Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 200 of 205
Found at i:59332056 original size:15 final size:15
Alignment explanation
Indices: 59332036--59332066 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59332026 AAAAATCATA
*
59332036 AGCCCGGCCCGGCCC
1 AGCCCGACCCGGCCC
59332051 AGCCCGACCCGGCCC
1 AGCCCGACCCGGCCC
59332066 A
1 A
59332067 TTTTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.58, G:0.29, T:0.00
Consensus pattern (15 bp):
AGCCCGACCCGGCCC
Found at i:59332112 original size:12 final size:11
Alignment explanation
Indices: 59332071--59332202 Score: 60
Period size: 11 Copynumber: 12.9 Consensus size: 11
59332061 GGCCCATTTT
59332071 TATTTT-AAAA
1 TATTTTAAAAA
59332081 -ATTTTAAAAA
1 TATTTTAAAAA
**
59332091 -ATTAAAAAAAA
1 TATT-TTAAAAA
59332102 GTATTTTAAAAA
1 -TATTTTAAAAA
59332114 TATTTT--AAA
1 TATTTTAAAAA
59332123 -A--TTAAAAA
1 TATTTTAAAAA
* *
59332131 -AATTAAAAAA
1 TATTTTAAAAA
59332141 GTATTTTAAAAA
1 -TATTTTAAAAA
59332153 TATTTT--AAA
1 TATTTTAAAAA
59332162 -A--TTAAAAA
1 TATTTTAAAAA
**
59332170 -ATTAAAAACAA
1 TATTTTAAA-AA
59332181 GTATTTTAAAAA
1 -TATTTTAAAAA
59332193 TATTTTAAAA
1 TATTTTAAAA
59332203 TTAAAAAAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 33
0.68 0.08 0.24
Matches are distributed among these distances:
6 4 0.04
8 10 0.11
9 11 0.12
10 16 0.17
11 29 0.31
12 15 0.16
13 9 0.10
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:59332112 original size:32 final size:32
Alignment explanation
Indices: 59332071--59332132 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
59332061 GGCCCATTTT
59332071 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAAG
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAAG
*
59332103 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAA
59332133 TTAAAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 25 0.89
33 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (32 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAAG
Found at i:59332139 original size:40 final size:40
Alignment explanation
Indices: 59332071--59332253 Score: 262
Period size: 41 Copynumber: 4.5 Consensus size: 40
59332061 GGCCCATTTT
*
59332071 TATTTTAAAAATTTTAAAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTAAAAAAATT-AAAAAAAGTATTTTAAAAA
59332114 TATTTTAAAATTAAAAAAATT-AAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
59332153 TATTTTAAAATT-AAAAAATTAAAAACAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAA-AAGTATTTTAAAAA
* * *
59332193 TATTTTAAAATTAAAAAAATATTAAAAAAGTATGTAAAAAA
1 TATTTTAAAATTAAAAAAAT-TAAAAAAAGTATTTTAAAAA
*
59332234 TATTTTAAAATTTAAAAAAT
1 TATTTTAAAATTAAAAAAAT
59332254 AAATATATTT
Statistics
Matches: 131, Mismatches: 5, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
38 8 0.06
39 34 0.26
40 26 0.20
41 48 0.37
42 9 0.07
43 6 0.05
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:59332172 original size:79 final size:82
Alignment explanation
Indices: 59332071--59332253 Score: 300
Period size: 79 Copynumber: 2.2 Consensus size: 82
59332061 GGCCCATTTT
59332071 TATTTTAAAAATTTTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATT-AAAAAA-AT
1 TATTTT-AAAA-TTTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAT
* *
59332134 TAAAAAAGTATTTTAAAAA
64 TAAAAAAGTATGTAAAAAA
*
59332153 TATTTTAAAA-TTAAAAAATTAAAAACAAGTATTTTAAAAATATTTTAAAATTAAAAAAATATTA
1 TATTTTAAAATTTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATATTA
59332217 AAAAAGTATGTAAAAAA
66 AAAAAGTATGTAAAAAA
59332234 TATTTTAAAATTTAAAAAAT
1 TATTTTAAAATTTAAAAAAT
59332254 AAATATATTT
Statistics
Matches: 95, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
79 41 0.43
80 6 0.06
81 33 0.35
82 15 0.16
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (82 bp):
TATTTTAAAATTTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATATTA
AAAAAGTATGTAAAAAA
Found at i:59332208 original size:17 final size:17
Alignment explanation
Indices: 59332186--59332219 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
59332176 AACAAGTATT
* *
59332186 TTAAAAATATTTTAAAA
1 TTAAAAAAATATTAAAA
59332203 TTAAAAAAATATTAAAA
1 TTAAAAAAATATTAAAA
59332220 AAGTATGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAATATTAAAA
Found at i:59332212 original size:19 final size:19
Alignment explanation
Indices: 59332183--59332254 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
59332173 AAAAACAAGT
*
59332183 ATTTTAAAAATATTTTAAA
1 ATTTAAAAAATATTTTAAA
* **
59332202 ATTAAAAAAATATTAAAAA
1 ATTTAAAAAATATTTTAAA
59332221 AGTATGTAAAAAATATTTTAAA
1 A-T-T-TAAAAAATATTTTAAA
59332243 ATTTAAAAAATA
1 ATTTAAAAAATA
59332255 AATATATTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 25 0.58
20 2 0.05
21 2 0.05
22 14 0.33
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
ATTTAAAAAATATTTTAAA
Found at i:59332254 original size:41 final size:41
Alignment explanation
Indices: 59332071--59332254 Score: 252
Period size: 39 Copynumber: 4.5 Consensus size: 41
59332061 GGCCCATTTT
59332071 TATTTTAAAAATTTTAAAAAAT-TAAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTTAAAAAATAT-AAAAAAAGTATTTTAAAAA
*
59332114 TATTTTAAAA-TTAAAAAA-ATTAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAATATAAAAAAAGTATTTTAAAAA
59332153 TATTTTAAAA-TTAAAAAAT-TAAAAACAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAATATAAAAA-AAGTATTTTAAAAA
* * * *
59332193 TATTTTAAAATTAAAAAAATATTAAAAAAGTATGTAAAAAA
1 TATTTTAAAATTTAAAAAATATAAAAAAAGTATTTTAAAAA
59332234 TATTTTAAAATTTAAAAAATA
1 TATTTTAAAATTTAAAAAATA
59332255 AATATATTTA
Statistics
Matches: 129, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
39 41 0.32
40 33 0.26
41 40 0.31
42 9 0.07
43 6 0.05
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (41 bp):
TATTTTAAAATTTAAAAAATATAAAAAAAGTATTTTAAAAA
Found at i:59333666 original size:23 final size:25
Alignment explanation
Indices: 59333635--59333693 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 25
59333625 CTAATGCTAG
*
59333635 TTAATATTTAATC-TTAACATTGTT
1 TTAATATTTAATCATTAACATTATT
**
59333659 TTAA-ATTT-ATCATTAGTATTATT
1 TTAATATTTAATCATTAACATTATT
59333682 TTAATATTTAAT
1 TTAATATTTAAT
59333694 ATACTATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 3 0.10
23 16 0.55
24 8 0.28
25 2 0.07
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (25 bp):
TTAATATTTAATCATTAACATTATT
Found at i:59333718 original size:23 final size:24
Alignment explanation
Indices: 59333657--59333781 Score: 100
Period size: 24 Copynumber: 5.3 Consensus size: 24
59333647 CTTAACATTG
* *
59333657 TTTTAAATTTATCAT-TAGTATTA
1 TTTTAAATTTATCATATACTATAA
*
59333680 TTTTAATATTTA--ATATACTATCA
1 TTTTAA-ATTTATCATATACTATAA
59333703 TTTTAAA-TTATCATATA-TCATAA
1 TTTTAAATTTATCATATACT-ATAA
* *
59333726 TTTAAAATTTATCGTATACTATAA
1 TTTTAAATTTATCATATACTATAA
* * * *
59333750 TTTAAAACTTATCCA-ATATTATTA
1 TTTTAAATTTAT-CATATACTATAA
59333774 TTTTAAAT
1 TTTTAAAT
59333782 GTATTATGTA
Statistics
Matches: 83, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
21 3 0.04
22 4 0.05
23 32 0.39
24 42 0.51
25 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTAAATTTATCATATACTATAA
Found at i:59333743 original size:24 final size:23
Alignment explanation
Indices: 59333658--59333762 Score: 81
Period size: 23 Copynumber: 4.5 Consensus size: 23
59333648 TTAACATTGT
* * *
59333658 TTTAAATTTATCAT-TAGTATTAT
1 TTTAAAATTATCATATACTA-TAA
* * *
59333681 TTTAATATT-TAATATACTATCA
1 TTTAAAATTATCATATACTATAA
*
59333703 TTTTAAATTATCATATA-TCATAA
1 TTTAAAATTATCATATACT-ATAA
*
59333726 TTTAAAATTTATCGTATACTATAA
1 TTTAAAA-TTATCATATACTATAA
59333750 TTTAAAACTTATC
1 TTTAAAA-TTATC
59333763 CAATATTATT
Statistics
Matches: 64, Mismatches: 13, Indels: 9
0.74 0.15 0.10
Matches are distributed among these distances:
22 12 0.19
23 26 0.41
24 25 0.39
25 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTAAAATTATCATATACTATAA
Found at i:59333793 original size:24 final size:24
Alignment explanation
Indices: 59333766--59333846 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 24
59333756 ACTTATCCAA
59333766 TATTATTATTTTAAATGTATTATG
1 TATTATTATTTTAAATGTATTATG
* *
59333790 TATTCA-TATTTAAAAAAAAGATATTATG
1 TATT-ATTATTT---TAAATG-TATTATG
59333818 TATTATTATTTTAAAAT-TATTATG
1 TATTATTATTTT-AAATGTATTATG
59333842 TATTA
1 TATTA
59333847 AATATATCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
24 21 0.46
25 1 0.02
26 3 0.07
27 5 0.11
28 16 0.35
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (24 bp):
TATTATTATTTTAAATGTATTATG
Found at i:59343828 original size:44 final size:44
Alignment explanation
Indices: 59343714--59343812 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 44
59343704 CAACTTTAGA
* *
59343714 GAGATAAGATCTATT-ACTTTAATCCT-CTCCACTAAAACCTCAGG
1 GAGATAAGAT-TATTGACTTCAAT-CTGCTCCACTGAAACCTCAGG
* *
59343758 GAGATAGGATTATTGACTTCAATCTGCTCCACTGCAACCTCAGG
1 GAGATAAGATTATTGACTTCAATCTGCTCCACTGAAACCTCAGG
59343802 GAGATAAGATT
1 GAGATAAGATT
59343813 TGCTTCTTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 6 0.12
44 42 0.88
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (44 bp):
GAGATAAGATTATTGACTTCAATCTGCTCCACTGAAACCTCAGG
Found at i:59343835 original size:44 final size:44
Alignment explanation
Indices: 59343700--59343812 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 44
59343690 GATATGCTCT
* * * * *
59343700 ACTGCAACTTTAGAGAGATAAGATCTATT-ACTTTAATCCT-CTCC
1 ACTGCAACCTCAGGGAGATAAGAT-TATTGACTTCAAT-CTGCCCC
** * *
59343744 ACTAAAACCTCAGGGAGATAGGATTATTGACTTCAATCTGCTCC
1 ACTGCAACCTCAGGGAGATAAGATTATTGACTTCAATCTGCCCC
59343788 ACTGCAACCTCAGGGAGATAAGATT
1 ACTGCAACCTCAGGGAGATAAGATT
59343813 TGCTTCTTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
43 6 0.11
44 51 0.89
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (44 bp):
ACTGCAACCTCAGGGAGATAAGATTATTGACTTCAATCTGCCCC
Found at i:59348268 original size:114 final size:114
Alignment explanation
Indices: 59348068--59348310 Score: 342
Period size: 114 Copynumber: 2.1 Consensus size: 114
59348058 TAAAGAAAGT
** * * * *
59348068 ATTAGTGGCGCTTATTTAAAATCACCGCTAAAGCATAGAATTAGGGGCGAGTCGCAAAAAGCGCC
1 ATTAGTGGCGCTTATACAAAAACACCGCTAAAGAATAGAATTAGCGGCGAGTAGCAAAAAGCGCC
59348133 GCAATACATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGC
66 GCAATACATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGC
* * **
59348182 ATTAGTGGCGCTTATACAAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCC
1 ATTAGTGGCGCTTATACAAAAACACCGCTAAAGAATAGAATTAGCGGCGAGTAGCAAAAAGCGCC
** * * * *
59348247 GCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGG
66 GCAATACATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGC
59348296 ATTAGTGGCGCTTAT
1 ATTAGTGGCGCTTAT
59348311 TGGAAAACGC
Statistics
Matches: 113, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (114 bp):
ATTAGTGGCGCTTATACAAAAACACCGCTAAAGAATAGAATTAGCGGCGAGTAGCAAAAAGCGCC
GCAATACATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGC
Found at i:59348479 original size:188 final size:189
Alignment explanation
Indices: 59348124--59348511 Score: 645
