Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 326 of 345
Found at i:109602866 original size:15 final size:15
Alignment explanation
Indices: 109602842--109602892 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
109602832 CGATGAATTT
109602842 ATTATATTGATTGAA
1 ATTATATTGATTGAA
*
109602857 ATTATTTTGATTGAA
1 ATTATATTGATTGAA
*
109602872 TTTATATTGATTG-A
1 ATTATATTGATTGAA
109602886 ATTATAT
1 ATTATAT
109602893 AATATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 7 0.22
15 25 0.78
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTATATTGATTGAA
Found at i:109606038 original size:20 final size:21
Alignment explanation
Indices: 109606013--109606057 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
109606003 CTTTCTTTAC
*
109606013 AATTTAGTCTTTCCACC-AAA
1 AATTTAGTATTTCCACCTAAA
* *
109606033 AATTTATTATTTTCACCTAAA
1 AATTTAGTATTTCCACCTAAA
109606054 AATT
1 AATT
109606058 GAAAGAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (21 bp):
AATTTAGTATTTCCACCTAAA
Found at i:109607784 original size:46 final size:46
Alignment explanation
Indices: 109607732--109607959 Score: 305
Period size: 46 Copynumber: 5.0 Consensus size: 46
109607722 AGTGTGCTCT
*
109607732 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
109607778 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
109607824 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
109607870 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
109607916 ATGACA-GAAAATGAGTAAGACCATAGTTAAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
109607960 TCATGTCAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 168 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:109609041 original size:19 final size:19
Alignment explanation
Indices: 109609003--109609042 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
109608993 ATCATGAATA
* * *
109609003 AAGAAAACAATTGAATCGC
1 AAGAAAAAAATTAAAACGC
109609022 AAGAAAAAAATTAAAACGC
1 AAGAAAAAAATTAAAACGC
109609041 AA
1 AA
109609043 AAACTTTTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.12
Consensus pattern (19 bp):
AAGAAAAAAATTAAAACGC
Found at i:109611979 original size:14 final size:14
Alignment explanation
Indices: 109611946--109611972 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
109611936 CAACAAAAAT
109611946 AAAAAAATTCAAAG
1 AAAAAAATTCAAAG
109611960 AAAAAAATTCAAA
1 AAAAAAATTCAAA
109611973 TTCAAAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAAAAATTCAAAG
Found at i:109612063 original size:19 final size:18
Alignment explanation
Indices: 109612032--109612089 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
109612022 AAAAATCAAA
109612032 ATTAAAATATATAAAAAAT
1 ATTAAAAT-TATAAAAAAT
*
109612051 ATTATTAATTATAAAAAATT
1 ATTA-AAATTATAAAAAA-T
*
109612071 ATTAAAATTATATAAAAT
1 ATTAAAATTATAAAAAAT
109612089 A
1 A
109612090 AAAAATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 2 0.06
19 24 0.71
20 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAAAATTATAAAAAAT
Found at i:109613097 original size:37 final size:37
Alignment explanation
Indices: 109613047--109613122 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
109613037 AAAAAGAAAA
*
109613047 CCCATATACCAACTCTTGGCTTGACCCTATTAAAGTT
1 CCCATATACCAACTCTTGGCTTGACACTATTAAAGTT
* *
109613084 CCCATATACCAACTCTTGTCTTGACATTATTAAAGTT
1 CCCATATACCAACTCTTGGCTTGACACTATTAAAGTT
109613121 CC
1 CC
109613123 AAAGTCTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (37 bp):
CCCATATACCAACTCTTGGCTTGACACTATTAAAGTT
Found at i:109613467 original size:20 final size:20
Alignment explanation
Indices: 109613446--109613498 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
109613436 TATTCCGAAG
109613446 AAGTACCAAAAAATTATGAGA
1 AAGTA-CAAAAAATTATGAGA
* *
109613467 AAGTA-TAAAAATTATGAGC
1 AAGTACAAAAAATTATGAGA
*
109613486 ATGTATCAAAAAA
1 AAGTA-CAAAAAA
109613499 CATGAGAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 16 0.62
21 10 0.38
ACGTcount: A:0.57, C:0.08, G:0.13, T:0.23
Consensus pattern (20 bp):
AAGTACAAAAAATTATGAGA
Found at i:109613491 original size:19 final size:20
Alignment explanation
Indices: 109613454--109613497 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
109613444 AGAAGTACCA
109613454 AAAAATTATGAGAAAGTAT-
1 AAAAATTATGAGAAAGTATC
* *
109613473 AAAAATTATGAGCATGTATC
1 AAAAATTATGAGAAAGTATC
109613493 AAAAA
1 AAAAA
109613498 ACATGAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.25
Consensus pattern (20 bp):
AAAAATTATGAGAAAGTATC
Found at i:109616070 original size:17 final size:17
Alignment explanation
Indices: 109616050--109616083 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
109616040 AGGTTTAGGT
109616050 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
109616067 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
109616084 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:109620167 original size:15 final size:15
Alignment explanation
Indices: 109620132--109620183 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
109620122 TTAAAAATTT
*
109620132 TATTAAATTAT-ATA
1 TATTTAATTATAATA
109620146 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
109620160 TATTTAATAATAAT-
1 TATTTAATTATAATA
109620174 TATGTTAATT
1 TAT-TTAATT
109620184 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:109620279 original size:18 final size:17
Alignment explanation
Indices: 109620248--109620282 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
109620238 ATTATTAAGA
109620248 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
109620265 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
109620283 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:109620290 original size:120 final size:120
Alignment explanation
Indices: 109620077--109620419 Score: 632
Period size: 120 Copynumber: 2.9 Consensus size: 120
109620067 AGCAATAACA
*
109620077 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
*
109620142 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
109620197 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
109620262 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
*
109620317 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
*
109620382 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTT
109620420 TAAATATGAT
Statistics
Matches: 216, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 216 1.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
Found at i:109620385 original size:61 final size:60
Alignment explanation
Indices: 109620080--109620387 Score: 242
Period size: 61 Copynumber: 5.1 Consensus size: 60
109620070 AATAACAATC
109620080 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATT-AAAATTTTATTAAATT
* * * * * * * * *
109620141 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTATATTTTA-TAGTATC
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAAATTTTATTA-AATT
109620200 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA-AATTTTATTAAATT
* * * * * * * * * * *
109620261 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-ATATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAAATTTTATTA-AATT
*
109620320 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA-AATTTTATTAAATT
109620381 ATATATT
1 ATATATT
109620388 TTAATTAAAA
Statistics
Matches: 184, Mismatches: 41, Indels: 44
0.68 0.15 0.16
Matches are distributed among these distances:
57 11 0.06
58 14 0.08
59 49 0.27
60 29 0.16
61 56 0.30
62 14 0.08
63 11 0.06
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (60 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAATTTTATTAAATT
Found at i:109620396 original size:18 final size:17
Alignment explanation
Indices: 109620368--109620402 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
109620358 ATTATTAAGA
*
109620368 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
109620385 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
109620403 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:109620516 original size:147 final size:149
Alignment explanation
Indices: 109620356--109620630 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
109620346 ATAAGAATAT
*
109620356 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
109620421 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
109620484 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
109620503 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
109620568 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
109620631 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:109620543 original size:18 final size:17
Alignment explanation
Indices: 109620515--109620549 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
109620505 ATTATTAAGA
*
109620515 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
109620532 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
109620550 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:109620752 original size:39 final size:40
Alignment explanation
Indices: 109620698--109620802 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
109620688 TTCCATTATG
*
109620698 CTATTACACCTCTATTACATTCAACCAAATA-CAGTTTTA
