Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 158 of 218
Found at i:48132121 original size:252 final size:252
Alignment explanation
Indices: 48131670--48132193 Score: 709
Period size: 252 Copynumber: 2.1 Consensus size: 252
48131660 AAGGCCAAAT
* * * * *
48131670 AGGAACTACTGT-AGAAAAAGAGTGTCCACATGGGAGCTTTTTTCAGTAATTTTGCTGACAGTAC
1 AGGAACTACTGTAAAAAAAAAAGCGTCCACATGGGAGCATTTTTCAGTAATTTTGCTAACAGTAC
* *
48131734 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAGCCGTCTTTTCAAAATTATTTTTTCAGGA
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAACCGTCTTTTCAAAATTATTTTTTCAAGA
48131799 ACTACTATAAAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGCATCAT
131 ACTACTATAAAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGCATCAT
* * *
48131864 GCTTGAAGCTTTTTTGACACTATTTTTTTTAAAACCATCTTCTCAAAATTATTTTTTC
196 GCTTGAAGCATTTTTGACACTA-TCTTTTCAAAACCATCTTCTCAAAATTATTTTTTC
* *
48131922 AGGAACTACTGTAAAAAAAAAAGCGTCCACGTGGGAG-ATTTTTCAGTAATTTTGCTAACAGTCC
1 AGGAACTACTGTAAAAAAAAAAGCGTCCACATGGGAGCATTTTTCAGTAATTTTGCTAACAGTAC
* * * **
48131986 ATCTTGCTTGAAGTGCTTTTT-ACATTATTTTTTTAGAATTGTCTTCTT-AAAATTA-TTTTTCA
66 ATCCTGCTTGAAGCG-TTTTTGACACTA-TTTTTTAGAACCGTCTT-TTCAAAATTATTTTTTCA
* * * * *
48132048 AGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGC-TTTTTCTAGTACTTTTGCTGACAGTGCA
128 AGAACTACTATAAAAAAAGAGCATCCACGTGGGAGCTTTTTTC-AATAATTTTACTGACAGTGCA
* * * *
48132112 TCCTGCTTGAAGCATTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTATTTTTTC
192 TCATGCTTGAAGCATTTTTGACACTATCTTTTCAAAACCATCTTCTCAAAATTATTTTTTC
**
48132173 AAAAACTACTGTAAAAAAAAA
1 AGGAACTACTGTAAAAAAAAA
48132194 CAAAATTCTT
Statistics
Matches: 239, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
251 56 0.23
252 135 0.56
253 46 0.19
254 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (252 bp):
AGGAACTACTGTAAAAAAAAAAGCGTCCACATGGGAGCATTTTTCAGTAATTTTGCTAACAGTAC
ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTAGAACCGTCTTTTCAAAATTATTTTTTCAAGA
ACTACTATAAAAAAAGAGCATCCACGTGGGAGCTTTTTTCAATAATTTTACTGACAGTGCATCAT
GCTTGAAGCATTTTTGACACTATCTTTTCAAAACCATCTTCTCAAAATTATTTTTTC
Found at i:48132316 original size:33 final size:31
Alignment explanation
Indices: 48132279--48132350 Score: 110
Period size: 34 Copynumber: 2.3 Consensus size: 31
48132269 CACAAAATTA
48132279 TTTTAAAAAAA-TCTAAACCCTAATTTAATTAAT
1 TTTTAAAAAAATTCTAAACCCTAATTT-ATT--T
48132312 TTTTAAAAAAATTCTAAACCCTAATTTATTT
1 TTTTAAAAAAATTCTAAACCCTAATTTATTT
48132343 TTTTAAAA
1 TTTTAAAA
48132351 TCCCTAAACC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
31 9 0.24
33 14 0.37
34 15 0.39
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTAAAAAAATTCTAAACCCTAATTTATTT
Found at i:48132350 original size:29 final size:31
Alignment explanation
Indices: 48132274--48132364 Score: 98
Period size: 34 Copynumber: 2.9 Consensus size: 31
48132264 CTAACCACAA
* *
48132274 AATTATTTTAAAAAAATCTAAACCCTAATTT
1 AATTATTTTTAAAAATTCTAAACCCTAATTT
48132305 AATTAATTTTTAAAAAAATTCTAAACCCTAATTT
1 AATT-ATTTTT--AAAAATTCTAAACCCTAATTT
*
48132339 -ATT-TTTTT-AAAATCCCTAAACCCTAA
1 AATTATTTTTAAAAAT-TCTAAACCCTAA
48132365 ATAAATAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
28 5 0.09
29 11 0.21
31 9 0.17
32 5 0.09
33 3 0.06
34 20 0.38
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (31 bp):
AATTATTTTTAAAAATTCTAAACCCTAATTT
Found at i:48132416 original size:8 final size:8
Alignment explanation
Indices: 48132400--48132440 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
48132390 ACAAAACACT
*
48132400 AACCCTAA
1 AACCATAA
48132408 AACCATAA
1 AACCATAA
48132416 AACCATAA
1 AACCATAA
*
48132424 AACCCTAA
1 AACCATAA
*
48132432 ACCCATAA
1 AACCATAA
48132440 A
1 A
48132441 CCCTCGGCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.56, C:0.32, G:0.00, T:0.12
Consensus pattern (8 bp):
AACCATAA
Found at i:48136067 original size:21 final size:21
Alignment explanation
Indices: 48136019--48136115 Score: 87
Period size: 19 Copynumber: 4.7 Consensus size: 21
48136009 ATCTTCAATA
*
48136019 ATATGCAATTTTAGATATG--
1 ATATGCAATCTTAGATATGAT
48136038 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
* *
48136059 ATATACAATCTTGGATATG--
1 ATATGCAATCTTAGATATGAT
48136078 ATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
48136102 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
48136116 GATTTAACTT
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
19 29 0.45
20 3 0.05
21 17 0.27
22 6 0.09
23 9 0.14
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:48136092 original size:19 final size:19
Alignment explanation
Indices: 48136019--48136089 Score: 97
Period size: 19 Copynumber: 3.6 Consensus size: 19
48136009 ATCTTCAATA
*
48136019 ATATGCAATTTTAGATATG
1 ATATGCAATCTTAGATATG
48136038 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
* *
48136057 ATATATACAATCTTGGATATG
1 --ATATGCAATCTTAGATATG
48136078 ATATGCAATCTT
1 ATATGCAATCTT
48136090 GGAAGATATG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 29 0.63
21 17 0.37
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:48141730 original size:14 final size:15
Alignment explanation
Indices: 48141704--48141736 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
48141694 TCCCAAGTCG
48141704 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
48141719 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
48141733 GGAA
1 GGAA
48141737 AAATGATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:48141831 original size:12 final size:12
Alignment explanation
Indices: 48141798--48141824 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48141788 AAAATATTTC
48141798 AAAAAAAAAGAA
1 AAAAAAAAAGAA
48141810 AAAAAAAAAGAA
1 AAAAAAAAAGAA
48141822 AAA
1 AAA
48141825 GCAAAAGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:48143198 original size:88 final size:88
Alignment explanation
Indices: 48143036--48143726 Score: 961
Period size: 88 Copynumber: 7.9 Consensus size: 88
48143026 AGCAGATCAG
* * * * * *
48143036 TGAAGATAACAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGGTCGAAGACACCAACCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
* *
48143101 CCTTGGGTTGTAGTGGAGCAAGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* * * * * *
48143124 TAAAAATAGCAGATATTGCCTTCCTGCACCGACAACGAAGCAGATCGAAGACACTAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
*
48143189 CCCTAGGTTGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* * * *
48143212 TGAAGATAGCAGATCTTGCTTTCCTGCATCAACAGCGAAGCAGATCGAAGATACCAGCCTTCCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
48143277 CCCTGGGTTGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* *
48143300 TGAAGATAGCAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
* *
48143365 CCCTGGGTTGTAATGGGGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* * * ** * *
48143388 TGAAGATAGCAGATATTGACTTCTTATACCGGCAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
*
48143453 CCCTGGGTCGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* ** * * * * *
48143476 TGAAGATAGCAGATCTTGCCTTCTTATACCGAGAGTGAAGTAAATCGAAGATACCAGCCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
* *
48143541 CCCTGGGTCGTAGTGGAGTAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* *
48143564 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
48143629 CCCT-GGTTGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* * *
48143651 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAACCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
48143716 CCCTGGGTTGT
66 CCCTGGGTTGT
48143727 CATGAAGTAG
Statistics
Matches: 545, Mismatches: 57, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
87 84 0.15
88 461 0.85
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
CCCTGGGTTGTAGTGGAGCAGGT
Found at i:48143778 original size:44 final size:44
Alignment explanation
Indices: 48143729--48143982 Score: 260
Period size: 44 Copynumber: 5.8 Consensus size: 44
48143719 TGGGTTGTCA
*
48143729 TGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCG
1 TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCG
** *
48143773 TGAAGTAGATTAAAGATAA-CAGATCTTGTCTTCATATATTGGCG
1 TGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATTGGCG
* * *** * *
48143817 TGAAGTAGATTGAATATAA-CAGATCTTGTCTTCCCATACTGGTGG
1 TGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATTGG-CG
* *
48143862 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAAGTATTGGCG
1 TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCG
* * * * *
48143906 TGAACTAGATCAAAGATAGCAGATCTTGTCTTCATGTATCGGCA
1 TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCG
* * ** *
48143950 TGAAATAGATCAAAGGTAGCAAATCTTGTCTTC
1 TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
48143983 CCATACTGGT
Statistics
Matches: 179, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
44 144 0.80
45 35 0.20
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (44 bp):
TGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCG
Found at i:48143876 original size:263 final size:264
Alignment explanation
Indices: 48143036--48143855 Score: 741
Period size: 264 Copynumber: 3.1 Consensus size: 264
48143026 AGCAGATCAG
* * *
48143036 TGAAGATAACAGATCTTGCCTTCCTGCAT--CGACAGCGAAGCAGGTCGAAGACACCAACCTTGC
1 TGAAGATAACAGATCTTGCCTTCC--CATACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGC
* * * * * * * ** **
48143099 TTCCTTGGGTTGTAGTGGAGCAAGTTAAAAATAGCAGATATTGCCTTCCTGCACCGACAACGAAG
64 CTCCCTGGGTTGTAATGGAGCAGGTTGAAGATAGCAGATATTGACTTCCTATACCGACAGTGAAG
* * * * * * * * *
48143164 CAGATCGAAGACACTAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
129 CAGATCGAAGATACCAACCTTGCCTCCCTGGGTCGTAGTGAAGCAGATCGAAGAAAGCAGATCTT
* * ** * * * * * * * * * * * * * * *
48143229 GCTTTCCTGCATCAACAGCGAAGCAGATCGAAGATACCAGCCTTCCCTCCCTGGGTTGTAGTGGA
194 GCCTTCATATACCGAGAGTGAAGTAAATCAAAGATAACAGCCTTACCTCCATAGATCGGAGTGAA
* *
48143294 GCAGGT
259 GTAGAT
* * * *
48143300 TGAAGATAGCAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAACAGATCTTGCCTTCCCATACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
* * *
48143365 CCCTGGGTTGTAATGGGGCAGGTTGAAGATAGCAGATATTGACTTCTTATACCGGCAGTGAAGCA
66 CCCTGGGTTGTAATGGAGCAGGTTGAAGATAGCAGATATTGACTTCCTATACCGACAGTGAAGCA
* * * * *
48143430 GATCGAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGC
131 GATCGAAGATACCAACCTTGCCTCCCTGGGTCGTAGTGAAGCAGATCGAAGAAAGCAGATCTTGC
* * * * * * * *
48143495 CTTCTTATACCGAGAGTGAAGTAAATCGAAGATACCAGCCTTACCTCCCTGGGTCGTAGTGGAGT
196 CTTCATATACCGAGAGTGAAGTAAATCAAAGATAACAGCCTTACCTCCATAGATCGGAGTGAAGT
*
48143560 AGGT
261 AGAT
* ** *
48143564 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAACAGATCTTGCCTTCCCATACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
* * * *
48143629 CCCT-GGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCA
66 CCCTGGGTTGTAATGGAGCAGGTTGAAGATAGCAGATATTGACTTCCTATACCGACAGTGAAGCA
* * *
48143693 GATCGAAGATACCAACCTTGCCTCCCTGGGTTGTCA-TGAAGTAGATCGCAGAAAGCAGATCTTG
131 GATCGAAGATACCAACCTTGCCTCCCTGGGTCGT-AGTGAAGCAGATCGAAGAAAGCAGATCTTG
* * ** * * * * ** * * * *
48143757 TCTTCATGTATTG-GCGTGAAGTAGATTAAAGATAACAGATCTTGTCTTCATATATTGGCGTGAA
195 CCTTCATATACCGAGAGTGAAGTAAATCAAAGATAACAG-CCTTACCTCCATAGATCGGAGTGAA
48143821 GTAGAT
259 GTAGAT
* *
48143827 TGAATATAACAGATCTTGTCTTCCCATAC
1 TGAAGATAACAGATCTTGCCTTCCCATAC
48143856 TGGTGGCGAA
Statistics
Matches: 468, Mismatches: 84, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
262 21 0.04
263 157 0.34
264 290 0.62
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (264 bp):
TGAAGATAACAGATCTTGCCTTCCCATACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
CCCTGGGTTGTAATGGAGCAGGTTGAAGATAGCAGATATTGACTTCCTATACCGACAGTGAAGCA