Period size: 188 Copynumber: 2.1 Consensus size: 189
59348114 GCGAGTCGCA
* *
59348124 AAAAGCGCCGCAATACATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGCATTAGTG
1 AAAA-CGCCGCAATACATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGCAGTAGTG
59348189 GCGCTTATACAAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAATAT
65 GCGCTTATACAAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAATAT
* *
59348254 TTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGTGGCGCTTATTGG
130 TTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATCGG
* * *
59348314 AAAACGCCGCAA-A-ATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAGTAGTG
1 AAAACGCCGCAATACATATTAACCAAAACGCAGAG-TTTGGTCTTGAGGTACACTAGCAGTAGTG
** *
59348377 GCGCTTATATTAAAACGCTGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAATAT
65 GCGCTTATACAAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAATAT
59348442 TTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATCGG
130 TTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATCGG
*
59348502 AAAATGCCGC
1 AAAACGCCGC
59348512 TAAAGCATAG
Statistics
Matches: 186, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
187 18 0.10
188 156 0.84
189 8 0.04
190 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (189 bp):
AAAACGCCGCAATACATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGCAGTAGTGG
CGCTTATACAAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAATATT
TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATCGG
Found at i:59348495 original size:114 final size:114
Alignment explanation
Indices: 59348313--59348725 Score: 489
Period size: 114 Copynumber: 3.6 Consensus size: 114
59348303 GCGCTTATTG
* * * *
59348313 GAAAA-CGCCGCAAA-ATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAGTAGT
1 GAAAAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATACTAGCAGTAGT
*
59348376 GGCGCTTATATTAAAACGCTGCTAAAGAATAGTATTAGCGGCGAGTAGT
66 GGCGCTTATATTAAAACGCTGCTAAAGCATAGTATTAGCGGCGAGTAGT
* * *
59348425 GAAAAGCGCCGCAATATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATATTAGGATTAG
1 GAAAAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATACTAGCAGTAG
*** * * * ** *
59348489 TGGCGCTTATCGGAAAATGCCGCTAAAGCATAGTATTAGCAGCGCTTATT
65 TGGCGCTTATATTAAAACGCTGCTAAAGCATAGTATTAGCGGCGAGTAGT
* * * * * *
59348539 GTAAAGCGCCGCAAA-ATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTACCAGTAGT
1 GAAAAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATACTAGCAGTAGT
* *
59348603 GGCGCTTATATTAAAACG-TCGCTAAATCATAGTATTAGCGGTGAGTAGT
66 GGCGCTTATATTAAAACGCT-GCTAAAGCATAGTATTAGCGGCGAGTAGT
* * *
59348652 GAAAAGCGCCGCAAGATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGCGGTATATTAGGC-TTA
1 GAAAAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATACTA-GCAGTA
59348715 GTGGCGCTTAT
64 GTGGCGCTTAT
59348726 TGGAAAATGC
Statistics
Matches: 247, Mismatches: 46, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
112 22 0.09
113 82 0.33
114 108 0.44
115 35 0.14
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (114 bp):
GAAAAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATACTAGCAGTAGT
GGCGCTTATATTAAAACGCTGCTAAAGCATAGTATTAGCGGCGAGTAGT
Found at i:59348698 original size:227 final size:227
Alignment explanation
Indices: 59348303--59348743 Score: 767
Period size: 227 Copynumber: 1.9 Consensus size: 227
59348293 AGGATTAGTG
59348303 GCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTA
1 GCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTA
*
59348368 GCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCG
66 CCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCG
*
59348433 CCGCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTA
131 CCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTA
*
59348498 TCGGAAAATGCCGCTAAAGCATAGTATTAGCA
196 TCGGAAAATGCCGCAAAAGCATAGTATTAGCA
* *
59348530 GCGCTTATTGTAAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTA
1 GCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTA
** *
59348595 CCAGTAGTGGCGCTTATATTAAAACG-TCGCTAAATCATAGTATTAGCGGTGAGTAGTGAAAAGC
66 CCAGTAGTGGCGCTTATATTAAAACGCT-GCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGC
* *
59348659 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGCTTAGTGGCGCTT
130 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTT
*
59348724 ATTGGAAAATGCCGCAAAAG
195 ATCGGAAAATGCCGCAAAAG
59348744 ATTAACCAAA
Statistics
Matches: 202, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
226 1 0.00
227 201 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (227 bp):
GCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTA
CCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCG
CCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTA
TCGGAAAATGCCGCAAAAGCATAGTATTAGCA
Found at i:59348812 original size:74 final size:73
Alignment explanation
Indices: 59348672--59348817 Score: 179
Period size: 74 Copynumber: 2.0 Consensus size: 73
59348662 GCAAGATTTC
** * *
59348672 TTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGCTTAGTGGCGCTTATTGGAAAATGCC
1 TTAACCAAAACGCAGAGTTTGGTCTTAAGGTATAGTAGGCTTAGTGGCGCTTATTGGAAAACGCC
59348737 GCAAAAGA
66 GCAAAAGA
* * *
59348745 TTAACCAAAACGCAGTGCTTTGGTCTTAATGTATAGTA-GCATTAGTGGCGCTTATAT-TAAAAC
1 TTAACCAAAACGCAGAG-TTTGGTCTTAAGGTATAGTAGGC-TTAGTGGCGCTTAT-TGGAAAAC
*
59348808 GCCGCTAAAG
63 GCCGCAAAAG
59348818 TATAGTATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
73 18 0.29
74 43 0.69
75 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (73 bp):
TTAACCAAAACGCAGAGTTTGGTCTTAAGGTATAGTAGGCTTAGTGGCGCTTATTGGAAAACGCC
GCAAAAGA
Found at i:59348847 original size:188 final size:188
Alignment explanation
Indices: 59348530--59348931 Score: 590
Period size: 188 Copynumber: 2.1 Consensus size: 188
59348520 AGTATTAGCA
* * * *
59348530 GCGCTTATTGTAAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTA
1 GCGCTTATTGGAAAACGCCGCAAAAGATTAACCAAAACGCAGCGCTTTGGTCTTAATGTATACTA
* * *
59348595 CCAGTAGTGGCGCTTATATTAAAACGTCGCTAAATCATAGTATTAGCGGTGAGTAGTGAAAAGCG
66 CCAGTAGTGGCGCTTATATTAAAACGCCGCTAAATCATAGTATTAGCGGCGAGTACTGAAAAGCG
* * * * *
59348660 CCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGCTTAGTG
131 CCCCAAGATTTCTTAACAAAAACGCAGAGTTTGGTCTTGAGGTACATTAGGATTAGTG
* * *
59348718 GCGCTTATTGGAAAATGCCGCAAAAGATTAACCAAAACGCAGTGCTTTGGTCTTAATGTATAGTA
1 GCGCTTATTGGAAAACGCCGCAAAAGATTAACCAAAACGCAGCGCTTTGGTCTTAATGTATACTA
* *
59348783 GCATTAGTGGCGCTTATATTAAAACGCCGCTAAAGT-ATAGTATTAGCGGCGAGTACTGAAAAGC
66 CCAGTAGTGGCGCTTATATTAAAACGCCGCTAAA-TCATAGTATTAGCGGCGAGTACTGAAAAGC
* *
59348847 GCCCCAATATTTCTTAACAAAAATGCAGAGTTTGGTCTTGAGGTACATTAGGATTAGTG
130 GCCCCAAGATTTCTTAACAAAAACGCAGAGTTTGGTCTTGAGGTACATTAGGATTAGTG
* * *
59348906 GCGTTTATTTGAAAACGCCGCTAAAG
1 GCGCTTATTGGAAAACGCCGCAAAAG
59348932 CAAAGTATTA
Statistics
Matches: 190, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
188 189 0.99
189 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (188 bp):
GCGCTTATTGGAAAACGCCGCAAAAGATTAACCAAAACGCAGCGCTTTGGTCTTAATGTATACTA
CCAGTAGTGGCGCTTATATTAAAACGCCGCTAAATCATAGTATTAGCGGCGAGTACTGAAAAGCG
CCCCAAGATTTCTTAACAAAAACGCAGAGTTTGGTCTTGAGGTACATTAGGATTAGTG
Found at i:59348930 original size:415 final size:415
Alignment explanation
Indices: 59348125--59349060 Score: 1500
Period size: 415 Copynumber: 2.3 Consensus size: 415
59348115 CGAGTCGCAA
* * * * *
59348125 AAAGCGCCGCAATACATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTACACTAGCATTAGTG
1 AAAGCGCCGCAA-A-ATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAGTAGTG
** *
59348189 GCGCTTATACAAAAACGCCGCTAAAGA-ATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAATA
64 GCGCTTATATTAAAACGCCGCTAAA-ACATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGA
59348253 TTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGTGGCGCTTATTGGAAAA
128 TTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGTGGCGCTTATTGGAAAA
* *
59348318 CGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAGTAGTGGCGCTT
193 CGCCGCAAAAGATTAACCAAAACGCAGCGCTTTGGTCTTAATGTATACTAGCAGTAGTGGCGCTT
* * *
59348383 ATATTAAAACGCTGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAATATTTCTTA
258 ATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAAAAGCGCCCCAATATTTCTTA
* * *
59348448 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATCGGAAAATGCCGCT
323 ACAAAAACGCAGAGTTTGGTCTTGAGGTACATTAGGATTAGTGGCGCTTATCGGAAAACGCCGCT
*
59348513 AAAGCATAGTATTAGCAGCGCTTATTGT
388 AAAGCAAAGTATTAGCAGCGCTTATTGT
*
59348541 AAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTACCAGTAGTGGC
1 AAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAGTAGTGGC
* * *
59348606 GCTTATATTAAAACGTCGCTAAATCATAGTATTAGCGGTGAGTAGTGAAAAGCGCCGCAAGATTT
66 GCTTATATTAAAACGCCGCTAAAACATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGATTT
* *
59348671 CTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGCTTAGTGGCGCTTATTGGAAAATGC
131 CTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGC
* * *
59348736 CGCAAAAGATTAACCAAAACGCAGTGCTTTGGTCTTAATGTATAGTAGCATTAGTGGCGCTTATA
196 CGCAAAAGATTAACCAAAACGCAGCGCTTTGGTCTTAATGTATACTAGCAGTAGTGGCGCTTATA
*
59348801 TTAAAACGCCGCTAAAGTATAGTATTAGCGGCGAGTACTGAAAAGCGCCCCAATATTTCTTAACA
261 TTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAAAAGCGCCCCAATATTTCTTAACA
* * **
59348866 AAAATGCAGAGTTTGGTCTTGAGGTACATTAGGATTAGTGGCGTTTATTTGAAAACGCCGCTAAA
326 AAAACGCAGAGTTTGGTCTTGAGGTACATTAGGATTAGTGGCGCTTATCGGAAAACGCCGCTAAA
*
59348931 GCAAAGTATTAGCGGCGCTTATTGT
391 GCAAAGTATTAGCAGCGCTTATTGT
*
59348956 AAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAGTTGTGGC
1 AAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAGTAGTGGC
* *
59349021 GCTTAT-TGTTAAACGCCGCTAAAACATATTATTAGCGGCG
66 GCTTATAT-TAAAACGCCGCTAAAACATAGTATTAGCGGCG
59349061 CGTTGTGGGA
Statistics
Matches: 478, Mismatches: 39, Indels: 7
0.91 0.07 0.01
Matches are distributed among these distances:
414 19 0.04
415 447 0.94
416 12 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (415 bp):
AAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAGTAGTGGC
GCTTATATTAAAACGCCGCTAAAACATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGATTT
CTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGTGGCGCTTATTGGAAAACGC
CGCAAAAGATTAACCAAAACGCAGCGCTTTGGTCTTAATGTATACTAGCAGTAGTGGCGCTTATA
TTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAAAAGCGCCCCAATATTTCTTAACA
AAAACGCAGAGTTTGGTCTTGAGGTACATTAGGATTAGTGGCGCTTATCGGAAAACGCCGCTAAA
GCAAAGTATTAGCAGCGCTTATTGT
Found at i:59349039 original size:113 final size:112
Alignment explanation
Indices: 59348712--59349061 Score: 382
Period size: 114 Copynumber: 3.1 Consensus size: 112
59348702 TATATTAGGC
* * * * *
59348712 TTAGTGGCGCTTATTGGAAAA-TGCCGCAAAAGATTAACCAAAACGCAGTGCTTTGGTCTTAATG
1 TTAGCGGCGCTTATT-GAAAAGCGCCGCAAAATATTAACCAAAACGCAGAGCTTTGGTCTTGATG
* *
59348776 TATAGTAGCATTAGTGGCGCTTATATTAAAACGCCGCTAAAGTATAGTA
65 TATACTAGCATTAGTGGCGCTTAT-TTAAAACGCCGCTAAAGCATAGTA
** * * * * * * *
59348825 TTAGCGGCGAGTACTGAAAAGCGCCCCAATATTTCTTAACAAAAATGCAGAG-TTTGGTCTTGAG