1 CTATTACACCTCTATTACATTCAACCAAATAGCAGATTTA
* **
109620737 CTATTACGCCTCTATTCCATTACATTCAACCAAATAGTTGATTTA
1 CTATTACACCTC---T--ATTACATTCAACCAAATAGCAGATTTA
*
109620782 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTACATT
109620803 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 11 0.20
40 7 0.13
42 2 0.04
44 18 0.33
45 16 0.30
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (40 bp):
CTATTACACCTCTATTACATTCAACCAAATAGCAGATTTA
Found at i:109620760 original size:44 final size:45
Alignment explanation
Indices: 109620711--109620805 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
109620701 TTACACCTCT
* *
109620711 ATTACATTCAACCAAATA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAATAGCAGATTTACTATTACACCTCTATTCC
**
109620755 ATTACATTCAACCAAATAGTTGATTTACTATTACACCTCTATTCC
1 ATTACATTCAACCAAATAGCAGATTTACTATTACACCTCTATTCC
109620800 ATTACA
1 ATTACA
109620806 CCTCTAATCC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 18 0.39
45 28 0.61
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (45 bp):
ATTACATTCAACCAAATAGCAGATTTACTATTACACCTCTATTCC
Found at i:109620805 original size:16 final size:16
Alignment explanation
Indices: 109620786--109620837 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
109620776 GATTTACTAT
* *
109620786 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
109620802 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
109620818 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
109620834 TACA
1 TACA
109620838 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:109621745 original size:103 final size:103
Alignment explanation
Indices: 109621628--109621814 Score: 374
Period size: 103 Copynumber: 1.8 Consensus size: 103
109621618 AACTTTTGAG
109621628 TTTGTGTGACATGAGATAGATTTTCGATTTGATTCGAGTGGTAAAAGAAGCTATCTTTACCCTTT
1 TTTGTGTGACATGAGATAGATTTTCGATTTGATTCGAGTGGTAAAAGAAGCTATCTTTACCCTTT
109621693 GAAGTGGCTGAAGATTTGGTTTTTGTCAATTGTCTTTT
66 GAAGTGGCTGAAGATTTGGTTTTTGTCAATTGTCTTTT
109621731 TTTGTGTGACATGAGATAGATTTTCGATTTGATTCGAGTGGTAAAAGAAGCTATCTTTACCCTTT
1 TTTGTGTGACATGAGATAGATTTTCGATTTGATTCGAGTGGTAAAAGAAGCTATCTTTACCCTTT
109621796 GAAGTGGCTGAAGATTTGG
66 GAAGTGGCTGAAGATTTGG
109621815 CTGACATAAC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 84 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.40
Consensus pattern (103 bp):
TTTGTGTGACATGAGATAGATTTTCGATTTGATTCGAGTGGTAAAAGAAGCTATCTTTACCCTTT
GAAGTGGCTGAAGATTTGGTTTTTGTCAATTGTCTTTT
Found at i:109627137 original size:33 final size:33
Alignment explanation
Indices: 109627095--109627162 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
109627085 AGGCTATGGA
109627095 CGGAAACAAAGACATTGCAACGGATCAAGTATC
1 CGGAAACAAAGACATTGCAACGGATCAAGTATC
* * * * *
109627128 CGGAAACAAAGATATTTCTATGGATCAAGTCTC
1 CGGAAACAAAGACATTGCAACGGATCAAGTATC
109627161 CG
1 CG
109627163 AAAAAGAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (33 bp):
CGGAAACAAAGACATTGCAACGGATCAAGTATC
Found at i:109628219 original size:20 final size:20
Alignment explanation
Indices: 109628194--109628236 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
109628184 AAACAGGGAG
109628194 AAGGAAAGAAAGAAAAGAGA
1 AAGGAAAGAAAGAAAAGAGA
* * *
109628214 AAGGAAAGGAAGGAAGGAGA
1 AAGGAAAGAAAGAAAAGAGA
109628234 AAG
1 AAG
109628237 CCACGACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (20 bp):
AAGGAAAGAAAGAAAAGAGA
Found at i:109633383 original size:12 final size:12
Alignment explanation
Indices: 109633366--109633391 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
109633356 ATAAGTTTAG
109633366 TATATATATTCT
1 TATATATATTCT
109633378 TATATATATTCT
1 TATATATATTCT
109633390 TA
1 TA
109633392 ATGTTTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
TATATATATTCT
Found at i:109633474 original size:15 final size:16
Alignment explanation
Indices: 109633454--109633483 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
109633444 AACAAAAAGA
109633454 AATAGAAA-GAAACAC
1 AATAGAAACGAAACAC
109633469 AATAGAAACGAAACA
1 AATAGAAACGAAACA
109633484 GGGAGAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.13, G:0.13, T:0.07
Consensus pattern (16 bp):
AATAGAAACGAAACAC
Found at i:109633530 original size:19 final size:19
Alignment explanation
Indices: 109633485--109633530 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
109633475 AACGAAACAG
109633485 GGAGAAAGAAAGAAAGAAA
1 GGAGAAAGAAAGAAAGAAA
* * *
109633504 AGAAAAAGAAAGAAAGGAA
1 GGAGAAAGAAAGAAAGAAA
109633523 GGAGAAAG
1 GGAGAAAG
109633531 CCACGGCCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
GGAGAAAGAAAGAAAGAAA
Found at i:109638758 original size:12 final size:12
Alignment explanation
Indices: 109638741--109638766 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
109638731 AAGTTTAGTA
109638741 TATATATATTCT
1 TATATATATTCT
109638753 TATATATATTCT
1 TATATATATTCT
109638765 TA
1 TA
109638767 ATGTTTTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
TATATATATTCT
Found at i:109638849 original size:15 final size:16
Alignment explanation
Indices: 109638829--109638858 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
109638819 AACAAAAAGA
109638829 AATAGAAA-GAAACAC
1 AATAGAAACGAAACAC
109638844 AATAGAAACGAAACA
1 AATAGAAACGAAACA
109638859 GGGAGAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.13, G:0.13, T:0.07
Consensus pattern (16 bp):
AATAGAAACGAAACAC
Found at i:109638856 original size:20 final size:19
Alignment explanation
Indices: 109638806--109638856 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
109638796 ATTATATAAT
109638806 AATA-AAAC-AAAGAAACA
1 AATAGAAACGAAAGAAACA
* *
109638823 AAAAGAAATAGAAAGAAACA
1 AATAGAAA-CGAAAGAAACA
109638843 CAATAGAAACGAAA
1 -AATAGAAACGAAA
109638857 CAGGGAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 3 0.12
18 3 0.12
20 13 0.50
21 7 0.27
ACGTcount: A:0.73, C:0.10, G:0.12, T:0.06
Consensus pattern (19 bp):
AATAGAAACGAAAGAAACA
Found at i:109638871 original size:4 final size:4
Alignment explanation
Indices: 109638862--109638895 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
109638852 CGAAACAGGG
109638862 AGAA AGAA AGAA AGAAA AGAA A-AA AGAA AGAA AG
1 AGAA AGAA AGAA AG-AA AGAA AGAA AGAA AGAA AG
109638896 GAAGGAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.11
4 21 0.75
5 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:109643148 original size:3 final size:3
Alignment explanation
Indices: 109643135--109643188 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
109643125 AAGAGGTATT
* * * * *
109643135 ATA AT- ATA ATA ATA ATA ATG ATG ATA ATA GTG ATA TTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
109643182 ATA ATA A
1 ATA ATA A
109643189 AAGTAAAATG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:109643336 original size:17 final size:19
Alignment explanation
Indices: 109643306--109643354 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 19
109643296 AATAAATAAG
109643306 TAAATAAGTGATAAAAGTATA
1 TAAATAA-T-ATAAAAGTATA
109643327 -AAATAA-AT--AAGTATA
1 TAAATAATATAAAAGTATA
109643342 TAAATAATATAAA
1 TAAATAATATAAA
109643355 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 4 0.17
19 1 0.04
20 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (19 bp):
TAAATAATATAAAAGTATA
Found at i:109643370 original size:43 final size:45
Alignment explanation
Indices: 109643316--109643421 Score: 137
Period size: 43 Copynumber: 2.4 Consensus size: 45
109643306 TAAATAAGTG
109643316 ATAAAAGTATAAAATAAATAAGTATA-TAAATAATATA-A-ATAAA
1 ATAAAAGTATAAAATAAATAAGTA-AGTAAATAATATATATATAAA
* * * * *
109643359 ATAAAATTATAAAATATATAAGTAAGTGAATAATATATATTTGAA
1 ATAAAAGTATAAAATAAATAAGTAAGTAAATAATATATATATAAA
109643404 ATAAAAGTATAAAATAAA
1 ATAAAAGTATAAAATAAA
109643422 CGAAGTAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 32 0.60
44 1 0.02
45 19 0.36
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (45 bp):
ATAAAAGTATAAAATAAATAAGTAAGTAAATAATATATATATAAA
Found at i:109645251 original size:41 final size:41
Alignment explanation
Indices: 109645190--109645271 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
109645180 TTGAAACGTC
*
109645190 GGTCCTATTATAGCATTATGATTTTTAATCTATCTGATGGT
1 GGTCCTATTATAGCACTATGATTTTTAATCTATCTGATGGT
109645231 GGTCCTATTATAGCACTATGATTTTTAATCTATCTGATGGT
1 GGTCCTATTATAGCACTATGATTTTTAATCTATCTGATGGT
109645272 TGTGGCTCCG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.45
Consensus pattern (41 bp):
GGTCCTATTATAGCACTATGATTTTTAATCTATCTGATGGT
Found at i:109646842 original size:16 final size:15
Alignment explanation
Indices: 109646813--109646853 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
109646803 AATAAAACAA
109646813 AGAAACGAAAAGAAAT
1 AGAAACGAAAAG-AAT
109646829 AGAAA-GAAATAGAAT
1 AGAAACGAAA-AGAAT
109646844 AGAAACGAAA
1 AGAAACGAAA
109646854 CAGGGAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.68, C:0.05, G:0.20, T:0.07
Consensus pattern (15 bp):
AGAAACGAAAAGAAT
Found at i:109646903 original size:20 final size:20
Alignment explanation
Indices: 109646858--109646903 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
109646848 ACGAAACAGG
109646858 GAGAAA-GAAAGAAAGAAAA
