Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 62 of 211
Found at i:18886410 original size:38 final size:38
Alignment explanation
Indices: 18886367--18886443 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
18886357 TTTTTCACTT
18886367 AATTTTTAAAAGTTATATAATAATCATTAACGCTTTTG
1 AATTTTTAAAAGTTATATAATAATCATTAACGCTTTTG
*
18886405 AATTTTTAAAAGTTATGTAATAATCATTAACGCTTTTG
1 AATTTTTAAAAGTTATATAATAATCATTAACGCTTTTG
18886443 A
1 A
18886444 GTTATTATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (38 bp):
AATTTTTAAAAGTTATATAATAATCATTAACGCTTTTG
Found at i:18888405 original size:17 final size:16
Alignment explanation
Indices: 18888375--18888408 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
18888365 TCGTTATTTT
18888375 AACTATCTTCTTTTAA
1 AACTATCTTCTTTTAA
*
18888391 AACTAGTCTTTTTTTAA
1 AACTA-TCTTCTTTTAA
18888408 A
1 A
18888409 CCAAAATGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (16 bp):
AACTATCTTCTTTTAA
Found at i:18898382 original size:84 final size:83
Alignment explanation
Indices: 18898205--18898382 Score: 204
Period size: 84 Copynumber: 2.1 Consensus size: 83
18898195 ATACACATAC
* *
18898205 ATATATAAATATAGAAAAATATTCGTTAGAAAAAAAAATATACATACATGTACATATAATTTTTA
1 ATATAT-AATATAGAAAAATATTCGTTAGAAAAAAAAATATACATACATGTACATATAA-TATAA
* *
18898270 AAGAAAACATATATATATAC
64 AAGAAAACATATAAATATAA
*
18898290 ATATATAATATAGAAAAATATTCGTTAGAAGAAAAATAAATATACATACATGTATGTATATAA-A
1 ATATATAATATAGAAAAATATTCGTTAG-A-AAAAA-AAATATACATACATGTA--CATATAATA
18898354 TAAATAGAAAA-A-ATAAAT-TAA
61 TAAA-AGAAAACATATAAATATAA
18898375 ATA-ATAAT
1 ATATATAAT
18898383 TACATTATAT
Statistics
Matches: 82, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
84 27 0.33
85 12 0.15
86 10 0.12
87 21 0.26
88 6 0.07
89 6 0.07
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (83 bp):
ATATATAATATAGAAAAATATTCGTTAGAAAAAAAAATATACATACATGTACATATAATATAAAA
GAAAACATATAAATATAA
Found at i:18898452 original size:24 final size:24
Alignment explanation
Indices: 18898419--18898469 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
18898409 ATATATATGG
*
18898419 AAATAAATATATACATAAAAATAA
1 AAATAAATATATACATAAAAAGAA
* * *
18898443 AAATACATATATATATAGAAAGAA
1 AAATAAATATATACATAAAAAGAA
18898467 AAA
1 AAA
18898470 AAGAAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (24 bp):
AAATAAATATATACATAAAAAGAA
Found at i:18900328 original size:44 final size:46
Alignment explanation
Indices: 18900077--18900377 Score: 173
Period size: 44 Copynumber: 6.8 Consensus size: 46
18900067 TGCCATTTTG
* * * *
18900077 AGTCTGCCCCACTGTAACTTCAGGGGGATAAGACCT-AC-TTATTC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTCGCTTTATTC
* *
18900121 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-G-TGATT-TT-
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTCGCT--TTATTC
* * * * ** * *
18900165 AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATAGGC--TA--A
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CCT-CGCTTTATTC
* * * * *
18900209 AATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTCGCCATT-TTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTCG-CTTTATTC
* * * * *
18900254 GGTCTACCCCACTACAACTTCAGGGGGATAAGACCT-GC-TTATTC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTCGCTTTATTC
* * * * * *
18900298 AGTCTGTTCCACTGTAACTTTAGGGAGATAAG-GCTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTCGCTTTATTC
*
18900343 GGTCTGCTCCACTGCAACTTCAGGGAGATAAGACC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACC
18900378 CAATGTGATC
Statistics
Matches: 194, Mismatches: 44, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
41 1 0.01
42 2 0.01
43 4 0.02
44 119 0.61
45 63 0.32
46 4 0.02
47 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (46 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTCGCTTTATTC
Found at i:18900344 original size:89 final size:89
Alignment explanation
Indices: 18900059--18900377 Score: 254
Period size: 89 Copynumber: 3.6 Consensus size: 89
18900049 CCCACTGGAA
* * * * ** * *
18900059 ATAAGATTTGCCATTTTGAGTCTGCCCCACTGTAACTTCAGGGGGATAAGACCTACTTATTCAGT
1 ATAAGACTCGCCATTTTGGGTCTACCCCACTACAACTTCAGGGAGATAAGACCTGCTTATTCAGT
18900124 CTGCTCCACTGCAACTTCAGAGAG
66 CTGCTCCACTGCAACTTCAGAGAG
** ** ** * * * * **
18900148 ATAAGA-TCTGTGATTTT-AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATAGGC-TA--
1 ATAAGACTC-GCCATTTTGGGTCTACCCCACTACAACTTCAGGGAGATAAGA-CCT--GCTTATT
* *
18900208 AAATCTGCTCCACTGCAACTTCAGAGAG
62 CAGTCTGCTCCACTGCAACTTCAGAGAG
* *
18900236 ATAAGATTCGCCATTTTGGGTCTACCCCACTACAACTTCAGGGGGATAAGACCTGCTTATTCAGT
1 ATAAGACTCGCCATTTTGGGTCTACCCCACTACAACTTCAGGGAGATAAGACCTGCTTATTCAGT
* * * *
18900301 CTGTTCCACTGTAACTTTAGGGAG
66 CTGCTCCACTGCAACTTCAGAGAG
* * * * *
18900325 ATAAGGCTCG-CTTTCTTGGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACC
1 ATAAGACTCGCCATT-TTGGGTCTACCCCACTACAACTTCAGGGAGATAAGACC
18900378 CAATGTGATC
Statistics
Matches: 179, Mismatches: 41, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
86 2 0.01
87 2 0.01
88 69 0.39
89 103 0.58
90 2 0.01
91 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (89 bp):
ATAAGACTCGCCATTTTGGGTCTACCCCACTACAACTTCAGGGAGATAAGACCTGCTTATTCAGT
CTGCTCCACTGCAACTTCAGAGAG
Found at i:18900495 original size:44 final size:44
Alignment explanation
Indices: 18900447--18900544 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
18900437 ACTGTAACTT
* * *
18900447 CAGGGAGATAAGA-TTCGCCATCTTCAACATATTCCACTGCTGAC
1 CAGGGAGATAAGACTT-ACAATCTTCAACATATTCCACTACTGAC
* * * *
18900491 CAGGGAGATAGGACTTATAATCTTCAACCTATTCCACTACTGTC
1 CAGGGAGATAAGACTTACAATCTTCAACATATTCCACTACTGAC
18900535 CAGGGAGATA
1 CAGGGAGATA
18900545 GGGCTGGGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
44 44 0.96
45 2 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (44 bp):
CAGGGAGATAAGACTTACAATCTTCAACATATTCCACTACTGAC
Found at i:18900666 original size:88 final size:88
Alignment explanation
Indices: 18900546--18901122 Score: 643
Period size: 88 Copynumber: 6.6 Consensus size: 88
18900536 AGGGAGATAG
* * * ** * * * * *
18900546 GGCTGGGGTCATCGATCTACTTTACTGTCGGTGCAGGAAGGCAAAATCTGTTATTTTTAACCTGT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGC
*** *
18900611 TTTGCTGCAACCCAGGGAGGTAA
66 TCCACTGCAACCCAGGGAGGCAA
* * *
18900634 GGCTGGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGC
* *
18900699 TCCGCTACAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * * *
18900722 GGCTGGTGTCTTCGATCTGCTTCACCGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGC
*
18900787 TCCGCTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * * * ***
18900810 GGCTGGTGTCATT-GATCTGTTTCGTTGTCGGTACAAGAAGGCAAGATCTGTTATCTTCAGTTTG
1 GGCTGGTGTC-TTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTG
*
18900874 CTCCACTGCAACCTAGGGAGGCAA
65 CTCCACTGCAACCCAGGGAGGCAA
* ** * * **
18900898 GACTGGTGTCTTCGATCTGCTTCGCTGTTAGTATAGGAAGGCAAGATCTGCTATCTTCAGTCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGC
* *
18900963 TCCACTGCAACCTAGGGAGGTAA
66 TCCACTGCAACCCAGGGAGGCAA
* * ** * * * *
18900986 GACTGGTGTCTTCGATCTGCTTCACTGTATGTACAAGAAGGCAAGATGTACTATTTTCAACTTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGC
* *
18901051 TCCACTACAACCGAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* *
18901074 GGCTGGTGTCTTTGATCTGCTTCGCTGGCGGTACAGGAAGGCAAGATCT
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCT
18901123 TTTATCTTCA
Statistics
Matches: 422, Mismatches: 65, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
87 2 0.00
88 418 0.99
89 2 0.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGC
TCCACTGCAACCCAGGGAGGCAA
Found at i:18900896 original size:44 final size:44
Alignment explanation
Indices: 18900848--18901012 Score: 140
Period size: 43 Copynumber: 3.8 Consensus size: 44
18900838 CGGTACAAGA
* *
18900848 AGGCAAGATCTGTTATCTTCAGTTTGCTCCACTGCAACCTAGGG
1 AGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGGG
* * * * * *** *
18900892 AGGCAAGA-CTGGTGTCTTC-GATCTGCTTCGCTGTTAGTATAGGA
1 AGGCAAGATCTGCTATCTTCAG-TCTGCTCCACTG-CAACCTAGGG
18900936 AGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGGG
1 AGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGGG
* * * *
18900980 AGGTAAGA-CTGGTGTCTTC-GATCTGCTTCACTG
1 AGGCAAGATCTGCTATCTTCAG-TCTGCTCCACTG
18901013 TATGTACAAG
Statistics
Matches: 93, Mismatches: 23, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
42 2 0.02
43 38 0.41
44 33 0.35
45 19 0.20
46 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGGG
Found at i:18900921 original size:264 final size:264
Alignment explanation
Indices: 18900615--18901132 Score: 712
Period size: 264 Copynumber: 2.0 Consensus size: 264
18900605 ACCTGTTTTG
* * * * *
18900615 CTGCAACCCAGGGAGGTAAGGCTGGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGGAAGGCAAGA
1 CTGCAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
* * * *
18900680 TCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC
66 TCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTC
* * * * * * *
18900745 ACCGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAA
131 ACCGTAGGTACAAGAAGGCAAGATCTACAATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAA
* * *
18900810 GGCTGGTGTCATTGATCTGTTTCGTTGTCGGTACAAGAAGGCAAGATCTGTTATCTTCAGTTTGC
196 GGCTGGTGTCATTGATCTGCTTCGCTGGCGGTACAAGAAGGCAAGATCTGTTATCTTCAGTTTGC
18900875 TCCA
261 TCCA
* * *
18900879 CTGCAACCTAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTTAGTATAGGAAGGCAAGA
1 CTGCAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
** * * *
18900944 TCTGCTATCTTCAGTCTGCTCCACTGCAACCTAGGGAGGTAAGACTGGTGTCTTCGATCTGCTTC
66 TCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTC
* * * * * *
18901009 ACTGTATGTACAAGAAGGCAAGATGTACTATTTTCAACTTGCTCCACTACAACCGAGGGAGGCAA
131 ACCGTAGGTACAAGAAGGCAAGATCTACAATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAA
* * *
18901074 GGCTGGTGTCTTTGATCTGCTTCGCTGGCGGTACAGGAAGGCAAGATCTTTTATCTTCA
196 GGCTGGTGTCATTGATCTGCTTCGCTGGCGGTACAAGAAGGCAAGATCTGTTATCTTCA
18901133 ATGATCTGTT
Statistics
Matches: 218, Mismatches: 36, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
264 218 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (264 bp):
CTGCAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGA
TCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTC
ACCGTAGGTACAAGAAGGCAAGATCTACAATTTTCAACCTGCTCCACTACAACCCAGGGAGGCAA
GGCTGGTGTCATTGATCTGCTTCGCTGGCGGTACAAGAAGGCAAGATCTGTTATCTTCAGTTTGC
