Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 64 of 343
Found at i:20693959 original size:18 final size:17
Alignment explanation
Indices: 20693938--20693993 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
20693928 AAATAAAAAT
20693938 AAAAATATAAATATTCTA
1 AAAAATATAAA-ATTCTA
*
20693956 AAAAGTATACAAATTC-A
1 AAAAATATA-AAATTCTA
*
20693973 AAAAA-ATAAAATTTTA
1 AAAAATATAAAATTCTA
20693989 AAAAA
1 AAAAA
20693994 AGTTACAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.15
16 9 0.27
17 5 0.15
18 12 0.36
19 2 0.06
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAAATATAAAATTCTA
Found at i:20695010 original size:14 final size:15
Alignment explanation
Indices: 20694978--20695013 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
20694968 GATGCTTATG
20694978 ATAAAATAATAAAAT
1 ATAAAATAATAAAAT
*
20694993 ATAAAATAA-AATAT
1 ATAAAATAATAAAAT
20695007 ATAAAAT
1 ATAAAAT
20695014 CGTATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAAATAATAAAAT
Found at i:20696254 original size:19 final size:19
Alignment explanation
Indices: 20696226--20696288 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
20696216 TTATTTAAAA
* *
20696226 TTATTATTAATGTTAAATT
1 TTATTATTAAAGTAAAATT
*
20696245 TTATTGTTAAAGTAAAATT
1 TTATTATTAAAGTAAAATT
*
20696264 TTAATATTAAA-TAATAA-T
1 TTATTATTAAAGTAA-AATT
20696282 TTATTAT
1 TTATTAT
20696289 ATTATTGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 10 0.27
19 27 0.73
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
TTATTATTAAAGTAAAATT
Found at i:20696421 original size:2 final size:2
Alignment explanation
Indices: 20696410--20696444 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
20696400 TTTCATAAAC
20696410 AT AT -T AT AT AT AT AT AT AT AT AT 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
20696445 TGTTTCACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:20697550 original size:22 final size:26
Alignment explanation
Indices: 20697511--20697559 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
20697501 CTTTCTATGT
20697511 ATTATTTTTTTCATAAATTT-AAAAC
1 ATTATTTTTTTCATAAATTTCAAAAC
20697536 ATTA-TTTTTT-A-AAATTTCAAAAC
1 ATTATTTTTTTCATAAATTTCAAAAC
20697559 A
1 A
20697560 CATAGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.26
23 7 0.30
24 6 0.26
25 4 0.17
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTATTTTTTTCATAAATTTCAAAAC
Found at i:20698165 original size:22 final size:23
Alignment explanation
Indices: 20698120--20698166 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
20698110 TTTACATATA
*
20698120 TATTTTGAATTTTTAGAATTTTT
1 TATTTTGAATTTTTAGAATATTT
20698143 TATTTT-AACTTTTTA-AATATTT
1 TATTTTGAA-TTTTTAGAATATTT
20698165 TA
1 TA
20698167 ACATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (23 bp):
TATTTTGAATTTTTAGAATATTT
Found at i:20710003 original size:13 final size:14
Alignment explanation
Indices: 20709980--20710008 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
20709970 TGTTTTAAAC
20709980 TTACGATCATTTCA
1 TTACGATCATTTCA
20709994 TTAC-ATCATTTCA
1 TTACGATCATTTCA
20710007 TT
1 TT
20710009 GCATATCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.21, G:0.03, T:0.48
Consensus pattern (14 bp):
TTACGATCATTTCA
Found at i:20712738 original size:19 final size:20
Alignment explanation
Indices: 20712711--20712753 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
20712701 TCTTTTTGCA
* *
20712711 TTCATTCATTTGCATTACAT
1 TTCATTCATATGCATTAAAT
20712731 TTCA-TCATATGCATTAAAT
1 TTCATTCATATGCATTAAAT
20712750 TTCA
1 TTCA
20712754 CGAAAAGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.47
Consensus pattern (20 bp):
TTCATTCATATGCATTAAAT
Found at i:20721108 original size:90 final size:89
Alignment explanation
Indices: 20720988--20721150 Score: 213
Period size: 89 Copynumber: 1.8 Consensus size: 89
20720978 AGATCTCATC
* * *
20720988 TCCCTGAAGTGGCAGCGGAATAGATCGAAGAATAGCAAA-CTTTATCTCCCTGAGGTTGCGGTGG
1 TCCCTGAAGTGGCAGCGGAATAGATCGAAG-ATAGCAAATC-TTATCTCCCTGAAGTTGCAGTAG
*
20721052 AGCAGGTTAAAAATACAAGTCTTATT
64 AGCAGATTAAAAATACAAGTCTTATT
* * * *
20721078 TCCCTGAAGTTGTAGTGGAATAGA-CTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGA
1 TCCCTGAAGTGGCAGCGGAATAGATC-GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGA
20721142 GCAGATTAA
65 GCAGATTAA
20721151 GGCTATAAGT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
89 37 0.59
90 26 0.41
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (89 bp):
TCCCTGAAGTGGCAGCGGAATAGATCGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAG
CAGATTAAAAATACAAGTCTTATT
Found at i:20721161 original size:89 final size:89
Alignment explanation
Indices: 20720988--20721179 Score: 201
Period size: 89 Copynumber: 2.1 Consensus size: 89
20720978 AGATCTCATC
* * * *
20720988 TCCCTGAAGTGGCAGCGGAATAGATCGAAGAATAGCAAACTTTATCTCCCTGAGGTTGCGGTGGA
1 TCCCTGAAGTTGCAGCGGAATAGATCGAAGAATAGCAAACTTTATCTCCCTGAAGTTGCAGTAGA
* *
20721053 GCAGGTTAAAAATACAAGTCTTATT
66 GCAGATTAAAAATACAAGTCCTA-T
* * *
20721078 TCCCTGAAGTTGTAGTGGAATAGA-CTGAAG-ATAGCAAA-TCTTATCTCTCTGAAGTTGCAGTA
1 TCCCTGAAGTTGCAGCGGAATAGATC-GAAGAATAGCAAACT-TTATCTCCCTGAAGTTGCAGTA
*** *
20721140 GAGCAGATTAAGGCTATAAGTCCTAT
64 GAGCAGATTAAAAATACAAGTCCTAT
*
20721166 GCCTCTGAAGTTGC
1 TCC-CTGAAGTTGC
20721180 GTGGGTCAGA
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
88 4 0.05
89 55 0.65
90 25 0.30
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (89 bp):
TCCCTGAAGTTGCAGCGGAATAGATCGAAGAATAGCAAACTTTATCTCCCTGAAGTTGCAGTAGA
GCAGATTAAAAATACAAGTCCTAT
Found at i:20721323 original size:226 final size:227
Alignment explanation
Indices: 20721067--20721499 Score: 615
Period size: 226 Copynumber: 1.9 Consensus size: 227
20721057 GTTAAAAATA
** * *
20721067 CAAGTCTTATTTCCCTGAAGTTGTAGTGGAATAGACTGAAGATAGCAAATCTTATCTCTCTGAAG
1 CAAGTCTTAACTCCCTGAAGTTGCAGTGGAATAGACTAAAGATAGCAAATCTTATCTCTCTGAAG
* * * * *
20721132 TTGCAGTAGAGCAGATTAAGGCTATAAGTCCTATGCCTCTGAAGTTG-CGTGGGTCAG-ATGAAA
66 TTGCAGTAGAGCAGATTAAGGCTATAAATCCTATACCTCTGAAGTTGTAGTAGG-CAGAATCAAA
* *
20721195 TCTACCATGG-AAATCTTATCTATCTGAAGTTGTAGTAGAGCAGATTAAAG-C-CATTAACATTA
130 T-TACCATGGCAAATCTTATCTATCTGAAATTGCAGTAGAGCAGATTAAAGTCGCA--AACATTA
*
20721257 TCTCCCTGAAGATGCAGTGGAGTACTTTGAAATTAC
192 TCCCCCTGAAGATGCAGTGGAGTACTTTGAAATTAC
*
20721293 CAAGTCTTAACTCCCTGAAGTTGCAGTGGAATAGACTAAAGATAGTAAATCTTATCTCTCTGAAG
1 CAAGTCTTAACTCCCTGAAGTTGCAGTGGAATAGACTAAAGATAGCAAATCTTATCTCTCTGAAG
* *
20721358 TTGCAGTAGAGCAGATTAAGGCTATAAATCCTATACCTCTGAAGTTGTAGTAGGCCGAATCAAGT
66 TTGCAGTAGAGCAGATTAAGGCTATAAATCCTATACCTCTGAAGTTGTAGTAGGCAGAATCAAAT
* * * * *
20721423 TACCATGGCGAATCTTATCTCTCTGAAATTGCAGTGGAGCAGATTTAAGTCGCAAACCTTATCCC
131 TACCATGGCAAATCTTATCTATCTGAAATTGCAGTAGAGCAGATTAAAGTCGCAAACATTATCCC
20721488 CCTGAAGATGCA
196 CCTGAAGATGCA
20721500 ATGGGATGGA
Statistics
Matches: 182, Mismatches: 20, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
226 115 0.63
227 64 0.35
228 1 0.01
229 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (227 bp):
CAAGTCTTAACTCCCTGAAGTTGCAGTGGAATAGACTAAAGATAGCAAATCTTATCTCTCTGAAG
TTGCAGTAGAGCAGATTAAGGCTATAAATCCTATACCTCTGAAGTTGTAGTAGGCAGAATCAAAT
TACCATGGCAAATCTTATCTATCTGAAATTGCAGTAGAGCAGATTAAAGTCGCAAACATTATCCC
CCTGAAGATGCAGTGGAGTACTTTGAAATTAC
Found at i:20727902 original size:24 final size:21
Alignment explanation
Indices: 20727859--20727901 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
20727849 TGAAAGAGAA
20727859 TGGTGGTCTCGATTATTGTTG
1 TGGTGGTCTCGATTATTGTTG
*
20727880 TGGTGGTCTCGATTATCGTTG
1 TGGTGGTCTCGATTATTGTTG
20727901 T
1 T
20727902 TTAGTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.12, G:0.33, T:0.47
Consensus pattern (21 bp):
TGGTGGTCTCGATTATTGTTG
Found at i:20730679 original size:8 final size:8
Alignment explanation
Indices: 20730660--20730708 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
20730650 CCTTAGAACC
20730660 TTTTAGGG
1 TTTTAGGG
20730668 -TTTAGGG
1 TTTTAGGG
*
20730675 TTTTAAGG
1 TTTTAGGG
20730683 TTTTAGGG
1 TTTTAGGG
*
20730691 -TTTA-GA
1 TTTTAGGG
20730697 TTTTAGGG
1 TTTTAGGG
20730705 TTTT
1 TTTT
20730709 TCTAAACTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 1 0.03
7 15 0.44
8 18 0.53
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (8 bp):
TTTTAGGG
Found at i:20730702 original size:14 final size:15
Alignment explanation
Indices: 20730668--20730707 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
20730658 CCTTTTAGGG
*
20730668 TTTAGGGTTTTAAGGT
1 TTTAGGG-TTTAAGAT
20730684 TTTAGGGTTT-AGAT
1 TTTAGGGTTTAAGAT
20730698 TTTAGGGTTT
1 TTTAGGGTTT
20730708 TTCTAAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
15 3 0.13
16 7 0.30
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTAAGAT
Found at i:20730709 original size:23 final size:23
Alignment explanation
Indices: 20730660--20730708 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
20730650 CCTTAGAACC
*
20730660 TTTTAGGGTTTAGGGTTTTAAGG
1 TTTTAGGGTTTAGGATTTTAAGG
*
20730683 TTTTAGGGTTTA-GATTTTAGGG
1 TTTTAGGGTTTAGGATTTTAAGG
20730705 TTTT
1 TTTT
20730709 TCTAAACTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (23 bp):
TTTTAGGGTTTAGGATTTTAAGG
Found at i:20730963 original size:18 final size:17
Alignment explanation
Indices: 20730937--20730970 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20730927 TGGCATGCTC
20730937 GTGTAGCCCCACACACCT
1 GTGTAG-CCCACACACCT
*
20730955 GTGTGGCCCACACACC
1 GTGTAGCCCACACACC
20730971 CAATTCAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.44, G:0.21, T:0.15
Consensus pattern (17 bp):
GTGTAGCCCACACACCT
