Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007978.1 Hibiscus syriacus cultivar Beakdansim tig00110415_pilon, 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: 1479011
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 2 of 7
Found at i:224989 original size:19 final size:22
Alignment explanation
Indices: 224940--224998 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 22
224930 ATAATAATCA
*
224940 TATATCATTATAATATAATTGAG
1 TATAT-ATTATAATATTATTGAG
224963 TATATATTATAATATTATT-A-
1 TATATATTATAATATTATTGAG
*
224983 T-TATATTATATTATTA
1 TATATATTATAATATTA
224999 AAAATATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.41
20 1 0.03
21 1 0.03
22 13 0.38
23 5 0.15
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (22 bp):
TATATATTATAATATTATTGAG
Found at i:225023 original size:23 final size:24
Alignment explanation
Indices: 224990--225044 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
224980 TTATTATATT
224990 ATATTATTAAAAATATTAATAAATA
1 ATATT-TTAAAAATATTAATAAATA
* * *
225015 A-ATTTTAAATATGTTAATAATTA
1 ATATTTTAAAAATATTAATAAATA
225038 ATATTTT
1 ATATTTT
225045 TATTAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 17 0.65
24 8 0.31
25 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
ATATTTTAAAAATATTAATAAATA
Found at i:228790 original size:182 final size:182
Alignment explanation
Indices: 228472--228800 Score: 446
Period size: 182 Copynumber: 1.8 Consensus size: 182
228462 CCCCAAAATG
* * **
228472 TTTAAAGTTGCTGTGACACTTGTTGTATCTGTTGGCCTGTAAGCTTTCCTTCTCTTCTGTTCCTG
1 TTTAAAGTTGCTGTGACACTTGTTGTATCTATTGGCCTGTAAGCTTTCCTTCTATTCTCCTCCTG
* * * *
228537 CAATTCTTCAGGGAAACATGAATCGACATACTAACGGCAACTAACAACAATATATAGGTAGTATA
66 CAATTCTTCAGGGAAACATGAATCGACATACGAACGGAAACTAACAACAAAATATAGGTAATATA
228602 TTATGATTTAAACTTTCAATCTATTCAGTGTACATTGAACAATAATTTACTA
131 TTATGATTTAAACTTTCAATCTATTCAGTGTACATTGAACAATAATTTACTA
*
228654 TTTAAAGTTGCTGTGATACTTGTTGTATCTATTGGCCTGTAAGCTTTCCTTCTATTCTCCTCCTG
1 TTTAAAGTTGCTGTGACACTTGTTGTATCTATTGGCCTGTAAGCTTTCCTTCTATTCTCCTCCTG
* * * * * * * * *
228719 TAATATTTTCAGGGAAACATGAATTGATATACGGATGGAAACTAAGAGCAAAATGTA-GTGAAT-
66 CAAT-TCTTCAGGGAAACATGAATCGACATACGAACGGAAACTAACAACAAAATATAGGT-AATA
* *
228782 TGTTATGATTTAATCTTTC
129 TATTATGATTTAAACTTTC
228801 TTATTAATCA
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
182 82 0.66
183 43 0.34
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (182 bp):
TTTAAAGTTGCTGTGACACTTGTTGTATCTATTGGCCTGTAAGCTTTCCTTCTATTCTCCTCCTG
CAATTCTTCAGGGAAACATGAATCGACATACGAACGGAAACTAACAACAAAATATAGGTAATATA
TTATGATTTAAACTTTCAATCTATTCAGTGTACATTGAACAATAATTTACTA
Found at i:234044 original size:36 final size:38
Alignment explanation
Indices: 234002--234088 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 38
233992 AAAATGAAGC
* * **
234002 AAAAA-TTATACATTATGTATGGTTTTGAA-AAAAATT
1 AAAAATTTATACAATAAGTATAATTTTGAAGAAAAATT
234038 AAAAATTTATACAATAAGTATAATTTTGAAGAAAAAAAATT
1 AAAAATTTATACAATAAGTATAATTTTGAAG---AAAAATT
234079 AAAAATTTAT
1 AAAAATTTAT
234089 GTACTAAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 5 0.12
37 20 0.48
41 17 0.40
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (38 bp):