TCCA
Found at i:18901005 original size:43 final size:43
Alignment explanation
Indices: 18900872--18901012 Score: 149
Period size: 43 Copynumber: 3.2 Consensus size: 43
18900862 ATCTTCAGTT
18900872 TGCTCCACTGCAACCTAGGGAGGCAAGACTGGTGTCTTCGATC
1 TGCTCCACTGCAACCTAGGGAGGCAAGACTGGTGTCTTCGATC
* * * *** * * *
18900915 TGCTTCGCTGTTAGTATAGGAAGGCAAGATCTGCTATCTTC-AGTC
1 TGCTCCACTG-CAACCTAGGGAGGCAAGA-CTGGTGTCTTCGA-TC
*
18900960 TGCTCCACTGCAACCTAGGGAGGTAAGACTGGTGTCTTCGATC
1 TGCTCCACTGCAACCTAGGGAGGCAAGACTGGTGTCTTCGATC
*
18901003 TGCTTCACTG
1 TGCTCCACTG
18901013 TATGTACAAG
Statistics
Matches: 74, Mismatches: 20, Indels: 8
0.73 0.20 0.08
Matches are distributed among these distances:
43 28 0.38
44 27 0.36
45 19 0.26
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (43 bp):
TGCTCCACTGCAACCTAGGGAGGCAAGACTGGTGTCTTCGATC
Found at i:18903378 original size:26 final size:27
Alignment explanation
Indices: 18903326--18903387 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
18903316 AAGAAAATCC
* **
18903326 AAAAGAATGAAAGAATAATTATTTCAA
1 AAAAGAATGAAAAAATAATTAGCTCAA
*
18903353 AAAAGAATGAAAAAAT-ATTGGCTCAA
1 AAAAGAATGAAAAAATAATTAGCTCAA
*
18903379 AAATGAATG
1 AAAAGAATG
18903388 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.58, C:0.05, G:0.15, T:0.23
Consensus pattern (27 bp):
AAAAGAATGAAAAAATAATTAGCTCAA
Found at i:18907588 original size:89 final size:90
Alignment explanation
Indices: 18907436--18907604 Score: 288
Period size: 89 Copynumber: 1.9 Consensus size: 90
18907426 ATTTAATCAA
*
18907436 TAAAAAAACATATATATATACATACATATATAAATATAGAAAAATATTCGTTTGAAAAAAAATAA
1 TAAAAAAACATATATATATA-ATACATATATAAATATAGAAAAATATTCGTTAGAAAAAAAATAA
18907501 ATATACATACATGTACATATAATTTT
65 ATATACATACATGTACATATAATTTT
*
18907527 TAAAGAAAACATATATATAT-ATACATATAT-AATATAGAAAAATATTCGTTAGAAGAAAAATAA
1 TAAA-AAAACATATATATATAATACATATATAAATATAGAAAAATATTCGTTAGAAAAAAAATAA
18907590 ATATACATACATGTA
65 ATATACATACATGTA
18907605 TGTATATAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
89 46 0.61
90 10 0.13
91 4 0.05
92 15 0.20
ACGTcount: A:0.56, C:0.07, G:0.06, T:0.31
Consensus pattern (90 bp):
TAAAAAAACATATATATATAATACATATATAAATATAGAAAAATATTCGTTAGAAAAAAAATAAA
TATACATACATGTACATATAATTTT
Found at i:18909957 original size:40 final size:40
Alignment explanation
Indices: 18909840--18909958 Score: 116
Period size: 40 Copynumber: 3.0 Consensus size: 40
18909830 CCTTAATATC
* * ** *
18909840 AGGCTTTGTGCGAGTGTTATTTATCAAGCTTTGAT-CCAAGCA
1 AGGCTTTGGGCCAGTG-TATTTATCGGGCTTTG-TGCCTAG-A
* * *
18909882 A-GCTTTGTGCCGGTGTATTTATTGGGCTTTGTGCCTAGA
1 AGGCTTTGGGCCAGTGTATTTATCGGGCTTTGTGCCTAGA
*
18909921 AGGCTTTGGGCCAGTGTGTTTATCGGGCTTTGTGCCTA
1 AGGCTTTGGGCCAGTGTATTTATCGGGCTTTGTGCCTA
18909959 ACGGGCCTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
39 3 0.05
40 49 0.75
41 12 0.18
42 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.29, T:0.38
Consensus pattern (40 bp):
AGGCTTTGGGCCAGTGTATTTATCGGGCTTTGTGCCTAGA
Found at i:18910184 original size:104 final size:102
Alignment explanation
Indices: 18910020--18910208 Score: 267
Period size: 104 Copynumber: 1.8 Consensus size: 102
18910010 TAGGTACTAT
* *
18910020 GTACAGGTGATACAGACCGTAGCGATGGCTGAGATCCTTCAATTGTTGCAGATTCTCTACAGCTT
1 GTACAGGTGATACAGACCGTAACGATGGCTGAGATCCTTCAATTATTGCAGATTCTCTACAGCTT
18910085 GTGTAAGCAGCATCGTGAGCTAGTGATTATTTAGCAG
66 GTGTAAGCAGCATCGTGAGCTAGTGATTATTTAGCAG
*
18910122 GTACTAGGTGATACAGATCGTAACGATGGCTTGAGAT-CTTGC-ATCTATTGCAGATATC-CTAC
1 GTAC-AGGTGATACAGACCGTAACGATGGC-TGAGATCCTT-CAAT-TATTGCAGAT-TCTCTAC
* *
18910184 AGCTTGTGTGAGCAGCATTGTGAGC
61 AGCTTGTGTAAGCAGCATCGTGAGC
18910209 CGGTCAAAGT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
102 4 0.05
103 28 0.36
104 43 0.56
105 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (102 bp):
GTACAGGTGATACAGACCGTAACGATGGCTGAGATCCTTCAATTATTGCAGATTCTCTACAGCTT
GTGTAAGCAGCATCGTGAGCTAGTGATTATTTAGCAG
Found at i:18910377 original size:13 final size:13
Alignment explanation
Indices: 18910359--18910393 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
18910349 GAACTTTGTT
18910359 ATTTAATTTTATA
1 ATTTAATTTTATA
18910372 ATTTAATTTTATA
1 ATTTAATTTTATA
*
18910385 ATTTTATTT
1 ATTTAATTT
18910394 GTTATGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTAATTTTATA
Found at i:18913155 original size:25 final size:24
Alignment explanation
Indices: 18913118--18913165 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
18913108 TATTGTGAAA
18913118 ACTATAGAATCTGAAAGACTGTAAG
1 ACTATAGAATCTGAAA-ACTGTAAG
*
18913143 ACTATAGATTCTGAAAACTGTAA
1 ACTATAGAATCTGAAAACTGTAA
18913166 ATACTGATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (24 bp):
ACTATAGAATCTGAAAACTGTAAG
Found at i:18919032 original size:48 final size:48
Alignment explanation
Indices: 18918965--18919166 Score: 210
Period size: 48 Copynumber: 4.2 Consensus size: 48
18918955 ATGCGTACCG
*
18918965 ATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCG
1 ATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCA
* * * * *
18919013 ATATTCTGTTGTGACACAAGGGTGGCACGGACTGTGTGTAGCCCAACA
1 ATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCA
* * * * *
18919061 ATAA-CTTGTTAAGATACAAGGGTGGCACAGACTATGCGCAGGCCACCA
1 ATAATC-TGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCA
* * * * * *
18919109 AGAATCTGTTATTACACAA-GATGGTACGGACTGTGTGTATGCCACCA
1 ATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCA
*
18919156 AGAAATCTGTT
1 A-TAATCTGTT
18919167 TTTATTCCGA
Statistics
Matches: 123, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
47 23 0.19
48 99 0.80
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (48 bp):
ATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCA
Found at i:18927757 original size:21 final size:22
Alignment explanation
Indices: 18927716--18927757 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
18927706 TCAAGCTCTT
18927716 CAATGCAATGTTCTGAAAATAC
1 CAATGCAATGTTCTGAAAATAC
18927738 CAATGCAATGTTCT-AAAATA
1 CAATGCAATGTTCTGAAAATA
18927758 AAACTAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.29
Consensus pattern (22 bp):
CAATGCAATGTTCTGAAAATAC
Found at i:18958067 original size:47 final size:47
Alignment explanation
Indices: 18958010--18958313 Score: 425
Period size: 47 Copynumber: 6.4 Consensus size: 47
18958000 ATTGATGTAC
* * *
18958010 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
18958057 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
18958106 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
18958153 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
18958200 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
18958247 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
18958294 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
18958314 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 197 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:18958191 original size:22 final size:22
Alignment explanation
Indices: 18958164--18958285 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
18958154 CATGTGTATG
18958164 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
18958186 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
18958211 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
18958233 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
18958258 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
18958280 TGTGAT
1 TGTGAT
18958286 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:18961470 original size:16 final size:16
Alignment explanation
Indices: 18961449--18961485 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
18961439 GCTCTAATTA
*
18961449 TTTTATTATTCCGAAT
1 TTTTATTATTCCAAAT
*
18961465 TTTTATTATTCTAAAT
1 TTTTATTATTCCAAAT
18961481 TTTTA
1 TTTTA
18961486 ATAATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTATTATTCCAAAT
Found at i:18964137 original size:18 final size:19
Alignment explanation
Indices: 18964094--18964131 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
18964084 TAACATATAG
18964094 TTAAT-AATTTTAAAATTT
1 TTAATAAATTTTAAAATTT
18964112 TTAATAAATTTTAAAATTT
1 TTAATAAATTTTAAAATTT
18964131 T
1 T
18964132 ACTAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAATAAATTTTAAAATTT
Found at i:18970193 original size:38 final size:38
Alignment explanation
Indices: 18970142--18970218 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
18970132 TTTTTTTTAG
*
18970142 TTCCAGTTTCTCTATTCTGTCTAAATTTGATATTTAAT
1 TTCCAGTTTCTCTATTCTATCTAAATTTGATATTTAAT
18970180 TTCCAGTTTCTCTATTCTATCTAAATTTGATATTTAAT
1 TTCCAGTTTCTCTATTCTATCTAAATTTGATATTTAAT
18970218 T
1 T
18970219 CCTATACTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.25, C:0.16, G:0.06, T:0.53
Consensus pattern (38 bp):
TTCCAGTTTCTCTATTCTATCTAAATTTGATATTTAAT
Found at i:18971723 original size:32 final size:32
Alignment explanation
Indices: 18971682--18971744 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
18971672 CCCATAATAC
18971682 CTAGATCCTATCTAAAAATGCGTTACAAGTAT
1 CTAGATCCTATCTAAAAATGCGTTACAAGTAT
18971714 CTAGATCCTATCTAAAAATGCGTTACAAGTA
1 CTAGATCCTATCTAAAAATGCGTTACAAGTA
18971745 GACTTATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (32 bp):
CTAGATCCTATCTAAAAATGCGTTACAAGTAT
Found at i:18975893 original size:16 final size:16
Alignment explanation
Indices: 18975874--18975922 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
18975864 TTCGCTGTAT
* *
18975874 TGGATTAGAGGTGTAA
1 TGGAATAGAGGCGTAA
*
18975890 TGGAATAGAGACGTAA
1 TGGAATAGAGGCGTAA
18975906 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
18975922 T
1 T
18975923 AGCAAATCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.37, C:0.04, G:0.35, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:18975997 original size:44 final size:45
Alignment explanation
Indices: 18975904--18975998 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
18975894 ATAGAGACGT
*
18975904 AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
* * *
18975949 AATGGAATAGAGGCGTAATAG-TATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAATGG
18975993 AATGGA
1 AATGGA
18975999 GATGTAATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (45 bp):
AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
Found at i:18976176 original size:18 final size:17
Alignment explanation
Indices: 18976155--18976189 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18976145 TTATTATTAA
*