1 TTAGCGGCGCTTATTGAAAAGCGCCGCAA-A-ATATTAACCAAAACGCAGAGCTTTGGTCTTGAT
* * * * *
59348889 GTACATTAGGATTAGTGGCGTTTATTTGAAAACGCCGCTAAAGCAAAGTA
64 GTATACTAGCATTAGTGGCGCTTATTT-AAAACGCCGCTAAAGCATAGTA
* *
59348939 TTAGCGGCGCTTATTGTAAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGT
1 TTAGCGGCGCTTATTGAAAAGCGCCGCAAAATATTAACCAAAACGCAGAGCTTTGGTCTTGATGT
* * *
59349004 ATACTAGCAGTT-GTGGCGCTTATTGTTAAACGCCGCTAAAACATATTA
66 ATACTAGCA-TTAGTGGCGCTTATT-TAAAACGCCGCTAAAGCATAGTA
59349052 TTAGCGGCGC
1 TTAGCGGCGC
59349062 GTTGTGGGAA
Statistics
Matches: 191, Mismatches: 39, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
112 20 0.10
113 78 0.41
114 79 0.41
115 14 0.07
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (112 bp):
TTAGCGGCGCTTATTGAAAAGCGCCGCAAAATATTAACCAAAACGCAGAGCTTTGGTCTTGATGT
ATACTAGCATTAGTGGCGCTTATTTAAAACGCCGCTAAAGCATAGTA
Found at i:59349100 original size:17 final size:18
Alignment explanation
Indices: 59349078--59349145 Score: 70
Period size: 17 Copynumber: 3.7 Consensus size: 18
59349068 GGAAATATGA
59349078 TATTATATAATGTT-TAT
1 TATTATATAATGTTATAT
59349095 TATTATATAAT-TTATGTAGTT
1 TATTATATAATGTTA--TA--T
*
59349116 TATTATATAAT-TTATGT
1 TATTATATAATGTTATAT
59349133 TATTATATAATGT
1 TATTATATAATGT
59349146 AGGAAATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
16 2 0.05
17 23 0.52
18 1 0.02
19 3 0.07
21 15 0.34
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
TATTATATAATGTTATAT
Found at i:59349111 original size:21 final size:21
Alignment explanation
Indices: 59349087--59349138 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
59349077 ATATTATATA
59349087 ATGTTTATTATTATATAATTT
1 ATGTTTATTATTATATAATTT
*
59349108 ATGTAGT-TTATTATATAATTT
1 ATGT-TTATTATTATATAATTT
59349129 ATG-TTATTAT
1 ATGTTTATTAT
59349139 ATAATGTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 4 0.15
21 21 0.78
22 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (21 bp):
ATGTTTATTATTATATAATTT
Found at i:59349121 original size:38 final size:39
Alignment explanation
Indices: 59349072--59349177 Score: 119
Period size: 38 Copynumber: 2.7 Consensus size: 39
59349062 GTTGTGGGAA
* * *
59349072 ATATGATATTATATAATGTTTATTATTATATAATTTATG
1 ATATTATATTATATAATGTTTATTATTATATAATGTAGG
*
59349111 -TAGTT-TATTATATAAT-TTATGTTATTATATAATGTAGG
1 ATA-TTATATTATATAATGTT-TATTATTATATAATGTAGG
59349149 AAATATTATATTATATAATGTTTATTATT
1 --ATATTATATTATATAATGTTTATTATT
59349178 TTTGAATTAC
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
37 2 0.04
38 29 0.53
39 1 0.02
40 2 0.04
41 19 0.35
42 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (39 bp):
ATATTATATTATATAATGTTTATTATTATATAATGTAGG
Found at i:59349842 original size:7 final size:8
Alignment explanation
Indices: 59349825--59349855 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
59349815 TATGTTTATT
59349825 AAAAATAA
1 AAAAATAA
59349833 AAAAATAA
1 AAAAATAA
59349841 AAAAATAA
1 AAAAATAA
59349849 AAAAATA
1 AAAAATA
59349856 TTGATACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:59357654 original size:991 final size:991
Alignment explanation
Indices: 59355733--59357714 Score: 3937
Period size: 991 Copynumber: 2.0 Consensus size: 991
59355723 ATGCATCAAA
*
59355733 AGGTTCGAAATAACGACTATGGGAAATAATGATATACAAGCAAATTTTCAAATAAATATTTCATG
1 AGGTTCGAAATAACGACTATGGGAAATAATAATATACAAGCAAATTTTCAAATAAATATTTCATG
59355798 AAATAAAAAAAGCTCAAAATATATACATGTGCTAGTTTAAATAGGTGATGCATACAAAACACAAA
66 AAATAAAAAAAGCTCAAAATATATACATGTGCTAGTTTAAATAGGTGATGCATACAAAACACAAA
59355863 GAAAAACTTTGTCACAGTATGTGCTAAATTTAAATAGTAATTTGAAATAATAGTAATGATATATA
131 GAAAAACTTTGTCACAGTATGTGCTAAATTTAAATAGTAATTTGAAATAATAGTAATGATATATA
59355928 AGAGTTAAATAAATAAGATAGAACGACGAATCTAAAAAAAACAAGGTTTTCATGCATAAAACTAT
196 AGAGTTAAATAAATAAGATAGAACGACGAATCTAAAAAAAACAAGGTTTTCATGCATAAAACTAT
59355993 CATTTGAAAATAATAATATAATTATGTACACATATACTAAAAAAGGAATTATAAGAATAATAATA
261 CATTTGAAAATAATAATATAATTATGTACACATATACTAAAAAAGGAATTATAAGAATAATAATA
59356058 ATGATAATAATAATATTACATAAGCACATATACCATACTATCTTAGAAACTAGCTTCGTATAAAA
326 ATGATAATAATAATATTACATAAGCACATATACCATACTATCTTAGAAACTAGCTTCGTATAAAA
59356123 GAAATGTATAAAAATATAATAAAACAATAATAAAAAATAAGTATGATAATAAAATAACAAATTTC
391 GAAATGTATAAAAATATAATAAAACAATAATAAAAAATAAGTATGATAATAAAATAACAAATTTC
59356188 TTAAATATAAAAAAAACTAACGATCAGAAGGATTAAATTGCAAACAGCATCGAATCAACAGAAAA
456 TTAAATATAAAAAAAACTAACGATCAGAAGGATTAAATTGCAAACAGCATCGAATCAACAGAAAA
59356253 AAAATAAAATTAAAGAAAAATAGGAGGACCAGGCTGCAAGACGCGTATTACATGGGGGCCTGATT
521 AAAATAAAATTAAAGAAAAATAGGAGGACCAGGCTGCAAGACGCGTATTACATGGGGGCCTGATT
59356318 GGGAAATATCCCGCTTCCCCAAAACGCAGTGTTGCAAGCCAGGCCGAAATGGGACGAAAGCAGAA
586 GGGAAATATCCCGCTTCCCCAAAACGCAGTGTTGCAAGCCAGGCCGAAATGGGACGAAAGCAGAA
59356383 TATGAGGGCTAAATCAGAAAAGGAAAAGGGACTTGATTTAAAAGAAAACAGAAAAGGGAAGGGCA
651 TATGAGGGCTAAATCAGAAAAGGAAAAGGGACTTGATTTAAAAGAAAACAGAAAAGGGAAGGGCA
59356448 GGTCCCGCAAATATCCCTCCCTATGCCAGAACGCGCGGGTCTAACCGCGTCTGGGTCGGGTCATC
716 GGTCCCGCAAATATCCCTCCCTATGCCAGAACGCGCGGGTCTAACCGCGTCTGGGTCGGGTCATC
59356513 GGGTCGCACACTAAAACGACGCCATCTGAGAGCCACTGAATCAGGCAATACGGCGACGTTTATTG
781 GGGTCGCACACTAAAACGACGCCATCTGAGAGCCACTGAATCAGGCAATACGGCGACGTTTATTG
59356578 ACTCCCTTTTTTAATCCCTCTTTAAACCACCAGTTAACCTAAACAGACATAAAAAAAGGGGATGC
846 ACTCCCTTTTTTAATCCCTCTTTAAACCACCAGTTAACCTAAACAGACATAAAAAAAGGGGATGC
59356643 GCCGTTCTACGAATCGATTTCCCAGACCGTTCGATTCCCCCTCGACTCCGATGACGACGGAGGGA
911 GCCGTTCTACGAATCGATTTCCCAGACCGTTCGATTCCCCCTCGACTCCGATGACGACGGAGGGA
59356708 GAGAGGATACGGTCAC
976 GAGAGGATACGGTCAC
* *
59356724 AGGTTCGAAATAACTACTATGTGAAATAATAATATACAAGCAAATTTTCAAATAAATATTTCATG
1 AGGTTCGAAATAACGACTATGGGAAATAATAATATACAAGCAAATTTTCAAATAAATATTTCATG
59356789 AAATAAAAAAAGCTCAAAATATATACATGTGCTAGTTTAAATAGGTGATGCATACAAAACACAAA
66 AAATAAAAAAAGCTCAAAATATATACATGTGCTAGTTTAAATAGGTGATGCATACAAAACACAAA
59356854 GAAAAACTTTGTCACAGTATGTGCTAAATTTAAATAGTAATTTGAAATAATAGTAATGATATATA
131 GAAAAACTTTGTCACAGTATGTGCTAAATTTAAATAGTAATTTGAAATAATAGTAATGATATATA
59356919 AGAGTTAAATAAATAAGATAGAACGACGAATCTAAAAAAAACAAGGTTTTCATGCATAAAACTAT
196 AGAGTTAAATAAATAAGATAGAACGACGAATCTAAAAAAAACAAGGTTTTCATGCATAAAACTAT
59356984 CATTTGAAAATAATAATATAATTATGTACACATATACTAAAAAAGGAATTATAAGAATAATAATA
261 CATTTGAAAATAATAATATAATTATGTACACATATACTAAAAAAGGAATTATAAGAATAATAATA
59357049 ATGATAATAATAATATTACATAAGCACATATACCATACTATCTTAGAAACTAGCTTCGTATAAAA
326 ATGATAATAATAATATTACATAAGCACATATACCATACTATCTTAGAAACTAGCTTCGTATAAAA
59357114 GAAATGTATAAAAATATAATAAAACAATAATAAAAAATAAGTATGATAATAAAATAACAAATTTC
391 GAAATGTATAAAAATATAATAAAACAATAATAAAAAATAAGTATGATAATAAAATAACAAATTTC
59357179 TTAAATATAAAAAAAACTAACGATCAGAAGGATTAAATTGCAAACAGCATCGAATCAACAGAAAA
456 TTAAATATAAAAAAAACTAACGATCAGAAGGATTAAATTGCAAACAGCATCGAATCAACAGAAAA
59357244 AAAATAAAATTAAAGAAAAATAGGAGGACCAGGCTGCAAGACGCGTATTACATGGGGGCCTGATT
521 AAAATAAAATTAAAGAAAAATAGGAGGACCAGGCTGCAAGACGCGTATTACATGGGGGCCTGATT
59357309 GGGAAATATCCCGCTTCCCCAAAACGCAGTGTTGCAAGCCAGGCCGAAATGGGACGAAAGCAGAA
586 GGGAAATATCCCGCTTCCCCAAAACGCAGTGTTGCAAGCCAGGCCGAAATGGGACGAAAGCAGAA
59357374 TATGAGGGCTAAATCAGAAAAGGAAAAGGGACTTGATTTAAAAGAAAACAGAAAAGGGAAGGGCA
651 TATGAGGGCTAAATCAGAAAAGGAAAAGGGACTTGATTTAAAAGAAAACAGAAAAGGGAAGGGCA
59357439 GGTCCCGCAAATATCCCTCCCTATGCCAGAACGCGCGGGTCTAACCGCGTCTGGGTCGGGTCATC
716 GGTCCCGCAAATATCCCTCCCTATGCCAGAACGCGCGGGTCTAACCGCGTCTGGGTCGGGTCATC
59357504 GGGTCGCACACTAAAACGACGCCATCTGAGAGCCACTGAATCAGGCAATACGGCGACGTTTATTG
781 GGGTCGCACACTAAAACGACGCCATCTGAGAGCCACTGAATCAGGCAATACGGCGACGTTTATTG
59357569 ACTCCCTTTTTTAATCCCTCTTTAAACCACCAGTTAACCTAAACAGACATAAAAAAAGGGGATGC
846 ACTCCCTTTTTTAATCCCTCTTTAAACCACCAGTTAACCTAAACAGACATAAAAAAAGGGGATGC
59357634 GCCGTTCTACGAATCGATTTCCCAGACCGTTCGATTCCCCCTCGACTCCGATGACGACGGAGGGA
911 GCCGTTCTACGAATCGATTTCCCAGACCGTTCGATTCCCCCTCGACTCCGATGACGACGGAGGGA
59357699 GAGAGGATACGGTCAC
976 GAGAGGATACGGTCAC
59357715 TACTTTCTTC
Statistics
Matches: 988, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
991 988 1.00
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.23
Consensus pattern (991 bp):
AGGTTCGAAATAACGACTATGGGAAATAATAATATACAAGCAAATTTTCAAATAAATATTTCATG
AAATAAAAAAAGCTCAAAATATATACATGTGCTAGTTTAAATAGGTGATGCATACAAAACACAAA
GAAAAACTTTGTCACAGTATGTGCTAAATTTAAATAGTAATTTGAAATAATAGTAATGATATATA
AGAGTTAAATAAATAAGATAGAACGACGAATCTAAAAAAAACAAGGTTTTCATGCATAAAACTAT
CATTTGAAAATAATAATATAATTATGTACACATATACTAAAAAAGGAATTATAAGAATAATAATA
ATGATAATAATAATATTACATAAGCACATATACCATACTATCTTAGAAACTAGCTTCGTATAAAA
GAAATGTATAAAAATATAATAAAACAATAATAAAAAATAAGTATGATAATAAAATAACAAATTTC
TTAAATATAAAAAAAACTAACGATCAGAAGGATTAAATTGCAAACAGCATCGAATCAACAGAAAA
AAAATAAAATTAAAGAAAAATAGGAGGACCAGGCTGCAAGACGCGTATTACATGGGGGCCTGATT
GGGAAATATCCCGCTTCCCCAAAACGCAGTGTTGCAAGCCAGGCCGAAATGGGACGAAAGCAGAA
TATGAGGGCTAAATCAGAAAAGGAAAAGGGACTTGATTTAAAAGAAAACAGAAAAGGGAAGGGCA
GGTCCCGCAAATATCCCTCCCTATGCCAGAACGCGCGGGTCTAACCGCGTCTGGGTCGGGTCATC
GGGTCGCACACTAAAACGACGCCATCTGAGAGCCACTGAATCAGGCAATACGGCGACGTTTATTG
ACTCCCTTTTTTAATCCCTCTTTAAACCACCAGTTAACCTAAACAGACATAAAAAAAGGGGATGC
GCCGTTCTACGAATCGATTTCCCAGACCGTTCGATTCCCCCTCGACTCCGATGACGACGGAGGGA
GAGAGGATACGGTCAC
Found at i:59366540 original size:21 final size:21
Alignment explanation
Indices: 59366515--59366558 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
59366505 TTTTGTTACA
59366515 ATGGCTTCTACAGATTCATCC
1 ATGGCTTCTACAGATTCATCC
59366536 ATGGCTTCTACAGATTCATCC
1 ATGGCTTCTACAGATTCATCC
59366557 AT
1 AT
59366559 TCTTTGGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (21 bp):
ATGGCTTCTACAGATTCATCC
Found at i:59369616 original size:26 final size:26
Alignment explanation
Indices: 59369575--59369627 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
59369565 AGTTCTTCAT
59369575 TGCTTTTGAAAAGTGCTGTGGAAAAG
1 TGCTTTTGAAAAGTGCTGTGGAAAAG
* * * *
59369601 TGCTTTTGAGATGTGCTTTTGAAAAG
1 TGCTTTTGAAAAGTGCTGTGGAAAAG
59369627 T
1 T
59369628 TTAGTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGCTGTGGAAAAG
Found at i:59370290 original size:20 final size:21
Alignment explanation
Indices: 59370244--59370292 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
59370234 CAAATACATG
*
59370244 TAATATTTTACTTTGTTAGGT
1 TAATATTTTACTATGTTAGGT
* *
59370265 TTATATTTT-CTATGTTATGT
1 TAATATTTTACTATGTTAGGT
59370285 TAATATTT
1 TAATATTT
59370293 AATATGGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.24, C:0.04, G:0.10, T:0.61
Consensus pattern (21 bp):
TAATATTTTACTATGTTAGGT
Found at i:59386906 original size:12 final size:12
Alignment explanation
Indices: 59386889--59386915 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59386879 GAAAGTTTTG
59386889 GACTGAGGCTGT
1 GACTGAGGCTGT
59386901 GACTGAGGCTGT
1 GACTGAGGCTGT
59386913 GAC
1 GAC
59386916 GTACGCTCAA
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:0.19, C:0.19, G:0.41, T:0.22
Consensus pattern (12 bp):
GACTGAGGCTGT
Found at i:59387248 original size:21 final size:22
Alignment explanation
Indices: 59387219--59387265 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
59387209 CAGAAGGAGT
*
59387219 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