Found at i:20737016 original size:23 final size:23
Alignment explanation
Indices: 20736990--20737033 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
20736980 ACACACCATG
20736990 TGAGGTTTAAAACACCCACCCTT
1 TGAGGTTTAAAACACCCACCCTT
20737013 TGAGGTTTAAAACACCCACCC
1 TGAGGTTTAAAACACCCACCC
20737034 AACCCTATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.23
Consensus pattern (23 bp):
TGAGGTTTAAAACACCCACCCTT
Found at i:20743467 original size:28 final size:27
Alignment explanation
Indices: 20743418--20743470 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
20743408 CTTAACCTAG
* * *
20743418 AAAATATTAAATTAATTTTATTTTATT
1 AAAAAATTAAAATAATTATATTTTATT
20743445 AAAAAATTAAAATAAGTTATATTTTA
1 AAAAAATTAAAATAA-TTATATTTTA
20743471 AAAAGAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
AAAAAATTAAAATAATTATATTTTATT
Found at i:20743479 original size:28 final size:27
Alignment explanation
Indices: 20743418--20743479 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
20743408 CTTAACCTAG
* * * *
20743418 AAAATATTAAATTAATTTTATTTTATT
1 AAAAAATTAAAATAATTATATTTTATA
20743445 AAAAAATTAAAATAAGTTATATTTTA-A
1 AAAAAATTAAAATAA-TTATATTTTATA
20743472 AAAGAAAT
1 AAA-AAAT
20743480 GAGATATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (27 bp):
AAAAAATTAAAATAATTATATTTTATA
Found at i:20751794 original size:26 final size:26
Alignment explanation
Indices: 20751755--20751809 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 26
20751745 CAAACTTATT
20751755 AATAGTTTTGAGATTTATATTTTTTAAA
1 AATAGTTTTGAGATTT-T-TTTTTTAAA
*
20751783 AATA-TTTT-AGATTTTTTTTTTATA
1 AATAGTTTTGAGATTTTTTTTTTAAA
20751807 AAT
1 AAT
20751810 CAAGATAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 11 0.42
25 1 0.04
26 6 0.23
27 4 0.15
28 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (26 bp):
AATAGTTTTGAGATTTTTTTTTTAAA
Found at i:20752455 original size:15 final size:15
Alignment explanation
Indices: 20752435--20752464 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20752425 TATATATTCG
20752435 GACATCTAGTTCATT
1 GACATCTAGTTCATT
20752450 GACATCTAGTTCATT
1 GACATCTAGTTCATT
20752465 ATGAATGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
GACATCTAGTTCATT
Found at i:20763464 original size:14 final size:14
Alignment explanation
Indices: 20763447--20763479 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
20763437 AAGTTGCGTT
*
20763447 AATTATTTAATTAG
1 AATTAATTAATTAG
20763461 AATTAATTAATTAG
1 AATTAATTAATTAG
20763475 -ATTAA
1 AATTAA
20763480 ACAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (14 bp):
AATTAATTAATTAG
Found at i:20765497 original size:25 final size:25
Alignment explanation
Indices: 20765469--20765525 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
20765459 AAATCATGAA
*
20765469 TTGTTT-TATATGAGATGATTTTTTT
1 TTGTTTATATATGAAAT-ATTTTTTT
*
20765494 TTGTTTAATTTATGAAATATTTTTTT
1 TTGTTT-ATATATGAAATATTTTTTT
*
20765520 TAGTTT
1 TTGTTT
20765526 GTCTAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.22
26 13 0.48
27 8 0.30
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (25 bp):
TTGTTTATATATGAAATATTTTTTT
Found at i:20766604 original size:20 final size:21
Alignment explanation
Indices: 20766573--20766620 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
20766563 ATTTATATTG
*
20766573 ATTT-ATTATATAA-AAATATA
1 ATTTAATT-TATAAGAAAAATA
20766593 ATTTAATTTATAAGAAAAATA
1 ATTTAATTTATAAGAAAAATA
*
20766614 TTTTAAT
1 ATTTAAT
20766621 AATTTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATTTAATTTATAAGAAAAATA
Found at i:20772787 original size:7 final size:8
Alignment explanation
Indices: 20772770--20772799 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
20772760 AATATAAAAA
20772770 TTTTAATT
1 TTTTAATT
20772778 TTTTAATT
1 TTTTAATT
20772786 TTTTAATT
1 TTTTAATT
20772794 TTTTAA
1 TTTTAA
20772800 AAAATTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTAATT
Found at i:20776281 original size:2 final size:2
Alignment explanation
Indices: 20776274--20776301 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
20776264 AGACACTGTA
20776274 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20776302 TTAAGTCACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20779081 original size:9 final size:10
Alignment explanation
Indices: 20779045--20779083 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
20779035 AAATATAAAT
20779045 ATTTATTTTA
1 ATTTATTTTA
20779055 ATTTATTTTA
1 ATTTATTTTA
*
20779065 ATGT-TTTTA
1 ATTTATTTTA
*
20779074 ATTTTTTTTA
1 ATTTATTTTA
20779084 TAAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (10 bp):
ATTTATTTTA
Found at i:20781027 original size:5 final size:5
Alignment explanation
Indices: 20781017--20781041 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20781007 TCCCAATTTC
20781017 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
20781042 TCCTGATGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:20781054 original size:54 final size:54
Alignment explanation
Indices: 20780971--20781089 Score: 163
Period size: 54 Copynumber: 2.2 Consensus size: 54
20780961 ACTATTTCCT
* *
20780971 TTTTC-TTTC-TTTCTTTTTCTCTGTTACCTTTCTTCTTCCCAATTTCCTTTTC
1 TTTTCTTTTCTTTTCTTTTTCTCTGTGACCTTTCTTCTTCCCAATGTCCTTTTC
* *
20781023 TTTTCTTTTCTTTTCTTTTTC-CTGATGACCTTTCTTCTTCCTAATGTCTTTTTC
1 TTTTCTTTTCTTTTCTTTTTCTCTG-TGACCTTTCTTCTTCCCAATGTCCTTTTC
*
20781077 TCTTCTTTTCTTT
1 TTTTCTTTTCTTT
20781090 GCTAAACATG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
52 5 0.08
53 7 0.12
54 47 0.80
ACGTcount: A:0.06, C:0.26, G:0.03, T:0.65
Consensus pattern (54 bp):
TTTTCTTTTCTTTTCTTTTTCTCTGTGACCTTTCTTCTTCCCAATGTCCTTTTC
Found at i:20783635 original size:5 final size:5
Alignment explanation
Indices: 20783625--20783649 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20783615 AGTATAAATA
20783625 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
20783650 ATAATAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:20783758 original size:21 final size:25
Alignment explanation
Indices: 20783716--20783763 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
20783706 AAGCCAAAGC
20783716 AGAAACGAAACAGAGAATGAAAGAA
1 AGAAACGAAACAGAGAATGAAAGAA
* *
20783741 AGAAACGAAAAAGAGAAAGAAAG
1 AGAAACGAAACAGAGAATGAAAG
20783764 GAGAAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.67, C:0.06, G:0.25, T:0.02
Consensus pattern (25 bp):
AGAAACGAAACAGAGAATGAAAGAA
Found at i:20784445 original size:32 final size:32
Alignment explanation
Indices: 20784409--20784469 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
20784399 AAGGTAAGTG
* *
20784409 TAGTATTTTGATATTGAATTGAGTGTTTAGTA
1 TAGTATTTTAATATTGAATTGAGTATTTAGTA
20784441 TAGTATTTTAATATTGAATTGAGTATTTA
1 TAGTATTTTAATATTGAATTGAGTATTTA
20784470 TGAAATTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (32 bp):
TAGTATTTTAATATTGAATTGAGTATTTAGTA
Found at i:20786237 original size:40 final size:37
Alignment explanation
Indices: 20786171--20786305 Score: 152
Period size: 35 Copynumber: 3.7 Consensus size: 37
20786161 CATGGAAAAG
20786171 TGTGAAATGTAGGTATGGTA--TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
20786206 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** ** *
20786246 TAAGAAATGTAGGTATGACATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
* *
20786281 TGTAAAATGTAAGTATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
20786306 ATGAGGAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
35 48 0.58
38 2 0.02
39 2 0.02
40 31 0.37
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:20789646 original size:5 final size:5
Alignment explanation
Indices: 20789636--20789700 Score: 75
Period size: 5 Copynumber: 13.2 Consensus size: 5
20789626 AATTATGTTT
20789636 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA -T-TA TTATA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
20789683 TTATTA TTATA TATATA T
1 TTA-TA TTATA T-TATA T
20789701 GACAAAGAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
3 4 0.08
4 4 0.08
5 30 0.57
6 15 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:20789650 original size:8 final size:8
Alignment explanation
Indices: 20789636--20789689 Score: 58
Period size: 8 Copynumber: 6.5 Consensus size: 8
20789626 AATTATGTTT
20789636 TTATATTA
1 TTATATTA
20789644 -TATTATTA
1 TTA-TATTA
20789652 TTA-ATATA
1 TTATAT-TA
20789660 TTATATTATA
1 TTATA-T-TA
20789670 TTATATTA
1 TTATATTA
20789678 TTATATTA
1 TTATATTA
20789686 TTAT
1 TTAT
20789690 TATATATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
8 24 0.59
9 4 0.10
10 9 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:20789652 original size:3 final size:3
Alignment explanation
Indices: 20789639--20789692 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
20789629 TATGTTTTTA
*
20789639 TAT TA- TAT TAT TAT TAA TA- TAT TA- TAT TA- TAT TA- TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20789681 TAT TAT TAT TAT
1 TAT TAT TAT TAT
20789693 ATATATATGA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
2 12 0.27
3 32 0.73
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:20789668 original size:29 final size:29
Alignment explanation
Indices: 20789636--20789700 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
20789626 AATTATGTTT
20789636 TTATATTATATTATTATTAATA-TATTATA
1 TTATATTATATTATTA-TAATATTATTATA
*
20789665 TTATATTATATTATTATATTATTATTATA
1 TTATATTATATTATTATAATATTATTATA
20789694 TATATAT
1 T-TATAT
20789701 GACAAAGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 4 0.12
29 24 0.73
30 5 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TTATATTATATTATTATAATATTATTATA
