Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 115 of 205
Found at i:34634109 original size:114 final size:114
Alignment explanation
Indices: 34633782--34634366 Score: 604
Period size: 115 Copynumber: 5.1 Consensus size: 114
34633772 GGCGCATCCT
* * * * * * * * *
34633782 CAAAAATGCCACTAAAGCACTGAGCATTAGCGGCACTTTA-TTAAAAATGCCACTAAAACCAC-A
1 CAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGC-TTACTTAAAAACGCCGCTAAATCCCCGA
* * * * * * **
34633845 GAAGCTAAGAAAATGGCGTCGTTGGGCTTAGGTTTCTTTATAGCGCCTTCC
65 -AAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTAG
* * * * *
34633896 CAAAAATGCCGCTAAAAGCCTGAGCATTAGCGGCTCTTACTTAAAAAACGCCGGTAAATCCTCGA
1 CAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTACTT-AAAAACGCCGCTAAATCCCCGA
* * * * *
34633961 AAGCTCAGAAAACGGTGTCGTTGGGCTGAGGTTTTTTTATGGTGCTTTAT
65 AAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTAG
* * **
34634011 CAAAAACGCCGCTAAAACCCTGAGCATTATCGGAGCTTACTTAAAAACATCGCTAAATCCCCGAA
1 CAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCGAA
* *
34634076 AGCTCAAAAAACGGCGTCGTCGGGCTTAGGTTTTTTTGTGGCGCTTTAG
66 AGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTAG
* * * *
34634125 CAAAAACACCGCTAAAGCCCCTGAGCATTAGCGGCGCTTAATTAAAAACGCCGTTAAATCCCCGA
1 CAAAAACGCCGCTAAA-ACCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCGA
* *
34634190 AAGCTCAGAAAATGGCGTCGTTGGGCTTAGATTTTTTTGTGGCGCTTTAG
65 AAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTAG
* * * * * * ** * * *
34634240 CAAAAACACCGCTAAAGCCCTGGGTATTAGCGTCGCTTCCCGAAAAATGCCACTAAATCCTCGAA
1 CAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCGAA
* * *
34634305 AGCTCAGAAAACGACGTCGTTGGGATTAGG--TTTTTGTGGTGCTTTA-
66 AGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTAG
* *
34634351 TAAAAGCGCCGCTAAA
1 CAAAAACGCCGCTAAA
34634367 TCCCCGAAAG
Statistics
Matches: 399, Mismatches: 68, Indels: 11
0.83 0.14 0.02
Matches are distributed among these distances:
111 13 0.03
112 15 0.04
113 3 0.01
114 172 0.43
115 195 0.49
116 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (114 bp):
CAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCGAA
AGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCTTTAG
Found at i:34634185 original size:229 final size:229
Alignment explanation
Indices: 34633846--34634339 Score: 589
Period size: 229 Copynumber: 2.2 Consensus size: 229
34633836 AAAACCACAG
* * * **
34633846 AAGCT-AAGAAAATGGCGTCGTTGGGCTTAGGTTTCTTTATAGCGCCTTCCCAAAAATGCCGCTA
1 AAGCTCAA-AAAACGGCGTCGTTGGGCTTAGGTTTTTTTATAGCGCCTTACCAAAAACACCGCTA
* * *
34633910 AAAGCCTGAGCATTAGCGGCTCTTACTTAAAAAACGCCGGTAAATCCTCGAAAGCTCAGAAAACG
65 AAAGCCTGAGCATTAGCGGCGCTTAATTAAAAAACGCCGGTAAATCCCCGAAAGCTCAGAAAACG
* * * * *
34633975 GTGTCGTTGGGCTGAGGTTTTTTTATGGTGCTTTATCAAAAACGCCGCTAAAACCCTGAGCATTA
130 GCGTCGTTGGGCTGAGATTTTTTTATGGCGCTTTAGCAAAAACACCGCTAAAACCCTGAGCATTA
* ** * *
34634040 TCGGAGCTTACTTAAAAACATCGCTAAATCCCCGA
195 GCGGAGCTTACCGAAAAACACCACTAAATCCCCGA
* * * * *
34634075 AAGCTCAAAAAACGGCGTCGTCGGGCTTAGGTTTTTTTGTGGCGCTTTAGCAAAAACACCGCT-A
1 AAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTATAGCGCCTTACCAAAAACACCGCTAA
* *
34634139 AAGCCCCTGAGCATTAGCGGCGCTTAATT-AAAAACGCCGTTAAATCCCCGAAAGCTCAGAAAAT
66 AAG--CCTGAGCATTAGCGGCGCTTAATTAAAAAACGCCGGTAAATCCCCGAAAGCTCAGAAAAC
* * * * *
34634203 GGCGTCGTTGGGCTTAGATTTTTTTGTGGCGCTTTAGCAAAAACACCGCTAAAGCCCTGGGTATT
129 GGCGTCGTTGGGCTGAGATTTTTTTATGGCGCTTTAGCAAAAACACCGCTAAAACCCTGAGCATT
** * ** *
34634268 AGCGTCGCTTCCCGAAAAATGCCACTAAATCCTCGA
194 AGCGGAGCTTACCGAAAAACACCACTAAATCCCCGA
* * *
34634304 AAGCTCAGAAAACGACGTCGTTGGGATTAGGTTTTT
1 AAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTT
34634340 GTGGTGCTTT
Statistics
Matches: 222, Mismatches: 40, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
228 4 0.02
229 194 0.87
230 24 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (229 bp):
AAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTATAGCGCCTTACCAAAAACACCGCTAA
AAGCCTGAGCATTAGCGGCGCTTAATTAAAAAACGCCGGTAAATCCCCGAAAGCTCAGAAAACGG
CGTCGTTGGGCTGAGATTTTTTTATGGCGCTTTAGCAAAAACACCGCTAAAACCCTGAGCATTAG
CGGAGCTTACCGAAAAACACCACTAAATCCCCGA
Found at i:34634490 original size:183 final size:184
Alignment explanation
Indices: 34634167--34634511 Score: 516
Period size: 183 Copynumber: 1.9 Consensus size: 184
34634157 GGCGCTTAAT
* * *
34634167 TAAAAACGCCGTTAAATCCCCGAAAGCTCAGAAAATGGCGTCGTTGGGCTTAGATTTTTTTGTGG
1 TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGAGTTTTTTGTGG
* * * * *
34634232 CGCTTTAGCAAAAACACCGCTAAAGCCCTGGGTATTAGCGTCGCTTCCCGAAAAATGCCACTAAA
66 CACTTTAGCAAAAACACCGCTAAAGCCCTAGGCATTAGCGGCGCTTCCCGAAAAAAGCCACTAAA
*
34634297 TCCTCGAAAGCTC-AGAAAACGACGTCGTTGGGATTAGGTTTTTGTGGTGCTTTA
131 TCCCCGAAAGCTCGA-AAAACGACGTCGTTGGGATTAGGTTTTTGTGGTGCTTTA
*
34634351 TAAAAGCGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG-GTTTTTTGTGG
1 TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGAGTTTTTTGTGG
* * * *
34634415 CACTTTCGCAAAATCGCCGCTAAAGCCCTAGGCATTAGCGGCGCTTACCC-AAAAAAGCCGCTAA
66 CACTTTAGCAAAAACACCGCTAAAGCCCTAGGCATTAGCGGCGCTT-CCCGAAAAAAGCCACTAA
*
34634479 ATCCCCGAAAGCTCGAAAAACGGCGTCGTTGGG
130 ATCCCCGAAAGCTCGAAAAACGACGTCGTTGGG
34634512 CTCAGGTATT
Statistics
Matches: 144, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
183 90 0.62
184 54 0.38
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (184 bp):
TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGAGTTTTTTGTGG
CACTTTAGCAAAAACACCGCTAAAGCCCTAGGCATTAGCGGCGCTTCCCGAAAAAAGCCACTAAA
TCCCCGAAAGCTCGAAAAACGACGTCGTTGGGATTAGGTTTTTGTGGTGCTTTA
Found at i:34635114 original size:13 final size:14
Alignment explanation
Indices: 34635095--34635132 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
34635085 CAATGGCATA
34635095 GAAATAATATAAAC
1 GAAATAATATAAAC
34635109 -AAATAA-ATAAAC
1 GAAATAATATAAAC
34635121 GAAATTAATATA
1 GAAA-TAATATA
34635133 CAAAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:34635556 original size:30 final size:28
Alignment explanation
Indices: 34635505--34635590 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 28
34635495 ACATGTACAT
*
34635505 ATATAAAAAAAATTATCTACATATATATATA
1 ATAT-AAAAAAATAAT-TACATATATATA-A
*
34635536 TTATAAAAAAGATAATTACATATATATAA
1 ATATAAAAAA-ATAATTACATATATATAA
*
34635565 AAATAAATAATAATAATTACATATAT
1 ATATAAA-AA-AATAATTACATATAT
34635591 TGAAATTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
29 6 0.12
30 34 0.71
31 8 0.17
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (28 bp):
ATATAAAAAAATAATTACATATATATAA
Found at i:34635750 original size:17 final size:17
Alignment explanation
Indices: 34635728--34635772 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
34635718 TAGGAAATAA
*
34635728 AAAATGTATATGTATAT
1 AAAATGTATATATATAT
*
34635745 AAAATGTAAATATATAT
1 AAAATGTATATATATAT
*
34635762 ATAA-GTATATA
1 AAAATGTATATA
34635773 AAAGTTATGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
AAAATGTATATATATAT
Found at i:34636294 original size:21 final size:20
Alignment explanation
Indices: 34636257--34636308 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
34636247 AATCACATCT
34636257 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
34636276 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
34636297 TCTAAGATTGCA
1 TCTAAGATTGCA
34636309 CATCCTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.35
21 20 0.65
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:34638539 original size:43 final size:42
Alignment explanation
Indices: 34638492--34638576 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 42
34638482 ATTTTAATGC
*
34638492 ATATACATGTATATATATATTTACATACTTATTTTTTTAACTT
1 ATATACATGTATATATATATTTACATACAT-TTTTTTTAACTT
* **
34638535 ATATACATGTCTATATATATTTATTTACATTTTTTTTAACTT
1 ATATACATGTATATATATATTTACATACATTTTTTTTAACTT
34638577 TCATAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
42 12 0.32
43 26 0.68
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.55
Consensus pattern (42 bp):
ATATACATGTATATATATATTTACATACATTTTTTTTAACTT
Found at i:34640086 original size:69 final size:70
Alignment explanation
Indices: 34640004--34640178 Score: 198
Period size: 69 Copynumber: 2.5 Consensus size: 70
34639994 TTGAACAGGA
* * * **
34640004 AGAA-ACCAAGGTGAAAACCCAAAAAGGGCACCTTGACTCCTAAAAAA-AAGGAGAA-AAAGAAA
1 AGAAGACCAAGGTGAAAACCCACAAAGGGCACTTTGACT-CAAAAAAAGAAAAAGAAGAAA-AAA
34640066 -AAAAAG
64 GAAAAAG
* * *
34640072 AGAAGACCAAGGTGAAAACCTACAAAGGGCGCTTTGAGTCAAAAAAAGAAAAAGAAGAAAAAAGA
1 AGAAGACCAAGGTGAAAACCCACAAAGGGCACTTTGACTCAAAAAAAGAAAAAGAAGAAAAAAGA
34640137 AAAAG
66 AAAAG
* *
34640142 -GAGAGGCCAAGGTGAAAACCCGCAAAGGGCACTTTGA
1 AGA-AGACCAAGGTGAAAACCCACAAAGGGCACTTTGA
34640179 GACCAAAGGG
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
68 11 0.12
69 40 0.44
70 39 0.43
ACGTcount: A:0.53, C:0.15, G:0.23, T:0.09
Consensus pattern (70 bp):
AGAAGACCAAGGTGAAAACCCACAAAGGGCACTTTGACTCAAAAAAAGAAAAAGAAGAAAAAAGA
AAAAG
Found at i:34641730 original size:89 final size:89
Alignment explanation
Indices: 34641569--34641735 Score: 221
Period size: 89 Copynumber: 1.9 Consensus size: 89
34641559 ATGGATTAAA
* * * *
34641569 GAAGATAGCATATCTTGTCTTCCTGTACCGGCAGCGAAGCAGATCGAAGACACCAACCTCACCTC
1 GAAGATAACAGATCTTGTCTTCCTGTACCGGCAGCGAAGCAGATCAAAAACACCAACCTCACCTC
34641634 CCTGAGTTTGCAGCGGAGCAGACT
66 CCTGAGTTTGCAGCGGAGCAGACT
* * * **
34641658 GAAGATAACAGATCTTGTCCTT-CTGTACTGGCAGTGAAGCAGATCAAAAACACCAGCCTTGCCT
1 GAAGATAACAGATCTTGT-CTTCCTGTACCGGCAGCGAAGCAGATCAAAAACACCAACCTCACCT
34641722 CTCC-GAGTTTGCAG
65 C-CCTGAGTTTGCAG
34641736 TAGAGTAGGT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
89 62 0.93
90 5 0.07
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (89 bp):
GAAGATAACAGATCTTGTCTTCCTGTACCGGCAGCGAAGCAGATCAAAAACACCAACCTCACCTC
CCTGAGTTTGCAGCGGAGCAGACT
Found at i:34642017 original size:44 final size:44
Alignment explanation
Indices: 34641762--34642281 Score: 224
Period size: 44 Copynumber: 11.6 Consensus size: 44
34641752 TTGTGGATTC
* * *
34641762 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATCGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACAAGTCT
* * * * * ** *
34641807 TATTTCCCTGAAGTTGTAGTGGAACAAATTAAATCTACCATAACAGACT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-C---A-AGTCT
* ** * * * *
34641856 CATCTTTCTGAAGTTGCAGTAGAGCAGA-T-CATAT-CAA-ACTT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGTC-T
* * * * **
34641897 TATCTCTCTGAAGTTGCAATAGAGCAGGTTGAA-ATAGCAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAGTCT
*
34641941 TATC-CCCATGAAGTTGCAGTGGGGCA-AGTTGAAGATACAAGTCT
1 TATCTCCC-TGAAGTTGCAGTGGAGCAGA-TTGAAGATACAAGTCT
* * * *
34641985 TATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGTTACTAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAC-AAGTCT
* * *** * ** *
34642029 TACCTCCCTGAAGTTGTAGTGGAATGGATT-AAAATGA-TGGATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACAAG-TCT
* **
34642073 TATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGATAGCGAA-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-C-AAGTCT
* * * *