GATCGAAGATACCAACCTTGCCTCCCTGGGTCGTAGTGAAGCAGATCGAAGAAAGCAGATCTTGC
CTTCATATACCGAGAGTGAAGTAAATCAAAGATAACAGCCTTACCTCCATAGATCGGAGTGAAGT
AGAT
Found at i:48143895 original size:89 final size:89
Alignment explanation
Indices: 48143774--48143938 Score: 235
Period size: 89 Copynumber: 1.9 Consensus size: 89
48143764 GTATTGGCGT
* * ** *
48143774 GAAGTAGATTAAAGATAACAGATCTTGTCTTCATA-TATTGGCGTGAAGTAGATTGAATATAACA
1 GAAGTAGATCAAAGATAACAGATCTTGTCTTCA-AGTATTGGCGTGAACTAGATCAAAGATAACA
48143838 GATCTTGTCTTCCCATACTGGTGGC
65 GATCTTGTCTTCCCATACTGGTGGC
* *
48143863 GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCAAGTATTGGCGTGAACTAGATCAAAGATAGCA
1 GAAGTAGATCAAAGATAA-CAGATCTTGTCTTCAAGTATTGGCGTGAACTAGATCAAAGATAACA
48143927 GATCTTGTCTTC
65 GATCTTGTCTTC
48143939 ATGTATCGGC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
88 3 0.04
89 64 0.96
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.30
Consensus pattern (89 bp):
GAAGTAGATCAAAGATAACAGATCTTGTCTTCAAGTATTGGCGTGAACTAGATCAAAGATAACAG
ATCTTGTCTTCCCATACTGGTGGC
Found at i:48143901 original size:133 final size:133
Alignment explanation
Indices: 48143730--48144010 Score: 427
Period size: 133 Copynumber: 2.1 Consensus size: 133
48143720 GGGTTGTCAT
* * * *
48143730 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATTAAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAAGTATTGGCGTGAACTAGATCAAAGATAACAG
* * * ** * *
48143795 ATCTTGTCTTCATATATTGGCGTGAAGTAGATTGAATATAACAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATATATCGGCATGAAATAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGT
48143860 GGC
131 GGC
*
48143863 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAAGTATTGGCGTGAACTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAAGTATTGGCGTGAACTAGATCAAAGATAACAG
* * *
48143928 ATCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGGTAGCAAATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATATATCGGCATGAAATAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGT
48143993 GGC
131 GGC
48143996 GAAGTAGATCGAAGA
1 GAAGTAGATCGAAGA
48144011 TACAAGTCTT
Statistics
Matches: 133, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (133 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAAGTATTGGCGTGAACTAGATCAAAGATAACAG
ATCTTGTCTTCATATATCGGCATGAAATAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGT
GGC
Found at i:48144411 original size:19 final size:21
Alignment explanation
Indices: 48144355--48144429 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 21
48144345 TTCAAGGATG
48144355 TGCAATCTTAGATATG--ATA
1 TGCAATCTTAGATATGATATA
48144374 TGCAATCTTAGATATGATATA
1 TGCAATCTTAGATATGATATA
*
48144395 TGCAATCTTGGAAGATATGAT-TT
1 TGCAATCTT---AGATATGATATA
*
48144418 TGTAATCTTAGA
1 TGCAATCTTAGA
48144430 GATTTAATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
19 16 0.33
20 3 0.06
21 12 0.24
23 9 0.18
24 9 0.18
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (21 bp):
TGCAATCTTAGATATGATATA
Found at i:48152365 original size:25 final size:25
Alignment explanation
Indices: 48152319--48152387 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
48152309 TTTAGCTCTT
*
48152319 ATGAGCTTCCCGATACTT-AGCTCAC
1 ATGAGCTTCCCGTTA-TTCAGCTCAC
*
48152344 ATGAGCTTCCCGTTATTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCAC
48152369 ATGAGC-TCCTCGTTATTCA
1 ATGAGCTTCC-CGTTATTCA
48152388 AATCAGAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 5 0.12
25 35 0.88
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCAC
Found at i:48158940 original size:34 final size:34
Alignment explanation
Indices: 48158896--48158963 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
48158886 GCACAGTTGA
* *
48158896 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
48158931 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
48158964 TCAAAAGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:48162565 original size:25 final size:25
Alignment explanation
Indices: 48162500--48162629 Score: 104
Period size: 25 Copynumber: 5.2 Consensus size: 25
48162490 TTTAGCTCTT
* * * *
48162500 ATGAGCTTTTCGATACTCAGCTCGC
1 ATGAGCTTTCCGTTATTAAGCTCGC
48162525 ATGAG-TTTCCCGTTATTAAGCTCGC
1 ATGAGCTTT-CCGTTATTAAGCTCGC
* * *
48162550 ATGAGCTTTCCATTATTTAGGTCGC
1 ATGAGCTTTCCGTTATTAAGCTCGC
* * *
48162575 ATGAGCTTCCCGTTATTCAGCTCGG
1 ATGAGCTTTCCGTTATTAAGCTCGC
* * *
48162600 AGGAGCTTACCG-T-TTACAGCTCGT
1 ATGAGCTTTCCGTTATTA-AGCTCGC
48162624 ATGAGC
1 ATGAGC
48162630 ATACATGTAC
Statistics
Matches: 85, Mismatches: 17, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
23 2 0.02
24 15 0.18
25 65 0.76
26 3 0.04
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (25 bp):
ATGAGCTTTCCGTTATTAAGCTCGC
Found at i:48163804 original size:55 final size:55
Alignment explanation
Indices: 48163717--48163830 Score: 131
Period size: 55 Copynumber: 2.1 Consensus size: 55
48163707 TTTGAATGTT
* * * * *
48163717 CACACGGTCTAAAATACGAGCGTGTCTTTTGGCCGTATGAGTCACATGGCCTAGC
1 CACACGGTCTAAAACACGAGCATGTCTCTTGGCCATATGAGTCACACGGCCTAGC
* * * *
48163772 CACACGGTCTAAGACACTG-GCATGTCTCTTGGCCATGTGAGTCATACGGCCTGGC
1 CACACGGTCTAAAACAC-GAGCATGTCTCTTGGCCATATGAGTCACACGGCCTAGC
48163827 CACA
1 CACA
48163831 TGGCCGTGTG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 48 0.98
56 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (55 bp):
CACACGGTCTAAAACACGAGCATGTCTCTTGGCCATATGAGTCACACGGCCTAGC
Found at i:48172463 original size:9 final size:9
Alignment explanation
Indices: 48172449--48172533 Score: 116
Period size: 9 Copynumber: 9.4 Consensus size: 9
48172439 TTTGGTTAAA
48172449 AATTAACCG
1 AATTAACCG
**
48172458 AATTAACTA
1 AATTAACCG
48172467 AATTAACCG
1 AATTAACCG
*
48172476 AATTAACCA
1 AATTAACCG
*
48172485 AATTAACCA
1 AATTAACCG
48172494 AATTAACCG
1 AATTAACCG
48172503 AATTAACCG
1 AATTAACCG
*
48172512 AATTAATCG
1 AATTAACCG
*
48172521 AATTACCCG
1 AATTAACCG
48172530 AATT
1 AATT
48172534 GAATCACTAC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 67 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:48172563 original size:17 final size:17
Alignment explanation
Indices: 48172541--48172603 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
48172531 ATTGAATCAC
48172541 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
48172558 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
48172578 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
48172595 TACATAATT
1 TACATAATT
48172604 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 17 0.50
18 4 0.12
19 5 0.15
20 8 0.24
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:48172579 original size:37 final size:37
Alignment explanation
Indices: 48172532--48172606 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
48172522 ATTACCCGAA
*
48172532 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
48172569 TTGAATCACTACATAATTAAAAACATTACATAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
48172606 T
1 T
48172607 GAAATTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:48172777 original size:38 final size:39
Alignment explanation
Indices: 48172733--48172849 Score: 200
Period size: 39 Copynumber: 3.0 Consensus size: 39
48172723 ACTTAAGAGT
*
48172733 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
*
48172771 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGA
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
*
48172810 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
48172849 T
1 T
48172850 TGGGTTGGTA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
38 27 0.36
39 47 0.64
ACGTcount: A:0.20, C:0.03, G:0.27, T:0.50
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTAGGTAATTGGG
Found at i:48172848 original size:13 final size:13
Alignment explanation
Indices: 48172830--48172884 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 13
48172820 TTTTAGTTTT
48172830 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
48172843 ATTGGGTTGGGTTGGTA
1 ATTGGGTT--G--GGTA
* *
48172860 AATAGGTTGGGTA
1 ATTGGGTTGGGTA
48172873 ATTGGGTTGGGT
1 ATTGGGTTGGGT
48172885 TGGGTTGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 22 0.65
15 2 0.06
17 10 0.29
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.38
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:48175351 original size:125 final size:126
Alignment explanation
Indices: 48175050--48175388 Score: 527
Period size: 125 Copynumber: 2.7 Consensus size: 126
48175040 CGTCTCTGGT
* ** * * ***
48175050 CAAATACTATAAAATCACTTCTACCAGGATACTATTTGAGAAGAAATTGTGAAATCCTGCCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGAACCCTCG
* * * *
48175115 TGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTCTGATTTTTCTGAG
66 TGGACGCGATTTTGCTATAGTAGGTAATGTAAGAAATAATTATTTTTCTGATGTTTCTGAG
* *
48175176 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGAAACCTCA
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGAACCCTCG
48175241 TGGACGCGATTTTGCTATAGTAGGTAATGTAAGAAATAA-TATTTTTCTGATGTTTCTGAG
66 TGGACGCGATTTTGCTATAGTAGGTAATGTAAGAAATAATTATTTTTCTGATGTTTCTGAG
* *
48175301 CAAATAGTATAAAATCGTTTCTACGATGATGCTATTTGAGAAGAAATTGTGAAATCGCACCCTCG
1 CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGAACCCTCG
48175366 TGGACGCGATTTTGCTATAGTAG
66 TGGACGCGATTTTGCTATAGTAG
48175389 CAAGTTTGGG
Statistics
Matches: 195, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
125 103 0.53
126 92 0.47
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.33
Consensus pattern (126 bp):
CAAATAGTATAAAATCGTTTCTACGAGGATGCTATTTGAGAAGAAATTGTGAAATCGAACCCTCG
TGGACGCGATTTTGCTATAGTAGGTAATGTAAGAAATAATTATTTTTCTGATGTTTCTGAG
Found at i:48177106 original size:56 final size:55
Alignment explanation
Indices: 48176969--48177107 Score: 149
Period size: 56 Copynumber: 2.5 Consensus size: 55
48176959 GATCTAACAT
* *
48176969 TATGTAAAATTATTAAGCCAAAAAAATTTTCTTAATGGTTAGTAAAATTTATCAAA
1 TATGT-AAATTATTAAGCCAAAAAAATTGTCTTAATGGTTAGTAAAATGTATCAAA
* * * *
48177025 TAATCTCAAATTATTAAGTCC--AAAAATTGTGTTAATGGTTATTAAAGTGT-TCAAAA
1 T-ATGT-AAATTATTAAG-CCAAAAAAATTGTCTTAATGGTTAGTAAAATGTATC-AAA
48177081 TATGTAAATTTATTAAGCCAAAAAAAT
1 TATGTAAA-TTATTAAGCCAAAAAAAT
48177108 ATGTAAAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
54 5 0.07
55 13 0.19
56 35 0.51
57 14 0.20
58 2 0.03
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (55 bp):
TATGTAAATTATTAAGCCAAAAAAATTGTCTTAATGGTTAGTAAAATGTATCAAA
Found at i:48177109 original size:26 final size:26
Alignment explanation
Indices: 48177077--48177133 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
48177067 TAAAGTGTTC
*
48177077 AAAATATGTAAATTTATTAAGCCAAA
1 AAAATATGTAAAATTATTAAGCCAAA
48177103 AAAATATGTAAAATTATTAAGCCAAA
1 AAAATATGTAAAATTATTAAGCCAAA
48177129 AAAAT
1 AAAAT
48177134 TTAGGTTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (26 bp):
AAAATATGTAAAATTATTAAGCCAAA
Found at i:48177274 original size:85 final size:84
Alignment explanation
Indices: 48177131--48177828 Score: 941
Period size: 85 Copynumber: 8.1 Consensus size: 84
48177121 AAGCCAAAAA
** *
48177131 AATTTAGGTTAGTTTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAGTTAATTTAGG
1 AATTTAGGTTAGAGTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAGTTAATTTAGG
*
48177196 TTAGATTAGGGTTTTTAGTT
65 TTAGATTAGGGTTTTTAATT
* * *
48177216 AATTTAGGTTAGAGTAAGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAGTTAATTTAGG
1 AATTTAGGTTAGAGTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAGTTAATTTAGG
48177281 TTAGATTAGGGTTTTTAATT
65 TTAGATTAGGGTTTTTAATT
48177301 AATTTAGGTTAG-GTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAG
1 AATTTAGGTTAGAG--TAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAG
* *