59387241 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
59387262 GAGT
1 GAGT
59387266 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:59395987 original size:16 final size:16
Alignment explanation
Indices: 59395966--59395997 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59395956 TAATTTAAAT
*
59395966 AAATTAATTAATTTTC
1 AAATTAAATAATTTTC
59395982 AAATTAAATAATTTTC
1 AAATTAAATAATTTTC
59395998 TTAATCCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTAAATAATTTTC
Found at i:59399983 original size:10 final size:9
Alignment explanation
Indices: 59399955--59400031 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 9
59399945 GATATGTGGC
59399955 AAAAATAAT
1 AAAAATAAT
*
59399964 -AAAA-ACT
1 AAAAATAAT
59399971 AAAAATCAAT
1 AAAAAT-AAT
* *
59399981 AAAAGTTAT
1 AAAAATAAT
59399990 AAAAATAATT
1 AAAAATAA-T
**
59400000 AAATTTTAAT
1 AAA-AATAAT
*
59400010 AAAAATTAT
1 AAAAATAAT
*
59400019 AAAAATCAT
1 AAAAATAAT
59400028 AAAA
1 AAAA
59400032 GAAAATTTAT
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
7 2 0.04
8 8 0.16
9 23 0.45
10 15 0.29
11 3 0.06
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAAATAAT
Found at i:59400327 original size:9 final size:9
Alignment explanation
Indices: 59400315--59400489 Score: 74
Period size: 9 Copynumber: 18.4 Consensus size: 9
59400305 TTTTTATGCA
59400315 TTTTATAATTT
1 TTTTATAA--T
*
59400326 TTTTATGAT
1 TTTTATAAT
*
59400335 TTTTATAAAA
1 TTTTAT-AAT
59400345 TTTTATATAT
1 TTTTATA-AT
59400355 TTTT-TACGAT
1 TTTTATA--AT
59400365 TTTATATATAT
1 TTT-TATA-AT
* *
59400376 ATTTCTAAT
1 TTTTATAAT
*
59400385 TTTTAATAAA
1 TTTT-ATAAT
59400395 TTTTA-AAT
1 TTTTATAAT
59400403 ATTTGTAT-AT
1 -TTT-TATAAT
59400413 TTTTATTAAAT
1 TTTTA-T-AAT
*
59400424 TTTTA-ATT
1 TTTTATAAT
59400432 TTTTATTAAAT
1 TTTTA-T-AAT
* *
59400443 TTTAATAAG
1 TTTTATAAT
*
59400452 TTTTATAAG
1 TTTTATAAT
* *
59400461 TTTTATTAG
1 TTTTATAAT
59400470 TTTT-T-AT
1 TTTTATAAT
59400477 TTTTATAAT
1 TTTTATAAT
59400486 TTTT
1 TTTT
59400490 TTGTCACATG
Statistics
Matches: 128, Mismatches: 19, Indels: 36
0.70 0.10 0.20
Matches are distributed among these distances:
7 5 0.04
8 13 0.10
9 51 0.40
10 32 0.25
11 25 0.20
12 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:59400330 original size:20 final size:20
Alignment explanation
Indices: 59400305--59400342 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59400295 TTAAAAGGTC
59400305 TTTTTATGCA-TTTTATAATT
1 TTTTTATG-ATTTTTATAATT
59400325 TTTTTATGATTTTTATAA
1 TTTTTATGATTTTTATAA
59400343 AATTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTATGATTTTTATAATT
Found at i:59400348 original size:20 final size:20
Alignment explanation
Indices: 59400305--59400358 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
59400295 TTAAAAGGTC
**
59400305 TTTTTATGCA-TTTTATAATT
1 TTTTTATG-ATTTTTATAAAA
59400325 TTTTTATGATTTTTATAAAA
1 TTTTTATGATTTTTATAAAA
59400345 TTTTATAT-ATTTTT
1 TTTT-TATGATTTTT
59400359 TACGATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 26 0.87
21 3 0.10
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTATGATTTTTATAAAA
Found at i:59400350 original size:30 final size:31
Alignment explanation
Indices: 59400314--59400372 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
59400304 CTTTTTATGC
*
59400314 ATTTTATA-ATTTTTTTATGATTTT-TATAAA
1 ATTTTATATA-TTTTTTACGATTTTATATAAA
59400344 ATTTTATATATTTTTTACGATTTTATATA
1 ATTTTATATATTTTTTACGATTTTATATA
59400373 TATATTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (31 bp):
ATTTTATATATTTTTTACGATTTTATATAAA
Found at i:59400357 original size:19 final size:19
Alignment explanation
Indices: 59400326--59400459 Score: 55
Period size: 19 Copynumber: 6.9 Consensus size: 19
59400316 TTTATAATTT
59400326 TTTTATGAT-TTTTATAAAA
1 TTTTAT-ATATTTTATAAAA
* **
59400345 TTTTATATATTTTTTACGA
1 TTTTATATATTTTATAAAA
* *
59400364 TTTTATATATATATT-TCTAAT
1 TTTTATATAT-T-TTAT-AAAA
* *
59400385 TTTTAATAAATTTTA-AATA
1 TTTT-ATATATTTTATAAAA
*
59400404 TTTGTATAT-TTTTATTAAA
1 TTT-TATATATTTTATAAAA
* *
59400423 TTTT-TAATTTTTTATTAAA
1 TTTTAT-ATATTTTATAAAA
59400442 TTTTA-ATAAGTTTTATAA
1 TTTTATAT-A-TTTTATAA
59400460 GTTTTATTAG
Statistics
Matches: 86, Mismatches: 16, Indels: 25
0.68 0.13 0.20
Matches are distributed among these distances:
17 1 0.01
18 12 0.14
19 49 0.57
20 12 0.14
21 7 0.08
22 5 0.06
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTATATATTTTATAAAA
Found at i:59400422 original size:28 final size:27
Alignment explanation
Indices: 59400374--59400426 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
59400364 TTTTATATAT
59400374 ATATTTCTAATTTTTAATAAATTTTAA
1 ATATTTCTAATTTTTAATAAATTTTAA
* *
59400401 ATATTTGTATATTTTTATTAAATTTT
1 ATATTTCTA-ATTTTTAATAAATTTT
59400427 TAATTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (27 bp):
ATATTTCTAATTTTTAATAAATTTTAA
Found at i:59400445 original size:29 final size:29
Alignment explanation
Indices: 59400413--59400477 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
59400403 ATTTGTATAT
*
59400413 TTTTATTAAATTTT-TAATTTTTTATTAAA
1 TTTTATTAAATTTTATAA-GTTTTATTAAA
* * **
59400442 TTTTAATAAGTTTTATAAGTTTTATTAGT
1 TTTTATTAAATTTTATAAGTTTTATTAAA
59400471 TTTTATT
1 TTTTATT
59400478 TTTATAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
29 26 0.90
30 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (29 bp):
TTTTATTAAATTTTATAAGTTTTATTAAA
Found at i:59400474 original size:47 final size:46
Alignment explanation
Indices: 59400384--59400485 Score: 111
Period size: 47 Copynumber: 2.2 Consensus size: 46
59400374 ATATTTCTAA
*
59400384 TTTTTAATAAATTTTAAATATTTGTATATTTTTATTAAATTTTTAAT
1 TTTTTAATAAATTTTAAATATTTGTATAGTTTTATTAAATTTTT-AT
* *
59400431 TTTTTATTAAATTTT-AATAAGTTT-TATAAGTTTTATT-AGTTTTTAT
1 TTTTTAATAAATTTTAAAT-A-TTTGTAT-AGTTTTATTAAATTTTTAT
59400477 TTTTATAAT
1 TTTT-TAAT
59400486 TTTTTTGTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
46 9 0.19
47 27 0.57
48 11 0.23
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (46 bp):
TTTTTAATAAATTTTAAATATTTGTATAGTTTTATTAAATTTTTAT
Found at i:59400938 original size:21 final size:21
Alignment explanation
Indices: 59400914--59400960 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
59400904 AACTAAAATG
59400914 TTATTTTAATTTTCTTTAGGT
1 TTATTTTAATTTTCTTTAGGT
59400935 TTATTTTAATTTTCTTTAGGT
1 TTATTTTAATTTTCTTTAGGT
59400956 TTATT
1 TTATT
59400961 GCATTATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (21 bp):
TTATTTTAATTTTCTTTAGGT
Found at i:59403516 original size:43 final size:43
Alignment explanation
Indices: 59403422--59403517 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
59403412 TTTTGAATGC
*
59403422 CCACACGGACGTGTCTCTTGACCGTGTGAGACACACGGCTTGG
1 CCACACGGGCGTGTCTCTTGACCGTGTGAGACACACGGCTTGG
*
59403465 CCACACGGGTGTGTCTCTTGACCGTGTGAGACACACGGCTTGG
1 CCACACGGGCGTGTCTCTTGACCGTGTGAGACACACGGCTTGG
59403508 CCACACGGGC
1 CCACACGGGC
59403518 ATGTGTCCCC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.20
Consensus pattern (43 bp):
CCACACGGGCGTGTCTCTTGACCGTGTGAGACACACGGCTTGG
Found at i:59406145 original size:57 final size:55
Alignment explanation
Indices: 59406050--59406252 Score: 159
Period size: 57 Copynumber: 3.7 Consensus size: 55
59406040 GCGTACCTCA
* * * * * *
59406050 TACCAAACTGCCATGGCATCTATCATCCATAGTATTACGCCATATACTGTTAACATG
1 TACCACACTGTCATGACATCTTTCATCCATGGTCTTACGCCATATACT-TT-ACATG
* * * * *
59406107 TACCACACTATCATGACATCTTTCGTCCATGGTCTTACGCTATGTAC-CT-CA--
1 TACCACACTGTCATGACATCTTTCATCCATGGTCTTACGCCATATACTTTACATG
* *
59406158 TACCAGACTGTCAT-AGTATCTTTCATCCATGGTCTTACGCCATATACCTTTACCATG
1 TACCACACTGTCATGA-CATCTTTCATCCATGGTCTTACGCCATATA-CTTTA-CATG
* ** *
59406215 TACTATGCTGTCATGACATCTTTCAT--ATAGTCTTACGC
1 TACCACACTGTCATGACATCTTTCATCCATGGTCTTACGC
59406253 TACATTACTC
Statistics
Matches: 115, Mismatches: 23, Indels: 18
0.74 0.15 0.12
Matches are distributed among these distances:
50 1 0.01
51 38 0.33
52 1 0.01
53 3 0.03
55 14 0.12
57 57 0.50
58 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (55 bp):
TACCACACTGTCATGACATCTTTCATCCATGGTCTTACGCCATATACTTTACATG
Found at i:59406199 original size:108 final size:108
Alignment explanation
Indices: 59406010--59406289 Score: 336
Period size: 108 Copynumber: 2.6 Consensus size: 108
59406000 ATCGAGCTGC
* * ** * *
59406010 CATGACATCTTTCATCCATGGTATTACACTGCGTACCTCATACCAAACTGCCATGGCATCTATCA
1 CATGACATCTTTCATCCATGGTCTTACGCTATGTACCTCATACCAGACTGCCATGGCATCTTTCA
59406075 TCCATAGTATTACGCCATATA-CTGTTAACATGTACCACACTAT
66 TCCATAGTATTACGCCATATACCT-TTAACATGTACCACACTAT
* * * *
59406118 CATGACATCTTTCGTCCATGGTCTTACGCTATGTACCTCATACCAGACTGTCATAGTATCTTTCA
1 CATGACATCTTTCATCCATGGTCTTACGCTATGTACCTCATACCAGACTGCCATGGCATCTTTCA
* * * * ** *
59406183 TCCATGGTCTTACGCCATATACCTTTACCATGTACTATGCTGT
66 TCCATAGTATTACGCCATATACCTTTAACATGTACCACACTAT
*
59406226 CATGACATCTTTCAT--ATAGTCTTACGCTACAT-TA-CTCATACCAGACTGCCATGGCATCTTT
1 CATGACATCTTTCATCCATGGTCTTACGCT--ATGTACCTCATACCAGACTGCCATGGCATCTTT
59406287 CAT
64 CAT
59406290 TCAGTGTAAC
Statistics
Matches: 147, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
106 39 0.27
107 2 0.01
108 104 0.71
109 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (108 bp):
CATGACATCTTTCATCCATGGTCTTACGCTATGTACCTCATACCAGACTGCCATGGCATCTTTCA
TCCATAGTATTACGCCATATACCTTTAACATGTACCACACTAT
Found at i:59408208 original size:24 final size:26
Alignment explanation
Indices: 59408181--59408236 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
59408171 ACACACCACA
59408181 GCTCTT-ATGAGCTTCCCGATT-A-TG
1 GCTCTTCATGAGCTTCCCG-TTAATTG
*
59408205 GCTCTTCGTGAGCTTCCCGTTAATTG
1 GCTCTTCATGAGCTTCCCGTTAATTG
59408231 GCTCTT
1 GCTCTT
59408237 TGCGAGCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 8 0.29
25 12 0.43
26 8 0.29
ACGTcount: A:0.12, C:0.27, G:0.21, T:0.39
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCCCGTTAATTG
Found at i:59408218 original size:25 final size:26
Alignment explanation
Indices: 59408188--59408247 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
59408178 ACAGCTCTTA
59408188 TGAGCTTCCCGATT-A-TGGCTCTTCG
1 TGAGCTTCCCG-TTAATTGGCTCTTCG
*
59408213 TGAGCTTCCCGTTAATTGGCTCTTTG
1 TGAGCTTCCCGTTAATTGGCTCTTCG
*
59408239 CGAGCTTCC
1 TGAGCTTCC
59408248 TGATAAGGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 2 0.06
25 12 0.39
26 17 0.55
ACGTcount: A:0.12, C:0.28, G:0.23, T:0.37
Consensus pattern (26 bp):
TGAGCTTCCCGTTAATTGGCTCTTCG
Found at i:59414706 original size:19 final size:18
Alignment explanation
Indices: 59414668--59414708 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
59414658 AGATGAAACC
*
59414668 TTAATTAACTTTAATGAA
1 TTAATTAACATTAATGAA
*
59414686 TTAATTAAACATTAATTAA
1 TTAATT-AACATTAATGAA
59414705 TTAA
1 TTAA
59414709 CGTTAATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (18 bp):
TTAATTAACATTAATGAA
Found at i:59415235 original size:18 final size:18
Alignment explanation
Indices: 59415193--59415237 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
59415183 TAGCTAGATT
*
59415193 TCAAAAATTATAAAAAAAT