18976155 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18976173 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18976190 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18976399 original size:41 final size:41
Alignment explanation
Indices: 18976354--18976534 Score: 110
Period size: 41 Copynumber: 4.5 Consensus size: 41
18976344 AAATCATAAT
18976354 ATATAATACTATAAAATATAATTTAACATAATTATTATTAA
1 ATATAATACTATAAAATATAATTTAACATAATTATTATTAA
* * * * * *
18976395 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAAT-A
1 ATATAA--TACTATAAA-ATATAATTTAACATAATTATTATTAA
* *** * * *
18976438 TTA-AATA-T-TCTTATATGAATTT-TC-TAA-AATCA-TAA
1 ATATAATACTATAAAATAT-AATTTAACATAATTATTATTAA
*
18976473 TATATAATACTATGAAATATAATTTAACATAATTATTATTAA
1 -ATATAATACTATAAAATATAATTTAACATAATTATTATTAA
*
18976515 ATATAAT-TTAATAAAATATA
1 ATATAATACT-ATAAAATATA
18976535 TAATTTCAAT
Statistics
Matches: 100, Mismatches: 26, Indels: 28
0.65 0.17 0.18
Matches are distributed among these distances:
34 1 0.01
35 3 0.03
36 4 0.04
37 8 0.08
38 11 0.11
39 7 0.07
40 6 0.06
41 25 0.25
42 5 0.05
43 10 0.10
44 20 0.20
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (41 bp):
ATATAATACTATAAAATATAATTTAACATAATTATTATTAA
Found at i:18976558 original size:120 final size:120
Alignment explanation
Indices: 18976135--18976540 Score: 681
Period size: 120 Copynumber: 3.4 Consensus size: 120
18976125 TTAATCATAC
* *
18976135 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
* * * *
18976200 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
* * *
18976255 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
*
18976319 TAAATATTCTTATATGAGTTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
*
18976375 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
*
18976440 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATAA
66 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
18976495 TTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATAATTT
1 TTTAACATAATTATTATTAAATATAATTTAATTAAAATATATAATTT
18976541 CAATTACTTA
Statistics
Matches: 269, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
119 16 0.06
120 251 0.93
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
Found at i:18976982 original size:29 final size:30
Alignment explanation
Indices: 18976931--18976998 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 30
18976921 AATTTTCATG
18976931 TTATTGAATTTTACCACTAAAAT-TTAAATT
1 TTATT-AATTTTACCACTAAAATCTTAAATT
* *
18976961 TTATTAATTTTTGCCACT-AAATCTTATATT
1 TTATTAA-TTTTACCACTAAAATCTTAAATT
18976991 TTAGTTAA
1 TTA-TTAA
18976999 ACTCTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 6 0.18
30 23 0.70
31 4 0.12
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.50
Consensus pattern (30 bp):
TTATTAATTTTACCACTAAAATCTTAAATT
Found at i:18982753 original size:54 final size:54
Alignment explanation
Indices: 18982663--18982777 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 54
18982653 TTCAATCTGC
* * *
18982663 TCCACTGCAACTTTAGAAAGATAAGATCTGTCATAATTTGTTGCTTTAATCAGT
1 TCCACTGCAACTTCAGAAAGATAAGATCTATCATAATTTGTTGCATTAATCAGT
* * *
18982717 TTCACTGCAACTTCAGGAAGATAAGATCTATTATAATTTGTTGCATTAATCAGT
1 TCCACTGCAACTTCAGAAAGATAAGATCTATCATAATTTGTTGCATTAATCAGT
18982771 TCCACTG
1 TCCACTG
18982778 TAACGCCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (54 bp):
TCCACTGCAACTTCAGAAAGATAAGATCTATCATAATTTGTTGCATTAATCAGT
Found at i:18982795 original size:54 final size:54
Alignment explanation
Indices: 18982680--18982797 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
18982670 CAACTTTAGA
* * * **
18982680 AAGATAAGATCTGTCATAATTTGTTGCTTTAATCAGTTTCACTGCAACTTCAGG
1 AAGATAAGATCTATCATAATTTGTTGCATTAATCAGTTCCACTGCAACGCCAGG
* *
18982734 AAGATAAGATCTATTATAATTTGTTGCATTAATCAGTTCCACTGTAACGCCAGGG
1 AAGATAAGATCTATCATAATTTGTTGCATTAATCAGTTCCACTGCAACGCCA-GG
18982789 AA-ATAAGAT
1 AAGATAAGAT
18982798 TCACAGTCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 52 0.93
55 4 0.07
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (54 bp):
AAGATAAGATCTATCATAATTTGTTGCATTAATCAGTTCCACTGCAACGCCAGG
Found at i:18983201 original size:143 final size:143
Alignment explanation
Indices: 18982853--18983201 Score: 459
Period size: 143 Copynumber: 2.4 Consensus size: 143
18982843 TGGTGGCTTC
** * * *
18982853 AATTTGTAGCTTTAATCTGTTCTGCTACAACGCTAGGGAAATAAGATTCACTGTCTTCAATCTGC
1 AATTTGTAGCTTTAATCTGTTCCACTACAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTAC
* * *
18982918 TTCGCGGCAACTTCAAGGAGATAAGGCTAGTGGCTTCAATATGCTCCATTGCAACTTCAAGAAGA
66 TCCACGGCAACTTCAAGGAGATAAGGCTAGTGGCTTCAATATGCTCCACTGCAACTTCAAGAAGA
18982983 TAAGATTAGCCAT
131 TAAGATTAGCCAT
* ** *
18982996 AATTTGTAGCTTTAATCTGTTCCACTACAATGGAAGGGAAATAAGATTCGCTATCTTCAGTCTAC
1 AATTTGTAGCTTTAATCTGTTCCACTACAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTAC
* * * * *
18983061 TCCACTGCAACTT-TAGGTAGATAAGGTTGGTGGCTTCAATCTGCTCCACTGCAACTTC-AGAAA
66 TCCACGGCAACTTCAAGG-AGATAAGGCTAGTGGCTTCAATATGCTCCACTGCAACTTCAAG-AA
*
18983124 GATAAGATTCGCCAT
129 GATAAGATTAGCCAT
* * * * *
18983139 AATTTGTAGCTTTAATCTATTCCACTGCAACGCTAGGGAAATAAGATTTGCCGTCTTTAGTCT
1 AATTTGTAGCTTTAATCTGTTCCACTACAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCT
18983202 GTTTCGCTAG
Statistics
Matches: 177, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
142 5 0.03
143 172 0.97
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (143 bp):
AATTTGTAGCTTTAATCTGTTCCACTACAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTAC
TCCACGGCAACTTCAAGGAGATAAGGCTAGTGGCTTCAATATGCTCCACTGCAACTTCAAGAAGA
TAAGATTAGCCAT
Found at i:18988994 original size:7 final size:7
Alignment explanation
Indices: 18988982--18989023 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
18988972 TTGTTAAAAC
18988982 ATTGAAA
1 ATTGAAA
18988989 ATTGAAA
1 ATTGAAA
18988996 ATTGAAA
1 ATTGAAA
18989003 ATTGAAA
1 ATTGAAA
18989010 ATTGAAA
1 ATTGAAA
18989017 ATTGAAA
1 ATTGAAA
18989024 TTTTTTTAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
ATTGAAA
Found at i:18990539 original size:16 final size:15
Alignment explanation
Indices: 18990507--18990547 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
18990497 GTAAATAATA
*
18990507 AAAAGAATAAA-CAG
1 AAAAGAAAAAACCAG
18990521 AAAACGAAAAAACCAG
1 AAAA-GAAAAAACCAG
18990537 AAAAGAAAAAA
1 AAAAGAAAAAA
18990548 GAGCAAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 13 0.54
16 7 0.29
ACGTcount: A:0.76, C:0.10, G:0.12, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAACCAG
Found at i:18998405 original size:48 final size:48
Alignment explanation
Indices: 18998344--18998458 Score: 158
Period size: 48 Copynumber: 2.4 Consensus size: 48
18998334 ACACCAGCTT
* *
18998344 GTGGACAAGCCACCACATAGATACCGATGAACGGTCACATAACACATC
1 GTGGATAAACCACCACATAGATACCGATGAACGGTCACATAACACATC
* * * * *
18998392 GTGGATAAACCACCACATAGATACTGATGAGCTGTCACATAGCATATC
1 GTGGATAAACCACCACATAGATACCGATGAACGGTCACATAACACATC
*
18998440 GTGCATAAACCACCACATA
1 GTGGATAAACCACCACATA
18998459 ATTGTCGGTA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.18
Consensus pattern (48 bp):
GTGGATAAACCACCACATAGATACCGATGAACGGTCACATAACACATC
Found at i:19009239 original size:17 final size:17
Alignment explanation
Indices: 19009217--19009250 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19009207 CACTAACATG
*
19009217 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
19009234 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
19009251 TATATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:19017704 original size:19 final size:19
Alignment explanation
Indices: 19017668--19017704 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19017658 ATTCAAACCC
*
19017668 CAAGATTAAACAATAAAAG
1 CAAGATTAAACAAGAAAAG
*
19017687 CAAGATTAAATAAGAAAA
1 CAAGATTAAACAAGAAAA
19017705 CATTTCACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.08, G:0.11, T:0.16
Consensus pattern (19 bp):
CAAGATTAAACAAGAAAAG
Found at i:19025420 original size:17 final size:17
Alignment explanation
Indices: 19025398--19025430 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19025388 GTACATGAGT
*
19025398 AAAATATTGTGTTTTTC
1 AAAATATTATGTTTTTC
19025415 AAAATATTATGTTTTT
1 AAAATATTATGTTTTT
19025431 TCTGCTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (17 bp):
AAAATATTATGTTTTTC
Found at i:19026122 original size:17 final size:17
Alignment explanation
Indices: 19026082--19026142 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
19026072 CCCTTACCTT
*
19026082 TGTATGCAAACCTTTATA
1 TGTATGCAAACC-CTATA
** *
19026100 CATATGTAAACCCTATA
1 TGTATGCAAACCCTATA
*
19026117 TGTATGCGAACCCTATA
1 TGTATGCAAACCCTATA
*
19026134 TGCATGCAA
1 TGTATGCAA
19026143 GCCTAAGAGT
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
17 24 0.73
18 9 0.27
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (17 bp):
TGTATGCAAACCCTATA
Found at i:19026615 original size:23 final size:23
Alignment explanation
Indices: 19026583--19026688 Score: 97
Period size: 23 Copynumber: 4.6 Consensus size: 23
19026573 CTTTAAAACG
* *
19026583 TACGCTACAAAGGCTATACAGAA
1 TACGCCACAAAGGCTATATAGAA
* * *
19026606 TATGCCACAAAGGCTTTATAGAT
1 TACGCCACAAAGGCTATATAGAA
** *
19026629 TAAACCACAAAGGCTTTATAGAA
1 TACGCCACAAAGGCTATATAGAA
* * *
19026652 TACGCTATACAGGCT-TCATAGAA
1 TACGCCACAAAGGCTAT-ATAGAA
19026675 TACGCCACAAAGGC
1 TACGCCACAAAGGC
19026689 ATTACAGAGA
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
22 1 0.02
23 65 0.98
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (23 bp):
TACGCCACAAAGGCTATATAGAA
Found at i:19026666 original size:46 final size:46
Alignment explanation
Indices: 19026589--19026696 Score: 110
Period size: 46 Copynumber: 2.3 Consensus size: 46
19026579 AACGTACGCT
* * *
19026589 ACAAAGGCTATACAGAATATGCCACAAAGGCTTTATAGATTAAACC
1 ACAAAGGCTATACAGAATACGCCACAAAGGCTTCATAGAATAAACC
* * * * * **
19026635 ACAAAGGCTTTATAGAATACGCTATACAGGCTTCATAGAATACGCC
1 ACAAAGGCTATACAGAATACGCCACAAAGGCTTCATAGAATAAACC
19026681 ACAAAGGC-ATTACAGA
1 ACAAAGGCTA-TACAGA
19026697 GAATTACATG
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (46 bp):
ACAAAGGCTATACAGAATACGCCACAAAGGCTTCATAGAATAAACC
Found at i:19037083 original size:50 final size:50
Alignment explanation
Indices: 19037029--19037150 Score: 147
Period size: 50 Copynumber: 2.4 Consensus size: 50
19037019 CCCAAATATT
** * *
19037029 GTCTTAAATGGGAGATCTCATATCGGTGCCCATGCAATGTCCCAGACATG