1 GAGAAAGGAAAGAAAGAAAA
* *
109646877 GAAAAAGGAAAGAAAGGAAA
1 GAGAAAGGAAAGAAAGAAAA
*
109646897 GGGAAAG
1 GAGAAAG
109646904 CCATGGTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
GAGAAAGGAAAGAAAGAAAA
Found at i:109648085 original size:24 final size:24
Alignment explanation
Indices: 109648039--109648085 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
109648029 AAATATACAA
*
109648039 ATGAAATGCATGAATTATGTGTTC
1 ATGAAATGCATAAATTATGTGTTC
*
109648063 ATGAAATGGATAATATTAT-TGTT
1 ATGAAATGCATAA-ATTATGTGTT
109648086 AATTGAGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.40
Consensus pattern (24 bp):
ATGAAATGCATAAATTATGTGTTC
Found at i:109649719 original size:33 final size:32
Alignment explanation
Indices: 109649665--109649753 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 32
109649655 GTTTTTTAGG
* *
109649665 TTTAGGGTTAGGGTTATGGTTTTGTCAAAATAA
1 TTTA-GGTTAAGGTTAGGGTTTTGTCAAAATAA
*
109649698 TCTT-GAGTTAAGGTTAGGGTTTTGTTAAAATAA
1 T-TTAG-GTTAAGGTTAGGGTTTTGTCAAAATAA
109649731 TTTAGGTGTAAGGTGTAGGGTTT
1 TTTAGGT-TAAGGT-TAGGGTTT
109649754 AAGAATTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
32 5 0.10
33 33 0.69
34 10 0.21
ACGTcount: A:0.26, C:0.02, G:0.29, T:0.43
Consensus pattern (32 bp):
TTTAGGTTAAGGTTAGGGTTTTGTCAAAATAA
Found at i:109652984 original size:15 final size:15
Alignment explanation
Indices: 109652963--109653000 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
109652953 TTTTTATAAT
*
109652963 TTAAAATTTTC-ATA
1 TTAAAATTTACAATA
109652977 TTACAAATTTACAATA
1 TTA-AAATTTACAATA
109652993 TTAAAATT
1 TTAAAATT
109653001 AAATAATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 12 0.57
16 6 0.29
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAATTTACAATA
Found at i:109660368 original size:20 final size:19
Alignment explanation
Indices: 109660343--109660402 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
109660333 AAAATCAAAG
*
109660343 TAATTTTCAAATTTTGAAAA
1 TAATTTTCAAAATTT-AAAA
*
109660363 TAATTTTTAAAATTTAAAA
1 TAATTTTCAAAATTTAAAA
*
109660382 T-ATTTATAAAAATTATAAAA
1 TAATTT-TCAAAATT-TAAAA
109660402 T
1 T
109660403 TTTTATTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.11
19 12 0.34
20 19 0.54
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TAATTTTCAAAATTTAAAA
Found at i:109660407 original size:20 final size:19
Alignment explanation
Indices: 109660371--109660476 Score: 70
Period size: 20 Copynumber: 5.2 Consensus size: 19
109660361 AATAATTTTT
109660371 AAAATTTAAAATATTTATA
1 AAAATTTAAAATATTTATA
*
109660390 AAAATTATAAAATTTTTATTTCA
1 AAAATT-TAAAATATTTA--T-A
* *
109660413 AAAATGATTATAAATTTTTAAA
1 AAAAT--TTA-AAATATTTATA
* * *
109660435 AAAATCTAAAAAATATATCA
1 AAAATTTAAAATATTTAT-A
109660455 AAAATTTAAAA-ATTTAATA
1 AAAATTTAAAATATTT-ATA
109660474 AAA
1 AAA
109660477 TAAATAATTT
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
19 19 0.28
20 25 0.36
22 7 0.10
23 6 0.09
24 2 0.03
25 10 0.14
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (19 bp):
AAAATTTAAAATATTTATA
Found at i:109662496 original size:18 final size:18
Alignment explanation
Indices: 109662472--109662522 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
109662462 AATTACAAAA
* *
109662472 AAAAATTAAAATAATTTTT
1 AAAATTTAAAAT-ATTTAT
109662491 AAAATTTAAAATATTTAT
1 AAAATTTAAAATATTTAT
109662509 AAAAGTTATAAAAT
1 AAAA-TT-TAAAAT
109662523 TCTAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.32
19 13 0.46
20 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATTTAAAATATTTAT
Found at i:109668829 original size:9 final size:9
Alignment explanation
Indices: 109668817--109668841 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
109668807 TACACGTGTT
109668817 TATATTATA
1 TATATTATA
109668826 TATATTATA
1 TATATTATA
109668835 TATATTA
1 TATATTA
109668842 AGTAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATATTATA
Found at i:109669227 original size:15 final size:18
Alignment explanation
Indices: 109669209--109669255 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
109669199 GTTCTATAAA
109669209 TTTTT-CTTCTTT-TT-C
1 TTTTTACTTCTTTCTTCC
*
109669224 TTTTTCCTTTCTTTCTTCC
1 TTTTTAC-TTCTTTCTTCC
109669243 TTTTTACTTCTTT
1 TTTTTACTTCTTT
109669256 GATTTCTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.19
16 1 0.04
17 6 0.22
18 8 0.30
19 7 0.26
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTACTTCTTTCTTCC
Found at i:109670660 original size:15 final size:15
Alignment explanation
Indices: 109670636--109670665 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
109670626 ATCTGTCTTG
*
109670636 GATCTGAACTAGAAA
1 GATCTAAACTAGAAA
109670651 GATCTAAACTAGAAA
1 GATCTAAACTAGAAA
109670666 TGTTTCTGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (15 bp):
GATCTAAACTAGAAA
Found at i:109672383 original size:49 final size:49
Alignment explanation
Indices: 109672306--109672500 Score: 239
Period size: 49 Copynumber: 3.9 Consensus size: 49
109672296 ACTATTGTGA
*
109672306 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
109672355 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA-TTCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGT-GTACCAGATAA-T-T
* * * * *
109672406 GATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
109672455 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
109672501 GCTTCGGCTA
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 80 0.66
50 2 0.02
51 37 0.31
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:109672486 original size:100 final size:100
Alignment explanation
Indices: 109672308--109672495 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
109672298 TATTGTGAGG
**
109672308 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
*
109672373 AAGTGCAGGCTACTATTCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
* * *
109672408 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATTATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
109672473 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
109672496 AGATAGCTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:109676078 original size:45 final size:46
Alignment explanation
Indices: 109676018--109676129 Score: 131
Period size: 45 Copynumber: 2.4 Consensus size: 46
109676008 AAGCTCCTCC
* * *
109676018 TGAGCTGATAACAGTAAGCTC-TATTGAGCTGAAACGATAAG-TTCTA
1 TGAGCTGA-AACAGTAAGCTCATA-CGAGCTGAAACGATAAGCTCCAA
*
109676064 TCGAGCTG-AACAGTAAGCTCATACGAGCTGAAACGGTAAGCTCCAA
1 T-GAGCTGAAACAGTAAGCTCATACGAGCTGAAACGATAAGCTCCAA
109676110 TGAGCTGAAAACAGTAAGCT
1 TGAGCTG-AAACAGTAAGCT
109676130 TTTATGAGCT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
45 33 0.58
46 7 0.12
47 17 0.30
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (46 bp):
TGAGCTGAAACAGTAAGCTCATACGAGCTGAAACGATAAGCTCCAA
Found at i:109676161 original size:26 final size:24
Alignment explanation
Indices: 109676004--109676166 Score: 113
Period size: 23 Copynumber: 6.8 Consensus size: 24
109675994 GAGCCATGAT
* *
109676004 CGGTAAGCTCCTCCTGAGCTGATAA
1 CGGTAAGCTCCT-ATGAGCTGAAAA
*
109676029 CAGTAAGCT-CTATTGAGCTG-AAA
1 CGGTAAGCTCCTA-TGAGCTGAAAA
* *
109676052 CGATAAG-TTCTATCGAGCTG--AA
1 CGGTAAGCTCCTAT-GAGCTGAAAA
* * *
109676074 CAGTAAGCTCATACGAGCTG-AAA
1 CGGTAAGCTCCTATGAGCTGAAAA
*
109676097 CGGTAAGCTCCAATGAGCTGAAAA
1 CGGTAAGCTCCTATGAGCTGAAAA
* ** *
109676121 CAGTAAGCTTTTATGAGCTGATATAT
1 CGGTAAGCTCCTATGAGCTGA-A-AA
*
109676147 TGGTAAGCTCCTATGAGCTG
1 CGGTAAGCTCCTATGAGCTG
109676167 TGGTGGGTTT
Statistics
Matches: 107, Mismatches: 23, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
22 15 0.14
23 37 0.35
24 29 0.27
25 9 0.08
26 17 0.16
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (24 bp):
CGGTAAGCTCCTATGAGCTGAAAA
Found at i:109687364 original size:15 final size:14
Alignment explanation
Indices: 109687344--109687373 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
109687334 GATATGTGGA
109687344 ATAGTAAAGAAGCAT
1 ATAGTAAAGAA-CAT
109687359 ATAGTAAAGAACAT
1 ATAGTAAAGAACAT
109687373 A
1 A
109687374 AAAAAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (14 bp):
ATAGTAAAGAACAT
Found at i:109687514 original size:23 final size:20
Alignment explanation
Indices: 109687484--109687539 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
109687474 ACATACATAT
*
109687484 AAATATATATATAATGGTGTTAG
1 AAATATATATATAA---TATTAG
109687507 AAATATATATAGTAATATTAG
1 AAATATATATA-TAATATTAG
109687528 AAATATATATAT
1 AAATATATATAT
109687540 CTAACAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 1 0.03
21 16 0.52
23 11 0.35
24 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (20 bp):
AAATATATATATAATATTAG
Found at i:109687537 original size:25 final size:24
Alignment explanation
Indices: 109687509--109687560 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
109687499 GGTGTTAGAA
**
109687509 ATATATATAGTAATATTAGAAATAT
1 ATATATATAACAATATTA-AAATAT
*
109687534 ATATATCTAACAATATTAAAATAT
1 ATATATATAACAATATTAAAATAT
109687558 ATA
1 ATA
109687561 CATAACAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATATATAACAATATTAAAATAT
Found at i:109688429 original size:16 final size:16
Alignment explanation