1 TCAAAAA-TATAAAAAAAC
*
59415212 TAAAAAATATAAAAAAAC
1 TCAAAAATATAAAAAAAC
59415230 TCAAAAAT
1 TCAAAAAT
59415238 CATTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (18 bp):
TCAAAAATATAAAAAAAC
Found at i:59415324 original size:20 final size:21
Alignment explanation
Indices: 59415293--59415344 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
59415283 AAAATTTTAT
* *
59415293 AAAAT-TACAAAAAA-TTTGA
1 AAAATATAAAAAAAACTTAGA
*
59415312 AAACTATAAAAAAAACTTAGA
1 AAAATATAAAAAAAACTTAGA
59415333 AAAATATAAAAA
1 AAAATATAAAAA
59415345 TTAAATCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.15
20 8 0.30
21 15 0.56
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (21 bp):
AAAATATAAAAAAAACTTAGA
Found at i:59415407 original size:19 final size:20
Alignment explanation
Indices: 59415378--59415419 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
59415368 CAAATTTTAC
59415378 TTTTTGAATTTCTAAAATAT
1 TTTTTGAATTTCTAAAATAT
* *
59415398 TTTTTG-ATTTGTTAAATAT
1 TTTTTGAATTTCTAAAATAT
59415417 TTT
1 TTT
59415420 CGAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (20 bp):
TTTTTGAATTTCTAAAATAT
Found at i:59415434 original size:16 final size:17
Alignment explanation
Indices: 59415413--59415452 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
59415403 GATTTGTTAA
*
59415413 ATATTTTCGAA-TTTTT
1 ATATTTTCAAAGTTTTT
59415429 ATATTTTCAAAGTTTTT
1 ATATTTTCAAAGTTTTT
59415446 A-ATTTTC
1 ATATTTTC
59415453 CTAAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (17 bp):
ATATTTTCAAAGTTTTT
Found at i:59415515 original size:19 final size:19
Alignment explanation
Indices: 59415468--59415518 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
59415458 ATTTTAACTA
59415468 TAAATTTTTTGAATTTTTC
1 TAAATTTTTTGAATTTTTC
59415487 TAAATATTTTGTG-ATTTTT-
1 TAAAT-TTTT-TGAATTTTTC
*
59415506 TATATTTTTTGAA
1 TAAATTTTTTGAA
59415519 GATTTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.07
18 5 0.18
19 9 0.32
20 10 0.36
21 2 0.07
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (19 bp):
TAAATTTTTTGAATTTTTC
Found at i:59419199 original size:494 final size:496
Alignment explanation
Indices: 59418272--59419264 Score: 1945
Period size: 494 Copynumber: 2.0 Consensus size: 496
59418262 CTTCATGCTT
59418272 TTTCAATTTTGCCACCAGATTTCGCGCCTGTTTCAATTCGGTCCATGGACCAGGTTCGCAGATTT
1 TTTCAATTTTGCCACCAGATTTCGCGCCTGTTTCAATTCGGTCCATGGACCAGGTTCGCAGATTT
59418337 CATTGAAACGGCGCTGTTGGATCCGAATGGGCATATTTCCCTTTGGGTCCTCCTTTTGTGACGCG
66 CATTGAAACGGCGCTGTTGGATCCGAATGGGCATATTTCCCTTTGGGTCCTCCTTTTGTGACGCG
59418402 CATTTCGATTTAATCCTTTCTCGTGTTTTCTATTTTTAAATGCGGCCCTTAAATTCTGTTTAGTT
131 CATTTCGATTTAATCCTTTCTCGTGTTTTCTATTTTTAAATGCGGCCCTTAAATTCTGTTTAGTT
59418467 TTCAATTTGATCCTTAATCAACTTTTTTTAATTTTCTTTTATATTATTTAACATTGTATTATTAT
196 TTCAATTTGATCCTTAATCAACTTTTTTTAATTTTCTTTTATATTATTTAACATTGTATTATTAT
59418532 TATTTATTATTATTTTTATTTTCATTTTATTATTTTTATATCCATATGCATGCCTCGGTTTTTAT
261 TATTTATTATTATTTTTATTTTCATTTTATTATTTTTATATCCATATGCATGCCTCGGTTTTTAT
*
59418597 GTAATATATATATTGTTTTGTATATAGTTTACGTATTTTGGTACATATTTTATACATGGTATATT
326 GTAATATATATATTGTTTTGTATATAGTTTACGTATTTTGGTACATATTTTATACATAGTATATT
* *
59418662 TTATTTCCTCCCTTTTATATACATATATATACTTCTATACTTTGGTTTCAATTTTTTTTTTACTT
391 TTATTTCCTCACTTTTATATACATATATATACTTCTATACTTTGGTTTCAAATTTTTTTTTACTT
59418727 TTAT-AA-ATATATATACGTATGTTTTTATATCATTTTTCA
456 TTATAAATATATATATACGTATGTTTTTATATCATTTTTCA
59418766 TTTCAATTTTGCCACCAGATTTCGCGCCTGTTTCAATTCGGTCCATGGACCAGGTTCGCAGATTT
1 TTTCAATTTTGCCACCAGATTTCGCGCCTGTTTCAATTCGGTCCATGGACCAGGTTCGCAGATTT
59418831 CATTGAAACGGCGCTGTTGGATCCGAATGGGCATATTTCCCTTTGGGTCCTCCTTTTGTGACGCG
66 CATTGAAACGGCGCTGTTGGATCCGAATGGGCATATTTCCCTTTGGGTCCTCCTTTTGTGACGCG
59418896 CATTTCGATTTAATCCTTTCTCGTGTTTTCTATTTTTAAATGCGGCCCTTAAATTCTGTTTAGTT
131 CATTTCGATTTAATCCTTTCTCGTGTTTTCTATTTTTAAATGCGGCCCTTAAATTCTGTTTAGTT
59418961 TTCAATTTGATCCTTAATCAACTTTTTTTAATTTTCTTTTATATTATTTAACATTGTATTATTAT
196 TTCAATTTGATCCTTAATCAACTTTTTTTAATTTTCTTTTATATTATTTAACATTGTATTATTAT
59419026 TATTTATTATTATTTTTATTTTCATTTTATTATTTTTATATCCATATGCATGCCTCGGTTTTTAT
261 TATTTATTATTATTTTTATTTTCATTTTATTATTTTTATATCCATATGCATGCCTCGGTTTTTAT
59419091 GTAATATATATATTGTTTTGTATATAGTTTACGTATTTTGGTACATATTTTATACATAGTATATT
326 GTAATATATATATTGTTTTGTATATAGTTTACGTATTTTGGTACATATTTTATACATAGTATATT
59419156 TTATTTCCTCACTTTTATATACATATATATACTTCTATACTTTGGTTTCAAATTTTTTTTTACTT
391 TTATTTCCTCACTTTTATATACATATATATACTTCTATACTTTGGTTTCAAATTTTTTTTTACTT
59419221 TTATAAATATATATATACGTATGTTTTTATATCATTTTTCA
456 TTATAAATATATATATACGTATGTTTTTATATCATTTTTCA
59419262 TTT
1 TTT
59419265 TCTTTACAAA
Statistics
Matches: 494, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
494 456 0.92
495 2 0.00
496 36 0.07
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (496 bp):
TTTCAATTTTGCCACCAGATTTCGCGCCTGTTTCAATTCGGTCCATGGACCAGGTTCGCAGATTT
CATTGAAACGGCGCTGTTGGATCCGAATGGGCATATTTCCCTTTGGGTCCTCCTTTTGTGACGCG
CATTTCGATTTAATCCTTTCTCGTGTTTTCTATTTTTAAATGCGGCCCTTAAATTCTGTTTAGTT
TTCAATTTGATCCTTAATCAACTTTTTTTAATTTTCTTTTATATTATTTAACATTGTATTATTAT
TATTTATTATTATTTTTATTTTCATTTTATTATTTTTATATCCATATGCATGCCTCGGTTTTTAT
GTAATATATATATTGTTTTGTATATAGTTTACGTATTTTGGTACATATTTTATACATAGTATATT
TTATTTCCTCACTTTTATATACATATATATACTTCTATACTTTGGTTTCAAATTTTTTTTTACTT
TTATAAATATATATATACGTATGTTTTTATATCATTTTTCA
Found at i:59424041 original size:8 final size:8
Alignment explanation
Indices: 59424028--59424063 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
59424018 AGAAGTGATG
59424028 TGAAAAAA
1 TGAAAAAA
59424036 TGAAAAAA
1 TGAAAAAA
59424044 TG--AAAA
1 TGAAAAAA
59424050 TG-AAAAA
1 TGAAAAAA
59424057 TGAAAAA
1 TGAAAAA
59424064 GTAAAAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 6 0.23
8 14 0.54
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (8 bp):
TGAAAAAA
Found at i:59424049 original size:7 final size:7
Alignment explanation
Indices: 59424031--59424072 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
59424021 AGTGATGTGA
59424031 AAAAATG
1 AAAAATG
59424038 AAAAAATG
1 -AAAAATG
59424046 -AAAATG
1 AAAAATG
59424052 AAAAATG
1 AAAAATG
59424059 AAAAA-G
1 AAAAATG
59424065 TAAAAATG
1 -AAAAATG
59424073 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 7 0.23
7 16 0.52
8 8 0.26
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:59424057 original size:21 final size:21
Alignment explanation
Indices: 59424031--59424072 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
59424021 AGTGATGTGA
*
59424031 AAAAATGAAAAAATGAAAATG
1 AAAAATGAAAAAATAAAAATG
*
59424052 AAAAATGAAAAAGTAAAAATG
1 AAAAATGAAAAAATAAAAATG
59424073 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAAATAAAAATG
Found at i:59425468 original size:132 final size:132
Alignment explanation
Indices: 59425290--59426054 Score: 1104
Period size: 132 Copynumber: 5.8 Consensus size: 132
59425280 CTGCATAGAC
* * * * **
59425290 AGTGAAGCAAATCGAAGATGGTGAATTTTACCTCCTTGTGGTTACAGTGGAGTACATCGAAGCCA
1 AGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCA
* *
59425355 GTAATTCTACTTCCCTGGGTAGCAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCA
66 GTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCA
59425420 GT
131 GT
* * * * **
59425422 AGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCTTGCGGTTACAGCGGAGTATATCGAAGCCA
1 AGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCA
* *
59425487 GTAATTCTACTTCCCTGGGTAGCAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCA
66 GTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCA
59425552 GT
131 GT
59425554 AGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCA
1 AGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCA
* * * * *
59425619 GTAATTCTACTTCACTAGGCAGCAGTGGAATATATTGAAGATTTCAGATTTTGTCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCA
59425684 GT
131 GT
* *
59425686 AGTGGAGTAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCA
* * * * ** *
59425751 GTAATTATACTTCCCTGGACAGCAGTGGAATAGATTAAAGATTGCAGATCTTACCTTCCTGCATA
66 GTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTC-TCC-CCA-A
*
59425816 G-A-C
128 GCAGT
* * *
59425819 AGTGAAGCAGATCGAAGATGGTGAATTTTACCTCCCTGTGGCTACAGTGGAGTACATTAAAGCCA
1 AGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCA
* *
59425884 GTAATTCTACTTCTCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCA
59425949 GT
131 GT
* * *
59425951 AGTGGAGCATACCAAAGATGGTGAATTTTACCTCCCTGTGGCTACAGTGGAGTACATTAAAGCCA
1 AGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCA
* *
59426016 GTAATTCTA-TCTCCCTGAGCAGCAGTGGAGTAGATTGAA
66 GTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAA
59426055 AACCACAAGA
Statistics
Matches: 571, Mismatches: 56, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
130 2 0.00
131 3 0.01
132 451 0.79
133 111 0.19
134 2 0.00
135 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
AGTGGAGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCA
GTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCA
GT
Found at i:59425721 original size:44 final size:44
Alignment explanation
Indices: 59425541--59425722 Score: 102
Period size: 44 Copynumber: 4.1 Consensus size: 44
59425531 CAGATCTTGT
* *
59425541 CTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
1 CTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGTGAATTTTAC
** * * *** *
59425585 CTCCCT--GTGGTTACAGTGGAGTACATTAAAGCCAGT-AATTCTAC
1 CTCCCTAAGCAG-T--AGTGGAGTAGATCAAAGATGGTGAATTTTAC
* * * * * * ** * * **
59425629 TTCACTAGGCAGCAGTGGAATATATTGAAGAT-TTCAGATTTTGT
1 CTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGTGA-ATTTTAC
59425673 CTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGTGAATTTTAC
1 CTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGTGAATTTTAC
59425717 CTCCCT
1 CTCCCT
59425723 GTGGTTACAG
Statistics
Matches: 94, Mismatches: 36, Indels: 16
0.64 0.25 0.11
Matches are distributed among these distances:
42 3 0.03
43 16 0.17
44 55 0.59
45 18 0.19
46 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
CTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGTGAATTTTAC
Found at i:59425931 original size:265 final size:265
Alignment explanation
Indices: 59425245--59426051 Score: 1210
Period size: 265 Copynumber: 3.0 Consensus size: 265
59425235 CCTCGGTTGT
* *
59425245 AGTGGAGTAGATTAAAGATTGCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAAATCGAAGATG
1 AGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGATG
* ** * *
59425310 GTGAATTTTACCTCCTTGTGGTTACAGTGGAGTACATCGAAGCCAGTAATTCTACTTCCCTGGGT
66 GTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTACTTCACTGGGC
* *
59425375 AGCAGTAGAATAGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGA
131 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
* * * * *
59425440 TGGTGAATTTTACCTCCTTGCGGTTACAGCGGAGTATATCGAAGCCAGTAATTCTACTTCCCTGG
196 TGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGG
**
59425505 GTAGC
261 ACAGC
* * * * * * * *
59425510 AGTAGAATAGATTGAAGATTTCAGATCTTGTC-TCC-CCA-AGCAGTAGTGGAGCAGATCAAAGA