1 GTCTTAAATGGGACCTCTCATATCGGTGCCAACGCAATGTCCCAGACATG
* * * *
19037079 GTCTTACGA-GGGACCTCTCATCTCGGTGCCAACGCCATGTTCCAGACATG
1 GTCTTA-AATGGGACCTCTCATATCGGTGCCAACGCAATGTCCCAGACATG
*
19037129 GTCTTACATGGGACCTCTCATA
1 GTCTTAAATGGGACCTCTCATA
19037151 ACCTCAAAAC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 1 0.02
50 58 0.97
51 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (50 bp):
GTCTTAAATGGGACCTCTCATATCGGTGCCAACGCAATGTCCCAGACATG
Found at i:19041472 original size:21 final size:19
Alignment explanation
Indices: 19041449--19041498 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
19041439 TCGATAGAAT
19041449 TTTTATCATAAAATAATTAA
1 TTTTAT-ATAAAATAATTAA
19041469 TTTT-TATAAAATAATTAAA
1 TTTTATATAAAATAATT-AA
19041488 TTTTAT-TAAAA
1 TTTTATATAAAA
19041499 ATTTGAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 11 0.39
19 12 0.43
20 5 0.18
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTATATAAAATAATTAA
Found at i:19041491 original size:19 final size:18
Alignment explanation
Indices: 19041456--19041498 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
19041446 AATTTTTATC
19041456 ATAAAATAATTAATTTTT
1 ATAAAATAATTAATTTTT
*
19041474 ATAAAATAATTAAATTTT
1 ATAAAATAATTAATTTTT
19041492 ATTAAAA
1 A-TAAAA
19041499 ATTTGAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAAATAATTAATTTTT
Found at i:19041557 original size:20 final size:21
Alignment explanation
Indices: 19041513--19041560 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
19041503 GAACATGTTA
19041513 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
19041535 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
19041555 ATTTTT
1 ATTTTT
19041561 GAGAGATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:19042133 original size:14 final size:14
Alignment explanation
Indices: 19042109--19042153 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
19042099 TCATCTCTCA
*
19042109 CTCACATCTCTTCT
1 CTCACAACTCTTCT
*
19042123 CTCACTACTCTTCT
1 CTCACAACTCTTCT
*
19042137 ATCACAACTCTTCT
1 CTCACAACTCTTCT
19042151 CTC
1 CTC
19042154 CTCTCTCACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.18, C:0.42, G:0.00, T:0.40
Consensus pattern (14 bp):
CTCACAACTCTTCT
Found at i:19052777 original size:20 final size:21
Alignment explanation
Indices: 19052733--19052781 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
19052723 GAACATGTTA
19052733 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
19052755 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
19052775 ATTTTTA
1 ATTTTTA
19052782 ATAGATTCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
22 15 0.60
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:19053342 original size:14 final size:14
Alignment explanation
Indices: 19053319--19053348 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19053309 CATCCCTCAT
*
19053319 TCACATCTCTTCTC
1 TCACAACTCTTCTC
19053333 TCACAACTCTTCTC
1 TCACAACTCTTCTC
19053347 TC
1 TC
19053349 CTCTCTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:19054671 original size:94 final size:93
Alignment explanation
Indices: 19054510--19054743 Score: 274
Period size: 94 Copynumber: 2.5 Consensus size: 93
19054500 GTCATTCCAG
* * * * *
19054510 TATGGTAGATTCAATCCAACCCACTGAAACTTCATGGGTA-GAGAATTAGTAGCTTCAATCTGCT
1 TATGGTAGATTTAATCCAACCCACT-AAACTTGAAGGGTATAAG-ATTAGTAACTTCAATCTGCT
* *
19054574 CCACTGTAACTTTC-GGGAGGTAAGATTCAC
64 CCACTGCAAC-TTCAGGGAGATAAGATTCAC
* * *
19054604 TATGGTAGATTTAATCCGACCCACTATAACTTGAAGGGTATAAGATTTGTAACTTCAATGTGCTC
1 TATGGTAGATTTAATCCAACCCACTA-AACTTGAAGGGTATAAGATTAGTAACTTCAATCTGCTC
*
19054669 CACTGCAACTTCAGGGAGATAAGATTCGC
65 CACTGCAACTTCAGGGAGATAAGATTCAC
* * * *
19054698 TATGGTAGATTTAATCCAACCCATTGCAACTTGAAGGCTCTAAGAT
1 TATGGTAGATTTAATCCAACCCACT-AAACTTGAAGGGTATAAGAT
19054744 CTATGGTTTC
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
93 4 0.03
94 114 0.95
95 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (93 bp):
TATGGTAGATTTAATCCAACCCACTAAACTTGAAGGGTATAAGATTAGTAACTTCAATCTGCTCC
ACTGCAACTTCAGGGAGATAAGATTCAC
Found at i:19055189 original size:14 final size:14
Alignment explanation
Indices: 19055170--19055196 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19055160 ATGCTCCAGT
19055170 TGAACTGAACCGAG
1 TGAACTGAACCGAG
19055184 TGAACTGAACCGA
1 TGAACTGAACCGA
19055197 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:19062896 original size:25 final size:25
Alignment explanation
Indices: 19062836--19062896 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
19062826 CTCCTAAATT
*
19062836 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
19062861 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
19062886 TTAATTAAATT
1 TTAATTAAATT
19062897 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:19068724 original size:7 final size:7
Alignment explanation
Indices: 19068708--19068751 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
19068698 GGCAACCCAA
19068708 TTTTTA-
1 TTTTTAT
19068714 TTTTTAT
1 TTTTTAT
19068721 TTTTTA-
1 TTTTTAT
19068727 TTTTTAT
1 TTTTTAT
19068734 TTATTTAT
1 TT-TTTAT
*
19068742 TTATTAT
1 TTTTTAT
19068749 TTT
1 TTT
19068752 ATTTTCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
6 12 0.36
7 14 0.42
8 7 0.21
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:19068726 original size:13 final size:13
Alignment explanation
Indices: 19068708--19068751 Score: 70
Period size: 13 Copynumber: 3.2 Consensus size: 13
19068698 GGCAACCCAA
19068708 TTTTTATTTTTAT
1 TTTTTATTTTTAT
19068721 TTTTTATTTTTAT
1 TTTTTATTTTTAT
19068734 TTATTTATTTATTAT
1 TT-TTTATTT-TTAT
19068749 TTT
1 TTT
19068752 ATTTTCTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 15 0.52
14 8 0.28
15 6 0.21
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:19070721 original size:15 final size:14
Alignment explanation
Indices: 19070696--19070729 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
19070686 GACTCTATTT
*
19070696 TAATTATATTAGGA
1 TAATTATATTAAGA
19070710 TAATTAATATTAAGA
1 TAATT-ATATTAAGA
19070725 TAATT
1 TAATT
19070730 TTAAGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (14 bp):
TAATTATATTAAGA
Found at i:19077785 original size:94 final size:93
Alignment explanation
Indices: 19077656--19078011 Score: 368
Period size: 94 Copynumber: 3.8 Consensus size: 93
19077646 GCTTCATTTT
* * * *
19077656 AACCCATTGCAACTTCA-GGGTTATAGTAATTATAGCTTC-ATCTTGCTCCACTACAACTTCAGA
1 AACCCACTGCAACTTCAGGGGTAATAG-ATTTATAGCTTCAATCTTGCTCCACTACAACTTCAGG
* * *
19077719 GAGATAAGATTCATTATGTTAAATTAGATCT
65 GAGATAAGATTCACTATG-TAGATTA-ATCC
* *
19077750 GACCCACTGCGACTTCAGGGGTAATAGATTTATAGCTTC-ATCTTGCTCCACTACAACTTCAGGG
1 AACCCACTGCAACTTCAGGGGTAATAGATTTATAGCTTCAATCTTGCTCCACTACAACTTCAGGG
**
19077814 AGATAAGATTTGCTATGGTAGATTCAATCC
66 AGATAAGATTCACTAT-GTAGATT-AATCC
** * *
19077844 AACCCACTAAAACTTCAGGGGT-ATAGGATTTGTAGCTTCAAT-TTGCTCCACTGCAACTTCAGG
1 AACCCACTGCAACTTCAGGGGTAATA-GATTTATAGCTTCAATCTTGCTCCACTACAACTTCAGG
*
19077907 GAGGTAAGATTCACTATAGTAGATTAAATCC
65 GAGATAAGATTCACTAT-GTAGATT-AATCC
* * * * * *
19077938 AACCCACTGCAACTTGAAGGGTACA-GGA-TTAGTAGCTTCAATC-TGCTCCCCTGCAACTTTAG
1 AACCCACTGCAACTTCAGGGGTA-ATAGATTTA-TAGCTTCAATCTTGCTCCACTACAACTTCAG
19078000 GGAGATAAGATT
64 GGAGATAAGATT
19078012 TGCTATGGTA
Statistics
Matches: 222, Mismatches: 31, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
93 5 0.02
94 204 0.92
95 12 0.05
96 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (93 bp):
AACCCACTGCAACTTCAGGGGTAATAGATTTATAGCTTCAATCTTGCTCCACTACAACTTCAGGG
AGATAAGATTCACTATGTAGATTAATCC
Found at i:19077823 original size:44 final size:44
Alignment explanation
Indices: 19077685--19077917 Score: 111
Period size: 44 Copynumber: 5.0 Consensus size: 44
19077675 GTTATAGTAA
*
19077685 TTATAGCTTCATCTTGCTCCACTACAACTTCAGAGAGATAAGAT
1 TTATAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGAT
* * * * *
19077729 TCATTATG-TTAAAT-TAGATCTGACCCACTGCGACTTCAGGG-G-TAATAGAT
1 TTA-TA-GCTT-CATCTTG--CT---CCACTACAACTTCAGGGAGAT-A-AGAT
19077779 TTATAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGATT
1 TTATAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGA-T
* *** * *
19077824 TGCTATGGTAGATTCAATCCAAC-CCACTAAAACTTCAGGG-GTATAGGAT
1 T--TA---TAGCTTC-ATCTTGCTCCACTACAACTTCAGGGAG-ATAAGAT
* * *
19077873 TTGTAGCTTCAAT-TTGCTCCACTGCAACTTCAGGGAGGTAAGAT
1 TTATAGCTTC-ATCTTGCTCCACTACAACTTCAGGGAGATAAGAT
19077917 T
1 T
19077918 CACTATAGTA
Statistics
Matches: 139, Mismatches: 26, Indels: 48
0.65 0.12 0.23
Matches are distributed among these distances:
43 1 0.01
44 50 0.36
45 11 0.08
46 4 0.03
47 7 0.05
48 4 0.03
49 11 0.08
50 47 0.34
51 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
TTATAGCTTCATCTTGCTCCACTACAACTTCAGGGAGATAAGAT
Found at i:19077945 original size:188 final size:188
Alignment explanation
Indices: 19077666--19078022 Score: 463
Period size: 188 Copynumber: 1.9 Consensus size: 188
19077656 AACCCATTGC
* *
19077666 AACTTCAGGGTTATAGTAATTATAGCTTCATCTTGCTCCACTACAACTTCAGAGAGATAAGATTC
1 AACTTCAGGGGTATAGGAATTATAGCTTCATCTTGCTCCACTACAACTTCAGAGAGATAAGATTC
* * ** * *
19077731 ATTATGTTAAATTAGATCTGACCCACTGCGACTTCAGGGGTA-ATAGATTTA-TAGCTTC-ATCT
66 ACTATGTTAAATTAAATCCAACCCACTGCAACTTCAAGGGTACA-AGA-TTAGTAGCTTCAATC-
19077793 TGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATGGTAGATTCAATCCAACCCACTAA
128 TGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATGGTAGATTCAATCCAACCCACTAA
* * * * *
19077854 AACTTCAGGGGTATAGGATTTGTAGCTTCAAT-TTGCTCCACTGCAACTTCAGGGAGGTAAGATT
1 AACTTCAGGGGTATAGGAATTATAGCTTC-ATCTTGCTCCACTACAACTTCAGAGAGATAAGATT
* * *
19077918 CACTATAG-TAGATTAAATCCAACCCACTGCAACTTGAAGGGTACAGGATTAGTAGCTTCAATCT
65 CACTAT-GTTAAATTAAATCCAACCCACTGCAACTTCAAGGGTACAAGATTAGTAGCTTCAATCT
* * *
19077982 GCTCCCCTGCAACTTTAGGGAGATAAGATTTGCTATGGTAG
129 GCTCCACTACAACTTCAGGGAGATAAGATTTGCTATGGTAG
19078023 GTTTAATTTG
Statistics
Matches: 145, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
187 3 0.02
188 135 0.93
189 7 0.05
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (188 bp):
AACTTCAGGGGTATAGGAATTATAGCTTCATCTTGCTCCACTACAACTTCAGAGAGATAAGATTC
ACTATGTTAAATTAAATCCAACCCACTGCAACTTCAAGGGTACAAGATTAGTAGCTTCAATCTGC
TCCACTACAACTTCAGGGAGATAAGATTTGCTATGGTAGATTCAATCCAACCCACTAA
Found at i:19088194 original size:22 final size:22
Alignment explanation
Indices: 19088164--19088208 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19088154 TGTTTCATTT
*
19088164 TTTTTGTTGTGTTTGCATTGCA