34642118 TATTTCCCTGAAGTTGCGGTGGAACAGATTGAAGCTATAAGTTACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT-A--CA-AG-TCT
* * * *
34642169 TATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAA-ATTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACAAGTCT
* * **
34642213 TATC-CCTCTGAAGTTGCAGTGGGGCA-AGTTAAAGATATGAGT-T
1 TATCTCC-CTGAAGTTGCAGTGGAGCAGA-TTGAAGATACAAGTCT
34642256 CTATCTCCCTGAAGTTGCAGTGGAGC
1 -TATCTCCCTGAAGTTGCAGTGGAGC
34642282 GGGTCAAAAT
Statistics
Matches: 357, Mismatches: 81, Indels: 75
0.70 0.16 0.15
Matches are distributed among these distances:
40 2 0.01
41 26 0.07
42 4 0.01
43 8 0.02
44 170 0.48
45 81 0.23
46 1 0.00
47 5 0.01
48 6 0.02
49 25 0.07
51 29 0.08
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAGTCT
Found at i:34642305 original size:44 final size:45
Alignment explanation
Indices: 34641939--34642326 Score: 128
Period size: 44 Copynumber: 8.6 Consensus size: 45
34641929 AATAGCAAAC
* ** **
34641939 CTTATC-CCCATGAAGTTGCAGTGGGGCAAGTTGAAGATACAAG-T
1 CTTATCTCCC-TGAAGTTGCAGTGGAGCAAGTCAAAGATATGAGAT
* * ** *
34641983 CTTATCTCCCTAAAGTTGTAGTGGAGC-AGATTGAAGTTACT-A-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TCAAAGATA-TGAGAT
* * * * *
34642027 CCTACCTCCCTGAAGTTGTAGTGGA--ATGGATTAAA-ATGATG-GAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-AG-TCAAAGAT-ATGAGAT
* * * *
34642071 CCTATCTCCCTGAAGTTGCAGTGGAG-TAGACAGAAGATA-GCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTCA-AAGATATGAG-AT
* * * ** *
34642116 CTTATTTCCCTGAAGTTGCGGTGGAAC-AGATTGAAGCTATAAGTTACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TCAAAG--AT-A--T-GAGAT
* * * * * * **
34642167 CTTATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAAA-TTACAAG-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TCAAAGATATGAGAT
* * *
34642211 CTTATC-CCTCTGAAGTTGCAGTGGGGCAAGTTAAAGATATGAGTT
1 CTTATCTCC-CTGAAGTTGCAGTGGAGCAAGTCAAAGATATGAGAT
**
34642256 C-TATCTCCCTGAAGTTGCAGTGGAGCGGGTCAAA-ATGATG-GAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTCAAAGAT-ATGAGAT
* *
34642299 CTTATCTCTCTGAAGTTGCAGTAGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
34642327 GATCGCATCA
Statistics
Matches: 258, Mismatches: 56, Indels: 60
0.69 0.15 0.16
Matches are distributed among these distances:
43 16 0.06
44 169 0.66
45 40 0.16
47 2 0.01
48 2 0.01
49 1 0.00
51 23 0.09
52 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTCAAAGATATGAGAT
Found at i:34642440 original size:103 final size:103
Alignment explanation
Indices: 34642256--34642535 Score: 339
Period size: 103 Copynumber: 2.7 Consensus size: 103
34642246 GATATGAGTT
* * * * *
34642256 CTATCTCCCTGAAGTTGCAGTGGAGCGGGTCAAAATGATGGATCTTATCTCTCTGAAGTTGCAGT
1 CTATCTTCCTGAAGTTGCAGTGAAGCAGATCAAAATAATGGATCTTATCTCTCTGAAGTTGCAGT
* *
34642321 AGAGCAGATCGCATCAGACTTTATTGAAGTTACTAGTC
66 AGAGCAGATCGCATCAGACTTTATTGAAGCTACAAGTC
* * *
34642359 CTATCTTCCTGAAGTTGCAATGAAGCAGATTAAAATAATGGATCTTATCTCTCCGAAGTTGCAGT
1 CTATCTTCCTGAAGTTGCAGTGAAGCAGATCAAAATAATGGATCTTATCTCTCTGAAGTTGCAGT
* * *
34642424 AGAGTAGATTGTATCAGACTTTATTGAAGCTACAAGTC
66 AGAGCAGATCGCATCAGACTTTATTGAAGCTACAAGTC
* * * * * **
34642462 TTATC-TCACTGAGGTTGCAGTAGAA-TAGACTGAAGATAACAGATCTTATCTCTCTGAAGTTGC
1 CTATCTTC-CTGAAGTTGCAGT-GAAGCAGA-TCAAAATAATGGATCTTATCTCTCTGAAGTTGC
34642525 AGTAGAGCAGA
63 AGTAGAGCAGA
34642536 CCACGATGAG
Statistics
Matches: 151, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
102 2 0.01
103 108 0.72
104 41 0.27
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (103 bp):
CTATCTTCCTGAAGTTGCAGTGAAGCAGATCAAAATAATGGATCTTATCTCTCTGAAGTTGCAGT
AGAGCAGATCGCATCAGACTTTATTGAAGCTACAAGTC
Found at i:34642807 original size:44 final size:44
Alignment explanation
Indices: 34642700--34643037 Score: 216
Period size: 44 Copynumber: 7.6 Consensus size: 44
34642690 TCAAATCAAA
* * * * *
34642700 TCTTATCTCCCTGAAGTTACAGTGGAACAGACTGAAGATAGCAAA
1 TCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGATA-TAAG
* * ** **
34642745 CCTTATCTCCTTGAAGTTGTGGTGGAGCAGGTTGAAGATATAAG
1 TCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGATATAAG
* * *
34642789 TCTTATTTCCATGAAGTTGCAGTGGAGTAGACTGAAGATATGAG
1 TCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGATATAAG
* * * * * *
34642833 TCTTATCACCCTGAAGTTACAGAGGAGCAGACTGAAGCTACTGA-
1 TCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGATA-TAAG
* * * * * *
34642877 TCTTATCT-CACTAAAGTTGTAGTGGAGTAGACTGTAGATAACAAA
1 TCTTATCTCCA-TGAAGTTGCAGTGGAGCAGACTGAAGAT-ATAAG
* * * ** *
34642922 CCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGATACCAA-
1 TCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGATA-TAAG
* ** * * * *
34642966 TCTTATCTCCCTGAAGTTATAGCGGAGCAAATTGAAGCTACTAA-
1 TCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGATA-TAAG
* * *
34643010 TCCTATCTCCCTAAAGTTGCAGTGGAGC
1 TCTTATCTCCATGAAGTTGCAGTGGAGC
34643038 GGATTAAAAT
Statistics
Matches: 227, Mismatches: 60, Indels: 13
0.76 0.20 0.04
Matches are distributed among these distances:
43 1 0.00
44 158 0.70
45 67 0.30
46 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGATATAAG
Found at i:34642938 original size:133 final size:131
Alignment explanation
Indices: 34642698--34643037 Score: 356
Period size: 133 Copynumber: 2.6 Consensus size: 131
34642688 TATCAAATCA
* * * * * *
34642698 AATCTTATCTCCCTGAAGTTACAGTGGAACAGACTGAAGATAGCAAACCTTATCTCCTTGAAGTT
1 AATCTTATCTCCCTGAAGTTACAGAGGAGCAGACTGAAGCTA-CTAATCTTATCTCC-TAAAGTT
* ** * ** * **
34642763 GTGGTGGAGCAGGTTGAAGATATAAGTCTTATTTCCATGAAGTTGCAGTGGAGTAGACTGAAGAT
64 GTAGTGGAGCAGACTGAAGATACAAACCTTATCTCCATGAAGTTGCAGTGGAACAGACTGAAGAT
**
34642828 ATG
129 ACC
* * *
34642831 AGTCTTATCACCCTGAAGTTACAGAGGAGCAGACTGAAGCTACTGATCTTATCTCACTAAAGTTG
1 AATCTTATCTCCCTGAAGTTACAGAGGAGCAGACTGAAGCTACTAATCTTATCTC-CTAAAGTTG
* * * **
34642896 TAGTGGAGTAGACTGTAGATAACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGAT
65 TAGTGGAGCAGACTGAAGAT-ACAAACCTTATCTCCATGAAGTTGCAGTGGAACAGACTGAAGAT
34642961 ACC
129 ACC
* * * * *
34642964 AATCTTATCTCCCTGAAGTTATAGCGGAGCAAATTGAAGCTACTAATCCTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTACAGAGGAGCAGACTGAAGCTACTAATCTTATCT-CCTAAAGTTG
*
34643029 CAGTGGAGC
65 TAGTGGAGC
34643038 GGATTAAAAT
Statistics
Matches: 169, Mismatches: 35, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
132 32 0.19
133 136 0.80
134 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (131 bp):
AATCTTATCTCCCTGAAGTTACAGAGGAGCAGACTGAAGCTACTAATCTTATCTCCTAAAGTTGT
AGTGGAGCAGACTGAAGATACAAACCTTATCTCCATGAAGTTGCAGTGGAACAGACTGAAGATAC
C
Found at i:34643293 original size:139 final size:139
Alignment explanation
Indices: 34642969--34643282 Score: 479
Period size: 139 Copynumber: 2.3 Consensus size: 139
34642959 ATACCAATCT
* * * * * * * *
34642969 TATCTCCCTGAAGTTATAGCGGAGCAAATTGAAGCT-ACTAATCC-TATCTCCCTAAAGTTGCAG
1 TATCTCCCTAAAGTTATAGTGGAGCAGACTGTAGATAAC-AAACCTTATGTCCCTAAAGTTGCAG
*
34643032 TGGAGCGGATTAAAATGTTGAATCCTATACCTCTGAAGTTACAGTAGGTTGGATTAAATCTACCA
65 TGGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTACAGTAGGTTGGATTAAATCTACCA
34643097 TAACGAGTCG
130 TAACGAGTCG
*
34643107 TATCTCCCTAAAGTTATAGTGGAGCAGACTGTAGATAACAAACCTTATGTCCCTGAAGTTGCAGT
1 TATCTCCCTAAAGTTATAGTGGAGCAGACTGTAGATAACAAACCTTATGTCCCTAAAGTTGCAGT
*
34643172 GGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTTGGATTAAATCTACCAT
66 GGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTACAGTAGGTTGGATTAAATCTACCAT
*
34643237 AACGAGTCT
131 AACGAGTCG
* *
34643246 TATCTCCCTAAAGTTGTAGTGGAGCAGGCTGTAGATA
1 TATCTCCCTAAAGTTATAGTGGAGCAGACTGTAGATA
34643283 GCGGATCTTA
Statistics
Matches: 160, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
138 34 0.21
139 126 0.79
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (139 bp):
TATCTCCCTAAAGTTATAGTGGAGCAGACTGTAGATAACAAACCTTATGTCCCTAAAGTTGCAGT
GGAGCGGATTAAAATGATGAATCCTATACCTCTGAAGTTACAGTAGGTTGGATTAAATCTACCAT
AACGAGTCG
Found at i:34648744 original size:114 final size:113
Alignment explanation
Indices: 34648532--34648782 Score: 349
Period size: 114 Copynumber: 2.2 Consensus size: 113
34648522 CTGTATCAAT
** * * *
34648532 ACATTTATTTTTTGCTAAATTTTTTCAAACATTGAAGCTTAAATTGGTATCGGTACCAGGCAAGG
1 ACATTTATTTTTTGCTAAATTTTTTCAAACATCAAAGCTCAAATTGGTATCGATACCAGGAAAGG
* * * * *
34648597 GTGTCGATACTATGACCCTGGTATTAATGCTATGGCAAGGGTATCGAC
66 GTATCGATACTATGACCCTAGTATCAATACTATGGAAAGGGTATCGAC
* *
34648645 ACCTTTGTTCTTTTGCTAAATTTTTTCAAACATCAAAGCTCAAATTGGTATCGATACCAGGAAAG
1 ACATTTATT-TTTTGCTAAATTTTTTCAAACATCAAAGCTCAAATTGGTATCGATACCAGGAAAG
* * *
34648710 GGTATCGATACTTTGACCCTAGTATCAATACTATGGAAAGGGTATTGAT
65 GGTATCGATACTATGACCCTAGTATCAATACTATGGAAAGGGTATCGAC
*
34648759 ACATTTATTTTTTGCTAAAATTTT
1 ACATTTATTTTTTGCTAAATTTTT
34648783 CTAATATTGA
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
113 21 0.18
114 98 0.82
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (113 bp):
ACATTTATTTTTTGCTAAATTTTTTCAAACATCAAAGCTCAAATTGGTATCGATACCAGGAAAGG
GTATCGATACTATGACCCTAGTATCAATACTATGGAAAGGGTATCGAC
Found at i:34650627 original size:25 final size:25
Alignment explanation
Indices: 34650599--34650652 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
34650589 TGTAGTGGCA
*
34650599 AGGTGGCAACATAGGTGTGGCAAGG
1 AGGTGGCAACACAGGTGTGGCAAGG
* *
34650624 AGGTGGCATCACAGGTGTGGTAAGG
1 AGGTGGCAACACAGGTGTGGCAAGG
34650649 AGGT
1 AGGT
34650653 CAGAGGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.26, C:0.11, G:0.44, T:0.19
Consensus pattern (25 bp):
AGGTGGCAACACAGGTGTGGCAAGG
Found at i:34650799 original size:24 final size:21
Alignment explanation
Indices: 34650766--34650812 Score: 58
Period size: 24 Copynumber: 2.1 Consensus size: 21
34650756 TCAAATGAGT
*
34650766 GATTTAAGGAGTGGATCATGGAG
1 GATTTAAGGAGAGGAT--TGGAG
34650789 GATTTCAAGGAGAGGATTGGAG
1 GATTT-AAGGAGAGGATTGGAG
34650811 GA
1 GA
34650813 GTGATTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 5 0.23
24 10 0.45
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.23
Consensus pattern (21 bp):
GATTTAAGGAGAGGATTGGAG
Found at i:34652164 original size:27 final size:27
Alignment explanation
Indices: 34652120--34652250 Score: 133
Period size: 27 Copynumber: 4.9 Consensus size: 27
34652110 GACTATACCA
** *
34652120 AAATACCCTTGATGGGTAAAATTATCG
1 AAATACCCCCGATAGGTAAAATTATCG
34652147 AAATACCCCCGATAGGTAAAATTA-CTG
1 AAATACCCCCGATAGGTAAAATTATC-G
*** * *
34652174 AAATACCCTTAATAGGTAAAATTACCA
1 AAATACCCCCGATAGGTAAAATTATCG
*
34652201 AAATA-CCCCAAT-GTGTAAAATTATCG
1 AAATACCCCCGATAG-GTAAAATTATCG
*
34652227 AAATACCCCCGATGGGTAAAATTA
1 AAATACCCCCGATAGGTAAAATTA
34652251 ACTATTATGG
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.01
26 21 0.24
27 63 0.72
28 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (27 bp):
AAATACCCCCGATAGGTAAAATTATCG
Found at i:34652245 original size:53 final size:54
Alignment explanation
Indices: 34652120--34652250 Score: 160
Period size: 53 Copynumber: 2.4 Consensus size: 54
34652110 GACTATACCA
* * *
34652120 AAATACCCTTGATGGGTAAAATTATCGAAATACCCCCGATAGGTAAAATTACTG
1 AAATACCCTTGATGGGTAAAATTACCAAAATACCCCCAATAGGTAAAATTACTG
* *