1 AGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGCATAG-A-CAGTGAAGCAGATCGAAGA
*
59425572 TGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTACTTCACTAG
64 TGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTACTTCACTGG
* * *
59425637 GCAGCAGTGGAATATATTGAAGATTTCAGATTTTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAA
129 GCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAA
*
59425702 GATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTATACTTCCCT
194 GATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT
59425767 GGACAGC
259 GGACAGC
*
59425774 AGTGGAATAGATTAAAGATTGCAGATCTTACCTTCCTGCATAGACAGTGAAGCAGATCGAAGATG
1 AGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGATG
* *
59425839 GTGAATTTTACCTCCCTGTGGCTACAGTGGAGTACATTAAAGCCAGTAATTCTACTTCTCTGGGC
66 GTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTACTTCACTGGGC
* *
59425904 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCATACCAAAGA
131 AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
* *
59425969 TGGTGAATTTTACCTCCCTGTGGCTACAGTGGAGTACATTAAAGCCAGTAATTCTA-TCTCCCT-
196 TGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTG
59426032 GAGCAGC
260 GA-CAGC
*
59426039 AGTGGAGTAGATT
1 AGTGGAATAGATT
59426052 GAAAACCACA
Statistics
Matches: 485, Mismatches: 50, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
262 2 0.00
263 3 0.01
264 231 0.48
265 244 0.50
266 3 0.01
267 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (265 bp):
AGTGGAATAGATTAAAGATTGCAGATCTTGCCTTCCTGCATAGACAGTGAAGCAGATCGAAGATG
GTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTACTTCACTGGGC
AGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
TGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGG
ACAGC
Found at i:59427704 original size:18 final size:18
Alignment explanation
Indices: 59427676--59427743 Score: 70
Period size: 17 Copynumber: 3.9 Consensus size: 18
59427666 TTTAATTTTC
*
59427676 TTTTA-TATTATTTAACA
1 TTTTATTATTATTTATCA
* *
59427693 TTTTATTATTATTTTTTA
1 TTTTATTATTATTTATCA
*
59427711 TTTTTATTTTTATTT-TCA
1 -TTTTATTATTATTTATCA
59427729 TTTTATTATT-TTTAT
1 TTTTATTATTATTTAT
59427744 ATCCATACGC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.07
17 15 0.36
18 11 0.26
19 13 0.31
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATTATTATTTATCA
Found at i:59427714 original size:6 final size:6
Alignment explanation
Indices: 59427693--59427743 Score: 57
Period size: 6 Copynumber: 8.0 Consensus size: 6
59427683 TTATTTAACA
* *
59427693 TTTTAT TATTATT TTTTAT TTTTAT TTTTAT TTTCATT TTATTAT TTTTAT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTA-T TT-TTAT TTTTAT
59427744 ATCCATACGC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 25 0.66
7 11 0.29
8 2 0.05
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:59434867 original size:18 final size:17
Alignment explanation
Indices: 59434839--59434883 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
59434829 AATTTAACTT
*
59434839 TTAAATGATTATTTTAAA
1 TTAAATAATTA-TTTAAA
* *
59434857 TTAATTAATTATTTCAA
1 TTAAATAATTATTTAAA
59434874 TTAAATAATT
1 TTAAATAATT
59434884 TATAGAATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAAATAATTATTTAAA
Found at i:59452791 original size:28 final size:30
Alignment explanation
Indices: 59452728--59452795 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 30
59452718 GTAATAGATT
*
59452728 TATTTAATTACTTTTTATTTAATTAAATAGA
1 TATTT-ATTACTTTTTATTTAAGTAAATAGA
59452759 TATTTATTA-TTTATTA-TTAAGTAAA-AGA
1 TATTTATTACTTT-TTATTTAAGTAAATAGA
59452787 TATTTATTA
1 TATTTATTA
59452796 ATTAAATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 12 0.34
29 11 0.31
30 7 0.20
31 5 0.14
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (30 bp):
TATTTATTACTTTTTATTTAAGTAAATAGA
Found at i:59452949 original size:13 final size:13
Alignment explanation
Indices: 59452931--59452957 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59452921 TAAATAGATA
59452931 TATATTAAATTAT
1 TATATTAAATTAT
59452944 TATATTAAATTAT
1 TATATTAAATTAT
59452957 T
1 T
59452958 GTTGTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATTAAATTAT
Found at i:59453670 original size:23 final size:23
Alignment explanation
Indices: 59453640--59453723 Score: 111
Period size: 23 Copynumber: 3.8 Consensus size: 23
59453630 GCTTTACCGA
*
59453640 TCAGGCACTTTATGTGTTGTATT
1 TCAGGCACTTTATGTGTCGTATT
59453663 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
**
59453686 TCAGGCACTTCGTGTGTCG--TT
1 TCAGGCACTTTATGTGTCGTATT
*
59453707 TCAAGCAC-TTATGTGTC
1 TCAGGCACTTTATGTGTC
59453724 TATACTGATC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.13
21 9 0.16
23 39 0.71
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:59456277 original size:23 final size:23
Alignment explanation
Indices: 59456251--59456346 Score: 147
Period size: 23 Copynumber: 4.2 Consensus size: 23
59456241 ATAAGTGCCA
59456251 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
59456274 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
59456297 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
59456320 CACTGATATGTAGCCGTAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
59456343 CACT
1 CACT
59456347 AATCAATAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:59456318 original size:46 final size:46
Alignment explanation
Indices: 59456251--59456346 Score: 165
Period size: 46 Copynumber: 2.1 Consensus size: 46
59456241 ATAAGTGCCA
*
59456251 CACTGATATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* *
59456297 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGTTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
59456343 CACT
1 CACT
59456347 AATCAATAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
Found at i:59462945 original size:21 final size:21
Alignment explanation
Indices: 59462919--59462958 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
59462909 TTCCAGATCC
59462919 TATGTCCTTCCCTGAAAATTT
1 TATGTCCTTCCCTGAAAATTT
59462940 TATGTCCTTCCCTGAAAAT
1 TATGTCCTTCCCTGAAAAT
59462959 CTATAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (21 bp):
TATGTCCTTCCCTGAAAATTT
Found at i:59471827 original size:38 final size:38
Alignment explanation
Indices: 59471785--59471865 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 38
59471775 GACCCGGCCC
*
59471785 AAATA-TAATAAATATATTTTTTTTATTTTTTAATTT-TA
1 AAATATTAATAAA-ATACTTTTTTTATTTTTT-ATTTCTA
**
59471823 AAATATTTTTAAAATACTTTTTTTATTTTTTATTTCTA
1 AAATATTAATAAAATACTTTTTTTATTTTTTATTTCTA
59471861 AAATA
1 AAATA
59471866 AATTTTCGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 4 0.11
38 29 0.76
39 5 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (38 bp):
AAATATTAATAAAATACTTTTTTTATTTTTTATTTCTA
Found at i:59472774 original size:140 final size:138
Alignment explanation
Indices: 59472524--59472803 Score: 357
Period size: 140 Copynumber: 2.0 Consensus size: 138
59472514 TCCTAAGACA
* * *
59472524 ACACTTTTGGGCCAACACTTTTAAGTGTTAGGATAAACTTGCCGATATACGCTTTGGCCAACTCT
1 ACACTTTTGGGCCAAAACTTTTAAGTGTTAGGATAAACTTGCCAATATACGCTTTAGCCAACTCT
* * * * * * * *
59472589 TTGTATAAGAGTTGGGATATCCATGCTTGAGGTAACGGTTAAATAAGAGTCTGTTTTGTCCAAGA
66 TTGTATAAGAGTCGGGATATCCATGCTTAAGGCAACGCTTAAATAAAAGTCAGTTTTATCCAACA
59472654 CTATGCCG
131 CTATGCCG
* * *
59472662 ACACTTTTGGGCCAAAACTTTCCTAAGT-TTTGAGATAGAA-TTGTCAATATATGCTTTAGCCAA
1 ACACTTTTGGGCCAAAACTTT--TAAGTGTTAG-GATA-AACTTGCCAATATACGCTTTAGCCAA
* *
59472725 CTCTTTGTATAAGGGTCGGGATATGCATGCTTAAGGCAACGCTTAAATAAAAGTCAGTTTTATCC
62 CTCTTTGTATAAGAGTCGGGATATCCATGCTTAAGGCAACGCTTAAATAAAAGTCAGTTTTATCC
*
59472790 AACACTATGTCG
127 AACACTATGCCG
59472802 AC
1 AC
59472804 TTTTGTTATA
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
138 20 0.17
139 3 0.02
140 96 0.79
141 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (138 bp):
ACACTTTTGGGCCAAAACTTTTAAGTGTTAGGATAAACTTGCCAATATACGCTTTAGCCAACTCT
TTGTATAAGAGTCGGGATATCCATGCTTAAGGCAACGCTTAAATAAAAGTCAGTTTTATCCAACA
CTATGCCG
Found at i:59477052 original size:19 final size:19
Alignment explanation
Indices: 59477002--59477052 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
59476992 CAAAATATAT
59477002 TTAATTTTTTATAAAAAAAA
1 TTAATTTTTT-TAAAAAAAA
* *
59477022 TT-ATTTACTTTAAAAATAA
1 TTAATTT-TTTTAAAAAAAA
59477041 TTAATTTTTTTA
1 TTAATTTTTTTA
59477053 TTTTTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAATTTTTTTAAAAAAAA
Found at i:59482325 original size:12 final size:13
Alignment explanation
Indices: 59482308--59482344 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
59482298 GAACCGGACA
59482308 CGAACCGAA-CTC
1 CGAACCGAAGCTC
59482320 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
59482332 CGAACCGTAGCTC
1 CGAACCGAAGCTC
59482345 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:59491724 original size:52 final size:48
Alignment explanation
Indices: 59491705--59491907 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
59491695 TGACAAGTGG
* *
59491705 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
59491751 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
59491803 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
59491849 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
59491895 AAAGTGATAAGTG
1 AAAGTGATAAGTG
59491908 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:59491759 original size:98 final size:98
Alignment explanation
Indices: 59491639--59491907 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
59491629 TTTGAGTACT
*
59491639 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
59491704 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
59491737 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
59491802 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
59491835 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
59491900 GATAAGTG
65 GAAAAGTG
59491908 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:59491915 original size:37 final size:37
Alignment explanation
Indices: 59491871--59492016 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
59491861 GATAGCTTTA
*
59491871 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59491908 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
59491945 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
59491982 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59492017 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:59493857 original size:25 final size:25
Alignment explanation
Indices: 59493826--59493882 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
59493816 TTGTAATAGG
*
59493826 AAGCTTATCTGGACAATATAACGGA
1 AAGCTTATCCGGACAATATAACGGA
** *
59493851 AAGCTTATCCGGGTAATATAACGGG
1 AAGCTTATCCGGACAATATAACGGA
59493876 AAGCTTA
1 AAGCTTA
59493883 CAAAGAGCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (25 bp):
AAGCTTATCCGGACAATATAACGGA
Found at i:59493895 original size:25 final size:24
Alignment explanation
Indices: 59493867--59493914 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
59493857 ATCCGGGTAA
59493867 TATAACGGGAAGCTTACAAAGAGCC