Found at i:20789766 original size:40 final size:40
Alignment explanation
Indices: 20789709--20789804 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
20789699 ATGACAAAGA
20789709 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
20789750 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
20789790 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
20789805 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:20790570 original size:29 final size:30
Alignment explanation
Indices: 20790511--20790568 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
20790501 TCCGAGCCTT
*
20790511 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
20790541 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
20790569 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:20790798 original size:13 final size:13
Alignment explanation
Indices: 20790780--20790811 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
20790770 TTTCCAGCAA
20790780 TTATGAATTTATT
1 TTATGAATTTATT
20790793 TTATGAATTTATT
1 TTATGAATTTATT
*
20790806 TGATGA
1 TTATGA
20790812 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:20791019 original size:50 final size:50
Alignment explanation
Indices: 20790906--20791147 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
20790896 ATTTGGGTAA
* * *
20790906 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
20790962 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
20791012 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
20791062 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
20791112 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
20791148 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:20791095 original size:100 final size:103
Alignment explanation
Indices: 20790906--20791155 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
20790896 ATTTGGGTAA
20790906 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
20790971 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
20791012 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
20791074 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
20791112 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
20791156 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:20793610 original size:13 final size:13
Alignment explanation
Indices: 20793592--20793619 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20793582 TGATCTCTTC
20793592 TGGGTATTCTATA
1 TGGGTATTCTATA
20793605 TGGGTATTCTATA
1 TGGGTATTCTATA
20793618 TG
1 TG
20793620 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:20795588 original size:5 final size:5
Alignment explanation
Indices: 20795578--20795636 Score: 75
Period size: 5 Copynumber: 11.2 Consensus size: 5
20795568 TAATTATGTT
20795578 TTATA TTATA TTATTA TTATA -TATA TTATA TTATA TTATA TATATTA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA T-TA-TA
20795625 TTATA TATATA T
1 TTATA T-TATA T
20795637 GACAAAGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.08
5 28 0.57
6 14 0.29
7 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:20795602 original size:2 final size:2
Alignment explanation
Indices: 20795579--20795636 Score: 53
Period size: 2 Copynumber: 33.5 Consensus size: 2
20795569 AATTATGTTT
20795579 TA TA T- TA TA T- TA T- TA T- TA TA TA TA T- TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20795614 TA TA TA TA T- TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
20795637 GACAAAGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
1 9 0.19
2 38 0.81
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (2 bp):
TA
Found at i:20795604 original size:12 final size:12
Alignment explanation
Indices: 20795578--20795634 Score: 75
Period size: 12 Copynumber: 4.8 Consensus size: 12
20795568 TAATTATGTT
20795578 TTATATTATATTA
1 TTATA-TATATTA
20795591 TTAT-TATATATA
1 TTATATATAT-TA
20795603 TTATAT-TA-TA
1 TTATATATATTA
20795613 TTATATATATTA
1 TTATATATATTA
20795625 TTATATATAT
1 TTATATATAT
20795635 ATGACAAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
10 8 0.20
11 7 0.17
12 20 0.50
13 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATATATATTA
Found at i:20795611 original size:14 final size:16
Alignment explanation
Indices: 20795578--20795636 Score: 86
Period size: 15 Copynumber: 3.7 Consensus size: 16
20795568 TAATTATGTT
20795578 TTATATTATATTATTA
1 TTATATTATATTATTA
20795594 TTATA-TATATTA-TA
1 TTATATTATATTATTA
20795608 TTATATTATATATATTA
1 TTATATTATAT-TATTA
20795625 TTATATATATAT
1 TTATAT-TATAT
20795637 GACAAAGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.18
15 12 0.31
16 7 0.18
17 8 0.21
18 5 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATATTATATTATTA
Found at i:20795702 original size:40 final size:40
Alignment explanation
Indices: 20795645--20795740 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
20795635 ATGACAAAGA
20795645 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
20795686 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
20795726 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
20795741 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:20796704 original size:13 final size:13
Alignment explanation
Indices: 20796686--20796717 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
20796676 TTTCCAGCAA
20796686 TTATGAATTTATT
1 TTATGAATTTATT
20796699 TTATGAATTTATT
1 TTATGAATTTATT
*
20796712 TGATGA
1 TTATGA
20796718 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:20796925 original size:50 final size:51
Alignment explanation
Indices: 20796812--20797053 Score: 276
Period size: 50 Copynumber: 4.7 Consensus size: 51
20796802 ATTTGGGTAA
* * *
20796812 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC-TGAGA-C--G
* *
20796868 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACC-GCGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTGAGACG
* * *
20796918 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACC-GAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTGAGACG
* * *
20796968 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC--ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTGA-GACG
**
20797018 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
20797054 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.55
51 29 0.18
52 1 0.01
53 2 0.01
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTGAGACG
Found at i:20797001 original size:100 final size:103
Alignment explanation
Indices: 20796812--20797061 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
20796802 ATTTGGGTAA
20796812 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
*
20796877 CTGTAAGACCATGTCTGGGACATGGCATGGGCACC-GCGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCAGC-ACG
* * *
20796918 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
20796980 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCAGCACG
* *
20797018 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
20797062 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
100 51 0.38
101 40 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCAGCACG
Found at i:20804346 original size:21 final size:21
Alignment explanation
Indices: 20804317--20804369 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
20804307 TTTTAGATAT
20804317 TTTCC-CCCA-TAATCCCCTAA
1 TTTCCTCCCACTAAT-CCCTAA
*
20804337 TTTCCTCCCACTTATCCCTAA
1 TTTCCTCCCACTAATCCCTAA
*
20804358 ATTCGCTCCCAC
1 TTTC-CTCCCAC
20804370 ACTTCTCCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.18
21 13 0.46
22 10 0.36
ACGTcount: A:0.21, C:0.45, G:0.02, T:0.32
Consensus pattern (21 bp):
TTTCCTCCCACTAATCCCTAA
Found at i:20807443 original size:15 final size:15
Alignment explanation
Indices: 20807411--20807445 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20807401 TCATTTTTCG
**
20807411 TTTTCTTTATTTTGT
1 TTTTCTTTATTTACT
20807426 TTTTCTTTATTTACT
1 TTTTCTTTATTTACT
20807441 TTTTC
1 TTTTC
20807446 AATTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.11, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTCTTTATTTACT
Found at i:20807500 original size:9 final size:9
Alignment explanation
Indices: 20807462--20807486 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20807452 TTATTTGCCC
20807462 TTTATTTGT
1 TTTATTTGT
20807471 TTTATTTGT
1 TTTATTTGT
20807480 TTTATTT
1 TTTATTT
20807487 ATTATTAGTT
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:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (9 bp):
TTTATTTGT
Found at i:20807571 original size:22 final size:23
Alignment explanation
Indices: 20807526--20807570 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
20807516 ATTCTAAACG
*
20807526 TTTTATAATATAATTTTTTAAAA
1 TTTTATAATATAATATTTTAAAA
20807549 TTTTA-AATATATATATTTTAAA
1 TTTTATAATATA-ATATTTTAAA
20807571 TATTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTATAATATAATATTTTAAAA
Found at i:20807579 original size:37 final size:35
Alignment explanation
Indices: 20807526--20807611 Score: 118
Period size: 37 Copynumber: 2.4 Consensus size: 35
20807516 ATTCTAAACG
*
20807526 TTTTATAATATAATTTTTTAAAATTTTAAATATATATA
1 TTTTA-AATATTATTTTTTAAAA-TTTAAATAT-TATA
*
20807564 TTTTAAATATTATTTTTTAAAATTTAAATATTATT
1 TTTTAAATATTATTTTTTAAAATTTAAATATTATA
*
20807599 TTTTTAATATTAT
1 TTTTAAATATTAT
20807612 AAAACATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
35 15 0.33
36 9 0.20
37 16 0.36
38 5 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
TTTTAAATATTATTTTTTAAAATTTAAATATTATA
Found at i:20807586 original size:15 final size:15
