Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 38 of 117
Found at i:9360530 original size:11 final size:11
Alignment explanation
Indices: 9360514--9360538 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9360504 AACCAACTAA
9360514 AAATATTTCAC
1 AAATATTTCAC
9360525 AAATATTTCAC
1 AAATATTTCAC
9360536 AAA
1 AAA
9360539 ACTCAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATATTTCAC
Found at i:9360603 original size:9 final size:9
Alignment explanation
Indices: 9360589--9360614 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9360579 AACAAAAGCA
9360589 ATATTAAAC
1 ATATTAAAC
9360598 ATATTAAAC
1 ATATTAAAC
9360607 ATATTAAA
1 ATATTAAA
9360615 TATAAGGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (9 bp):
ATATTAAAC
Found at i:9361484 original size:23 final size:22
Alignment explanation
Indices: 9361438--9361490 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
9361428 TATTTGAGAG
*
9361438 ACTACTAATTTATCATTGATTT
1 ACTACTAATTTATCATTGAATT
9361460 ACTACTAAGTTTATCAATT-AATT
1 ACTACTAA-TTTATC-ATTGAATT
9361483 ACTACTAA
1 ACTACTAA
9361491 ACTAAAACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 8 0.29
23 17 0.61
24 3 0.11
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (22 bp):
ACTACTAATTTATCATTGAATT
Found at i:9361565 original size:22 final size:22
Alignment explanation
Indices: 9361535--9361624 Score: 78
Period size: 22 Copynumber: 4.1 Consensus size: 22
9361525 TTATACCAAC
*
9361535 TTATAATTAAATTATCATTGAT
1 TTATTATTAAATTATCATTGAT
9361557 TTATTATTAAATTATCGA-TGAT
1 TTATTATTAAATTATC-ATTGAT
* * *
9361579 TAACTATTAATTTATCACTT--T
1 TTATTATTAAATTATCA-TTGAT
* **
9361600 TTTTTATTAACCTATCATTGAT
1 TTATTATTAAATTATCATTGAT
9361622 TTA
1 TTA
9361625 CTAGTATGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
20 2 0.04
21 14 0.26
22 35 0.66
23 2 0.04
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.52
Consensus pattern (22 bp):
TTATTATTAAATTATCATTGAT
Found at i:9361910 original size:22 final size:22
Alignment explanation
Indices: 9361866--9362024 Score: 113
Period size: 22 Copynumber: 7.3 Consensus size: 22
9361856 AGTATAAAAA
* * * *
9361866 AAATTATAAATGATTGACAATT
1 AAATTATCAATTATTTACTATT
* *
9361888 AAGTTATCAATTTTTTACTATT
1 AAATTATCAATTATTTACTATT
*
9361910 AAATTATTAATTATTTACTATT
1 AAATTATCAATTATTTACTATT
* * *
9361932 AAATTATCAATGATTTATTTTT
1 AAATTATCAATTATTTACTATT
* * * * *
9361954 AATTTATGAATGATTTGCCATT
1 AAATTATCAATTATTTACTATT
* * * *
9361976 AAGTTATGAATGATTTATTATT
1 AAATTATCAATTATTTACTATT
* * *
9361998 AAGTTATGAATTATTT-CTCTT
1 AAATTATCAATTATTTACTATT
9362019 AAATTA
1 AAATTA
9362025 CTTGTGATAT
Statistics
Matches: 110, Mismatches: 27, Indels: 1
0.80 0.20 0.01
Matches are distributed among these distances:
21 8 0.07
22 102 0.93
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.49
Consensus pattern (22 bp):
AAATTATCAATTATTTACTATT
Found at i:9362005 original size:44 final size:44
Alignment explanation
Indices: 9361866--9362013 Score: 152
Period size: 44 Copynumber: 3.4 Consensus size: 44
9361856 AGTATAAAAA
* * * * ** *
9361866 AAATTATAAATGATTGACAATTAAGTTATCAATTTTTTACTATT
1 AAATTATGAATTATTTACCATTAAGTTATCAATGATTTATTATT
* * * *
9361910 AAATTATTAATTATTTACTATTAAATTATCAATGATTTATTTTT
1 AAATTATGAATTATTTACCATTAAGTTATCAATGATTTATTATT
* * * *
9361954 AATTTATGAATGATTTGCCATTAAGTTATGAATGATTTATTATT
1 AAATTATGAATTATTTACCATTAAGTTATCAATGATTTATTATT
*
9361998 AAGTTATGAATTATTT
1 AAATTATGAATTATTT
9362014 CTCTTAAATT
Statistics
Matches: 85, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 85 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (44 bp):
AAATTATGAATTATTTACCATTAAGTTATCAATGATTTATTATT
Found at i:9362150 original size:22 final size:22
Alignment explanation
Indices: 9362120--9362315 Score: 104
Period size: 22 Copynumber: 9.1 Consensus size: 22
9362110 ATTATCAATG
9362120 ATTAGCTAATTTACTACTAAATT
1 ATTA-CTAATTTACTACTAAATT
* * *
9362143 ATCACTAATTTA-TAATTAAGTT
1 ATTACTAATTTACT-ACTAAATT
* **
9362165 ATTAGC-AATTTACTATTACGTT
1 ATTA-CTAATTTACTACTAAATT
*
9362187 ATTAGTAATTTA-TACTAAATT
1 ATTACTAATTTACTACTAAATT
* * * *
9362208 ATTAATGATTTACTATTATATT
1 ATTACTAATTTACTACTAAATT
* * **
9362230 TTTA-TATATTTACTATTATCTT
1 ATTACTA-ATTTACTACTAAATT
* * *
9362252 ATCACTCATTTACTACTTAATT
1 ATTACTAATTTACTACTAAATT
* *
9362274 -TT--TTA-TTACTTA-AAAATT
1 ATTACTAATTTAC-TACTAAATT
9362292 ATTACTAATTTACTACTAAATT
1 ATTACTAATTTACTACTAAATT
9362314 AT
1 AT
9362316 CAATGATTCA
Statistics
Matches: 131, Mismatches: 29, Indels: 27
0.70 0.16 0.14
Matches are distributed among these distances:
18 8 0.06
19 6 0.05
21 23 0.18
22 88 0.67
23 6 0.05
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (22 bp):
ATTACTAATTTACTACTAAATT
Found at i:9362394 original size:22 final size:21
Alignment explanation
Indices: 9362340--9362395 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
9362330 GAAGTTATTA
*
9362340 ATGATTTA-TATTAAATTTGC
1 ATGATTAACTATTAAATTTGC
* *
9362360 ATGATTTATTATTAAATTATTGC
1 ATGATTAACTATTAAA-T-TTGC
9362383 -TGATTAACTATTA
1 ATGATTAACTATTA
9362396 TATTGTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.26
21 7 0.23
22 12 0.39
23 4 0.13
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (21 bp):
ATGATTAACTATTAAATTTGC
Found at i:9362469 original size:22 final size:22
Alignment explanation
Indices: 9362426--9362510 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 22
9362416 TAAGTTCTAT
** * *
9362426 TAATTTACTTTTAAGTTTTCAA
1 TAATTTACTACTAAATTATCAA
* *
9362448 TGATTAACTACTAAATTATCAA
1 TAATTTACTACTAAATTATCAA
* * * *
9362470 TTATTTATTACTAATTTATCAT
1 TAATTTACTACTAAATTATCAA
*
9362492 TAATTTACTACTTAATTAT
1 TAATTTACTACTAAATTAT
9362511 TTATGATGTC
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (22 bp):
TAATTTACTACTAAATTATCAA
Found at i:9370166 original size:17 final size:18
Alignment explanation
Indices: 9370144--9370178 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
9370134 CTACTTTAAA
9370144 TTTCTTTTTTTA-CTTAC
1 TTTCTTTTTTTATCTTAC
9370161 TTTCTTTTTTTATCTTAC
1 TTTCTTTTTTTATCTTAC
9370179 AAATTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTTTTTTTATCTTAC
Found at i:9371621 original size:2 final size:2
Alignment explanation
Indices: 9371614--9371656 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
9371604 ACCAATATGC
* *
9371614 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9371656 A
1 A
9371657 AGTACCACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9371718 original size:20 final size:20
Alignment explanation
Indices: 9371695--9371750 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
9371685 TAATGGAAAG
* * *
9371695 TACATGTATATGTATATGTA
1 TACATATATATATATATATA
*
9371715 TACATATATATACATATATA
1 TACATATATATATATATATA
9371735 TACATATATATATATA
1 TACATATATATATATA
9371751 AGTACTACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (20 bp):
TACATATATATATATATATA
Found at i:9371726 original size:10 final size:10
Alignment explanation
Indices: 9371708--9371746 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
9371698 ATGTATATGT
*
9371708 ATATGTATAC
1 ATATATATAC
9371718 ATATATATAC
1 ATATATATAC
9371728 ATATATATAC
1 ATATATATAC
9371738 ATATATATA
1 ATATATATA
9371747 TATAAGTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (10 bp):
ATATATATAC
Found at i:9371749 original size:6 final size:6
Alignment explanation
Indices: 9371701--9371750 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
9371691 AAAGTACATG
* * * * *
9371701 TATATG TATATG TATACA TATATA TACATA TATATA CATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
9371749 TA
1 TA
9371751 AGTACTACTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (6 bp):
TATATA
Found at i:9374688 original size:51 final size:50
Alignment explanation
Indices: 9374623--9374793 Score: 141
Period size: 51 Copynumber: 3.4 Consensus size: 50
9374613 TCTCTTCGAA
* * *
9374623 GGTCTTGATGACTTATTCTTAAATTGAAAAAATATGGATTTCGCTTCAAG
1 GGTCTTGAAGACTTATTCTTAAATTGAAAAAATATGGACTTCACTTCAAG
** ** *
9374673 GGTCTTTGAAGACTTATTCTTTTATTGAAGGAATATGGACTTCACTTTAAG
1 GGTC-TTGAAGACTTATTCTTAAATTGAAAAAATATGGACTTCACTTCAAG
* * * * * *
9374724 GATCATTG-GGACTTAGTTCTTGAATTGAAAGAGTATGG-CTTCAGTTCAAG
1 GGTC-TTGAAGACTTA-TTCTTAAATTGAAAAAATATGGACTTCACTTCAAG
* *
9374774 AGTTGTTGAA-ACTTATTCTT
1 -GGTCTTGAAGACTTATTCTT
9374794 GAGCTGAAGA
Statistics
Matches: 97, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
49 5 0.05
50 28 0.29
51 64 0.66
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (50 bp):
GGTCTTGAAGACTTATTCTTAAATTGAAAAAATATGGACTTCACTTCAAG
Found at i:9375754 original size:23 final size:23
Alignment explanation
Indices: 9375724--9375769 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9375714 TAGGATTTTT
9375724 GCCTTATAAACACACACCAATCA
1 GCCTTATAAACACACACCAATCA
9375747 GCCTTATAAACACACACCAATCA
1 GCCTTATAAACACACACCAATCA
9375770 TATGCTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.35, G:0.04, T:0.17
Consensus pattern (23 bp):
