATG
1 AGGACGATG
64923730 A
1 A
64923731 TGTTTCTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.35, C:0.11, G:0.39, T:0.15
Consensus pattern (9 bp):
AGGACGATG
Found at i:64927660 original size:111 final size:110
Alignment explanation
Indices: 64927528--64927750 Score: 392
Period size: 111 Copynumber: 2.0 Consensus size: 110
64927518 ATGTTTAGCC
64927528 CAAACCCATTTTAAGTCTACCCATTTTATTTTTCCATTTTTTTGAAAAATATTTATATATTTTTT
1 CAAACCCATTTTAAGTCTACCCATTTTATTTTTCCATTTTTTTGAAAAATATTTATAT-TTTTTT
*
64927593 AATTTAATGTTTACTAAACTTATATATTTTCCCTTTATCAAAATTG
65 AATTTAATGTTGACTAAACTTATATATTTTCCCTTTATCAAAATTG
* **
64927639 CAAACCTATTTTAAGTCTACCCATTTTATTTTTTTATTTTTTTGAAAAATATTTATATTTTTTTA
1 CAAACCCATTTTAAGTCTACCCATTTTATTTTTCCATTTTTTTGAAAAATATTTATATTTTTTTA
*
64927704 ATTTAATGTTGACTAAATTTATATATTTTCCCTTTATCAAAATTG
66 ATTTAATGTTGACTAAACTTATATATTTTCCCTTTATCAAAATTG
64927749 CA
1 CA
64927751 TATATGCAAC
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 52 0.49
111 55 0.51
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (110 bp):
CAAACCCATTTTAAGTCTACCCATTTTATTTTTCCATTTTTTTGAAAAATATTTATATTTTTTTA
ATTTAATGTTGACTAAACTTATATATTTTCCCTTTATCAAAATTG
Found at i:64930003 original size:18 final size:18
Alignment explanation
Indices: 64929980--64930021 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
64929970 AGCCTCGTCT
*
64929980 ATCACATGCCCGTGTTCG
1 ATCACAAGCCCGTGTTCG
64929998 ATCACAAGCCCGTGTTCG
1 ATCACAAGCCCGTGTTCG
*
64930016 GTCACA
1 ATCACA
64930022 CGGCCTACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.24
Consensus pattern (18 bp):
ATCACAAGCCCGTGTTCG
Found at i:64931647 original size:45 final size:45
Alignment explanation
Indices: 64931596--64931686 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
64931586 GGTGTTTAGT
64931596 TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
1 TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
64931641 TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
1 TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
64931686 T
1 T
64931687 CCTTATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (45 bp):
TAAAGCATTGTAGCATTTGGTGTTTAACGTCAAACATGTTAACTA
Found at i:64935139 original size:5 final size:5
Alignment explanation
Indices: 64935129--64935153 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
64935119 TTTGGTATAT
64935129 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
64935154 AGGTAATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:64936274 original size:20 final size:20
Alignment explanation
Indices: 64936245--64936282 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
64936235 CTTGTACGAC
*
64936245 ATTTGTACTTCAATGCCCTT
1 ATTTGCACTTCAATGCCCTT
64936265 ATTTGCACTTCAATGCCC
1 ATTTGCACTTCAATGCCC
64936283 CTGCATACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (20 bp):
ATTTGCACTTCAATGCCCTT
Found at i:64939176 original size:32 final size:32
Alignment explanation
Indices: 64939121--64939184 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
64939111 ATATATTCCT
*
64939121 AGTTCTATATGTCGATGACATTTTGCTTGCCA
1 AGTTCTAGATGTCGATGACATTTTGCTTGCCA
* * *
64939153 AGTTCTAGATGTTGTTGATATTTTGCTTGCCA
1 AGTTCTAGATGTCGATGACATTTTGCTTGCCA
64939185 CTAATGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (32 bp):
AGTTCTAGATGTCGATGACATTTTGCTTGCCA
Found at i:64942126 original size:4 final size:4
Alignment explanation
Indices: 64942107--64942142 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
64942097 AATTGTATAG
*
64942107 AAAT AATAT GAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAA
64942143 AATAATGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:64942535 original size:33 final size:29
Alignment explanation
Indices: 64942464--64942532 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
64942454 TCAAAAACAT
* *
64942464 AAATATATATATATGAAAATATTCATTAA
1 AAATATAAATATAGGAAAATATTCATTAA
*
64942493 AAATATAAATATAGGAAAATATTCATTGA
1 AAATATAAATATAGGAAAATATTCATTAA
64942522 AAA-A-AAATATA
1 AAATATAAATATA
64942533 AATTTATATC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 7 0.19
28 1 0.03
29 29 0.78
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (29 bp):
AAATATAAATATAGGAAAATATTCATTAA
Found at i:64943712 original size:18 final size:18
Alignment explanation
Indices: 64943689--64943723 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64943679 TTTTGGGCCG
* *
64943689 CGTTTGTAATTGGGCCAC
1 CGTTTGAAATCGGGCCAC
64943707 CGTTTGAAATCGGGCCA
1 CGTTTGAAATCGGGCCA
64943724 TGTATTTTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (18 bp):
CGTTTGAAATCGGGCCAC
Found at i:64944464 original size:32 final size:32
Alignment explanation
Indices: 64944419--64944482 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
64944409 CCACTTCCTA
* *
64944419 CCAATATAGGAAGACAGGATCTGCTATCTTCG
1 CCAATACAGGAAGACAAGATCTGCTATCTTCG
* *
64944451 CCAATACATGAAGACAAGATCTGCTTTCTTCG
1 CCAATACAGGAAGACAAGATCTGCTATCTTCG
64944483 ATCTACTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (32 bp):
CCAATACAGGAAGACAAGATCTGCTATCTTCG
Found at i:64944667 original size:89 final size:88
Alignment explanation
Indices: 64944451--64945272 Score: 737
Period size: 89 Copynumber: 9.3 Consensus size: 88
64944441 GCTATCTTCG
* * * * *
64944451 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTAATAT-GAGAAGACAAGA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAG-GAAGACAAGA
* * * *
64944515 TC---TAGTCTTTGATCCATTTCCTA
64 TCTGTTA-TCTTCGATCTACTTCCCA
* * * * * *
64944538 CCAATATAGGAAGACAGGATCTACTATCTTCGATCTACTTCACGCCAATACATGAGGACAAGATC
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATC
* * **
64944603 TGTTTTTTTTTTATCTACTTCGCCA
66 TG-TTATCTTCGATCTACTTC-CCA
* * * *
64944628 CCAGTATAGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGAT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGAT
* * * *
64944692 CTGTTATCTTTGATCTATTTCACG
65 CTGTTATCTTCGATCTACTTCCCA
* * * * * * *
64944716 CCAATACATGAAGACAAGATCCGCTTTCTTCGATCTATTTCACCACCAGTATGGGAAGACAAGAT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGACAAGAT
* * * *
64944781 ATG-CATCTTCGATCCACTTCGCTA
65 CTGTTATCTTCGATCTACTTC-CCA
* * * ** * *
64944805 TCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATC
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATC
*
64944870 TGCTT-TCTTCGATCTACTTTGCCA
66 TG-TTATCTTCGATCTAC-TTCCCA
* * * * * * * *
64944894 CCAGTATGGGAAGTCAAAATCTGC-ATCTTCGATCCACTTCACTACTAATATAGGAAGATAGGAT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGAT
* *
64944958 CTGTTATCTTCGATCTACTTCACG
65 CTGTTATCTTCGATCTACTTCCCA
** * * * *
64944982 CCAATATATAAAGGCAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGAT
* *
64945047 CTG-TATCTTCGATCCACTTCCTA
65 CTGTTATCTTCGATCTACTTCCCA
* * * * *
64945070 CCAATATAGGAAGACAGGATATGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATC
*
64945135 TGTTTTCTTCGATCTACTTCACCA
66 TGTTATCTTCGATCTACTTC-CCA
* * * * *
64945159 CCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGAT
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGAT
* *
64945223 CTGTTATCTTCGATCTACTTCACG
65 CTGTTATCTTCGATCTACTTCCCA
* *
64945247 CCAATACATGAAGACAAGATCTGCTA
1 CCAATATAGGAAGACAAGATCTGCTA
64945273 CTTTTTAGCC
Statistics
Matches: 577, Mismatches: 137, Indels: 40
0.77 0.18 0.05
Matches are distributed among these distances:
86 17 0.03
87 57 0.10
88 194 0.34
89 262 0.45
90 47 0.08
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (88 bp):
CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGATC
TGTTATCTTCGATCTACTTCCCA
Found at i:64944680 original size:44 final size:44
Alignment explanation
Indices: 64944451--64945270 Score: 645
Period size: 44 Copynumber: 18.5 Consensus size: 44
64944441 GCTATCTTCG
* * * * *
64944451 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACTA
* * * *
64944496 CTAATAT-GAGAAGACAAGATCT--AGTCTTTGATCCATTTC-CTA
1 CCAATATAG-GAAGACAAGATCTGCA-TCTTCGATCTACTTCACTA
* * *
64944538 CCAATATAGGAAGACAGGATCTACTATCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACTA
* * * ** * ** * *
64944582 CCAATACATGAGGACAAGATCTGTTTTTTTTTTATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTG--CATCTTCGATCTACTTCACTA
* * *
64944628 CCAGTATAGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTA
1 CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
* * * * *
64944672 CCAATATAGGAAGACAGGATCTGTTATCTTTGATCTATTTCAC-G
1 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACTA
* * * * * *
64944716 CCAATACATGAAGACAAGATCCGCTTTCTTCGATCTATTTCACCA
1 CCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACTA
* * * * *
64944761 CCAGTATGGGAAGACAAGATATGCATCTTCGATCCACTTCGCTA
1 CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
* * * *
64944805 TCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCA-TG
1 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACTA
* * * ** *
64944849 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCA
1 CCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACTA
* * * * *
64944894 CCAGTATGGGAAGTCAAAATCTGCATCTTCGATCCACTTCACTA
1 CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
* * * * *
64944938 CTAATATAGGAAGATAGGATCTGTTATCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACTA
** * * * *
64944982 CCAATATATAAAGGCAAGATCTGCTTTCTTCGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACTA
* * *
64945027 CCAATATGGGAAGACAAGATCTGTATCTTCGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
* * *
64945070 CCAATATAGGAAGACAGGATATGCTATCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACTA
* * ** *
64945114 CCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCA
1 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACTA
* * * *
64945159 CCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTA
1 CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
* * *
64945203 CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCAC-G
1 CCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACTA
* *
64945247 CCAATACATGAAGACAAGATCTGC
1 CCAATATAGGAAGACAAGATCTGC
64945271 TACTTTTTAG
Statistics
Matches: 596, Mismatches: 155, Indels: 50
0.74 0.19 0.06
Matches are distributed among these distances:
42 20 0.03
43 35 0.06
44 352 0.59
45 170 0.29
46 19 0.03
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (44 bp):
CCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTA
Found at i:64944818 original size:133 final size:133
Alignment explanation
Indices: 64944449--64945271 Score: 1276
Period size: 133 Copynumber: 6.2 Consensus size: 133
64944439 CTGCTATCTT
* * *
64944449 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACTAATATGAGAAGACAAG
1 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
* * **
64944514 ATCT--AGTCTTTGATCCATTTC-CTACCAATATAGGAAGACAGGATCTACTATCTTCGATCTAC
66 ATCTGCA-TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTAC
64944576 TTCA
130 TTCA
* * * ** *
64944580 CGCCAATACATGAGGACAAGATCTGTTTTTTTTTTATCTACTTCGCCACCAGTATAGGAAGACAA
1 CGCCAATACATGAAGACAAGATCTG-CTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
* *
64944645 GATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTTGATCTAT
65 GATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTAC
64944710 TTCA
130 TTCA
* * *
64944714 CGCCAATACATGAAGACAAGATCCGCTTTCTTCGATCTATTTCACCACCAGTATGGGAAGACAAG
1 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
* *
64944779 ATATGCATCTTCGATCCACTTCGCTATCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACT
66 ATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACT
64944844 TCA
131 TCA
* * * *
64944847 TGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACCAGTATGGGAAGTCAAA
1 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
* * *
64944912 ATCTGCATCTTCGATCCACTTCACTACTAATATAGGAAGATAGGATCTGTTATCTTCGATCTACT
66 ATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACT
64944977 TCA
131 TCA
* * * *
64944980 CGCCAATATATAAAGGCAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
* * *
64945045 ATCTGTATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATATGCTATCTTCGATCTACT
66 ATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACT
64945109 TCA
131 TCA
* *
64945112 CGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAG
1 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
64945177 ATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACT
66 ATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACT
64945242 TCA
131 TCA
64945245 CGCCAATACATGAAGACAAGATCTGCT
1 CGCCAATACATGAAGACAAGATCTGCT
64945272 ACTTTTTAGC
Statistics
Matches: 624, Mismatches: 63, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
131 24 0.04
132 157 0.25
133 378 0.61
134 65 0.10
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (133 bp):
CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
ATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACT
TCA
Found at i:64945186 original size:398 final size:397
Alignment explanation
Indices: 64944359--64945271 Score: 1333
Period size: 398 Copynumber: 2.3 Consensus size: 397