AAAAATTTATACAATAAGTATAATTTTGAAGAAAAATT
Found at i:239122 original size:3 final size:3
Alignment explanation
Indices: 239114--239148 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
239104 CAACGACCTT
239114 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
239149 TATCGAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:247996 original size:20 final size:19
Alignment explanation
Indices: 247957--248000 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
247947 TCCCTTTGGG
* *
247957 TGATTCGAATTCAGAAATT
1 TGATTCGAACTCAAAAATT
247976 TGATTCGAACTCGAAAAATT
1 TGATTCGAACTC-AAAAATT
247996 T-ATTC
1 TGATTC
248001 AGTCAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (19 bp):
TGATTCGAACTCAAAAATT
Found at i:257521 original size:13 final size:13
Alignment explanation
Indices: 257500--257529 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
257490 TCCATCCATA
*
257500 AATTTTATATTTT
1 AATTATATATTTT
257513 AATTATATATTTT
1 AATTATATATTTT
257526 AATT
1 AATT
257530 TAATCATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
AATTATATATTTT
Found at i:264379 original size:20 final size:20
Alignment explanation
Indices: 264343--264380 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
264333 ATCCTATTCT
*
264343 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTCATTCCCA
264363 CTGGTAAT-TTTACATTCC
1 CTGGTAATCTTT-CATTCC
264381 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTTCATTCCCA
Found at i:265378 original size:17 final size:19
Alignment explanation
Indices: 265336--265371 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
265326 GGTTACGGCT
*
265336 AATTGAT-CAAAATATAAC
1 AATTGATACAAAAAATAAC
265354 AATTGATACAAAAAATAA
1 AATTGATACAAAAAATAA
265372 ATTGATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.25
Consensus pattern (19 bp):
AATTGATACAAAAAATAAC
Found at i:267758 original size:19 final size:22
Alignment explanation
Indices: 267711--267764 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
267701 ACTAAATCCC
267711 TATTTTTATTGAATAAAAATAA
1 TATTTTTATTGAATAAAAATAA
267733 TATTTTTATTGAATAAAAATAA
1 TATTTTTATTGAATAAAAATAA
*
267755 TTTTTTTATT
1 TATTTTTATT
267765 ATTATTTCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
TATTTTTATTGAATAAAAATAA
Found at i:273121 original size:21 final size:21
Alignment explanation
Indices: 273095--273153 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
273085 ATTATCCAAT
*
273095 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
273116 AAACTTTAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
*
273137 AAACTTGAAATACATAA
1 AAACTTGAAATCCATAA
273154 TAATAAATCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.53, C:0.20, G:0.05, T:0.22
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:276844 original size:41 final size:40
Alignment explanation
Indices: 276793--277027 Score: 188
Period size: 41 Copynumber: 5.7 Consensus size: 40
276783 TGAAAAAAAC
* *
276793 AAACACCACTACAA-TACGAATCTTTAGCGACGTTTGTATAA
1 AAACGCCACTA-AAGTACGAATCTTTAGCG-CATTTGTATAA
*
276834 AAACGCCACTAAAGTATGAATCTTTAGCGGCATTTGTATAA
1 AAACGCCACTAAAGTACGAATCTTTAGC-GCATTTGTATAA
* * * * * *
276875 AAATGCTACTAAAATATGAGTCTTTAGCTGCATTTGTAAACA