1 TTTTGGTTGTGTTTGCATTGCA
19088186 TTTTGGTTGTGTTTGCATTGCA
1 TTTTGGTTGTGTTTGCATTGCA
19088208 T
1 T
19088209 CCAATCACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.09, G:0.24, T:0.58
Consensus pattern (22 bp):
TTTTGGTTGTGTTTGCATTGCA
Found at i:19096433 original size:23 final size:23
Alignment explanation
Indices: 19096407--19096491 Score: 71
Period size: 23 Copynumber: 3.7 Consensus size: 23
19096397 AGATATCATC
*
19096407 AAATACGCCACATAGGCTTCACA
1 AAATACGCCACAAAGGCTTCACA
* ** *
19096430 AAATACACCACAAAACCTTTACA
1 AAATACGCCACAAAGGCTTCACA
* * * *
19096453 GAATATGCCACACAGGCTTCATA
1 AAATACGCCACAAAGGCTTCACA
* *
19096476 GAATACGCCAAAAAGG
1 AAATACGCCACAAAGG
19096492 TGTCACAGAG
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.16
Consensus pattern (23 bp):
AAATACGCCACAAAGGCTTCACA
Found at i:19102538 original size:31 final size:30
Alignment explanation
Indices: 19102500--19102599 Score: 103
Period size: 31 Copynumber: 3.3 Consensus size: 30
19102490 TGTTTTAATG
19102500 AATTTAATATTTATCTAGATAATATTTTATT
1 AATTTAATATTTATCT-GATAATATTTTATT
* * * * **
19102531 AATTTAATAATAATATGA-GATATTAAATTT
1 AATTTAATATTTATCTGATAATATTTTA-TT
*
19102561 AATTTAACATTTATCTTGATAATATTTTATT
1 AATTTAATATTTATC-TGATAATATTTTATT
19102592 AATTTAAT
1 AATTTAAT
19102600 GTTAATATGA
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
29 6 0.12
30 15 0.29
31 25 0.48
32 6 0.12
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (30 bp):
AATTTAATATTTATCTGATAATATTTTATT
Found at i:19105748 original size:22 final size:22
Alignment explanation
Indices: 19105723--19105765 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19105713 TAAAAGGATT
*
19105723 TAAATGAAGTGTTA-AGTGATAG
1 TAAATAAAGTG-TAGAGTGATAG
19105745 TAAATAAAGTGTAGAGTGATA
1 TAAATAAAGTGTAGAGTGATA
19105766 TAATAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (22 bp):
TAAATAAAGTGTAGAGTGATAG
Found at i:19106323 original size:25 final size:25
Alignment explanation
Indices: 19106285--19106343 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
19106275 CATTTATTTA
* *
19106285 AGTGTTATAGTGATGAAAGTGTTAC
1 AGTGATATAATGATGAAAGTGTTAC
19106310 AGTGATATAATGATGAAAGTGTTAC
1 AGTGATATAATGATGAAAGTGTTAC
*
19106335 AATGATATA
1 AGTGATATA
19106344 TGTGCTTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (25 bp):
AGTGATATAATGATGAAAGTGTTAC
Found at i:19107265 original size:17 final size:17
Alignment explanation
Indices: 19107228--19107267 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
19107218 TGAATTTTAT
*
19107228 TTTATATATTTTTAGATA
1 TTTA-ATATTTTTAGAAA
*
19107246 TTTAATATTTTTATAAA
1 TTTAATATTTTTAGAAA
19107263 TTTAA
1 TTTAA
19107268 AGTTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTAATATTTTTAGAAA
Found at i:19107309 original size:22 final size:21
Alignment explanation
Indices: 19107270--19107314 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
19107260 AAATTTAAAG
*
19107270 TTATATTTATCAAATAATTTAT
1 TTATATTTAACAAATAA-TTAT
**
19107292 TTATATTTAACACTTAATTAT
1 TTATATTTAACAAATAATTAT
19107313 TT
1 TT
19107315 TTTAAATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATATTTAACAAATAATTAT
Found at i:19112192 original size:23 final size:22
Alignment explanation
Indices: 19112149--19112192 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
19112139 TTCTAAGTCG
19112149 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
19112172 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
19112193 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:19112303 original size:45 final size:45
Alignment explanation
Indices: 19112237--19112330 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
19112227 AACAGATACT
* * *
19112237 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACAGAGCAACCACCTTACTAATCAATGATGTC
* *
19112282 CGGTGGAATCAGCACAGAGCAACTACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACAGAGCAACCACCTTACTAATCAATGATGTC
19112327 CGGT
1 CGGT
19112331 TCACATAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACAGAGCAACCACCTTACTAATCAATGATGTC
Found at i:19112396 original size:51 final size:50
Alignment explanation
Indices: 19112327--19112522 Score: 225
Period size: 51 Copynumber: 3.9 Consensus size: 50
19112317 CAATGATGTT
* * * *
19112327 CGGTTCACATAGTAGCCTGCACATAGTACTGCACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * *
19112378 CGAG-ACACGTAGTAGCCTGTACATAGTACTACACACGTGATCGAAACTATC
1 CG-GTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * *
19112429 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
*
19112479 CGGTACACGTAGTAGCTTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
19112523 CACTTTCACT
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 2 0.02
50 42 0.35
51 73 0.61
52 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:19112517 original size:101 final size:101
Alignment explanation
Indices: 19112327--19112518 Score: 289
Period size: 102 Copynumber: 1.9 Consensus size: 101
19112317 CAATGATGTT
* * *
19112327 CGGTTCACATAGTAGCCTGCACATAGTACTGCACATGTGACCATTACCATCCGAGACACGTAGTA
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGAGACACGTAGTA
*
19112392 GCCTGTACATAGTACTACACACGTGATCGAAACTATC
65 GCCTGCACATAGTACTACACACGTGATCGAAACTATC
*
19112429 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCG-GTACACGTAGT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGAG-ACACGTAGT
*
19112492 AGCTTGCACATAGTACTACACACGTGA
64 AGCCTGCACATAGTACTACACACGTGA
19112519 CCATCACTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
100 5 0.06
101 38 0.46
102 39 0.48
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (101 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGAGACACGTAGTAG
CCTGCACATAGTACTACACACGTGATCGAAACTATC
Found at i:19115851 original size:45 final size:45
Alignment explanation
Indices: 19115787--19115873 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
19115777 AACAGATACT
* * *
19115787 CGGTGGATTCAGCACATAGCGACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
19115832 CGGTGGAATCAGCATATAGCAACCACCTTACTAATCAATGAT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGAT
19115874 ATTCGGTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:19115962 original size:51 final size:50
Alignment explanation
Indices: 19115886--19116072 Score: 216
Period size: 51 Copynumber: 3.7 Consensus size: 50
19115876 TCGGTTCACA
*
19115886 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGAGACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCTGAGACACG
* * * * * * *
19115937 TAGTAGCCTGGACATAGTACTACACACGTGATCGAAACTATCTGATACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCTGAGACACG
* * * *
19115988 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCAT-TCCAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCT-GAG-ACACG
19116038 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
19116073 CACTTTCAAT
Statistics
Matches: 111, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 4 0.04
50 35 0.32
51 69 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCTGAGACACG
Found at i:19116063 original size:101 final size:101
Alignment explanation
Indices: 19115884--19116068 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 101
19115874 ATTCGGTTCA
* * *
19115884 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGAGACACGTAGTAGCCTGGA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCTCAGACACGTAGTAGCCTGCA
19115949 CATAGTACTACACACGTGATCGAAACTATCTGATACG
65 CATAGTACTACACACGTGATCGAAACTATCTGATACG
*
19115986 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCAT-TCCAGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCT-CAG-ACACGTAGTAGCCTGC
19116049 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
19116069 CCATCACTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
99 1 0.01
100 7 0.09
101 35 0.45
102 34 0.44
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCTCAGACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGATACG
Found at i:19120673 original size:12 final size:12
Alignment explanation
Indices: 19120656--19120680 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19120646 CCAATTTTCC
19120656 TATGGACATTCA
1 TATGGACATTCA
19120668 TATGGACATTCA
1 TATGGACATTCA
19120680 T
1 T
19120681 TAAAGAACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TATGGACATTCA
Found at i:19122394 original size:3 final size:3
Alignment explanation
Indices: 19122386--19122424 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
19122376 TATTTTCTCT
*
19122386 TTA TTA TTA TTA TTA TTA TTA TTA TTTA GTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
19122425 TTCATGTACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19125096 original size:24 final size:24
Alignment explanation
Indices: 19125069--19125114 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
19125059 AGAACAATCC
* *
19125069 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
19125093 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
19125115 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:19129956 original size:132 final size:132
Alignment explanation
Indices: 19129050--19129941 Score: 1412
Period size: 132 Copynumber: 6.8 Consensus size: 132
19129040 ACAGCGAAGT
* *
19129050 AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAATCCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* *
19129115 ACTTTCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
19129180 GC
131 GC
* * * *
19129182 AGATCGATGATGGCCGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCTAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* *
19129247 ACTTCCCTGGGCAACAGTGGAATAGATTTCAA-ATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
66 ACTTCCCTGGACAACAGTGGAATAGA-TTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
*
19129311 AGT
130 AGC
* *
19129314 AGATCGAATATGACGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
19129379 ACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
19129444 GC
131 GC
* * *
19129446 AGATCGAAGATGGCGGATTTTACCTCCCTCTGGTTATAGTGGAGTACACTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * * *
19129511 ACTTCTCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATTTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
19129576 GC
131 GC
* *
19129578 AGATCGAAGATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * *
19129643 ACTTTCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
19129708 GC
131 GC
* * *