Indices: 109688408--109688452 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
109688398 AAGATTTTTC
*
109688408 TTTTTTATTTATTTAT
1 TTTTTTATTTATATAT
109688424 TTTTTTATATTATATAT
1 TTTTTTAT-TTATATAT
109688441 TTTTTATATTTA
1 TTTTT-TATTTA
109688453 CAATATTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.31
17 15 0.58
18 3 0.12
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTATATAT
Found at i:109689762 original size:14 final size:14
Alignment explanation
Indices: 109689740--109689787 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
109689730 GAGTTGATTT
*
109689740 TTGACAAACAGAAA
1 TTGAAAAACAGAAA
*
109689754 TTGAAAAACAG-AT
1 TTGAAAAACAGAAA
109689767 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
109689781 CTGAAAA
1 TTGAAAA
109689788 TTTCTCAGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:109689772 original size:13 final size:13
Alignment explanation
Indices: 109689739--109689778 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
109689729 TGAGTTGATT
*
109689739 TTTGACAAACAGAA
1 TTTGAAAAACAG-A
*
109689753 ATTGAAAAACAGA
1 TTTGAAAAACAGA
109689766 TTTGAAAAACAGA
1 TTTGAAAAACAGA
109689779 AACTGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.55, C:0.10, G:0.15, T:0.20
Consensus pattern (13 bp):
TTTGAAAAACAGA
Found at i:109689915 original size:87 final size:83
Alignment explanation
Indices: 109689767--109690268 Score: 572
Period size: 86 Copynumber: 6.0 Consensus size: 83
109689757 AAAAACAGAT
* **
109689767 TTGAAAAACAGAAACTGAAAATTTCTCAGCATGTGTGCC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTGT-CCTGAGGCTCAACTCACCTCTCGCAATA
109689831 TGAGTTGATTTTTGAAAAATGTAAA
63 TGAGTTGATTTTTG-AAAA---AAA
*
109689856 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
109689921 GTTGATTTTTGAAAAACA
66 GTTGATTTTTGAAAAAAA
* *
109689939 TTGAAAATAACAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTG-AAA-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
**
109690004 GAGTTGATTTTT------TT
64 GAGTTGATTTTTGAAAAAAA
* * * * * * *
109690018 TTGAAAAATATAAATTCAAAATACCTCAACATGTCATGAGGCTCAACTCACCTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
109690083 GTTGATTTTT-AAAAACAGA
66 GTTGATTTTTGAAAAA-A-A
* * * * *
109690102 TT-AATCAACAGAATTTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCCCGTAATATG
1 TTGAA-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
109690166 AGTTGATTTTTGAAAACTGAA
65 AGTTGATTTTTGAAAA--AAA
* * * *
109690187 TTAAAACAACAGGAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAA-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
109690252 AGTTGATTTTTGAAAAA
65 AGTTGATTTTTGAAAAA
109690269 CAGAAATTAA
Statistics
Matches: 354, Mismatches: 43, Indels: 37
0.82 0.10 0.09
Matches are distributed among these distances:
77 60 0.17
78 3 0.01
79 3 0.01
83 7 0.02
84 63 0.18
85 73 0.21
86 76 0.21
87 43 0.12
89 26 0.07
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (83 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAAAA
Found at i:109689997 original size:85 final size:84
Alignment explanation
Indices: 109689770--109690270 Score: 544
Period size: 85 Copynumber: 6.0 Consensus size: 84
109689760 AACAGATTTG
* ** *
109689770 AAAAACAGAAACTGAAAATTTCTCAGCATGTGTGCC-GAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
109689834 GTTGATTTTTGAAAAATGTAAATTG-
63 GTTGATTTTTG-AAAA---ACATTGA
* *
109689859 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
109689924 GATTTTTGAAAAACATTGA
66 GATTTTTGAAAAACATTGA
*
109689943 AAATAACAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAA-AACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
**
109690008 TGATTTTT------TTTTG-
65 TGATTTTTGAAAAACATTGA
* * * * * * * *
109690021 AAAAATATAAATTCAAAATACCTCAACATGTCATGAGGCTCAACTCACCTCTCACAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
109690086 GATTTTT-AAAAACAGATT-A
66 GATTTTTGAAAAAC--ATTGA
** * * *
109690105 ATCAACAGAATTTGAAAATACCTCAGCGTGTCCC-GAGGCTCAACTCACCTCCCGTAATATGAGT
1 AAAAACAGAAATTGAAAATACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
109690169 TGATTTTTG-AAAACTGAATT-A
65 TGATTTTTGAAAAAC---ATTGA
* *
109690190 AAACAACAGGAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAA-AACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
109690255 TGATTTTTGAAAAACA
65 TGATTTTTGAAAAACA
109690271 GAAATTAAAA
Statistics
Matches: 351, Mismatches: 44, Indels: 39
0.81 0.10 0.09
Matches are distributed among these distances:
77 60 0.17
78 3 0.01
79 3 0.01
83 5 0.01
84 68 0.19
85 75 0.21
86 67 0.19
87 47 0.13
89 23 0.07
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (84 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACATTGA
Found at i:109690289 original size:54 final size:55
Alignment explanation
Indices: 109690226--109690335 Score: 195
Period size: 54 Copynumber: 2.0 Consensus size: 55
109690216 GCATGCCCTG
109690226 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
* *
109690280 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
109690335 A
1 A
109690336 CAGAATTTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 49 0.92
55 4 0.08
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (55 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
Found at i:109690440 original size:14 final size:14
Alignment explanation
Indices: 109690409--109690440 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
109690399 ATTTTTTTTT
109690409 AAAAAAGAATTTGA
1 AAAAAAGAATTTGA
109690423 AAAAACAGAATTTGA
1 AAAAA-AGAATTTGA
109690438 AAA
1 AAA
109690441 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.66, C:0.03, G:0.12, T:0.19
Consensus pattern (14 bp):
AAAAAAGAATTTGA
Found at i:109690470 original size:90 final size:90
Alignment explanation
Indices: 109690280--109690508 Score: 294
Period size: 90 Copynumber: 2.6 Consensus size: 90
109690270 AGAAATTAAA
* *
109690280 AGGCTCAACTCACCTTTCGCAATATGAGTTGA---TTTTTGAAAAACATAAATTGAAAACAGAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAACAGAAT
* * *
109690342 TTGGAAATTCCTCGTCATGTGACTCG
66 TTGAAAATACCTCGTCA-GTGACCCG
* *
109690368 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAA-AGAATTTGAAAAAACAGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTG--AAAACAGA
*
109690432 ATTTGAAAATACCTCAG-C-GTGCCCCG
64 ATTTGAAAATACCTC-GTCAGTGACCCG
109690458 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG-AAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAAT
109690509 AAAAACATCA
Statistics
Matches: 124, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
88 35 0.28
89 12 0.10
90 44 0.35
91 10 0.08
92 22 0.18
93 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (90 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAACAGAAT
TTGAAAATACCTCGTCAGTGACCCG
Found at i:109690475 original size:232 final size:223
Alignment explanation
Indices: 109690056--109690513 Score: 602
Period size: 232 Copynumber: 2.0 Consensus size: 223
109690046 ACATGTCATG
*
109690056 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTAAAAACAGATTAATCAACAGAATTTGAA
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTAAAAACAAATTAA-CAACAGAATTTGAA
* * **
109690121 AATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCCCGTAATATGAGTTGATTTTTGAAAACTGA
65 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAAAAAGA
*
109690186 ATTAAAACAACAGGAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATAT
130 ATTAAAACAACAGGAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATAT
*
109690251 GAGTTGA-TTTTTGAAAAACAGAAATTAAA
195 GAGTTGATTTTTTG-AAAACAGAAATAAAA
* *
109690280 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAA-AACAGAATTT
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT-AAAAAC--AAATT-AACAACAGAATTT
* * * *
109690344 GGAAATTCCTC-GTCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
62 GAAAATACCTCAG-C--GTGACCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGA---TTTTT
* *
109690408 TAAAAAAGAATTTGAAAA-AACA-GAATTTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCAC
121 GAAAAAAGAA-TT-AAAACAACAGGAA-TTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCAC
109690471 CTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATAAAA
183 CTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATAAAA
109690513 A
1 A
109690514 CATCAAAATA
Statistics
Matches: 204, Mismatches: 15, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
224 35 0.17
225 7 0.03
226 20 0.10
227 4 0.02
228 38 0.19
231 15 0.07
232 60 0.29
233 19 0.09
234 6 0.03
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (223 bp):
AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTAAAAACAAATTAACAACAGAATTTGAAA
ATACCTCAGCGTGACCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAAAAAGAA
TTAAAACAACAGGAATTGAAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTGAAAACAGAAATAAAA
Found at i:109703132 original size:21 final size:21
Alignment explanation
Indices: 109703107--109703157 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
109703097 TACATATAAT
** *
109703107 ATATATATAATGGTGTTAGAA
1 ATATATATAATAATATTAGAA
*
109703128 ATATATATAGTAATATTAGAA
1 ATATATATAATAATATTAGAA
109703149 ATATATATA
1 ATATATATA