34652174 AAATACCCTTAATAGGTAAAATTACCAAAATA-CCCCAAT-GTGTAAAATTA-TCG
1 AAATACCCTTGATGGGTAAAATTACCAAAATACCCCCAATAG-GTAAAATTACT-G
**
34652227 AAATACCCCCGATGGGTAAAATTA
1 AAATACCCTTGATGGGTAAAATTA
34652251 ACTATTATGG
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
52 2 0.03
53 36 0.55
54 28 0.42
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (54 bp):
AAATACCCTTGATGGGTAAAATTACCAAAATACCCCCAATAGGTAAAATTACTG
Found at i:34655175 original size:22 final size:22
Alignment explanation
Indices: 34655150--34655241 Score: 132
Period size: 22 Copynumber: 4.2 Consensus size: 22
34655140 AAATTCAATA
34655150 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
34655172 TCAA-TTCCTTTCAAAAATTCTC
1 TCAATTTCC-TTCAAAAATTCTC
* * *
34655194 TCAATTCCCTTCAAAATTTCTT
1 TCAATTTCCTTCAAAAATTCTC
*
34655216 TCAATTTCCTTCCAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
34655238 TCAA
1 TCAA
34655242 ACTCTCAAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
21 4 0.07
22 54 0.89
23 3 0.05
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:34655272 original size:52 final size:51
Alignment explanation
Indices: 34655191--34655293 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
34655181 TTCAAAAATT
* * * *
34655191 CTCTCAATTCCCTTCAAAATTTCTTTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCAAAATTCCTCTCAATTTCCTTCAAAAAATCTC-CAAA
34655243 CTCTCAAATT-CCTTCCAAAA-TCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTT-CAAAATTCCTCTCAATTTCCTTCAAAAAATCTCCAAA
34655294 TTCATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (51 bp):
CTCTCAATTCCCTTCAAAATTCCTCTCAATTTCCTTCAAAAAATCTCCAAA
Found at i:34655282 original size:21 final size:22
Alignment explanation
Indices: 34655243--34655296 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
34655233 TTCTCTCAAA
34655243 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
34655265 CTCTCAATTTCCTTCAAAAAAT-
1 CTCTCAAATTCCTTC-CAAAATC
34655287 CTC-CAAATTC
1 CTCTCAAATTC
34655297 ATATTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.21
22 17 0.61
23 5 0.18
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:34655377 original size:29 final size:29
Alignment explanation
Indices: 34655326--34655381 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
34655316 ATTAAATTTC
34655326 ATTTTTTTAAGAAAATTTTAAATTTTTTT
1 ATTTTTTTAAGAAAATTTTAAATTTTTTT
* *
34655355 ATTTTTTTAA-ATAATTTTAAAATTTTT
1 ATTTTTTTAAGAAAATTTTAAATTTTTT
34655382 AATATTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAATTTTTTT
Found at i:34655389 original size:29 final size:29
Alignment explanation
Indices: 34655326--34655389 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
34655316 ATTAAATTTC
* *
34655326 ATTTTTTTAAGAAAATTTTAAATTTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
34655355 ATTTTTTTAA-ATAATTTTAAAATTTTTA
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
34655383 ATATTTT
1 ATTTTTT
34655390 CAACAATGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTA
Found at i:34667994 original size:19 final size:19
Alignment explanation
Indices: 34667967--34668021 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
34667957 CTCGTTAATG
* *
34667967 GTGTTTGATTAGTGGAACT
1 GTGTCTGATTAGTGGAACC
34667986 GTGTCTGATTAGTGGAACC
1 GTGTCTGATTAGTGGAACC
34668005 GTGTGC-GATTAGTGGAA
1 GTGT-CTGATTAGTGGAA
34668022 TCATGTCTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 32 0.97
20 1 0.03
ACGTcount: A:0.22, C:0.09, G:0.35, T:0.35
Consensus pattern (19 bp):
GTGTCTGATTAGTGGAACC
Found at i:34670186 original size:16 final size:17
Alignment explanation
Indices: 34670160--34670191 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34670150 AATTGTAATC
34670160 ATTATAATGTTTATTAA
1 ATTATAATGTTTATTAA
34670177 ATTA-AATGTTTATTA
1 ATTATAATGTTTATTA
34670192 TGTTGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTATAATGTTTATTAA
Found at i:34672199 original size:12 final size:12
Alignment explanation
Indices: 34672182--34672211 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
34672172 TTAGATTGTT
34672182 ACACGGCCTAGC
1 ACACGGCCTAGC
34672194 ACACGGCCTAGC
1 ACACGGCCTAGC
34672206 ACACGG
1 ACACGG
34672212 ACGTGTATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.40, G:0.27, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:34682103 original size:22 final size:22
Alignment explanation
Indices: 34682078--34682133 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
34682068 ACACCACTGA
34682078 ACAACCACC-ATATCACCACCAT
1 ACAACCACCTA-ATCACCACCAT
34682100 ACAACCACCTAATCACCACCAT
1 ACAACCACCTAATCACCACCAT
*
34682122 TCAACCATCCTA
1 ACAACCA-CCTA
34682134 GCACCACTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (22 bp):
ACAACCACCTAATCACCACCAT
Found at i:34682128 original size:11 final size:11
Alignment explanation
Indices: 34682079--34682128 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
34682069 CACCACTGAA
34682079 CAACCACCATAT
1 CAACCACCAT-T
*
34682091 C-ACCACCATA
1 CAACCACCATT
*
34682101 CAACCACCTAAT
1 CAACCACC-ATT
34682113 C-ACCACCATT
1 CAACCACCATT
34682123 CAACCA
1 CAACCA
34682129 TCCTAGCACC
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
10 4 0.13
11 24 0.77
12 3 0.10
ACGTcount: A:0.40, C:0.46, G:0.00, T:0.14
Consensus pattern (11 bp):
CAACCACCATT
Found at i:34682138 original size:22 final size:22
Alignment explanation
Indices: 34682078--34682140 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
34682068 ACACCACTGA
*
34682078 ACAACCACC-ATATCACCACCAT
1 ACAACCACCTA-AGCACCACCAT
*
34682100 ACAACCACCTAATCACCACCAT
1 ACAACCACCTAAGCACCACCAT
*
34682122 TCAACCATCCT-AGCACCAC
1 ACAACCA-CCTAAGCACCAC
34682141 TACACCACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.38, C:0.46, G:0.02, T:0.14
Consensus pattern (22 bp):
ACAACCACCTAAGCACCACCAT
Found at i:34692758 original size:85 final size:85
Alignment explanation
Indices: 34692629--34692807 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
34692619 TATTTTATTG
34692629 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
34692694 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
34692714 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
34692779 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
34692799 CCCATGCTC
1 CCCATGCTC
34692808 ATGGCCGGCC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:34704129 original size:13 final size:14
Alignment explanation
Indices: 34704096--34704126 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
34704086 GAGCACGCAT
34704096 AAAACATAACTTTA
1 AAAACATAACTTTA
*
34704110 AAAACATAACTTGA
1 AAAACATAACTTTA
34704124 AAA
1 AAA
34704127 CATCTCAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (14 bp):
AAAACATAACTTTA
Found at i:34714959 original size:27 final size:29
Alignment explanation
Indices: 34714914--34714974 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
34714904 ATTTTTGTCG
*
34714914 AATTTTATACTTTTATTAT-AAAACAATT
1 AATTTTATACTTTTATTATGAAAAAAATT
34714942 AATTTTA-AC-TTTATTTATGAAAAAAATT
1 AATTTTATACTTTTA-TTATGAAAAAAATT
34714970 AATTT
1 AATTT
34714975 ATTTATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 4 0.13
27 6 0.20
28 20 0.67
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (29 bp):
AATTTTATACTTTTATTATGAAAAAAATT
Found at i:34735364 original size:21 final size:22
Alignment explanation
Indices: 34735340--34735380 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34735330 TTTACAAATA
34735340 ATTTTAAATAAATA-AATTTAC
1 ATTTTAAATAAATAGAATTTAC
* *
34735361 ATTTTAGATGAATAGAATTT
1 ATTTTAAATAAATAGAATTT
34735381 TAATTTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTTTAAATAAATAGAATTTAC
Found at i:34735386 original size:22 final size:20
Alignment explanation
Indices: 34735338--34735387 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
34735328 TTTTTACAAA
34735338 TAATTTTAAATAAATAAATT
1 TAATTTTAAATAAATAAATT
* *
34735358 TACATTTTAGATGAATAGAATTT
1 TA-ATTTTAAATAAATA-AA-TT
34735381 TAATTTT
1 TAATTTT
34735388 GAATTAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 12 0.48
22 7 0.28
23 4 0.16
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (20 bp):
TAATTTTAAATAAATAAATT
Found at i:34736238 original size:31 final size:31
Alignment explanation
Indices: 34736203--34736276 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 31
34736193 ATGATTAAAT
*
34736203 CACAATTAAAGTTTCATGTATACATTTGAAC
1 CACAATTAAAGTTTCATGTATACAATTGAAC
* * * *
34736234 CACAATCAAAG-TTCATGTGTATAATTGCAC
1 CACAATTAAAGTTTCATGTATACAATTGAAC
34736264 CA-AATTAAAGTTT
1 CACAATTAAAGTTT
34736277 GTGTATCAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 7 0.19
30 19 0.53
31 10 0.28
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (31 bp):
CACAATTAAAGTTTCATGTATACAATTGAAC
Found at i:34743162 original size:42 final size:42
Alignment explanation
Indices: 34743103--34743187 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
34743093 AATCAGGTGT
*
34743103 GTGATCACACCCTCTCATCTGCAAATCGGCAAAAGCTGAAAA
1 GTGATCACACCCTCTCATCTGCAAATCGGCAAAAGCCGAAAA
34743145 GTGATCACACCCTCTCATCTGCAAATCGGCAAAAGCCGAAAA
1 GTGATCACACCCTCTCATCTGCAAATCGGCAAAAGCCGAAAA
34743187 G
1 G
34743188 CCGAAAAAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (42 bp):
GTGATCACACCCTCTCATCTGCAAATCGGCAAAAGCCGAAAA
Found at i:34743398 original size:25 final size:27
Alignment explanation
Indices: 34743318--34743807 Score: 444
Period size: 27 Copynumber: 18.2 Consensus size: 27
34743308 AATGGGCCAC
* *
34743318 AAATTACCGAAATA-CCTCTATAGGGTA
1 AAATTATCGAAATACCCTCGA-AGGGTA
*
34743345 AAATTACCGAAATACCCTCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * *
34743372 AAATTAT-TAAA-ACTCTTGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
34743397 AAATTATCGAAATACCCTCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
*
34743424 AAATTA-CAGAAATACCC-CTATAGGGTA
1 AAATTATC-GAAATACCCTCGA-AGGGTA
* * * *
34743451 AAATTACCAAAATACCCACAAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * *
34743478 AAATTAACAAAATACCC-CTAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
34743504 AAATTACCGAAGTACCCTCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * * *
34743531 AAATTATGGAAATACCATTGATGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * *
34743558 AAATTA-CTGAAATACCCCCAAAGCGTA
1 AAATTATC-GAAATACCCTCGAAGGGTA
* *
34743585 AAATTATCAAAATACCCTCAAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
34743612 AAATTACCGAAATACCCTTGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * * *
34743639 AAATTACCAAAATACCC-CTATAGAGTA
1 AAATTATCGAAATACCCTCGA-AGGGTA
*
34743666 AAATTATCGAAATACCCTCAAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
34743693 AAATTATCGAAATACCAAT-AAAGGGTA
1 AAATTATCGAAATACC-CTCGAAGGGTA
* *
34743720 AAATTA-CTGAAATACCCCCGAAAGGGTT
1 AAATTATC-GAAATACCCTCG-AAGGGTA
** * * *
34743748 AAAGGACCAAAATACCCCCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
*
34743775 AAATGATCGAAATACCC-CTGAAGGGTA
1 AAATTATCGAAATACCCTC-GAAGGGTA
34743802 AAATTA
1 AAATTA
34743808 CCATTATACC
Statistics
Matches: 387, Mismatches: 58, Indels: 36
0.80 0.12 0.07
Matches are distributed among these distances:
25 19 0.05
26 34 0.09
27 300 0.78
28 33 0.09
29 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGAAGGGTA
Found at i:34744028 original size:26 final size:26
Alignment explanation
Indices: 34743999--34744101 Score: 170
Period size: 26 Copynumber: 4.0 Consensus size: 26
34743989 ATGCCACATA
*
34743999 TACTCTTACTGGCAGCTTTGTTGCGT
1 TACTATTACTGGCAGCTTTGTTGCGT
34744025 TACTATTACTGGCAGCTTTGTTGCGT
1 TACTATTACTGGCAGCTTTGTTGCGT
* *
34744051 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTATTACTGGCAGCTTTGTTGCGT
*
34744077 TACTATTACTGGAAGCTTTGTTGCG
1 TACTATTACTGGCAGCTTTGTTGCG
34744102 ATATTGGTGT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGTTGCGT
Found at i:34744261 original size:28 final size:28
Alignment explanation
Indices: 34744212--34744349 Score: 161
Period size: 28 Copynumber: 5.0 Consensus size: 28
34744202 ATTGTACTGT
34744212 TTACTGTAATGGGCTAAGGCCCACACTA
1 TTACTGTAATGGGCTAAGGCCCACACTA
* * * * * *
34744240 TTTCTATATTGGGCTAAGGCCCATATTG
1 TTACTGTAATGGGCTAAGGCCCACACTA
*
34744268 TTAGTGTAATGGGCTAAGGCCCACACTA
1 TTACTGTAATGGGCTAAGGCCCACACTA
* ** *
34744296 TTTCTGTGTTGGGCTAAGGCCCACACTG
1 TTACTGTAATGGGCTAAGGCCCACACTA
*
34744324 TTACTGTAATGGGCTATGG-CCACACT
1 TTACTGTAATGGGCTAAGGCCCACACT
34744350 GTACTGATAC
Statistics
Matches: 88, Mismatches: 22, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
27 7 0.08
28 81 0.92
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (28 bp):
TTACTGTAATGGGCTAAGGCCCACACTA
Found at i:34744308 original size:56 final size:56
Alignment explanation
Indices: 34744207--34744349 Score: 216
Period size: 56 Copynumber: 2.6 Consensus size: 56
34744197 ACTGCATTGT
*
34744207 ACTGTTTACTGTAATGGGCTAAGGCCCACACTATTTCTATATTGGGCTAAGGCCCAT
1 ACTG-TTACTGTAATGGGCTAAGGCCCACACTATTTCTATATTGGGCTAAGGCCCAC
* * * *
34744264 ATTGTTAGTGTAATGGGCTAAGGCCCACACTATTTCTGTGTTGGGCTAAGGCCCAC
1 ACTGTTACTGTAATGGGCTAAGGCCCACACTATTTCTATATTGGGCTAAGGCCCAC
*
34744320 ACTGTTACTGTAATGGGCTATGG-CCACACT
1 ACTGTTACTGTAATGGGCTAAGGCCCACACT
34744350 GTACTGATAC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
55 7 0.09
56 68 0.87
57 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (56 bp):
ACTGTTACTGTAATGGGCTAAGGCCCACACTATTTCTATATTGGGCTAAGGCCCAC
Found at i:34748042 original size:19 final size:18
Alignment explanation
Indices: 34748018--34748060 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
34748008 ACGAAATTAT
*
34748018 AAAAAAAGGGTGAATTGA
1 AAAAAAAGCGTGAATTGA
* *
34748036 AAAAAAATCGTGAATTTA
1 AAAAAAAGCGTGAATTGA
34748054 AAAAAAA
1 AAAAAAA
34748061 AGTGTTGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.16, T:0.19
Consensus pattern (18 bp):
AAAAAAAGCGTGAATTGA
Found at i:34748056 original size:17 final size:18
Alignment explanation
Indices: 34748012--34748059 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
34748002 ATACATACGA
*
34748012 AATTATAAAAAAAGGGTG
1 AATTATAAAAAAAGCGTG
*
34748030 AATTGA-AAAAAAATCGTG
1 AATT-ATAAAAAAAGCGTG
34748048 AATT-TAAAAAAA
1 AATTATAAAAAAA
34748060 AAGTGTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.27
18 18 0.69
19 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.15, T:0.23
Consensus pattern (18 bp):
AATTATAAAAAAAGCGTG
Found at i:34750266 original size:15 final size:15
Alignment explanation
Indices: 34750222--34750268 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
34750212 ATACTTGAAA
34750222 AAAGAGAGTGAAAAA-
1 AAAGAGA-TGAAAAAG
34750237 AAA-AG-TGAGAAAAG
1 AAAGAGATGA-AAAAG
34750251 AAAGAGATGAAAAAG
1 AAAGAGATGAAAAAG
34750266 AAA
1 AAA
34750269 AAGCGAGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 3 0.11
13 4 0.14
14 5 0.18
15 13 0.46
16 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (15 bp):
AAAGAGATGAAAAAG
Found at i:34754565 original size:24 final size:25
Alignment explanation
Indices: 34754536--34754595 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 25
34754526 TGGTCTATTA
** *
34754536 CGTACCAAAATTTCCA-TACCATTT
1 CGTACCAAAATCCCCATTACCATAT
34754560 CGTACCAAAA-CCCCATTACCATAT
1 CGTACCAAAATCCCCATTACCATAT
34754584 CGTACCAAAATC
1 CGTACCAAAATC
34754596 AACACTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.10
24 27 0.87
25 1 0.03
ACGTcount: A:0.37, C:0.33, G:0.05, T:0.25
Consensus pattern (25 bp):
CGTACCAAAATCCCCATTACCATAT
Found at i:34787379 original size:236 final size:236
Alignment explanation
Indices: 34786966--34787442 Score: 909
Period size: 236 Copynumber: 2.0 Consensus size: 236
34786956 TAAGCCCATC
*
34786966 TCAATATCATAATCAATATATGGAATGCATAAATACCCATACCAACCCTGCACTCCATCTCCTGT
1 TCAATATCATAATCAATATATGGAATGCATAAATACCCATACCAACCCTGCACTCCATCTCCTAT
*
34787031 CCAGCCCTACACTCTTGTGGGGATTAAATCGACCCACCCATCCCTACACTTCTTATGTAGCACCG
66 CCAGCCCTACACTCTTGTGGGGATTAAATCGACCCACCCATCCCTACACTCCTTATGTAGCACCG
*
34787096 ATTGCGGCACTAACCAATATTGCAGTAGAGCTGTTAATCACATAATTGACTAAAAGCCATTGGTG
131 ATTGCGGCACTAACCAATATTGCAGTAGAGCTGTCAATCACATAATTGACTAAAAGCCATTGGTG
34787161 GGTCCACAGTCGTCTCATGCAACTCGTGCGAAACTCACATA
196 GGTCCACAGTCGTCTCATGCAACTCGTGCGAAACTCACATA
34787202 TCAATATCATAATCAATATATGGAATGCATAAATACCCATACCAACCCTGCACTCCATCTCCTAT
1 TCAATATCATAATCAATATATGGAATGCATAAATACCCATACCAACCCTGCACTCCATCTCCTAT
34787267 CCAGCCCTACACTCTTGTGGGGATTAAATCGACCCACCCATCCCTACACTCCTTATGTAGCACCG
66 CCAGCCCTACACTCTTGTGGGGATTAAATCGACCCACCCATCCCTACACTCCTTATGTAGCACCG
34787332 ATTGCGGCACTAACCAATATTGCAGTAGAGCTGTCAATCACATAATTGACTAAAAGCCATTGGTG
131 ATTGCGGCACTAACCAATATTGCAGTAGAGCTGTCAATCACATAATTGACTAAAAGCCATTGGTG
* *
34787397 GGTCCACAGTCGTCTTATGCAACTCGTGCGAACCTCACATA
196 GGTCCACAGTCGTCTCATGCAACTCGTGCGAAACTCACATA
34787438 TCAAT
1 TCAAT
34787443 CACTTCCTCC
Statistics
Matches: 236, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
236 236 1.00
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (236 bp):
TCAATATCATAATCAATATATGGAATGCATAAATACCCATACCAACCCTGCACTCCATCTCCTAT
CCAGCCCTACACTCTTGTGGGGATTAAATCGACCCACCCATCCCTACACTCCTTATGTAGCACCG
ATTGCGGCACTAACCAATATTGCAGTAGAGCTGTCAATCACATAATTGACTAAAAGCCATTGGTG
GGTCCACAGTCGTCTCATGCAACTCGTGCGAAACTCACATA
Found at i:34787590 original size:27 final size:27
Alignment explanation
Indices: 34787560--34787626 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
34787550 GCATATGTCC
* *
34787560 ATAACAGTCATTTCATCTCCTAGGGGT
1 ATAACAGTCATTTCACCTCATAGGGGT
* * *
34787587 ATAACAATCATTTTACCTTATAGGGGT
1 ATAACAGTCATTTCACCTCATAGGGGT
**
34787614 ATTTCAGTCATTT
1 ATAACAGTCATTT
34787627 TACTCTTCGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (27 bp):
ATAACAGTCATTTCACCTCATAGGGGT
Found at i:34787627 original size:27 final size:27
Alignment explanation
Indices: 34787580--34787657 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
34787570 TTTCATCTCC
** *
34787580 TAGGGGTATAACAATCATTTTACCTTA
1 TAGGGGTATTTCAGTCATTTTACCTTA
*
34787607 TAGGGGTATTTCAGTCATTTTACTCTTC
1 TAGGGGTATTTCAGTCATTTTAC-CTTA
* *
34787635 GA-GGGTATTTCGGTCATTTTACC
1 TAGGGGTATTTCAGTCATTTTACC
34787658 CTTCGAGGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 39 0.89
28 4 0.09
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTCAGTCATTTTACCTTA
Found at i:34787661 original size:27 final size:27
Alignment explanation
Indices: 34787610--34787671 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
34787600 TACCTTATAG
*
34787610 GGGTATTTCAGTCATTTTACTCTTCGA
1 GGGTATTTCAGTCATTTTACCCTTCGA
*
34787637 GGGTATTTCGGTCATTTTACCCTTCGA
1 GGGTATTTCAGTCATTTTACCCTTCGA
34787664 GGGTATTT
1 GGGTATTT
34787672 TGATAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.44
Consensus pattern (27 bp):
GGGTATTTCAGTCATTTTACCCTTCGA
Found at i:34787680 original size:27 final size:27
Alignment explanation
Indices: 34787610--34787683 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
34787600 TACCTTATAG
* *
34787610 GGGTATTTC-AGTCATTTTACTCTTCGA
1 GGGTATTTCGA-TAATTTTACCCTTCGA
* *
34787637 GGGTATTTCGGTCATTTTACCCTTCGA
1 GGGTATTTCGATAATTTTACCCTTCGA
*
34787664 GGGTATTTTGATAATTTTAC
1 GGGTATTTCGATAATTTTAC
34787684 GCTACGGGGC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.45
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCCTTCGA
Found at i:34796169 original size:41 final size:41
Alignment explanation
Indices: 34796106--34796251 Score: 202
Period size: 41 Copynumber: 3.6 Consensus size: 41
34796096 GTACATCCAA
* * *
34796106 GGGTACCGAAGTACAAATAGGGGCACGTATGTATAATTCAG
1 GGGTACCAAAGTACAAACAGGGGCACGTATGTGTAATTCAG
* *
34796147 GGGTACCGAAGTAGAAACAGGGGCACGTATGTGTAATTCAG
1 GGGTACCAAAGTACAAACAGGGGCACGTATGTGTAATTCAG
* * * *
34796188 GGGTACTAAAGTACAAAAAGGGGCACGTATGTGCAATTTAG
1 GGGTACCAAAGTACAAACAGGGGCACGTATGTGTAATTCAG
*
34796229 GGGTACAAAAGTACAAACAGGGG
1 GGGTACCAAAGTACAAACAGGGG
34796252 TACTGAAGTA
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.19
Consensus pattern (41 bp):
GGGTACCAAAGTACAAACAGGGGCACGTATGTGTAATTCAG
Found at i:34796190 original size:21 final size:21
Alignment explanation
Indices: 34796124--34796190 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
34796114 AAGTACAAAT
*
34796124 AGGGGCACGTATGTATAATTC
1 AGGGGCACGTATGTGTAATTC
* * *
34796145 AGGGGTACCG-AAGTAG-AA-AC
1 AGGGGCA-CGTATGT-GTAATTC
34796165 AGGGGCACGTATGTGTAATTC
1 AGGGGCACGTATGTGTAATTC
34796186 AGGGG
1 AGGGG
34796191 TACTAAAGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
19 3 0.09
20 12 0.35
21 17 0.50
22 2 0.06
ACGTcount: A:0.30, C:0.13, G:0.36, T:0.21
Consensus pattern (21 bp):
AGGGGCACGTATGTGTAATTC
Found at i:34796252 original size:20 final size:20
Alignment explanation
Indices: 34796227--34796268 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
34796217 TGTGCAATTT
34796227 AGGGGTACAAAAGTACAAAC
1 AGGGGTACAAAAGTACAAAC
**
34796247 AGGGGTACTGAAGTACAAAC
1 AGGGGTACAAAAGTACAAAC
34796267 AG
1 AG
34796269 AGGCACGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.29, T:0.12
Consensus pattern (20 bp):
AGGGGTACAAAAGTACAAAC
Found at i:34799558 original size:29 final size:28
Alignment explanation
Indices: 34799437--34799559 Score: 122
Period size: 29 Copynumber: 4.3 Consensus size: 28
34799427 CTCCCTTTTA
* *
34799437 ACAAAGGCTTCCTTTAAGAGAGATAGTC
1 ACAAAGGCTTCCTTTAACAGAGATAGCC
*
34799465 ACAAAGGCTTCCGTTAACAGAGATAGCC
1 ACAAAGGCTTCCTTTAACAGAGATAGCC
* *
34799493 ACAAAGGATTCCTTTTAACAGAGATCA-CT
1 ACAAAGGCTTCC-TTTAACAGAGAT-AGCC
* * * * *
34799522 ATAGAGGCTTCCATTTAATAAATATAGCC
1 ACAAAGGCTTCC-TTTAACAGAGATAGCC
34799551 ACAAAGGCT
1 ACAAAGGCT
34799560 AACTTATATG
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
28 37 0.49
29 38 0.50
30 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (28 bp):
ACAAAGGCTTCCTTTAACAGAGATAGCC
Found at i:34817415 original size:50 final size:50
Alignment explanation
Indices: 34817298--34817537 Score: 203
Period size: 50 Copynumber: 4.7 Consensus size: 50
34817288 AAAGAGATCC
* * * *
34817298 CATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATCATAGGTC-
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCT
*
34817353 CTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCT
1 C-ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * * * * *
34817404 CATGGAAGACCACGTCTTGGACATGGCGTTGGCACCGAGATGAGAGGCCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
** * * * * **
34817454 CCCGTAAGACCATGTCTAGGATATGGCATGGGCACCGATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * * *
34817504 CATGTAAGACAATATATGGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
34817538 GTAAACATCC
Statistics
Matches: 153, Mismatches: 30, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
50 116 0.76
51 1 0.01
53 3 0.02
55 2 0.01
56 31 0.20
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
Found at i:34817530 original size:100 final size:100
Alignment explanation
Indices: 34817357--34817537 Score: 227
Period size: 100 Copynumber: 1.8 Consensus size: 100
34817347 TAGGTCCTAT
* * * ** * * * *
34817357 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCTCATGGAAGACCACGTCTT
1 GTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAACTCTCATGGAAGACAACATATG
*
34817422 GGACATGGCGTTGGCACCGAGATGAGAGGCCCCCC
66 GGACATGGCATTGGCACCGAGATGAGAGGCCCCCC
* * * *
34817457 GTAAGACCATGTCTAGGATATGGCATGGGCACCGATATGAGAACTCTCATGTAAGACAATATATG
1 GTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAACTCTCATGGAAGACAACATATG
*
34817522 GGATATGGCATTGGCA
66 GGACATGGCATTGGCA
34817538 GTAAACATCC
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
100 66 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (100 bp):
GTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAACTCTCATGGAAGACAACATATG
GGACATGGCATTGGCACCGAGATGAGAGGCCCCCC
Found at i:34820682 original size:50 final size:50
Alignment explanation
Indices: 34820565--34820804 Score: 203
Period size: 50 Copynumber: 4.7 Consensus size: 50
34820555 AAAGAGATCC
* * * *
34820565 CATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATCATAGGTC-
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCT
*
34820620 CTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCT
1 C-ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * * * * *
34820671 CATGGAAGACCACGTCTTGGACATGGCGTTGGCACCGAGATGAGAGGCCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
** * * * * **
34820721 CCCGTAAGACCATGTCTAGGATATGGCATGGGCACCGATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * * *
34820771 CATGTAAGACAATATATGGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
34820805 GTAAACATCC
Statistics
Matches: 153, Mismatches: 30, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
50 116 0.76
51 1 0.01
53 3 0.02
55 2 0.01
56 31 0.20
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
Found at i:34820797 original size:100 final size:100
Alignment explanation
Indices: 34820624--34820804 Score: 227
Period size: 100 Copynumber: 1.8 Consensus size: 100
34820614 TAGGTCCTAT
* * * ** * * * *
34820624 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCTCATGGAAGACCACGTCTT
1 GTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAACTCTCATGGAAGACAACATATG
*
34820689 GGACATGGCGTTGGCACCGAGATGAGAGGCCCCCC
66 GGACATGGCATTGGCACCGAGATGAGAGGCCCCCC
* * * *
34820724 GTAAGACCATGTCTAGGATATGGCATGGGCACCGATATGAGAACTCTCATGTAAGACAATATATG
1 GTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAACTCTCATGGAAGACAACATATG
*
34820789 GGATATGGCATTGGCA
66 GGACATGGCATTGGCA
34820805 GTAAACATCC
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
100 66 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (100 bp):
GTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAACTCTCATGGAAGACAACATATG
GGACATGGCATTGGCACCGAGATGAGAGGCCCCCC
Found at i:34821200 original size:14 final size:14
Alignment explanation
Indices: 34821181--34821207 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34821171 AGATTTATGC
34821181 TTACTTCTTTTATT
1 TTACTTCTTTTATT
34821195 TTACTTCTTTTAT
1 TTACTTCTTTTAT
34821208 AGTATTGCAA
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:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (14 bp):
TTACTTCTTTTATT
Found at i:34829267 original size:16 final size:16
Alignment explanation
Indices: 34829248--34829282 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
34829238 GAGTAAAAAA
34829248 GAAAAATGTGTGGAAT
1 GAAAAATGTGTGGAAT
* *
34829264 GAAAAGTGTGTTGAAT
1 GAAAAATGTGTGGAAT
34829280 GAA
1 GAA
34829283 TAGGTGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.26
Consensus pattern (16 bp):
GAAAAATGTGTGGAAT
Found at i:34829858 original size:27 final size:28
Alignment explanation
Indices: 34829823--34829890 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 28
34829813 AAATTTATGA
* *
34829823 AATTTTGTTATAAAATTAATTAAAATTT
1 AATTATGTTATAAAATTAAGTAAAATTT
* *
34829851 AA-TATGTTA-ATAATTTAAGTACAATTT
1 AATTATGTTATA-AAATTAAGTAAAATTT
*
34829878 AATTATTTTATAA
1 AATTATGTTATAA
34829891 TTATATTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.03
27 21 0.66
28 9 0.28
29 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (28 bp):
AATTATGTTATAAAATTAAGTAAAATTT
Found at i:34843003 original size:14 final size:14
Alignment explanation
Indices: 34842984--34843013 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34842974 ATGATTTTAA
34842984 GTTTAAAAGGGCAT
1 GTTTAAAAGGGCAT
34842998 GTTTAAAAGGGCAT
1 GTTTAAAAGGGCAT
34843012 GT
1 GT
34843014 AAAAACACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (14 bp):
GTTTAAAAGGGCAT
Found at i:34844235 original size:22 final size:22
Alignment explanation
Indices: 34844210--34844251 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34844200 TACAAAGTTG
34844210 ATAATAATTAA-TATATATTATA
1 ATAATAA-TAATTATATATTATA
*
34844232 ATAATTATAATTATATATTA
1 ATAATAATAATTATATATTA
34844252 GTTATTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAATAATAATTATATATTATA
Found at i:34847906 original size:27 final size:27
Alignment explanation
Indices: 34847876--34847935 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
34847866 CATCTTTTAC
*
34847876 GGGTATAACAGTTATTTTATCC-TATGG
1 GGGTATAACAGTCATTTTA-CCTTATGG
** *
34847903 GGGTATTTCGGTCATTTTACCTTATGG
1 GGGTATAACAGTCATTTTACCTTATGG
34847930 GGGTAT
1 GGGTAT
34847936 TTCGGTCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.20, C:0.12, G:0.27, T:0.42
Consensus pattern (27 bp):
GGGTATAACAGTCATTTTACCTTATGG
Found at i:34847936 original size:27 final size:27
Alignment explanation
Indices: 34847889--34847949 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
34847879 TATAACAGTT
34847889 ATTTTATCCTATGGGGGTATTTCGGTC
1 ATTTTATCCTATGGGGGTATTTCGGTC
34847916 ATTTTA-CCTTATGGGGGTATTTCGGTC
1 ATTTTATCC-TATGGGGGTATTTCGGTC
34847943 ATTTTAT
1 ATTTTAT
34847950 AATACGAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.16, C:0.13, G:0.23, T:0.48
Consensus pattern (27 bp):
ATTTTATCCTATGGGGGTATTTCGGTC
Found at i:34847960 original size:27 final size:27
Alignment explanation
Indices: 34847903--34847965 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
34847893 TATCCTATGG
** * *
34847903 GGGTATTTCGGTCATTTTACCTTATGG
1 GGGTATTTCGGTCATTTTACAATACGA
*
34847930 GGGTATTTCGGTCATTTTATAATACGA
1 GGGTATTTCGGTCATTTTACAATACGA
34847957 GGGTATTTC
1 GGGTATTTC
34847966 AATCATTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.13, G:0.25, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACAATACGA
Found at i:34855267 original size:24 final size:24
Alignment explanation
Indices: 34855240--34855294 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
34855230 TAAGATTAAG
*
34855240 TGAAGTAAGAATATATTCTTACAT
1 TGAAATAAGAATATATTCTTACAT
34855264 TGAAATAAGAATATATTCTTACAT
1 TGAAATAAGAATATATTCTTACAT
34855288 TGAAATA
1 TGAAATA
34855295 GTTTAATCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.36
Consensus pattern (24 bp):
TGAAATAAGAATATATTCTTACAT
Found at i:34858095 original size:29 final size:29
Alignment explanation
Indices: 34858053--34858145 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
34858043 ATGTGCTAAA
* * *
34858053 CGATGGTCGTAACCGTCCCTTTTCATATT
1 CGATGATCGAAACCATCCCTTTTCATATT
* * *
34858082 CGATGATTGGAACCATCCGTTTTCATATTT
1 CGATGATCGAAACCATCCCTTTTCATA-TT
* *
34858112 C-ATGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGATCGAAACCATCCCTTTTCA-TATT
34858141 CGATG
1 CGATG
34858146 GTTGTCACCA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 43 0.84
30 8 0.16
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (29 bp):
CGATGATCGAAACCATCCCTTTTCATATT
Found at i:34858176 original size:59 final size:59
Alignment explanation
Indices: 34858055--34858202 Score: 149
Period size: 59 Copynumber: 2.5 Consensus size: 59
34858045 GTGCTAAACG
* * * * * * *
34858055 ATGGTCGTAACCGTCCCTTTTCA-TATTCGATGATTGGAACCATCCGTTTTCATATTTC
1 ATGGTCGAAACCATCCCTTTTCATTAATCGATGATTGGAACCACCCCTTTTCATAATTA
* **
34858113 ATGGTCGAAACCATCCCTTTTCATTAATCGATGGTTGTCACCACCCCTTTTCATAATTA
1 ATGGTCGAAACCATCCCTTTTCATTAATCGATGATTGGAACCACCCCTTTTCATAATTA
* * *
34858172 ATGGTC-ATCACCATTCCTTTACATT-ATCGAT
1 ATGGTCGA-AACCATCCCTTTTCATTAATCGAT
34858203 AGCCAAAGCT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
58 28 0.37
59 47 0.63
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.38
Consensus pattern (59 bp):
ATGGTCGAAACCATCCCTTTTCATTAATCGATGATTGGAACCACCCCTTTTCATAATTA
Found at i:34858190 original size:29 final size:30
Alignment explanation
Indices: 34858122--34858254 Score: 85
Period size: 29 Copynumber: 4.5 Consensus size: 30
34858112 CATGGTCGAA
* **
34858122 ACCATCCCTTTTCATTAATCGATGGTTGTC
1 ACCATCCCTTTTCATTAATCAATGGTCATC
* *
34858152 ACCACCCCTTTTCA-TAATTAATGGTCATC
1 ACCATCCCTTTTCATTAATCAATGGTCATC
* * * * * *
34858181 ACCATTCCTTTACATT-ATCGATAGCCA-A
1 ACCATCCCTTTTCATTAATCAATGGTCATC
* * * **
34858209 AGCTATCCCTTTTCA-TATTCGATGGTTGTC
1 A-CCATCCCTTTTCATTAATCAATGGTCATC
34858239 ACCATCCCTTTTCATT
1 ACCATCCCTTTTCATT
34858255 GTTCAATGAT
Statistics
Matches: 75, Mismatches: 23, Indels: 10
0.69 0.21 0.09
Matches are distributed among these distances:
28 2 0.03
29 57 0.76
30 16 0.21
ACGTcount: A:0.23, C:0.29, G:0.10, T:0.38
Consensus pattern (30 bp):
ACCATCCCTTTTCATTAATCAATGGTCATC
Found at i:34864122 original size:29 final size:29
Alignment explanation
Indices: 34864081--34864242 Score: 123
Period size: 29 Copynumber: 5.6 Consensus size: 29
34864071 ACCTTTCCAT
*
34864081 AACCGTCCCTTTTCATATTCGATGGTCAA
1 AACCATCCCTTTTCATATTCGATGGTCAA
* * **
34864110 AACCATCCGTTTTCATATTCGATGCTTGA
1 AACCATCCCTTTTCATATTCGATGGTCAA
* ***
34864139 AACCATCCCTTTTCATTAATCGATGGTTGT
1 AACCATCCCTTTTCA-TATTCGATGGTCAA
* **
34864169 CACCATCCCTTTTCATAGTT-GATGGTCGTC
1 AACCATCCCTTTTCATA-TTCGATGGTC-AA
* *
34864199 AA-CATCCCTTTTCATTATT-GATAGCCAA
1 AACCATCCCTTTTCA-TATTCGATGGTCAA
* *
34864227 AGCTATCCCTTTTCAT
1 AACCATCCCTTTTCAT
34864243 TATCGATAGC
Statistics
Matches: 107, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
28 2 0.02
29 76 0.71
30 29 0.27
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (29 bp):
AACCATCCCTTTTCATATTCGATGGTCAA
Found at i:34864150 original size:58 final size:58
Alignment explanation
Indices: 34864081--34864304 Score: 170
Period size: 58 Copynumber: 3.8 Consensus size: 58
34864071 ACCTTTCCAT
* * *
34864081 AACCGTCCCTTTTCA-TATTCGATGGTCAAAACCATCCGTTTTCATATTCGATGCTTGA
1 AACCATCCCTTTTCATTATT-GATAGTCAAAACCATCCCTTTTCATATTCGATGCTTGA