1 AAACGCCACTAAAGTACGAATCTTTAGC-GCATTTGTATA-A
** * *
276917 TAAACGCCACTAAAGTACGTGTCTTTAGCGGCATTAGTATAC
1 -AAACGCCACTAAAGTACGAATCTTTAGC-GCATTTGTATAA
* * *
276959 AAACGCCA-TGAAAATAC-AAGTCTTTAGCCGCGTTTGTATAC
1 AAACGCCACT-AAAGTACGAA-TCTTTAG-CGCATTTGTATAA
* * *
277000 AAACACCACTAAAGTATGATTCTTTAGC
1 AAACGCCACTAAAGTACGAATCTTTAGC
277028 AGTGTTTTTG
Statistics
Matches: 158, Mismatches: 27, Indels: 19
0.77 0.13 0.09
Matches are distributed among these distances:
40 4 0.03
41 117 0.74
42 5 0.03
43 32 0.20
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (40 bp):
AAACGCCACTAAAGTACGAATCTTTAGCGCATTTGTATAA
Found at i:276931 original size:84 final size:82
Alignment explanation
Indices: 276825--277027 Score: 230
Period size: 84 Copynumber: 2.5 Consensus size: 82
276815 TTTAGCGACG
* * *
276825 TTTGTATAA-AAACGCCACTAAAGTATGAATCTTTAGCGGCATTTGTATAAAAATGCTACT-AAA
1 TTTGTA-AACAAACGCCACTAAAGTATGAATCTTTAGCGGCATTAGTATAAAAACGCCA-TGAAA
** *
276888 ATATGAGTCTTTAGCTGCA
64 ATACAAGTCTTTAGCCGCA
* ** *
276907 TTTGTAAACATAAACGCCACTAAAGTACGTGTCTTTAGCGGCATTAGTATACAAACGCCATGAAA
1 TTTGTAAAC--AAACGCCACTAAAGTATGAATCTTTAGCGGCATTAGTATAAAAACGCCATGAAA
*
276972 ATACAAGTCTTTAGCCGCG
64 ATACAAGTCTTTAGCCGCA
* * *
276991 TTTGTATACAAACACCACTAAAGTATGATTCTTTAGC
1 TTTGTAAACAAACGCCACTAAAGTATGAATCTTTAGC
277028 AGTGTTTTTG
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
81 2 0.02
82 30 0.30
83 1 0.01
84 68 0.67
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (82 bp):
TTTGTAAACAAACGCCACTAAAGTATGAATCTTTAGCGGCATTAGTATAAAAACGCCATGAAAAT
ACAAGTCTTTAGCCGCA
Found at i:277906 original size:14 final size:14
Alignment explanation
Indices: 277870--277907 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
277860 TTTAATTAAT
*
277870 TTTAAGAATCTTTC
1 TTTAAGAATTTTTC
277884 TTT-AGAATTTTTC
1 TTTAAGAATTTTTC
*
277897 TTTAAAAATTT
1 TTTAAGAATTT
277908 CACACGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (14 bp):
TTTAAGAATTTTTC
Found at i:281555 original size:2 final size:2
Alignment explanation
Indices: 281548--281582 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
281538 TTGATTTTAA
281548 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
281583 TTTCTAATTA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:281652 original size:14 final size:14
Alignment explanation
Indices: 281635--281661 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
281625 ATATATTTTC
281635 ATTTAATTATTAAT
1 ATTTAATTATTAAT
281649 ATTTAATTATTAA
1 ATTTAATTATTAA
281662 CTTTTCGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTAATTATTAAT
Found at i:283801 original size:19 final size:19
Alignment explanation
Indices: 283770--283809 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
283760 AAAACTATAT
283770 AATAAAAATAATAATAATA
1 AATAAAAATAATAATAATA
283789 AATAACAAA-AATAATAATA
1 AATAA-AAATAATAATAATA
283808 AA
1 AA
283810 GGATGAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (19 bp):
AATAAAAATAATAATAATA
Found at i:286694 original size:4 final size:4
Alignment explanation
Indices: 286685--286715 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
286675 TAGGTTTATT
286685 ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATG
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATG
286716 GGGAATTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (4 bp):
ATGA
Found at i:288458 original size:23 final size:23
Alignment explanation
Indices: 288431--288474 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
288421 AAAATGGCTA
288431 ATGTATGTGTGCAATCAAGTATG
1 ATGTATGTGTGCAATCAAGTATG
288454 ATGTATGTGTGCAATCAAGTA
1 ATGTATGTGTGCAATCAAGTA
288475 CGACTGGCGT
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:0.09, G:0.25, T:0.34
Consensus pattern (23 bp):
ATGTATGTGTGCAATCAAGTATG
Found at i:289609 original size:20 final size:20
Alignment explanation
Indices: 289584--289631 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
289574 ATTGTTCATC
289584 ACTGTTCACACATTATCGAT
1 ACTGTTCACACATTATCGAT
*
289604 ACTGTTCACACATTATCGGT
1 ACTGTTCACACATTATCGAT
*
289624 ACTATTCA
1 ACTGTTCA
289632 TTACTGTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (20 bp):
ACTGTTCACACATTATCGAT
Found at i:296764 original size:20 final size:21
Alignment explanation
Indices: 296734--296775 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
296724 CCCTTTTTAT
296734 ATATATTTAAAACTAATAATC
1 ATATATTTAAAACTAATAATC
296755 ATAT-TTTAAAACTAATAATC
1 ATATATTTAAAACTAATAATC
296775 A
1 A
296776 CCGTCCTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATATTTAAAACTAATAATC
Found at i:299978 original size:2 final size:2
Alignment explanation
Indices: 299973--300004 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
299963 ATCCACACAC
299973 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
300005 GTAGATGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:300778 original size:28 final size:29
Alignment explanation
Indices: 300736--300790 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
300726 CGGTTAACCC
300736 ATGGTGAGCACATCTTAAAT-AATAAACA
1 ATGGTGAGCACATCTTAAATAAATAAACA
* * *
300764 ATGGTGATCATATCTTAATTAAATAAA
1 ATGGTGAGCACATCTTAAATAAATAAA
300791 AACTAAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (29 bp):
ATGGTGAGCACATCTTAAATAAATAAACA
Found at i:317153 original size:41 final size:41
Alignment explanation
Indices: 317081--317190 Score: 105
Period size: 41 Copynumber: 2.6 Consensus size: 41
317071 ATATAGCGGC
*
317081 GTTTGTATAAAAACACCACAAAAATATGAGTCTTTAGCAGT
1 GTTTGTATAAAAACACCACAAAAATAAGAGTCTTTAGCAGT
* * * * * * *
317122 GTTTGTATACAAACGCCTCTAAAGTAAGAGTCTTTTGCGGT
1 GTTTGTATAAAAACACCACAAAAATAAGAGTCTTTAGCAGT
*
317163 GTTTGT-TCAAAAAGCACCGCTAAAAATA
1 GTTTGTAT-AAAAA-CACCAC-AAAAATA
317191 TCGCAAAACT
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
40 1 0.02
41 43 0.81
42 4 0.08
43 5 0.09
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (41 bp):
GTTTGTATAAAAACACCACAAAAATAAGAGTCTTTAGCAGT
Found at i:317950 original size:23 final size:27
Alignment explanation
Indices: 317924--317981 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
317914 CAATGATGCC
317924 TGATTCAGCA-A-AA-TA-ATGCTGAA
1 TGATTCAGCACATAAGTACATGCTGAA
*
317947 TGATTCAGCACATAAGTACATTCTGAA
1 TGATTCAGCACATAAGTACATGCTGAA
317974 TGATTCAG
1 TGATTCAG
317982 AGTCATTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 10 0.33
24 1 0.03
25 2 0.07