109703158 TCTAACAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (21 bp):
ATATATATAATAATATTAGAA
Found at i:109703156 original size:25 final size:24
Alignment explanation
Indices: 109703128--109703177 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
109703118 GGTGTTAGAA
**
109703128 ATATATATAGTAATATTAGAAATAT
1 ATATATATAACAATATTA-AAATAT
*
109703153 ATATATCTAACAATATTAAAATAT
1 ATATATATAACAATATTAAAATAT
109703177 A
1 A
109703178 AACATAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATATATAACAATATTAAAATAT
Found at i:109704046 original size:18 final size:19
Alignment explanation
Indices: 109704018--109704066 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
109704008 GAGAGGTAAG
109704018 ATTTTTCTTTATTATTAT-T
1 ATTTTT-TTTATTATTATAT
109704037 ATTTTTTTTA-TATTATAT
1 ATTTTTTTTATTATTATAT
*
109704055 ATTTTTTATATT
1 ATTTTTTTTATT
109704067 TGCAATATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 6 0.22
18 14 0.52
19 7 0.26
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
ATTTTTTTTATTATTATAT
Found at i:109704061 original size:16 final size:17
Alignment explanation
Indices: 109704025--109704066 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
109704015 AAGATTTTTC
*
109704025 TTTATTATTATTATTTTT
1 TTTA-TATTATTATATTT
109704043 TTTATATTA-TATATTT
1 TTTATATTATTATATTT
109704059 TTTATATT
1 TTTATATT
109704067 TGCAATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.61
17 5 0.22
18 4 0.17
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATATTATTATATTT
Found at i:109706897 original size:19 final size:19
Alignment explanation
Indices: 109706860--109706897 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
109706850 ACCTATCAGA
*
109706860 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
109706879 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
109706898 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:109714973 original size:18 final size:20
Alignment explanation
Indices: 109714936--109714975 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
109714926 AAGAATAAGC
*
109714936 AAAATATAATGTGAAAATTG
1 AAAATATAACGTGAAAATTG
109714956 AAAAT-TAACGTG-AAATTG
1 AAAATATAACGTGAAAATTG
109714974 AA
1 AA
109714976 TTGTGTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 6 0.32
20 5 0.26
ACGTcount: A:0.55, C:0.03, G:0.15, T:0.28
Consensus pattern (20 bp):
AAAATATAACGTGAAAATTG
Found at i:109715654 original size:18 final size:19
Alignment explanation
Indices: 109715631--109715668 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
109715621 GAAATGGAAA
109715631 AGATGAGAAATG-AATATG
1 AGATGAGAAATGAAATATG
109715649 AGATGAGAAATGAAATATG
1 AGATGAGAAATGAAATATG
109715668 A
1 A
109715669 AATAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:109718313 original size:15 final size:15
Alignment explanation
Indices: 109718293--109718321 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
109718283 TCCTTAGATA
109718293 TTTATTAATTAATTT
1 TTTATTAATTAATTT
109718308 TTTATTAATTAATT
1 TTTATTAATTAATT
109718322 AAGATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATTAATTAATTT
Found at i:109718912 original size:27 final size:27
Alignment explanation
Indices: 109718882--109718937 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
109718872 ATATAATAGG
*
109718882 ATGTTATAAGATGTTTTTAATTTATAA
1 ATGTTATAAGATGTTTTTAATTGATAA
109718909 ATGTTATAAGATGTTTTTAATTGATAA
1 ATGTTATAAGATGTTTTTAATTGATAA
109718936 AT
1 AT
109718938 TGAGCTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (27 bp):
ATGTTATAAGATGTTTTTAATTGATAA
Found at i:109719501 original size:28 final size:29
Alignment explanation
Indices: 109719458--109719530 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
109719448 CAATACGACT
109719458 TCAGCTTGTGTGAGCAAAT-TCATAATTG
1 TCAGCTTGTGTGAGCAAATGTCATAATTG
** * * *
109719486 TTTGCTTGTGTGAGCAACTGTGATCATTG
1 TCAGCTTGTGTGAGCAAATGTCATAATTG
109719515 TCAGCTTGTGTGAGCA
1 TCAGCTTGTGTGAGCA
109719531 CTATAGTCCC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (29 bp):
TCAGCTTGTGTGAGCAAATGTCATAATTG
Found at i:109721136 original size:285 final size:286
Alignment explanation
Indices: 109720626--109721194 Score: 960
Period size: 285 Copynumber: 2.0 Consensus size: 286
109720616 AAAAGAGCTT
* *
109720626 CTATAAGCTCAATTGACTCTCGGATTGAATTGTGTATCATATTATGAATGTAGTTAAGGTATGAA
1 CTATAAGCTCAATTAACTCTCGGATTGAATTGTGTATCATATTATGAATGTAGTTAAAGTATGAA
*
109720691 CATATGTTTGAATGATGTATTTACAGTATATTTGACGACACTTACTCCAAAAATGGATGTGACAT
66 CATATGTTTGAATGATGTATTTACAGTATATTTGACGACACTTACTCCAAAAATGGATATGACAT
* * * * *
109720756 CCTATAGCTCGGACCCGACGATTGGGTTGGGTAAGGGGTATTACAACTTTGACATTATGTCCCCT
131 CCTATAGCTCGAACCCGACAATCGGGTTGGGTAAGGCGTATTACAACTTTGACATCATGTCCCCT
*
109720821 CAACGTTCAAATTCCCCCAAGATGTTGTATGACGAGTGCAGAGATCCAAAATTTTGGCAAGGGGT
196 CAACGTTCAAATTCCCCCAAGATGTTGTATGACGAGTGCAGAGATCCAAAATTTTGGCAAAGGGT
109720886 GTTGCTGATGAAG-GAGGTATAGAGC
261 GTTGCTGATGAAGTGAGGTATAGAGC
* * *
109720911 CTATAAGCTCAATTAAGTCTCGGATTTAATTGTGTATCATATTATGAATGTGGTTAAAGTATGAA
1 CTATAAGCTCAATTAACTCTCGGATTGAATTGTGTATCATATTATGAATGTAGTTAAAGTATGAA
* * ***
109720976 CATATGTTTGAATGATGTATTTACAGTATATTTGACGACAGTTACTTCAAAAATGGATATGGTGT
66 CATATGTTTGAATGATGTATTTACAGTATATTTGACGACACTTACTCCAAAAATGGATATGACAT
*
109721041 CCTATAGCTCGAACCCGACAATCGGGTTGGGTAAGGCGTATTACAACTTTGACATCATGTCCTCT
131 CCTATAGCTCGAACCCGACAATCGGGTTGGGTAAGGCGTATTACAACTTTGACATCATGTCCCCT
*
109721106 CAACGTTCAAATTCCCTCAAGATGTTGTATGACGAGTGCAGAGATCCAAAATTTTGGCAAAGGGT
196 CAACGTTCAAATTCCCCCAAGATGTTGTATGACGAGTGCAGAGATCCAAAATTTTGGCAAAGGGT
109721171 GTTGCTGATGAAGTGAGGTATAGA
261 GTTGCTGATGAAGTGAGGTATAGA
109721195 TTATTTTTGA
Statistics
Matches: 264, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
285 254 0.96
286 10 0.04
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (286 bp):
CTATAAGCTCAATTAACTCTCGGATTGAATTGTGTATCATATTATGAATGTAGTTAAAGTATGAA
CATATGTTTGAATGATGTATTTACAGTATATTTGACGACACTTACTCCAAAAATGGATATGACAT
CCTATAGCTCGAACCCGACAATCGGGTTGGGTAAGGCGTATTACAACTTTGACATCATGTCCCCT
CAACGTTCAAATTCCCCCAAGATGTTGTATGACGAGTGCAGAGATCCAAAATTTTGGCAAAGGGT
GTTGCTGATGAAGTGAGGTATAGAGC
Found at i:109724831 original size:5 final size:5
Alignment explanation
Indices: 109724821--109724858 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
109724811 TTCAAAAATT
*
109724821 AATAA AATAA AATAA AA-AG AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATA
109724859 GGATAGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 3 0.10
5 27 0.90
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:109724837 original size:19 final size:19
Alignment explanation
Indices: 109724815--109724857 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
109724805 AGAATCTTCA
*
109724815 AAAATTAATAAAATAAAAT
1 AAAATGAATAAAATAAAAT
*
109724834 AAAAAGAATAAAATAAAAT
1 AAAATGAATAAAATAAAAT
109724853 AAAAT
1 AAAAT
109724858 AGGATAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAATGAATAAAATAAAAT
Found at i:109737887 original size:16 final size:15
Alignment explanation
Indices: 109737862--109737897 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
109737852 TTTTCTTAAT
109737862 TTATTAATTATTATA
1 TTATTAATTATTATA
*
109737877 TTATATAATTATTATT
1 TTAT-TAATTATTATA
109737893 TTATT
1 TTATT
109737898 TAAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTAATTATTATA
Found at i:109738630 original size:41 final size:39
Alignment explanation
Indices: 109738582--109738681 Score: 105
Period size: 41 Copynumber: 2.6 Consensus size: 39
109738572 TCGACCTCGA
*
109738582 GTCGATGAGACACTGGGTGTCATACTATTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACACT-TTACTTCGGATAG
* ** * *
109738622 ATTCGATGAGGTACTGGGT-AC-CACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACACTTTACTTCGGATAG
*
109738660 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
109738682 AATTTTCTTC
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
37 14 0.30
38 13 0.28
39 3 0.07
40 1 0.02
41 15 0.33
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCACACTTTACTTCGGATAG
Found at i:109738675 original size:37 final size:41
Alignment explanation
Indices: 109738584--109738678 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 41
109738574 GACCTCGAGT
* * **
109738584 CGATGAGACACTGGGTGTCATACTATTACTTCGGATAGATT
1 CGATGAGACACTGGGTGACACACTATTACTTCGGATAGAGC
** *
109738625 CGATGAGGTACTGGGT-AC-CACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGACACACTATTACTTCGGATAGAGC
109738662 CGATGAGACACTGGGTG
1 CGATGAGACACTGGGTG
109738679 TCAAATTTTC
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
37 14 0.32
38 12 0.27
39 3 0.07
40 1 0.02
41 14 0.32
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (41 bp):
CGATGAGACACTGGGTGACACACTATTACTTCGGATAGAGC
Found at i:109739435 original size:42 final size:42
Alignment explanation
Indices: 109739388--109739476 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
109739378 ATTAAAAATG
109739388 ATAGTAGAATTTTCATTACTTAAGTTGTTAAGTCAATATGTT
1 ATAGTAGAATTTTCATTACTTAAGTTGTTAAGTCAATATGTT
109739430 ATAGTAGAATTTTCATTACTTAAGTTGTTAAGTCAATATGTT
1 ATAGTAGAATTTTCATTACTTAAGTTGTTAAGTCAATATGTT
109739472 A-AGTA
1 ATAGTA