64944349 AAGATCTGCA
* * *
64944359 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT--AGTTTTC-ATCCACTTC-CTAC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCA-TCTTCGATCCACTTCGCTAC
64944420 CAATATAGGAAGACAGGATCTG----C-T--A--T-CTTC-GCCAATACATGAAGACAAGATCTG
65 CAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCAGCCAATACATGAAGACAAGATCTG
* * * *
64944474 CTTTCTTCGATCTACTTCGCCACTAATATGAGAAGACAAGATCTAGTCTTTGATCCATTTCCTAC
130 CTTTCTTCGATCTACTTCGCCACCAATATGAGAAGACAAAATCTAGTCTTCGATCCACTTCCTAC
*
64944539 CAATATAGGAAGACAGGATCTACTATCTTCGATCTACTTCACGCCAATACATGAGGACAAGATCT
195 CAATATAGGAAGACAGGATCTACTATCTTCGATCTACTTCACGCCAATACATAAGGACAAGATCT
* * ** *
64944604 GTTTTTTTTTTATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCATCTTCGATCCACTTCG
260 GTCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCCACTTCG
* * * *
64944669 CTACCAATATAGGAAGACAGGATCTGTTATCTTTGATCTATTTCACGCCAATACATGAAGACAAG
325 CTACCAATATAGGAAGACAGGATATGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
64944734 ATCCGCTT
390 ATCCGCTT
* * *
64944742 TCTTCGATCTATTTCACCACCAGTATGGGAAGACAAGATATGCATCTTCGATCCACTTCGCTATC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACC
64944807 AATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTG
66 AATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCA-GCCAATACATGAAGACAAGATCTG
* * * *
64944872 CTTTCTTCGATCTACTTTGCCACCAGTATGGGAAGTCAAAATCT-GCATCTTCGATCCACTTCAC
130 CTTTCTTCGATCTACTTCGCCACCAATATGAGAAGACAAAATCTAG--TCTTCGATCCACTTC-C
* * ** *
64944936 TACTAATATAGGAAGATAGGATCTGTTATCTTCGATCTACTTCACGCCAATATATAAAGG-CAAG
192 TACCAATATAGGAAGACAGGATCTACTATCTTCGATCTACTTCACGCCAATACAT-AAGGACAAG
* *
64945000 ATCTG-CTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTTCGATCCAC
256 ATCTGTCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCCAC
64945064 TTC-CTACCAATATAGGAAGACAGGATATGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
321 TTCGCTACCAATATAGGAAGACAGGATATGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
* *
64945128 CAAGATCTGTTT
386 CAAGATCCGCTT
64945140 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACC
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACC
64945205 AATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
66 AATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCA-GCCAATACATGAAGACAAGATCTG
64945270 CT
130 CT
64945272 ACTTTTTAGC
Statistics
Matches: 473, Mismatches: 37, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
383 37 0.08
384 4 0.01
385 10 0.02
386 25 0.05
390 1 0.00
391 1 0.00
393 1 0.00
395 1 0.00
396 4 0.01
397 1 0.00
398 257 0.54
399 68 0.14
400 60 0.13
401 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (397 bp):
TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACC
AATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCAGCCAATACATGAAGACAAGATCTGC
TTTCTTCGATCTACTTCGCCACCAATATGAGAAGACAAAATCTAGTCTTCGATCCACTTCCTACC
AATATAGGAAGACAGGATCTACTATCTTCGATCTACTTCACGCCAATACATAAGGACAAGATCTG
TCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCCACTTCGC
TACCAATATAGGAAGACAGGATATGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
TCCGCTT
Found at i:64957365 original size:14 final size:14
Alignment explanation
Indices: 64957346--64957374 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
64957336 TATGTGTTGA
64957346 AAATATAAGTTTGT
1 AAATATAAGTTTGT
64957360 AAATATAAGTTTGT
1 AAATATAAGTTTGT
64957374 A
1 A
64957375 TTTAAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (14 bp):
AAATATAAGTTTGT
Found at i:64957470 original size:2 final size:2
Alignment explanation
Indices: 64957406--64957452 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
64957396 GACATGAGCG
64957406 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64957448 TA TA T
1 TA TA T
64957453 TCATTAGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:64957567 original size:17 final size:17
Alignment explanation
Indices: 64957545--64957580 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
64957535 ATGTATATAA
64957545 AAGTTAGGAAGTAAAAT
1 AAGTTAGGAAGTAAAAT
64957562 AAGTTAGGAAGTAAAAT
1 AAGTTAGGAAGTAAAAT
64957579 AA
1 AA
64957581 AAATAAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (17 bp):
AAGTTAGGAAGTAAAAT
Found at i:64957678 original size:3 final size:3
Alignment explanation
Indices: 64957670--64957702 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
64957660 CATGATCTAT
64957670 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
64957703 GTGATACGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:64958181 original size:23 final size:22
Alignment explanation
Indices: 64958153--64958195 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
64958143 AAATTAAATC
64958153 TCTAAGATTACAAAATCATATTT
1 TCTAAGATTAC-AAATCATATTT
*
64958176 TCTAAGATTACATATCATAT
1 TCTAAGATTACAAATCATAT
64958196 CTAAGATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.40
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATTT
Found at i:64958200 original size:19 final size:19
Alignment explanation
Indices: 64958153--64958250 Score: 97
Period size: 19 Copynumber: 4.8 Consensus size: 19
64958143 AAATTAAATC
*
64958153 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
64958173 TTTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
* *
64958195 TCTAAGATTGCATATATCAAA
1 TCTAAGATT--ACATATCATA
*
64958216 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
64958235 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
64958251 CTTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
19 32 0.48
21 17 0.25
22 7 0.10
23 11 0.16
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:64958213 original size:21 final size:21
Alignment explanation
Indices: 64958187--64958249 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
64958177 CTAAGATTAC
64958187 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
*
64958208 ATATCAAATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
64958227 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
64958248 AT
1 AT
64958250 CCTTGAAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.47
21 20 0.53
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.37
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:64965865 original size:20 final size:22
Alignment explanation
Indices: 64965824--64965866 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
64965814 TATTCCAGCC
*
64965824 TCTTCCTCGAATGACATCTTTT
1 TCTTCCTCAAATGACATCTTTT
64965846 TCTTCCTCAAAT-AC-TCTTTT