1 TATAACGGGAAGCTT-CAAAGAGCC
*
59493892 TATAACGGGTAGCTTCAAAGAGC
1 TATAACGGGAAGCTTCAAAGAGC
59493915 AATTAACGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (24 bp):
TATAACGGGAAGCTTCAAAGAGCC
Found at i:59493921 original size:24 final size:24
Alignment explanation
Indices: 59493869--59493944 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 24
59493859 CCGGGTAATA
* *
59493869 TAACGGGAAGCTTACAAAGAGC-CT
1 TAACGGGTAGCTT-CAAAGAGCAAT
59493893 ATAACGGGTAGCTTCAAAGAGCAAT
1 -TAACGGGTAGCTTCAAAGAGCAAT
* * *
59493918 TAACGGGTAGCTCCGAAGAGTAAT
1 TAACGGGTAGCTTCAAAGAGCAAT
59493942 TAA
1 TAA
59493945 TGGGAAGCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 32 0.71
25 13 0.29
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (24 bp):
TAACGGGTAGCTTCAAAGAGCAAT
Found at i:59498575 original size:3 final size:3
Alignment explanation
Indices: 59498567--59498607 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
59498557 GTGAATTAAA
*
59498567 TAT TAT TA- TAT TAT TAT AAT ATAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA
59498608 ACTAATGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:59498591 original size:13 final size:13
Alignment explanation
Indices: 59498573--59498607 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
59498563 TAAATATTAT
59498573 TATATTATTATAA
1 TATATTATTATAA
*
59498586 TATATTATTATTA
1 TATATTATTATAA
59498599 T-TATTATTA
1 TATATTATTA
59498608 ACTAATGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATATTATTATAA
Found at i:59499691 original size:23 final size:23
Alignment explanation
Indices: 59499665--59499751 Score: 106
Period size: 23 Copynumber: 3.8 Consensus size: 23
59499655 GCCGATCAGA
59499665 CACTTTATGTGTCGTA-CATCAAG
1 CACTTTATGTGTCGTATC-TCAAG
*
59499688 CACTTTATGTGTCGTATCTCAGG
1 CACTTTATGTGTCGTATCTCAAG
* *
59499711 CACTTTATGTGTCGTATTTCAGG
1 CACTTTATGTGTCGTATCTCAAG
*
59499734 CAC-CTAGTGTGTCGTATC
1 CACTTTA-TGTGTCGTATC
59499752 AGGCACCTCG
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
22 2 0.03
23 55 0.95
24 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (23 bp):
CACTTTATGTGTCGTATCTCAAG
Found at i:59499745 original size:46 final size:44
Alignment explanation
Indices: 59499660--59499791 Score: 144
Period size: 46 Copynumber: 3.0 Consensus size: 44
59499650 GCCTTGCCGA
* ** *
59499660 TCAGACACTTTATGTGTCGTACATCAAGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTATTTCAGGCAC-TTATGTGTCGTAT
*
59499705 CTCAGGCACTTTATGTGTCGTATTTCAGGCACCTAGTGTGTCGTA-
1 -TCAGGCACTTTATGTGTCGTATTTCAGGCACTTA-TGTGTCGTAT
* **
59499750 TCAGGCACCTCGTGTGTCGT-TTT-AGGCACTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTATTTCAGGCACTTATGTGTCGTAT
59499792 ACTGATCAGG
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
41 9 0.12
42 8 0.11
43 3 0.04
44 17 0.23
45 2 0.03
46 36 0.48
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (44 bp):
TCAGGCACTTTATGTGTCGTATTTCAGGCACTTATGTGTCGTAT
Found at i:59499753 original size:21 final size:20
Alignment explanation
Indices: 59499670--59499791 Score: 91
Period size: 23 Copynumber: 5.6 Consensus size: 20
59499660 TCAGACACTT
* *
59499670 TATGTGTCGTACATCAAGCACTT
1 TATGTGTCGT--ATCAGGCAC-C
*
59499693 TATGTGTCGTATCTCAGGCACTT
1 TATGTGTCGTA--TCAGGCAC-C
59499716 TATGTGTCGTATTTCAGGCACC
1 TATGTGTCGTA--TCAGGCACC
59499738 TAGTGTGTCGTATCAGGCACC
1 TA-TGTGTCGTATCAGGCACC
* * * *
59499759 TCGTGTGTCGTTTTAGGCACT
1 T-ATGTGTCGTATCAGGCACC
59499780 TATGTGTCGTAT
1 TATGTGTCGTAT
59499792 ACTGATCAGG
Statistics
Matches: 86, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
20 9 0.10
21 27 0.31
22 2 0.02
23 48 0.56
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (20 bp):
TATGTGTCGTATCAGGCACC
Found at i:59499766 original size:23 final size:22
Alignment explanation
Indices: 59499695--59499791 Score: 103
Period size: 21 Copynumber: 4.5 Consensus size: 22
59499685 AAGCACTTTA
*
59499695 TGTGTCGTATCTCAGGCACTTTA-
1 TGTGTCGTAT-TCAGGCAC-CTAG
59499718 TGTGTCGTATTTCAGGCACCTAG
1 TGTGTCGTA-TTCAGGCACCTAG
*
59499741 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTAG
* *
59499762 TGTGTCGT-TTTAGGCACTTA-
1 TGTGTCGTATTCAGGCACCTAG
59499782 TGTGTCGTAT
1 TGTGTCGTAT
59499792 ACTGATCAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.12
21 28 0.43
22 2 0.03
23 26 0.40
24 1 0.02
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTAG
Found at i:59499769 original size:44 final size:41
Alignment explanation
Indices: 59499693--59499791 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 41
59499683 TCAAGCACTT
* *
59499693 TATGTGTCGTATCTCAGGCACTTTATGTGTCGTATTTCAGGCACC
1 TATGTGTCGTA--TCAGGCACCTCATGTGTCGT-TTT-AGGCACC
* *
59499738 TAGTGTGTCGTATCAGGCACCTCGTGTGTCGTTTTAGGCACT
1 TA-TGTGTCGTATCAGGCACCTCATGTGTCGTTTTAGGCACC
59499780 TATGTGTCGTAT
1 TATGTGTCGTAT
59499792 ACTGATCAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
41 10 0.20
42 8 0.16
43 3 0.06
44 17 0.35
45 2 0.04
46 9 0.18
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.38
Consensus pattern (41 bp):
TATGTGTCGTATCAGGCACCTCATGTGTCGTTTTAGGCACC
Found at i:59501743 original size:43 final size:44
Alignment explanation
Indices: 59501696--59501778 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
59501686 TCAGATGTGT
* *
59501696 TCTTACACGTAA-TC-AAATATCGATGCCACTGTCCCAGACAGGA
1 TCTTACACGAAAGTCTAAA-ATCGATGCCAATGTCCCAGACAGGA
*
59501739 TCTTACACGAAAGTCTCAAATCGATGCCAATGTCCCAGAC
1 TCTTACACGAAAGTCTAAAATCGATGCCAATGTCCCAGAC
59501779 GTGGTCTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 11 0.31
44 22 0.63
45 2 0.06
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.23
Consensus pattern (44 bp):
TCTTACACGAAAGTCTAAAATCGATGCCAATGTCCCAGACAGGA
Found at i:59501766 original size:44 final size:43
Alignment explanation
Indices: 59501675--59501804 Score: 122
Period size: 43 Copynumber: 3.0 Consensus size: 43
59501665 AGCTCGTACA
* * * * *
59501675 ATGCCAATGTCTCAGATGTGTTCTTACACG-TAATC-AAATATCG
1 ATGCCAATGTCCCAGACGTGATCTTACA-GAAAATCTCAA-ATCG
* *
59501718 ATGCCACTGTCCCAGACAG-GATCTTACACGAAAGTCTCAAATCG
1 ATGCCAATGTCCCAGAC-GTGATCTTACA-GAAAATCTCAAATCG
* *
59501762 ATGCCAATGTCCCAGACGTGGTCTTACAGAAAATCTCATATCG
1 ATGCCAATGTCCCAGACGTGATCTTACAGAAAATCTCAAATCG
59501805 GAATCCTCTG
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
43 38 0.53
44 32 0.44
45 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGATCTTACAGAAAATCTCAAATCG
Found at i:59505981 original size:8 final size:8
Alignment explanation
Indices: 59505968--59505995 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
59505958 TAAGCTTGAA
59505968 AATTTAAT
1 AATTTAAT
59505976 AATTTAAT
1 AATTTAAT
59505984 AATTTAAT
1 AATTTAAT
59505992 AATT
1 AATT
59505996 ATGTGTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AATTTAAT
Found at i:59509105 original size:22 final size:22
Alignment explanation
Indices: 59509079--59509155 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
59509069 TTAGCATATT
59509079 ATGCTGTCCGAATGTTGTTTAA
1 ATGCTGTCCGAATGTTGTTTAA
* * ** *
59509101 ATGCTGTCC-ATTTTTAAGGATACT
1 ATGCTGTCCGAATGTT--GTTTA-A
*
59509125 ATGCTGTCCGAATGTTTTTTAA
1 ATGCTGTCCGAATGTTGTTTAA
59509147 ATGCTGTCC
1 ATGCTGTCC
59509156 ATTTTTGTCC
Statistics
Matches: 40, Mismatches: 11, Indels: 8
0.68 0.19 0.14
Matches are distributed among these distances:
21 4 0.10
22 18 0.45
23 5 0.12
24 9 0.22
25 4 0.10
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (22 bp):
ATGCTGTCCGAATGTTGTTTAA
Found at i:59509128 original size:46 final size:46
Alignment explanation
Indices: 59509053--59509161 Score: 173
Period size: 46 Copynumber: 2.4 Consensus size: 46
59509043 TGTGATAACA
* * *
59509053 AAATGCTATCCATTTTTTAGCATATTATGCTGTCCGAATGTTGTTT
1 AAATGCTGTCCATTTTTAAGCATACTATGCTGTCCGAATGTTGTTT
* *
59509099 AAATGCTGTCCATTTTTAAGGATACTATGCTGTCCGAATGTTTTTT
1 AAATGCTGTCCATTTTTAAGCATACTATGCTGTCCGAATGTTGTTT
59509145 AAATGCTGTCCATTTTT
1 AAATGCTGTCCATTTTT
59509162 GTCCAAATCA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (46 bp):
AAATGCTGTCCATTTTTAAGCATACTATGCTGTCCGAATGTTGTTT
Found at i:59513475 original size:30 final size:28
Alignment explanation
Indices: 59513432--59513489 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
59513422 TTTTCTTCCC
59513432 CTGTTTTCGTCTCTTTCTCTATTTCTTTT
1 CTGTTTTCGTCTCTTTCTCTA-TTCTTTT
* *
59513461 CTGTTCTTCTTCTCTTTTTCTATTCTTTT
1 CTGTT-TTCGTCTCTTTCTCTATTCTTTT
59513490 ATTTCGTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.03, C:0.24, G:0.05, T:0.67
Consensus pattern (28 bp):
CTGTTTTCGTCTCTTTCTCTATTCTTTT
Found at i:59517616 original size:6 final size:6
Alignment explanation
Indices: 59517607--59517649 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
59517597 TTTAAATTTT
* * * *
59517607 ATATTA ATATTA ATATTT ATATGA ATATGA ATATGA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA A
59517650 ATAAATATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (6 bp):
ATATTA
Found at i:59517619 original size:18 final size:18
Alignment explanation
Indices: 59517604--59517640 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59517594 AAATTTAAAT
*
59517604 TTTATATTAATATTAATA
1 TTTATATGAATATTAATA
*
59517622 TTTATATGAATATGAATA
1 TTTATATGAATATTAATA
59517640 T
1 T
59517641 GAATATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTATATGAATATTAATA
Found at i:59517622 original size:12 final size:12
Alignment explanation
Indices: 59517607--59517649 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
59517597 TTTAAATTTT
*
59517607 ATATTAATATTA
1 ATATTAATATGA
*
59517619 ATATTTATATGA
1 ATATTAATATGA
*
59517631 ATATGAATATGA
1 ATATTAATATGA
59517643 ATATTAA
1 ATATTAA
59517650 ATAAATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (12 bp):
ATATTAATATGA
Found at i:59523848 original size:23 final size:23
Alignment explanation
Indices: 59523808--59523854 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
59523798 CTTGTAGTTT
***
59523808 AAAGAAAAAAATTTAGAAAAAGA
1 AAAGAAAAAAAGAAAGAAAAAGA
*
59523831 AAAGAAAAAAAGAAAGAAAGAGA
1 AAAGAAAAAAAGAAAGAAAAAGA
59523854 A
1 A
59523855 TAAGGAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (23 bp):
AAAGAAAAAAAGAAAGAAAAAGA
Found at i:59524347 original size:11 final size:10
Alignment explanation
Indices: 59524304--59524351 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
59524294 TTCTAGAAAA
59524304 TTTTAATTTT
1 TTTTAATTTT
*
59524314 TTTTAACTTT
1 TTTTAATTTT
* *
59524324 CTTTATATATT
1 TTTTA-ATTTT
59524335 TTTTAGATTTT
1 TTTTA-ATTTT
59524346 TTTTAA
1 TTTTAA
59524352 AATTTTACAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
10 14 0.47
11 16 0.53
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTAATTTT
Found at i:59524397 original size:18 final size:19
Alignment explanation
Indices: 59524374--59524411 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
59524364 TTTTAAATAA
59524374 TATAAA-ATTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
59524392 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
59524411 T
1 T