48177365 GTTAGGTTTAGGGTTTTTAGTT
64 GTTA-GATTAGGGTTTTTAATT
* * *
48177387 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGTTTAGATTAGGGTTTTTAGTTAATTTAAGT
1 AATTTAGGTTAGAGTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGT
* *
48177452 TAGGTTTAGGGTTTTTAGTT
66 TA-GATTAGGGTTTTTAATT
*
48177472 AATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGT
1 AATTTAGGTTAGAGTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGT
48177537 TAGATTAGGGTTTTTAATT
66 TAGATTAGGGTTTTTAATT
* * * * *
48177556 AATTTAGGTTAGATTAGGGTTTTTAGTTTATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGG
1 AATTTAGGTTAGAGTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAGTTAATTTAGG
*
48177621 TTAGATTAGGGTTTTTAGTT
65 TTAGATTAGGGTTTTTAATT
* * *
48177641 AATTTAAGTTAG-GTTTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAG
1 AATTTAGGTTAGAG--TAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAG
* *
48177705 GTTAAATTAGGGTCTTTAATT
64 GTTAGATTAGGGTTTTTAATT
* * * * * *
48177726 AATTTAGGTTAGGGTTAGGTTAGGATTTTCAATTAAATTAGGTTAGGTTTGGGTTTTTAATTAAT
1 AATTTAGGTTA--G--A-G-TAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAAT
*
48177791 TTAGGTTAGGTTTAGGGTTTTTAATT
60 TTAGGTTA-GATTAGGGTTTTTAATT
48177817 AATTTAGGTTAG
1 AATTTAGGTTAG
48177829 GGTTAGGTTA
Statistics
Matches: 560, Mismatches: 39, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
84 53 0.09
85 357 0.64
86 74 0.13
87 1 0.00
89 1 0.00
90 48 0.09
91 26 0.05
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (84 bp):
AATTTAGGTTAGAGTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGT
TAGATTAGGGTTTTTAATT
Found at i:48177829 original size:57 final size:57
Alignment explanation
Indices: 48177131--48177835 Score: 1010
Period size: 57 Copynumber: 12.3 Consensus size: 57
48177121 AAGCCAAAAA
*
48177131 AATTTAGGTTA-GTTTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAGTT
* * * *
48177188 AATTTAGGTTA-GATTAGGGTTTTTAGTTAATTTAGGTTAGAGTAAGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
* *
48177244 AATTTAGGTTAGGTTTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
48177301 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
* *
48177358 AATTTAGGTTAGGTTTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
* * * * *
48177415 AATTTAGTTTA-GATTAGGGTTTTTAGTTAATTTAAGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAGTT
*
48177472 AATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
*
48177528 AATTTAGGTTA-GATTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
*
48177584 TATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
* * *
48177641 AATTTAAGTTAGGTTTAGGGTTTTTAGTTAATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
** * * * *
48177698 AATTTAGGTTA-AATTAGGGTCTTTAATTAATTTAGGTTAGGGTTAGGTTAGGATTTTCAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA--G--A--TTAGGGTTTTTAGTT
* * *
48177760 AAATTAGGTTAGGTTT-GGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTA-GATTAGGGTTTTTAGTT
*
48177817 AATTTAGGTTAGGGTTAGG
1 AATTTAGGTTAGGTTTAGG
48177836 TTAGGGTTTT
Statistics
Matches: 593, Mismatches: 44, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
56 157 0.26
57 383 0.65
58 3 0.01
60 1 0.00
61 2 0.00
62 45 0.08
63 2 0.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.50
Consensus pattern (57 bp):
AATTTAGGTTAGGTTTAGGGTTTTTAATTAATTTAGGTTAGATTAGGGTTTTTAGTT
Found at i:48177837 original size:28 final size:28
Alignment explanation
Indices: 48177131--48177828 Score: 964
Period size: 28 Copynumber: 24.4 Consensus size: 28
48177121 AAGCCAAAAA
*
48177131 AATTTAGGTTAGTTTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
48177159 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
48177188 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* * *
48177216 AATTTAGGTTAGAGTAAGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
48177244 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
48177273 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
48177301 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
48177330 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
48177358 AATTTAGGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
48177387 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
48177415 AATTTAGTTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* * *
48177443 AATTTAAGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
48177472 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
48177500 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
48177528 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
48177556 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
48177584 TATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
*
48177613 AATTTAGGTTAGATTAGGGTTTTTAGTT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* * *
48177641 AATTTAAGTTAGGTTTAGGGTTTTTAGTT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
48177670 AATTTAGGTTAGATTAGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
48177698 AATTTAGGTTAAATTAGGGTCTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
* *
48177726 AATTTAGGTTAGGGTTAGGTTAGGATTTTCAATT
1 AATTTAGGTTA--G--A--TTAGGGTTTTTAATT
* * *
48177760 AAATTAGGTTAGGTTTGGGTTTTTAATT
1 AATTTAGGTTAGATTAGGGTTTTTAATT
*
48177788 AATTTAGGTTAGGTTTAGGGTTTTTAATT
1 AATTTAGGTTA-GATTAGGGTTTTTAATT
48177817 AATTTAGGTTAG
1 AATTTAGGTTAG
48177829 GGTTAGGTTA
Statistics
Matches: 605, Mismatches: 51, Indels: 28
0.88 0.07 0.04
Matches are distributed among these distances:
28 372 0.61
29 209 0.35
32 2 0.00
34 22 0.04
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (28 bp):
AATTTAGGTTAGATTAGGGTTTTTAATT
Found at i:48178083 original size:24 final size:24
Alignment explanation
Indices: 48178051--48178106 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
48178041 GGCGGCGGTT
48178051 GTTCTTCCTCCGGTGGTGATTGTG
1 GTTCTTCCTCCGGTGGTGATTGTG
* *
48178075 GTTCTTCCTCTGGTGGTGGTTGTG
1 GTTCTTCCTCCGGTGGTGATTGTG
48178099 GTTCTTCC
1 GTTCTTCC
48178107 GGTTCGGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.02, C:0.21, G:0.32, T:0.45
Consensus pattern (24 bp):
GTTCTTCCTCCGGTGGTGATTGTG
Found at i:48178405 original size:18 final size:18
Alignment explanation
Indices: 48178361--48178406 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
48178351 TATTCGAAAA
* *
48178361 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
48178379 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
48178397 AGGAAACATA
1 AGGATACATA
48178407 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:48179060 original size:7 final size:7
Alignment explanation
Indices: 48179050--48179074 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48179040 TTATATACAT
48179050 AATACTA
1 AATACTA
48179057 AATACTA
1 AATACTA
48179064 AATACTA
1 AATACTA
48179071 AATA
1 AATA
48179075 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:48180175 original size:31 final size:31
Alignment explanation
Indices: 48180140--48180204 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
48180130 GCCATTAATG
*
48180140 AAAATAT-AAAAAAATTTAAAATTATTTTTAA
1 AAAATATAAAAAAAAATTAAAATTA-TTTTAA
*
48180171 AAAATATAAAAAAAAATTATAATTATTTTAA
1 AAAATATAAAAAAAAATTAAAATTATTTTAA
48180202 AAA
1 AAA
48180205 TGAATTTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (31 bp):
AAAATATAAAAAAAAATTAAAATTATTTTAA
Found at i:48180275 original size:22 final size:22
Alignment explanation
Indices: 48180250--48180300 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
48180240 AAATATGGGT
48180250 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
48180272 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
48180294 TTGAGAG
1 TTGAGAG
48180301 GATTAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:48182151 original size:3 final size:3
Alignment explanation
Indices: 48182138--48182172 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
48182128 TAAGATAAAC
*
48182138 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48182173 ATAACGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48182382 original size:17 final size:18
Alignment explanation
Indices: 48182355--48182394 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
48182345 ATAATTGAAT
48182355 TTTTTTCAATTTATTCAA
1 TTTTTTCAATTTATTCAA
48182373 TTTTTT-AATTTATTCAA
1 TTTTTTCAATTTATTCAA
48182390 TTTTT
1 TTTTT
48182395 CATTTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTCAATTTATTCAA
Found at i:48182396 original size:8 final size:8
Alignment explanation
Indices: 48182356--48182396 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 8
48182346 TAATTGAATT
48182356 TTTTTCAA
1 TTTTTCAA
48182364 TTTATTCAA
1 TTT-TTCAA
*
48182373 TTTTTTAA
1 TTTTTCAA
48182381 TTTATTCAA
1 TTT-TTCAA
48182390 TTTTTCA
1 TTTTTCA
48182397 TTTAATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 14 0.48
9 15 0.52
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTTTCAA
Found at i:48182408 original size:16 final size:16
Alignment explanation
Indices: 48182356--48182409 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
48182346 TAATTGAATT
*
48182356 TTTTTCAATTTATTCAA
1 TTTTT-AATTTAATCAA
*
48182373 TTTTTTAATTTATTCAA
1 -TTTTTAATTTAATCAA
* *
48182390 TTTTTCATTTAATCTA
1 TTTTTAATTTAATCAA
48182406 TTTT
1 TTTT
48182410 CATGCTCAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 17 0.52
17 11 0.33
18 5 0.15
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTAATTTAATCAA
Found at i:48183663 original size:20 final size:20
Alignment explanation
Indices: 48183634--48183677 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
48183624 GTGTACTTCT
*
48183634 TTTTTTTAATTTTT-ATGAA
1 TTTTTATAATTTTTAATGAA
48183653 CTTTTTATAATTTTTAATGAA
1 -TTTTTATAATTTTTAATGAA
48183674 TTTT
1 TTTT
48183678 GATTTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTATAATTTTTAATGAA
Found at i:48183696 original size:19 final size:20
Alignment explanation
Indices: 48183674--48183713 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
48183664 TTTTAATGAA
*
48183674 TTTTGATTTTTTAAA-TATT
1 TTTTGAATTTTTAAATTATT
48183693 TTTTGAATTTTTAAATTATT
1 TTTTGAATTTTTAAATTATT
48183713 T
1 T
48183714 GATGATATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTGAATTTTTAAATTATT
Found at i:48186651 original size:20 final size:19
Alignment explanation
Indices: 48186625--48186673 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
48186615 AGCAATGAAT
48186625 CTGTTCACCAAGAGATACAA
1 CTGTTCA-CAAGAGATACAA
*
48186645 TTGTTCA-AA-AGATACAA
1 CTGTTCACAAGAGATACAA
48186662 CTGTTCATCAAG
1 CTGTTCA-CAAG
48186674 TGAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 14 0.58
18 2 0.08
19 2 0.08
20 6 0.25
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:48192339 original size:42 final size:42
Alignment explanation
Indices: 48192283--48192426 Score: 209
Period size: 42 Copynumber: 3.4 Consensus size: 42
48192273 ACTGGGATGT
* ** *
48192283 GATTACGTGTAAGACCATGTATGGGACATTGTTATCG-TCATGT
1 GATT-CGTGTAAGACCATGTCTGGGACATTGGCATCGAT-ATGA
*
48192326 GATTCGTGTAAGACAATGTCTGGGACATTGGCATCGATATGA
1 GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
*
48192368 GATTCGAGTAAGACCATGTCTGGGACATTGGCATCGATATGA
1 GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
48192410 GATTCGTGTAAGACCAT
1 GATTCGTGTAAGACCAT
48192427 AGCTAACTAT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
42 87 0.95
43 5 0.05
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (42 bp):
GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
Found at i:48192463 original size:84 final size:84
Alignment explanation
Indices: 48192290--48192464 Score: 182
Period size: 84 Copynumber: 2.1 Consensus size: 84