1 TCTTCCTCAAATGACATCTTTT
64965866 T
1 T
64965867 AGGCCTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.19, C:0.28, G:0.05, T:0.49
Consensus pattern (22 bp):
TCTTCCTCAAATGACATCTTTT
Found at i:64970487 original size:35 final size:35
Alignment explanation
Indices: 64970430--64970538 Score: 105
Period size: 35 Copynumber: 3.0 Consensus size: 35
64970420 TTTTATAGAT
64970430 TATATAATATGATTTTAGTAAATTCATATAAGAATAA
1 TATAT-AT-TGATTTTAGTAAATTCATATAAGAATAA
* * *
64970467 T-TATATTGAATTTTATTAAATT-ATATTTTATAGTATTA
1 TATATATTG-ATTTTAGTAAATTCATA---TA-AGAATAA
*
64970505 TATATTTTGATTTTAGTAAATTCATATAAGAATA
1 TATATATTGATTTTAGTAAATTCATATAAGAATA
64970539 TTTAACACTA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
34 5 0.09
35 18 0.31
36 5 0.09
37 3 0.05
38 18 0.31
39 9 0.16
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (35 bp):
TATATATTGATTTTAGTAAATTCATATAAGAATAA
Found at i:64970833 original size:46 final size:44
Alignment explanation
Indices: 64970746--64970834 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
64970736 TTACACCTCT
* *
64970746 ATTCCATTAAACCAAACACAAGAATACCATTACGCCTCTATTCC
1 ATTCCATTAAACCAAACAAAAAAATACCATTACGCCTCTATTCC
* *
64970790 ATTCCATTCAATCAAACAAAAAAATTACCTATTACGCCTCTATTC
1 ATTCCATTAAACCAAACAAAAAAA-TACC-ATTACGCCTCTATTC
64970835 TATTATAGCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 20 0.51
45 4 0.10
46 15 0.38
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.28
Consensus pattern (44 bp):
ATTCCATTAAACCAAACAAAAAAATACCATTACGCCTCTATTCC
Found at i:64970852 original size:46 final size:43
Alignment explanation
Indices: 64970735--64970852 Score: 102
Period size: 46 Copynumber: 2.7 Consensus size: 43
64970725 TACTTATGCT
* * *
64970735 ATTACACCTCTATTCCATT-A---AACCAAACACAAGAATACC
1 ATTACGCCTCTATTCCATTCATGCAACCAAACAAAAAAATACC
* *
64970774 ATTACGCCTCTATTCCATTCCATTCAATCAAACAAAAAAATTACC
1 ATTACGCCTCTATTCCATT-CATGCAACCAAACAAAAAAA-TACC
*
64970819 TATTACGCCTCTATTCTATT-ATAGCGAACCAAAC
1 -ATTACGCCTCTATTCCATTCAT-GC-AACCAAAC
64970853 GTGTCCAGGG
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
39 18 0.29
41 1 0.02
44 14 0.22
45 5 0.08
46 25 0.40
ACGTcount: A:0.39, C:0.29, G:0.04, T:0.28
Consensus pattern (43 bp):
ATTACGCCTCTATTCCATTCATGCAACCAAACAAAAAAATACC
Found at i:64971561 original size:16 final size:16
Alignment explanation
Indices: 64971534--64971597 Score: 85
Period size: 16 Copynumber: 4.1 Consensus size: 16
64971524 TTCGCTGTAT
64971534 TGGAAT-GAGGCGTAA
1 TGGAATAGAGGCGTAA
64971549 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
64971565 TAGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
* *
64971581 TGGATTAGAGGTGTAA
1 TGGAATAGAGGCGTAA
64971597 T
1 T
64971598 AGCAAATCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
15 6 0.14
16 38 0.86
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.25
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:64971848 original size:16 final size:16
Alignment explanation
Indices: 64971811--64971852 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
64971801 TTAATCATAT
*
64971811 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
64971827 TT-AAATATATTATAA
1 TTAAAATATATTATAA
64971842 TTAAAATATAT
1 TTAAAATATAT
64971853 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:64971859 original size:14 final size:15
Alignment explanation
Indices: 64971820--64971861 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
64971810 TTTAAACATA
*
64971820 ATTATTATTAAATAT
1 ATTATAATTAAATAT
64971835 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
64971849 A-TATAATTTAATA
1 ATTATAATTAAATA
64971862 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:64971959 original size:120 final size:120
Alignment explanation
Indices: 64971814--64972181 Score: 607
Period size: 120 Copynumber: 3.1 Consensus size: 120
64971804 ATCATATTTA
64971814 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
64971879 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
64971934 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
64971999 TATTCTTATATGAATTTACTCAAATCATAACATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * *
64972054 AA-ATTAATTATTTTTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTATTAAT-ATT
1 AACA-TAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
* * * *
64972116 AAATATTATTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTT
64 -AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
64972174 AAAATAAT
1 AACATAAT
64972182 AAAATTTGAA
Statistics
Matches: 235, Mismatches: 9, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
119 4 0.02
120 227 0.97
121 4 0.02
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:64971979 original size:14 final size:15
Alignment explanation
Indices: 64971930--64971981 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
64971920 ATAAAATATA
64971930 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
64971945 TATTAAATATATTAT
1 AATTAAATATATTAT
64971960 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
64971973 AATTTAATA
1 AATTAAATA
64971982 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:64972094 original size:18 final size:18
Alignment explanation
Indices: 64972071--64972117 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
64972061 TTATTTTTAA
64972071 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
64972089 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
64972107 AT-TAATATTAA
1 ATATAAT-TTAA
64972118 ATATTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:64972226 original size:20 final size:20
Alignment explanation
Indices: 64972179--64972217 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
64972169 AATTTAAAAT
*
64972179 AATAAAATTTGAATCGATTA
1 AATAATATTTGAATCGATTA
* *
64972199 AATGATATTTGAATTGATT
1 AATAATATTTGAATCGATT
64972218 TGATAATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
AATAATATTTGAATCGATTA
Found at i:64972522 original size:11 final size:12
Alignment explanation
Indices: 64972491--64972526 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
64972481 TGTATTAATT
*
64972491 TTAATTTTCATA
1 TTAATTTTTATA
64972503 TTAATTTTTATA
1 TTAATTTTTATA
64972515 TT-ATTTTTATA
1 TTAATTTTTATA
64972526 T
1 T
64972527 CATGTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TTAATTTTTATA
Found at i:64982203 original size:12 final size:12
Alignment explanation
Indices: 64982186--64982242 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
64982176 AATCTATACT
64982186 TGAACCCCCATG