109739477 TGATTCAAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.44
Consensus pattern (42 bp):
ATAGTAGAATTTTCATTACTTAAGTTGTTAAGTCAATATGTT
Found at i:109741729 original size:26 final size:26
Alignment explanation
Indices: 109741700--109741807 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
109741690 TGGTACAAAT
109741700 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
109741726 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
109741752 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
109741778 TGTTAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109741804 TGAT
1 TGAT
109741808 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:109743322 original size:26 final size:26
Alignment explanation
Indices: 109743293--109743345 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
109743283 TTTACAGTTT
*
109743293 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
109743319 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
109743345 T
1 T
109743346 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:109747893 original size:16 final size:15
Alignment explanation
Indices: 109747868--109747903 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
109747858 TTTTCTTAAT
109747868 TTATTAATTATTATA
1 TTATTAATTATTATA
*
109747883 TTATATAATTATTATT
1 TTAT-TAATTATTATA
109747899 TTATT
1 TTATT
109747904 TAAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTAATTATTATA
Found at i:109748262 original size:16 final size:16
Alignment explanation
Indices: 109748224--109748265 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
109748214 TATAGTGTAT
109748224 TATT-ATTATTAATTTA
1 TATTAATTA-TAATTTA
*
109748240 T-TAAATTATAATTTA
1 TATTAATTATAATTTA
109748255 TATTAATTATA
1 TATTAATTATA
109748266 TTATGAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTAATTATAATTTA
Found at i:109749090 original size:17 final size:18
Alignment explanation
Indices: 109749068--109749103 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
109749058 TAAATGAGTT
109749068 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
109749085 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
109749103 A
1 A
109749104 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:109749821 original size:38 final size:39
Alignment explanation
Indices: 109749719--109749821 Score: 111
Period size: 38 Copynumber: 2.6 Consensus size: 39
109749709 AACCTCGAGT
* **
109749719 CGATGAGACACTAGGTGTCATACTATTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-ACT-TTACTTCGGATAGAGC
* * * *
109749760 CGATGAGATACTGGGT-ACCACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
109749797 CGATGAGACACTGGGTGTCAACTTT
1 CGATGAGACACTGGGTGTCAACTTT
109749822 GCTTTGAACT
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 15 0.29
38 18 0.35
39 3 0.06
40 1 0.02
41 14 0.27
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAGC
Found at i:109751071 original size:8 final size:8
Alignment explanation
Indices: 109751060--109751096 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
109751050 TGTTATTGGT
109751060 TTTTTTTA
1 TTTTTTTA
109751068 TTTTTTTA
1 TTTTTTTA
109751076 TTTTTTTA
1 TTTTTTTA
109751084 TTTTTTTA
1 TTTTTTTA
109751092 TTTTT
1 TTTTT
109751097 ATTTTATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTTA
Found at i:109751087 original size:21 final size:20
Alignment explanation
Indices: 109751044--109751101 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
109751034 AAGTGAGTAA
* *
109751044 TTATTTTGTTATTGGTTTTTT
1 TTATTTTTTTATT-TTTTTTT
109751065 TTATTTTTTTATTTTTTTATT
1 TTATTTTTTTATTTTTTT-TT
*
109751086 TTTTTATTTTTATTTT
1 TTATT-TTTTTATTTT
109751102 ATTTCATTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 18 0.56
22 10 0.31
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (20 bp):
TTATTTTTTTATTTTTTTTT
Found at i:109763821 original size:20 final size:21
Alignment explanation
Indices: 109763783--109763822 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
109763773 CTGTAACTGT
109763783 CACCAATTTCCTCGTGAACCC
1 CACCAATTTCCTCGTGAACCC
*
109763804 CACCATTTTCCTCG-GAACC
1 CACCAATTTCCTCGTGAACC
109763823 ATTCAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.42, G:0.10, T:0.25
Consensus pattern (21 bp):
CACCAATTTCCTCGTGAACCC
Found at i:109771281 original size:6 final size:6
Alignment explanation
Indices: 109771266--109771481 Score: 306
Period size: 6 Copynumber: 36.0 Consensus size: 6
109771256 ATTATAAATG
* * * *
109771266 TGTATG TGTACA TGTACA TGTATA TGTATA TATATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
* * * * * *
109771314 TGTACA TGTACA TGTACA TGTACA TGTACA TGTACA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
109771362 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
* * * *
109771410 TGTATA TGTATA TGTATA TGTATA TGCATA TGCATA TGCATA TGAATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
109771458 TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA
109771482 ATTAAAATAG
Statistics
Matches: 200, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 200 1.00
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (6 bp):
TGTATA
Found at i:109775310 original size:25 final size:25
Alignment explanation
Indices: 109775276--109775328 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
109775266 AATAAAGGTG
109775276 AATAAAAAAAATTTAGAATTTAACA
1 AATAAAAAAAATTTAGAATTTAACA
*
109775301 AAT-AAAAAAATTTAGAATTTAATA
1 AATAAAAAAAATTTAGAATTTAACA
109775325 AATA
1 AATA
109775329 TCTTTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (25 bp):
AATAAAAAAAATTTAGAATTTAACA
Found at i:109776530 original size:27 final size:25
Alignment explanation
Indices: 109776492--109776543 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
109776482 TTAGACGTGC
*
109776492 ATTTTTTTTGTAATTACGTTATTATTT
1 ATTTGTTTTGTAATT-C-TTATTATTT
109776519 ATTTGTTTTGTAATTCTTATTATTT
1 ATTTGTTTTGTAATTCTTATTATTT
109776544 GTCTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.38
26 1 0.04
27 14 0.58
ACGTcount: A:0.21, C:0.04, G:0.08, T:0.67
Consensus pattern (25 bp):
ATTTGTTTTGTAATTCTTATTATTT
Found at i:109783532 original size:46 final size:44
Alignment explanation
Indices: 109783473--109783587 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
109783463 ACAGGACAGA
* *
109783473 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
109783519 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
109783563 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
109783588 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:109783568 original size:44 final size:45
Alignment explanation
Indices: 109783473--109783606 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
109783463 ACAGGACAGA
* *
109783473 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
109783519 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
109783563 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
109783607 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:109790904 original size:46 final size:44
Alignment explanation
Indices: 109790845--109790959 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
109790835 ACAGGACAGA
* *
109790845 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
109790891 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
109790935 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
109790960 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:109790940 original size:44 final size:45
Alignment explanation
Indices: 109790845--109790978 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
109790835 ACAGGACAGA
* *
109790845 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
109790891 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
109790935 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
109790979 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:109794241 original size:58 final size:58
Alignment explanation
Indices: 109794151--109794269 Score: 211
Period size: 58 Copynumber: 2.1 Consensus size: 58
109794141 TTCACCGCGT
109794151 ATCCTCTTTGAAGAAGTAAACAACAAATCATGAAATATACTCCATTTCCCAAGTAAAG
1 ATCCTCTTTGAAGAAGTAAACAACAAATCATGAAATATACTCCATTTCCCAAGTAAAG
* * *
109794209 ATCCTCTTTGAAGAAGTAAACAACAAATCATGAAATATACTCTATTTCCTAAGTATAG
1 ATCCTCTTTGAAGAAGTAAACAACAAATCATGAAATATACTCCATTTCCCAAGTAAAG
109794267 ATC
1 ATC
109794270 GAATCCCCCA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (58 bp):
ATCCTCTTTGAAGAAGTAAACAACAAATCATGAAATATACTCCATTTCCCAAGTAAAG
Found at i:109797319 original size:11 final size:11
Alignment explanation
Indices: 109797303--109797328 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
109797293 AATTTTTAAA
109797303 ATTTGAAAAAT
1 ATTTGAAAAAT
109797314 ATTTGAAAAAT
1 ATTTGAAAAAT
109797325 ATTT
1 ATTT
109797329 TTATACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (11 bp):
ATTTGAAAAAT
Found at i:109797368 original size:29 final size:30
Alignment explanation
Indices: 109797336--109797396 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
109797326 TTTTTATACA
* *
109797336 TTTTTTATAATTTTA-ATTATTTTT-AATT
1 TTTTTTAAAAATTTAGATTATTTTTGAATT
*