GCCTTATAAACACACACCAATCA
Found at i:9378510 original size:18 final size:18
Alignment explanation
Indices: 9378486--9378601 Score: 139
Period size: 18 Copynumber: 6.6 Consensus size: 18
9378476 GTTCTTAATG
9378486 CATTTGAGGTGGAGGATA
1 CATTTGAGGTGGAGGATA
* *
9378504 AATTTGA---GGATGATA
1 CATTTGAGGTGGAGGATA
* * *
9378519 TATTTGTGGTGGGGGATA
1 CATTTGAGGTGGAGGATA
*
9378537 CATTTGAGGTAGAGGATA
1 CATTTGAGGTGGAGGATA
*
9378555 CATTTGAGGTGAAGGATA
1 CATTTGAGGTGGAGGATA
9378573 CATTTGAGGTGGAGGATA
1 CATTTGAGGTGGAGGATA
*
9378591 CATTTGTGGTG
1 CATTTGAGGTG
9378602 AATAATAACT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
15 12 0.15
18 69 0.85
ACGTcount: A:0.28, C:0.04, G:0.36, T:0.32
Consensus pattern (18 bp):
CATTTGAGGTGGAGGATA
Found at i:9378958 original size:6 final size:6
Alignment explanation
Indices: 9378947--9378984 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
9378937 CCAAAATTTG
9378947 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CA
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CA
9378985 TCTGGACTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (6 bp):
CACCAT
Found at i:9379010 original size:27 final size:24
Alignment explanation
Indices: 9378977--9379034 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
9378967 CCATCACCAT
*
9378977 CACCATCATCTGGACTTAAACCCC
1 CACCATCATCTAGACTTAAACCCC
9379001 CACCATCATCTAGACTTAAACCCC
1 CACCATCATCTAGACTTAAACCCC
9379025 CACCATCATC
1 CACCATCATC
9379035 ACTCTAACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.43, G:0.05, T:0.21
Consensus pattern (24 bp):
CACCATCATCTAGACTTAAACCCC
Found at i:9388254 original size:29 final size:28
Alignment explanation
Indices: 9388210--9388268 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
9388200 AAATTAAATA
** *
9388210 TTATATTTTGATTTTGTTATTTATTAAT
1 TTATATTTTGATTTTGAAATTTAATAAT
9388238 TTATAATTTT-ATATTTGAAATTTAATAAT
1 TTAT-ATTTTGAT-TTTGAAATTTAATAAT
9388267 TT
1 TT
9388269 TTTTGTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (28 bp):
TTATATTTTGATTTTGAAATTTAATAAT
Found at i:9391878 original size:18 final size:18
Alignment explanation
Indices: 9391848--9391947 Score: 98
Period size: 18 Copynumber: 5.7 Consensus size: 18
9391838 ATAGTTATTA
*
9391848 TCCACCACAAATGTATCC
1 TCCACCTCAAATGTATCC
*
9391866 TCTACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
9391884 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
* * * *
9391902 CCCACCACAAATATATCA
1 TCCACCTCAAATGTATCC
* * *
9391920 TCTA---CAAATATATCA
1 TCCACCTCAAATGTATCC
9391935 TCCACCTCAAATG
1 TCCACCTCAAATG
9391948 CATCAAGAAC
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
15 14 0.21
18 54 0.79
ACGTcount: A:0.35, C:0.35, G:0.04, T:0.26
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:9391928 original size:15 final size:15
Alignment explanation
Indices: 9391908--9391936 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9391898 ATCCCCCACC
9391908 ACAAATATATCATCT
1 ACAAATATATCATCT
9391923 ACAAATATATCATC
1 ACAAATATATCATC
9391937 CACCTCAAAT
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:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
ACAAATATATCATCT
Found at i:9399556 original size:86 final size:84
Alignment explanation
Indices: 9399455--9399654 Score: 224
Period size: 86 Copynumber: 2.4 Consensus size: 84
9399445 GAAAACTGCA
* * * *
9399455 TTGCACAAGTTAATCCATTTAAAAGCATGACGAAAGA-TCACTTTACTCAAGTTAATCCATT-AG
1 TTGCACAAGTCAATCCATTAAAAAGCATGACGAAAGACT-ACCTTACACAAGTTAATCCATTGAG
* *
9399518 AAAGCATGAAGAGATATATTACT
65 AAA-AATGAAG-GA-AGATTACT
* * * * *
9399541 TTGCATAAGTCAATCCATTGAAAAGCATGATGGAAGACTACCTTACACAGGTTAATCCATTGAGA
1 TTGCACAAGTCAATCCATTAAAAAGCATGACGAAAGACTACCTTACACAAGTTAATCCATTGAGA
*
9399606 AAAATGATGGAAGATTACT
66 AAAATGAAGGAAGATTACT
* *
9399625 TTGCACAATTCATTCCATTAAAAAGCATGA
1 TTGCACAAGTCAATCCATTAAAAAGCATGA
9399655 TGCAGAGAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
84 33 0.34
85 2 0.02
86 56 0.58
87 6 0.06
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (84 bp):
TTGCACAAGTCAATCCATTAAAAAGCATGACGAAAGACTACCTTACACAAGTTAATCCATTGAGA
AAAATGAAGGAAGATTACT
Found at i:9399603 original size:42 final size:42
Alignment explanation
Indices: 9399437--9399724 Score: 181
Period size: 42 Copynumber: 6.7 Consensus size: 42
9399427 TCATAGAGAT
* * * *
9399437 GCATGATGGAAAACTGCATTGCACAAGTTAATCCATTTAAAA
1 GCATGATGGAAGACTACTTTGCACAAGTTAATCCATTGAAAA
* * * *
9399479 GCATGACGAAAGA-TCACTTTACTCAAGTTAATCCATT-AGAAA
1 GCATGATGGAAGACT-ACTTTGCACAAGTTAATCCATTGA-AAA
* * * * *
9399521 GCATGAAGAGATATATTACTTTGCATAAGTCAATCCATTGAAAA
1 GCATGATG-GA-AGACTACTTTGCACAAGTTAATCCATTGAAAA
* * *
9399565 GCATGATGGAAGACTACCTTACACAGGTTAATCCATTGAGAAA
1 GCATGATGGAAGACTACTTTGCACAAGTTAATCCATTGA-AAA
* * * *
9399608 -AATGATGGAAGATTACTTTGCACAA-TTCATTCCATTAAAAA
1 GCATGATGGAAGACTACTTTGCACAAGTT-AATCCATTGAAAA
* * * * * *
9399649 GCATGATGCAGAGAAAACCACTTTGTAGAAGTCAATTCATT-AAGAA
1 GCATGAT---G-GAAGACTACTTTGCACAAGTTAATCCATTGAA-AA
* * *
9399695 GTATGATGGAAGACTATTTTTCACAAGTTA
1 GCATGATGGAAGACTACTTTGCACAAGTTA
9399725 TGATATTAAA
Statistics
Matches: 185, Mismatches: 46, Indels: 30
0.71 0.18 0.11
Matches are distributed among these distances:
41 7 0.04
42 108 0.58
43 7 0.04
44 30 0.16
45 5 0.03
46 27 0.15
47 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (42 bp):
GCATGATGGAAGACTACTTTGCACAAGTTAATCCATTGAAAA
Found at i:9401929 original size:36 final size:37
Alignment explanation
Indices: 9401889--9401965 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
9401879 TTTAAAAAAT
* * * *
9401889 ATTTTAT-TCATAAA-TATCTTCTAATATGTTGGTAAG
1 ATTTTATGTCA-AAATTATCCTCCAATATATAGGTAAG
*
9401925 ATTTTGTGTCAAAATTATCCTCCAATATATAGGTAAG
1 ATTTTATGTCAAAATTATCCTCCAATATATAGGTAAG
9401962 ATTT
1 ATTT
9401966 CATGAACATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 9 0.26
37 25 0.74
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (37 bp):
ATTTTATGTCAAAATTATCCTCCAATATATAGGTAAG
Found at i:9404229 original size:33 final size:32
Alignment explanation
Indices: 9404184--9404293 Score: 105
Period size: 33 Copynumber: 3.4 Consensus size: 32
9404174 TAGTCTAAAC
*
9404184 CAAAGTAAAAAATAAAATAACTTGG-TCTTAGT
1 CAAAGTTAAAAATAAAATAACTTGGAT-TTAGT
* * *
9404216 TAAAGTTAGAAAATAATATGACTTGGATTTAGT
1 CAAAGTTA-AAAATAAAATAACTTGGATTTAGT
* * * *
9404249 CAAAGTTAAAACATGAAATAACTTAGACTTAGC
1 CAAAGTTAAAA-ATAAAATAACTTGGATTTAGT
*
9404282 CAAAGTTGAAAA
1 CAAAGTTAAAAA
9404294 GGAAAAAAAC
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
32 10 0.16
33 52 0.83
34 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (32 bp):
CAAAGTTAAAAATAAAATAACTTGGATTTAGT
Found at i:9404813 original size:132 final size:128
Alignment explanation
Indices: 9404399--9404862 Score: 347
Period size: 132 Copynumber: 3.6 Consensus size: 128
9404389 ACTAAGTTAG
* * * *
9404399 GGTTGAAAAATAAGCGATCAAGATTAAACCGCAAGTTAGAAAATTAAATTACCTAGACT-ACATT
1 GGTTG-AAAATAAGTGATCAAGACTAAACCGCAAGTTAGAAAATTAAATGACCTAGACTGA-ACT
* * *
9404463 GAGGTCAAAAAATAAGTGA-TCAGAACTGAATCGCA-AAGTCAAAAAATTAAATGACTTGGACTG
64 AAGGTAAAAAAATAAGTGACT-AG-A-TG-A-C-CATAAGTCAAAAAATAAAATGACTTGGACTG
* *
9404526 AGCTAA
123 AACCAA
** ** * ** * * * *
9404532 GGTCAAAAATAAAAGATCAAGACTGAACCATAAGTCAGAAAATTAAAATGTCCTAAGAGTGAACC
1 GGTTGAAAATAAGTGATCAAGACTAAACCGCAAGTTAGAAAATT-AAATGACCT-AGACTGAACT
* * * * *
9404597 AAGGTAAAAAAATAA--GACT-GA--ACCATAAGTCAGAATATAAAATCACCTGGACTAAACCAA
64 AAGGTAAAAAAATAAGTGACTAGATGACCATAAGTCAAAAAATAAAATGACTTGGACTGAACCAA
* *** * *
9404657 AGTTGAAAATAAGTGATTGGGACTAAACCGCAAGTTAGAAAATTAAAATGACCTGGATTGAACTA
1 GGTTGAAAATAAGTGATCAAGACTAAACCGCAAGTTAGAAAATT-AAATGACCTAGACTGAACTA
* *
9404722 AGGT-AAAAAATAAGTGACTGAGAGTGAGCCATAAGTCAAAAAAATGAAATGACTTGGACTGAAT
65 AGGTAAAAAAATAAGTGACT-AGA-TGA-CCATAAGTC-AAAAAATAAAATGACTTGGACTGAAC
9404786 CAA
126 CAA
** * * *
9404789 GGTTGAAAATAAGTGA-CGAAGACT-AAGTGTGAAGTTAGAAAATTAAATGACCTAGACTAAATT
1 GGTTGAAAATAAGTGATC-AAGACTAAACCG-CAAGTTAGAAAATTAAATGACCTAGACTGAACT
*
9404852 GAGGTAAAAAA
64 AAGGTAAAAAA
9404863 TTAAACTAGG
Statistics
Matches: 255, Mismatches: 59, Indels: 35
0.73 0.17 0.10
Matches are distributed among these distances:
123 9 0.04
124 14 0.05
125 72 0.28
126 1 0.00
127 2 0.01
130 2 0.01
131 32 0.13
132 93 0.36
133 11 0.04
134 18 0.07
135 1 0.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.21
Consensus pattern (128 bp):
GGTTGAAAATAAGTGATCAAGACTAAACCGCAAGTTAGAAAATTAAATGACCTAGACTGAACTAA
GGTAAAAAAATAAGTGACTAGATGACCATAAGTCAAAAAATAAAATGACTTGGACTGAACCAA
Found at i:9406282 original size:24 final size:24
Alignment explanation
Indices: 9406255--9406308 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
9406245 TTCATTTTTC
9406255 CTTTCATCTTACAATCTCACTATT
1 CTTTCATCTTACAATCTCACTATT
* *
9406279 CTTTCATCTTACAATCTCATTTTT
1 CTTTCATCTTACAATCTCACTATT
9406303 CTTTCA
1 CTTTCA
9406309 ATTTTCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.28, G:0.00, T:0.50
Consensus pattern (24 bp):
CTTTCATCTTACAATCTCACTATT