48192280 TGTGATTACG
** * *
48192290 TGTAAGACCATGTATGGGACATTGTTATCGTCATGTGATTCGTGTAAGACAATGTCTGGGACATT
1 TGTAAGACCATGTATGGGACATTGGCATCGTCATGAGATTCGTGTAAGACAATGTCT-GAACATT
* *
48192355 GGCATCGATATGAGATTCGA
65 AGCATCGATATGAGATGCGA
* *
48192375 -GTAAGACCATGTCTGGGACATTGGCATCGAT-ATGAGATTCGTGTAAGACCATAG-CT-AACTA
1 TGTAAGACCATGTATGGGACATTGGCATCG-TCATGAGATTCGTGTAAGACAAT-GTCTGAAC-A
48192436 TTAGCATCGATAT-ATGATAGC-A
63 TTAGCATCGATATGA-GAT-GCGA
48192458 TGTAAGA
1 TGTAAGA
48192465 TCATATCTAG
Statistics
Matches: 76, Mismatches: 8, Indels: 13
0.78 0.08 0.13
Matches are distributed among these distances:
82 3 0.04
83 17 0.22
84 54 0.71
85 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (84 bp):
TGTAAGACCATGTATGGGACATTGGCATCGTCATGAGATTCGTGTAAGACAATGTCTGAACATTA
GCATCGATATGAGATGCGA
Found at i:48193527 original size:25 final size:25
Alignment explanation
Indices: 48193499--48193550 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
48193489 ATACTTTGGT
48193499 ATGACTTGGTTTGG-T-TTTAGATTGA
1 ATGACTTGG-TTGGATATTTAG-TTGA
*
48193524 ATGATTTGGTTGGATATTTAGTTGA
1 ATGACTTGGTTGGATATTTAGTTGA
48193549 AT
1 AT
48193551 TTAAGGCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.17
25 15 0.62
26 5 0.21
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (25 bp):
ATGACTTGGTTGGATATTTAGTTGA
Found at i:48197905 original size:30 final size:30
Alignment explanation
Indices: 48197870--48197930 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
48197860 TTTGGATCCT
48197870 AAATCCATATATGACCCCATATAAACCTAA
1 AAATCCATATATGACCCCATATAAACCTAA
48197900 AAATCCATATATGACCCCATATAAACCTAA
1 AAATCCATATATGACCCCATATAAACCTAA
48197930 A
1 A
48197931 TCAATATGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.26, G:0.03, T:0.23
Consensus pattern (30 bp):
AAATCCATATATGACCCCATATAAACCTAA
Found at i:48197932 original size:28 final size:28
Alignment explanation
Indices: 48197867--48197937 Score: 115
Period size: 30 Copynumber: 2.5 Consensus size: 28
48197857 GGATTTGGAT
48197867 CCTAAATCCATATATGACCCCATATAAA
1 CCTAAATCCATATATGACCCCATATAAA
48197895 CCTAAAAATCCATATATGACCCCATATAAA
1 CCT--AAATCCATATATGACCCCATATAAA
*
48197925 CCTAAATCAATAT
1 CCTAAATCCATAT
48197938 GTGTGGGCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 12 0.30
30 28 0.70
ACGTcount: A:0.45, C:0.27, G:0.03, T:0.25
Consensus pattern (28 bp):
CCTAAATCCATATATGACCCCATATAAA
Found at i:48200564 original size:9 final size:9
Alignment explanation
Indices: 48200533--48200760 Score: 60
Period size: 9 Copynumber: 24.6 Consensus size: 9
48200523 CTTTTTTTAA
48200533 AAAAATTAT
1 AAAAATTAT
* *
48200542 AAAAAATAAG
1 -AAAAATTAT
48200552 AAAAATTAT
1 AAAAATTAT
*
48200561 AAAAAATATT
1 AAAAATTA-T
* *
48200571 AAAACTAAT
1 AAAAATTAT
* *
48200580 ATAAACT-T
1 AAAAATTAT
48200588 -AAAATTAT
1 AAAAATTAT
48200596 -AAAA-TAT
1 AAAAATTAT
48200603 AAAAATCTA-
1 AAAAAT-TAT
*
48200612 ATAAATTAT
1 AAAAATTAT
48200621 ACAAGAATT-T
1 A-AA-AATTAT
48200631 ATAAAATTAAT
1 A-AAAATT-AT
*
48200642 AAAACTTATTT
1 AAAAATTA--T
48200653 AAAATATT-T
1 AAAA-ATTAT
*
48200662 -AAAATTAG
1 AAAAATTAT
48200670 AAAAATGTAT
1 AAAAAT-TAT
* * *
48200680 TAGAATTCT
1 AAAAATTAT
* *
48200689 -TAAATAAT
1 AAAAATTAT
*
48200697 AATAAATTGTT
1 AA-AAATT-AT
*
48200708 AAAATTTAT
1 AAAAATTAT
*
48200717 AAAAAAAATAT
1 --AAAAATTAT
*
48200728 TAAAATTAT
1 AAAAATTAT
* *
48200737 ATAAACTTAC
1 A-AAAATTAT
48200747 AAAAATTAT
1 AAAAATTAT
48200756 AAAAA
1 AAAAA
48200761 AATAAAAACT
Statistics
Matches: 154, Mismatches: 42, Indels: 45
0.64 0.17 0.19
Matches are distributed among these distances:
7 10 0.06
8 19 0.12
9 56 0.36
10 46 0.30
11 21 0.14
12 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:48203152 original size:11 final size:11
Alignment explanation
Indices: 48203132--48203179 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
48203122 ATTAACCATT
48203132 TAATAATAAAA
1 TAATAATAAAA
*
48203143 TAATACTAAAAA
1 TAATAAT-AAAA
**
48203155 TCTTAATAAAA
1 TAATAATAAAA
*
48203166 TAATAATTAAA
1 TAATAATAAAA
48203177 TAA
1 TAA
48203180 CATTTATCTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:48203697 original size:187 final size:187
Alignment explanation
Indices: 48203382--48203756 Score: 705
Period size: 187 Copynumber: 2.0 Consensus size: 187
48203372 TTTTCCTTAG
48203382 TTTCTAAATTATTCCACACTTAAATATTTACACTATTGGTCCTTCAAATTTTTCATATTTACACT
1 TTTCTAAATTATTCCACACTTAAATATTTACACTATTGGTCCTTCAAATTTTTCATATTTACACT
*
48203447 TTAACCCCTCAAATTTATAGTATTTACTTTTGGACAACAAAACTTTTCTCACTTTTGCAATTTAA
66 TTAACCCCTCAAATTTATAGTATTTACTTTTGGACAACAAAACTTTTCTCACTTTTACAATTTAA
48203512 TATTTTCTTGAATTAATATGTCATAATATACTTCCCAATGTTGACATAACTCAATAT
131 TATTTTCTTGAATTAATATGTCATAATATACTTCCCAATGTTGACATAACTCAATAT
* *
48203569 TTTCTAAATTATTCCACCCTTAAATATTTACACTATTGGTCCTTCAACTTTTTCATATTTACACT
1 TTTCTAAATTATTCCACACTTAAATATTTACACTATTGGTCCTTCAAATTTTTCATATTTACACT
* *
48203634 TTAACCCCTCAAATTTGTAGTATTTACTTTTGGGCAACAAAACTTTTCTCACTTTTACAATTTAA
66 TTAACCCCTCAAATTTATAGTATTTACTTTTGGACAACAAAACTTTTCTCACTTTTACAATTTAA
48203699 TATTTTCTTGAATTAATATGTCATAATATACTTCCCAATGTTGACATAACTCAATAT
131 TATTTTCTTGAATTAATATGTCATAATATACTTCCCAATGTTGACATAACTCAATAT
48203756 T
1 T
48203757 ACCCTTTTTA
Statistics
Matches: 183, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
187 183 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (187 bp):
TTTCTAAATTATTCCACACTTAAATATTTACACTATTGGTCCTTCAAATTTTTCATATTTACACT
TTAACCCCTCAAATTTATAGTATTTACTTTTGGACAACAAAACTTTTCTCACTTTTACAATTTAA
TATTTTCTTGAATTAATATGTCATAATATACTTCCCAATGTTGACATAACTCAATAT
Found at i:48204348 original size:10 final size:11
Alignment explanation
Indices: 48204325--48204352 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
48204315 TCAATTCAAA
48204325 TTTTTATAATT
1 TTTTTATAATT
48204336 TTTTTATAATT
1 TTTTTATAATT
48204347 TTTTTA
1 TTTTTA
48204353 AGTTTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:48204509 original size:27 final size:28
Alignment explanation
Indices: 48204469--48204543 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
48204459 GTTTAATTAG
*
48204469 TTTTATATTTTTTATAATTGTTA-AT-AA
1 TTTTATATTTTTTAAAATT-TTATATCAA
48204496 TTTTATGA-TTTTTAAAATTTTATATCAA
1 TTTTAT-ATTTTTTAAAATTTTATATCAA
* *
48204524 TTTT-CATTTTTTAATATTTT
1 TTTTATATTTTTTAAAATTTT
48204544 TTTATTTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
26 4 0.10
27 30 0.73
28 7 0.17
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTTATATTTTTTAAAATTTTATATCAA
Found at i:48204516 original size:17 final size:18
Alignment explanation
Indices: 48204478--48204519 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
48204468 GTTTTATATT
48204478 TTTTATAATTGTTAATAA
1 TTTTATAATTGTTAATAA
* *
48204496 TTTTATGATTTTTAA-AA
1 TTTTATAATTGTTAATAA
48204513 TTTTATA
1 TTTTATA
48204520 TCAATTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTTATAATTGTTAATAA
Found at i:48204545 original size:18 final size:17
Alignment explanation
Indices: 48204524--48204582 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 17
48204514 TTTATATCAA
*
48204524 TTTTCATTTTTTAATATT
1 TTTTTATTTTTTAATA-T
48204542 TTTTTATTTTTCTATAATAT
1 TTTTTA-TTTT-T-TAATAT
48204562 TTTCTTATTTTTTAATAT
1 TTT-TTATTTTTTAATAT
48204580 TTT
1 TTT
48204583 ATGGGAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 14 0.39
19 5 0.14
20 9 0.25
21 8 0.22
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTATTTTTTAATAT
Found at i:48209219 original size:18 final size:18
Alignment explanation
Indices: 48209196--48209231 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
48209186 GGTAAATGAT
48209196 ATCCTCTCATTAGCATTA
1 ATCCTCTCATTAGCATTA
48209214 ATCCTCTCATTAGCATTA
1 ATCCTCTCATTAGCATTA
48209232 CATGGTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (18 bp):
ATCCTCTCATTAGCATTA
Found at i:48210964 original size:20 final size:18
Alignment explanation
Indices: 48210917--48210973 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 18
48210907 GATGACAAGG
*
48210917 ATGAGAAATGGATATGAT
1 ATGAGAAATGGATATGAA
*
48210935 ATGGGAAATGGAATATGAA
1 ATGAGAAATGG-ATATGAA
48210954 ATGATGAAATGGGATATGAA
1 ATGA-GAAAT-GGATATGAA
48210974 TATTGAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 10 0.30
19 9 0.27
20 12 0.36
21 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.25
Consensus pattern (18 bp):
ATGAGAAATGGATATGAA
Found at i:48210965 original size:27 final size:27
Alignment explanation
Indices: 48210930--48210984 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
48210920 AGAAATGGAT
*
48210930 ATGATATGGGAAATGGAATA-TGAAATG
1 ATGAAATGGGAAAT-GAATATTGAAATG
*
48210957 ATGAAATGGGATATGAATATTGAAATG
1 ATGAAATGGGAAATGAATATTGAAATG
48210984 A
1 A
48210985 ATTCATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (27 bp):
ATGAAATGGGAAATGAATATTGAAATG
Found at i:48210982 original size:19 final size:20
Alignment explanation
Indices: 48210921--48210983 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 20
48210911 ACAAGGATGA
*
48210921 GAAAT-GGATATG-ATATGG
1 GAAATGGGATATGAATATGT
*
48210939 GAAATGGAATATGAA-ATGAT
1 GAAATGGGATATGAATATG-T
48210959 GAAATGGGATATGAATAT-T
1 GAAATGGGATATGAATATGT
48210978 GAAATG
1 GAAATG
48210984 AATTCATGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.13
19 16 0.42
20 15 0.39
21 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (20 bp):
GAAATGGGATATGAATATGT
Found at i:48211443 original size:18 final size:18
Alignment explanation
Indices: 48211420--48211459 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
48211410 TTTTTGTATA
48211420 TATGGTTGTGGTTGAGGC
1 TATGGTTGTGGTTGAGGC
48211438 TATGGTTGTGGTTGAGGC
1 TATGGTTGTGGTTGAGGC
48211456 TATG
1 TATG
48211460 TATGGTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.05, G:0.42, T:0.40
Consensus pattern (18 bp):
TATGGTTGTGGTTGAGGC
Found at i:48211508 original size:23 final size:23
Alignment explanation
Indices: 48211478--48211537 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
48211468 GATAGCTTAA
48211478 CTTAATGTTTGGTATGTGTTTAG
1 CTTAATGTTTGGTATGTGTTTAG
48211501 CTTAATGTTTGGTATGTGTTTAG
1 CTTAATGTTTGGTATGTGTTTAG
*
48211524 CTTAAAGTTTGGTA
1 CTTAATGTTTGGTA
48211538 ACCTAAGTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.20, C:0.05, G:0.25, T:0.50
Consensus pattern (23 bp):
CTTAATGTTTGGTATGTGTTTAG
Found at i:48213573 original size:87 final size:86
Alignment explanation
Indices: 48213471--48213794 Score: 463
Period size: 87 Copynumber: 3.7 Consensus size: 86
48213461 GCTAGTGCTT
* *
48213471 AGGAAGGCAAGATCTGGTATCTTTAACCAGCTCTACTGCAACTGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCT-GTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
48213536 CGATCTGCTTCACTGTTAACGC
65 CGATCTGCTTCGCTGTTAACGC
*
48213558 AGGAAGGCAAGATCTGTCATCTCTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGT-ATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
48213623 CGATCTGCTTCGCTG--ATCTGT
65 CGATCTGCTTCGCTGTTAAC-GC
** * * * *
48213644 AGGAAGGTGAGATCTGTTTCTTTAACCAGCTCCACTGCAATCGATAGAGGTAAGGCTTTGTTTTC
1 AGGAAGGCAAGATCTGTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTC
* *
48213709 GATCTGCTTCGCTATTAAAGC
66 GATCTGCTTCGCTGTTAACGC
*
48213730 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATTTT
1 AGGAAGGCAAGATCTG-TATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
48213795 TTATCTTCAC
Statistics
Matches: 208, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
85 58 0.28
86 33 0.16
87 117 0.56
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (86 bp):
AGGAAGGCAAGATCTGTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTC
GATCTGCTTCGCTGTTAACGC
Found at i:48213735 original size:172 final size:173
Alignment explanation