59524412 GAAAATTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:59524411 original size:20 final size:20
Alignment explanation
Indices: 59524374--59524433 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
59524364 TTTTAAATAA
*
59524374 TATAAA-ATTTGGAA-TTTT
1 TATAAATATTTTGAATTTTT
59524392 TATAAATATTTTGAATTTTT
1 TATAAATATTTTGAATTTTT
* *
59524412 GA-AAATTAGTTTGAATTGTTT
1 TATAAA-TATTTTGAATT-TTT
59524433 T
1 T
59524434 GTAATTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.18
19 10 0.29
20 15 0.44
21 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (20 bp):
TATAAATATTTTGAATTTTT
Found at i:59524417 original size:19 final size:20
Alignment explanation
Indices: 59524380--59524428 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
59524370 ATAATATAAA
*
59524380 ATTTGGAATTTTTATAAA-T
1 ATTTTGAATTTTTATAAATT
59524399 ATTTTGAATTTTTGA-AAATT
1 ATTTTGAATTTTT-ATAAATT
*
59524419 AGTTTGAATT
1 ATTTTGAATT
59524429 GTTTTGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:59529533 original size:58 final size:58
Alignment explanation
Indices: 59529464--59529581 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
59529454 ATTCAAGTAG
59529464 ATATCTATTGAATAATTATGTTTATTGCTAAAGATACGACAATCCATTTTGGGTAGTT
1 ATATCTATTGAATAATTATGTTTATTGCTAAAGATACGACAATCCATTTTGGGTAGTT
59529522 ATATCTATTGAATAATTATGTTTATTGCTAAAGATACGACAATCCATTTTGGGTAGTT
1 ATATCTATTGAATAATTATGTTTATTGCTAAAGATACGACAATCCATTTTGGGTAGTT
59529580 AT
1 AT
59529582 GTTATTATGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (58 bp):
ATATCTATTGAATAATTATGTTTATTGCTAAAGATACGACAATCCATTTTGGGTAGTT
Found at i:59533194 original size:16 final size:17
Alignment explanation
Indices: 59533173--59533215 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
59533163 TTTTTCTCCT
59533173 TGTTTCGTTTCTA-TTC
1 TGTTTCGTTTCTATTTC
59533189 TGTTTC-TTTCTATTTC
1 TGTTTCGTTTCTATTTC
*
59533205 T-TTTTGTTTCT
1 TGTTTCGTTTCT
59533216 TTTATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.05, C:0.16, G:0.09, T:0.70
Consensus pattern (17 bp):
TGTTTCGTTTCTATTTC
Found at i:59537595 original size:12 final size:12
Alignment explanation
Indices: 59537578--59537604 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59537568 TAATGCCTTC
59537578 ATGATGATGGTG
1 ATGATGATGGTG
59537590 ATGATGATGGTG
1 ATGATGATGGTG
59537602 ATG
1 ATG
59537605 TGGGGTTTTT
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:0.26, C:0.00, G:0.41, T:0.33
Consensus pattern (12 bp):
ATGATGATGGTG
Found at i:59544804 original size:25 final size:24
Alignment explanation
Indices: 59544750--59544805 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
59544740 TTATCTAAAT
*
59544750 AATACAAAAATAATTAATTAAAAA
1 AATAAAAAAATAATTAATTAAAAA
**
59544774 ATATAAAAAAATAGATTAATTACGAA
1 A-ATAAAAAAATA-ATTAATTAAAAA
59544800 AATAAA
1 AATAAA
59544806 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 15 0.56
26 11 0.41
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (24 bp):
AATAAAAAAATAATTAATTAAAAA
Found at i:59545566 original size:30 final size:30
Alignment explanation
Indices: 59545530--59545599 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
59545520 CACTATAATA
59545530 AATATATATTTTCATAATTAA-TATGTTTTT
1 AATATATATTTTCATAATTAATTAT-TTTTT
* *
59545560 AATATATTTTTTCGTAATTAATTATTTTTT
1 AATATATATTTTCATAATTAATTATTTTTT
59545590 AATAT-TATTT
1 AATATATATTT
59545600 GAATAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.11
30 29 0.81
31 3 0.08
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (30 bp):
AATATATATTTTCATAATTAATTATTTTTT
Found at i:59551422 original size:16 final size:16
Alignment explanation
Indices: 59551371--59551423 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
59551361 TTGGTTCGCT
*
59551371 GTAATGGAATAGAAGC
1 GTAATGGAATAGAGGC
*
59551387 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
*
59551403 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
59551419 GTAAT
1 GTAAT
59551424 AGCAATTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.42, C:0.04, G:0.32, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:59551629 original size:21 final size:20
Alignment explanation
Indices: 59551605--59551691 Score: 53
Period size: 19 Copynumber: 4.5 Consensus size: 20
59551595 AATAAGATTA
59551605 TTAATATAAATAATAAATAAT
1 TTAATATAAATAA-AAATAAT
* *
59551626 TTAATAATAATTTAAAATAA-
1 TTAAT-ATAAATAAAAATAAT
* *
59551646 TT-AT-T-ATTAAATATAAT
1 TTAATATAAATAAAAATAAT
*
59551663 TTAATA-AAA-AATATATAAT
1 TTAATATAAATAA-AAATAAT
59551682 TTAATA-AAAT
1 TTAATATAAAT
59551692 TCTTAATATA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
16 9 0.17
17 3 0.06
18 4 0.07
19 19 0.35
20 2 0.04
21 11 0.20
22 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATATAAATAAAAATAAT
Found at i:59551634 original size:11 final size:11
Alignment explanation
Indices: 59551615--59551647 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
59551605 TTAATATAAA
59551615 TAATAAATAATT
1 TAAT-AATAATT
59551627 TAATAATAATT
1 TAATAATAATT
59551638 TAA-AATAATT
1 TAATAATAATT
59551648 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:59551668 original size:24 final size:21
Alignment explanation
Indices: 59551592--59551704 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
59551582 GTTATTAAAT
59551592 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
59551614 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
59551636 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
* *
59551662 TTTAATAAA-AAAT-ATATAA
1 TTTAATAAATTATTAATATAA
*
59551681 TTTAATAAAATTCTTAATATAA
1 TTTAAT-AAATTATTAATATAA
59551703 TT
1 TT
59551705 ATTCTTATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
19 12 0.17
20 6 0.08
21 14 0.20
22 13 0.18
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:59551671 original size:29 final size:28
Alignment explanation
Indices: 59551638--59551728 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
59551628 AATAATAATT
59551638 TAAAATAATTATTATTAAATATAATTTAA
1 TAAAATAATTATTATTAAATATAATTT-A
* * *
59551667 TAAAA-AATATATAATTTAATAAAATTCT-
1 TAAAATAAT-TATTATTAAATATAATT-TA
* * *
59551695 TAATATAATTATTCTTATAT-TAATTTA
1 TAAAATAATTATTATTAAATATAATTTA
59551722 CTAAAAT
1 -TAAAAT
59551729 CATAATATAT
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 19 0.40
29 22 0.47
30 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
TAAAATAATTATTATTAAATATAATTTA
Found at i:59551681 original size:56 final size:57
Alignment explanation
Indices: 59551605--59551733 Score: 156
Period size: 56 Copynumber: 2.3 Consensus size: 57
59551595 AATAAGATTA
59551605 TTAATATAAATAATAAATAATTTAATAATAA-T-TTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAA-AATTCTTAAAATAATTATTATTAAAT-TAAT
* * * *
59551663 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATTAAT
1 TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
* *
59551719 TTACTAAAATCATAA
1 TTAATAAAATAATAA
59551734 TATATAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
55 2 0.03
56 29 0.48
57 24 0.39
58 6 0.10
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
Found at i:59557720 original size:2 final size:2
Alignment explanation
Indices: 59557715--59557741 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
59557705 ATATATATAT
59557715 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
59557742 TGGAAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:59562298 original size:3 final size:3
Alignment explanation
Indices: 59562290--59562315 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59562280 TGTTATTAAC
59562290 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
59562316 CTTGCCCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:59564951 original size:14 final size:14
Alignment explanation
Indices: 59564934--59564999 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 14
59564924 TATAATTAAA
59564934 TTTAAAATAAAAAT
1 TTTAAAATAAAAAT
*
59564948 TTTAAAAAAATAAAAT
1 TTT-AAAATA-AAAAT
* ** *
59564964 GTTATCATATAAAT
1 TTTAAAATAAAAAT
*
59564978 TTTATAAATGAAAAT
1 TTTA-AAATAAAAAT
59564993 TTTAAAA
1 TTTAAAA
59565000 AATATAATAT
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
14 13 0.34
15 18 0.47
16 7 0.18
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (14 bp):
TTTAAAATAAAAAT
Found at i:59564955 original size:15 final size:15
Alignment explanation
Indices: 59564937--59565023 Score: 50
Period size: 15 Copynumber: 5.7 Consensus size: 15
59564927 AATTAAATTT
59564937 AAAATAAAAATTTTA
1 AAAATAAAAATTTTA
* *
59564952 AAAAAATAAAATGTT-
1 AAAATA-AAAATTTTA
** *
59564967 ATCATATAAATTTTA
1 AAAATAAAAATTTTA
* *
59564982 TAAATGAAAATTTTAA
1 AAAATAAAAATTTT-A
* *
59564998 AAAATATAATATTGTA
1 AAAATA-AAAATTTTA
*
59565014 AAAAGAAAAA
1 AAAATAAAAA
59565024 AAAGGCGAAA
Statistics
Matches: 50, Mismatches: 18, Indels: 8
0.66 0.24 0.11
Matches are distributed among these distances:
14 6 0.12
15 20 0.40
16 18 0.36
17 6 0.12
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (15 bp):
AAAATAAAAATTTTA
Found at i:59571681 original size:13 final size:13
Alignment explanation
Indices: 59571663--59571688 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59571653 TTTCTATTCA
59571663 TTTATTTTCATTT
1 TTTATTTTCATTT
59571676 TTTATTTTCATTT
1 TTTATTTTCATTT
59571689 GATTCATCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTTTCATTT
Found at i:59573892 original size:10 final size:10
Alignment explanation
Indices: 59573877--59573923 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
59573867 TTTAAAATAC
59573877 TTTTTTTAAA
1 TTTTTTTAAA
59573887 TTTTTTT-AA
1 TTTTTTTAAA
*
59573896 --TTTTAAAA
1 TTTTTTTAAA
59573904 TTTTTTTAAA
1 TTTTTTTAAA
59573914 TTTTTTTAAA
1 TTTTTTTAAA
59573924 AATACTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 4 0.12
8 2 0.06
9 2 0.06
10 24 0.75
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:59573911 original size:41 final size:42
Alignment explanation
Indices: 59573845--59573957 Score: 135
Period size: 41 Copynumber: 2.7 Consensus size: 42
59573835 TAAATATTTT
* * * *
59573845 TATTTTTTATTTTTAAAAGACTTTTAAAATACTTTTTT-TAAA
1 TATTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTTAAAAA
*
59573887 T-TTTTTTAATTTTAAAAT-TTTTTTAAAT-TTTTTTAAAAA
1 TATTTTTTAATTTTAAAATATTTTTAAAATATTTTTTAAAAA
59573926 TACTTTTTTAATTTTAAAATATTTTTAAAATA
1 TA-TTTTTTAATTTTAAAATATTTTTAAAATA
59573958 AATTTTTCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
38 6 0.10
39 4 0.07
40 8 0.13
41 32 0.53
42 10 0.17
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (42 bp):
TATTTTTTAATTTTAAAATATTTTTAAAATATTTTTTAAAAA
Found at i:59573964 original size:31 final size:31
Alignment explanation
Indices: 59573906--59573970 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
59573896 TTTTAAAATT
* * *
59573906 TTTTTAAATTTTTTTAAAAATACTTTTTTAA
1 TTTTAAAATATTTTTAAAAATAATTTTTTAA
* *
59573937 TTTTAAAATATTTTT-AAAATAAATTTTTCA
1 TTTTAAAATATTTTTAAAAATAATTTTTTAA
59573967 TTTT
1 TTTT
59573971 TGTTTTCATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTTAAAATATTTTTAAAAATAATTTTTTAA
Done.