* * **** * * *
34864139 AACCATCCCTTTTCATTAATCGATGGTTGTCACCATCCCTTTTCATAGTT-GATGGTCGTC
1 AACCATCCCTTTTCATT-ATTGATAGTCAAAACCATCCCTTTTCATA-TTCGATGCTTG-A
* * *
34864199 AA-CATCCCTTTTCATTATTGATAGCCAAAGCTATCCCTTTTCAT-TATCGATAGC-TGA
1 AACCATCCCTTTTCATTATTGATAGTCAAAACCATCCCTTTTCATAT-TCGAT-GCTTGA
* * * * * *
34864256 ATCTATCCCTTTTCATTATTGATAGTCGAAGCTATCCTTTTTCATATTC
1 AACCATCCCTTTTCATTATTGATAGTCAAAACCATCCCTTTTCATATTC
34864305 TTTAGCCGAA
Statistics
Matches: 130, Mismatches: 27, Indels: 18
0.74 0.15 0.10
Matches are distributed among these distances:
56 1 0.01
57 2 0.02
58 77 0.59
59 44 0.34
60 6 0.05
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (58 bp):
AACCATCCCTTTTCATTATTGATAGTCAAAACCATCCCTTTTCATATTCGATGCTTGA
Found at i:34864243 original size:29 final size:29
Alignment explanation
Indices: 34864202--34864359 Score: 194
Period size: 29 Copynumber: 5.4 Consensus size: 29
34864192 GGTCGTCAAC
*
34864202 ATCCCTTTTCATTATTGATAGCCAAAGCT
1 ATCCCTTTTCATTATTGATAGCCGAAGCT
* * *
34864231 ATCCCTTTTCATTATCGATAGCTGAATCT
1 ATCCCTTTTCATTATTGATAGCCGAAGCT
*
34864260 ATCCCTTTTCATTATTGATAGTCGAAGCT
1 ATCCCTTTTCATTATTGATAGCCGAAGCT
* **
34864289 ATCCTTTTTCA-TATTCTTTAGCCGAAGCT
1 ATCCCTTTTCATTATT-GATAGCCGAAGCT
* *
34864318 ATCCCTTTTCA-TATTCAATAGCAGAAGCT
1 ATCCCTTTTCATTATT-GATAGCCGAAGCT
34864347 ATCCCTTTTCATT
1 ATCCCTTTTCATT
34864360 GGTCGATTAT
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
28 4 0.04
29 106 0.95
30 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCATTATTGATAGCCGAAGCT
Found at i:34864298 original size:87 final size:87
Alignment explanation
Indices: 34864173--34864359 Score: 222
Period size: 87 Copynumber: 2.1 Consensus size: 87
34864163 GGTTGTCACC
*
34864173 ATCCCTTTTCA-TAGTTGATGGTCGTCAACATCCCTTTTCATTATT-GATAGCCAAAGCTATCCC
1 ATCCCTTTTCATTAGTTGATAGTCG-CAACATCCCTTTTCA-TATTCGATAGCCAAAGCTATCCC
* * *
34864236 TTTTCAT-TATCGATAGCTGAATCT
64 TTTTCATAT-TCAATAGCAGAAGCT
* ** *
34864260 ATCCCTTTTCATTA-TTGATAGTCG-AAGCTATCCTTTTTCATATTCTTTAGCCGAAGCTATCCC
1 ATCCCTTTTCATTAGTTGATAGTCGCAA-C-ATCCCTTTTCATATTCGATAGCCAAAGCTATCCC
34864323 TTTTCATATTCAATAGCAGAAGCT
64 TTTTCATATTCAATAGCAGAAGCT
34864347 ATCCCTTTTCATT
1 ATCCCTTTTCATT
34864360 GGTCGATTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
85 2 0.02
86 5 0.06
87 77 0.89
88 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (87 bp):
ATCCCTTTTCATTAGTTGATAGTCGCAACATCCCTTTTCATATTCGATAGCCAAAGCTATCCCTT
TTCATATTCAATAGCAGAAGCT
Found at i:34877832 original size:14 final size:14
Alignment explanation
Indices: 34877815--34877843 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34877805 ATACGCAAGA
34877815 AACTATACATACAG
1 AACTATACATACAG
34877829 AACTATACATACAG
1 AACTATACATACAG
34877843 A
1 A
34877844 CTAAGTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
AACTATACATACAG
Found at i:34881134 original size:28 final size:28
Alignment explanation
Indices: 34881093--34881205 Score: 151
Period size: 28 Copynumber: 4.1 Consensus size: 28
34881083 GTATCATACG
*
34881093 GTGT-GGCCTTAGCCCATTACAGAAATA
1 GTGTGGGCCTTAGCCCATTACAGAAACA
*
34881120 ATGTGGGCCTTAGCCCATTACA-ATAACA
1 GTGTGGGCCTTAGCCCATTACAGA-AACA
*
34881148 GTGTGGGCCTTAGCCCAATACAGAAACA
1 GTGTGGGCCTTAGCCCATTACAGAAACA
*
34881176 GTATGGGCC-TAGCCCATTACAGTAAACA
1 GTGTGGGCCTTAGCCCATTACAG-AAACA
34881204 GT
1 GT
34881206 ACAATGCAGT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
27 16 0.21
28 59 0.78
29 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (28 bp):
GTGTGGGCCTTAGCCCATTACAGAAACA
Found at i:34881352 original size:26 final size:25
Alignment explanation
Indices: 34881317--34881440 Score: 99
Period size: 26 Copynumber: 4.8 Consensus size: 25
34881307 AATATTGCAA
* *
34881317 CAAAGTTGCCAGTAATAGTAACAAAG
1 CAAAGCTGCCAGTAACAGTAAC-AAG
* *
34881343 CAAAACTGCCAGTAACAATAATGCAA-
1 CAAAGCTGCCAGTAACAGTAA--CAAG
* * *
34881369 CAAAGCTTCCAGTAATAGTAACGCAG
1 CAAAGCTGCCAGTAACAGTAAC-AAG
34881395 CAAAGCTGCCAGTAACAGTAACGCAA-
1 CAAAGCTGCCAGTAACAGTAA--CAAG
* *
34881421 AAAAGATGCCAGTAACAGTA
1 CAAAGCTGCCAGTAACAGTA
34881441 TAAGTGGCAT
Statistics
Matches: 78, Mismatches: 14, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 71 0.91
27 3 0.04
28 2 0.03
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (25 bp):
CAAAGCTGCCAGTAACAGTAACAAG
Found at i:34881390 original size:52 final size:51
Alignment explanation
Indices: 34881307--34881440 Score: 160
Period size: 52 Copynumber: 2.6 Consensus size: 51
34881297 CCAATAGACT
*
34881307 AATATTGCAACAAAGTTGCCAGTAATAGTAACAAAGCAAAACTGCCAGTAAC
1 AATAATGCAACAAAGTT-CCAGTAATAGTAACAAAGCAAAACTGCCAGTAAC
** *
34881359 AATAATGCAACAAAGCTTCCAGTAATAGTAACGCAGCAAAGCTGCCAGTAAC
1 AATAATGCAACAAAG-TTCCAGTAATAGTAACAAAGCAAAACTGCCAGTAAC
* * * * *
34881411 AGTAACGCAAAAAAGATGCCAGTAACAGTA
1 AATAATGCAACAAAG-TTCCAGTAATAGTA
34881441 TAAGTGGCAT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 69 0.97
53 2 0.03
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (51 bp):
AATAATGCAACAAAGTTCCAGTAATAGTAACAAAGCAAAACTGCCAGTAAC
Found at i:34881651 original size:27 final size:27
Alignment explanation
Indices: 34881621--34881734 Score: 70
Period size: 27 Copynumber: 4.2 Consensus size: 27
34881611 CATCTCCTAT
*
34881621 GGGTATAACAGTCATTTTACCTTTCGG
1 GGGTATAACAGTCATTTTACCTTTCAG
**** *
34881648 GGGTATTTTGGTCTTTTTACCTTTCAG
1 GGGTATAACAGTCATTTTACCTTTCAG
**** * *
34881675 GGGTATTTTGGTAATTTTACCCTTTGA-
1 GGGTATAACAGTCATTTTA-CCTTTCAG
* *
34881702 GGGTATTTA-AGTAATTTTACCTTTCAG
1 GGGTA-TAACAGTCATTTTACCTTTCAG
34881729 GGGTAT
1 GGGTAT
34881735 TTCAGTAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.10
27 57 0.79
28 8 0.11
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (27 bp):
GGGTATAACAGTCATTTTACCTTTCAG
Found at i:34881706 original size:54 final size:55
Alignment explanation
Indices: 34881662--34881964 Score: 336
Period size: 54 Copynumber: 5.6 Consensus size: 55
34881652 ATTTTGGTCT
** *
34881662 TTTTA-CCTTTCAGGGGTATTTTGGTAATTTTACCCTTTGAGGGTATTT-AAGTAA
1 TTTTACCCTTTCAGGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTTCGA-TAA
* *
34881716 TTTTA-CCTTTCAGGGGTATTTCAGTAAATTTACTCTTTGAGGGTATTTCGATAA
1 TTTTACCCTTTCAGGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTTCGATAA
* * *
34881770 TTTTACCCTAT-AGGGGTATTTCAATAATTTTACCTTTTGAGGGTATTTCGATAA
1 TTTTACCCTTTCAGGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTTCGATAA
* * * * * *
34881824 TTTTACCC-TTCAAGGGTGCTTT-GGTAATTTTACCCATCGGGGGTATTTCGATAA
1 TTTTACCCTTTCAGGGGT-ATTTCAGTAATTTTACCCTTTGAGGGTATTTCGATAA
* * * * *
34881878 TTTTACCCTTTGA-GGGTATTTCAATAATTTTACCCTTTGAGGTTATTTTGGTAA
1 TTTTACCCTTTCAGGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTTCGATAA
* *
34881932 TTTTACCCTAT-A-GGGTATTTCGGTAATTTTACC
1 TTTTACCCTTTCAGGGGTATTTCAGTAATTTTACC
34881965 TTACGGGTAT
Statistics
Matches: 211, Mismatches: 32, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
53 24 0.11
54 176 0.83
55 11 0.05
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (55 bp):
TTTTACCCTTTCAGGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTTCGATAA
Found at i:34881735 original size:27 final size:26
Alignment explanation
Indices: 34881634--34881991 Score: 196
Period size: 27 Copynumber: 13.4 Consensus size: 26
34881624 TATAACAGTC
* * *
34881634 ATTTTACCTTTCGGGGGTATTTTGGTC
1 ATTTTACCTTTCAGGGGTA-TTTAGTA
* *
34881661 TTTTTACCTTTCAGGGGTATTTTGGTA
1 ATTTTACCTTTCAGGGGTA-TTTAGTA
*
34881688 ATTTTACCCTTTGA-GGGTATTTAAGTA
1 ATTTTA-CCTTTCAGGGGTATTT-AGTA
34881715 ATTTTACCTTTCAGGGGTATTTCAGTA
1 ATTTTACCTTTCAGGGGTATTT-AGTA
* * *
34881742 AATTTACTCTTTGA-GGGTATTTCGATA
1 ATTTTAC-CTTTCAGGGGTATTTAG-TA
* *
34881769 ATTTTACCCTAT-AGGGGTATTTCAATA
1 ATTTTA-CCTTTCAGGGGTATTT-AGTA
* *
34881796 ATTTTACCTTT-TGAGGGTATTTCGATA
1 ATTTTACCTTTCAG-GGGTATTTAG-TA
* * * *
34881823 ATTTTACCCTTCAAGGGTGCTTTGGTA
1 ATTTTACCTTTCAGGGGT-ATTTAGTA
** * *
34881850 ATTTTACCCATCGGGGGTATTTCGATA
1 ATTTTACCTTTCAGGGGTATTTAG-TA
* *
34881877 ATTTTACCCTTTGA-GGGTATTTCAATA
1 ATTTTA-CCTTTCAGGGGTATTT-AGTA
* * *
34881904 ATTTTACCCTTTGA-GGTTATTTTGGTA
1 ATTTTA-CCTTTCAGGGGTA-TTTAGTA
* *
34881931 ATTTTACCCTAT-A-GGGTATTTCGGTA
1 ATTTTA-CCTTTCAGGGGTATTT-AGTA
*
34881957 ATTTTACC-TT-ACGGGTATTTCAGTA
1 ATTTTACCTTTCAGGGGTATTT-AGTA
*
34881982 GTTTTACCTT
1 ATTTTACCTT
34881992 ACGGGAGTAT
Statistics
Matches: 269, Mismatches: 43, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
24 2 0.01
25 24 0.09
26 36 0.13
27 185 0.69
28 22 0.08
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (26 bp):
ATTTTACCTTTCAGGGGTATTTAGTA
Found at i:34881748 original size:81 final size:78
Alignment explanation
Indices: 34881634--34881991 Score: 323
Period size: 81 Copynumber: 4.5 Consensus size: 78
34881624 TATAACAGTC
* ** ** *
34881634 ATTTTACCTTTCGGGGGTATTTTGGTCTTTTTACCTTTCAGGGGTATTTTGGTAATTTTACCCTT
1 ATTTTACCTTT-AGGGGTATTTCAGTAATTTTACCTTTCA-GGGTATTTTGGTAATTTTACCCTA
34881699 TGAGGGTATTTAAGTA
64 T-AGGGTATTTAAGTA
* * * *
34881715 ATTTTACCTTTCAGGGGTATTTCAGTAAATTTACTCTTTGAGGGTATTTCGATAATTTTACCCTA
1 ATTTTACCTTT-AGGGGTATTTCAGTAATTTTAC-CTTTCAGGGTATTTTGGTAATTTTACCCTA
34881780 TAGGGGTATTTCAA-TA
64 TA-GGGTATTT-AAGTA
* * **
34881796 ATTTTACCTTTTGAGGGTATTTC-GATAATTTTACCCTTCAAGGGTGCTTTGGTAATTTTACCC-
1 ATTTTACCTTTAG-GGGTATTTCAG-TAATTTTACCTTTC-AGGGTATTTTGGTAATTTTACCCT
* *
34881859 ATCGGGGGTATTT-CGATA
63 AT--AGGGTATTTAAG-TA
* * *
34881877 ATTTTACCCTTT-GAGGGTATTTCAATAATTTTACCCTTTGAGGTTATTTTGGTAATTTTACCCT
1 ATTTTA-CCTTTAG-GGGTATTTCAGTAATTTTA-CCTTTCAGGGTATTTTGGTAATTTTACCCT
**
34881941 ATAGGGTATTTCGGTA
63 ATAGGGTATTTAAGTA
* *
34881957 ATTTTACC-TTACGGGTATTTCAGTAGTTTTACCTT
1 ATTTTACCTTTAGGGGTATTTCAGTAATTTTACCTT
34881992 ACGGGAGTAT
Statistics
Matches: 230, Mismatches: 31, Indels: 36
0.77 0.10 0.12
Matches are distributed among these distances:
77 4 0.02
78 19 0.08
79 2 0.01
80 24 0.10
81 163 0.71
82 18 0.08
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (78 bp):
ATTTTACCTTTAGGGGTATTTCAGTAATTTTACCTTTCAGGGTATTTTGGTAATTTTACCCTATA
GGGTATTTAAGTA
Found at i:34888653 original size:28 final size:28
Alignment explanation
Indices: 34888616--34888722 Score: 144
Period size: 28 Copynumber: 3.9 Consensus size: 28
34888606 GTATCAGTAC
* * *
34888616 AGTGT-GGCCTTAGCCCATTACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGAAAT
* *
34888643 AGTATAGGCCTTAGCCCAATACAGAAAT
1 AGTGTGGGCCTTAGCCCAATACAGAAAT
*
34888671 ATTGTGGGCCTTAGCCCAATACAGAAAT
1 AGTGTGGGCCTTAGCCCAATACAGAAAT
*
34888699 AGTGTGGGCCTTAGCCCATTACAG
1 AGTGTGGGCCTTAGCCCAATACAG
34888723 TAAACATTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 4 0.06
28 66 0.94
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGAAAT
Found at i:34888867 original size:26 final size:26
Alignment explanation
Indices: 34888838--34888912 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 26
34888828 ACCAATATTA
* * *
34888838 CAGCAAAGCTGCCAGTAATAGTAATG
1 CAGCAAAGCTACCAATAACAGTAATG
**
34888864 CAGCAAAGCTACCAATAACAGTAACA
1 CAGCAAAGCTACCAATAACAGTAATG
* * *
34888890 TAGCAAAACTACTAATAACAGTA
1 CAGCAAAGCTACCAATAACAGTA