1 TGAACCCCCATG
64982198 TGAACCCCCATG
1 TGAACCCCCATG
** *
64982210 CAAAACCCCATG
1 TGAACCCCCATG
* *
64982222 CGAACCCCCTTG
1 TGAACCCCCATG
*
64982234 TCAACCCCC
1 TGAACCCCC
64982243 TACAAACTCT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.26, C:0.47, G:0.12, T:0.14
Consensus pattern (12 bp):
TGAACCCCCATG
Found at i:64982242 original size:24 final size:24
Alignment explanation
Indices: 64982188--64982287 Score: 69
Period size: 24 Copynumber: 4.2 Consensus size: 24
64982178 TCTATACTTG
*
64982188 AACCCCCATGTGAACCCCCATGCA
1 AACCCCCATGCGAACCCCCATGCA
* *
64982212 AAACCCCATGCGAACCCCCTTGTC-
1 AACCCCCATGCGAACCCCCATG-CA
* * * * *
64982236 AACCCCC-TACAAACTCTCATGCG
1 AACCCCCATGCGAACCCCCATGCA
* * * *
64982259 AACACCCTTGCAAACCCCCATGCG
1 AACCCCCATGCGAACCCCCATGCA
64982283 AACCC
1 AACCC
64982288 ATATAAACGA
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
22 1 0.02
23 15 0.25
24 42 0.71
25 1 0.02
ACGTcount: A:0.29, C:0.46, G:0.11, T:0.14
Consensus pattern (24 bp):
AACCCCCATGCGAACCCCCATGCA
Found at i:64990200 original size:16 final size:17
Alignment explanation
Indices: 64990173--64990207 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
64990163 TAGAATTGGG
*
64990173 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
64990190 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
64990206 TT
1 TT
64990208 TAATTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:64990219 original size:18 final size:18
Alignment explanation
Indices: 64990196--64990230 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64990186 TTAATTGAGA
*
64990196 AATTAATTAATTTAATTT
1 AATTAATTAAATTAATTT
64990214 AATTAATTAAATTAATT
1 AATTAATTAAATTAATT
64990231 GAATAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTAATTAAATTAATTT
Found at i:64998184 original size:69 final size:69
Alignment explanation
Indices: 64998068--64998204 Score: 184
Period size: 69 Copynumber: 2.0 Consensus size: 69
64998058 TGTCATCTGT
* * * * *
64998068 AAAATTAAGGTTCGCATGCGAAAAGCCGTGACCTCCAGTACAATTAGCGAGAGTAAAGCTCCCAG
1 AAAATTAAGGTTCGCAAGCGAAAAGCCGCGACCTCCAGCACAATTAGCGAGAGCAAAACTCCCAG
64998133 CTGA
66 CTGA
* * * * *
64998137 AAAATTAAGGTTCGCAAGTGAAGAGCTGCGACCTCCAGCACAGTTAGCGAGAGCAAAACTCTCAG
1 AAAATTAAGGTTCGCAAGCGAAAAGCCGCGACCTCCAGCACAATTAGCGAGAGCAAAACTCCCAG
64998202 CTG
66 CTG
64998205 TAAACTATGG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (69 bp):
AAAATTAAGGTTCGCAAGCGAAAAGCCGCGACCTCCAGCACAATTAGCGAGAGCAAAACTCCCAG
CTGA
Found at i:65000164 original size:434 final size:434
Alignment explanation
Indices: 64999356--65000186 Score: 1635
Period size: 434 Copynumber: 1.9 Consensus size: 434
64999346 TACCTAATTA
64999356 ATATAAACCAAATTATAACACGTACTACAAATCATAGTATACTTCATTTACAAATTCCATAATCA
1 ATATAAACCAAATTATAACACGTACTACAAATCATAGTATACTTCATTTACAAATTCCATAATCA
64999421 AGCCATACCATATATATAAACATTACAGTAAGGCCAAATTTATCACTTCACTCATCATGAGGTTA
66 AGCCATACCATATATATAAACATTACAGTAAGGCCAAATTTATCACTTCACTCATCATGAGGTTA
*
64999486 TGTGCATATATCCACAATATTTTGAGCAAACTTCAATCACTCATATTGAAACATATTATACCCTC
131 TGTGCATATATCCACAATATTTTGAGCAAACTTCAATCACTCATATTGAAACATATCATACCCTC
64999551 ACAAACCTATTCAAAGTAAACCAACCTTAAGTGATTACATTACTAGTTGATACATTTATTTTCAC
196 ACAAACCTATTCAAAGTAAACCAACCTTAAGTGATTACATTACTAGTTGATACATTTATTTTCAC
**
64999616 TATTGAATATCCGAATTTTTGTACACATTATATACTAACTCCCAAACTATTTCCAAGATAATTAT
261 TATTGAATATCCGAATTTTCATACACATTATATACTAACTCCCAAACTATTTCCAAGATAATTAT
64999681 ACTTCAAATTATTACACCAAATCATACATTTTTTATTACAATTTTATGCGCAAGAGACCATGCTA
326 ACTTCAAATTATTACACCAAATCATACATTTTTTATTACAATTTTATGCGCAAGAGACCATGCTA
64999746 TTTCGAACCATTTCGAATATATATAATACTTTAAGTACACCTAC
391 TTTCGAACCATTTCGAATATATATAATACTTTAAGTACACCTAC
64999790 ATATAAACCAAATTATAACACGTACTACAAATCATAGTATACTTCATTTACAAATTCCATAATCA
1 ATATAAACCAAATTATAACACGTACTACAAATCATAGTATACTTCATTTACAAATTCCATAATCA
64999855 AGCCATACCATATATATAAACATTACAGTAAGGCCAAATTTATCACTTCACTCATCATGAGGTTA
66 AGCCATACCATATATATAAACATTACAGTAAGGCCAAATTTATCACTTCACTCATCATGAGGTTA
64999920 TGTGCATATATCCACAATATTTTGAGCAAACTTCAATCACTCATATTGAAACATATCATACCCTC
131 TGTGCATATATCCACAATATTTTGAGCAAACTTCAATCACTCATATTGAAACATATCATACCCTC
64999985 ACAAACCTATTCAAAGTAAACCAACCTTAAGTGATTACATTACTAGTTGATACATTTATTTTCAC
196 ACAAACCTATTCAAAGTAAACCAACCTTAAGTGATTACATTACTAGTTGATACATTTATTTTCAC
65000050 TATTGAATATCCGAATTTTCATACACATTATATACTAACTCCCAAACTATTTCCAAGATAATTAT
261 TATTGAATATCCGAATTTTCATACACATTATATACTAACTCCCAAACTATTTCCAAGATAATTAT
65000115 ACTTCAAATTATTACACCAAATCATACATTTTTTATTACAATTTTATGCGCAAGAGACCATGCTA
326 ACTTCAAATTATTACACCAAATCATACATTTTTTATTACAATTTTATGCGCAAGAGACCATGCTA
65000180 TTTCGAA
391 TTTCGAA
65000187 TATATATAAT
Statistics
Matches: 394, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
434 394 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.34
Consensus pattern (434 bp):
ATATAAACCAAATTATAACACGTACTACAAATCATAGTATACTTCATTTACAAATTCCATAATCA
AGCCATACCATATATATAAACATTACAGTAAGGCCAAATTTATCACTTCACTCATCATGAGGTTA
TGTGCATATATCCACAATATTTTGAGCAAACTTCAATCACTCATATTGAAACATATCATACCCTC
ACAAACCTATTCAAAGTAAACCAACCTTAAGTGATTACATTACTAGTTGATACATTTATTTTCAC
TATTGAATATCCGAATTTTCATACACATTATATACTAACTCCCAAACTATTTCCAAGATAATTAT
ACTTCAAATTATTACACCAAATCATACATTTTTTATTACAATTTTATGCGCAAGAGACCATGCTA
TTTCGAACCATTTCGAATATATATAATACTTTAAGTACACCTAC
Found at i:65001165 original size:43 final size:42
Alignment explanation
Indices: 65001087--65001204 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
65001077 AGCTCGTACA
* * *
65001087 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGCAATCAAACAATG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCAAA-AACG
* *
65001130 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCATATACG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAAAACG
* * * *
65001172 ACGCCAATGTCCCAGAGATGGTCTTACACGTAA
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAA
65001205 ATCTCAAATC
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 33 0.52
43 30 0.47
44 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAAAACG
Found at i:65006700 original size:19 final size:20
Alignment explanation
Indices: 65006644--65006701 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 20
65006634 TGTTATAATT
65006644 TTTTTAAAATATAAATTTTAGAA
1 TTTTTAAAA-AT--ATTTTAGAA
*
65006667 TTTTTATAAATATTTTA-AA
1 TTTTTAAAAATATTTTAGAA
65006686 -TTTTAAAAATCATTTT
1 TTTTTAAAAAT-ATTTT
65006702 GAAAATTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 9 0.28
19 7 0.22
20 6 0.19
22 2 0.06
23 8 0.25
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTTTAAAAATATTTTAGAA
Found at i:65022392 original size:25 final size:25
Alignment explanation
Indices: 65022353--65022403 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
65022343 ATGATATAAT
*
65022353 ACTTATTATAATCTTTTAAATTATA
1 ACTTATCATAATCTTTTAAATTATA
*
65022378 ACTTATCATATTCTTTTAAATTATA
1 ACTTATCATAATCTTTTAAATTATA
65022403 A
1 A
65022404 TTTTATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (25 bp):
ACTTATCATAATCTTTTAAATTATA
Found at i:65024597 original size:30 final size:30
Alignment explanation
Indices: 65024561--65024621 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
65024551 CATATAAAAG
65024561 TAATACAAAAAATTAAATAAAAAACTTCTT
1 TAATACAAAAAATTAAATAAAAAACTTCTT
65024591 TAATACAAAAAATTAAATAAAAAACTTCTT
1 TAATACAAAAAATTAAATAAAAAACTTCTT
65024621 T
1 T
65024622 TTAGACAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (30 bp):
TAATACAAAAAATTAAATAAAAAACTTCTT
Found at i:65032603 original size:20 final size:19
Alignment explanation
Indices: 65032567--65032605 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
65032557 ATTAAAGGAG
* *
65032567 AAATTAAATTAATTTGATT
1 AAATTAAATCAAATTGATT
65032586 AAATTCAAATCAAATTGATT
1 AAATT-AAATCAAATTGATT
65032606 TGAATCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
AAATTAAATCAAATTGATT
Found at i:65035483 original size:20 final size:19
Alignment explanation
Indices: 65035458--65035507 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
65035448 TAATATATTT
65035458 TATTATTAAAATATTAAAAA
1 TATTATTAAAAT-TTAAAAA
* *
65035478 TATTATTTAAACTTTAAAAT
1 TATTA-TTAAAATTTAAAAA
65035498 TATTAATTAA
1 TATT-ATTAA
65035508 CGTTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTATTAAAATTTAAAAA
Found at i:65035513 original size:19 final size:20
Alignment explanation
Indices: 65035471--65035514 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
65035461 TATTAAAATA
* *
65035471 TTAAAAATATTATTTAAACT
1 TTAAAAATATTAATTAAACG
*
65035491 TTAAAATTATTAATT-AACG
1 TTAAAAATATTAATTAAACG
65035510 TTAAA
1 TTAAA
65035515 TTTTATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (20 bp):
TTAAAAATATTAATTAAACG
Found at i:65039112 original size:43 final size:43
Alignment explanation
Indices: 65038915--65039100 Score: 293
Period size: 43 Copynumber: 4.3 Consensus size: 43
65038905 CTTTTGTGAA
* *
65038915 AAACGCCGCTATAGAACAAGACCTTTAGC-GCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTCTTCCCAC
*
65038957 AAACGCCGCTAAAGATCAAGACCTTTAGCGGCGCTCTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTCTTCCCAC
* * *
65039000 AAACGCCACTAAAGAACAAGACATTTAGCGACGCTCTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTCTTCCCAC
* *
65039043 AAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTCTTCCCAC
65039086 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
65039101 TTATGACCTT
Statistics
Matches: 132, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
42 27 0.20
43 105 0.80
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.18
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTCTTCCCAC
Found at i:65039970 original size:19 final size:19
Alignment explanation
Indices: 65039946--65040056 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
65039936 AATCTTCAGG
65039946 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
65039965 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
65039984 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
65040003 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
65040022 GATCTATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
65040041 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
65040057 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:65039996 original size:38 final size:38
Alignment explanation
Indices: 65039953--65040056 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
65039943 AGGGATATGC
65039953 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
65039991 AATCTTAGATATGATATGCAATCTTAGATATGATCTAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
65040029 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
65040057 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:65040082 original size:22 final size:21
Alignment explanation
Indices: 65039959--65040082 Score: 93
Period size: 19 Copynumber: 6.2 Consensus size: 21
65039949 ATGCAATCTT
**
65039959 AGATATGATATGCAATCTT--
1 AGATATGATATATAATCTTAG
*
65039978 AGATATAATATATAATCTT--
1 AGATATGATATATAATCTTAG
**
65039997 AGATATGATATGCAATCTT--
1 AGATATGATATATAATCTTAG
*
65040016 AGATATGATCTATAATCTT--
1 AGATATGATATATAATCTTAG
**
65040035 AGATATGATATGCAATCTTAG
1 AGATATGATATATAATCTTAG
*
65040056 AAGATATGATTTTATAATCTTAG
1 -AGATATGA-TATATAATCTTAG
65040079 AGAT
1 AGAT
65040083 TTAATTTGTA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
19 64 0.74
22 12 0.14
23 10 0.12
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.39
Consensus pattern (21 bp):
AGATATGATATATAATCTTAG
Found at i:65042949 original size:24 final size:24
Alignment explanation
Indices: 65042922--65042967 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
65042912 AGAACAATCC
* *
65042922 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
65042946 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
65042968 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:65045220 original size:8 final size:8
Alignment explanation
Indices: 65045207--65045242 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
65045197 GGATGACAAA
65045207 AAAAAAAC
1 AAAAAAAC
65045215 AAAAAAAC
1 AAAAAAAC
65045223 -AAAAAAC
1 AAAAAAAC
65045230 AAAAAAAAC
1 -AAAAAAAC
65045239 AAAA
1 AAAA
65045243 TCTACCAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.27
8 12 0.46
9 7 0.27
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:65045220 original size:9 final size:9
Alignment explanation
Indices: 65045206--65045242 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
65045196 GGGATGACAA
65045206 AAAAAAAAC
1 AAAAAAAAC
65045215 -AAAAAAAC
1 AAAAAAAAC
65045223 --AAAAAAC
1 AAAAAAAAC
65045230 AAAAAAAAC
1 AAAAAAAAC
65045239 AAAA
1 AAAA
65045243 TCTACCAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.27
8 8 0.31
9 11 0.42
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:65045226 original size:15 final size:16
Alignment explanation
Indices: 65045204--65045242 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
65045194 AGGGGATGAC
65045204 AAAA-AAAAAAC-AAA
1 AAAACAAAAAACAAAA
65045218 AAAACAAAAAACAAAA
1 AAAACAAAAAACAAAA