Found at i:9406943 original size:26 final size:26
Alignment explanation
Indices: 9406907--9406957 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
9406897 AAACACGAGG
9406907 TAAATAAAAGATAAACACATGAAAAC
1 TAAATAAAAGATAAACACATGAAAAC
*
9406933 TAAATACAAGATAAACACATGAAAA
1 TAAATAAAAGATAAACACATGAAAA
9406958 ACTATCTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.65, C:0.12, G:0.08, T:0.16
Consensus pattern (26 bp):
TAAATAAAAGATAAACACATGAAAAC
Found at i:9408780 original size:16 final size:15
Alignment explanation
Indices: 9408759--9408791 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
9408749 TAGATATTAT
9408759 AAATATTTAAATATCA
1 AAATATTTAAATA-CA
9408775 AAATATTTAAATACA
1 AAATATTTAAATACA
9408790 AA
1 AA
9408792 TGCCAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATATTTAAATACA
Found at i:9413452 original size:4 final size:4
Alignment explanation
Indices: 9413443--9413482 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
9413433 AGCAAAATCT
*
9413443 TTAA TTAA TTAA TTAA -TAA GTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
9413483 ACCTTTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
3 3 0.09
4 31 0.91
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (4 bp):
TTAA
Found at i:9413913 original size:17 final size:17
Alignment explanation
Indices: 9413893--9413925 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9413883 TTAGAAAATT
9413893 TAAGAAA-ATAGAAATAA
1 TAAGAAATA-AGAAATAA
9413910 TAAGAAATAAGAAATA
1 TAAGAAATAAGAAATA
9413926 TAGCTTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (17 bp):
TAAGAAATAAGAAATAA
Found at i:9417882 original size:24 final size:23
Alignment explanation
Indices: 9417829--9417874 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9417819 TCCACATCGT
*
9417829 ATCTTTTTTTTTCATTTTTTGCC
1 ATCTTTTTTTTTCATTTTTTACC
9417852 ATCTTTTTTTTTGCATTTTTTAC
1 ATCTTTTTTTTT-CATTTTTTAC
9417875 TTTTTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.11, C:0.15, G:0.04, T:0.70
Consensus pattern (23 bp):
ATCTTTTTTTTTCATTTTTTACC
Found at i:9418514 original size:16 final size:18
Alignment explanation
Indices: 9418494--9418562 Score: 69
Period size: 16 Copynumber: 4.2 Consensus size: 18
9418484 ATTTTAATTA
9418494 ATTTATCATT-TATTATT
1 ATTTATCATTATATTATT
9418511 -TTTAT-ATTATATTATT
1 ATTTATCATTATATTATT
*
9418527 ATTTTTCATTATA-TATT
1 ATTTATCATTATATTATT
* *
9418544 ATATAT-ACT-TATTATT
1 ATTTATCATTATATTATT
9418560 ATT
1 ATT
9418563 AGTTCATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 5 0.12
16 20 0.47
17 12 0.28
18 6 0.14
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTATCATTATATTATT
Found at i:9418541 original size:20 final size:19
Alignment explanation
Indices: 9418503--9418545 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
9418493 AATTTATCAT
9418503 TTATTATTTTTATATTATA
1 TTATTATTTTTATATTATA
*
9418522 TTATTATTTTT-CATTATA
1 TTATTATTTTTATATTATA
9418540 -TATTAT
1 TTATTAT
9418546 ATATACTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 11 0.48
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTATTTTTATATTATA
Found at i:9420830 original size:63 final size:63
Alignment explanation
Indices: 9420700--9420832 Score: 169
Period size: 63 Copynumber: 2.1 Consensus size: 63
9420690 TTTAGGGTTA
* * * *
9420700 ATATTTTTATAAAAAGATTATTTAAGGCGTTTTTGTATAAAAAATACCATTAACAATTATTTT
1 ATATTTTTATAAAAAGATTATTTAAAGCGTTTTTGTACAAAAAACACCATTAACAATTATTTC
* * * * *
9420763 ATATTTTTATAAATAGATTATTTAAAGTGTTTTTGTACAAAAAACATC-TTAAATAATTCTTTC
1 ATATTTTTATAAAAAGATTATTTAAAGCGTTTTTGTACAAAAAACACCATT-AACAATTATTTC
9420826 ATATTTT
1 ATATTTT
9420833 AGAGTTTAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
62 2 0.03
63 58 0.97
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (63 bp):
ATATTTTTATAAAAAGATTATTTAAAGCGTTTTTGTACAAAAAACACCATTAACAATTATTTC
Found at i:9423664 original size:17 final size:18
Alignment explanation
Indices: 9423635--9423672 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
9423625 ACGAAGAAGC
9423635 AAATAAGTAAGATAAAAT
1 AAATAAGTAAGATAAAAT
9423653 AAATAA-TAAGATAAAAT
1 AAATAAGTAAGATAAAAT
9423670 AAA
1 AAA
9423673 GAGGTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAGTAAGATAAAAT
Found at i:9426167 original size:23 final size:22
Alignment explanation
Indices: 9426140--9426182 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9426130 CTCTTTTCAA
*
9426140 ATTTTATGTCTTGAAAACAAATC
1 ATTTTAT-TCTTAAAAACAAATC
*
9426163 ATTTTATTTTTAAAAACAAA
1 ATTTTATTCTTAAAAACAAA
9426183 AATAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (22 bp):
ATTTTATTCTTAAAAACAAATC
Found at i:9426667 original size:17 final size:16
Alignment explanation
Indices: 9426647--9426690 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
9426637 TTCATTTAGG
*
9426647 GTTTAGGGTTAGTTTAA
1 GTTTAGGGTTAGTCT-A
*
9426664 GTTTATGGGCTAGTCTA
1 GTTTA-GGGTTAGTCTA
9426681 GTTTAGGGTT
1 GTTTAGGGTT
9426691 TATCTTAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.18, C:0.05, G:0.32, T:0.45
Consensus pattern (16 bp):
GTTTAGGGTTAGTCTA
Found at i:9427055 original size:19 final size:19
Alignment explanation
Indices: 9427007--9427075 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
9426997 CTTAGGTTGA
* *
9427007 CTTAGGGTTTAAGACTTTAG
1 CTTAGGGTTTAGGA-TTTGG
* *
9427027 ATTAGAGTTTAGGATTTGG
1 CTTAGGGTTTAGGATTTGG
9427046 CTTAGGGTTTAGGATTTGG
1 CTTAGGGTTTAGGATTTGG
9427065 -TATAGGGTTTA
1 CT-TAGGGTTTA
9427076 AGTTTTTGTG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 1 0.02
19 30 0.71
20 11 0.26
ACGTcount: A:0.23, C:0.04, G:0.30, T:0.42
Consensus pattern (19 bp):
CTTAGGGTTTAGGATTTGG
Found at i:9427089 original size:19 final size:19
Alignment explanation
Indices: 9427009--9427093 Score: 66
Period size: 19 Copynumber: 4.4 Consensus size: 19
9426999 TAGGTTGACT
*
9427009 TAGGGTTTAAGACTTTAG-A
1 TAGGGTTTAAGA-TTTGGTA
* *
9427028 TTAGAGTTTAGGATTTGGCT-
1 -TAGGGTTTAAGATTTGG-TA
*
9427048 TAGGGTTTAGGATTTGGTA
1 TAGGGTTTAAGATTTGGTA
* * *
9427067 TAGGGTTTAAGTTTTTGTG
1 TAGGGTTTAAGATTTGGTA
9427086 TAGGGTTT
1 TAGGGTTT
9427094 GATTTAGGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
18 1 0.02
19 43 0.80
20 10 0.19
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.45
Consensus pattern (19 bp):
TAGGGTTTAAGATTTGGTA
Found at i:9429803 original size:50 final size:50
Alignment explanation
Indices: 9429621--9429796 Score: 234
Period size: 50 Copynumber: 3.5 Consensus size: 50
9429611 TTTTAAAGTA
*
9429621 AAAAATCTCATATTTG-AAAAGC-TCTTTTAAATAAAGGC-TATGAAATTTT
1 AAAAATCTCATATTTGAAAAAGCTTC-TTTAAATAGAGGCTTA-GAAATTTT
* *
9429670 AAAAATCTCATTTTTGAAAAAG-TTCATTTAAATAGAGGCTTAGAAACTTT
1 AAAAATCTCATATTTGAAAAAGCTTC-TTTAAATAGAGGCTTAGAAATTTT
* *
9429720 AAAAATCTCATCTTTGAAAAAGCTTTTTTAAATAGAGGCTTAGAAATTTT
1 AAAAATCTCATATTTGAAAAAGCTTCTTTAAATAGAGGCTTAGAAATTTT
* *
9429770 AAAAATCTTATAATTGAAAAAGCTTCT
1 AAAAATCTCATATTTGAAAAAGCTTCT
9429797 CCAAATATAT
Statistics
Matches: 112, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
49 15 0.13
50 93 0.83
51 4 0.04
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (50 bp):
AAAAATCTCATATTTGAAAAAGCTTCTTTAAATAGAGGCTTAGAAATTTT
Found at i:9437236 original size:29 final size:31
Alignment explanation
Indices: 9437170--9437237 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 31
9437160 TGAATCATTT
*
9437170 TTAAATTAAAAAAATATATTTAATGTAATAT
1 TTAAATTAAAAAAATATATTTAATGTAATAC
* ** *
9437201 TTGAATTTTAAAAAT-T-TTTAATTTAATAC
1 TTAAATTAAAAAAATATATTTAATGTAATAC
9437230 TTAAATTA
1 TTAAATTA
9437238 TGAATTGGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 17 0.57
30 1 0.03
31 12 0.40
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (31 bp):
TTAAATTAAAAAAATATATTTAATGTAATAC
Found at i:9437601 original size:27 final size:27
Alignment explanation
Indices: 9437549--9437603 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
9437539 ACGAATAATT
*
9437549 TTTTTAAATATTATATTAATTAATAAA
1 TTTTTAAATAATATATTAATTAATAAA
9437576 TTTTTAATATAATAT-TTGAATT-ATAAA
1 TTTTTAA-ATAATATATT-AATTAATAAA
9437603 T
1 T
9437604 ATATTTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTTTAAATAATATATTAATTAATAAA
Found at i:9444293 original size:15 final size:14
Alignment explanation
Indices: 9444273--9444314 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
9444263 TCAAAAATTA
9444273 GGGTCTTGATTTTAG
1 GGGTCTTGATTTT-G
9444288 GGGTCTTGAATTTTG
1 GGGTCTTG-ATTTTG
*
9444303 GGGTCTGGATTT
1 GGGTCTTGATTT
9444315 AAAGGTTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 4 0.16
15 16 0.64
16 5 0.20
ACGTcount: A:0.12, C:0.07, G:0.36, T:0.45
Consensus pattern (14 bp):
GGGTCTTGATTTTG
Found at i:9444343 original size:15 final size:15
Alignment explanation
Indices: 9444325--9444432 Score: 81
Period size: 16 Copynumber: 6.9 Consensus size: 15
9444315 AAAGGTTGTA
*
9444325 ATTTTAGGATTTTGG
1 ATTTTAGGGTTTTGG
*
9444340 ATTTTAAGGGGTTTGG
1 ATTTT-AGGGTTTTGG
* **
9444356 ATTTAAGGGTTTAAAG