19129710 AGATCGAAGATGGCGGATTTTACTTCCCTGTGGTTATAATGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * *
19129775 ACTTCCCTGGACAAAAGTGGAATAGATTGAACATTTCAGATCTTATCTCCGTAAGCAGTAGTGGA
66 ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
19129840 GC
131 GC
*
19129842 AGATCGAAGATGGCGGATTTTACTTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-TCA
1 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC-
* * *
19129906 TA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
65 TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
19129942 GTAAGTCCTA
Statistics
Matches: 701, Mismatches: 55, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
131 7 0.01
132 690 0.98
133 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (132 bp):
AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
ACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGA
GC
Found at i:19130291 original size:19 final size:19
Alignment explanation
Indices: 19130267--19130377 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
19130257 AATCTTCAGG
19130267 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19130286 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
19130305 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19130324 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
19130343 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19130362 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
19130378 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19130317 original size:38 final size:38
Alignment explanation
Indices: 19130274--19130377 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
19130264 AGGGATATGC
19130274 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
19130312 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
19130350 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
19130378 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:19131094 original size:19 final size:18
Alignment explanation
Indices: 19131054--19131096 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
19131044 TATACACATG
19131054 TTTAATTTATTTAATTAAT
1 TTTAATTTATTTAATT-AT
19131073 TTTAATATTATATTAATT-T
1 TTTAAT-TTAT-TTAATTAT
19131092 TTTAA
1 TTTAA
19131097 AACTTATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.55
20 4 0.18
21 6 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTAATTTATTTAATTAT
Found at i:19133496 original size:23 final size:22
Alignment explanation
Indices: 19133453--19133496 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
19133443 TTTTAAGTCG
19133453 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
19133476 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
19133497 TTAGTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:19133697 original size:51 final size:50
Alignment explanation
Indices: 19133642--19133826 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
19133632 GATTCACATG
* * *
19133642 GTAGCCTACACATAGTACTACACATGTGACCATTACGATCTGAG-ACACGTA
1 GTAGCCTGCACATAGTACTACACACGTGACCATTAC-ATCCG-GTACACGTA
* ** * *
19133693 GTAGCCTGCACATAGTACTACACACGTGATCAAAACTATCCGGTACGCATA
1 GTAGCCTGCACATAGTACTACACACGTGACCATTAC-ATCCGGTACACGTA
* * *
19133744 GTAGCCTGCACATAGTATTACACATGCGACC--TATCATTCCGGTACACGTA
1 GTAGCCTGCACATAGTACTACACACGTGACCATTA-CA-TCCGGTACACGTA
19133794 GTAGCCTGCACATAGTACTACACACGTGACCAT
1 GTAGCCTGCACATAGTACTACACACGTGACCAT
19133827 CACTTTCACT
Statistics
Matches: 110, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
49 2 0.02
50 41 0.37
51 67 0.61
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (50 bp):
GTAGCCTGCACATAGTACTACACACGTGACCATTACATCCGGTACACGTA
Found at i:19139532 original size:127 final size:127
Alignment explanation
Indices: 19139303--19139559 Score: 367
Period size: 127 Copynumber: 2.0 Consensus size: 127
19139293 AGAAGTAAAC
* * * *
19139303 TAGAGCAGGTGGTGATGTGATTTCCAGAGCTTGAATTGTTTGGAAAGTAGCTCGATTGGGTTGGA
1 TAGAGCAGGTGATGATGTGAGTTCCAGAACTTGAATAGTTTGGAAAGTAGCTCGATTGGGTTGGA
*
19139368 TCGTCTTGAAATGGTTCAACGGATGGAAACCTTGACCTATAATAGT-ATGAGCTAAAGAACCT
66 TCGTCTTGAAATGGTTCAACGGATGGAAACCTCGACCTATAATAGTAAT-AGCTAAAGAACCT
* *
19139430 TAGAGCAGGTGATGATGTGAGTTCTC-GAATTTGAATAGTTTGGGAAA-TAGCTCGATTGGGTTT
1 TAGAGCAGGTGATGATGTGAGTTC-CAGAACTTGAATAGTTT-GGAAAGTAGCTCGATTGGGTTG
* * * *
19139493 GATTGTCTTGAAATGGTTCTACGGATGGAAACCTCGACCTGTAGTAGTAATAGCTAAAGAACCT
64 GATCGTCTTGAAATGGTTCAACGGATGGAAACCTCGACCTATAATAGTAATAGCTAAAGAACCT
19139557 TAG
1 TAG
19139560 CTATATTAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
127 108 0.93
128 8 0.07
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (127 bp):
TAGAGCAGGTGATGATGTGAGTTCCAGAACTTGAATAGTTTGGAAAGTAGCTCGATTGGGTTGGA
TCGTCTTGAAATGGTTCAACGGATGGAAACCTCGACCTATAATAGTAATAGCTAAAGAACCT
Found at i:19141989 original size:40 final size:40
Alignment explanation
Indices: 19141813--19142035 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
19141803 TCCTCGTTCA
* * * * *
19141813 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19141852 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19141892 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
19141932 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
19141972 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
19142012 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19142036 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19149884 original size:40 final size:40
Alignment explanation
Indices: 19149708--19149930 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
19149698 TCCTCGTTCA
* * * * *
19149708 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19149747 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19149787 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
19149827 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
19149867 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
19149907 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19149931 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19155078 original size:18 final size:18
Alignment explanation
Indices: 19155034--19155099 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
19155024 TCTGTGTGGG
19155034 GCCC-ACGAGCCCATTAC
1 GCCCAACGAGCCCATTAC
*
19155051 GCCCACACGA-CCCATTTC
1 GCCCA-ACGAGCCCATTAC
*
19155069 AGCCCAACGAGGCCCATAAC
1 -GCCCAACGA-GCCCATTAC
19155089 GGCCCAA-GAGC
1 -GCCCAACGAGC
19155100 ATGAGAACTC
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 4 0.10
18 13 0.32
19 11 0.28
20 12 0.30
ACGTcount: A:0.27, C:0.44, G:0.20, T:0.09
Consensus pattern (18 bp):
GCCCAACGAGCCCATTAC
Found at i:19161877 original size:29 final size:27
Alignment explanation
Indices: 19161859--19161928 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
19161849 ATATTAAGTC
19161859 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
19161886 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
19161914 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
19161929 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:19161922 original size:28 final size:28
Alignment explanation
Indices: 19161859--19161956 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
19161849 ATATTAAGTC
*
19161859 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
19161886 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
19161914 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
19161943 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19161957 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:19169826 original size:27 final size:26
Alignment explanation
Indices: 19169809--19169878 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
19169799 ATATTAAGTC
19169809 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
19169836 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
19169864 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
19169879 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:19169872 original size:28 final size:28
Alignment explanation
Indices: 19169809--19169906 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
19169799 ATATTAAGTC
*
19169809 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
19169836 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
19169864 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
19169893 CGCACACTTAGTGC
1 CGCACACTTAGTGC
19169907 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:19174602 original size:18 final size:19
Alignment explanation
Indices: 19174579--19174615 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
19174569 ATTATCACAT
*
19174579 ATGTAACACATAAT-TATG
1 ATGTAAAACATAATCTATG
19174597 ATGTAAAACATAATCTATG
1 ATGTAAAACATAATCTATG
19174616 GAATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (19 bp):
ATGTAAAACATAATCTATG
Found at i:19175318 original size:28 final size:26
Alignment explanation
Indices: 19175287--19175356 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 26
19175277 TCTTGATTAA
* *
19175287 AAAATTATAAAAATACATAAATATTTTT
1 AAAATTATAAAAATAC--AAATATATAT
*
19175315 AAAATATATAATAAATTCAAATATATAT
1 AAAAT-TATAA-AAATACAAATATATAT
19175343 AGAAATTATAAAAA
1 A-AAATTATAAAAA
19175357 AGGGTTTATG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
27 3 0.08
28 19 0.53
29 9 0.25
30 5 0.14
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (26 bp):
AAAATTATAAAAATACAAATATATAT
Found at i:19182816 original size:25 final size:25
Alignment explanation
Indices: 19182788--19183117 Score: 174
Period size: 25 Copynumber: 13.3 Consensus size: 25
19182778 TTCACCATAT
* *
19182788 AGGCTTCCCAAATGACTCGCCACAA
1 AGGCTTCACAGATGACTCGCCACAA
* *
19182813 AGGCTTTACAGATGA-TCCACCACAA
1 AGGCTTCACAGATGACT-CGCCACAA
* *
19182838 AGG-TTC-CTAGATGTCTTGCCACAA
1 AGGCTTCAC-AGATGACTCGCCACAA
* * * * *
19182862 AGGCTTTACAAATTATTTGCCACAA
1 AGGCTTCACAGATGACTCGCCACAA
* * *
19182887 A-GCTTCCCAGATGACTTGTCACAA
1 AGGCTTCACAGATGACTCGCCACAA
* * * * *
19182911 AGGCTTTACAAACGA-TCCACCAAAA
1 AGGCTTCACAGATGACT-CGCCACAA
* * *
19182936 AGGCTTCCCAAATGACTCGCCATAA
1 AGGCTTCACAGATGACTCGCCACAA
* * * *
19182961 AGGCTTTACAAATTA-TCTACCACAA
1 AGGCTTCACAGATGACTC-GCCACAA
* * * *
19182986 AGGCTTTATAGATTA-TCCGCCATAA
1 AGGCTTCACAGATGACT-CGCCACAA
** *
19183011 AGGCTTCTGAGATGTCTTC-CCACAA
1 AGGCTTCACAGATGAC-TCGCCACAA
* *
19183036 AGGCTTTACAGATGATTCGCCACAA
1 AGGCTTCACAGATGACTCGCCACAA
* * *
19183061 AGGCATCGCAGATGACTCGTCACAA
1 AGGCTTCACAGATGACTCGCCACAA
* *