65045234 AAAACAAAA
1 AAAACAAAA
65045243 TCTACCAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 4 0.17
15 7 0.30
16 12 0.52
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAACAAAAAACAAAA
Found at i:65047100 original size:132 final size:132
Alignment explanation
Indices: 65046924--65047686 Score: 1188
Period size: 132 Copynumber: 5.8 Consensus size: 132
65046914 TTGACAGCGA
*
65046924 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** * * * *
65046989 TCTACTTCCCTAAACAACAGTGGAATAGATTAAAAATTTCAGATCTTATCTACCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
65047054 GG
131 GG
* *
65047056 AGCAGATCGAAGATGTCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
65047121 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
*
65047186 GT
131 GG
65047188 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
65047253 TCTACTTCCCTGGACAACAGTGGAATAAATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
65047318 GG
131 GG
* *
65047320 AGCAGATCGAAGATGGCGGATTTTACCTCCATGTGGTTACAGTGGAGTACATTAAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
65047385 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTTTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
*
65047450 AG
131 GG
*
65047452 AGCAGATCGAAGATGACGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * ** * * *
65047517 TCTACTTCCATGAACAATAGTGGAATAGATTTCAGATTTCAGATCTTCTCTCCTTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
65047582 GG
131 GG
* * * * *
65047584 AGCAGATTGAAGATAGCGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCTAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * * *
65047648 ACATA-TCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
65047687 GTAAGTCCTA
Statistics
Matches: 581, Mismatches: 48, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
131 2 0.00
132 579 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
GG
Found at i:65048083 original size:57 final size:55
Alignment explanation
Indices: 65048009--65048126 Score: 182
Period size: 57 Copynumber: 2.1 Consensus size: 55
65047999 AATCTTCAGG
* *
65048009 GATATGCAATCTTAGATATGATATGCAATCTTAGATATAATATATAATCTTAGATA
1 GATATGCAATCTTAGATATGATATACAATCTTAGATATAATATATAATATTAGA-A
* *
65048065 TGATATGCAATCTTAGATATGATATATAATCTTAGATATGATATATAATATTAGAA
1 -GATATGCAATCTTAGATATGATATACAATCTTAGATATAATATATAATATTAGAA
65048121 GATATG
1 GATATG
65048127 ATTTTATAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
55 6 0.11
56 1 0.02
57 50 0.88
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.38
Consensus pattern (55 bp):
GATATGCAATCTTAGATATGATATACAATCTTAGATATAATATATAATATTAGAA
Found at i:65048109 original size:19 final size:19
Alignment explanation
Indices: 65048016--65048142 Score: 155
Period size: 19 Copynumber: 6.5 Consensus size: 19
65048006 AGGGATATGC
**
65048016 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATAT
*
65048035 AATCTTAGATATAATATAT
1 AATCTTAGATATGATATAT
**
65048054 AATCTTAGATATGATATGC
1 AATCTTAGATATGATATAT
65048073 AATCTTAGATATGATATAT
1 AATCTTAGATATGATATAT
65048092 AATCTTAGATATGATATAT
1 AATCTTAGATATGATATAT
* *
65048111 AATATTAGAAGATATGATTTTAT
1 AATCTT---AGATATGA-TATAT
65048134 AATCTTAGA
1 AATCTTAGA
65048143 GATTTAATTT
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
19 73 0.78
20 3 0.03
22 8 0.09
23 9 0.10
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (19 bp):
AATCTTAGATATGATATAT
Found at i:65048119 original size:38 final size:38
Alignment explanation
Indices: 65048016--65048108 Score: 177
Period size: 38 Copynumber: 2.4 Consensus size: 38
65048006 AGGGATATGC
*
65048016 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
65048054 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
65048092 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
65048109 ATAATATTAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATGATATAT
Found at i:65056374 original size:21 final size:18
Alignment explanation
Indices: 65056332--65056384 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 18
65056322 CAAAACACGC
*
65056332 AAAAAACTGAACTGAATA
1 AAAAAACTGAACCGAATA
65056350 AAAAAACTGAACCGAGCACTA
1 AAAAAACTGAACCGA--A-TA
*
65056371 AAAATACTGAACCG
1 AAAAAACTGAACCG
65056385 GGATGGGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 14 0.47
20 1 0.03
21 15 0.50
ACGTcount: A:0.55, C:0.19, G:0.13, T:0.13
Consensus pattern (18 bp):
AAAAAACTGAACCGAATA
Found at i:65056561 original size:13 final size:14
Alignment explanation
Indices: 65056530--65056736 Score: 73
Period size: 14 Copynumber: 14.4 Consensus size: 14
65056520 ACTAGTTAAT
* *
65056530 CTAAACCCTAAATC
1 CTAAACCATAAACC
*
65056544 ATAAACC-TAAACC
1 CTAAACCATAAACC
* **
65056557 TTAAAACGTTAAAACC
1 CT-AAACCATAA-ACC
65056573 CTAAAACCATAAACC
1 CT-AAACCATAAACC
* *
65056588 TTTAACACAT-AACC
1 CTAAAC-CATAAACC
*
65056602 TCTAAACCTTAAACC
1 -CTAAACCATAAACC
* * *
65056617 C-CAGCCTTTAAACC
1 CTAAACC-ATAAACC
*
65056631 ATAAACCATAAACC
1 CTAAACCATAAACC
* * *
65056645 ATAACCCCTAAACC
1 CTAAACCATAAACC
*
65056659 CATAATCCATAAACC
1 C-TAAACCATAAACC
* *
65056674 TTAAA--ATGGTAACAC
1 CTAAACCAT--AAAC-C
* *
65056689 CTAAACCTTAAACT
1 CTAAACCATAAACC
*
65056703 CTAAACCATATACC
1 CTAAACCATAAACC
* *
65056717 CTAAACCAAAAAAC
1 CTAAACCATAAACC
65056731 CTAAAC
1 CTAAAC
65056737 TATACTGATA
Statistics
Matches: 143, Mismatches: 36, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
12 2 0.01
13 9 0.06
14 79 0.55
15 40 0.28
16 12 0.08
17 1 0.01
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:65056635 original size:7 final size:7
Alignment explanation
Indices: 65056625--65056678 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
65056615 CCCCAGCCTT
65056625 TAAACCA
1 TAAACCA
65056632 TAAACCA
1 TAAACCA
65056639 TAAACCA
1 TAAACCA
* *
65056646 TAACCCC
1 TAAACCA
65056653 TAAACCCA
1 TAAA-CCA
*
65056661 TAATCCA
1 TAAACCA
*
65056668 TAAACCT
1 TAAACCA
65056675 TAAA
1 TAAA
65056679 ATGGTAACAC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 34 0.87
8 5 0.13
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCA
Found at i:65056985 original size:41 final size:41
Alignment explanation
Indices: 65056917--65057279 Score: 451
Period size: 41 Copynumber: 8.9 Consensus size: 41
65056907 TTTTATATCT
* *
65056917 CTGAGCATTAGCGGCG-TTTCCTAAAAAACGCCACTAAAGCC
1 CTGAGCATTAGCGGCGCTTT-CTCAAAAACGCCGCTAAAGCC
* * * *
65056958 CTGAGCATTAGCGGCGCTTCCCCAAAAACGCTGCTAAGGCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* *