34888913 TATATGGCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (26 bp):
CAGCAAAGCTACCAATAACAGTAATG
Found at i:34889163 original size:27 final size:26
Alignment explanation
Indices: 34889108--34889376 Score: 222
Period size: 27 Copynumber: 10.0 Consensus size: 26
34889098 TAACTGTCAC
*
34889108 TTTACCCTTTG-GGAGTATTTT-AGTCAT
1 TTTA-CCTTTGAGG-GTATTTTGA-TAAT
* *
34889135 TTTACATTTCGAGAGTATTTTGATAAT
1 TTTACCTTT-GAGGGTATTTTGATAAT
* *
34889162 TTTACC-CTGAGGGTATTTTGGTAAT
1 TTTACCTTTGAGGGTATTTTGATAAT
*
34889187 TTTACCTTATGAGGGTATTTCGATAAT
1 TTTACCTT-TGAGGGTATTTTGATAAT
*
34889214 TTTAGCCTTTGAGGGTATTTCGATAAT
1 TTTA-CCTTTGAGGGTATTTTGATAAT
* *
34889241 TTTACCCTTCGAGGGTATTTTGGTAAT
1 TTTA-CCTTTGAGGGTATTTTGATAAT
* *
34889268 TTTAGCCTATGGGGGTATTTT-AGTAAT
1 TTTA-CCTTTGAGGGTATTTTGA-TAAT
** **
34889295 TTTACCCTTAAAGGGTATTTAAATAAT
1 TTTA-CCTTTGAGGGTATTTTGATAAT
* *
34889322 TTTACCTTTCGAGGTTATTTCGATAAT
1 TTTACCTTT-GAGGGTATTTTGATAAT
* * *
34889349 TTTACCCTATGGGGGTATTTCGATAAT
1 TTTA-CCTTTGAGGGTATTTTGATAAT
34889376 T
1 T
34889377 GGTGGCCCAT
Statistics
Matches: 199, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
25 21 0.11
26 9 0.05
27 158 0.79
28 11 0.06
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (26 bp):
TTTACCTTTGAGGGTATTTTGATAAT
Found at i:34889285 original size:81 final size:80
Alignment explanation
Indices: 34889149--34889376 Score: 291
Period size: 81 Copynumber: 2.8 Consensus size: 80
34889139 CATTTCGAGA
* *
34889149 GTATTTTGATAATTTTACCC-T-GAGGGTATTTTGGTAATTTTACCTTATGAGGGTATTTCGATA
1 GTATTTAGATAATTTTACCCTTCGAGGGTATTTTGGTAATTTTACC-TATGGGGGTATTTCGATA
* **
34889212 ATTTTAGCCTTTGAGG
65 ATTTTACCCTTAAAGG
* *
34889228 GTATTTCGATAATTTTACCCTTCGAGGGTATTTTGGTAATTTTAGCCTATGGGGGTATTT-TAGT
1 GTATTTAGATAATTTTACCCTTCGAGGGTATTTTGGTAATTTTA-CCTATGGGGGTATTTCGA-T
34889292 AATTTTACCCTTAAAGG
64 AATTTTACCCTTAAAGG
* * * * *
34889309 GTATTTAAATAATTTTACCTTTCGAGGTTATTTCGATAATTTTACCCTATGGGGGTATTTCGATA
1 GTATTTAGATAATTTTACCCTTCGAGGGTATTTTGGTAATTTTA-CCTATGGGGGTATTTCGATA
34889374 ATT
65 ATT
34889377 GGTGGCCCAT
Statistics
Matches: 130, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
79 19 0.15
80 2 0.02
81 106 0.82
82 3 0.02
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (80 bp):
GTATTTAGATAATTTTACCCTTCGAGGGTATTTTGGTAATTTTACCTATGGGGGTATTTCGATAA
TTTTACCCTTAAAGG
Found at i:34891422 original size:14 final size:14
Alignment explanation
Indices: 34891403--34891432 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34891393 TGTATGTGCA
34891403 TTAGCAAATTTTCT
1 TTAGCAAATTTTCT
34891417 TTAGCAAATTTTCT
1 TTAGCAAATTTTCT
34891431 TT
1 TT
34891433 TTAAAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTAGCAAATTTTCT
Found at i:34900501 original size:20 final size:20
Alignment explanation
Indices: 34900472--34900511 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
34900462 ATGAAAATCC
34900472 GTAAAGTATGTGAAATTAAA
1 GTAAAGTATGTGAAATTAAA
*
34900492 GTAAATTATGTGAAATTAAA
1 GTAAAGTATGTGAAATTAAA
34900512 CGATATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (20 bp):
GTAAAGTATGTGAAATTAAA
Found at i:34911466 original size:11 final size:11
Alignment explanation
Indices: 34911450--34911474 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34911440 TATTATTTAC
34911450 ATTTGATGATA
1 ATTTGATGATA
34911461 ATTTGATGATA
1 ATTTGATGATA
34911472 ATT
1 ATT
34911475 GAGTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (11 bp):
ATTTGATGATA
Found at i:34924166 original size:33 final size:32
Alignment explanation
Indices: 34924101--34924164 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
34924091 TTAAAAAACA
*
34924101 ATTTATATTTATAATTAATGTTTTGAAATTTT
1 ATTTATATTTATAATTAATGTTTTAAAATTTT
*
34924133 ATTTTTATTTATAATTTAATG-TTTAAAATTTT
1 ATTTATATTTATAA-TTAATGTTTTAAAATTTT
34924165 TAATATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 23 0.79
33 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (32 bp):
ATTTATATTTATAATTAATGTTTTAAAATTTT
Found at i:34927150 original size:9 final size:9
Alignment explanation
Indices: 34927136--34927168 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
34927126 CAACTTAGTA
34927136 TTCTGTTAT
1 TTCTGTTAT
*
34927145 TTCTGTTAC
1 TTCTGTTAT
34927154 TTCTGTTAT
1 TTCTGTTAT
34927163 TT-TGTT
1 TTCTGTT
34927169 GAGAATGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.09, C:0.12, G:0.12, T:0.67
Consensus pattern (9 bp):
TTCTGTTAT
Found at i:34927202 original size:46 final size:46
Alignment explanation
Indices: 34927150--34927242 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
34927140 GTTATTTCTG
34927150 TTACTTCTGTTATTTTGTTGAGAATGTGAAATATTTAAAACTTATT
1 TTACTTCTGTTATTTTGTTGAGAATGTGAAATATTTAAAACTTATT
*
34927196 TTACTTCTGTTATTTTGTTGAGAATGTGTAATATTTAAAACTTATT
1 TTACTTCTGTTATTTTGTTGAGAATGTGAAATATTTAAAACTTATT
34927242 T
1 T
34927243 GAAATAAGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (46 bp):
TTACTTCTGTTATTTTGTTGAGAATGTGAAATATTTAAAACTTATT
Found at i:34928734 original size:14 final size:14
Alignment explanation
Indices: 34928715--34928742 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34928705 GAAGACAATG
34928715 AAAAATAGAAAAAT
1 AAAAATAGAAAAAT
34928729 AAAAATAGAAAAAT
1 AAAAATAGAAAAAT
34928743 TTAAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAATAGAAAAAT
Found at i:34933075 original size:21 final size:21
Alignment explanation
Indices: 34933046--34933085 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34933036 CATTTAATAT
* *
34933046 ATCACTATTATTTATTATTTA
1 ATCAATATTATTAATTATTTA
34933067 ATCAATATTATTAATTATT
1 ATCAATATTATTAATTATT
34933086 ATGAAGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
ATCAATATTATTAATTATTTA
Found at i:34935995 original size:50 final size:50
Alignment explanation
Indices: 34935941--34936047 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
34935931 ACATGAGAGT
* * * *
34935941 TCTCATATTGGTACCCATGCCATGTCCTAGACATAGTCTTACAAGGGACC
1 TCTCATATCGGTACCAACGCCATGTCCCAGACATAGTCTTACAAGGGACC
* * * ***
34935991 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTATGTGGGACC
1 TCTCATATCGGTACCAACGCCATGTCCCAGACATAGTCTTACAAGGGACC
34936041 TCTCATA
1 TCTCATA
34936048 ACCTCAATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (50 bp):
TCTCATATCGGTACCAACGCCATGTCCCAGACATAGTCTTACAAGGGACC
Found at i:34945788 original size:24 final size:24
Alignment explanation
Indices: 34945761--34945811 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
34945751 ACAAAATGAC
34945761 TAAGTCCCTATACAAGCCAGAACT
1 TAAGTCCCTATACAAGCCAGAACT
* *
34945785 TAAGTCCCTATACATGCCAGAAGT
1 TAAGTCCCTATACAAGCCAGAACT
34945809 TAA
1 TAA
34945812 AACATTTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (24 bp):
TAAGTCCCTATACAAGCCAGAACT
Found at i:34946058 original size:20 final size:20
Alignment explanation
Indices: 34946023--34946071 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
34946013 ATCATGGTCT
*
34946023 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
34946042 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
34946062 TTGCTTACTT
1 TTGCTTACTT
34946072 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:34946415 original size:50 final size:49
Alignment explanation
Indices: 34946361--34946510 Score: 156
Period size: 50 Copynumber: 3.0 Consensus size: 49
34946351 ACTTGAGAGT
* * *
34946361 TCTCATATCGGTGCCTATCCCATGTCCCAGACATGGTCTAATGGGGGACC
1 TCTCATCTCGGTGCC-ATCCCATGTCCCAGACATGGTCTAACGCGGGACC
* * ** * * *
34946411 TCTCATCTTGGTGCCAACGCCATGTCTTAGACACGGCCTTACGCGGGACC
1 TCTCATCTCGGTGCCATC-CCATGTCCCAGACATGGTCTAACGCGGGACC
* * *
34946461 TCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACC
1 TCTCATCTCGGTGCC-ATCCCATGTCCCAGACATGGTCTAACGCGGGACC
34946511 GTTCAGAATC
Statistics
Matches: 80, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.03
50 77 0.96
51 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.24, T:0.25
Consensus pattern (49 bp):
TCTCATCTCGGTGCCATCCCATGTCCCAGACATGGTCTAACGCGGGACC
Found at i:34948948 original size:17 final size:17
Alignment explanation
Indices: 34948915--34948950 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34948905 TAGAATCGGG
*
34948915 TTGAGAAAATCATTTAA
1 TTGAGAAAATCAATTAA
*
34948932 TTGAGAAAATTAATTAA
1 TTGAGAAAATCAATTAA
34948949 TT
1 TT
34948951 AAAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATCAATTAA
Found at i:34954388 original size:27 final size:27
Alignment explanation
Indices: 34954350--34954742 Score: 372
Period size: 27 Copynumber: 14.6 Consensus size: 27
34954340 AGTCGTGGGC
* *
34954350 AAATGATCGAAATACCCCCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
34954377 AAATGATCGAAATATCCTC-AAGAGGTA
1 AAATTATCGAAATACCCTCGAAG-GGTA
34954404 AAATTA-CGGAAATACCCTCGAAGGGTA
1 AAATTATC-GAAATACCCTCGAAGGGTA
* *
34954431 AAATT-TCCAAAATACCCCCGAAGGGTA
1 AAATTAT-CGAAATACCCTCGAAGGGTA
* * *
34954458 AATTTACCGAAATACCCTTGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
34954485 AAATTATCAAAATACCCGCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
** *
34954512 AAATTATCGGCATACCCTCGAAGAGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * * **
34954539 AAATTACCAAAATACCTTCGTTGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * *
34954566 AAATGA-CTGAAATACCCTC-ATTGTGT-
1 AAATTATC-GAAATACCCTCGA-AGGGTA
34954592 AAATTATCGAAATACCCTCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
34954619 AATTTA-CTGAAATACTCTCGAAGGGTA
1 AAATTATC-GAAATACCCTCGAAGGGTA
* *
34954646 AAATTA-CTAAAATACCCTC-AATTGGTA
1 AAATTATC-GAAATACCCTCGAA-GGGTA
* * *
34954673 AAATTATTGAAATACCCTTGAAGGATA
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
34954700 AAACTATCGAAATACCCCCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
34954727 AAATTATCGAAATACC
1 AAATTATCGAAATACC
34954743 TCCAATAGGT
Statistics
Matches: 297, Mismatches: 54, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
26 27 0.09
27 264 0.89
28 6 0.02
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGAAGGGTA
Found at i:34955034 original size:26 final size:26
Alignment explanation
Indices: 34955011--34955061 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
34955001 GTGATACTAT
* * * *
34955011 TACTGGCAGCTTTGTTGCATTACTGA
1 TACTAGCAGATTTGCTGCAATACTGA
34955037 TACTAGCAGATTTGCTGCAATACTG
1 TACTAGCAGATTTGCTGCAATACTG
34955062 GTGTGTTGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (26 bp):
TACTAGCAGATTTGCTGCAATACTGA
Found at i:34956613 original size:27 final size:27
Alignment explanation
Indices: 34956571--34956718 Score: 181
Period size: 27 Copynumber: 5.5 Consensus size: 27
34956561 TGATCCAACC
* * *
34956571 TAGGGTAAAATAACCGAAATAGCCCTC-
1 TAGGGTAAAATGATCGAAATA-CCCCCA
* *
34956598 TAGGGTAGAATGACCGAAATACCCCCA
1 TAGGGTAAAATGATCGAAATACCCCCA
34956625 TAGGGTAAAATGATCGAAATACCCCCA
1 TAGGGTAAAATGATCGAAATACCCCCA
* * *
34956652 TAGGGTAGAATGATGGAAATATCCCCA
1 TAGGGTAAAATGATCGAAATACCCCCA
* * *
34956679 TAGGATAAAATGATCGAAATATCTCCA
1 TAGGGTAAAATGATCGAAATACCCCCA
34956706 TAGGGTAAAATGA
1 TAGGGTAAAATGA
34956719 CTTTTATACC
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
26 4 0.04
27 103 0.96