Indices: 48213448--48213794 Score: 515
Period size: 172 Copynumber: 2.0 Consensus size: 173
48213438 ATTCACCGCC
*
48213448 TTCGATCTGCTCCGCTAGTGCTTAGGAAGGCAAGATCTGGTATCTTTAACCAGCTCTACTGCAAC
1 TTCGATCTGCTCCGCTAGTGCTTAGGAAGGCAAGATCTGGTATCTTTAACCAGCTCCACTGCAAC
* * *
48213513 TGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTTAACGCAGGAAGGCAAGATCTG-TCA
66 TGATAGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTATTAAAGCAGGAAGGCAAGATCTGCT-A
*
48213577 TCTCTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTT
130 TCTCTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATT
* ** *
48213621 TTCGATCTGCTTCGCT-GAT-CTGTAGGAAGGTGAGATCT-GTTTCTTTAACCAGCTCCACTGCA
1 TTCGATCTGCTCCGCTAG-TGCT-TAGGAAGGCAAGATCTGGTATCTTTAACCAGCTCCACTGCA
* *
48213683 A-TCGATAGAGGTAAGGCTTTGTTTTCGATCTGCTTCGCTATTAAAGCAGGAAGGCAAGATCTGC
64 ACT-GATAGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTATTAAAGCAGGAAGGCAAGATCTGC
*
48213747 TATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATT
128 TATCTCTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATT
48213793 TT
1 TT
48213795 TTATCTTCAC
Statistics
Matches: 158, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
171 1 0.01
172 126 0.80
173 31 0.20
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (173 bp):
TTCGATCTGCTCCGCTAGTGCTTAGGAAGGCAAGATCTGGTATCTTTAACCAGCTCCACTGCAAC
TGATAGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTATTAAAGCAGGAAGGCAAGATCTGCTAT
CTCTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATT
Found at i:48215052 original size:7 final size:7
Alignment explanation
Indices: 48215040--48215084 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
48215030 CTCTTTCATT
48215040 TTTTTCA
1 TTTTTCA
48215047 TTTTTCA
1 TTTTTCA
48215054 -TTTTCA
1 TTTTTCA
48215060 TTTTTCA
1 TTTTTCA
48215067 TTTTTCA
1 TTTTTCA
*
48215074 TCTTTC-
1 TTTTTCA
48215080 TTTTT
1 TTTTT
48215085 TTTTTTTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
6 10 0.29
7 25 0.71
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:48215065 original size:20 final size:20
Alignment explanation
Indices: 48215040--48215084 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
48215030 CTCTTTCATT
48215040 TTTTTCATTTTTCAT-TTTC
1 TTTTTCATTTTTCATCTTTC
48215059 ATTTTTCATTTTTCATCTTTC
1 -TTTTTCATTTTTCATCTTTC
48215080 TTTTT
1 TTTTT
48215085 TTTTTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTCATTTTTCATCTTTC
Found at i:48215084 original size:13 final size:13
Alignment explanation
Indices: 48215040--48215084 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
48215030 CTCTTTCATT
48215040 TTTTTCATTTTTC
1 TTTTTCATTTTTC
*
48215053 ATTTTCATTTTTC
1 TTTTTCATTTTTC
*
48215066 ATTTTTCATCTTTC
1 -TTTTTCATTTTTC
48215080 TTTTT
1 TTTTT
48215085 TTTTTTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTTCATTTTTC
Found at i:48215090 original size:20 final size:21
Alignment explanation
Indices: 48215031--48215091 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
48215021 CCATTTTTAC
48215031 TCTTTCATTTTTTTCATTTTTCA
1 TCTTTCATTTTTTT--TTTTTCA
**
48215054 T-TTTCATTTTTCATTTTTCA
1 TCTTTCATTTTTTTTTTTTCA
48215074 TCTTTC-TTTTTTTTTTTT
1 TCTTTCATTTTTTTTTTTT
48215092 GAAATCCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 18 0.55
21 4 0.12
22 10 0.30
23 1 0.03
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (21 bp):
TCTTTCATTTTTTTTTTTTCA
Found at i:48221236 original size:25 final size:24
Alignment explanation
Indices: 48221196--48221243 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
48221186 TACAGAACTA
*
48221196 AAAAAAAATAAATAAATGAAACCT
1 AAAAAAAATAAATAAAAGAAACCT
*
48221220 AAAAAAAATGAACTAAAAGAAACC
1 AAAAAAAAT-AAATAAAAGAAACC
48221244 CTAGCCCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.71, C:0.10, G:0.06, T:0.12
Consensus pattern (24 bp):
AAAAAAAATAAATAAAAGAAACCT
Found at i:48222736 original size:51 final size:51
Alignment explanation
Indices: 48222620--48222748 Score: 179
Period size: 52 Copynumber: 2.5 Consensus size: 51
48222610 ACTAGTGACT
48222620 CAAGTGTGGTACTATGTGAATGCCACTTTGTGAAGAAAGATAGCTGTGGAAA
1 CAAGTGTGGTACTATGTGAA-GCCACTTTGTGAAGAAAGATAGCTGTGGAAA
* * **
48222672 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTTGGCTA
1 CAAGTGTGGTACTATGTGAA-GCCACTTTGTGAAGAAAGATAGCTGTGGAAA
*
48222723 CAAGGGTGGTACTATGTGCAAGCCAC
1 CAAGTGTGGTACTATGTG-AAGCCAC
48222749 CGGGTATCCG
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
51 34 0.49
52 36 0.51
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGCCACTTTGTGAAGAAAGATAGCTGTGGAAA
Found at i:48224913 original size:16 final size:16
Alignment explanation
Indices: 48224901--48224935 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
48224891 TTGAAATTGT
48224901 GAAATGGTGAAATAGA
1 GAAATGGTGAAATAGA
*
48224917 GAAATGGAGAAATAG-
1 GAAATGGTGAAATAGA
48224932 GAAA
1 GAAA
48224936 CATTTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.31, T:0.14
Consensus pattern (16 bp):
GAAATGGTGAAATAGA
Found at i:48225037 original size:6 final size:6
Alignment explanation
Indices: 48225026--48225070 Score: 72
Period size: 6 Copynumber: 7.2 Consensus size: 6
48225016 CTCTAAACTA
48225026 AAAATG AAAATG AAAATG AAAATG AAAATTG TAAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAA-TG -AAAATG AAAATG A
48225071 CTTGAAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 29 0.78
7 4 0.11
8 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (6 bp):
AAAATG
Found at i:48225772 original size:271 final size:272
Alignment explanation
Indices: 48225289--48225839 Score: 820
Period size: 271 Copynumber: 2.0 Consensus size: 272
48225279 ATAGAAAAAC
* *
48225289 AAATATTGAATTGAATCAAATTATAAAGTATTGGATTAAAAGCCGAAGAAGCACTTGTAATTATA
1 AAATATTGAATTGAATCAAATTATAAAGTATTGGATTAAAAGCCGAAGAAGCACTTATAATTAGA
* * *
48225354 CCCGATAGGAAAGAAGCATAAAAGCCTATTATGTTATAAGGTGAGACAACAAGTCATAATATCAT
66 CCCAATAGGAAAGAAGCATAAAAGCCTATTATCTTATAAGGTGAGACAACAAATCATAATATCAT
* * ** *
48225419 TAACTAAGGTTGTCGCCCCCTACATCCGAGTTGAACTAAGGTTTTGTTTTTCTAGTTAAAATGAA
131 TAACTAAGGTTGTCACCCCCTACATCCGAGTTGAACTAAGATTTCATTTTTCTAGTTAAAATAAA
* ** *
48225484 CTTCTATAAATAAATAAGGGTTCTACATTCCCTTCTTATAAATAGATAACACTAG-AAGGCTATT
196 CTTCTATAAATAAATAAGGGTTCTACATTCCCTCCCAATAAATAGATAACACCAGCAAGGCTATT
48225548 TACACAACTTTA
261 TACACAACTTTA
** *
48225560 AAATATTGGGTTGAATCAAATTATAAAGTATTGGATTAAAAGCCCG-AGAAGTACTTATAATTAG
1 AAATATTGAATTGAATCAAATTATAAAGTATTGGATTAAAAG-CCGAAGAAGCACTTATAATTAG
* * * *
48225624 ACCCAATAGGGAAGAAGCCTAAAAGCCCT-TTATCTTATAAGGTGGGACAACAAATCATAGTATC
65 ACCCAATAGGAAAGAAGCATAAAAG-CCTATTATCTTATAAGGTGAGACAACAAATCATAATATC
*
48225688 ATTAACTAAGGTTGTCACCCCCTACATCCTAGTTGAACTAAGATTTCATTTTTCTAGTTAAAATA
129 ATTAACTAAGGTTGTCACCCCCTACATCCGAGTTGAACTAAGATTTCATTTTTCTAGTTAAAATA
* * ** *
48225753 AACTTCTATAATTAAATAAGGGTTCTACATTCTCTCCCAATAAATAGATGGCACCAGCAGGGCTA
194 AACTTCTATAAATAAATAAGGGTTCTACATTCCCTCCCAATAAATAGATAACACCAGCAAGGCTA
48225818 TTTACACAACTTTA
259 TTTACACAACTTTA
48225832 AAATATTG
1 AAATATTG
48225840 TTACTCTGCT
Statistics
Matches: 250, Mismatches: 27, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
271 216 0.86
272 34 0.14
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (272 bp):
AAATATTGAATTGAATCAAATTATAAAGTATTGGATTAAAAGCCGAAGAAGCACTTATAATTAGA
CCCAATAGGAAAGAAGCATAAAAGCCTATTATCTTATAAGGTGAGACAACAAATCATAATATCAT
TAACTAAGGTTGTCACCCCCTACATCCGAGTTGAACTAAGATTTCATTTTTCTAGTTAAAATAAA
CTTCTATAAATAAATAAGGGTTCTACATTCCCTCCCAATAAATAGATAACACCAGCAAGGCTATT
TACACAACTTTA
Found at i:48229697 original size:41 final size:41
Alignment explanation
Indices: 48229655--48229733 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 41
48229645 CGTTTGGACA
48229655 AAAAACG-CAACTAAAAATCAAGCATTAGCGGTGC-TTTTAC
1 AAAAACGCCAA-TAAAAATCAAGCATTAGCGGTGCATTTTAC
* * *
48229695 AAAAACGCCGATAAATATCGAGCATTAGCGGTGCATTTT
1 AAAAACGCCAATAAAAATCAAGCATTAGCGGTGCATTTT
48229734 GGACAACGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 28 0.82
41 6 0.18
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (41 bp):
AAAAACGCCAATAAAAATCAAGCATTAGCGGTGCATTTTAC
Found at i:48229742 original size:40 final size:40
Alignment explanation
Indices: 48229666--48229761 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
48229656 AAAACGCAAC
48229666 TAAAAATCAAGCATTAGCGGTGCTTTTACAAAAACGCCGA
1 TAAAAATCAAGCATTAGCGGTGCTTTTACAAAAACGCCGA
* * ** * *
48229706 TAAATATCGAGCATTAGCGGTGCATTTT-GGACAACGCCGC
1 TAAAAATCAAGCATTAGCGGTGC-TTTTACAAAAACGCCGA
48229746 TAAAAAT-AAGCATTAG
1 TAAAAATCAAGCATTAG
48229762 TGGCATTTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 8 0.17
40 35 0.74
41 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (40 bp):
TAAAAATCAAGCATTAGCGGTGCTTTTACAAAAACGCCGA
Found at i:48229886 original size:41 final size:41
Alignment explanation
Indices: 48229829--48230107 Score: 362
Period size: 41 Copynumber: 6.8 Consensus size: 41
48229819 TTTTTGGGGT
* * ***
48229829 CTTTAGTGGCGTTTTTGAAAAAGCACCGCTAATGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
* *
48229870 CTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATACTCGTAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
** * * *
48229911 CTTTAGCGTTGTTTTTGAATAAGAGCCGCTAATGCTTGTAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
* ** *
48229952 CTTTAGCGGCGTTTTTGAAAAGGTACCGCGAATGCTCGTAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
48229993 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
** * *
48230034 CTTTAGCGATGTTTTT-AAAGAAGCGCCACTAATGCTCATAC
1 CTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTCGTAC
48230075 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
48230108 AATAAAATCT
Statistics
Matches: 204, Mismatches: 32, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
40 3 0.01
41 198 0.97
42 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGTAC
Found at i:48231441 original size:10 final size:10
Alignment explanation
Indices: 48231414--48231473 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
48231404 GTGATTTAAA
48231414 ATTTTAAAATG
1 ATTTTAAAA-G
48231425 AATTTTAAAAG
1 -ATTTTAAAAG
***
48231436 ATTTTAATTT
1 ATTTTAAAAG
*
48231446 TTTTTAAAA-
1 ATTTTAAAAG
48231455 ATTTTAAAAAG
1 ATTTT-AAAAG
48231466 ATTTTAAA
1 ATTTTAAA
48231474 CTTTTATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 4 0.10
10 20 0.51
11 6 0.15
12 9 0.23
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (10 bp):
ATTTTAAAAG
Found at i:48231470 original size:20 final size:20
Alignment explanation
Indices: 48231411--48231473 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
48231401 TTCGTGATTT
48231411 AAAATTTTAAAATGAATTTTA
1 AAAATTTTAAAATG-ATTTTA
* **
48231432 AAAGATTTT-AATTTTTTTTA
1 AAA-ATTTTAAAATGATTTTA
*
48231452 AAAATTTTAAAAAGATTTTA
1 AAAATTTTAAAATGATTTTA
48231472 AA
1 AA
48231474 CTTTTATTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
19 5 0.15
20 17 0.52
21 6 0.18
22 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
AAAATTTTAAAATGATTTTA
Found at i:48231923 original size:19 final size:19
Alignment explanation
Indices: 48231899--48231937 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
48231889 TTAGATACTG
48231899 AAGAATCAGACTGAAGTTT
1 AAGAATCAGACTGAAGTTT
48231918 AAGAATCAGACTGAAGTTT
1 AAGAATCAGACTGAAGTTT
48231937 A
1 A
48231938 TCTTCTCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.26
Consensus pattern (19 bp):
AAGAATCAGACTGAAGTTT
Found at i:48233697 original size:16 final size:16
Alignment explanation
Indices: 48233676--48233710 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
48233666 TCAAAAGGTA
*
48233676 TTGCCTTTGTTATATT
1 TTGCCTTTGTTATAAT
48233692 TTGCCTTTGTTATAAT
1 TTGCCTTTGTTATAAT
48233708 TTG
1 TTG