65056999 CTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGTTAAAGCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* * *
65057040 CTGAACATTAGCGACGCTTTCCCAAAAACGCCG-TAAAGCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* *
65057080 CTGAGCATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* ** * *
65057121 CTAAGCATTAGCGATGCTTTCTCAAAAACACCGCTAAATCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
** * * *
65057162 CTGATTATTAGCGGCGCTTTATCAAAAACGCCTCTAAATCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* * *
65057203 CTGAGCATTAGCGGCGCTTTATCAAAAACGCCTCTAAATCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
* *
65057244 CTGAGCATTAGTGGCGCTTTCTCAAAAATGCCGCTA
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTA
65057280 GCGCCCCGAA
Statistics
Matches: 284, Mismatches: 36, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
40 37 0.13
41 245 0.86
42 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
Found at i:65057189 original size:163 final size:164
Alignment explanation
Indices: 65056917--65057279 Score: 460
Period size: 163 Copynumber: 2.2 Consensus size: 164
65056907 TTTTATATCT
* * * * *
65056917 CTGAGCATTAGCGGCGTTTCCTAAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTCCCCA
1 CTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGACGCTTCCCCA
* * * *
65056982 AAAACGCTGCTAAGGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGT-TAAAGCCCTGAAC
66 AAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTCATCAAAAACGCC-TCTAAAGCCCTGAAC
* *
65057046 ATTAGCGACGCTTTCCCAAAAACGCC-GTAAAGCC
130 ATTAGCGACGCTTTACCAAAAACGCCTCTAAAGCC
* * * *
65057080 CTGAGCATTAGCGACGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGATGCTTTCTCA
1 CTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGACGCTTCCCCA
* ** * * *
65057145 AAAACACCGCTAAATCCCTGATTATTAGCGGCGCTTTATCAAAAACGCCTCTAAATCCCTGAGCA
66 AAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTCATCAAAAACGCCTCTAAAGCCCTGAACA
* * *
65057210 TTAGCGGCGCTTTATCAAAAACGCCTCTAAATCC
131 TTAGCGACGCTTTACCAAAAACGCCTCTAAAGCC
* * *
65057244 CTGAGCATTAGTGGCGCTTTCTCAAAAATGCCGCTA
1 CTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTA
65057280 GCGCCCCGAA
Statistics
Matches: 170, Mismatches: 28, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
162 1 0.01
163 131 0.77
164 38 0.22
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (164 bp):
CTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGACGCTTCCCCA
AAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTCATCAAAAACGCCTCTAAAGCCCTGAACA
TTAGCGACGCTTTACCAAAAACGCCTCTAAAGCC
Found at i:65069570 original size:18 final size:19
Alignment explanation
Indices: 65069549--65069586 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
65069539 ATCAATATTT
65069549 TTAT-AAAAATATCGATAC
1 TTATAAAAAATATCGATAC
65069567 TTATGAAAAAATATCGATAC
1 TTAT-AAAAAATATCGATAC
65069587 CACTGGCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
20 14 0.78
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (19 bp):
TTATAAAAAATATCGATAC
Found at i:65071974 original size:29 final size:29
Alignment explanation
Indices: 65071942--65072131 Score: 142
Period size: 29 Copynumber: 6.7 Consensus size: 29
65071932 TTTTTCCGAG
* *
65071942 TTTTATAGTTCTGCCATTA-TTTTCTAGAA
1 TTTTATAGTTTTGCCACTAGTTTTCTAG-A
* *
65071971 TTTTATAGTTTTGCCCCTAGTTTTCTGGA
1 TTTTATAGTTTTGCCACTAGTTTTCTAGA
* * *
65072000 TTTTTTAGTTATGCCACTATTTTTCTAGA
1 TTTTATAGTTTTGCCACTAGTTTTCTAGA
* * * *
65072029 TTTTACAGTTTTGCCACT-GGTTTCCAAA
1 TTTTATAGTTTTGCCACTAGTTTTCTAGA
** * *
65072057 GTTTTCA-A-TTCAGCCACT-TTTTTTTAGA
1 -TTTT-ATAGTTTTGCCACTAGTTTTCTAGA
* *
65072085 TTTTACATTTTTGCCACTA-TTTT-TAAGA
1 TTTTATAGTTTTGCCACTAGTTTTCT-AGA
65072113 TTTTATAGTTTTGCCACTA
1 TTTTATAGTTTTGCCACTA
65072132 TTCTTCAAAA
Statistics
Matches: 127, Mismatches: 27, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.01
27 6 0.05
28 51 0.40
29 61 0.48
30 8 0.06
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (29 bp):
TTTTATAGTTTTGCCACTAGTTTTCTAGA
Found at i:65073166 original size:37 final size:36
Alignment explanation
Indices: 65073085--65073174 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 36
65073075 TTGAACCGTA
* *
65073085 TTGAATTGATTGATATACGAGACTGTTTGTTATCATG
1 TTGAATTGATTGATATACGAAACTGTTTGTCAT-ATG
* **
65073122 TTAAATTGATTGATATGTGAAACTGTTTGTCAT-TG
1 TTGAATTGATTGATATACGAAACTGTTTGTCATATG
65073157 TACTGAATTGATTGATAT
1 T--TGAATTGATTGATAT
65073175 TGTTTGATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
35 3 0.07
37 42 0.93
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (36 bp):
TTGAATTGATTGATATACGAAACTGTTTGTCATATG
Found at i:65074191 original size:20 final size:20
Alignment explanation
Indices: 65074166--65074227 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
65074156 ACAATTTTAA
* *
65074166 AATCAAGTGAAAATGATTTT
1 AATCAAGTCAAAATAATTTT
*
65074186 AATCAAGTCAAAATAATTTC
1 AATCAAGTCAAAATAATTTT
* * *
65074206 AATCAAATTAAAATTATTTT
1 AATCAAGTCAAAATAATTTT
65074226 AA
1 AA
65074228 GACATCAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (20 bp):
AATCAAGTCAAAATAATTTT
Found at i:65081260 original size:18 final size:21
Alignment explanation
Indices: 65081232--65081271 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
65081222 ATATATATGT
65081232 ATTATTTTAAAA-AT-AAAAA
1 ATTATTTTAAAATATGAAAAA
65081251 ATTA-TTTAAAATATGAAAAA
1 ATTATTTTAAAATATGAAAAA
65081271 A
1 A
65081272 AATAAGTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 6 0.32
20 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
ATTATTTTAAAATATGAAAAA
Found at i:65084472 original size:101 final size:102
Alignment explanation
Indices: 65084352--65084536 Score: 286
Period size: 101 Copynumber: 1.8 Consensus size: 102
65084342 AAAGTGATGG
**
65084352 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACTAGAAT-G--ATAGGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTA-TAGAATAGTAAT-GGTCAAATGTGTAG
65084414 TACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
64 TACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* * *
65084453 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTAATGGTCAAATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATAGAATAGTAATGGTCAAATGTGTAGTA
65084518 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
65084537 TGAACTGAAC
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 4 0.05
101 37 0.49
102 33 0.43
103 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTATAGAATAGTAATGGTCAAATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Done.