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (27 bp):
TAGGGTAAAATGATCGAAATACCCCCA
Found at i:34957153 original size:29 final size:32
Alignment explanation
Indices: 34957120--34957179 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 32
34957110 TATGTGTACT
*
34957120 GATTAATGAT-TT-TATACTGTT-ACTGCATC
1 GATTAATGATATTACATACTGTTCACTGCATC
34957149 GATTAATGATATTACATACTGTTCACTGCAT
1 GATTAATGATATTACATACTGTTCACTGCAT
34957180 GACTAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 10 0.37
30 2 0.07
31 8 0.30
32 7 0.26
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (32 bp):
GATTAATGATATTACATACTGTTCACTGCATC
Found at i:34961800 original size:18 final size:18
Alignment explanation
Indices: 34961777--34961811 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34961767 ATAGAAACAA
34961777 AAAACTAAAAAAATAAAG
1 AAAACTAAAAAAATAAAG
*
34961795 AAAACTAAAGAAATAAA
1 AAAACTAAAAAAATAAA
34961812 ATTGTTTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAACTAAAAAAATAAAG
Found at i:34970688 original size:16 final size:16
Alignment explanation
Indices: 34970667--34970698 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34970657 TGATTGAAAG
*
34970667 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
34970683 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
34970699 GCAGCAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:34971313 original size:90 final size:90
Alignment explanation
Indices: 34971160--34971334 Score: 314
Period size: 90 Copynumber: 1.9 Consensus size: 90
34971150 GGTAAGAAGA
* * * *
34971160 TATGTGAGTTTAGTTTCGTGGAAAATTTATGGAACTTATTTTGGAGCTCCGTAGCTCTGAATAAA
1 TATGTGAGTCTAGTTTCGTGGAAAATTGACGGAACTTAATTTGGAGCTCCGTAGCTCTGAATAAA
34971225 AATAATTTAGTGACTGTAACACGAC
66 AATAATTTAGTGACTGTAACACGAC
34971250 TATGTGAGTCTAGTTTCGTGGAAAATTGACGGAACTTAATTTGGAGCTCCGTAGCTCTGAATAAA
1 TATGTGAGTCTAGTTTCGTGGAAAATTGACGGAACTTAATTTGGAGCTCCGTAGCTCTGAATAAA
34971315 AATAATTTAGTGACTGTAAC
66 AATAATTTAGTGACTGTAAC
34971335 TCAACTAGAC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (90 bp):
TATGTGAGTCTAGTTTCGTGGAAAATTGACGGAACTTAATTTGGAGCTCCGTAGCTCTGAATAAA
AATAATTTAGTGACTGTAACACGAC
Found at i:34975920 original size:101 final size:102
Alignment explanation
Indices: 34975805--34975989 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
34975795 AAAGTGATGG
* * *
34975805 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTAAGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
34975868 ACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
*
34975906 TCACGTGTGTAGTACTATGTGCAAGCTACTAAGTGTATCAGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAAGCTACTAAGTGTACCAGATAGTGATGGTCACATGTGTAGTA
34975971 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
34975990 TGAACCGGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 39 0.50
102 35 0.45
103 4 0.05
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTAAGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
Found at i:34975935 original size:51 final size:49
Alignment explanation
Indices: 34975802--34975991 Score: 220
Period size: 51 Copynumber: 3.8 Consensus size: 49
34975792 GTGAAAGTGA
* *
34975802 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAT-GAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCA-AATAG-T
* * *
34975852 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAAATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAAATAG-T
* * * * * *
34975902 TCGATCACGTGTGTAGTACTATGTGCAAGCTACTAAGTGTATCAGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAAATAGT
34975952 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
34975992 AACCGGTATC
Statistics
Matches: 117, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
49 3 0.03
50 41 0.35
51 72 0.62
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAAATAGT
Found at i:34975991 original size:26 final size:26
Alignment explanation
Indices: 34975911--34975991 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
34975901 TTCGATCACG
*
34975911 TGTGTAGTACTATGTGCAAGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
34975937 AGTGTA-T-CAGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
34975962 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
34975988 TGTG
1 TGTG
34975992 AACCGGTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.44
26 21 0.51
27 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:34979420 original size:51 final size:50
Alignment explanation
Indices: 34979297--34979430 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
34979287 AAAGTGATGG
* * * * *
34979297 TCACGTGTGTAGTACTATGTGCAGTCTACTACGTGTACCAGAATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATGATAGA
* * * *
34979347 TCGCATGTGTAGCACTATGTGCAGGCTACTATGCGTACC-GAATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAAT-G-ATAGA
34979398 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
34979431 TGAACCGATA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
49 4 0.06
50 34 0.48
51 33 0.46
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATGATAGA
Found at i:34979438 original size:51 final size:49
Alignment explanation
Indices: 34979297--34979438 Score: 167
Period size: 51 Copynumber: 2.8 Consensus size: 49
34979287 AAAGTGATGG
* * * *
34979297 TCACGTGTGTAGTACTATGTGCAGTCTACTACGTGTACCAGAATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAATGATAGA
* * * * *
34979347 TCGCATGTGTAGCACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAT-G-ATAGA
*
34979398 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGA
34979439 TATCATTAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 4 0.05
50 34 0.44
51 39 0.51
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (49 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGATAGA
Found at i:34979525 original size:46 final size:44
Alignment explanation
Indices: 34979437--34979525 Score: 124
Period size: 46 Copynumber: 2.0 Consensus size: 44
34979427 TATGTGAACC
*
34979437 GATATCATTAATTATAAGGTGGTTGCTATGTGCTGAGCCCACCG
1 GATATCATTAATTATAAGGTGGTTGCTATGTGCTGAACCCACCG
* * *
34979481 GATATCATTGATTATAAAGGGTGGTTGCTGTGTGCTGAATCCACC
1 GATATCATTAATTAT-AA-GGTGGTTGCTATGTGCTGAACCCACC
34979526 ATGTATCTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 14 0.36
45 2 0.05
46 23 0.59
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (44 bp):
GATATCATTAATTATAAGGTGGTTGCTATGTGCTGAACCCACCG
Found at i:34983809 original size:40 final size:40
Alignment explanation
Indices: 34983778--34984067 Score: 422
Period size: 40 Copynumber: 7.3 Consensus size: 40
34983768 GGACTAAGAT
* * * *
34983778 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
34983818 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
34983858 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
34983898 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
34983938 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
34983978 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
34984018 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
34984057 CCGAAGGCATT
1 CCGAAGGCATT
34984068 TGAACGAGGA
Statistics
Matches: 235, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.14
40 198 0.84
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:34983862 original size:80 final size:80
Alignment explanation
Indices: 34983725--34984067 Score: 424
Period size: 80 Copynumber: 4.3 Consensus size: 80
34983715 TTGAATGCTG
* * * * * * **
34983725 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
34983788 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * * *
34983804 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
34983869 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
34983885 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
34983950 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
* *
34983965 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
34984029 GTGTGAGTTACTAAA
66 GTGCGAGTTATTAAA
* * *
34984044 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34984068 TGAACGAGGA
Statistics
Matches: 236, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
79 35 0.15
80 191 0.81
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:34983941 original size:120 final size:118
Alignment explanation
Indices: 34983725--34984069 Score: 424
Period size: 120 Copynumber: 2.9 Consensus size: 118
34983715 TTGAATGCTG
* * * * * * **
34983725 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCA-
* * * *
34983788 TTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
63 TTGTGCGAGTTATAAA-TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
34983845 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-
* * *
34983910 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
65 GTGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
34983965 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
* * * *
34984030 TGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
66 TGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTG
34984070 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
119 38 0.19
120 151 0.76
121 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTATAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:34991835 original size:40 final size:39
Alignment explanation
Indices: 34991804--34992013 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
34991794 GGACTAAGAT
* *
34991804 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
34991844 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
34991884 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
34991924 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
34991964 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
34992003 CCGAAGGCATT
1 CCGAAGGCATT
34992014 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:34991967 original size:120 final size:120
Alignment explanation
Indices: 34991751--34992013 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
34991741 TTGAATGCTG
* *
34991751 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
34991815 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
34991871 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
34991934 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
34991990 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34992014 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:34992033 original size:79 final size:80
Alignment explanation
Indices: 34991752--34992048 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
34991742 TGAATGCTGT
* ** * * * **
34991752 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
34991815 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
34991832 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
34991896 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
34991912 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
34991976 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
34991991 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
34992049 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Done.