48233711 TCAGTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.14, T:0.60
Consensus pattern (16 bp):
TTGCCTTTGTTATAAT
Found at i:48235234 original size:43 final size:44
Alignment explanation
Indices: 48235070--48235236 Score: 148
Period size: 43 Copynumber: 3.9 Consensus size: 44
48235060 TTTGCATGAT
* * * *
48235070 ATGTT-TTTAGCGGCGTTTTTGCG-AGAAGCGTCGCTAAAGGT-
1 ATGTTCTTTAGCGGCATTTTTGAGAAAAAGCGCCGCTAAAGGTC
* * *
48235111 TTGTTCTATAGCGGCATTTTTGATAAAAAGCGCCGCTAAAGGTC
1 ATGTTCTTTAGCGGCATTTTTGAGAAAAAGCGCCGCTAAAGGTC
* * * *
48235155 ATGTTATTTAGCGGCATTTGTGA-CAAAAGCACCGCTAAAGGTC
1 ATGTTCTTTAGCGGCATTTTTGAGAAAAAGCGCCGCTAAAGGTC
** * *
48235198 ATGACCTTTAGCGGCGTTTTT-AGGAAAAA-CGTCGCTAAA
1 ATGTTCTTTAGCGGCATTTTTGA-GAAAAAGCGCCGCTAAA
48235237 TATCTTGTGG
Statistics
Matches: 100, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 4 0.04
42 15 0.15
43 58 0.58
44 23 0.23
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (44 bp):
ATGTTCTTTAGCGGCATTTTTGAGAAAAAGCGCCGCTAAAGGTC
Found at i:48235304 original size:43 final size:43
Alignment explanation
Indices: 48235241--48235434 Score: 228
Period size: 43 Copynumber: 4.5 Consensus size: 43
48235231 GCTAAATATC
* * *
48235241 TTGTGGGAAAAGCGTCGCTAAAGGTCATGGT-TTATAGCGGCGT
1 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTATT-TAGCGACGT
* * *
48235284 TTGTGACAAAAGCGCTGCTAAAGGTGATGGTATTTAGCGACGT
1 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTATTTAGCGACGT
* * * *
48235327 TTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGT
1 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTATTTAGCGACGT
* * * * *
48235370 TTGTGAGGAAATCGCCGCTAAAGGTCTTGGTCTTTAGCAACGT
1 TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTATTTAGCGACGT
*
48235413 TTGTGGGAAAAGCGCCGCTAAA
1 TTGTGAGAAAAGCGCCGCTAAA
48235435 TTTCTAAAAA
Statistics
Matches: 127, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 125 0.98
44 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (43 bp):
TTGTGAGAAAAGCGCCGCTAAAGGTCATGGTATTTAGCGACGT
Found at i:48235336 original size:112 final size:112
Alignment explanation
Indices: 48235136--48235348 Score: 284
Period size: 112 Copynumber: 1.9 Consensus size: 112
48235126 ATTTTTGATA
*
48235136 AAAAGCGCCGCTAAAGGTCATGTTATTTAGCGGCATTTGTGACAAAAGCACCGCTAAAGGTCATG
1 AAAAGCGCCGCTAAAGGTCATGTTATATAGCGGCATTTGTGACAAAAGCACCGCTAAAGGTCATG
* * * *
48235201 ACCTTTAGCGGCGTTTTTAGGAAAAACGTCGCTAAATATCTTGTGGG
66 ACATTTAGCGACGTTTGTAGGAAAAACGCCGCTAAATATCTTGTGGG
* * * * *
48235248 AAAAGCGTCGCTAAAGGTCATGGTT-TATAGCGGCGTTTGTGACAAAAGCGCTGCTAAAGGTGAT
1 AAAAGCGCCGCTAAAGGTCAT-GTTATATAGCGGCATTTGTGACAAAAGCACCGCTAAAGGTCAT
** * *
48235312 GGTATTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAA
65 GACATTTAGCGACGTTTGTAGGAAAAACGCCGCTAAA
48235349 GGTCATGGTC
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
112 83 0.97
113 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (112 bp):
AAAAGCGCCGCTAAAGGTCATGTTATATAGCGGCATTTGTGACAAAAGCACCGCTAAAGGTCATG
ACATTTAGCGACGTTTGTAGGAAAAACGCCGCTAAATATCTTGTGGG
Found at i:48235389 original size:155 final size:155
Alignment explanation
Indices: 48235095--48235391 Score: 384
Period size: 155 Copynumber: 1.9 Consensus size: 155
48235085 TTTTTGCGAG
* * *
48235095 AAGCGTCGCTAAAGGTTTGTTCTATAGCGGCATTTTTGATAAAAAGCGCCGCTAAAGGTCATGTT
1 AAGCGTCGCTAAAGGTTGGTTCTATAGCGGCATTTGTGATAAAAAGCGCCGCTAAAGGTCATGGT
* * *
48235160 ATTTAGCGGCATTTGTGACAAAAGCACCGCTAAAGGTCATGACCTTTAGCGGCGTTTTTAGGAAA
66 ATTTAGCGACATTTGTGACAAAAGCACCGCTAAAGGTCATGACCTATAGCGGCGTTTTGAGGAAA
*
48235225 AACGTCGCTAAATATCTTGTGGGAA
131 AACGCCGCTAAATATCTTGTGGGAA
* * * *
48235250 AAGCGTCGCTAAAGGTCATGGTT-TATAGCGGCGTTTGTGA-CAAAAGCGCTGCTAAAGGTGATG
1 AAGCGTCGCTAAAGGT--TGGTTCTATAGCGGCATTTGTGATAAAAAGCGCCGCTAAAGGTCATG
* ** * **
48235313 GTATTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGAGG
64 GTATTTAGCGACATTTGTGACAAAAGCACCGCTAAAGGTCATGACCTATAGCGGCGTTT-TGAGG
*
48235378 -AAATCGCCGCTAAA
128 AAAAACGCCGCTAAA
48235392 GGTCTTGGTC
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
155 98 0.81
156 19 0.16
157 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (155 bp):
AAGCGTCGCTAAAGGTTGGTTCTATAGCGGCATTTGTGATAAAAAGCGCCGCTAAAGGTCATGGT
ATTTAGCGACATTTGTGACAAAAGCACCGCTAAAGGTCATGACCTATAGCGGCGTTTTGAGGAAA
AACGCCGCTAAATATCTTGTGGGAA
Found at i:48235390 original size:86 final size:86
Alignment explanation
Indices: 48235241--48235434 Score: 298
Period size: 86 Copynumber: 2.3 Consensus size: 86
48235231 GCTAAATATC
* * *
48235241 TTGTGGGAAAAGCGTCGCTAAAGGTCATGGTTTATAGCGGCGTTTGTGACAAAAGCGCTGCTAAA
1 TTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGACAAAAGCGCCGCTAAA
* *
48235306 GGTGATGGTATTTAGCGACGT
66 GGTCATGGTATTTAGCAACGT
** *
48235327 TTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGAGGAAATCGCCGCTAAA
1 TTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGACAAAAGCGCCGCTAAA
* *
48235392 GGTCTTGGTCTTTAGCAACGT
66 GGTCATGGTATTTAGCAACGT
48235413 TTGTGGGAAAAGCGCCGCTAAA
1 TTGTGGGAAAAGCGCCGCTAAA
48235435 TTTCTAAAAA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 98 1.00
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (86 bp):
TTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGACAAAAGCGCCGCTAAA
GGTCATGGTATTTAGCAACGT
Found at i:48240922 original size:45 final size:45
Alignment explanation
Indices: 48240842--48241022 Score: 222
Period size: 45 Copynumber: 4.1 Consensus size: 45
48240832 ACAGATACAT
* * * * * *
48240842 GGTGG-ATCAGCACACAGC-ACCACCCTTAGAGTCAATGATACTC
1 GGTGGAATCAGCACATAACAACCACCTTTATAATCAATGATACCC
* * *
48240885 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTGCCC
1 GGTGGAATCAGCACATAACAACCACCTTTATAATCAATGATACCC
* *
48240930 GGTGGAATTAGCACATAACAACCACCTTTATAATCAATGGTACCC
1 GGTGGAATCAGCACATAACAACCACCTTTATAATCAATGATACCC
* * *
48240975 GGTGGAATCAGCACATAACAACCACCGTTACAATCAATGATACTC
1 GGTGGAATCAGCACATAACAACCACCTTTATAATCAATGATACCC
48241020 GGT
1 GGT
48241023 ACACGTAGTA
Statistics
Matches: 121, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 5 0.04
44 12 0.10
45 104 0.86
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (45 bp):
GGTGGAATCAGCACATAACAACCACCTTTATAATCAATGATACCC
Found at i:48246566 original size:6 final size:6
Alignment explanation
Indices: 48246555--48246579 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48246545 CTACTATTAG
48246555 AAAAGA AAAAGA AAAAGA AAAAGA A
1 AAAAGA AAAAGA AAAAGA AAAAGA A
48246580 GAAAAACCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:48247112 original size:23 final size:22
Alignment explanation
Indices: 48247073--48247116 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
48247063 ATGTTTAAAA
48247073 ATAATATAAAAAATAATAATAC
1 ATAATATAAAAAATAATAATAC
*
48247095 ATAATATTAAAAACTAATAATA
1 ATAATA-TAAAAAATAATAATA
48247117 AATTCATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (22 bp):
ATAATATAAAAAATAATAATAC
Found at i:48254767 original size:9 final size:9
Alignment explanation
Indices: 48254750--48254819 Score: 54
Period size: 9 Copynumber: 7.6 Consensus size: 9
48254740 AAGCTAGTGC
48254750 AAAAA-AAT
1 AAAAATAAT
48254758 AAAAATAAT
1 AAAAATAAT
48254767 AGGAAAAATAAT
1 ---AAAAATAAT
* * *
48254779 AATACTAAG
1 AAAAATAAT
48254788 AAAATATAAT
1 AAAA-ATAAT
*
48254798 AAAAGTAA-
1 AAAAATAAT
48254806 AAAAATAAT
1 AAAAATAAT
48254815 AAAAA
1 AAAAA
48254820 ATTGAAATAG
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
8 12 0.25
9 20 0.42
10 7 0.15
12 9 0.19
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (9 bp):
AAAAATAAT
Found at i:48254798 original size:19 final size:18
Alignment explanation
Indices: 48254769--48254818 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
48254759 AAAATAATAG
*
48254769 GAAAAATAATAATACTAA
1 GAAAAATAATAAAACTAA
*
48254787 GAAAATATAATAAAAGTAA
1 GAAAA-ATAATAAAACTAA
48254806 -AAAAATAATAAAA
1 GAAAAATAATAAAA
48254819 AATTGAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 9 0.31
18 9 0.31
19 11 0.38
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (18 bp):
GAAAAATAATAAAACTAA
Found at i:48255904 original size:94 final size:94
Alignment explanation
Indices: 48255736--48255943 Score: 281
Period size: 94 Copynumber: 2.2 Consensus size: 94
48255726 ATACGGCCAA
* *
48255736 GGACACACCCGTGTGTCCAGGTCGTGTGACCTACACAGCCATGTCTTCACACCATGTAACTCACT
1 GGACACGCCCGTGTGTCCAGGTCGTGTGACCTACACAGCCATGTCTTCACACCATATAACTCACT
* *
48255801 ATAAAACACTACCTTGTGCACATGACTTG
66 ATAAAACACTACCTTGTGCACACGACCTG
* * * * * *
48255830 GGATACGCCCGTGTGTCCCGGTCGTGTGACTTACACAGCTATGTCTTCACACCGTATAACTCATT
1 GGACACGCCCGTGTGTCCAGGTCGTGTGACCTACACAGCCATGTCTTCACACCATATAACTCACT
* * *
48255895 GTAGAACACTCCCTTGTGCACACGACCTG
66 ATAAAACACTACCTTGTGCACACGACCTG
* *
48255924 GGACATGACCGTGTGTCCAG
1 GGACACGCCCGTGTGTCCAG
48255944 CCACACAGCC
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
94 97 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (94 bp):
GGACACGCCCGTGTGTCCAGGTCGTGTGACCTACACAGCCATGTCTTCACACCATATAACTCACT
ATAAAACACTACCTTGTGCACACGACCTG
Found at i:48264273 original size:24 final size:24
Alignment explanation
Indices: 48264246--48264293 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
48264236 ATGATTGCCA
48264246 GTGAATTTATTTCCGATCATTGTT
1 GTGAATTTATTTCCGATCATTGTT
*
48264270 GTGAATTTATTTCCGATGATTGTT
1 GTGAATTTATTTCCGATCATTGTT
48264294 ATAAAAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.10, G:0.19, T:0.50
Consensus pattern (24 bp):
GTGAATTTATTTCCGATCATTGTT
Found at i:48273501 original size:18 final size:19
Alignment explanation
Indices: 48273468--48273504 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
48273458 ATTGTTGCAC
48273468 ATGAATGGATTAGTTACAT
1 ATGAATGGATTAGTTACAT
48273487 ATGAATGGA-TAGTTACAT
1 ATGAATGGATTAGTTACAT
48273505 GTTTAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (19 bp):
ATGAATGGATTAGTTACAT
Found at i:48274174 original size:69 final size:69
Alignment explanation
Indices: 48274063--48274653 Score: 824
Period size: 69 Copynumber: 8.7 Consensus size: 69
48274053 AGATTCAGCA
*
48274063 TCTTTAAAATGTGTTCATTTACGTTCTATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
48274128 GTAG
66 GTAG
* * * *
48274132 TCTTTAAAATGTGTTGATTTACGTTCGATTTAAATGCTTAATGTGCTGTTGTAAAGGGCTGGTAT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
48274197 GTAG
66 GTAG
* * *
48274201 TCTTTAAAATGTGTTCATTTACATTCGTTTTAAATGCTTAAGGTGCTGCTGTAAAGGGCTGA-TT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
48274265 GTAG
66 GTAG
* * * * *
48274269 -CATTTAAAATATGTTAATCTACATTCGATTTAAATGCTTAATGTGCTACTGTAAAGGGCTGATT
1 TC-TTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATT
48274333 TGTAG
65 TGTAG
* * *
48274338 TCTTTAAAATGTGTTCGTTTACGGTCGATTTAAGTGCTTAATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
*
48274403 GTTG
66 GTAG
* * *
48274407 TCTTTAAAATGTGTTGATTTACGTTCGATTTAAATGTTTAATGTGCTACTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
48274472 GTAG
66 GTAG
* *
48274476 TCTTTAAAATGTGTTAATTTACATTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
*
48274541 GTAT
66 GTAG
* * * * * *
48274545 TCTTTAAAATGTGTTCATTTACATTCGATTTAAGTTCTTAATGTGTTGTTGTATAGGGCTGATTT
1 TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
48274610 -TA-
66 GTAG
*
48274612 -----AAACTGTGTTCATTTACGTTC-ATTTTAAATGCTTAATGTGCT
1 TCTTTAAAATGTGTTCATTTACGTTCGA-TTTAAATGCTTAATGTGCT
48274654 TTCCAGAAAT
Statistics
Matches: 468, Mismatches: 50, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
61 1 0.00
62 35 0.07
67 1 0.00
68 61 0.13
69 369 0.79
70 1 0.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.43
Consensus pattern (69 bp):
TCTTTAAAATGTGTTCATTTACGTTCGATTTAAATGCTTAATGTGCTGCTGTAAAGGGCTGATTT
GTAG