19183086 AGGCTTTACAGATGA-TCCGCCATAA
1 AGGCTTCACAGATGACT-CGCCACAA
19183111 AGGCTTC
1 AGGCTTC
19183118 CTAGATGTCA
Statistics
Matches: 228, Mismatches: 63, Indels: 28
0.71 0.20 0.09
Matches are distributed among these distances:
23 1 0.00
24 41 0.18
25 181 0.79
26 4 0.02
27 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (25 bp):
AGGCTTCACAGATGACTCGCCACAA
Found at i:19182859 original size:49 final size:49
Alignment explanation
Indices: 19182792--19182988 Score: 223
Period size: 49 Copynumber: 4.0 Consensus size: 49
19182782 CCATATAGGC
* * *
19182792 TTCCCAAATGACTCGCCACAAAGGCTTTACAGATGATCCACCACAAAGG
1 TTCCCAGATGACTTGCCACAAAGGCTTTACAAATGATCCACCACAAAGG
* * * *** *
19182841 TTCCTAGATGTCTTGCCACAAAGGCTTTACAAATTATTTGCCACAAAGC
1 TTCCCAGATGACTTGCCACAAAGGCTTTACAAATGATCCACCACAAAGG
* * *
19182890 TTCCCAGATGACTTGTCACAAAGGCTTTACAAACGATCCACCAAAAAGG
1 TTCCCAGATGACTTGCCACAAAGGCTTTACAAATGATCCACCACAAAGG
* * * * *
19182939 CTTCCCAAATGACTCGCCATAAAGGCTTTACAAATTATCTACCACAAAGG
1 -TTCCCAGATGACTTGCCACAAAGGCTTTACAAATGATCCACCACAAAGG
19182989 CTTTATAGAT
Statistics
Matches: 119, Mismatches: 28, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
49 78 0.66
50 41 0.34
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (49 bp):
TTCCCAGATGACTTGCCACAAAGGCTTTACAAATGATCCACCACAAAGG
Found at i:19183007 original size:50 final size:48
Alignment explanation
Indices: 19182953--19183142 Score: 152
Period size: 50 Copynumber: 3.8 Consensus size: 48
19182943 CCAAATGACT
* * *
19182953 CGCCATAAAGGCTTTACAAATTATCTACCACAAAGGCTTTATAGATTATC
1 CGCCATAAAGGCTTT-CAGATTATCT-CCACAAAGGCTTTACAGATGATC
* * *
19183003 CGCCATAAAGGCTTCTGAGA-TGTCTTCCCACAAAGGCTTTACAGATGATT
1 CGCCATAAAGGCTT-TCAGATTATC-T-CCACAAAGGCTTTACAGATGATC
* ** *
19183053 CGCCACAAAGGCATCGCAGATGA-CTCGTCACAAAGGCTTTACAGATGATC
1 CGCCATAAAGGC-TTTCAGATTATCTC--CACAAAGGCTTTACAGATGATC
* *
19183103 CGCCATAAAGGCTTCCTAGATGTCAT-ACCACAAAGGCTTT
1 CGCCATAAAGGCTTTC-AGAT-T-ATCTCCACAAAGGCTTT
19183143 TCAAATCAAT
Statistics
Matches: 111, Mismatches: 19, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
48 1 0.01
49 6 0.05
50 100 0.90
51 2 0.02
52 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (48 bp):
CGCCATAAAGGCTTTCAGATTATCTCCACAAAGGCTTTACAGATGATC
Found at i:19183063 original size:100 final size:99
Alignment explanation
Indices: 19182929--19183166 Score: 257
Period size: 100 Copynumber: 2.4 Consensus size: 99
19182919 CAAACGATCC
* ** * * * *
19182929 ACCAAAAAGGCTTCCCAAATGACTCGCCATAAAGGCTTTACAAATTATCTAC-CACAAAGGCTTT
1 ACCACAAAGGCTTTACAAATGATTCGCCACAAAGGCTTCACAAATGA-CT-CGCACAAAGGCTTT
* * *
19182993 ATAGATTATCCGCCATAAAGGCTT-CTGAGATGTCTT
64 ACAGATGATCCGCCATAAAGGCTTCCT-AGATGTCAT
* * * * *
19183029 CCCACAAAGGCTTTACAGATGATTCGCCACAAAGGCATCGCAGATGACTCGTCACAAAGGCTTTA
1 ACCACAAAGGCTTTACAAATGATTCGCCACAAAGGCTTCACAAATGACTCG-CACAAAGGCTTTA
19183094 CAGATGATCCGCCATAAAGGCTTCCTAGATGTCAT
65 CAGATGATCCGCCATAAAGGCTTCCTAGATGTCAT
* *
19183129 ACCACAAAGGCTTTTCAAATCAATT-GCCACAAAGGCTT
1 ACCACAAAGGCTTTACAAAT-GATTCGCCACAAAGGCTT
19183167 GGTTTGGTTG
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
98 1 0.01
99 2 0.02
100 106 0.93
101 5 0.04
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (99 bp):
ACCACAAAGGCTTTACAAATGATTCGCCACAAAGGCTTCACAAATGACTCGCACAAAGGCTTTAC
AGATGATCCGCCATAAAGGCTTCCTAGATGTCAT
Found at i:19191736 original size:13 final size:13
Alignment explanation
Indices: 19191706--19191753 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
19191696 CCATCACTTG
19191706 TAACCATTTTG-TA
1 TAACCA-TTTGATA
*
19191719 CAACCATTTGATA
1 TAACCATTTGATA
**
19191732 TAACCATTACATA
1 TAACCATTTGATA
19191745 TAACCATTT
1 TAACCATTT
19191754 CATTTTATGC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 4 0.14
13 25 0.86
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (13 bp):
TAACCATTTGATA
Found at i:19198845 original size:17 final size:16
Alignment explanation
Indices: 19198811--19198843 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19198801 AGTGGCCGAG
19198811 TATGAGGCTAAATTTT
1 TATGAGGCTAAATTTT
19198827 TATGAGGCTAAATTTT
1 TATGAGGCTAAATTTT
19198843 T
1 T
19198844 TAGATTGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.45
Consensus pattern (16 bp):
TATGAGGCTAAATTTT
Found at i:19217603 original size:13 final size:14
Alignment explanation
Indices: 19217587--19217616 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
19217577 AGTATTATGT
19217587 TTTATTTA-TTAAA
1 TTTATTTATTTAAA
19217600 TTTATTTATTTAAA
1 TTTATTTATTTAAA
19217614 TTT
1 TTT
19217617 CAGCACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATTTATTTAAA
Found at i:19221540 original size:40 final size:40
Alignment explanation
Indices: 19221364--19221586 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
19221354 TCCTCGTTCA
* * * * *
19221364 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19221403 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19221443 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
19221483 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
19221523 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
19221563 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19221587 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19222778 original size:43 final size:44
Alignment explanation
Indices: 19222729--19222817 Score: 146
Period size: 43 Copynumber: 2.0 Consensus size: 44
19222719 TTTTTTTTTG
19222729 TTTTCCATTTCTTTATTACCCATACT-TTATCTTT-TTCTTCCAC
1 TTTTCCATTTCTTTATTACCCATACTCTTAT-TTTATTCTTCCAC
19222772 TTTTCCATTTCTTTATTACCCATACTCCTTATTTTATTCTTCCAC
1 TTTTCCATTTCTTTATTACCCATACT-CTTATTTTATTCTTCCAC
19222817 T
1 T
19222818 AACAAAACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
43 26 0.60
44 3 0.07
45 14 0.33
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.55
Consensus pattern (44 bp):
TTTTCCATTTCTTTATTACCCATACTCTTATTTTATTCTTCCAC
Found at i:19229491 original size:40 final size:40
Alignment explanation
Indices: 19229315--19229537 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
19229305 TCCTCGTTCA
* * * * *
19229315 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19229354 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19229394 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
19229434 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
19229474 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
19229514 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19229538 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19231717 original size:56 final size:52
Alignment explanation
Indices: 19231649--19231784 Score: 134
Period size: 50 Copynumber: 2.6 Consensus size: 52
19231639 AGACCCTATA
* **
19231649 TAAGACGATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGT-CCTACG
1 TAAGACCATGTCTGGGACATGGCATTGGCA-TACCGA-G--ATGAGAGGTCCCT-CG
* * *
19231705 TAAGACCATGTCTAGGACATGACGTTGG--TACCGAGATGAGAGGTCCCTCG
1 TAAGACCATGTCTGGGACATGGCATTGGCATACCGAGATGAGAGGTCCCTCG
* *
19231755 TAAGACCATGTCTGGGACATTGCATGGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
19231785 CCAGTATGAG
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
50 34 0.52
51 3 0.05
52 1 0.02
53 4 0.06
56 24 0.36
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (52 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATACCGAGATGAGAGGTCCCTCG
Found at i:19231794 original size:50 final size:51
Alignment explanation
Indices: 19231689--19231795 Score: 132
Period size: 50 Copynumber: 2.1 Consensus size: 51
19231679 TTATTGAGGT
* * *
19231689 TATGAGAGGTCCTACGTAAGACCATGTCTAGGACATGACGTTGGTACCGAG
1 TATGAGAGGTCCTACGTAAGACCATGTCTAGGACATGACATGGGCACCGAG
*
19231740 -ATGAGAGGTCCCT-CGTAAGACCATGTCTGGGACATTG-CATGGGCACC-AG
1 TATGAGAGGT-CCTACGTAAGACCATGTCTAGGACA-TGACATGGGCACCGAG
19231789 TATGAGA
1 TATGAGA
19231796 ACTCTCATGT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
49 2 0.04
50 42 0.86
51 5 0.10
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (51 bp):
TATGAGAGGTCCTACGTAAGACCATGTCTAGGACATGACATGGGCACCGAG
Found at i:19232087 original size:12 final size:12
Alignment explanation
Indices: 19232070--19232121 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
19232060 ATGAGTTATT
19232070 TAAGTAAACAAG
1 TAAGTAAACAAG
19232082 TAAGTAAACAAG
1 TAAGTAAACAAG
19232094 TAAG---A-AAG
1 TAAGTAAACAAG
*
19232102 TAAGTAAAAAAG
1 TAAGTAAACAAG
*
19232114 AAAGTAAA
1 TAAGTAAA
19232122 TATCATGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
8 7 0.20
9 1 0.03
11 1 0.03
12 26 0.74
ACGTcount: A:0.63, C:0.04, G:0.17, T:0.15
Consensus pattern (12 bp):
TAAGTAAACAAG
Found at i:19237485 original size:8 final size:8
Alignment explanation
Indices: 19237472--19237500 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
19237462 TATATATACT
19237472 AAATAATA
1 AAATAATA
19237480 AAATAATA
1 AAATAATA
19237488 AAATAATA
1 AAATAATA
19237496 AAATA
1 AAATA
19237501 TCATTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:19253444 original size:14 final size:14
Alignment explanation
Indices: 19253427--19253456 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19253417 CGAGTATTGA
19253427 TACTCGAGAAAAGG
1 TACTCGAGAAAAGG
*
19253441 TACTCGGGAAAAGG
1 TACTCGAGAAAAGG
19253455 TA
1 TA
19253457 TCGGTACCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.30, T:0.17
Consensus pattern (14 bp):
TACTCGAGAAAAGG
Found at i:19255005 original size:10 final size:10
Alignment explanation
Indices: 19254992--19255022 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
19254982 AATAAAAATC
19254992 AAATTAAAAG
1 AAATTAAAAG
19255002 AAATTAAAAG
1 AAATTAAAAG
19255012 AAATTAAAAG
1 AAATTAAAAG
19255022 A
1 A
19255023 TGATAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (10 bp):
AAATTAAAAG
Found at i:19260486 original size:35 final size:35
Alignment explanation
Indices: 19260412--19260538 Score: 157
Period size: 35 Copynumber: 3.6 Consensus size: 35
19260402 ACTCTCTATT
** * * *
19260412 TTGGTGTGTTTTGGATGGA-GAGCACTTTTGAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
19260446 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
* *
19260481 TTGGTGTGTTTCAGATGGATTAACTCTTATAAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
* *
19260516 TCTGGTGTGTTTCGGTTGGATTA
1 T-TGGTGTGTTTCAGATGGATTA
19260539 ATCAATGTAC
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
34 17 0.21
35 46 0.56
36 19 0.23
ACGTcount: A:0.19, C:0.10, G:0.30, T:0.41
Consensus pattern (35 bp):
TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
Found at i:19264771 original size:30 final size:29
Alignment explanation
Indices: 19264677--19264953 Score: 238
Period size: 29 Copynumber: 9.5 Consensus size: 29
19264667 GATGGTTGAA
*
19264677 ACCATCCCTTTTCATATTCGACGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* **
19264706 ACCATCCCTTTTCATATTCGATGGCCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * *
19264735 ACCATCCATTTTCATTAATCGGTGGTCGTC
1 ACCATCCCTTTTCA-TATTCGATGGTCGTC
* *
19264765 ACCATCCTTTTTCATAGTTC-ATGGTTGTC
1 ACCATCCCTTTTCATA-TTCGATGGTCGTC
* **
19264794 ACCATCCCTTTTCATAGTT-GATAGTCGAA
1 ACCATCCCTTTTCATA-TTCGATGGTCGTC
* * ** * **
19264823 ACTATCCCTTTTCATAATCGATAATTGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * * *
19264852 ACTATCCATTTTCATAGTCGATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
19264881 ACCATCTCTTTTCATAGTT-GATGGTCGTC
1 ACCATCCCTTTTCATA-TTCGATGGTCGTC
* *
19264910 ACCATTCCTTTTCATAGTT-GATGGTCATC
1 ACCATCCCTTTTCATA-TTCGATGGTCGTC
*
19264939 GCCATCCCTTTTCAT
1 ACCATCCCTTTTCAT
19264954 TGATCGATGA
Statistics
Matches: 202, Mismatches: 41, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
28 1 0.00
29 175 0.87
30 26 0.13
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:19264892 original size:87 final size:87
Alignment explanation
Indices: 19264672--19264925 Score: 278
Period size: 87 Copynumber: 2.9 Consensus size: 87
19264662 CTAATGATGG
* * * *
19264672 TTGAAACCATCCCTTTTCATATTCGACGGTCGTCACCATCCCTTTTCATA-TTCGATGGCCGAAA
1 TTGAAACCATCCATTTTCATAGTCGATGGTCGTCACCATCCCTTTTCATAGTT-GATGGTCGAAA
* * **
19264736 CCATCCATTTTCATTAATCGGTGG
65 CCATCCCTTTTCA-TAATCGATAA
* ** * * *
19264760 TCGTCACCATCCTTTTTCATAGTTC-ATGGTTGTCACCATCCCTTTTCATAGTTGATAGTCGAAA
1 TTGAAACCATCCATTTTCATAG-TCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGAAA
*
19264824 CTATCCCTTTTCATAATCGATAA
65 CCATCCCTTTTCATAATCGATAA
* * * **
19264847 TTGAAACTATCCATTTTCATAGTCGATGGTCATCACCATCTCTTTTCATAGTTGATGGTCGTCAC
1 TTGAAACCATCCATTTTCATAGTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGAAAC
*
19264912 CATTCCTTTTCATA
66 CATCCCTTTTCATA
19264926 GTTGATGGTC
Statistics
Matches: 136, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
86 2 0.01
87 70 0.51
88 60 0.44
89 4 0.03
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (87 bp):
TTGAAACCATCCATTTTCATAGTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGAAAC
CATCCCTTTTCATAATCGATAA
Found at i:19264951 original size:87 final size:88
Alignment explanation
Indices: 19264677--19264969 Score: 274
Period size: 87 Copynumber: 3.4 Consensus size: 88
19264667 GATGGTTGAA
* * *
19264677 ACCATCCCTTTTCATA-TTCGACGGTCGTCACCATCCCTTTTCATA-TTCGATGGCCGAAACCA-
1 ACCATCCCTTTTCATAGATCGATGGTCGTCACCATCCCTTTTCATAGTT-GATGGTCGAAACCAT
* *
19264739 TCCATTTTCATTAATCGGTGGTCGTC
65 TCC-TTTTCA-TAATCGATGGTCATC
* * * * * *
19264765 ACCATCCTTTTTCATAGTTC-ATGGTTGTCACCATCCCTTTTCATAGTTGATAGTCGAAACTATC
1 ACCATCCCTTTTCATAGATCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGAAACCATT
** * *
19264829 CCTTTTCATAATCGATAATTGA-A
66 CCTTTTCATAATCGAT-GGTCATC
* * * * **
19264852 ACTATCCATTTTCATAG-TCGATGGTCATCACCATCTCTTTTCATAGTTGATGGTCGTCACCATT
1 ACCATCCCTTTTCATAGATCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGAAACCATT
* *
19264916 CCTTTTCATAGTTGATGGTCATC
66 CCTTTTCATAATCGATGGTCATC
* * *
19264939 GCCATCCCTTTTCATTGATCGATGATCGTCA
1 ACCATCCCTTTTCATAGATCGATGGTCGTCA
19264970 ATACGCCGTT
Statistics
Matches: 163, Mismatches: 35, Indels: 14
0.77 0.17 0.07
Matches are distributed among these distances:
86 4 0.02
87 85 0.52
88 67 0.41
89 7 0.04
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (88 bp):
ACCATCCCTTTTCATAGATCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGAAACCATT
CCTTTTCATAATCGATGGTCATC
Found at i:19267374 original size:28 final size:28
Alignment explanation
Indices: 19267343--19267400 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
19267333 ATATATTTTT
19267343 ACCAACTCTTTACTTAATAAATATGTTC
1 ACCAACTCTTTACTTAATAAATATGTTC
19267371 ACCAACTCTTTACTTAATAAATATGTTC
1 ACCAACTCTTTACTTAATAAATATGTTC
19267399 AC
1 AC
19267401 TTTGAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.38
Consensus pattern (28 bp):
ACCAACTCTTTACTTAATAAATATGTTC
Found at i:19267682 original size:342 final size:342
Alignment explanation
Indices: 19267057--19267715 Score: 1282
Period size: 342 Copynumber: 1.9 Consensus size: 342
19267047 GTTATGTATG
*
19267057 ACTTTGAAAATTCATGCAAACTACGATTCATGTTGATATTATGATGTTCTTAGTATAAAGTTTGG
1 ACTTTGAAAATTCATGCAAACTACGATTCATGTTGATATTATGATGTACTTAGTATAAAGTTTGG
19267122 AAATAATATTTGAATTTGAGCTACTTATCAATAAAAGGTAGTTTTTTTAGCATGATTTTGTTGAT
66 AAATAATATTTGAATTTGAGCTACTTATCAATAAAAGGTAGTTTTTTTAGCATGATTTTGTTGAT
19267187 GCATGGTTATGTGCGAAGATTGATGCTACTTTATCATTTAGCAAAATTCCCTTAGCAAAAAGTTG
131 GCATGGTTATGTGCGAAGATTGATGCTACTTTATCATTTAGCAAAATTCCCTTAGCAAAAAGTTG
*
19267252 TGCTGTGCATGAACATTTCTTGGGACGAGTAATGGTTTAAGTTTGGGGGTGTGTAAACTCGAAAT
196 TGCTGTGCATGAACATTTCTTGGGACGAGCAATGGTTTAAGTTTGGGGGTGTGTAAACTCGAAAT
19267317 TATATAGGGCTTTTCAATATATTTTTACCAACTCTTTACTTAATAAATATGTTCACCAACTCTTT
261 TATATAGGGCTTTTCAATATATTTTTACCAACTCTTTACTTAATAAATATGTTCACCAACTCTTT
19267382 ACTTAATAAATATGTTC
326 ACTTAATAAATATGTTC
19267399 ACTTTGAAAATTCATGCAAACTACGATTCATGTTGATATTATGATGTACTTAGTATAAAGTTTGG
1 ACTTTGAAAATTCATGCAAACTACGATTCATGTTGATATTATGATGTACTTAGTATAAAGTTTGG
19267464 AAATAATATTTGAATTTGAGCTACTTATCAATAAAAGGTAGTTTTTTTAGCATGATTTTGTTGAT
66 AAATAATATTTGAATTTGAGCTACTTATCAATAAAAGGTAGTTTTTTTAGCATGATTTTGTTGAT
* *
19267529 GCATGGTTATGTGTGAAGATTGATGCTACTTTATCATTTAGCAAAATTGCCTTAGCAAAAAGTTG
131 GCATGGTTATGTGCGAAGATTGATGCTACTTTATCATTTAGCAAAATTCCCTTAGCAAAAAGTTG
19267594 TGCTGTGCATGAACATTTCTTGGGACGAGCAATGGTTTAAGTTTGGGGGTGTGTAAACTCGAAAT
196 TGCTGTGCATGAACATTTCTTGGGACGAGCAATGGTTTAAGTTTGGGGGTGTGTAAACTCGAAAT
19267659 TATATAGGGCTTTTCAATATATTTTTACCAACTCTTTACTTAATAAATATGTTCACC
261 TATATAGGGCTTTTCAATATATTTTTACCAACTCTTTACTTAATAAATATGTTCACC
19267716 TTGAGTAATT
Statistics
Matches: 313, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
342 313 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (342 bp):
ACTTTGAAAATTCATGCAAACTACGATTCATGTTGATATTATGATGTACTTAGTATAAAGTTTGG
AAATAATATTTGAATTTGAGCTACTTATCAATAAAAGGTAGTTTTTTTAGCATGATTTTGTTGAT
GCATGGTTATGTGCGAAGATTGATGCTACTTTATCATTTAGCAAAATTCCCTTAGCAAAAAGTTG
TGCTGTGCATGAACATTTCTTGGGACGAGCAATGGTTTAAGTTTGGGGGTGTGTAAACTCGAAAT
TATATAGGGCTTTTCAATATATTTTTACCAACTCTTTACTTAATAAATATGTTCACCAACTCTTT
ACTTAATAAATATGTTC
Found at i:19268401 original size:19 final size:19
Alignment explanation
Indices: 19268377--19268422 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
19268367 TCCCTCAACA
19268377 CTCATTTCTCATTCAT-TCT
1 CTCATTTCTCATTC-TCTCT
*
19268396 CTCATTTGTCATTCTCTCT
1 CTCATTTCTCATTCTCTCT
*
19268415 TTCATTTC
1 CTCATTTC
19268423 CCGTTTCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.13, C:0.30, G:0.02, T:0.54
Consensus pattern (19 bp):
CTCATTTCTCATTCTCTCT
Found at i:19286431 original size:3 final size:3
Alignment explanation
Indices: 19286423--19286466 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
19286413 ACATATGCTT
19286423 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
19286467 TTTTGAGCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:19290962 original size:47 final size:47
Alignment explanation
Indices: 19290894--19291183 Score: 420
Period size: 47 Copynumber: 6.1 Consensus size: 47
19290884 GAAATGATAG
* *
19290894 TAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
19290941 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
19290990 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19291037 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
19291084 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * *
19291133 -CAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
19291180 TAAG
1 TAAG
19291184 TCCCGAAGGG
Statistics
Matches: 221, Mismatches: 16, Indels: 11
0.89 0.06 0.04
Matches are distributed among these distances:
47 135 0.61
48 7 0.03
49 79 0.36
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:19291058 original size:96 final size:96
Alignment explanation
Indices: 19290894--19291183 Score: 428
Period size: 96 Copynumber: 3.0 Consensus size: 96
19290884 GAAATGATAG
* *
19290894 TAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
19290959 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
19290990 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
19291055 GTGATGAATGTGAAAGTG--TATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* * * * *
19291084 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA-CAGGGCTGAGTGGCC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCT-AATGGCC
* * *
19291148 AACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
63 GATGTGATGAATGTGAAAGTGTATATATATGTGA
19291180 TAAG
1 TAAG
19291184 TCCCGAAGGG
Statistics
Matches: 179, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
94 46 0.26
95 5 0.03
96 125 0.70
97 1 0.01
98 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:19291155 original size:143 final size:143
Alignment explanation
Indices: 19290894--19291183 Score: 456
Period size: 143 Copynumber: 2.0 Consensus size: 143
19290884 GAAATGATAG
* *
19290894 TAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
* *
19290959 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAG
*
19291024 TGTATATACGTGA
131 TGTATAAACGTGA
*
19291037 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
* * * * *
19291102 GTGATGAATGTGGAAGTGTATATATATGTGA-CAGGGCTGAGTGGCCAACGTGATGGATGTGAAA
66 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT-AATGGCCAACGTGATGAATGTGAAA
*
19291166 GTGTATAAATGTGA
130 GTGTATAAACGTGA
19291180 TAAG
1 TAAG
19291184 TCCCGAAGGG
Statistics
Matches: 134, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
142 5 0.04
143 129 0.96
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAG
TGTATAAACGTGA
Found at i:19291358 original size:37 final size:37
Alignment explanation
Indices: 19291302--19291380 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
19291292 CCGAGCTCTA
* * *
19291302 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGAT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
* *
19291339 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
19291376 AAGAC
1 AAGAC
19291381 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
Done.