26 2 0.07
27 15 0.50
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (27 bp):
TGATTCAGCACATAAGTACATGCTGAA
Found at i:322601 original size:14 final size:14
Alignment explanation
Indices: 322568--322603 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
322558 CTGACATGAC
*
322568 AATTTAAATAAAAT
1 AATTTGAATAAAAT
322582 AA-TTGAATAAAAT
1 AATTTGAATAAAAT
322595 AATTTGAAT
1 AATTTGAAT
322604 CGTGTCGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (14 bp):
AATTTGAATAAAAT
Found at i:323771 original size:41 final size:40
Alignment explanation
Indices: 323661--323819 Score: 135
Period size: 41 Copynumber: 3.8 Consensus size: 40
323651 AAAATGATAC
* * *
323661 TTTAGCGGCGTTTTTTTAAACAAAAGCCGTAATAGAGTGGTAA
1 TTTAGCGGCG--TTTTTACACAAACGCCGCAATAGAGTGGT-A
* * *
323704 TTTAGCAGCATTTATAGCTA-AAACGCCGCAATAGAGAT-GT-
1 TTTAGCGGCGTTTTTA-C-ACAAACGCCGCAATAGAG-TGGTA
* *
323744 TTATAGTGGCGTTTTTTCAACAAACGCCGCAATAGAGTGGTAA
1 TT-TAGCGGCGTTTTTAC-ACAAACGCCGCAATAGAGTGGT-A
*
323787 TTTAGCGGTGTTTTTACACAAACGCCGCAATAG
1 TTTAGCGGCGTTTTTACACAAACGCCGCAATAG
323820 TGTTACTTTA
Statistics
Matches: 93, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
40 5 0.05
41 48 0.52
42 28 0.30
43 12 0.13
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTACACAAACGCCGCAATAGAGTGGTA
Found at i:323841 original size:39 final size:39
Alignment explanation
Indices: 323724--323857 Score: 108
Period size: 41 Copynumber: 3.3 Consensus size: 39
323714 TTTATAGCTA
* ** * *
323724 AAACGCCGCAATAGAGATGTTTATAGTGGCGTTTTTTCAAC
1 AAACGCCGCAATAGTGATAATT-TAGTGTCGTTTTTAC-AC
* *
323765 AAACGCCGCAATAGAGTGGTAATTTAGCGGT-GTTTTTACAC
1 AAACGCCGCAAT--AGTGATAATTTAG-TGTCGTTTTTACAC
* * *
323806 AAACGCCGCAATAGTGTTACTTTAGTGTCGTTTTTAAACAA
1 AAACGCCGCAATAGTGATAATTTAGTGTCGTTTTT--ACAC
323847 AAACGCCGCAA
1 AAACGCCGCAA
323858 AATATTTGGA
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
38 2 0.03
39 17 0.22
41 40 0.53
42 10 0.13
43 7 0.09
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (39 bp):
AAACGCCGCAATAGTGATAATTTAGTGTCGTTTTTACAC
Found at i:323851 original size:82 final size:84
Alignment explanation
Indices: 323656--323857 Score: 204
Period size: 82 Copynumber: 2.5 Consensus size: 84
323646 GCCACAAAAT
* *
323656 GATACTT-TAGCGGCGTTTTTTTAAAC-AAAA-GCCGTAATAGAGTGGTAATTTAGCAGCATTTA
1 GATACTTATAGTGGCG--TTTTTAAACAAAAACGCCGCAATAGAGTGGTAATTTAGCAGCATTTA
323718 TAGCTAAAACGCCGCAATAGA
64 TAGCTAAAACGCCGCAATAGA
** * * ** *
323739 GATGTTTATAGTGGCGTTTTT--TCAACAAACGCCGCAATAGAGTGGTAATTTAGCGGTGTTTTT
1 GATACTTATAGTGGCGTTTTTAAACAA-AAACGCCGCAATAGAGTGGTAATTTAGCAGCATTTAT
*
323802 A-C-ACAAACGCCGCAATAGT
65 AGCTA-AAACGCCGCAATAGA
* *
323821 GTTACTT-TAGTGTCGTTTTTAAACAAAAACGCCGCAA
1 GATACTTATAGTGGCGTTTTTAAACAAAAACGCCGCAA
323858 AATATTTGGA
Statistics
Matches: 97, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
80 1 0.01
81 14 0.14
82 38 0.39
83 37 0.38
84 7 0.07
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (84 bp):
GATACTTATAGTGGCGTTTTTAAACAAAAACGCCGCAATAGAGTGGTAATTTAGCAGCATTTATA
GCTAAAACGCCGCAATAGA
Found at i:324304 original size:13 final size:13
Alignment explanation
Indices: 324286--324310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