Found at i:48281076 original size:13 final size:13
Alignment explanation
Indices: 48281054--48281093 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
48281044 TCTTCCTCCC
*
48281054 TTATTAATTTTAT
1 TTATTTATTTTAT
48281067 TTATTTATTTTAT
1 TTATTTATTTTAT
*
48281080 TTACTTATTTTAT
1 TTATTTATTTTAT
48281093 T
1 T
48281094 ATTGTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTATTTTAT
Found at i:48281139 original size:3 final size:3
Alignment explanation
Indices: 48281131--48281191 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
48281121 CTAACATTTC
* * *
48281131 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAC TAT TTT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
48281178 TTT TCT TAT TAT TA
1 TAT TAT TAT TAT TA
48281192 GTAGTAGGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:48290331 original size:22 final size:23
Alignment explanation
Indices: 48290301--48290343 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
48290291 GTCAACAAAT
*
48290301 AATTTAAAAATT-ATAAAAATAA
1 AATTAAAAAATTCATAAAAATAA
*
48290323 AATTAAAAAGTTCATAAAAAT
1 AATTAAAAAATTCATAAAAAT
48290344 TAAGAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
AATTAAAAAATTCATAAAAATAA
Found at i:48292581 original size:18 final size:18
Alignment explanation
Indices: 48292558--48292592 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48292548 CTTAAATATA
48292558 ATAATTATAATTATAAGC
1 ATAATTATAATTATAAGC
* *
48292576 ATAATTCTAATTTTAAG
1 ATAATTATAATTATAAG
48292593 AAAATAGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (18 bp):
ATAATTATAATTATAAGC
Found at i:48294131 original size:29 final size:31
Alignment explanation
Indices: 48294076--48294133 Score: 86
Period size: 29 Copynumber: 1.9 Consensus size: 31
48294066 AATATACATA
48294076 TTATAAAAAATAATTTATATGTATTTTAAAG
1 TTATAAAAAATAATTTATATGTATTTTAAAG
48294107 TTATAACAAAA-AA-TTATAT-TATTTTAA
1 TTATAA-AAAATAATTTATATGTATTTTAA
48294134 TCCTAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 8 0.31
30 6 0.23
31 8 0.31
32 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (31 bp):
TTATAAAAAATAATTTATATGTATTTTAAAG
Found at i:48295477 original size:27 final size:27
Alignment explanation
Indices: 48295447--48295498 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
48295437 AAGGGTGGTG
*
48295447 CCTACCTGATAGGCGGCACCAGTGACC
1 CCTACCTGATAAGCGGCACCAGTGACC
* *
48295474 CCTATCTGATAAGTGGCACCAGTGA
1 CCTACCTGATAAGCGGCACCAGTGA
48295499 AGCAGTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (27 bp):
CCTACCTGATAAGCGGCACCAGTGACC
Found at i:48295768 original size:105 final size:105
Alignment explanation
Indices: 48295641--48295924 Score: 286
Period size: 115 Copynumber: 2.6 Consensus size: 105
48295631 TTTATTGTTG
*
48295641 TTTTTATGTTATTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTT
1 TTTTTAT-TAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTT
* *
48295706 -TGTTTAATGTTTATTGTGATTTGTTAGGTTATGAATGTA-AA
65 AGGTTTAAGGTTTATTGTGATTTGTTAGGTTATGAA--TACAA
* ** * *
48295747 TTTTTATTAATTTTTAATTTATTTTAAAATTATTTTGTTAGTAAGTTTTGTGATTAGGTTAATTG
1 TTTTTATTAATTTTTAATTTATTTTAAAGTTATTTTG-T--T-AG-TTACT-ATTA--TAAATTA
*
48295812 TTTGTTTAGGGTTTAGGGTTTATTGTGATTTGTTAGGTTATGAATACAA
58 TTTGTTTA-GGTTTAAGGTTTATTGTGATTTGTTAGGTTATGAATACAA
* * * * * *
48295861 TCTCTTCA-TATTTTTTAATTTATTTGAAAGTTATTTTGGTAGTAACTATTATAAATTAATTGTT
1 T-T-TTTATTAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTT
48295925 AGTTAGTGAA
Statistics
Matches: 145, Mismatches: 20, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
105 28 0.19
106 8 0.06
107 10 0.07
108 1 0.01
109 6 0.04
110 5 0.03
111 6 0.04
112 1 0.01
113 14 0.10
114 3 0.02
115 60 0.41
116 3 0.02
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (105 bp):
TTTTTATTAATTTTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTA
GGTTTAAGGTTTATTGTGATTTGTTAGGTTATGAATACAA
Found at i:48298660 original size:24 final size:23
Alignment explanation
Indices: 48298636--48298691 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 23
48298626 CAAATAAATA
48298636 AAAAACAAATAAAATTACATTAT
1 AAAAACAAATAAAATTACATTAT
48298659 ---AACAAATAAAATTACATTA-
1 AAAAACAAATAAAATTACATTAT
48298678 AACTAAACAAATAA
1 AA--AAACAAATAA
48298692 TTTATAACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
20 19 0.68
24 9 0.32
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAAACAAATAAAATTACATTAT
Found at i:48298662 original size:20 final size:20
Alignment explanation
Indices: 48298639--48298677 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
48298629 ATAAATAAAA
48298639 AACAAATAAAATTACATTAT
1 AACAAATAAAATTACATTAT
48298659 AACAAATAAAATTACATTA
1 AACAAATAAAATTACATTA
48298678 AACTAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (20 bp):
AACAAATAAAATTACATTAT
Found at i:48298733 original size:113 final size:113
Alignment explanation
Indices: 48298630--48298858 Score: 290
Period size: 113 Copynumber: 2.1 Consensus size: 113
48298620 AATTGTCAAA
* * * * * *
48298630 TAAATAAAAAACAAATAAAATTACATT-ATAACAAAT-AAAATTA-CATTAAACTA-A-ACAAAT
1 TAAA-AAAAAAAAAAAAAAATTACATTCATAAAAAATCAAAATAAGCACTAAACTATACACAAAA
* *
48298690 AATTTATAACCTAATCATAAATTACTGACAAAATAACTTAAAAATAATT
65 AATTTATAACCTAATAATAAATTACTAACAAAATAACTTAAAAATAATT
* * *
48298739 TAAAAAACACAAAAAAAAATTACATTCATAAAAAATCACAATAAGCACTAAACTATACACAAAAA
1 TAAAAAAAAAAAAAAAAAATTACATTCATAAAAAATCAAAATAAGCACTAAACTATACACAAAAA
**
48298804 ATTTATAACCTAATAATAAATTACTAACAAAATAACTTTCAAATAA-T
66 ATTTATAACCTAATAATAAATTACTAACAAAATAACTTAAAAATAATT
48298851 TAAAAAAA
1 TAAAAAAA
48298859 TTTACATTAA
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
108 18 0.18
109 12 0.12
110 5 0.05
111 9 0.09
112 9 0.09
113 48 0.48
ACGTcount: A:0.61, C:0.13, G:0.01, T:0.26
Consensus pattern (113 bp):
TAAAAAAAAAAAAAAAAAATTACATTCATAAAAAATCAAAATAAGCACTAAACTATACACAAAAA
ATTTATAACCTAATAATAAATTACTAACAAAATAACTTAAAAATAATT
Found at i:48298771 original size:102 final size:102
Alignment explanation
Indices: 48298664--48298984 Score: 282
Period size: 102 Copynumber: 3.1 Consensus size: 102
48298654 ATTATAACAA
* * * *
48298664 ATAAAATTACATTAAACTAA-ACAAATAATTTATAACCTAATCATAAATTACTGACAAAATAACT
1 ATAAAATTACACTAAACTAACACAAAAAATTTATAACCTAATAATAAATTACTAACAAAATAACT
*
48298728 TAAAAATAATTTAAAAAACACAAAAAAAAATTACATTC
66 TTAAAATAATTTAAAAAA-ACAAAAAAAAATTACATTC
48298766 ATAAAAAATCACAATAAGCACTAAACTATACACAAAAAATTTATAACCTAATAATAAATTACTAA
1 AT--AAAAT-----T-A-CACTAAACTA-ACACAAAAAATTTATAACCTAATAATAAATTACTAA
* *
48298831 CAAAATAACTTTCAAATAATTAAAAAAATTTACATTAATAAAAAA-T-CA--C
56 CAAAATAACTTTAAAATAATTTAAAAAA---ACA--AA-AAAAAATTACATTC
* * * * *
48298880 A-ATAA--ACACTAAACTAAACACAAACAATATATAACCTAATTATAAATTACAAACAAAATAAC
1 ATAAAATTACACTAAACT-AACACAAAAAATTTATAACCTAATAATAAATTACTAACAAAATAAC
* * *
48298942 TTTAAAATCATTTAGAAAAAC-AAAAAAATTTACATTC
65 TTTAAAATAATTTAAAAAAACAAAAAAAAATTACATTC
48298979 ATAAAA
1 ATAAAA
48298985 AATCACAAAA
Statistics
Matches: 178, Mismatches: 19, Indels: 46
0.73 0.08 0.19
Matches are distributed among these distances:
95 5 0.03
96 3 0.02
97 2 0.01
99 4 0.02
100 3 0.02
102 67 0.38
103 2 0.01
104 5 0.03
109 1 0.01
110 1 0.01
111 12 0.07
112 1 0.01
113 56 0.31
114 2 0.01
115 3 0.02
116 2 0.01
117 3 0.02
118 6 0.03
ACGTcount: A:0.59, C:0.14, G:0.01, T:0.26
Consensus pattern (102 bp):
ATAAAATTACACTAAACTAACACAAAAAATTTATAACCTAATAATAAATTACTAACAAAATAACT
TTAAAATAATTTAAAAAAACAAAAAAAAATTACATTC
Found at i:48299077 original size:109 final size:109
Alignment explanation
Indices: 48298852--48299053 Score: 270
Period size: 109 Copynumber: 1.9 Consensus size: 109
48298842 TCAAATAATT
48298852 AAAAAAATTTACATTAATAAAAAATCACAATAAACACTAAACTAAACACAAACAATATATAACCT
1 AAAAAAATTTACATTAATAAAAAATCACAATAAACACTAAACTAAACACAAACAATATATAA-CT
* ***
48298917 AATTATAAATTACAAACAAAATAACTTTAAAATCATTTAGAAAAAC
65 AATTATAAA-TACAAACAAAAAAAAAATAAAATCATTTAGAAAAAC
* *
48298963 AAAAAAATTTACATTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAATTTATAA-TA
1 AAAAAAATTTACATTAATAAAAAATCACAATAAACACTAAACTAAACACAAACAATATATAACTA
48299025 ATTACTAAA-A-AAACAACATAAAAAAATAA
66 ATTA-TAAATACAAACAA-A-AAAAAAATAA
48299054 CTAATCCCTT
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
105 6 0.07
106 2 0.02
107 12 0.15
108 4 0.05
109 30 0.37
110 1 0.01
111 27 0.33
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.23
Consensus pattern (109 bp):
AAAAAAATTTACATTAATAAAAAATCACAATAAACACTAAACTAAACACAAACAATATATAACTA
ATTATAAATACAAACAAAAAAAAAATAAAATCATTTAGAAAAAC
Found at i:48299100 original size:27 final size:26
Alignment explanation
Indices: 48299044--48299111 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
48299034 AAAACAACAT
* *
48299044 AAAAAAATAACTAATCCCTTCTATTTA
1 AAAAAAAT-ACTAACCCCTTCTATTAA
48299071 AAAAAAATACTAACCCCTT-TAAATTAA
1 AAAAAAATACTAACCCCTTCT--ATTAA
48299098 AAAAAAATACTAAC
1 AAAAAAATACTAAC
48299112 AAACATACCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 1 0.03
26 10 0.27
27 26 0.70
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAAAAATACTAACCCCTTCTATTAA
Found at i:48307410 original size:36 final size:36
Alignment explanation
Indices: 48307369--48307441 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
48307359 ATATATAGTG
*
48307369 ATGCTTCACATAGTGGTCTTGGTTGCGTTTTGATGC
1 ATGCTTCACATAGTGGTCTTGGTTGCATTTTGATGC
48307405 ATGCTTCACATAGTGGTCTTGGTTGCATTTTGATGC
1 ATGCTTCACATAGTGGTCTTGGTTGCATTTTGATGC
48307441 A
1 A
48307442 AATAGAAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.41
Consensus pattern (36 bp):
ATGCTTCACATAGTGGTCTTGGTTGCATTTTGATGC
Found at i:48322239 original size:30 final size:29
Alignment explanation
Indices: 48322209--48322406 Score: 139
Period size: 29 Copynumber: 6.8 Consensus size: 29
48322199 GGACACCTTT
* * *
48322209 GGCTATCGATTAATGAAAAAAGATATCTTT
1 GGCTATCGATT-ATGAAAAAGGATAGCTTC
* * *
48322239 GTCTATCAATTATGAAAAGGGATAGCTTC
1 GGCTATCGATTATGAAAAAGGATAGCTTC
* *
48322268 AGATATCGATTATGAAAAAGGATAGCTTC
1 GGCTATCGATTATGAAAAAGGATAGCTTC
* * *
48322297 GGCTATCGATTATGAAAAGGGAT-GGTGAC
1 GGCTATCGATTATGAAAAAGGATAGCT-TC
** * * * * *
48322326 TACAATCAACTATGAACAAGGAT-GGTTAC
1 GGCTATCGATTATGAAAAAGGATAGCTT-C
* * * *
48322355 GACCATCGAATATGAAAACGGATAGCTTC
1 GGCTATCGATTATGAAAAAGGATAGCTTC
* *
48322384 GGCTATTGATTATGAAAAGGGAT
1 GGCTATCGATTATGAAAAAGGAT
48322407 GGTAACGACC
Statistics
Matches: 129, Mismatches: 36, Indels: 7
0.75 0.21 0.04
Matches are distributed among these distances:
28 2 0.02
29 115 0.89
30 12 0.09
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (29 bp):
GGCTATCGATTATGAAAAAGGATAGCTTC
Found at i:48322262 original size:29 final size:29
Alignment explanation
Indices: 48322191--48322319 Score: 132
Period size: 29 Copynumber: 4.4 Consensus size: 29
48322181 TCATCGACCA
* * *
48322191 ATGAAATGGGACACCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTTGGCTATCGATT
** * * *
48322220 AATGAAAAAAGATATCTTTGTCTATCAATT
1 -ATGAAAAGGGATAGCTTTGGCTATCGATT
** *
48322250 ATGAAAAGGGATAGCTTCAGATATCGATT
1 ATGAAAAGGGATAGCTTTGGCTATCGATT
* *
48322279 ATGAAAAAGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTTGGCTATCGATT
48322308 ATGAAAAGGGAT
1 ATGAAAAGGGAT
48322320 GGTGACTACA
Statistics
Matches: 80, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
29 58 0.73
30 22 0.28
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTTGGCTATCGATT
Found at i:48322339 original size:29 final size:29
Alignment explanation
Indices: 48322307--48322448 Score: 110
Period size: 29 Copynumber: 4.9 Consensus size: 29
48322297 GGCTATCGAT
* *
48322307 TATGAAAAGGGATGGTGACTACAATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
*
48322336 TATGAACAA-GGATGGTTACGACCATCGAA-
1 TATGAA-AAGGGATGGTGACGACCATC-AAC
* * * * * ** *