1 ATTTTAGGGTTT-TGG
* *
9444372 ATTTTAGGGTTTCGA
1 ATTTTAGGGTTTTGG
*
9444387 ATTTTAGGGGGTTTGG
1 ATTTTA-GGGTTTTGG
* *
9444403 ATTTAAGAGATTTTGG
1 ATTTTAG-GGTTTTGG
9444419 ATTTTAGGGGTTTT
1 ATTTTA-GGGTTTT
9444433 AGAATCCTAT
Statistics
Matches: 70, Mismatches: 18, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
15 18 0.26
16 51 0.73
17 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (15 bp):
ATTTTAGGGTTTTGG
Found at i:9444392 original size:47 final size:44
Alignment explanation
Indices: 9444280--9444427 Score: 131
Period size: 47 Copynumber: 3.2 Consensus size: 44
9444270 TTAGGGTCTT
* *
9444280 GATTTTAGGGGTCTTGAATTTT-GGGGTCTGGATTTAAAGGTTGTA
1 GATTTTA-GGGT-TTGAATTTTAGGGGTTTGGATTTAAGGGTTGTA
* *
9444325 -ATTTTAGGATTTTGGATTTTAAGGGGTTTGGATTTAAGGGTT-TAAA
1 GATTTTAGG-GTTTGAATTTT-AGGGGTTTGGATTTAAGGGTTGT--A
* * *
9444371 GATTTTAGGGTTTCGAATTTTAGGGGGTTTGGATTTAAGAGATTTTG
1 GATTTTAGGGTTT-GAATTTTA-GGGGTTTGGATTTAAG-GGTTGTA
9444418 GATTTTAGGG
1 GATTTTAGGG
9444428 GTTTTAGAAT
Statistics
Matches: 85, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
43 10 0.12
44 8 0.09
45 18 0.21
46 5 0.06
47 40 0.47
48 3 0.04
49 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.44
Consensus pattern (44 bp):
GATTTTAGGGTTTGAATTTTAGGGGTTTGGATTTAAGGGTTGTA
Found at i:9445894 original size:14 final size:13
Alignment explanation
Indices: 9445864--9445905 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
9445854 GCCACCCTAC
*
9445864 TTTCTGTTT-TTT
1 TTTCTCTTTCTTT
*
9445876 TTTCTTTTTCTTAT
1 TTTCTCTTTCTT-T
9445890 TTTCTCTTTCTTT
1 TTTCTCTTTCTTT
9445903 TTT
1 TTT
9445906 TTAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 8 0.31
13 6 0.23
14 12 0.46
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTCTCTTTCTTT
Found at i:9445906 original size:14 final size:14
Alignment explanation
Indices: 9445872--9445906 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9445862 ACTTTCTGTT
*
9445872 TTTTTTTCTTTTTC
1 TTTTTTTCTCTTTC
*
9445886 TTATTTTCTCTTTC
1 TTTTTTTCTCTTTC
9445900 TTTTTTT
1 TTTTTTT
9445907 TAATAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTCTCTTTC
Found at i:9446367 original size:86 final size:89
Alignment explanation
Indices: 9446193--9446383 Score: 262
Period size: 86 Copynumber: 2.2 Consensus size: 89
9446183 TCTAGAAATC
* * *
9446193 ATGCCCGGAGGTCTTATAGAATCGACTTGGACAATACCACAAGTCAAAAAATAAAAGAATCTATC
1 ATGCCCGGAGGTCTTACAAAATCGACTTGGACAACACCACAAGTCAAAAAATAAAAGAATCTATC
*
9446258 GGGATAACATCACGAATCGAATTT
66 GGGATAACATCACAAATCGAATTT
* * * ** * *
9446282 ATGCCTGGAGGTCTTACAAAATCGAC-TGGACTACACCGCAAGTTGAAAAATAAGA-AATC-ATT
1 ATGCCCGGAGGTCTTACAAAATCGACTTGGACAACACCACAAGTCAAAAAATAAAAGAATCTATC
9446344 GGGATAACATCACAAATCGAATTT
66 GGGATAACATCACAAATCGAATTT
9446368 ATGCCCGGAGGTCTTA
1 ATGCCCGGAGGTCTTA
9446384 GAAATCATGT
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
86 40 0.44
87 4 0.04
88 23 0.26
89 23 0.26
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (89 bp):
ATGCCCGGAGGTCTTACAAAATCGACTTGGACAACACCACAAGTCAAAAAATAAAAGAATCTATC
GGGATAACATCACAAATCGAATTT
Found at i:9446404 original size:22 final size:24
Alignment explanation
Indices: 9446376--9446428 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
9446366 TTATGCCCGG
* *
9446376 AGGTCTTA-GAAATCATG-TCTAA
1 AGGTCTTATAAAATCATGCTCGAA
9446398 AGGTCTTATAAAATCATGCTCGAA
1 AGGTCTTATAAAATCATGCTCGAA
9446422 A-GTCTTA
1 AGGTCTTA
9446429 CAGAATCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 8 0.30
23 14 0.52
24 5 0.19
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (24 bp):
AGGTCTTATAAAATCATGCTCGAA
Found at i:9446435 original size:23 final size:22
Alignment explanation
Indices: 9446376--9446435 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
9446366 TTATGCCCGG
* *
9446376 AGGTCTTAGAAATCATGTCTAA
1 AGGTCTTACAAATCATGTCGAA
*
9446398 AGGTCTTATAAAATCATGCTCGAA
1 AGGTCTTA-CAAATCATG-TCGAA
9446422 A-GTCTTACAGAATC
1 AGGTCTTACA-AATC
9446436 GATTGAGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 9 0.28
23 18 0.56
24 5 0.16
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (22 bp):
AGGTCTTACAAATCATGTCGAA
Found at i:9446604 original size:110 final size:110
Alignment explanation
Indices: 9446398--9446977 Score: 587
Period size: 110 Copynumber: 5.3 Consensus size: 110
9446388 TCATGTCTAA
* * * * * *
9446398 AGGTCTTATAAAATCATGCTCGAAAGTCTTACAGAATCGATTGAGATAATA-TCGTAAGTCAAAA
1 AGGTCTTA-GAAATCATGCTCGAAGGTCTTACAGAATCGACTGGGATAACACT-GCAAGTCAAAA
* * *
9446462 GATAAAGAATCGATCGGGCTAACACCGTGAATCGAATTTATGCCCGG
64 GATAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCCGG
* * *
9446509 AGGTTTTAGAAATCATG-TCGAAAGGTCTTACAGAATCGACTAGGATAACACTGCAAGAT-GAAA
1 AGGTCTTAGAAATCATGCTCG-AAGGTCTTACAGAATCGACTGGGATAACACTGCAAG-TCAAAA
* * * *
9446572 GATAAAGAATCAATTGAGATAACACCGCGAATCGAAATTATGCCCAG
64 GATAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCCGG
* * * * * *
9446619 AGGTCTTAGAAATCATGCTCAAAGGTCTTACAGAATTGATTGGGACAACACCGCAAGTCAAAAAA
1 AGGTCTTAGAAATCATGCTCGAAGGTCTTACAGAATCGACTGGGATAACACTGCAAGTCAAAAGA
* * * *
9446684 TAAAGAATCGATTGGGATAACACCGCGAATTGAAATTATGCCTGA
66 TAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCCGG
* * * *
9446729 AAGTCTTAGAAATCATGCTCGGAGGTCTTACAAAATCGACTGAGATAACA-TCGCAAGTCAAAAG
1 AGGTCTTAGAAATCATGCTCGAAGGTCTTACAGAATCGACTGGGATAACACT-GCAAGTCAAAAG
* ** * * **
9446793 AT-AAGAAATCAATCGAAATAATATCGCGAATCGAAATTATGCCCAA
65 ATAAAG-AATCGATCGGGATAACACCGCGAATCGAAATTATGCCCGG
* * * * * * * * *
9446839 AGGTCTTAAAAATCATGTTCGGAGGCCTTACAGAATCAACTGGGACAACACCGTAAGTCAAAAAA
1 AGGTCTTAGAAATCATGCTCGAAGGTCTTACAGAATCGACTGGGATAACACTGCAAGTCAAAAGA
* * * * *
9446904 TAAAGAATTGATCGGGATAACATCAC-AATCAAAATTATGCTCGG
66 TAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCCGG
* *
9446948 AGGTTTTAGAAATCATGCCCGAAGGTCTTA
1 AGGTCTTAGAAATCATGCTCGAAGGTCTTA
9446978 AAAATCATGC
Statistics
Matches: 383, Mismatches: 77, Indels: 20
0.80 0.16 0.04
Matches are distributed among these distances:
109 45 0.12
110 324 0.85
111 14 0.04
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (110 bp):
AGGTCTTAGAAATCATGCTCGAAGGTCTTACAGAATCGACTGGGATAACACTGCAAGTCAAAAGA
TAAAGAATCGATCGGGATAACACCGCGAATCGAAATTATGCCCGG
Found at i:9446630 original size:22 final size:22
Alignment explanation
Indices: 9446605--9446648 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9446595 ACCGCGAATC
* *
9446605 GAAATTATGCCCAGAGGTCTTA
1 GAAATCATGCCCAAAGGTCTTA
*
9446627 GAAATCATGCTCAAAGGTCTTA
1 GAAATCATGCCCAAAGGTCTTA
9446649 CAGAATTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (22 bp):
GAAATCATGCCCAAAGGTCTTA
Found at i:9446634 original size:220 final size:220
Alignment explanation
Indices: 9446396--9446983 Score: 715
Period size: 220 Copynumber: 2.7 Consensus size: 220
9446386 AATCATGTCT
* * * *
9446396 AAAGGTCTTATAAAATCATGCTCGAAAGTCTTACAGAATCGATTGAGATAATATCGTAAGTCAAA
1 AAAGGTCTTA-AAAATCATGCTCGAAAGTCTTACAGAATCGATTGGGACAACACCGTAAGTCAAA
* * * *
9446461 AGATAAAGAATCGATCGGGCTAACACCGTGAATCGAATTTATGCCCGGAGGTTTTAGAAATCATG
65 AAATAAAGAATCGATCGGGATAACACCGAGAATCGAAATTATGCCCGGAGGTTTTAGAAATCATG
* *
9446526 -TCGAAAGGTCTTACAGAATCGACT-AGGATAACA-CTGCAAGAT-GAAAGATAA-AGAATCAAT
130 CTCG-AAGGTCTTACAAAATCGACTGA-GATAACATC-GCAAG-TCAAAAGATAAGA-AATCAAT
* *
9446586 TGAGATAACACCGCGAATCGAAATTATGCCC
190 CGAAATAACACCGCGAATCGAAATTATGCCC
* * * *
9446617 AGAGGTCTTAGAAATCATGCTC-AAAGGTCTTACAGAATTGATTGGGACAACACCGCAAGTCAAA
1 AAAGGTCTTAAAAATCATGCTCGAAA-GTCTTACAGAATCGATTGGGACAACACCGTAAGTCAAA
* * * * * * *
9446681 AAATAAAGAATCGATTGGGATAACACCGCGAATTGAAATTATGCCTGAAAGTCTTAGAAATCATG
65 AAATAAAGAATCGATCGGGATAACACCGAGAATCGAAATTATGCCCGGAGGTTTTAGAAATCATG
*
9446746 CTCGGAGGTCTTACAAAATCGACTGAGATAACATCGCAAGTCAAAAGATAAGAAATCAATCGAAA
130 CTCGAAGGTCTTACAAAATCGACTGAGATAACATCGCAAGTCAAAAGATAAGAAATCAATCGAAA
* *
9446811 TAATATCGCGAATCGAAATTATGCCC
195 TAACACCGCGAATCGAAATTATGCCC
* * * * * *
9446837 AAAGGTCTTAAAAATCATGTTCGGAGGCCTTACAGAATCAACTGGGACAACACCGTAAGTCAAAA
1 AAAGGTCTTAAAAATCATGCTCGAAAGTCTTACAGAATCGATTGGGACAACACCGTAAGTCAAAA
* * * * *
9446902 AATAAAGAATTGATCGGGATAACATC-ACAATCAAAATTATGCTCGGAGGTTTTAGAAATCATGC
66 AATAAAGAATCGATCGGGATAACACCGAGAATCGAAATTATGCCCGGAGGTTTTAGAAATCATGC
*
9446966 CCGAAGGTCTTA-AAAATC
131 TCGAAGGTCTTACAAAATC
9446984 ATGCTCGGAG
Statistics
Matches: 311, Mismatches: 49, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
218 6 0.02
219 43 0.14
220 246 0.79
221 16 0.05
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (220 bp):
AAAGGTCTTAAAAATCATGCTCGAAAGTCTTACAGAATCGATTGGGACAACACCGTAAGTCAAAA
AATAAAGAATCGATCGGGATAACACCGAGAATCGAAATTATGCCCGGAGGTTTTAGAAATCATGC
TCGAAGGTCTTACAAAATCGACTGAGATAACATCGCAAGTCAAAAGATAAGAAATCAATCGAAAT
AACACCGCGAATCGAAATTATGCCC
Found at i:9446965 original size:22 final size:22
Alignment explanation
Indices: 9446934--9446999 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
9446924 CATCACAATC
*
9446934 AAAATTATGCTCGGAGGTTTTA
1 AAAATCATGCTCGGAGGTTTTA
* * * *
9446956 GAAATCATGCCCGAAGGTCTTA