324276 ACTCTTATTT
324286 CTTTATTTCTCCG
1 CTTTATTTCTCCG
324299 CTTTATTTCTCC
1 CTTTATTTCTCC
324311 TTTGGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.04, T:0.56
Consensus pattern (13 bp):
CTTTATTTCTCCG
Found at i:327780 original size:44 final size:44
Alignment explanation
Indices: 327708--327818 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
327698 GTGTTATTTA
** * *
327708 GCGGCGTTTGTATCAAAAAAATGCCGCTATATAT-AAGACCTATC
1 GCGGCGTTTGTATCCTAAAAACGACGCTATAT-TCAAGACCTATC
* * *
327752 GCGGTGTTTGTATCCTAAAAACGACGCTATATTCCAGTCCTATC
1 GCGGCGTTTGTATCCTAAAAACGACGCTATATTCAAGACCTATC
*
327796 GCGGCGTTTGTACCCTAAAAACG
1 GCGGCGTTTGTATCCTAAAAACG
327819 CCGTTAAATA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 1 0.02
44 56 0.98
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
GCGGCGTTTGTATCCTAAAAACGACGCTATATTCAAGACCTATC
Found at i:327838 original size:44 final size:44
Alignment explanation
Indices: 327743--327848 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
327733 GCTATATATA
* * * *
327743 AGACCTATCGCGGTGTTTGTATCCTAAAAACGACGCTATATTCC
1 AGACCTATCGCGGCGTTTGTACCCTAAAAACGACGCTAAATACC
* * *
327787 AGTCCTATCGCGGCGTTTGTACCCTAAAAACGCCGTTAAATACC
1 AGACCTATCGCGGCGTTTGTACCCTAAAAACGACGCTAAATACC
* *
327831 AGACCTATTGCGCCGTTT
1 AGACCTATCGCGGCGTTT
327849 TCACAAAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (44 bp):
AGACCTATCGCGGCGTTTGTACCCTAAAAACGACGCTAAATACC
Found at i:328037 original size:12 final size:14
Alignment explanation
Indices: 328001--328037 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
327991 CGCCGTGAAC
328001 TTTAGCGGCGCTAT
1 TTTAGCGGCGCTAT
328015 TTTCAGCGGCGC-AT
1 TTT-AGCGGCGCTAT
328029 TTT-GCGGCG
1 TTTAGCGGCG
328038 TTTTTCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.27
14 8 0.36
15 8 0.36
ACGTcount: A:0.11, C:0.24, G:0.32, T:0.32
Consensus pattern (14 bp):
TTTAGCGGCGCTAT
Found at i:328399 original size:20 final size:21
Alignment explanation
Indices: 328370--328408 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
328360 AAAAATTAAA
328370 ATATTATTA-TTAATATTTAT
1 ATATTATTATTTAATATTTAT
*
328390 ATATTTTTATTTAATATTT
1 ATATTATTATTTAATATTT
328409 TTTGTCCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATATTATTATTTAATATTTAT
Found at i:337276 original size:10 final size:10
Alignment explanation
Indices: 337259--337304 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
337249 AACGCTGGAA
337259 ACCGGTTTTG
1 ACCGGTTTTG
* *
337269 ATCGG-TTTA
1 ACCGGTTTTG
337278 ACCGGTTTTG
1 ACCGGTTTTG
337288 AACCGGTTTTG
1 -ACCGGTTTTG
337299 ACCGGT
1 ACCGGT
337305 CACGACCCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 7 0.23
10 13 0.43
11 10 0.33
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.37
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:337326 original size:13 final size:13
Alignment explanation
Indices: 337308--337401 Score: 83
Period size: 13 Copynumber: 7.2 Consensus size: 13
337298 GACCGGTCAC
337308 GACCCGACCCGTT
1 GACCCGACCCGTT
337321 GACCCGACCC---
1 GACCCGACCCGTT
*
337331 GACCGTTGACCC---
1 GACC--CGACCCGTT
337343 GACCCGACCCGTT
1 GACCCGACCCGTT
337356 GACCCGACCCGTT
1 GACCCGACCCGTT
337369 GACCCGACCCGACCGTT