48322365 TATGAAAACGGATAGCT-TCGGCTATTGAT
1 TATGAAAAGGGAT-GGTGACGACCATCAAC
*
48322394 TATGAAAAGGGATGGTAACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
48322423 TATGAAAAGCGATGGTGATGACCATC
1 TATGAAAAGGGATGGTGACGACCATC
48322449 GATTAATCAA
Statistics
Matches: 87, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
28 5 0.06
29 76 0.87
30 6 0.07
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:48322341 original size:87 final size:87
Alignment explanation
Indices: 48322243--48322450 Score: 251
Period size: 87 Copynumber: 2.4 Consensus size: 87
48322233 ATCTTTGTCT
* * *
48322243 ATCAATTATGAAAAGGGATAGCTT-CAGA-TATCGATTATGAAAAAGGATAGCTTCGGCTATCGA
1 ATCAACTATGAAAAGGGAT-GCTTAC-GACCATCGAATATGAAAAAGGATAGCTTCGGCTATCGA
* *
48322306 TTATGAAAAGGGATGGTGACTACA
64 TTATGAAAAGGGATGGTAACGACA
* * *
48322330 ATCAACTATGAACAA-GGATGGTTACGACCATCGAATATGAAAACGGATAGCTTCGGCTATTGAT
1 ATCAACTATGAA-AAGGGATGCTTACGACCATCGAATATGAAAAAGGATAGCTTCGGCTATCGAT
*
48322394 TATGAAAAGGGATGGTAACGACC
65 TATGAAAAGGGATGGTAACGACA
* * * *
48322417 ATCAACTATGAAAAGCGATGGTGATGACCATCGA
1 ATCAACTATGAAAAGGGATGCTTACGACCATCGA
48322451 TTAATCAAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
86 7 0.07
87 96 0.91
88 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (87 bp):
ATCAACTATGAAAAGGGATGCTTACGACCATCGAATATGAAAAAGGATAGCTTCGGCTATCGATT
ATGAAAAGGGATGGTAACGACA
Found at i:48322475 original size:30 final size:30
Alignment explanation
Indices: 48322441--48322510 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
48322431 GCGATGGTGA
* *
48322441 TGACCATCGATTAATCAAAAGGGTTGGTTT
1 TGACCATCGATTAATCAAAAGGGATAGTTT
* * * *
48322471 TGACCATTGATTAATGAAAATGGATATTTT
1 TGACCATCGATTAATCAAAAGGGATAGTTT
48322501 TGACCATCGA
1 TGACCATCGA
48322511 ATATGAAAGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (30 bp):
TGACCATCGATTAATCAAAAGGGATAGTTT
Found at i:48329757 original size:318 final size:317
Alignment explanation
Indices: 48329180--48329818 Score: 1242
Period size: 318 Copynumber: 2.0 Consensus size: 317
48329170 AAACTAAACC
*
48329180 AAACTGAAAAATAAATATCTTCACAAATAATAAAATATAGTCCCCGACAACGACACCAAAACTTG
1 AAACTGAAAAATAAATATCTTCACAAATAATAAAATACAGTCCCCGACAACGACACCAAAACTTG
48329245 TATCGTCGTGTGATTACATGAAAGTGTATACGGCCGTACAAGTAATAAGTAGTAAGTAAAAAAGT
66 TATCGTCGTGTGATTACATGAAAGTGTATACGGCCGTACAAGTAATAAGTAGTAAGTAAAAAAGT
48329310 TATCATCTTCACAGGAATTGTGTGGTAATTATTTGCAAGTCAATTTTTAATCGACTTTGTTGAAC
131 TATCATCTTCACAGGAATTGTGTGGTAATTATTTGCAAGTCAATTTTTAATCGACTTTGTTGAAC
*
48329375 AAGATAAAGAATAATATTGTTGATGAAAAAATCGCAATTTAAATTCAAGGATGAAATCAATGTTC
196 AAGATAAAGAAGAATATTGTTGATGAAAAAATCGCAATTTAAATTCAAGGATGAAATCAATGTTC
48329440 AAATACCCACAAAACAAAACAACATACATTGCAAAAAAATGATCACAACATAAAATAA
261 AAATACCCACAAAACAAAACAACATACATTGC-AAAAAATGATCACAACATAAAATAA
48329498 AAACTGAAAAATAAATATCTTCACAAATAATAAAATACAGTCCCCGACAACGACACCAAAACTTG
1 AAACTGAAAAATAAATATCTTCACAAATAATAAAATACAGTCCCCGACAACGACACCAAAACTTG
*
48329563 TATCGTCGTGTGATTACATGAAAGTGTATACGGTCGTACAAGTAATAAGTAGTAAGTAAAAAAGT
66 TATCGTCGTGTGATTACATGAAAGTGTATACGGCCGTACAAGTAATAAGTAGTAAGTAAAAAAGT
48329628 TATCATCTTCACAGGAATTGTGTGGTAATTATTTGCAAGTCAATTTTTAATCGACTTTGTTGAAC
131 TATCATCTTCACAGGAATTGTGTGGTAATTATTTGCAAGTCAATTTTTAATCGACTTTGTTGAAC
48329693 AAGATAAAGAAGAATATTGTTGATGAAAAAATCGCAATTTAAATTCAAGGATGAAATCAATGTTC
196 AAGATAAAGAAGAATATTGTTGATGAAAAAATCGCAATTTAAATTCAAGGATGAAATCAATGTTC
48329758 AAATACCCACAAAACAAAACAACATACATTGCAAAAAATGATCACAACATAAAATAA
261 AAATACCCACAAAACAAAACAACATACATTGCAAAAAATGATCACAACATAAAATAA
48329815 AAAC
1 AAAC
48329819 AAGGCATAAT
Statistics
Matches: 318, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
317 29 0.09
318 289 0.91
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (317 bp):
AAACTGAAAAATAAATATCTTCACAAATAATAAAATACAGTCCCCGACAACGACACCAAAACTTG
TATCGTCGTGTGATTACATGAAAGTGTATACGGCCGTACAAGTAATAAGTAGTAAGTAAAAAAGT
TATCATCTTCACAGGAATTGTGTGGTAATTATTTGCAAGTCAATTTTTAATCGACTTTGTTGAAC
AAGATAAAGAAGAATATTGTTGATGAAAAAATCGCAATTTAAATTCAAGGATGAAATCAATGTTC
AAATACCCACAAAACAAAACAACATACATTGCAAAAAATGATCACAACATAAAATAA
Found at i:48331871 original size:14 final size:14
Alignment explanation
Indices: 48331835--48331873 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
48331825 TTGTTTCATT
*
48331835 GAAAATGACTTTCG
1 GAAAATGATTTTCG
* *
48331849 AAAAATGATTTTTG
1 GAAAATGATTTTCG
48331863 GAAAATGATTT
1 GAAAATGATTT
48331874 ATTTTTCTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (14 bp):
GAAAATGATTTTCG
Found at i:48332383 original size:19 final size:20
Alignment explanation
Indices: 48332347--48332398 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
48332337 TATTATTAAT
* **
48332347 ATATTTATAATTGTAATA-A
1 ATATTTATTATTAAAATATA
48332366 ATATTTATTATTAAAATATTA
1 ATATTTATTATTAAAATA-TA
*
48332387 ATATTTAATATT
1 ATATTTATTATT
48332399 TTCAATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATTTATTATTAAAATATA
Found at i:48332495 original size:20 final size:22
Alignment explanation
Indices: 48332466--48332507 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
48332456 AATAAAATTG
*
48332466 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
48332486 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
48332508 TATTAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:48333859 original size:42 final size:42
Alignment explanation
Indices: 48333743--48333848 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 42
48333733 AAGCCATAAG
* * *
48333743 GCCTAGACACACGCCCATGTCCTTGCTTGTGTGGCTCACACA
1 GCCTGGACACACGCCCATGTCCTTGCTCGTGTGACTCACACA
*
48333785 GCCTGGACACACGCCCATGTCCTTGCTCGTGTGACTCACACG
1 GCCTGGACACACGCCCATGTCCTTGCTCGTGTGACTCACACA
*
48333827 GCCTGGACA-ATGCCCATGTCCT
1 GCCTGGACACACGCCCATGTCCT
48333849 CTGACCGTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
41 12 0.20
42 47 0.80
ACGTcount: A:0.18, C:0.37, G:0.23, T:0.23
Consensus pattern (42 bp):
GCCTGGACACACGCCCATGTCCTTGCTCGTGTGACTCACACA
Found at i:48333965 original size:104 final size:104
Alignment explanation
Indices: 48333780--48334008 Score: 381
Period size: 104 Copynumber: 2.2 Consensus size: 104
48333770 TGTGTGGCTC
* *
48333780 ACACAGCCTGGACACACGCCCATGTCCTTGCTCGTGTGACTCACACGGCCTGGACAATGCCCATG
1 ACACGGCCTGGACACACGCCCATGTCCTTGCTCGTGTAACTCACACGGCCTGGACAATGCCCATG
48333845 TCCTCTGACCGTGTGGTTCTCAAAA-GTAAATAATGAGTT
66 TCCTCTGACCGTGTGGTTCT-AAAATGTAAATAATGAGTT
48333884 ACACGGCCTGGACACACGCCCATGTCCTTG-TCCGTGTAACTCACACGGCCTGGACAATGCCCAT
1 ACACGGCCTGGACACACGCCCATGTCCTTGCT-CGTGTAACTCACACGGCCTGGACAATGCCCAT
48333948 GTCCTCTGACCGTGTGGTTCTAAAATGTAAATAATGAGTT
65 GTCCTCTGACCGTGTGGTTCTAAAATGTAAATAATGAGTT
* * *
48333988 ACACGTCCTAGACACATGCCC
1 ACACGGCCTGGACACACGCCC
48334009 GTGTGGTCCT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
103 5 0.04
104 113 0.96
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (104 bp):
ACACGGCCTGGACACACGCCCATGTCCTTGCTCGTGTAACTCACACGGCCTGGACAATGCCCATG
TCCTCTGACCGTGTGGTTCTAAAATGTAAATAATGAGTT
Found at i:48335374 original size:10 final size:9
Alignment explanation
Indices: 48335360--48335411 Score: 65
Period size: 8 Copynumber: 6.0 Consensus size: 9
48335350 TGAAACAATT
48335360 TTCTCTCTC
1 TTCTCTCTC
48335369 TT-TCTCTC
1 TTCTCTCTC
48335377 TT-TCTCTC
1 TTCTCTCTC
*
48335385 ATGCTCTCTC
1 -TTCTCTCTC
48335395 TTC-CTCTC
1 TTCTCTCTC
48335403 TTCTCTCTC
1 TTCTCTCTC
48335412 CAATTGTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
8 22 0.58
9 10 0.26
10 6 0.16
ACGTcount: A:0.02, C:0.42, G:0.02, T:0.54
Consensus pattern (9 bp):
TTCTCTCTC
Found at i:48339489 original size:113 final size:114
Alignment explanation
Indices: 48339134--48339575 Score: 597
Period size: 114 Copynumber: 3.9 Consensus size: 114
48339124 AAAACAGACT
* * * *
48339134 TTTAGCGGCGTTTTTCAAAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCATTTATC-GAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTT-TCTGAGC
*
48339197 TTTCGGAGATTTAGCGAG-GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGA
65 TTTCGGGGATTTAGCG-GCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGA
* * * * * * * *
48339247 TTTAGTGGCGTTATTGATAAAGCGCCGCAAAAAAACCTAAGGCAAATGATGACGTTTTTTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCT
48339312 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGA
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGA
*
48339361 TTTAGCGGCGTTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCT
*
48339426 TTCGGGGATTTAGCGGCGTTTTT-AGAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGA
* * * * * *
48339474 TTTAGTGGCGTTTTTGGGGATA-CGTCGCAAAAAAACCTAAGCCAAACGACACTGTTTTCTGAGC
1 TTTAGCGGCGTTTTT-GAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGC
* * *
48339538 TTTTGGGGATTTAGCGGTGTTTTTTGAGAAAGCGCCGC
65 TTTCGGGGATTTAGCGGCG-TTTTTAAGAAAGCGCCGC
48339576 AAAAAACCTA
Statistics
Matches: 292, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
113 119 0.41
114 161 0.55
115 12 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTTTCTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGA
Found at i:48339539 original size:227 final size:228
Alignment explanation
Indices: 48339134--48339575 Score: 626
Period size: 227 Copynumber: 1.9 Consensus size: 228
48339124 AAAACAGACT
*
48339134 TTTAGCGGCGTTTTTCAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCATTTATCGAGCTT
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCAAAAAACCTAAGCCAAACGACGCCATTTATCGAGCTT
48339199 TCGGAGATTTAGCGAGGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGTGGCGTTATTGA
66 TCGGAGATTTAGCGAGGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGTGGCGTTATTGA
* * * * *
48339264 TAAAGCGCCGCAAAAAAACCTAAGGCAAATGATGACGTTTTTTGAGCTTTCGGGGATTTAGCGGC
131 GAAAGCGCCGCAAAAAAACCTAAGCCAAACGATCACGTTTTCTGAGCTTTCGGGGATTTAGCGGC
48339329 G-TTTTTAAGAAAGCGCCGCTAATGCTCAGGGA
196 GTTTTTTAAGAAAGCGCCGCTAATGCTCAGGGA
* * * *
48339361 TTTAGCGGCGTTTTTGAGAAAGTGCCGCAAAAAAACCTAAGCCAAACGACGCCGTTT-TCTGAGC
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGC-AAAAAACCTAAGCCAAACGACGCCATTTATC-GAGC
* * *
48339425 TTTCGGGGATTTAGCG-GCGTTTTT-AGAAAGCGCCGCTAATGCTCAGGGCTTTAGTGGCGTTTT
64 TTTCGGAGATTTAGCGAG-GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGTGGCGTTAT
* * * *
48339488 TGGGGATA-CGTCGCAAAAAAACCTAAGCCAAACGA-CACTGTTTTCTGAGCTTTTGGGGATTTA
128 T-GAGAAAGCGCCGCAAAAAAACCTAAGCCAAACGATCAC-GTTTTCTGAGCTTTCGGGGATTTA
* *
48339551 GCGGTGTTTTTTGAGAAAGCGCCGC
191 GCGGCGTTTTTTAAGAAAGCGCCGC
48339576 AAAAAACCTA
Statistics
Matches: 190, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
226 2 0.01
227 117 0.62
228 71 0.37
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (228 bp):
TTTAGCGGCGTTTTTCAAAAAGCGCCGCAAAAAACCTAAGCCAAACGACGCCATTTATCGAGCTT
TCGGAGATTTAGCGAGGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTAGTGGCGTTATTGA
GAAAGCGCCGCAAAAAAACCTAAGCCAAACGATCACGTTTTCTGAGCTTTCGGGGATTTAGCGGC
GTTTTTTAAGAAAGCGCCGCTAATGCTCAGGGA
Found at i:48339595 original size:73 final size:72
Alignment explanation
Indices: 48339503--48339647 Score: 220
Period size: 73 Copynumber: 2.0 Consensus size: 72
48339493 ATACGTCGCA
* * *
48339503 AAAAAACCTAAGCCAAACGACACTGTTTTCTGAGCTTTTGGGGATTTAGCGGT-GTTTTTTGAGA
1 AAAAAACCTAAGCCAAACGACACCGTTTTCTGAGCTTTCGGGGATTTAGC-GTCATTTTTT-AGA
48339567 AAGCGCCGC
64 AAGCGCCGC
* *
48339576 AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGTCATTTTTTAGAAA
1 AAAAAACCTAAGCCAAACGACACCGTTTTCTGAGCTTTCGGGGATTTAGCGTCATTTTTTAGAAA
48339641 GCGCCGC
66 GCGCCGC
48339648 TAATTCTCAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
72 14 0.21
73 52 0.79
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (72 bp):
AAAAAACCTAAGCCAAACGACACCGTTTTCTGAGCTTTCGGGGATTTAGCGTCATTTTTTAGAAA
GCGCCGC
Done.