Alignment explanation
Indices: 20807548--20807584 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
20807538 ATTTTTTAAA
20807548 ATTTTAAATATATAT
1 ATTTTAAATATATAT
20807563 ATTTTAAATAT-TAT
1 ATTTTAAATATATAT
*
20807577 TTTTTAAA
1 ATTTTAAA
20807585 ATTTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTAAATATATAT
Found at i:20807690 original size:13 final size:13
Alignment explanation
Indices: 20807672--20807727 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
20807662 TTGGTTTATA
20807672 ATATTTTAAATAT
1 ATATTTTAAATAT
20807685 ATATTTT-AA-A-
1 ATATTTTAAATAT
20807695 AT-TTTTAAATAT
1 ATATTTTAAATAT
* *
20807707 ATTTTTTAAATTT
1 ATATTTTAAATAT
20807720 ATTATTTT
1 A-TATTTT
20807728 TTAAATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
11 2 0.06
12 4 0.11
13 17 0.47
14 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:20807700 original size:22 final size:23
Alignment explanation
Indices: 20807666--20807716 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
20807656 TATTATTTGG
*
20807666 TTTATAATATTTTAAATATATAT
1 TTTAAAATATTTTAAATATATAT
*
20807689 TTTAAAAT-TTTTAAATATATTT
1 TTTAAAATATTTTAAATATATAT
20807711 TTTAAA
1 TTTAAA
20807717 TTTATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAAAATATTTTAAATATATAT
Found at i:20807736 original size:15 final size:15
Alignment explanation
Indices: 20807696--20807737 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
20807686 TATTTTAAAA
20807696 TTTTTAAA-TA-TAT
1 TTTTTAAATTATTAT
20807709 TTTTTAAATTTATTAT
1 TTTTTAAA-TTATTAT
20807725 TTTTTAAATTATT
1 TTTTTAAATTATT
20807738 TTTGAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.31
15 7 0.27
16 11 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTAAATTATTAT
Found at i:20807740 original size:13 final size:14
Alignment explanation
Indices: 20807696--20807740 Score: 58
Period size: 13 Copynumber: 3.2 Consensus size: 14
20807686 TATTTTAAAA
20807696 TTTTTAAA-TATAT
1 TTTTTAAATTATAT
20807709 TTTTTAAATTTATTAT
1 TTTTTAAA-TTA-TAT
20807725 TTTTTAAATTAT-T
1 TTTTTAAATTATAT
20807738 TTT
1 TTT
20807741 GAAGATATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.41
14 1 0.03
15 5 0.17
16 11 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTAAATTATAT
Found at i:20810180 original size:149 final size:149
Alignment explanation
Indices: 20809910--20810198 Score: 524
Period size: 149 Copynumber: 1.9 Consensus size: 149
20809900 AGCTTTGCCG
20809910 AGCAACAAAACATAGGATTAGTAACATGGCTGATTGTTTGGGTCTGCTGCAGTCCTAGGCTCTAT
1 AGCAACAAAACATAGGATTAGTAACATGGCTGATTGTTTGGGTCTGCTGCAGTCCTAGGCTCTAT
*
20809975 ACAAGATACCGTTTCTAGTGGCTGCTAGGTACCAACCATATTCGTAGCCACTTGTAAATAGGTAA
66 ACAAGATACCGTTTCTAGCGGCTGCTAGGTACCAACCATATTCGTAGCCACTTGTAAATAGGTAA
20810040 AAACAAAATTCTCATAATT
131 AAACAAAATTCTCATAATT
* * *
20810059 AGCAACAAAACATAGGATTAGTAACATGGCTGGTTGTTTGGGTCTGTTGTAGTCCTAGGCTCTAT
1 AGCAACAAAACATAGGATTAGTAACATGGCTGATTGTTTGGGTCTGCTGCAGTCCTAGGCTCTAT
*
20810124 ACAGGATACCGTTTCTAGCGGCTGCTAGGTACCAACCATATTCGTAGCCACTTGTAAATAGGTAA
66 ACAAGATACCGTTTCTAGCGGCTGCTAGGTACCAACCATATTCGTAGCCACTTGTAAATAGGTAA
*
20810189 AGACAAAATT
131 AAACAAAATT
20810199 ATACTTAACA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 134 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (149 bp):
AGCAACAAAACATAGGATTAGTAACATGGCTGATTGTTTGGGTCTGCTGCAGTCCTAGGCTCTAT
ACAAGATACCGTTTCTAGCGGCTGCTAGGTACCAACCATATTCGTAGCCACTTGTAAATAGGTAA
AAACAAAATTCTCATAATT
Found at i:20812694 original size:21 final size:20
Alignment explanation
Indices: 20812668--20812741 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 20
20812658 ATAAATAACA
20812668 TATATATATATTAGTAATTAT
1 TATATATATATTA-TAATTAT
*
20812689 TATATATTTACTTATAATT-T
1 TATATATATA-TTATAATTAT
* *
20812709 AAGTAAATATTATTAT-ATTAT
1 TA-TATATA-TATTATAATTAT
20812730 TATAT-TATATTA
1 TATATATATATTA
20812742 ATTAAATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
18 5 0.12
19 2 0.05
20 7 0.16
21 24 0.56
22 5 0.12
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (20 bp):
TATATATATATTATAATTAT
Found at i:20812754 original size:41 final size:40
Alignment explanation
Indices: 20812675--20812758 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
20812665 ACATATATAT
* *
20812675 ATATTAGTAATTATTATATATTTACTTATAATTTAAGTAA
1 ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
*
20812715 ATATTATTATATTATTATATTATATTAATTA-AA-TAAAGTAA
1 ATATTAGTA-ATTATTATA-TAT-TTAATTATAATTAAAGTAA
20812756 ATA
1 ATA
20812759 AATTAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
40 8 0.21
41 19 0.50
42 5 0.13
43 6 0.16
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (40 bp):
ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
Found at i:20812987 original size:14 final size:15
Alignment explanation
Indices: 20812968--20812998 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
20812958 GAGAAAGAAA
20812968 GAAAGAAA-AAAAGG
1 GAAAGAAAGAAAAGG
20812982 GAAAGAAAGAAAAGG
1 GAAAGAAAGAAAAGG
20812997 GA
1 GA
20812999 GAAATTGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAAGG
Found at i:20813958 original size:40 final size:39
Alignment explanation
Indices: 20813853--20813967 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 39
20813843 CTTTCTCGAG
20813853 AATTAAAAGTGAATAGGATTTATTCCTGATTCACTAAAGA
1 AATT-AAAGTGAATAGGATTTATTCCTGATTCACTAAAGA
* *
20813893 AATTAAAGTAAATATGATTTATTCCTGATTCACTAGAA-A
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTA-AAGA
* * * *
20813932 TATATAAAGTGGATAGGATGTGTTCCTGATTCACTA
1 AAT-TAAAGTGAATAGGATTTATTCCTGATTCACTA
20813968 TGGTAACTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
39 32 0.49
40 33 0.51
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (39 bp):
AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAGA
Found at i:20816130 original size:21 final size:23
Alignment explanation
Indices: 20816104--20816150 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
20816094 ATAATTTTAA
*
20816104 AAAATA-ACATTTAAAA-ATTTT
1 AAAATATACATTTAAAATATTAT
*
20816125 AAAATATATATTTAAAATATTAT
1 AAAATATACATTTAAAATATTAT
20816148 AAA
1 AAA
20816151 CTAAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 9 0.41
23 7 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATATACATTTAAAATATTAT
Found at i:20816137 original size:22 final size:23
Alignment explanation
Indices: 20816096--20816150 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
20816086 TCTTAAAAAT
20816096 AATTTTAAAAAATAACATTTAAA
1 AATTTTAAAAAATAACATTTAAA
* *
20816119 AATTTTAAAATAT-ATATTTAAA
1 AATTTTAAAAAATAACATTTAAA
*
20816141 ATATTATAAA
1 A-ATTTTAAA
20816151 CTAAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTTTAAAAAATAACATTTAAA
Found at i:20816224 original size:30 final size:30
Alignment explanation
Indices: 20816188--20816270 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 30
20816178 ATTTAAAAAT
*
20816188 AATATATTTTAAATGTTT-TATAATA-TTAAA
1 AATATA-TTTAAAT-TTTATAAAATATTTAAA
20816218 AATATATTTAAATTTTAATAAAATATTT-AA
1 AATATATTTAAATTTT-ATAAAATATTTAAA
* *
20816248 AA-ATATTTAAAATTTAAAAAATA
1 AATATATTTAAATTTTATAAAATA
20816271 ATATTATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 10 0.21
29 19 0.40
30 16 0.34
31 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (30 bp):
AATATATTTAAATTTTATAAAATATTTAAA
Found at i:20816264 original size:17 final size:16
Alignment explanation
Indices: 20816242--20816291 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
20816232 TTAATAAAAT
20816242 ATTTAAAAATATTTAAA
1 ATTTAAAAA-ATTTAAA
*
20816259 ATTTAAAAAA--TAAT
1 ATTTAAAAAATTTAAA
20816273 ATTATAAAAAATTTAAA
1 ATT-TAAAAAATTTAAA
20816290 AT
1 AT
20816292 ATACATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 6 0.21
15 7 0.25
16 1 0.04
17 14 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTTAAAAAATTTAAA
Found at i:20816287 original size:31 final size:31
Alignment explanation
Indices: 20816207--20816291 Score: 104
Period size: 31 Copynumber: 2.7 Consensus size: 31
20816197 TAAATGTTTT
*
20816207 ATAATATTAAAAATATATTTAAATTTTAATAAA
1 ATAATATTAAAAA-A-ATTTAAAATTTAATAAA
*
20816240 AT-AT-TTAAAAATATTTAAAATTTAA-AAA
1 ATAATATTAAAAAAATTTAAAATTTAATAAA
20816268 ATAATATTATAAAAAATTTAAAAT
1 ATAATATTA-AAAAAATTTAAAAT
20816292 ATACATTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 5 0.11
29 14 0.30
30 3 0.07
31 20 0.43
32 2 0.04
33 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
ATAATATTAAAAAAATTTAAAATTTAATAAA
Found at i:20816302 original size:22 final size:24
Alignment explanation
Indices: 20816256--20816302 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
20816246 AAAAATATTT
*
20816256 AAAATTTAAAAAATAATATTATAA
1 AAAATTTAAAAAATAACATTATAA
*
20816280 AAAATTTAAAATAT-ACATT-TAA
1 AAAATTTAAAAAATAACATTATAA
20816302 A
1 A
20816303 CTATTATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 4 0.19
24 13 0.62
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
AAAATTTAAAAAATAACATTATAA
Found at i:20817450 original size:16 final size:17
Alignment explanation
Indices: 20817429--20817464 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
20817419 CGATTTTCTC
*
20817429 TATTTTTAA-ATATTTT
1 TATTTTTAATAAATTTT
20817445 TATTTTTAATAAATTTT
1 TATTTTTAATAAATTTT
20817462 TAT
1 TAT
20817465 AATTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTTTAATAAATTTT
Found at i:20817474 original size:17 final size:17
Alignment explanation
Indices: 20817430--20817477 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 17
20817420 GATTTTCTCT
20817430 ATTTTTAAATATTTTT-
1 ATTTTTAAATATTTTTA
*
20817446 ATTTTTAATAAATTTTTATA