1 AAAATCATGCTCGGAGGTTTTA
9446978 AAAATCATGCTCGGAGGTTTTA
1 AAAATCATGCTCGGAGGTTTTA
9447000 CAGAATCGAC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (22 bp):
AAAATCATGCTCGGAGGTTTTA
Found at i:9447033 original size:131 final size:132
Alignment explanation
Indices: 9446825--9447115 Score: 370
Period size: 131 Copynumber: 2.2 Consensus size: 132
9446815 ATCGCGAATC
* * *
9446825 GAAATTATGCCCAAAGGTCTTAAAAATCATGTTCGGAGGCCTTACAGAATCAACTGGGACAACAC
1 GAAATCATGCCCGAAGGTCTTAAAAATCATGCTCGGAGGCCTTACAGAATCAACTGGGACAACAC
* * * * * *
9446890 CGTAAGTCAAAAAATAAAGAATTGATCGGGATAACATCA-CAATCAAAATTATG-CTCGGAGGTT
66 CGCAAGTCAAAAAATAAAGAATCGATCGGGACAACATCATCAATCAAAATTATGCCT-AGAGCTC
9446953 TTA
130 TTA
** * *
9446956 GAAATCATGCCCGAAGGTCTTAAAAATCATGCTCGGAGGTTTTACAGAATCGACTGGGATAACAC
1 GAAATCATGCCCGAAGGTCTTAAAAATCATGCTCGGAGGCCTTACAGAATCAACTGGGACAACAC
* * * * *
9447021 CGCAAGTTAAAAAATAAAGAATCGATCGGGACAACATTATGAATCGAATTTATGCCTAGAGCTCT
66 CGCAAGTCAAAAAATAAAGAATCGATCGGGACAACATCATCAATCAAAATTATGCCTAGAGCTCT
9447086 TA
131 TA
* * *
9447088 GGAATCATGCCCGGAGGTCTTACAAATC
1 GAAATCATGCCCGAAGGTCTTAAAAATC
9447116 TCAAAATCTT
Statistics
Matches: 137, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
131 92 0.67
132 43 0.31
133 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (132 bp):
GAAATCATGCCCGAAGGTCTTAAAAATCATGCTCGGAGGCCTTACAGAATCAACTGGGACAACAC
CGCAAGTCAAAAAATAAAGAATCGATCGGGACAACATCATCAATCAAAATTATGCCTAGAGCTCT
TA
Found at i:9447238 original size:22 final size:22
Alignment explanation
Indices: 9447213--9447255 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9447203 CGCAGATGCT
9447213 TTAGAAATTATGCCCGAAGGTC
1 TTAGAAATTATGCCCGAAGGTC
* *
9447235 TTAGAGATTATGCCCGGAGGT
1 TTAGAAATTATGCCCGAAGGT
9447256 TTTACAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (22 bp):
TTAGAAATTATGCCCGAAGGTC
Found at i:9447341 original size:150 final size:150
Alignment explanation
Indices: 9447094--9447375 Score: 483
Period size: 150 Copynumber: 1.9 Consensus size: 150
9447084 CTTAGGAATC
* * * *
9447094 ATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGTTCCTCTTAATCAGGGGCAATGAAACT
1 ATGCCCGGAGGTCTTACAAAACTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACT
* *
9447159 TTAAAAATTTTAAAATCTTTTACTTAAAAGTCTTGAAAGTTATGCGCAGATGCTTTAGAAATTAT
66 TTAAAAATTTGAAAATCTTTTACTTAAAAGTCTTGAAAGTTATGCGCAGAGGCTTTAGAAATTAT
9447224 GCCCGAAGGTCTTAGAGATT
131 GCCCGAAGGTCTTAGAGATT
* *
9447244 ATGCCCGGAGGTTTTACAAAACTCAAAATCTTTGAATGCTCCTCATAATCAGAGGTAATGAAACT
1 ATGCCCGGAGGTCTTACAAAACTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACT
*
9447309 TTAAAAATTTGAAAATCTTTTACTTAAAAGTCTTGAAAGTTATGCGCAGAGGCTTTAGAGATTAT
66 TTAAAAATTTGAAAATCTTTTACTTAAAAGTCTTGAAAGTTATGCGCAGAGGCTTTAGAAATTAT
9447374 GC
131 GC
9447376 TCGGAAGTTT
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
150 123 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (150 bp):
ATGCCCGGAGGTCTTACAAAACTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACT
TTAAAAATTTGAAAATCTTTTACTTAAAAGTCTTGAAAGTTATGCGCAGAGGCTTTAGAAATTAT
GCCCGAAGGTCTTAGAGATT
Found at i:9451428 original size:22 final size:22
Alignment explanation
Indices: 9451402--9451450 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
9451392 GCAGGGATAA
9451402 GAGCAATGAGGTAGTTCCCTAG
1 GAGCAATGAGGTAGTTCCCTAG
9451424 GAGCAATGAGGTAGTTCCCTAG
1 GAGCAATGAGGTAGTTCCCTAG
9451446 GAGCA
1 GAGCA
9451451 GCGAATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.20
Consensus pattern (22 bp):
GAGCAATGAGGTAGTTCCCTAG
Found at i:9454800 original size:15 final size:15
Alignment explanation
Indices: 9454725--9454844 Score: 100
Period size: 16 Copynumber: 7.9 Consensus size: 15
9454715 GAAGATTCAA
* * *
9454725 ATTTTAGAGTCTTCG
1 ATTTTAGGGTTTTGG
*
9454740 ATTTTAGGAGTTTTGA
1 ATTTTAGG-GTTTTGG
*
9454756 ATTTTAGGG-TATGG
1 ATTTTAGGGTTTTGG
* * *
9454770 ATTTAAAGG-TTGGG
1 ATTTTAGGGTTTTGG
9454784 ATTTTAGGGTTTTGG
1 ATTTTAGGGTTTTGG
*
9454799 ATTTTATGGGGTTTGG
1 ATTTTA-GGGTTTTGG
*
9454815 ATTTAAGGGATTTTGG
1 ATTTTAGGG-TTTTGG
9454831 ATTTTAGGGGTTTT
1 ATTTTA-GGGTTTT
9454845 AGAATCCTAT
Statistics
Matches: 83, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
14 20 0.24
15 21 0.25
16 39 0.47
17 3 0.04
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (15 bp):
ATTTTAGGGTTTTGG
Found at i:9454841 original size:31 final size:31
Alignment explanation
Indices: 9454777--9454843 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
9454767 TGGATTTAAA
* *
9454777 GGTTGGGATTTTAGGGTTTTGGATTTTATGG
1 GGTTTGGATTTAAGGGTTTTGGATTTTATGG
9454808 GGTTTGGATTTAAGGGATTTTGGATTTTA-GG
1 GGTTTGGATTTAAGGG-TTTTGGATTTTATGG
9454839 GGTTT
1 GGTTT
9454844 TAGAATCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (31 bp):
GGTTTGGATTTAAGGGTTTTGGATTTTATGG
Found at i:9455254 original size:34 final size:33
Alignment explanation
Indices: 9455215--9455286 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 33
9455205 ATCATACATA
9455215 AATATA-AAAAAATACTT-AAAATAATAAAAATAAT
1 AATATATAAAAAAT--TTAAAAATAA-AAAAATAAT
9455249 AATATATAAAAAATTTAAAAATAAAAAAAT-AT
1 AATATATAAAAAATTTAAAAATAAAAAAATAAT
9455281 -ATATAT
1 AATATAT
9455287 TTTTTTACCT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
31 6 0.17
32 2 0.06
33 8 0.22
34 13 0.36
35 7 0.19
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (33 bp):
AATATATAAAAAATTTAAAAATAAAAAAATAAT
Found at i:9462302 original size:3 final size:3
Alignment explanation
Indices: 9462296--9462365 Score: 56
Period size: 3 Copynumber: 24.0 Consensus size: 3
9462286 ACAATAATTT
* * * *
9462296 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA AAA AAA TATT TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
* *
9462341 -AA TAT TAT TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
9462366 AAAAAAGAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 6 0.11
3 48 0.86
4 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9462381 original size:40 final size:41
Alignment explanation
Indices: 9462308--9462384 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 41
9462298 ATAATAATAA
* ***
9462308 TAATAATAACAATAATAAAAAAAATATTTAAAAAATATTAT
1 TAATAATAACAATAATAAAAAAAAGAGACAAAAAATATTAT
*
9462349 TAATAAT-ATAATAATAAAAAAAAGAGACAAAAAATA
1 TAATAATAACAATAATAAAAAAAAGAGACAAAAAATA
9462385 AAGGGCTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 24 0.77
41 7 0.23
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (41 bp):
TAATAATAACAATAATAAAAAAAAGAGACAAAAAATATTAT
Found at i:9462539 original size:12 final size:12
Alignment explanation
Indices: 9462522--9462547 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9462512 CATTTTTTTC
9462522 AAAAAAAGAAAA
1 AAAAAAAGAAAA
9462534 AAAAAAAGAAAA
1 AAAAAAAGAAAA
9462546 AA
1 AA
9462548 CCCTCTCAGA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:9463474 original size:3 final size:3
Alignment explanation
Indices: 9463466--9463514 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
9463456 TGCTTTAAAA
* *
9463466 AAT AAT AAT AAT GAT CTAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9463512 AAT
1 AAT
9463515 TAAAAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:9463814 original size:30 final size:30
Alignment explanation
Indices: 9463779--9463915 Score: 88
Period size: 30 Copynumber: 4.7 Consensus size: 30
9463769 TTAAATTTCA
* * *
9463779 AAACCCTAAAACCTCATAA-CCTTTAAATCC
1 AAACCCTAAAACC-CAAAATCCCTAAAATCC
*
9463809 AAACCCCAAAACCCAAAATCCCTAAAATCC
1 AAACCCTAAAACCCAAAATCCCTAAAATCC
* * * *
9463839 AAACCCTTAAA-TCAAAATCCC-AAACTTC
1 AAACCCTAAAACCCAAAATCCCTAAAATCC
***
9463867 AAATTTTAAAA-CCAAAA-CCCTAAAATCTTC
1 AAACCCTAAAACCCAAAATCCCTAAAATC--C
* *
9463897 AAACTCTAAAA-TCAAAATC
1 AAACCCTAAAACCCAAAATC
9463916 ATAAACCTTC
Statistics
Matches: 83, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
27 3 0.04
28 21 0.25
29 13 0.16
30 45 0.54
31 1 0.01
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (30 bp):
AAACCCTAAAACCCAAAATCCCTAAAATCC
Found at i:9463850 original size:14 final size:14
Alignment explanation
Indices: 9463779--9463981 Score: 70
Period size: 14 Copynumber: 13.8 Consensus size: 14
9463769 TTAAATTTCA
*
9463779 AAACCCTAAAACCTC
1 AAACCCTAAAATC-C
* *
9463794 ATAACCTTTAAATCC
1 A-AACCCTAAAATCC
* *
9463809 AAACCCCAAAACCC
1 AAACCCTAAAATCC
9463823 AAAATCCCTAAAATCC
1 -AAA-CCCTAAAATCC
* *
9463839 AAACCCTTAAATCA
1 AAACCCTAAAATCC
* *
9463853 AAATCCC-AAACTTC
1 AAA-CCCTAAAATCC
***
9463867 AAATTTTAAAA-CC
1 AAACCCTAAAATCC
9463880 AAAACCCTAAAATCTTC
1 -AAACCCTAAAATC--C
* *
9463897 AAACTCTAAAATCA
1 AAACCCTAAAATCC
* * *
9463911 AAATCATAAACCTTCC
1 AAACCCTAAA--ATCC
*
9463927 ATACCCTAAAATCC
1 AAACCCTAAAATCC
* * *
9463941 AAGCCTTAAGATCCTC
1 AAACCCTAAAAT-C-C
*
9463957 TAAACCTTAAAA-CC
1 -AAACCCTAAAATCC
9463971 AAACCCTAAAA
1 AAACCCTAAAA
9463982 CCCTCAAAAC
Statistics
Matches: 133, Mismatches: 41, Indels: 30
0.65 0.20 0.15
Matches are distributed among these distances:
13 11 0.08
14 57 0.43
15 15 0.11