109797364 TTTTTTAAAAATTTAGATTTTTTTTGAATT
1 TTTTTTAAAAATTTAGATTATTTTTGAATT
109797394 TTT
1 TTT
109797397 AAAATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.46
29 8 0.29
30 7 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (30 bp):
TTTTTTAAAAATTTAGATTATTTTTGAATT
Found at i:109797397 original size:19 final size:18
Alignment explanation
Indices: 109797354--109797398 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
109797344 AATTTTAATT
109797354 ATTTTTAATTTTTTTTAA
1 ATTTTTAATTTTTTTTAA
** *
109797372 AAATTTAGATTTTTTTTGA
1 ATTTTTA-ATTTTTTTTAA
109797391 ATTTTTAA
1 ATTTTTAA
109797399 AATTTAAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (18 bp):
ATTTTTAATTTTTTTTAA
Found at i:109798120 original size:58 final size:59
Alignment explanation
Indices: 109798008--109798138 Score: 160
Period size: 59 Copynumber: 2.2 Consensus size: 59
109797998 TTGTTATTAA
* * **
109798008 ATTTTAATA-AGATTATTATTAAAAATAAATTTAAAATAAATGATAAATAATTTAATTGT
1 ATTTTAATATA-ATTATTACTAAAAATAAATTTAAAATAAATAATAAATAATTTAATAAT
* *
109798067 ATTTTAATATAATTATTACTAAATAT-AATTTAATAA-AAATAATATATAATTTAATAAT
1 ATTTTAATATAATTATTACTAAAAATAAATTTAA-AATAAATAATAAATAATTTAATAAT
109798125 ATTTTTAATATAAT
1 A-TTTTAATATAAT
109798139 CATTTTTATA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
58 26 0.41
59 36 0.57
60 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (59 bp):
ATTTTAATATAATTATTACTAAAAATAAATTTAAAATAAATAATAAATAATTTAATAAT
Found at i:109798209 original size:8 final size:10
Alignment explanation
Indices: 109798181--109798218 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
109798171 ATATTTTATT
*
109798181 TTAAATTATA
1 TTAAAATATA
109798191 TTAAAATATA
1 TTAAAATATA
109798201 TTAAAATAT-
1 TTAAAATATA
*
109798210 TTCAAATAT
1 TTAAAATAT
109798219 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (10 bp):
TTAAAATATA
Found at i:109814030 original size:11 final size:11
Alignment explanation
Indices: 109814016--109814074 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
109814006 TTATTTAAAA
109814016 ATAAAAAAATT
1 ATAAAAAAATT
*
109814027 ATAAAAATA-T
1 ATAAAAAAATT
*
109814037 ATAAAAACATT
1 ATAAAAAAATT
109814048 AT--AAAAA-T
1 ATAAAAAAATT
109814056 AT-AAAAAATT
1 ATAAAAAAATT
109814066 ATTAAAAAA
1 A-TAAAAAA
109814075 CACAATATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 3 0.08
9 9 0.22
10 11 0.28
11 12 0.30
12 5 0.12
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAAAAAAATT
Found at i:109814039 original size:10 final size:10
Alignment explanation
Indices: 109814011--109814073 Score: 64
Period size: 10 Copynumber: 6.6 Consensus size: 10
109814001 AAAATTTATT
109814011 TAAAAATA-A
1 TAAAAATATA
109814020 -AAAAAT-TA
1 TAAAAATATA
109814028 TAAAAATATA
1 TAAAAATATA
*
109814038 TAAAAACATTA
1 TAAAAATA-TA
109814049 TAAAAATATA
1 TAAAAATATA
109814059 -AAAAAT-TA
1 TAAAAATATA
109814067 TTAAAAA
1 -TAAAAA
109814074 ACACAATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
8 9 0.20
9 12 0.26
10 16 0.35
11 9 0.20
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAAATATA
Found at i:109814040 original size:21 final size:21
Alignment explanation
Indices: 109814016--109814063 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
109814006 TTATTTAAAA
109814016 ATAAAAAAATTATAAAAATAT
1 ATAAAAAAATTATAAAAATAT
*
109814037 ATAAAAACATTATAAAAATAT
1 ATAAAAAAATTATAAAAATAT
109814058 A-AAAAA
1 ATAAAAA
109814064 TTATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
ATAAAAAAATTATAAAAATAT
Found at i:109814042 original size:19 final size:18
Alignment explanation
Indices: 109814011--109814073 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 18
109814001 AAAATTTATT
109814011 TAAAAATA-AAAAAATTA
1 TAAAAATATAAAAAATTA
109814028 TAAAAATATATAAAAACATTA
1 T-AAAA-ATATAAAAA-ATTA
109814049 TAAAAATATAAAAAATTA
1 TAAAAATATAAAAAATTA
109814067 TTAAAAA
1 -TAAAAA
109814074 ACACAATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.02
18 8 0.20
19 18 0.44
20 9 0.22
21 5 0.12
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAATATAAAAAATTA
Found at i:109814069 original size:21 final size:20
Alignment explanation
Indices: 109814012--109814074 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
109814002 AAATTTATTT
109814012 AAAA-ATAAAAAA-ATTATA
1 AAAATATAAAAAATATTATA
*
109814030 AAAATATATAAAAACATTATA
1 AAAATATA-AAAAATATTATA
109814051 AAAATATAAAAAATTATTA-A
1 AAAATATAAAAAA-TATTATA
109814071 AAAA
1 AAAA
109814075 CACAATATTG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
18 4 0.10
19 3 0.08
20 15 0.38
21 18 0.45
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATATAAAAAATATTATA
Found at i:109814072 original size:29 final size:26
Alignment explanation
Indices: 109813998--109814073 Score: 71
Period size: 30 Copynumber: 2.7 Consensus size: 26
109813988 CTTTTAAATT
*
109813998 TTAAAAATTTATTTAAAAATAAAAAAA
1 TTAAAAAATTA-TTAAAAATAAAAAAA
* *
109814025 TTATAAAAATATATAAAAACATTATAAAAA
1 TTA-AAAAAT-TATTAAAA-A-TAAAAAAA
109814055 TATAAAAAATTATTAAAAA
1 T-TAAAAAATTATTAAAAA
109814074 ACACAATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
27 3 0.08
28 11 0.28
29 10 0.25
30 14 0.35
31 2 0.05
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (26 bp):
TTAAAAAATTATTAAAAATAAAAAAA
Found at i:109820477 original size:29 final size:30
Alignment explanation
Indices: 109820427--109820506 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 30
109820417 GATTCGATTC
* *
109820427 AAATCAAAATTTTATGTTTAAAATTACACA-
1 AAATCAAAATTCT-TGTATAAAATTACACAT
* * *
109820457 AAATCAAAGTTCTTGTATAAAGTTGCACATT
1 AAATCAAAATTCTTGTATAAAATTACACA-T
*
109820488 AAATCAAAATTCATGTATA
1 AAATCAAAATTCTTGTATA
109820507 GTTTTGAGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 13 0.32
30 11 0.27
31 17 0.41
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (30 bp):
AAATCAAAATTCTTGTATAAAATTACACAT
Found at i:109820661 original size:30 final size:30
Alignment explanation
Indices: 109820598--109820663 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
109820588 TGACATTAAG
* * **
109820598 TTTTAGAGGTTTAATTAAAAATTTCAACTA
1 TTTTAGAGGTTTAAATAAAAATTTAAAAAA
109820628 TTTTAGAGG-TTAAATAAGAAATTTAAAAAA
1 TTTTAGAGGTTTAAATAA-AAATTTAAAAAA
109820658 TTTTAG
1 TTTTAG
109820664 GGGGCATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (30 bp):
TTTTAGAGGTTTAAATAAAAATTTAAAAAA
Found at i:109821635 original size:30 final size:31
Alignment explanation
Indices: 109821586--109821643 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
109821576 ATAAATTCAA
*
109821586 CTTTATTATTTACATTTTTAATTAAATAAGG
1 CTTTAATATTTACATTTTTAATTAAATAAGG
*
109821617 CTTTAATATTTA-ATTTTTACTTAAATA
1 CTTTAATATTTACATTTTTAATTAAATA
109821644 CACTTATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.53
Consensus pattern (31 bp):
CTTTAATATTTACATTTTTAATTAAATAAGG
Found at i:109824239 original size:11 final size:11
Alignment explanation
Indices: 109824225--109824276 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
109824215 TCTTTCAATA
109824225 TTCTCTCAAAT
1 TTCTCTCAAAT
109824236 TTCTCTCAAA-
1 TTCTCTCAAAT
109824246 -TCTCTCAAAT
1 TTCTCTCAAAT
*
109824256 TTCTCTTAAAT
1 TTCTCTCAAAT
*
109824267 TCCTCTCAAA
1 TTCTCTCAAA
109824277 ACTCTCGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:109824251 original size:20 final size:21
Alignment explanation
Indices: 109824219--109824276 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
109824209 CTTCAATCTT
109824219 TCAATATTCTCTCAAATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
109824241 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
109824261 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
109824277 ACTCTCGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 19 0.58
21 2 0.06
22 12 0.36
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:109826095 original size:18 final size:18
Alignment explanation
Indices: 109826072--109826114 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
109826062 GGCCAGGTAC
*
109826072 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
109826090 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
109826108 GTTTCCT
1 GTATCCT
109826115 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:109826703 original size:116 final size:116
Alignment explanation
Indices: 109826499--109826824 Score: 625
Period size: 116 Copynumber: 2.8 Consensus size: 116
109826489 TATTTGTACA
*
109826499 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
109826564 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
109826615 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
109826680 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
109826731 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
109826796 TGTAATTTACTTTTATATTTTTAATAAAA
66 TATAATTTACTTTTATATTTTTAATAAAA
109826825 GTATTGTAAT
Statistics
Matches: 206, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 206 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:109826831 original size:33 final size:34
Alignment explanation
Indices: 109826780--109826857 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 34
109826770 TAAAAGGTTG
*