1 ATTTTTAA-ATA-TTTT-TA
20817466 ATTTTTAAATAT
1 ATTTTTAAATAT
20817478 ATATAACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 8 0.31
17 2 0.08
18 5 0.19
19 3 0.12
20 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTAAATATTTTTA
Found at i:20817482 original size:17 final size:17
Alignment explanation
Indices: 20817430--20817483 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
20817420 GATTTTCTCT
*
20817430 ATTTTTAAATATTTTTA
1 ATTTTTAAATATTTATA
* *
20817447 TTTTTAATAAATTTTTATA
1 ATTTT--TAAATATTTATA
*
20817466 ATTTTTAAATATATATA
1 ATTTTTAAATATTTATA
20817483 A
1 A
20817484 CAATGCTGTC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
17 15 0.52
19 14 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTTAAATATTTATA
Found at i:20822856 original size:51 final size:52
Alignment explanation
Indices: 20822714--20822872 Score: 205
Period size: 53 Copynumber: 3.1 Consensus size: 52
20822704 CGGATCACAT
* * * * * *
20822714 ATCATACCGATGCCATATCCCAGATATAGTCTTATACGAAATCACATTATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCACA-TATCAC
*
20822767 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACGTATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAAGCACATATCAC
**
20822819 ATTGCACCGATGCCATA-CCCAGCTATGGTCTTATACGGAAGCACATATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCACATATCAC
20822870 ATC
1 ATC
20822873 TTTTCCGTCA
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
50 4 0.04
51 30 0.32
52 21 0.22
53 36 0.38
54 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (52 bp):
ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCACATATCAC
Found at i:20830529 original size:23 final size:23
Alignment explanation
Indices: 20830499--20830542 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
20830489 CAGTTCATCG
20830499 TAGTTTTTATCGATGACATTTCA
1 TAGTTTTTATCGATGACATTTCA
20830522 TAGTTTTTATCGATGACATTT
1 TAGTTTTTATCGATGACATTT
20830543 TGGTTTACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (23 bp):
TAGTTTTTATCGATGACATTTCA
Found at i:20838802 original size:21 final size:21
Alignment explanation
Indices: 20838769--20838878 Score: 100
Period size: 21 Copynumber: 5.2 Consensus size: 21
20838759 AAAGCAGAAT
* *
20838769 AGAAGCTCGTAAGAGCTTAAC
1 AGAAACTCATAAGAGCTTAAC
20838790 AGAAACTCATAAGAG-TTGAAC
1 AGAAACTCATAAGAGCTT-AAC
* *
20838811 A-AAAGCTCGTAAGAGCTGAAC
1 AGAAA-CTCATAAGAGCTTAAC
*
20838832 AGAAACTCATAAGAGTTTAAC
1 AGAAACTCATAAGAGCTTAAC
** *
20838853 AGAAGTTCGA-AAGAGCTGAAC
1 AGAAACTC-ATAAGAGCTTAAC
20838874 AGAAA
1 AGAAA
20838879 GTAAAATATG
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
20 5 0.07
21 62 0.86
22 5 0.07
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.17
Consensus pattern (21 bp):
AGAAACTCATAAGAGCTTAAC
Found at i:20838819 original size:42 final size:42
Alignment explanation
Indices: 20838771--20838878 Score: 171
Period size: 42 Copynumber: 2.6 Consensus size: 42
20838761 AGCAGAATAG
*
20838771 AAGCTCGTAAGAGCTTAACAGAAACTCATAAGAGTTGAACAA
1 AAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTGAACAA
* *
20838813 AAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTTAACAG
1 AAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTGAACAA
* *
20838855 AAGTTCGAAAGAGCTGAACAGAAA
1 AAGCTCGTAAGAGCTGAACAGAAA
20838879 GTAAAATATG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (42 bp):
AAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTGAACAA
Found at i:20841314 original size:30 final size:30
Alignment explanation
Indices: 20841274--20841337 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
20841264 GAATAGTCTC
*
20841274 TTTATAATTTTTAA-AGATTTAAATAAAAT
1 TTTATAATTTTTAAGAGATTAAAATAAAAT
* *
20841303 ATTTATCATTTTTAAGAGATTAAAATATAAT
1 -TTTATAATTTTTAAGAGATTAAAATAAAAT
20841334 TTTA
1 TTTA
20841338 GCTTTACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (30 bp):
TTTATAATTTTTAAGAGATTAAAATAAAAT
Found at i:20842665 original size:21 final size:20
Alignment explanation
Indices: 20842641--20842687 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
20842631 TTTAATTTTG
20842641 TAATTATTT-ATACTTATTATA
1 TAATTATTTCATAC-T-TTATA
*
20842662 TAATTTTTTTCATACTTTATA
1 TAA-TTATTTCATACTTTATA
20842683 TAATT
1 TAATT
20842688 TTAATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 2 0.09
21 11 0.48
22 6 0.26
23 4 0.17
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTATTTCATACTTTATA
Found at i:20848692 original size:53 final size:53
Alignment explanation
Indices: 20848612--20848718 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
20848602 AAAATACTGC
20848612 ATAAACAAAAATGACATACATCTAATGCCATCAACTGTTATATTATATTGAAT
1 ATAAACAAAAATGACATACATCTAATGCCATCAACTGTTATATTATATTGAAT
20848665 ATAAACAAAAATGACATACATCTAATGCCATCAACTGTTATATTATATTGAAT
1 ATAAACAAAAATGACATACATCTAATGCCATCAACTGTTATATTATATTGAAT
20848718 A
1 A
20848719 AATTATACTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (53 bp):
ATAAACAAAAATGACATACATCTAATGCCATCAACTGTTATATTATATTGAAT
Found at i:20864649 original size:49 final size:49
Alignment explanation
Indices: 20864456--20864724 Score: 173
Period size: 49 Copynumber: 5.6 Consensus size: 49
20864446 GACGAGAGTT
* * * * * *
20864456 AGTGTAAGACATGTCTGGGACAT-GTATCGGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGACTTGATATATGA-AAGCC
* * ** *
20864504 AGTGTAAGACCTGTCTGGGACATAGCGTC--ACCTTG-T-T-TG-GTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGA-CTTGATATATGAAAGCC
* * *** * *
20864548 AGTGTAAGACCTGTCTAGGACATGGCAT-TGACACCAATAAATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGAC-TTGATATATGAAAGCC
*
20864597 AGTGTAAGACCTGTCTGGGACATGGCATCGGACTTGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGACTTGATATATGAAAGCC
* * * * * * **
20864646 AGTGTAAAACCTATCTGGGACACGACATC-GACTTTA-ATGTGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGACTTGATATATGAAAGCC
*
20864693 AGTGTAAGACCATGTCTGGGGCATGGCATCGG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGG
20864725 CATTTGATCC
Statistics
Matches: 167, Mismatches: 41, Indels: 25
0.72 0.18 0.11
Matches are distributed among these distances:
44 27 0.16
45 2 0.01
46 2 0.01
47 17 0.10
48 47 0.28
49 69 0.41
50 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGACTTGATATATGAAAGCC
Found at i:20865750 original size:46 final size:46
Alignment explanation
Indices: 20865677--20865805 Score: 188
Period size: 46 Copynumber: 2.8 Consensus size: 46
20865667 TATTTGGGCA
* *
20865677 TCCGAGCTCGTTGAGTCGAGT-TCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCGAACG
20865723 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
* * * *
20865769 CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
20865806 TCGAGTTACA
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
46 75 0.99
47 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
Found at i:20870132 original size:12 final size:11
Alignment explanation
Indices: 20870107--20870146 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
20870097 AGTTTAGAAT
*
20870107 AAAAATTTTCA
1 AAAAATTTTAA
20870118 AAAAATGTTTAA
1 AAAAAT-TTTAA
20870130 AAATAATTTTAA
1 AAA-AATTTTAA
20870142 AAAAA
1 AAAAA
20870147 AACATAGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 8 0.31
12 15 0.58
13 3 0.12
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAAATTTTAA
Found at i:20871045 original size:11 final size:11
Alignment explanation
Indices: 20871031--20871061 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
20871021 CAAATGCCTT
20871031 TAAAATAACAA
1 TAAAATAACAA
20871042 TAAAATTAACAA
1 TAAAA-TAACAA
20871054 TAAAATAA
1 TAAAATAA
20871062 ATTTTATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (11 bp):
TAAAATAACAA
Found at i:20871049 original size:30 final size:31
Alignment explanation
Indices: 20870990--20871053 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
20870980 ACTTAACAAG
20870990 CAAATGCTTCTAAAATAATAAAAAAAATTAA
1 CAAATGCTTCTAAAATAATAAAAAAAATTAA
* *
20871021 CAAATGCCTT-TAAAATAA-CAATAAAATTAA
1 CAAATG-CTTCTAAAATAATAAAAAAAATTAA
20871051 CAA
1 CAA
20871054 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 13 0.43
31 14 0.47
32 3 0.10
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAAAAAAAATTAA
Found at i:20871060 original size:17 final size:17
Alignment explanation
Indices: 20871030--20871062 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20871020 ACAAATGCCT
20871030 TTAAAATAACAATAAAA
1 TTAAAATAACAATAAAA
20871047 TTAACAATAA-AATAAA
1 TTAA-AATAACAATAAA
20871063 TTTTATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
TTAAAATAACAATAAAA
Found at i:20873422 original size:27 final size:27
Alignment explanation
Indices: 20873392--20873446 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
20873382 CCCCTACAAT
20873392 TTCCCCTTCTGAGTCTCTGGCTAAAAC
1 TTCCCCTTCTGAGTCTCTGGCTAAAAC
20873419 TTCCCCTTCTGAGTCTCTGGCTAAAAC
1 TTCCCCTTCTGAGTCTCTGGCTAAAAC
20873446 T
1 T
20873447 ACTATTATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.35
Consensus pattern (27 bp):
TTCCCCTTCTGAGTCTCTGGCTAAAAC
Found at i:20881863 original size:21 final size:20
Alignment explanation
Indices: 20881833--20881880 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
20881823 TTAAGAATTG
* *
20881833 TTTTAGTATTATTTTTATTT
1 TTTTAATATTATTTTTATGT
*
20881853 ATTTTAATATTTGTTTTTATGT
1 -TTTTAATA-TTATTTTTATGT
20881875 TTTTAA
1 TTTTAA
20881881 ATATATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (20 bp):
TTTTAATATTATTTTTATGT
Found at i:20899969 original size:17 final size:17
Alignment explanation
Indices: 20899947--20899980 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