16 40 0.30
17 10 0.08
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (14 bp):
AAACCCTAAAATCC
Found at i:9463861 original size:44 final size:45
Alignment explanation
Indices: 9463777--9463862 Score: 113
Period size: 44 Copynumber: 1.9 Consensus size: 45
9463767 TCTTAAATTT
* *
9463777 CAAAACCCTAAAACCTCATAACCTTTAAATCCAAACCCCAAAACC
1 CAAAACCCTAAAACCTCATAACCCTTAAATCAAAACCCCAAAACC
* *
9463822 CAAAATCCCTAAAATC-CA-AACCCTTAAATCAAAATCCCAAA
1 CAAAA-CCCTAAAACCTCATAACCCTTAAATCAAAACCCCAAA
9463863 CTTCAAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 20 0.56
45 7 0.19
46 9 0.25
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (45 bp):
CAAAACCCTAAAACCTCATAACCCTTAAATCAAAACCCCAAAACC
Found at i:9466742 original size:25 final size:23
Alignment explanation
Indices: 9466696--9466742 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
9466686 ATTGCATAAA
**
9466696 ATTAAATTATACATTTTTATTTT
1 ATTAAATTATACATTTAAATTTT
9466719 ATTATAATTATACCATTTAAATTT
1 ATTA-AATTATA-CATTTAAATTT
9466743 GAAAATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
25 9 0.45
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAAATTATACATTTAAATTTT
Found at i:9469449 original size:21 final size:21
Alignment explanation
Indices: 9469411--9469450 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9469401 AATATAACAA
* **
9469411 ATTTAAAAATTATTTTAATTT
1 ATTTAAAAAATAAATTAATTT
9469432 ATTTAAAAAATAAATTAAT
1 ATTTAAAAAATAAATTAAT
9469451 GATTGAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTAAAAAATAAATTAATTT
Found at i:9469950 original size:25 final size:24
Alignment explanation
Indices: 9469900--9469950 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
9469890 AATTTAAGTA
* *
9469900 TTAAAATAAAAAATATATAATTAT
1 TTAAAATAAAAAAAATATAATAAT
9469924 TTAAAATATAAAAAAATCA-AATAAT
1 TTAAAATA-AAAAAAAT-ATAATAAT
9469949 TT
1 TT
9469951 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 14 0.61
26 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TTAAAATAAAAAAAATATAATAAT
Found at i:9471599 original size:18 final size:18
Alignment explanation
Indices: 9471558--9471600 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
9471548 AATAAAAAAA
* *
9471558 AAATTATAATTTTATTTT
1 AAATTTTAATCTTATTTT
**
9471576 TTATTTTAATCTTATTTT
1 AAATTTTAATCTTATTTT
9471594 AAATTTT
1 AAATTTT
9471601 GTTTATATTC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
AAATTTTAATCTTATTTT
Found at i:9471626 original size:20 final size:20
Alignment explanation
Indices: 9471601--9471654 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
9471591 TTTAAATTTT
*
9471601 GTTTATATTCATTTTAGGTC
1 GTTTATATTCATTTTAAGTC
9471621 GTTTATATTCATTTTAAGTC
1 GTTTATATTCATTTTAAGTC
* *
9471641 ATTTATATTTATTT
1 GTTTATATTCATTT
9471655 ATGGTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.59
Consensus pattern (20 bp):
GTTTATATTCATTTTAAGTC
Found at i:9473845 original size:20 final size:20
Alignment explanation
Indices: 9473793--9473845 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
9473783 TAATTTAATT
* * *
9473793 TTATATTTATAATATTTAAAT
1 TTAT-TTTATATTTTTTAAAA
*
9473814 TTAATTTA-ATTTTTTAAAA
1 TTATTTTATATTTTTTAAAA
9473833 TTATTTTATATTT
1 TTATTTTATATTT
9473846 AAATTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 15 0.58
20 8 0.31
21 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTTATATTTTTTAAAA
Found at i:9473915 original size:37 final size:36
Alignment explanation
Indices: 9473838--9473910 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
9473828 TAAAATTATT
* *
9473838 TTATATTTAAATTTAATTTGATTTGTATTATATAAAA
1 TTATATTT-AATTTAATTCGATTTGAATTATATAAAA
9473875 TTATATTTAATTTAATTCGATTTGAATTA-ATAAAA
1 TTATATTTAATTTAATTCGATTTGAATTATATAAAA
9473910 T
1 T
9473911 ATTATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 7 0.21
36 19 0.56
37 8 0.24
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.52
Consensus pattern (36 bp):
TTATATTTAATTTAATTCGATTTGAATTATATAAAA
Found at i:9473938 original size:10 final size:11
Alignment explanation
Indices: 9473918--9473972 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
9473908 AATATTATTT
9473918 TTAATATAAATA
1 TTAA-ATAAATA
9473930 -TAAATAAATA
1 TTAAATAAATA
* *
9473940 TAAAATATATA
1 TTAAATAAATA
9473951 TTAATATAAA-A
1 TTAA-ATAAATA
9473962 TTAAATAAATA
1 TTAAATAAATA
9473973 ATTTAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
10 12 0.33
11 20 0.56
12 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TTAAATAAATA
Found at i:9473959 original size:33 final size:35
Alignment explanation
Indices: 9473904--9473972 Score: 99
Period size: 33 Copynumber: 2.0 Consensus size: 35
9473894 ATTTGAATTA
*
9473904 ATAAAATATTATTTTTAATAT-AAATATAAATAAAT
1 ATAAAATATTATTATTAATATAAAAT-TAAATAAAT
9473939 ATAAAATA-TA-TATTAATATAAAATTAAATAAAT
1 ATAAAATATTATTATTAATATAAAATTAAATAAAT
9473972 A
1 A
9473973 ATTTAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 18 0.56
34 6 0.19
35 8 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (35 bp):
ATAAAATATTATTATTAATATAAAATTAAATAAAT
Found at i:9477577 original size:11 final size:11
Alignment explanation
Indices: 9477563--9477700 Score: 55
Period size: 11 Copynumber: 12.9 Consensus size: 11
9477553 TTCATAAAGA
9477563 ATAAATAAATT
1 ATAAATAAATT
9477574 ATAAAT--A--
1 ATAAATAAATT
9477581 ATAAATAAATAT
1 ATAAATAAAT-T
** *
9477593 ATTCATAAATA
1 ATAAATAAATT
9477604 ATAAATAAATTAT
1 ATAAATAAA-T-T
9477617 AATTAAATAAATT
1 -A-TAAATAAATT
9477630 -TAAATAAA-T
1 ATAAATAAATT
*
9477639 GT--AT-AATT
1 ATAAATAAATT
*
9477647 ATAAAATTAAA-A
1 AT-AAA-TAAATT
* *
9477659 ATAAACAAATA
1 ATAAATAAATT
*
9477670 ATAAATGAA-T
1 ATAAATAAATT
9477680 ATAAATAAATT
1 ATAAATAAATT
*
9477691 TTAAATAAAT
1 ATAAATAAAT
9477701 GAAATTTTAA
Statistics
Matches: 95, Mismatches: 14, Indels: 36
0.66 0.10 0.25
Matches are distributed among these distances:
7 8 0.08
8 4 0.04
9 3 0.03
10 20 0.21
11 35 0.37
12 12 0.13
13 3 0.03
14 2 0.02
15 8 0.08
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (11 bp):
ATAAATAAATT
Found at i:9477604 original size:23 final size:22
Alignment explanation
Indices: 9477562--9477698 Score: 102
Period size: 23 Copynumber: 5.9 Consensus size: 22
9477552 TTTCATAAAG
9477562 AATAAATAAATTATAAATAATA
1 AATAAATAAATTATAAATAATA
*
9477584 AATAAATATATTCATAAATAATA
1 AATAAATAAATT-ATAAATAATA
*
9477607 AATAAATTATAATTAAATAAAT-TTA
1 AATAAA-TA-AATT--ATAAATAATA
9477632 AATAAATGTATAATTATAAAATTAA-A
1 AATAAA--TA-AATTAT-AAA-TAATA
* *
9477658 AATAAACAAATAATAAATGAAT-
1 AATAAATAAATTATAAAT-AATA
*
9477680 -ATAAATAAATTTTAAATAA
1 AATAAATAAATTATAAATAA
9477699 ATGAAATTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
20 2 0.02
21 15 0.16
22 16 0.17
23 21 0.22
24 5 0.05
25 14 0.15
26 21 0.22
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (22 bp):
AATAAATAAATTATAAATAATA
Found at i:9477623 original size:15 final size:14
Alignment explanation
Indices: 9477562--9477638 Score: 54
Period size: 15 Copynumber: 5.5 Consensus size: 14
9477552 TTTCATAAAG
9477562 AATAAATAAATTAT
1 AATAAATAAATTAT
9477576 AA-ATAATAAA-TA-
1 AATA-AATAAATTAT
* ** *
9477588 AATATATTCATAAAT
1 AATAAATAAAT-TAT
9477603 AATAAATAAATTAT
1 AATAAATAAATTAT
9477617 AATTAAATAAATT-T
1 AA-TAAATAAATTAT
9477631 AAATAAAT
1 -AATAAAT
9477639 GTATAATTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
12 5 0.10
13 4 0.08
14 19 0.40
15 20 0.42
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAAATAAATTAT
Found at i:9477626 original size:26 final size:26
Alignment explanation
Indices: 9477574--9477705 Score: 100
Period size: 26 Copynumber: 5.2 Consensus size: 26
9477564 TAAATAAATT
*
9477574 ATAAATAATAAATAAA-TAT-ATT-C
1 ATAAATAATAAATAAATTATAATTAA
9477597 ATAAATAATAAATAAATTATAATTAA
1 ATAAATAATAAATAAATTATAATTAA
*
9477623 ATAAAT-TTAAATAAATGTATAATTATA
1 ATAAATAATAAATAAAT-TATAATTA-A
* **
9477650 A-AATTAA-AAATAAACAAATAA-TAA
1 ATAAATAATAAATAAA-TTATAATTAA
* * *
9477674 ATGAAT-ATAAATAAATTTTAAATAA
1 ATAAATAATAAATAAATTATAATTAA
9477699 ATGAAAT
1 AT-AAAT
9477706 TTTAAATGAA
Statistics
Matches: 86, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
23 16 0.19
24 9 0.10
25 28 0.33
26 31 0.36
27 2 0.02
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
ATAAATAATAAATAAATTATAATTAA
Found at i:9477636 original size:25 final size:25
Alignment explanation
Indices: 9477605--9477717 Score: 86
Period size: 25 Copynumber: 4.4 Consensus size: 25
9477595 TCATAAATAA
9477605 TAAATAAATTATAATTAAATAAATT
1 TAAATAAATTATAATTAAATAAATT
*
9477630 TAAATAAATGTATAATTATA-AAATT
1 TAAATAAAT-TATAATTAAATAAATT
* ** * *
9477655 AAAAATAAACAAATAA-TAAATGAATA
1 -TAAATAAA-TTATAATTAAATAAATT
* *
9477681 TAAATAAATTTTAAATAAATGAAATTT
1 TAAATAAATTATAATTAAAT-AAA-TT
*
9477708 TAAATGAATT
1 TAAATAAATT
9477718 TATTCTCAAA
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
24 3 0.04
25 29 0.43
26 25 0.37
27 10 0.15
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (25 bp):
TAAATAAATTATAATTAAATAAATT