109826780 TTTTAAAT-AAAGTAATTGTAATTTACTTTTATA
1 TTTTTAATAAAAGTAATTGTAATTTACTTTTATA
109826813 TTTTTAATAAAAGT-ATTGTAATTTACTTTTATA
1 TTTTTAATAAAAGTAATTGTAATTTACTTTTATA
109826846 TTTTTAATAAAA
1 TTTTTAATAAAA
109826858 TGGAAATTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
33 38 0.88
34 5 0.12
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (34 bp):
TTTTTAATAAAAGTAATTGTAATTTACTTTTATA
Found at i:109826934 original size:59 final size:60
Alignment explanation
Indices: 109826867--109827144 Score: 179
Period size: 54 Copynumber: 4.9 Consensus size: 60
109826857 ATGGAAATTA
* *
109826867 TTTTAAATAAGGCAACATTTG-AATTTTTATATTATTTCATGTAATTAGATAAAAGGTTG
1 TTTTAAATAAGGCAACATTTGAAATTTTTATATTATTTCATGTAATAAAATAAAAGGTTG
* * * * *
109826926 TTTTAAATAAAG-TA-A-TTGTAATTTACTTTTA-TATTT--T-TAATAAAATAGAAA--TTA
1 TTTTAAATAAGGCAACATTTGAAATTT--TTATATTATTTCATGTAATAAAATA-AAAGGTTG
* *
109826980 TTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTG
1 TTTTAAATAAGGCAACA-TTTGAA-ATTTTTATATTATTTCATGTAATAAAATAAAAGGTTG
* * *
109827042 TTTTAAATAAAG-TA-A-TT-ATAATTTACTT-T-TTATTT--T-TAATAAAATAAAA--TTA
1 TTTTAAATAAGGCAACATTTGA-AATTT--TTATATTATTTCATGTAATAAAATAAAAGGTTG
* * *
109827094 TTTTAAATAAAGCAATATTTTG-AATATTT-TATTATTTCATGTAATAAAATA
1 TTTTAAATAAGGCAACA-TTTGAAATTTTTATATTATTTCATGTAATAAAATA
109827145 TAAATAATAC
Statistics
Matches: 172, Mismatches: 20, Indels: 56
0.69 0.08 0.23
Matches are distributed among these distances:
52 14 0.08
53 4 0.02
54 31 0.18
55 14 0.08
56 11 0.06
57 31 0.18
58 19 0.11
59 21 0.12
60 5 0.03
61 9 0.05
62 13 0.08
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (60 bp):
TTTTAAATAAGGCAACATTTGAAATTTTTATATTATTTCATGTAATAAAATAAAAGGTTG
Found at i:109826950 original size:146 final size:150
Alignment explanation
Indices: 109826664--109826970 Score: 561
Period size: 146 Copynumber: 2.1 Consensus size: 150
109826654 TAAAATGTTG
*
109826664 TTTTAAAT-AAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAA
1 TTTTTAATAAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAA
109826728 GGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGT
66 GGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGT
109826793 AATTGTAATTTACTTTTATA
131 AATTGTAATTTACTTTTATA
*
109826813 TTTTTAATAAAAGT-ATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAA
1 TTTTTAATAAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAA
109826877 GGCAACA-TTTG-A-ATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGT
66 GGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGT
109826939 AATTGTAATTTACTTTTATA
131 AATTGTAATTTACTTTTATA
109826959 TTTTTAATAAAA
1 TTTTTAATAAAA
109826971 TAGAAATTAT
Statistics
Matches: 155, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
146 82 0.53
147 1 0.01
148 4 0.03
149 63 0.41
150 5 0.03
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (150 bp):
TTTTTAATAAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAA
GGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGT
AATTGTAATTTACTTTTATA
Found at i:109826952 original size:113 final size:113
Alignment explanation
Indices: 109826813--109827140 Score: 502
Period size: 113 Copynumber: 2.9 Consensus size: 113
109826803 TACTTTTATA
*
109826813 TTTTTAATAAAAGT-ATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAA
1 TTTTAAAT-AAAGTAATTGTAATTTACTTTTATATTTTTAATAAAAT-GAAATTATTTTAAATAA
*
109826877 GGCAACA-TTTGAATTTTTATATTATTTCATGTAATTAGATAAAAGGTTG
64 GGCAACATTTTGAATTTTTATATTATTTCATGTAATAAGATAAAAGGTTG
109826926 TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAG
1 TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAAT-GAAATTATTTTAAATAAG
* *
109826991 GCAACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTG
65 GCAACATTTTG-A-ATTTTTATATTATTTCATGTAATAAGATAAAAGGTTG
* * *
109827042 TTTTAAATAAAGTAATTATAATTTACTTTT-TATTTTTAATAAAATAAAATTATTTTAAATAAAG
1 TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGAAATTATTTTAAATAAGG
* *
109827106 CAATATTTTGAATATTT-TATTATTTCATGTAATAA
66 CAACATTTTGAATTTTTATATTATTTCATGTAATAA
109827141 AATATAAATA
Statistics
Matches: 200, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
111 17 0.09
112 10 0.05
113 64 0.32
114 30 0.15
115 16 0.08
116 63 0.31
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (113 bp):
TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGAAATTATTTTAAATAAGG
CAACATTTTGAATTTTTATATTATTTCATGTAATAAGATAAAAGGTTG
Found at i:109827037 original size:262 final size:265
Alignment explanation
Indices: 109826548--109827085 Score: 951
Period size: 262 Copynumber: 2.0 Consensus size: 265
109826538 TAAAAGGTTG
*
109826548 TTTTAAAT-AAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAA
1 TTTTTAATAAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAA
*
109826612 GGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGT
66 GGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGT
*
109826677 AATTATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACATTTTGAA
131 AATTATAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAACATTTTGAA
* *
109826742 TATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACT
196 TATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACT
109826807 TTTATA
261 TTT-TA
*
109826813 TTTTTAATAAAAGT-ATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAA
1 TTTTTAATAAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAA
109826877 GGCAACA-TTTG-A-ATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGT
66 GGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGT
*
109826939 AATTGTAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAACATTTTGAA
131 AATTATAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAACATTTTGAA
* *
109827004 TATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACT
196 TATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACT
109827069 TTTTA
261 TTTTA
109827074 TTTTTAATAAAA
1 TTTTTAATAAAA
109827086 TAAAATTATT
Statistics
Matches: 263, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
261 14 0.05
262 176 0.67
263 1 0.00
264 4 0.02
265 63 0.24
266 5 0.02
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (265 bp):
TTTTTAATAAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAA
GGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGT
AATTATAATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAACATTTTGAA
TATTTTTATATTATTTCATGTAATAAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACT
TTTTA
Found at i:109827140 original size:52 final size:52
Alignment explanation
Indices: 109826969--109827143 Score: 131
Period size: 52 Copynumber: 3.2 Consensus size: 52
109826959 TTTTTAATAA
* *
109826969 AATAGAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTGAT
1 AATA-AAATTATTTTAAATAAAGCAATATTTTGAATA--TTT-TATTATTTCA--TG-T
* * * * **
109827028 AATATAAAAGGTTGTTTTAAATAAAGTAATTATAATTT-ACT-TTTTATT-TTTAATAA
1 -A-ATAAAA--TTATTTTAAATAAAGCAA-TAT--TTTGAATATTTTATTATTTCATGT
109827084 AATAAAATTATTTTAAATAAAGCAATATTTTGAATATTTTATTATTTCATGT
1 AATAAAATTATTTTAAATAAAGCAATATTTTGAATATTTTATTATTTCATGT
109827136 AATAAAAT
1 AATAAAAT
109827144 ATAAATAATA
Statistics
Matches: 92, Mismatches: 14, Indels: 26
0.70 0.11 0.20
Matches are distributed among these distances:
49 3 0.03
50 2 0.02
51 10 0.11
52 29 0.32
54 6 0.07
55 1 0.01
57 1 0.01
59 4 0.04
60 8 0.09
61 6 0.07
62 15 0.16
63 2 0.02
64 2 0.02
65 3 0.03
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (52 bp):
AATAAAATTATTTTAAATAAAGCAATATTTTGAATATTTTATTATTTCATGT
Found at i:109830380 original size:126 final size:126
Alignment explanation
Indices: 109830158--109830685 Score: 862
Period size: 126 Copynumber: 4.2 Consensus size: 126
109830148 TTTAGAAACC
* *
109830158 ACTGTAGCAAAAGAGCGTCCACGTGGGAGATTCTTTCAGTACTTTTGCTAAAAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
* ** *
109830223 TGAAGCGTTTTTGAAACTATTTATGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACC
66 TGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* * *
109830284 ACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAGTTTTGCTGAAAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
109830349 TGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
66 TGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* *
109830410 ACTGTAGCAAAAGAGCGTCTACGTGGAAGCTTCTTTCAGTACTTTTGCT-AACAATGCATCCTGC
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAA-AATGCATCCTGC
* * *
109830474 TTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAGATACT
65 TTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
* *
109830536 ACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCT
1 ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
* *
109830601 TGAAGCGTTTTTGACACTATTTGCGCAGACATGTCTTCTCAAATTTATTTTTTCAGAGACT
66 TGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
109830662 ACTGTAGCAAAAGAGCGTCCACGT
1 ACTGTAGCAAAAGAGCGTCCACGT
109830686 AGAAGCTTTT
Statistics
Matches: 372, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
125 3 0.01
126 367 0.99
127 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (126 bp):
ACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCT
TGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACT
Done.