20899937 AAGTAAAAGA
20899947 TATTT-ATTGATTATTAT
1 TATTTAATTGA-TATTAT
20899964 TATTTAATTGATATTAT
1 TATTTAATTGATATTAT
20899981 ATTAGTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTTAATTGATATTAT
Found at i:20901271 original size:17 final size:17
Alignment explanation
Indices: 20901245--20901285 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
20901235 TTGATTGTAT
*
20901245 ATTGAAATGGAATTGAA
1 ATTGAAATGGAAATGAA
*
20901262 ATTGATATGGAAATGAA
1 ATTGAAATGGAAATGAA
20901279 ATTGAAA
1 ATTGAAA
20901286 AAAAAAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (17 bp):
ATTGAAATGGAAATGAA
Found at i:20901274 original size:23 final size:24
Alignment explanation
Indices: 20901238--20901285 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
20901228 TATTGAATTG
* *
20901238 ATTGTATATTGAAATGGAATTGAA
1 ATTGTATATGGAAATGAAATTGAA
20901262 ATTG-ATATGGAAATGAAATTGAA
1 ATTGTATATGGAAATGAAATTGAA
20901285 A
1 A
20901286 AAAAAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (24 bp):
ATTGTATATGGAAATGAAATTGAA
Found at i:20901338 original size:23 final size:23
Alignment explanation
Indices: 20901308--20901353 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
20901298 GAAAGAATAC
20901308 CCTATTAACTAGCCGGACTATGT
1 CCTATTAACTAGCCGGACTATGT
**
20901331 CCTATTAACTAGTTGGACTATGT
1 CCTATTAACTAGCCGGACTATGT
20901354 AAAATATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (23 bp):
CCTATTAACTAGCCGGACTATGT
Found at i:20901413 original size:13 final size:13
Alignment explanation
Indices: 20901376--20901419 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
20901366 GCATGTCATA
* *
20901376 TGATTTTGAGAAG
1 TGATTTGGAGATG
*
20901389 AGATTTGGAGATG
1 TGATTTGGAGATG
20901402 TGATTTGGAGATG
1 TGATTTGGAGATG
20901415 CTGAT
1 -TGAT
20901420 GTTTATATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 22 0.85
14 4 0.15
ACGTcount: A:0.27, C:0.02, G:0.34, T:0.36
Consensus pattern (13 bp):
TGATTTGGAGATG
Found at i:20901513 original size:28 final size:28
Alignment explanation
Indices: 20901460--20901543 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
20901450 CACTCTATGC
20901460 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
20901489 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* * *
20901517 GATACTGGTGTGTTTTGGAGTATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
20901544 CTGATGTGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.64
29 18 0.36
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.48
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:20901544 original size:23 final size:25
Alignment explanation
Indices: 20901464--20901578 Score: 85
Period size: 28 Copynumber: 4.4 Consensus size: 25
20901454 CTATGCTATT
*
20901464 CTGGTGTGTTTTGGATGGATTATATTATT
1 CTGGTGTGTTTTGGA-GG---ATATTATA
*
20901493 CTGGTGTGTTTGGGAGGATTATATGATA
1 CTGGTGTGTTTTGGAGGA-TAT-T-ATA
20901521 CTGGTGTGTTTTGGA-G-TATTATA
1 CTGGTGTGTTTTGGAGGATATTATA
* * *
20901544 CTGATGTGTTTTGGTTGGACATT-T-
1 CTGGTGTGTTTTGG-AGGATATTATA
20901568 CTGGTGTGTTT
1 CTGGTGTGTTT
20901579 GGATGAAATC
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
23 16 0.22
24 11 0.15
25 6 0.08
26 6 0.08
27 2 0.03
28 18 0.25
29 14 0.19
ACGTcount: A:0.16, C:0.05, G:0.31, T:0.48
Consensus pattern (25 bp):
CTGGTGTGTTTTGGAGGATATTATA
Found at i:20901877 original size:35 final size:34
Alignment explanation
Indices: 20901823--20901894 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
20901813 TTTTGAAAGA
*
20901823 GAAAAGAAAATAATTCAATTCC-AATAGAAATAG
1 GAAAAGAAAATAATCCAATTCCGAATAGAAATAG
* *
20901856 GAAAAGAGAGAATAATCCAATTCCGAATTGAAGTAG
1 GAAAAGA-A-AATAATCCAATTCCGAATAGAAATAG
20901892 GAA
1 GAA
20901895 TCCCAAAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.21
34 1 0.03
35 13 0.39
36 12 0.36
ACGTcount: A:0.53, C:0.10, G:0.18, T:0.19
Consensus pattern (34 bp):
GAAAAGAAAATAATCCAATTCCGAATAGAAATAG
Found at i:20902500 original size:44 final size:43
Alignment explanation
Indices: 20902452--20903031 Score: 250
Period size: 44 Copynumber: 13.2 Consensus size: 43
20902442 TCTACTCCGT
20902452 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCC
1 TACTGCTTAGGGAGATAAGATCT-TAATCTTCAGCCTGTTACCC
* * * * * *
20902496 TACTGCTTAGGGGGATAAG-GCTCACCGTCTCTGATCC-GTT-CCAC
1 TACTGCTTAGGGAGATAAGATCTTA--ATCT-TCAGCCTGTTACC-C
* * *
20902540 TACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTGTTACTC
1 TACTGCTTAGGGAGATAAGATCT-TAATCTTCAGCCTGTTACCC
* * * * * * * *
20902584 TACTGCATAGGGGGTTAAG-GCTTACCGTTTTC-GATCTGCT-CCAC
1 TACTGCTTAGGGAGATAAGATCTTA--ATCTTCAG-CCTGTTACC-C
*
20902628 TACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCC
1 TACTGCTTAGGGAGATAAGATCT-TAATCTTCAGCCTGTTACCC
* * * * * * *
20902672 TACTGCTTAGGGGGTTAAG-GCTCACCGTCTTC-GATCTATT-CCAC
1 TACTGCTTAGGGAGATAAGATCTTA--ATCTTCAG-CCTGTTACC-C
*
20902716 TATTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCC
1 TACTGCTTAGGGAGATAAGATCT-TAATCTTCAGCCTGTTACCC
* * * * * *
20902760 TACTGCTTAAGGG-GTTAAG-GCTCACCGTCTTC-GATCTGCT-CCAC
1 TACTGCTT-AGGGAGATAAGATCTTA--ATCTTCAG-CCTGTTACC-C
* *
20902804 TACTGCTCAGGGAGATAAGATCTGTGAA--TTCAGCCTGTTACCA
1 TACTGCTTAGGGAGATAAGATCT-T-AATCTTCAGCCTGTTACCC
* * * * * * * *
20902847 TACTGCTTAGGGGGTTAAG-GCTCACCGTCTT-TGATCTGCTT-CAC
1 TACTGCTTAGGGAGATAAGATCTTA--ATCTTCAG-CCTG-TTACCC
*
20902891 TACTGCTTAGGGAGATAAGATCTATAATCTTCAGCTTGTTACCC
1 TACTGCTTAGGGAGATAAGATCT-TAATCTTCAGCCTGTTACCC
* * * * *
20902935 TACTGCTTAGGGGGTTAAG-GCTCACCGTCTTC-GACCTGCTCTA--C
1 TACTGCTTAGGGAGATAAGATCTTA--ATCTTCAG-CCTG-T-TACCC
* *
20902979 TACTGTTTAGGGAGCTAAGATCTGTAATCTTCAGCCTGTTACCC
1 TACTGCTTAGGGAGATAAGATCT-TAATCTTCAGCCTGTTACCC
20903023 TACTGCTTA
1 TACTGCTTA
20903032 AGGGGTTAAG
Statistics
Matches: 387, Mismatches: 94, Indels: 110
0.65 0.16 0.19
Matches are distributed among these distances:
40 1 0.00
42 10 0.03
43 55 0.14
44 281 0.73
45 31 0.08
46 8 0.02
47 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (43 bp):
TACTGCTTAGGGAGATAAGATCTTAATCTTCAGCCTGTTACCC
Found at i:20902514 original size:88 final size:88
Alignment explanation
Indices: 20902356--20903101 Score: 1034
Period size: 88 Copynumber: 8.5 Consensus size: 88
20902346 CGTTTCAATT
* * * * * * * *
20902356 TGCTCCGCTACTGTTTAGGGAGATATGATTTGTAATCTTCAGCCTGCT-CCGCTGCTGCTCAAGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACC-CTACTGCTTAGGG
*** * *
20902420 ACATAAGGCTTACTGT-TCTCGATC
65 GGTTAAGGCTCACCGTCT-TCGATC
* **
20902444 TACTCCGTTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGG
*
20902509 GATAAGGCTCACCGTC-TCTGATC
66 GTTAAGGCTCACCGTCTTC-GATC
* * * * * *
20902532 CGTTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTGTTACTCTACTGCATAGGGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGG
* *
20902597 GTTAAGGCTTACCGTTTTCGATC
66 GTTAAGGCTCACCGTCTTCGATC
*
20902620 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGG
20902685 GTTAAGGCTCACCGTCTTCGATC
66 GTTAAGGCTCACCGTCTTCGATC
** * *
20902708 TATTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAAGGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGG
20902773 GTTAAGGCTCACCGTCTTCGATC
66 GTTAAGGCTCACCGTCTTCGATC
* *
20902796 TGCTCCACTACTGCTCAGGGAGATAAGATCTGTGAA--TTCAGCCTGTTACCATACTGCTTAGGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGT-AATCTTCAGCCTGTTACCCTACTGCTTAGGG
*
20902859 GGTTAAGGCTCACCGTCTTTGATC
65 GGTTAAGGCTCACCGTCTTCGATC
* * *
20902883 TGCTTCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAGCTTGTTACCCTACTGCTTAGGGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGG
*
20902948 GTTAAGGCTCACCGTCTTCGACC
66 GTTAAGGCTCACCGTCTTCGATC
* * * *
20902971 TGCTCTACTACTGTTTAGGGAGCTAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAAGGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGG
20903036 GTTAAGGCTCACCGTCTTCGATC
66 GTTAAGGCTCACCGTCTTCGATC
* *
20903059 TGCTCCACTTCTGCTTAGGGAGCTAAGATCTGTAATCTTCAGC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGC
20903102 TTAGGGGGTT
Statistics
Matches: 589, Mismatches: 62, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
86 2 0.00
87 80 0.14
88 501 0.85
89 6 0.01
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (88 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACCCTACTGCTTAGGGG
GTTAAGGCTCACCGTCTTCGATC
Found at i:20903075 original size:44 final size:44
Alignment explanation
Indices: 20902671--20903075 Score: 162
Period size: 44 Copynumber: 9.2 Consensus size: 44
20902661 GCCTGTTACC
* * **
20902671 CTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTATTCCA
1 CTACTGCTTAAGGGGTTAAGGCTCACCGTCTTCGACCTGCTCCA
* * * * * *
20902715 CTATTGCTT-AGGGAGATAAGATCTGTA--ATCTTC-AGCCTGTTACC-
1 CTACTGCTTAAGGG-GTTAAG-GCT-CACCGTCTTCGA-CCTGCT-CCA
*
20902759 CTACTGCTTAAGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
1 CTACTGCTTAAGGGGTTAAGGCTCACCGTCTTCGACCTGCTCCA
* * * *** ** *
20902803 CTACTGC-TCAGGGAGATAA-GATCTGTGAATTC-AGCCTGTTACCA
1 CTACTGCTTAAGGG-GTTAAGGCTCACCGTCTTCGA-CCTGCT-CCA
* * * *
20902847 -TACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTTCA
1 CTACTGCTTAAGGGGTTAAGGCTCACCGTCTTCGACCTGCTCCA
* * *** * *
20902890 CTACTGCTT-AGGGAGATAA-GATCTATAATCTTC-AGCTTGTTACC-
1 CTACTGCTTAAGGG-GTTAAGGCTC-ACCGTCTTCGA-CCTGCT-CCA
* *
20902934 CTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGACCTGCTCTA
1 CTACTGCTTAAGGGGTTAAGGCTCACCGTCTTCGACCTGCTCCA
* * * * * *
20902978 CTACTG-TTTAGGGAGCTAAGATCTGTA--ATCTTC-AGCCTGTTACC-
1 CTACTGCTTAAGGG-GTTAAG-GCT-CACCGTCTTCGA-CCTGCT-CCA
*
20903022 CTACTGCTTAAGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCA
1 CTACTGCTTAAGGGGTTAAGGCTCACCGTCTTCGACCTGCTCCA
*
20903066 CTTCTGCTTA
1 CTACTGCTTA
20903076 GGGAGCTAAG
Statistics
Matches: 252, Mismatches: 74, Indels: 70
0.64 0.19 0.18
Matches are distributed among these distances:
42 3 0.01
43 54 0.21
44 165 0.65
45 28 0.11
46 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (44 bp):
CTACTGCTTAAGGGGTTAAGGCTCACCGTCTTCGACCTGCTCCA
Found at i:20903146 original size:73 final size:73
Alignment explanation
Indices: 20903027--20903174 Score: 269
Period size: 73 Copynumber: 2.0 Consensus size: 73
20903017 TTACCCTACT
*
20903027 GCTTAAGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTTCTGCTTAGGGAGCTAAGATCTGT
1 GCTTAAGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGCTAAGATCTGT
20903092 AATCTTCA
66 AATCTTCA
* *
20903100 GCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGCTAAGATTTGT
1 GCTTAAGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGCTAAGATCTGT
20903165 AATCTTCA
66 AATCTTCA
20903173 GC
1 GC
20903175 CTGTTACCCT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (73 bp):
GCTTAAGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGCTAAGATCTGT
AATCTTCA
Found at i:20903149 original size:44 final size:44
Alignment explanation
Indices: 20903100--20903319 Score: 164
Period size: 44 Copynumber: 5.0 Consensus size: 44
20903090 GTAATCTTCA
* *
20903100 GCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACT
1 GCTTAGGGGGCTAAGGCTCACCATCTTCGATCTGCTCCACTACT
* ** **** * *
20903144 GCTTAGGGAGCTAAGATTTGTAATCTTC-AGCCTGTTACC-CTACT
1 GCTTAGGGGGCTAAGGCTCACCATCTTCGA-TCTGCT-CCACTACT
*
20903188 GCTTAGGGGGCTAAGGCTCACCGTCTTCGATCTGCTCCACTACT
1 GCTTAGGGGGCTAAGGCTCACCATCTTCGATCTGCTCCACTACT
* * * * * *
20903232 ACTTAGGGAGCTAAGATCTGTA--ATCTTC-AGCTTGTTACC-CTACT
1 GCTTAGGGGGCTAAG-GCT-CACCATCTTCGATC-TGCT-CCACTACT
* *
20903276 GCTTAGGGGGTTAAGGCTCACCATCTTCGATCTACTCCACTACT
1 GCTTAGGGGGCTAAGGCTCACCATCTTCGATCTGCTCCACTACT
20903320 ATTTAGGGAG
Statistics
Matches: 128, Mismatches: 36, Indels: 24
0.68 0.19 0.13
Matches are distributed among these distances:
42 1 0.01
43 9 0.07
44 108 0.84
45 9 0.07
46 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (44 bp):
GCTTAGGGGGCTAAGGCTCACCATCTTCGATCTGCTCCACTACT
Found at i:20903205 original size:161 final size:161
Alignment explanation
Indices: 20902939--20903264 Score: 580
Period size: 161 Copynumber: 2.0 Consensus size: 161
20902929 TTACCCTACT
* *
20902939 GCTTAGGGGGTTAAGGCTCACCGTCTTCGACCTGCTCTACTACTGTTTAGGGAGCTAAGATCTGT
1 GCTTAGGGGGTTAAGGCTCACCGTCTTCGACCTGCTCCACTACTGCTTAGGGAGCTAAGATCTGT
* *
20903004 AATCTTCAGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTT
66 AATCTTCAGCCTGTTACCCTACTGCTTAAGGGGCTAAGGCTCACCGTCTTCGATCTGCTCCACTA
*
20903069 CTGCTTAGGGAGCTAAGATCTGTAATCTTCA
131 CTACTTAGGGAGCTAAGATCTGTAATCTTCA
* *
20903100 GCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGCTAAGATTTGT
1 GCTTAGGGGGTTAAGGCTCACCGTCTTCGACCTGCTCCACTACTGCTTAGGGAGCTAAGATCTGT
*
20903165 AATCTTCAGCCTGTTACCCTACTGCTTAGGGGGCTAAGGCTCACCGTCTTCGATCTGCTCCACTA
66 AATCTTCAGCCTGTTACCCTACTGCTTAAGGGGCTAAGGCTCACCGTCTTCGATCTGCTCCACTA
20903230 CTACTTAGGGAGCTAAGATCTGTAATCTTCA
131 CTACTTAGGGAGCTAAGATCTGTAATCTTCA
20903261 GCTT
1 GCTT
20903265 GTTACCCTAC
Statistics
Matches: 157, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
161 157 1.00
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (161 bp):
GCTTAGGGGGTTAAGGCTCACCGTCTTCGACCTGCTCCACTACTGCTTAGGGAGCTAAGATCTGT
AATCTTCAGCCTGTTACCCTACTGCTTAAGGGGCTAAGGCTCACCGTCTTCGATCTGCTCCACTA
CTACTTAGGGAGCTAAGATCTGTAATCTTCA
Found at i:20903254 original size:88 final size:88
Alignment explanation
Indices: 20903100--20903349 Score: 410
Period size: 88 Copynumber: 2.8 Consensus size: 88
20903090 GTAATCTTCA
* *
20903100 GCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGCTAAGATTTGT
1 GCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGCTAAGATCTGT
20903165 AATCTTCAGCCTGTTACCCTACT
66 AATCTTCAGCCTGTTACCCTACT
*
20903188 GCTTAGGGGGCTAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGCTAAGATCTGT
1 GCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGCTAAGATCTGT
*
20903253 AATCTTCAGCTTGTTACCCTACT
66 AATCTTCAGCCTGTTACCCTACT
* * * * *
20903276 GCTTAGGGGGTTAAGGCTCACCATCTTCGATCTACTCCACTACTATTTAGGGAGATAAGATCTGA
1 GCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGCTAAGATCTGT
*
20903341 AATTTTCAG
66 AATCTTCAG
20903350 TCTGCTTCCT
Statistics
Matches: 151, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 151 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (88 bp):
GCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGCTAAGATCTGT
AATCTTCAGCCTGTTACCCTACT
Found at i:20903625 original size:178 final size:178
Alignment explanation
Indices: 20903326--20903646 Score: 525
Period size: 178 Copynumber: 1.8 Consensus size: 178
20903316 TACTATTTAG
* * *
20903326 GGAGATAAGATCTGAAATTTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACTTGTATCTT
1 GGAGATAAGATCTGAAATTTTCAGTCTACTTCATTACTACCTCAGAAAGATAAGACTTGTATCTT
** *
20903391 TGACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATA
66 CAACCTGCACTCTTGCTACCTCAAAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATA
*
20903456 CATGGAGATAAGACTCGCCATTTTCGATCTGCTCTATAGCAGATACAT
131 CATAGAGATAAGACTCGCCATTTTCGATCTGCTCTATAGCAGATACAT
* * * *
20903504 GGAGATAAGATCTGTAATTTTTAGTCTACTTCATTGCTACCTTAGAAAGATAAGACTTGTATCTT
1 GGAGATAAGATCTGAAATTTTCAGTCTACTTCATTACTACCTCAGAAAGATAAGACTTGTATCTT
* *
20903569 CAACCTGCACTTTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATA
66 CAACCTGCACTCTTGCTACCTCAAAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATA
20903634 CATAGAGATAAGA
131 CATAGAGATAAGA
20903647 TCTGTAATTT
Statistics
Matches: 130, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
178 130 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (178 bp):
GGAGATAAGATCTGAAATTTTCAGTCTACTTCATTACTACCTCAGAAAGATAAGACTTGTATCTT
CAACCTGCACTCTTGCTACCTCAAAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATA
CATAGAGATAAGACTCGCCATTTTCGATCTGCTCTATAGCAGATACAT
Found at i:20903790 original size:133 final size:133
Alignment explanation
Indices: 20903482--20903777 Score: 400
Period size: 133 Copynumber: 2.2 Consensus size: 133
20903472 GCCATTTTCG
* * *
20903482 ATCTGCTCTATAGCAGATACATGGAGATAAGATCTGTAATTTTTAGTCTACTTCATTGCTACCTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTACTTCATTGCTACCTT
* * * ** *
20903547 AGAAAGATAAGACTTGTATCTTCAACCTGCACTTTTGCTACCTCAGAGAGATAAGGCCGGTGGCT
66 AGAAAGATAAGACTTGTATCTTCAACATGCACTCTTGCTACCTCAGAGAGACAAAACCAGTGGCT
20903612 AAA
131 AAA
* *
20903615 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTT-ACTTGCTA-CT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTACTTCA-TTGCTACCT
* * *
20903678 TCAGGAAGATAAGACTTGTATCTTCAACATGCTCTCTTGCTACCTCAGAGAGACAAAACTAGTGG
65 T-AGAAAGATAAGACTTGTATCTTCAACATGCACTCTTGCTACCTCAGAGAGACAAAACCAGTGG
*
20903743 TTAAA
129 CTAAA
*
20903748 A-CTTGCTTCATAGCCGATACATGGAGATAA
1 ATC-TGCTCCATAGCCGATACATGGAGATAA
20903778 AACTCGCCAT
Statistics
Matches: 143, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
132 5 0.03
133 138 0.97
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (133 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTACTTCATTGCTACCTT
AGAAAGATAAGACTTGTATCTTCAACATGCACTCTTGCTACCTCAGAGAGACAAAACCAGTGGCT
AAA
Found at i:20903806 original size:178 final size:178
Alignment explanation
Indices: 20903622--20904052 Score: 774
Period size: 178 Copynumber: 2.4 Consensus size: 178
20903612 AAAATCTGCT
20903622 CCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTACTTGCTACTTCAGGAAGA
1 CCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTACTTGCTACTTCAGGAAGA
20903687 TAAGACTTGTATCTTCAACATGCTCTCTTGCTACCTCAGAGAGACAAAACTAGTGGTTAAAACTT
66 TAAGACTTGTATCTTCAACATGCTCTCTTGCTACCTCAGAGAGACAAAACTAGTGGTTAAAACTT
*
20903752 GCTTCATAGCCGATACATGGAGATAAAACTCGCCATTTTAGATCCGCC
131 GCTTCATAGCCGATACATGGAGATAAAACTCGCCATTTCAGATCCGCC
20903800 CCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTACTTGCTACTTCAGGAAGA
1 CCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTACTTGCTACTTCAGGAAGA
*
20903865 TAAGACTTGTATCTTCAACATGCTCTCTTGCTACCTCAGAGAGACAAAGCTAGTGGTTAAAACTT
66 TAAGACTTGTATCTTCAACATGCTCTCTTGCTACCTCAGAGAGACAAAACTAGTGGTTAAAACTT
*
20903930 GCTTCATAGCCGATACATGGAGATAAAACTCGCCATTTCAGATCTGCC
131 GCTTCATAGCCGATACATGGAGATAAAACTCGCCATTTCAGATCCGCC
* * * * *
20903978 CCATAACCGATAAATGGAGATAAGATCTGTAATTTTTAGTCTGCTT-CATTGCTACCTCAGGAAG
1 CCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTAC-TTGCTACTTCAGGAAG
20904042 ATAAGACTTGT
65 ATAAGACTTGT
20904053 GAATTCACTG
Statistics
Matches: 244, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
177 1 0.00
178 243 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (178 bp):
CCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTACTTGCTACTTCAGGAAGA
TAAGACTTGTATCTTCAACATGCTCTCTTGCTACCTCAGAGAGACAAAACTAGTGGTTAAAACTT
GCTTCATAGCCGATACATGGAGATAAAACTCGCCATTTCAGATCCGCC
Found at i:20903898 original size:311 final size:311
Alignment explanation
Indices: 20903327--20903955 Score: 879
Period size: 311 Copynumber: 2.0 Consensus size: 311
20903317 ACTATTTAGG
* *
20903327 GAGATAAGATCTGAAATTTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACTTGTATCTTT
1 GAGATAAGATCTGAAATTTTCAGTCTGCTTACTTACTACCTCAGGAAGATAAGACTTGTATCTTC
* * * ** *
20903392 GACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAC
66 AACATGCTCTCTTGCTACCTCAAAGAGACAAAACCAGTGGCTAAAATCTGCTCCATAGCCGATAC
* * * * * *
20903457 ATGGAGATAAGACTCGCCATTTTCGATCTGCTCTATAGCAGATACATGGAGATAAGATCTGTAAT
131 ATGGAGATAAAACTCGCCATTTTAGATCCGCCCCATAGCAGATACATAGAGATAAGATCTGTAAT