Found at i:9477700 original size:4 final size:4
Alignment explanation
Indices: 9477562--9477689 Score: 63
Period size: 4 Copynumber: 32.8 Consensus size: 4
9477552 TTTCATAAAG
* * * *
9477562 AATA AATA AAT- TATA AAT- AATA AATA AATA TATT CATA AAT- AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
* * * * * * *
9477607 AATA AAT- TATA ATTA AATA AATTTA AATA AATG TATA ATTA TA-A AATT
1 AATA AATA AATA AATA AATA AA--TA AATA AATA AATA AATA AATA AATA
*
9477655 AA-A AATA AACA AAT- AATA AATGA ATATA AATA AAT
1 AATA AATA AATA AATA AATA AAT-A A-ATA AATA AAT
9477690 TTTAAATAAA
Statistics
Matches: 90, Mismatches: 23, Indels: 22
0.67 0.17 0.16
Matches are distributed among these distances:
3 17 0.19
4 63 0.70
5 4 0.04
6 6 0.07
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (4 bp):
AATA
Found at i:9477700 original size:15 final size:16
Alignment explanation
Indices: 9477680--9477712 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9477670 ATAAATGAAT
9477680 ATAAAT-AAATTTTAA
1 ATAAATGAAATTTTAA
9477695 ATAAATGAAATTTTAA
1 ATAAATGAAATTTTAA
9477711 AT
1 AT
9477713 GAATTTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
ATAAATGAAATTTTAA
Found at i:9481378 original size:3 final size:3
Alignment explanation
Indices: 9481370--9481403 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
9481360 TTATAAGTTG
9481370 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9481404 ATAAAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9483224 original size:18 final size:17
Alignment explanation
Indices: 9483203--9483246 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
9483193 AGATTTTATG
**
9483203 AAAATTATTTATTTTCTA
1 AAAATTATTTATACT-TA
9483221 AAAATTAATTTATACTTA
1 AAAATT-ATTTATACTTA
9483239 AAAATTAT
1 AAAATTAT
9483247 AAGGTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 14 0.61
19 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (17 bp):
AAAATTATTTATACTTA
Found at i:9483651 original size:12 final size:12
Alignment explanation
Indices: 9483611--9483658 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 12
9483601 AAATATCTAC
9483611 AAATAAATACATA
1 AAATAAATA-ATA
9483624 AATAGTCAAATAAATA
1 AA-A-T-AAAT-AATA
9483640 AAATAAATAATA
1 AAATAAATAATA
9483652 AAATAAA
1 AAATAAA
9483659 CAAACAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
12 11 0.35
13 6 0.19
14 2 0.06
15 2 0.06
16 9 0.29
17 1 0.03
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:9497115 original size:4 final size:4
Alignment explanation
Indices: 9497106--9497172 Score: 64
Period size: 4 Copynumber: 16.8 Consensus size: 4
9497096 AAATAGCTAC
* ** *
9497106 AAAT AAAT AAAT ACAT -AAT AGTT AAAT AAAT AAAAT AAGT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT
* *
9497154 AAAT AAAT AGAC AAAT AAA
1 AAAT AAAT AAAT AAAT AAA
9497173 CATATTAATA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
3 2 0.04
4 43 0.88
5 4 0.08
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:9497148 original size:17 final size:17
Alignment explanation
Indices: 9497109--9497156 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 17
9497099 TAGCTACAAA
9497109 TAAATAAATACATAATAGT
1 TAAATAAATA-A-AATAGT
9497128 TAAATAAATAAAATAAG-
1 TAAATAAATAAAAT-AGT
9497145 TAAATAAATAAA
1 TAAATAAATAAA
9497157 TAAATAGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 15 0.54
18 3 0.11
19 10 0.36
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (17 bp):
TAAATAAATAAAATAGT
Found at i:9500894 original size:19 final size:19
Alignment explanation
Indices: 9500870--9500926 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
9500860 ATAATAGATG
9500870 TAATAATAAATTTTATATA
1 TAATAATAAATTTTATATA
9500889 TAATAATAAAATTTTAT-TA
1 TAATAAT-AAATTTTATATA
* *
9500908 TAAT-ATATATTTTTTATA
1 TAATAATAAATTTTATATA
9500926 T
1 T
9500927 TTTCAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 7 0.21
18 5 0.15
19 13 0.38
20 9 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATAATAAATTTTATATA
Found at i:9502263 original size:34 final size:34
Alignment explanation
Indices: 9502197--9502263 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
9502187 AATGCAAAAA
* * * * *
9502197 TTTTTGCATAACAATATTATTTTGGTTACTAAAT
1 TTTTTACATAACAACAATATTCTAGTTACTAAAT
*
9502231 TTTTTACATAACAACAATATTCTAGTTGCTAAA
1 TTTTTACATAACAACAATATTCTAGTTACTAAA
9502264 AAATATTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (34 bp):
TTTTTACATAACAACAATATTCTAGTTACTAAAT
Found at i:9502367 original size:34 final size:34
Alignment explanation
Indices: 9502321--9502392 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
9502311 AATTATAAAT
9502321 TTTGGTTATAAAAACTCTTACATAACAATATTAC
1 TTTGGTTATAAAAACTCTTACATAACAATATTAC
* * * * *
9502355 TTTGGTTGTAAAAATTTTTATATAACAATATTAT
1 TTTGGTTATAAAAACTCTTACATAACAATATTAC
9502389 TTTG
1 TTTG
9502393 ATAGCCAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (34 bp):
TTTGGTTATAAAAACTCTTACATAACAATATTAC
Found at i:9502407 original size:34 final size:34
Alignment explanation
Indices: 9502342--9502408 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
9502332 AAACTCTTAC
* * *
9502342 ATAACAATATTACTTTGGTTGTAAAAATTTTTAT
1 ATAACAATATTACTTTGATAGCAAAAATTTTTAT
* * *
9502376 ATAACAATATTATTTTGATAGCCAAATTTTTTA
1 ATAACAATATTACTTTGATAGCAAAAATTTTTA
9502409 CCTAACAACA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (34 bp):
ATAACAATATTACTTTGATAGCAAAAATTTTTAT
Found at i:9503854 original size:11 final size:11
Alignment explanation
Indices: 9503838--9503869 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
9503828 AAGGGGAATT
9503838 TTTTGGAAAAA
1 TTTTGGAAAAA
9503849 TTTTGG-AAAA
1 TTTTGGAAAAA
9503859 -TTTGGAAAAA
1 TTTTGGAAAAA
9503869 T
1 T
9503870 ATGAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 5 0.26
10 8 0.42
11 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (11 bp):
TTTTGGAAAAA
Found at i:9516199 original size:3 final size:3
Alignment explanation
Indices: 9516193--9516221 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9516183 CTACTACTAC
9516193 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9516222 ATTTCCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9516314 original size:49 final size:50
Alignment explanation
Indices: 9516256--9516355 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 50
9516246 CTTTTTGTTC
* **
9516256 TTTCTTTTATTCATGAGTTGA-CATTGACAGAATTGAAAAAAGAAAGGAA
1 TTTCCTTTATTCACAAGTTGATCATTGACAGAATTGAAAAAAGAAAGGAA
* *
9516305 TTTCCTTTATTCACAATTTGATTCATTGACAGAATTGAAAAAGGAAAGGAA
1 TTTCCTTTATTCACAAGTTGA-TCATTGACAGAATTGAAAAAAGAAAGGAA
9516356 CAAATAGATA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 17 0.39
51 27 0.61
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (50 bp):
TTTCCTTTATTCACAAGTTGATCATTGACAGAATTGAAAAAAGAAAGGAA
Found at i:9519367 original size:27 final size:27
Alignment explanation
Indices: 9519324--9519381 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
9519314 AAAAGGGGAG
*
9519324 AAAAAACTAGTGGCAAAACA-AAAGAGA
1 AAAAAACTAGTAGCAAAACATAAA-AGA
* *
9519351 AAAAAACTAGTATCAAAAGATAAAAGA
1 AAAAAACTAGTAGCAAAACATAAAAGA
9519378 AAAA
1 AAAA
9519382 GTAAAAGCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.67, C:0.09, G:0.14, T:0.10
Consensus pattern (27 bp):
AAAAAACTAGTAGCAAAACATAAAAGA
Found at i:9519384 original size:22 final size:22
Alignment explanation
Indices: 9519342--9519384 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9519332 AGTGGCAAAA
*
9519342 CAAAAGAGAAAAAAACTAGTAT
1 CAAAAGAGAAAAAAACAAGTAT
*
9519364 CAAAAGATAAAAGAAA-AAGTA
1 CAAAAGAGAAAA-AAACAAGTA
9519385 AAAGCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.67, C:0.07, G:0.14, T:0.12
Consensus pattern (22 bp):
CAAAAGAGAAAAAAACAAGTAT
Found at i:9520558 original size:24 final size:25
Alignment explanation
Indices: 9520531--9520593 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
9520521 AATTATGACT
*
9520531 ATAAAATATAAAAAAATAT-ATAAA
1 ATAAAATATAAAAAAATATAAAAAA
* *
9520555 ATAAAAAATATAAAAATATAAAAAA
1 ATAAAATATAAAAAAATATAAAAAA
9520580 ATAATAATATAAAA
1 ATAA-AATATAAAA
9520594 TAGTAAGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 17 0.53
25 8 0.25
26 7 0.22
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (25 bp):
ATAAAATATAAAAAAATATAAAAAA
Found at i:9520562 original size:16 final size:16
Alignment explanation
Indices: 9520541--9520593 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
9520531 ATAAAATATA
9520541 AAAAAATATATAAAAT
1 AAAAAATATATAAAAT
9520557 AAAAAATATA-AAAAT
1 AAAAAATATATAAAAT
* *
9520572 ATAAAAAAATAATAATAT
1 A-AAAAATAT-ATAAAAT
9520590 AAAA
1 AAAA
9520594 TAGTAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 6 0.19
16 17 0.53
17 4 0.12
18 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAATATATAAAAT
Found at i:9520652 original size:3 final size:3
Alignment explanation
Indices: 9520644--9520673 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
9520634 CTTTATTACA
9520644 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9520674 GACTTTACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9525098 original size:35 final size:36
Alignment explanation
Indices: 9525052--9525121 Score: 106
Period size: 38 Copynumber: 1.9 Consensus size: 36
9525042 TTGTTTAATA
*
9525052 ATAGT-AATAATAATAATGACATTATACCATGCACT
1 ATAGTAAATAATAATAATGACATTAAACCATGCACT
9525087 ATAGTAGTAATAATAATAATGACATTAAACCATGC
1 ATAGTA--AATAATAATAATGACATTAAACCATGC
9525122 GCTAATTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 5 0.16
38 26 0.84
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (36 bp):
ATAGTAAATAATAATAATGACATTAAACCATGCACT
Found at i:9532879 original size:24 final size:22
Alignment explanation
Indices: 9532849--9532904 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
9532839 TATCTTAATC
9532849 AAATCATGCAAACATACAAATAA
1 AAATCATGCAAACAT-CAAATAA
* *
9532872 AATATCATGC-AATATCATATAA
1 AA-ATCATGCAAACATCAAATAA
9532894 AAATCATGCAA
1 AAATCATGCAA
9532905 TAAAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 7 0.24
22 9 0.31
23 6 0.21
24 7 0.24
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.23
Consensus pattern (22 bp):
AAATCATGCAAACATCAAATAA
Found at i:9532893 original size:22 final size:22
Alignment explanation
Indices: 9532868--9532930 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
9532858 AAACATACAA
**
9532868 ATAAAATATCATGCAATATCAT
1 ATAAAATATCATGCAATAAAAT
9532890 ATAAAA-ATCATGCAATAAAAT
1 ATAAAATATCATGCAATAAAAT
*
9532911 AAAAAATATCATGCAATAAA
1 ATAAAATATCATGCAATAAA
9532931 TCATGAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 18 0.49
22 19 0.51
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (22 bp):
ATAAAATATCATGCAATAAAAT
Found at i:9532901 original size:21 final size:22
Alignment explanation
Indices: 9532868--9532928 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
9532858 AAACATACAA
9532868 ATAAAATATCATGCAATATCAT
1 ATAAAATATCATGCAATATCAT
**
9532890 ATAAAA-ATCATGCAATAAAAT
1 ATAAAATATCATGCAATATCAT
*
9532911 AAAAAATATCATGCAATA
1 ATAAAATATCATGCAATA
9532929 AATCATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.26
Consensus pattern (22 bp):
ATAAAATATCATGCAATATCAT
Found at i:9532934 original size:45 final size:43
Alignment explanation
Indices: 9532870--9532958 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 43
9532860 ACATACAAAT
* **
9532870 AAAATATCATGCAATATCAT-ATAAAAATCATGCAATAAAATAA
1 AAAATATCATGCAATATCATGAAAAAAATCA-AAAATAAAATAA
9532913 AAAATATCATGCAATAAATCATGAAAAAAATCAAAAATAAAATAA
1 AAAATATCATGCAAT--ATCATGAAAAAAATCAAAAATAAAATAA
9532958 A
1 A
9532959 TCATACAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
43 15 0.38
45 16 0.40
46 9 0.22
ACGTcount: A:0.63, C:0.10, G:0.04, T:0.22
Consensus pattern (43 bp):
AAAATATCATGCAATATCATGAAAAAAATCAAAAATAAAATAA
Found at i:9534499 original size:12 final size:13
Alignment explanation
Indices: 9534462--9534498 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
9534452 AACAAAATAA
9534462 TAAAATAAAAAAT
1 TAAAATAAAAAAT
*
9534475 TAAACTAAAAAAT
1 TAAAATAAAAAAT
9534488 TAAAATAAAAA
1 TAAAATAAAAA
9534499 TACAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAAATAAAAAAT
Found at i:9534593 original size:19 final size:18
Alignment explanation
Indices: 9534516--9534593 Score: 50
Period size: 18 Copynumber: 4.1 Consensus size: 18
9534506 AAAATTTGAG
*
9534516 ATTTAATTTTTAAAATCAAA
1 ATTT-ATTTTT-AATTCAAA
*
9534536 ATTTACTTTTTTAATT-AAG
1 ATTTA--TTTTTAATTCAAA
* **
9534555 ATCTAATTCATAATTCAAA
1 AT-TTATTTTTAATTCAAA
9534574 ATTTATTTTTAATATCAAA
1 ATTTATTTTTAAT-TCAAA
9534593 A
1 A
9534594 AAATTTTCAG
Statistics
Matches: 44, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
18 15 0.34
19 15 0.34
20 9 0.20
21 5 0.11
ACGTcount: A:0.44, C:0.08, G:0.01, T:0.47
Consensus pattern (18 bp):
ATTTATTTTTAATTCAAA
Found at i:9535689 original size:52 final size:52
Alignment explanation
Indices: 9535558--9535703 Score: 181
Period size: 52 Copynumber: 2.8 Consensus size: 52
9535548 AAACTTGCTC
* **
9535558 ATTAAGAAT-CATTCTCCTCTTAGAATTCTTCTCTTGTAAGTCAAACTTGTCT
1 ATTAAGAATCCATT-TCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
* *
9535610 ATTAAGAATCCATTTCCTTTTAAAATTCTTCTCTTGCAAGTCAAACTTACCT
1 ATTAAGAATCCATTTCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
* *
9535662 ATTAAGAATCTCCA-TT-CTCTTGGAATTCTTCTTTTGCAAGTC
1 ATTAAGAA--TCCATTTCCTCTTAGAATTCTTCTCTTGCAAGTC
9535704 TTCTTGTCCA
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
52 72 0.88
53 6 0.07
54 4 0.05
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (52 bp):
ATTAAGAATCCATTTCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
Found at i:9535744 original size:11 final size:11
Alignment explanation
Indices: 9535728--9535769 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
9535718 GCAATATCTG
9535728 ACAAATCTCAA
1 ACAAATCTCAA
*
9535739 ACAAATCTCTA
1 ACAAATCTCAA
9535750 ACAAATCTCAA
1 ACAAATCTCAA
9535761 ACAAATCTC
1 ACAAATCTC
9535770 TAATGGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:9535753 original size:22 final size:22
Alignment explanation
Indices: 9535728--9535772 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
9535718 GCAATATCTG
9535728 ACAAATCTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
9535750 ACAAATCTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
9535772 A
1 A
9535773 TGGGATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:9536063 original size:25 final size:24
Alignment explanation
Indices: 9535987--9536063 Score: 75
Period size: 25 Copynumber: 3.2 Consensus size: 24
9535977 TGGACTTGCT
*
9535987 TCTTCCCATGTCTCAAACCAT-GC
1 TCTTCCCATGTCTCGAACCATCGC
* * * **
9536010 GCTTCCCATATCTCGAACTATCAAT
1 TCTTCCCATGTCTCGAACCATC-GC
9536035 TCTTCCCATGTCTCGAACCATCGGC
1 TCTTCCCATGTCTCGAACCATC-GC
9536060 TCTT
1 TCTT
9536064 TTCACATCTT
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
23 17 0.43
25 23 0.57
ACGTcount: A:0.21, C:0.36, G:0.10, T:0.32
Consensus pattern (24 bp):
TCTTCCCATGTCTCGAACCATCGC
Found at i:9536723 original size:52 final size:52
Alignment explanation
Indices: 9536628--9536774 Score: 174
Period size: 52 Copynumber: 2.8 Consensus size: 52
9536618 TATAACCATA
* *
9536628 CAAACTTG-CTCATTAAGAAT-CTTTCTCCTCTTAAAATTCTTCTCCTGTAAGT
1 CAAACTTGCCT-ATTAAGAATCCTTT-TCCTCTTAAAATTATTCTCCTGCAAGT
* * *
9536680 CAAACTTGCCTATTAAGAATCCTTTTCCTTTTAGAATTATTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCTTTTCCTCTTAAAATTATTCTCCTGCAAGT
* * *
9536732 CAAACTTACCTATTAAGAATCCCTTTT-CTCTTGAAATTCTTCT
1 CAAACTTGCCTATTAAGAAT-CCTTTTCCTCTTAAAATTATTCT
9536775 TTTACAAGTC
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
52 70 0.85
53 12 0.15
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCTTTTCCTCTTAAAATTATTCTCCTGCAAGT
Found at i:9536827 original size:11 final size:11
Alignment explanation
Indices: 9536809--9536839 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9536799 GCAATATCTG
9536809 ACAAATCTCAA
1 ACAAATCTCAA
*
9536820 ATAAATCTCAA
1 ACAAATCTCAA
9536831 ACAAATCTC
1 ACAAATCTC
9536840 TCATGAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:9539529 original size:14 final size:15
Alignment explanation
Indices: 9539501--9539529 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9539491 TATTTAATCA
9539501 ATTTTTAAAATAAAT
1 ATTTTTAAAATAAAT
9539516 ATTTTTAAAA-AAAT
1 ATTTTTAAAATAAAT
9539530 TTACTCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTTTAAAATAAAT
Found at i:9539569 original size:31 final size:31
Alignment explanation
Indices: 9539534--9539595 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
9539524 AAAAATTTAC
* * *
9539534 TCATTAATAAGATATTATTATCTTATTCACT
1 TCATTAATAAAATAATATCATCTTATTCACT
9539565 TCATTAATAAAATAATATCATCTTATTCACT
1 TCATTAATAAAATAATATCATCTTATTCACT
9539596 AATAATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.45
Consensus pattern (31 bp):
TCATTAATAAAATAATATCATCTTATTCACT
Found at i:9540171 original size:13 final size:14
Alignment explanation
Indices: 9540153--9540185 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9540143 ATCAAGGAAG
*
9540153 GAGTTG-ATTTTGA
1 GAGTTGCATTTTAA
9540166 GAGTTGCATTTTAA
1 GAGTTGCATTTTAA
9540180 GAGTTG
1 GAGTTG
9540186 GTCCCATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.24, C:0.03, G:0.30, T:0.42
Consensus pattern (14 bp):
GAGTTGCATTTTAA
Found at i:9542633 original size:17 final size:18
Alignment explanation
Indices: 9542613--9542688 Score: 72
Period size: 17 Copynumber: 4.4 Consensus size: 18
9542603 TATTTAATTC
9542613 ATATATATA-TAAATAAA
1 ATATATATATTAAATAAA
*
9542630 ATATATAAATTAAATAAA
1 ATATATATATTAAATAAA
*
9542648 A-AT-TATATAAAAATAAA
1 ATATATATAT-TAAATAAA
* *
9542665 A-ATTTA-ATTTAATAAA
1 ATATATATATTAAATAAA
9542681 ATATATAT
1 ATATATAT
9542689 TTTTAATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
16 11 0.23
17 26 0.54
18 11 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATATATATTAAATAAA
Done.