* * *
20903522 TTTTAGTCTACTTCATTGCTACCTTAGAAAGATAAGACTTGTATCTTCAACCTGCACTTTTGCTA
196 TTTCAGTCTACTTCATTGCTACCTTAGAAAGATAAGACTTGTATCTTCAACATGCACTCTTGCTA
* * *
20903587 CCTCAGAGAGATAAGGCCGGTGGCTAAAA-TCTGCTCCATAGCCGATACATA
261 CCTCAGAGAGACAAAGCCAGTGGCTAAAACT-TGCTCCATAGCCGATACATA
* * *
20903638 GAGATAAGATCTGTAATTTTCAGTCTGCTTACTTGCTACTTCAGGAAGATAAGACTTGTATCTTC
1 GAGATAAGATCTGAAATTTTCAGTCTGCTTACTTACTACCTCAGGAAGATAAGACTTGTATCTTC
* * * *
20903703 AACATGCTCTCTTGCTACCTCAGAGAGACAAAACTAGTGGTTAAAA-CTTGCTTCATAGCCGATA
66 AACATGCTCTCTTGCTACCTCAAAGAGACAAAACCAGTGGCTAAAATC-TGCTCCATAGCCGATA
*
20903767 CATGGAGATAAAACTCGCCATTTTAGATCCGCCCCATAGCCGATACATAGAGATAAGATCTGTAA
130 CATGGAGATAAAACTCGCCATTTTAGATCCGCCCCATAGCAGATACATAGAGATAAGATCTGTAA
* * *
20903832 TTTTCAGTCTGCTT-ACTTGCTA-CTTCAGGAAGATAAGACTTGTATCTTCAACATGCTCTCTTG
195 TTTTCAGTCTACTTCA-TTGCTACCTT-AGAAAGATAAGACTTGTATCTTCAACATGCACTCTTG
* * * *
20903895 CTACCTCAGAGAGACAAAGCTAGTGGTTAAAACTTGCTTCATAGCCGATACATG
258 CTACCTCAGAGAGACAAAGCCAGTGGCTAAAACTTGCTCCATAGCCGATACATA
20903949 GAGATAA
1 GAGATAA
20903956 AACTCGCCAT
Statistics
Matches: 279, Mismatches: 35, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
310 5 0.02
311 273 0.98
312 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (311 bp):
GAGATAAGATCTGAAATTTTCAGTCTGCTTACTTACTACCTCAGGAAGATAAGACTTGTATCTTC
AACATGCTCTCTTGCTACCTCAAAGAGACAAAACCAGTGGCTAAAATCTGCTCCATAGCCGATAC
ATGGAGATAAAACTCGCCATTTTAGATCCGCCCCATAGCAGATACATAGAGATAAGATCTGTAAT
TTTCAGTCTACTTCATTGCTACCTTAGAAAGATAAGACTTGTATCTTCAACATGCACTCTTGCTA
CCTCAGAGAGACAAAGCCAGTGGCTAAAACTTGCTCCATAGCCGATACATA
Found at i:20916699 original size:45 final size:45
Alignment explanation
Indices: 20916634--20916721 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
20916624 CTCTTAACCT
20916634 GCATTGCATCTAATCATGCACCTATATAGGTGGACTTATATAGGG
1 GCATTGCATCTAATCATGCACCTATATAGGTGGACTTATATAGGG
* *
20916679 GCATTGCATCTAATCTTGCACCTATATAGGTGTACTTATATAG
1 GCATTGCATCTAATCATGCACCTATATAGGTGGACTTATATAG
20916722 AGGTTAGGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (45 bp):
GCATTGCATCTAATCATGCACCTATATAGGTGGACTTATATAGGG
Found at i:20918428 original size:345 final size:345
Alignment explanation
Indices: 20917791--20918461 Score: 1333
Period size: 345 Copynumber: 1.9 Consensus size: 345
20917781 ATGATGGATA
20917791 CCAATGTAGAGATTTCTTGATGACTCTCACAGATCGTACGAGAACTTAGTACTAATCTTTACCGA
1 CCAATGTAGAGATTTCTTGATGACTCTCACAGATCGTACGAGAACTTAGTACTAATCTTTACCGA
20917856 GCATATCTATAGATACCTTCAAACAACTAGCTTGCCAAACTTCTTGACTAATCATTCAATTTTTA
66 GCATATCTATAGATACCTTCAAACAACTAGCTTGCCAAACTTCTTGACTAATCATTCAATTTTTA
20917921 AAAATCTTGCTAATATTCTTATTAGTAAGCAAAACAAAGGCAATCAATTACCGACCCAATAGCCT
131 AAAATCTTGCTAATATTCTTATTAGTAAGCAAAACAAAGGCAATCAATTACCGACCCAATAGCCT
20917986 ATTTAGTATCTAGAACATCCAAAATAATATCATTCGAAGGATCCTAACAGTAAAGATCAACAAGC
196 ATTTAGTATCTAGAACATCCAAAATAATATCATTCGAAGGATCCTAACAGTAAAGATCAACAAGC
*
20918051 TTATTTTGCAACTAGTGTTTATCTATCCTCCTAATGGGTGTATGAGAGCTACTTCATGCTAGTAA
261 TTATTTTGCAACTAGTGTTTATCTACCCTCCTAATGGGTGTATGAGAGCTACTTCATGCTAGTAA
20918116 AACATCCAAAATAATAGTTG
326 AACATCCAAAATAATAGTTG
20918136 CCAATGTAGAGATTTCTTGATGACTCTCACAGATCGTACGAGAACTTAGTACTAATCTTTACCGA
1 CCAATGTAGAGATTTCTTGATGACTCTCACAGATCGTACGAGAACTTAGTACTAATCTTTACCGA
20918201 GCATATCTATAGATACCTTCAAACAACTAGCTTGCCAAACTTCTTGACTAATCATTCAATTTTTA
66 GCATATCTATAGATACCTTCAAACAACTAGCTTGCCAAACTTCTTGACTAATCATTCAATTTTTA
20918266 AAAATCTTGCTAATATTCTTATTAGTAAGCAAAACAAAGGCAATCAATTACCGACCCAATAGCCT
131 AAAATCTTGCTAATATTCTTATTAGTAAGCAAAACAAAGGCAATCAATTACCGACCCAATAGCCT
20918331 ATTTAGTATCTAGAACATCCAAAATAATATCATTCGAAGGATCCTAACAGTAAAGATCAACAAGC
196 ATTTAGTATCTAGAACATCCAAAATAATATCATTCGAAGGATCCTAACAGTAAAGATCAACAAGC
20918396 TTATTTTGCAACTAGTGTTTATCTACCCTCCTAATGGGTGTATGAGAGCTACTTCATGCTAGTAA
261 TTATTTTGCAACTAGTGTTTATCTACCCTCCTAATGGGTGTATGAGAGCTACTTCATGCTAGTAA
20918461 A
326 A
20918462 CATTCACTTA
Statistics
Matches: 325, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
345 325 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (345 bp):
CCAATGTAGAGATTTCTTGATGACTCTCACAGATCGTACGAGAACTTAGTACTAATCTTTACCGA
GCATATCTATAGATACCTTCAAACAACTAGCTTGCCAAACTTCTTGACTAATCATTCAATTTTTA
AAAATCTTGCTAATATTCTTATTAGTAAGCAAAACAAAGGCAATCAATTACCGACCCAATAGCCT
ATTTAGTATCTAGAACATCCAAAATAATATCATTCGAAGGATCCTAACAGTAAAGATCAACAAGC
TTATTTTGCAACTAGTGTTTATCTACCCTCCTAATGGGTGTATGAGAGCTACTTCATGCTAGTAA
AACATCCAAAATAATAGTTG
Found at i:20922078 original size:28 final size:28
Alignment explanation
Indices: 20922038--20922093 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
20922028 GAAATATTAG
20922038 AAAAATTGCCGATGACAACCAATCCTAT
1 AAAAATTGCCGATGACAACCAATCCTAT
*
20922066 AAAAATTGCCGATGACAACCAGTCCTAT
1 AAAAATTGCCGATGACAACCAATCCTAT
20922094 CTCTTGTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.21
Consensus pattern (28 bp):
AAAAATTGCCGATGACAACCAATCCTAT
Found at i:20932631 original size:10 final size:10
Alignment explanation
Indices: 20932582--20932624 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
20932572 TTAAATTCTA
20932582 AAAGATAAAT
1 AAAGATAAAT
20932592 ACAA-ATAAAT
1 A-AAGATAAAT
*
20932602 AAAGATAATT
1 AAAGATAAAT
20932612 AAAGATAAAT
1 AAAGATAAAT
20932622 AAA
1 AAA
20932625 ATTAAATCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:20933241 original size:40 final size:38
Alignment explanation
Indices: 20933197--20933336 Score: 133
Period size: 40 Copynumber: 3.6 Consensus size: 38
20933187 ACACACCAGT
20933197 TTGACACCTAGTGCCTCATCGGATAATTCGAAGTAATAAA
1 TTGACACCTAGTGCCTCATCGGATAA-TCGAAGT-ATAAA
** * * *
20933237 TTGACACCCCGTGTCTCATCGGCTAAACCGAAG--TAAA
1 TTGACACCTAGTGCCTCATCGGAT-AATCGAAGTATAAA
*
20933274 TT-AGCACCTAGTGCCTCATCGAATTAATCTGAAGTAGTAAA
1 TTGA-CACCTAGTGCCTCATCGGA-TAATC-GAAGTA-TAAA
*
20933315 TTGACACCTAGTGTCTCATCGG
1 TTGACACCTAGTGCCTCATCGG
20933337 CTCGAAGTCA
Statistics
Matches: 79, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
36 1 0.01
37 23 0.29
38 5 0.06
40 25 0.32
41 24 0.30
42 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (38 bp):
TTGACACCTAGTGCCTCATCGGATAATCGAAGTATAAA
Found at i:20936277 original size:51 final size:51
Alignment explanation
Indices: 20936219--20936359 Score: 185
Period size: 55 Copynumber: 2.7 Consensus size: 51
20936209 TCAGATACTA
*
20936219 ATATATTAGCTCTTCTGGAGCTTTCATCTAATTTTGTAGTACCAAATATTG
1 ATATATTAGCTCTTTTGGAGCTTTCATCTAATTTTGTAGTACCAAATATTG
* * *
20936270 ATTTATTAGCTAGCTCTTTTGGAGCTTTTATCTAATTTTATAGTACCAAATATTG
1 A--TA-TA-TTAGCTCTTTTGGAGCTTTCATCTAATTTTGTAGTACCAAATATTG
* *
20936325 ATATATTAGCTCTTTTGTAGCTTTCAACT-ATTTTG
1 ATATATTAGCTCTTTTGGAGCTTTCATCTAATTTTG
20936360 CATATCACAT
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
50 5 0.06
51 21 0.27
52 2 0.03
53 4 0.05
54 2 0.03
55 43 0.56
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (51 bp):
ATATATTAGCTCTTTTGGAGCTTTCATCTAATTTTGTAGTACCAAATATTG
Found at i:20936303 original size:55 final size:55
Alignment explanation
Indices: 20936225--20936335 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
20936215 ACTAATATAT
* *
20936225 TAGCTCTTCTGGAGCTTTCATCTAATTTTGTAGTACCAAATATTGATTTATTAGC
1 TAGCTCTTCTGGAGCTTTCATCTAATTTTATAGTACCAAATATTGATATATTAGC
* *
20936280 TAGCTCTTTTGGAGCTTTTATCTAATTTTATAGTACCAAATATTGATATATTAGC
1 TAGCTCTTCTGGAGCTTTCATCTAATTTTATAGTACCAAATATTGATATATTAGC
20936335 T
1 T
20936336 CTTTTGTAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (55 bp):
TAGCTCTTCTGGAGCTTTCATCTAATTTTATAGTACCAAATATTGATATATTAGC
Found at i:20945298 original size:14 final size:14
Alignment explanation
Indices: 20945281--20945321 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
20945271 TAGGATTAAA
20945281 GGTTTAAGGTTTAT
1 GGTTTAAGGTTTAT
*
20945295 GGTTTAGGGTTTAT
1 GGTTTAAGGTTTAT
* *
20945309 TGTTTATGGTTTA
1 GGTTTAAGGTTTA
20945322 ATATTTTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (14 bp):
GGTTTAAGGTTTAT
Found at i:20945305 original size:21 final size:21
Alignment explanation
Indices: 20945281--20945321 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20945271 TAGGATTAAA
20945281 GGTTTAAGGTTTATGGTTTAG
1 GGTTTAAGGTTTATGGTTTAG
**
20945302 GGTTTATTGTTTATGGTTTA
1 GGTTTAAGGTTTATGGTTTA
20945322 ATATTTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (21 bp):
GGTTTAAGGTTTATGGTTTAG
Found at i:20945393 original size:29 final size:29
Alignment explanation
Indices: 20945347--20945429 Score: 71
Period size: 29 Copynumber: 2.8 Consensus size: 29
20945337 GGTTTATAGT
* *
20945347 TTAGTGTTTTAAGG-TTTAGGGTT-TGGTGT
1 TTAGTG-TTTAGGGTTTTAGGGTTATGGT-A
* * **
20945376 TTGGTGTTTAGTGTTTTATAGTTATGGTA
1 TTAGTGTTTAGGGTTTTAGGGTTATGGTA
20945405 TTAGTGTTTAGGGTTTTAGGTGTTA
1 TTAGTGTTTAGGGTTTTAGG-GTTA
20945430 GGGTTTAAGG
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
28 5 0.12
29 28 0.68
30 8 0.20
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (29 bp):
TTAGTGTTTAGGGTTTTAGGGTTATGGTA
Found at i:20945412 original size:36 final size:36
Alignment explanation
Indices: 20945345--20945444 Score: 91
Period size: 36 Copynumber: 2.8 Consensus size: 36
20945335 TGGGTTTATA
*
20945345 GTTTAGTGTTTTAAGGTTTAGGGTTTGGTGTTTGGT
1 GTTTAGTGTTTTAAGGTTTAGGGTTTAGTGTTTGGT
*
20945381 GTTTAGTGTTTTATA-G-TTATGGTATTAGTGTTTAGG-
1 GTTTAGTGTTTTA-AGGTTTAGGGT-TTAGTGTTT-GGT
* *
20945417 GTTTTAG-GTGTTAGGGTTTAAGGGTTTA
1 G-TTTAGTGTTTTAAGGTTT-AGGGTTTA
20945445 AAGGTTTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
35 6 0.12
36 29 0.56
37 13 0.25
38 4 0.08
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (36 bp):
GTTTAGTGTTTTAAGGTTTAGGGTTTAGTGTTTGGT
Done.