1 GACCCGA--C--CCGTT
337386 GACCCGACCCGTT
1 GACCCGACCCGTT
337399 GAC
1 GAC
337402 TGGTGCTATT
Statistics
Matches: 70, Mismatches: 2, Indels: 18
0.78 0.02 0.20
Matches are distributed among these distances:
10 9 0.13
12 9 0.13
13 38 0.54
15 2 0.03
17 12 0.17
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:337385 original size:30 final size:31
Alignment explanation
Indices: 337307--337401 Score: 147
Period size: 30 Copynumber: 3.0 Consensus size: 31
337297 TGACCGGTCA
337307 CGACCCGACCCGTTGACCCGACCCGACCGTTGACC
1 CGACCCGACCCGTTGACCCGA--C--CCGTTGACC
337342 CGACCCGACCCGTTGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACCCGACCCGTTGACC
337373 CGACCCGA-CCGTTGACCCGACCCGTTGAC
1 CGACCCGACCCGTTGACCCGACCCGTTGAC
337402 TGGTGCTATT
Statistics
Matches: 60, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
30 21 0.35
31 17 0.28
33 1 0.02
35 21 0.35
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (31 bp):
CGACCCGACCCGTTGACCCGACCCGTTGACC
Found at i:344518 original size:9 final size:10
Alignment explanation
Indices: 344487--344522 Score: 56
Period size: 11 Copynumber: 3.6 Consensus size: 10
344477 AACGCTGGAA
344487 ACCGGTTTTG
1 ACCGGTTTTG
344497 AACCGGTTTTG
1 -ACCGGTTTTG
344508 ACCGG-TTTG
1 ACCGGTTTTG
344517 ACCGGT
1 ACCGGT
344523 CACGACCCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 5 0.21
11 10 0.42
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:344556 original size:17 final size:18
Alignment explanation
Indices: 344525--344601 Score: 140
Period size: 17 Copynumber: 4.4 Consensus size: 18
344515 TGACCGGTCA
344525 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
344543 CGACCCGA-CCGTTGACC
1 CGACCCGACCCGTTGACC
344560 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
344578 CGACCCGA-CCGTTGACC
1 CGACCCGACCCGTTGACC
344595 CGACCCG
1 CGACCCG
344602 TTGACGGGTG
Statistics
Matches: 58, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
17 33 0.57
18 25 0.43
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.10
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:344565 original size:35 final size:35
Alignment explanation
Indices: 344525--344601 Score: 154
Period size: 35 Copynumber: 2.2 Consensus size: 35
344515 TGACCGGTCA
344525 CGACCCGACCCGTTGACCCGACCCGACCGTTGACC
1 CGACCCGACCCGTTGACCCGACCCGACCGTTGACC
344560 CGACCCGACCCGTTGACCCGACCCGACCGTTGACC
1 CGACCCGACCCGTTGACCCGACCCGACCGTTGACC
344595 CGACCCG
1 CGACCCG
344602 TTGACGGGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.10
Consensus pattern (35 bp):
CGACCCGACCCGTTGACCCGACCCGACCGTTGACC
Found at i:344596 original size:12 final size:13
Alignment explanation
Indices: 344526--344606 Score: 57
Period size: 13 Copynumber: 6.2 Consensus size: 13
344516 GACCGGTCAC
344526 GACCCGACCCGTT
1 GACCCGACCCGTT
344539 GACCCGACCC---
1 GACCCGACCCGTT
*
344549 GACCGTTGACCC---
1 GACC--CGACCCGTT
344561 GACCCGACCCGTT
1 GACCCGACCCGTT
344574 GACCCGACCCGACCGTT
1 GACCCGA--C--CCGTT
344591 GACCCGACCCGTT
1 GACCCGACCCGTT
344604 GAC
1 GAC
344607 GGGTGCTATT
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
10 9 0.16
12 9 0.16
13 25 0.44
15 2 0.04
17 12 0.21
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.12
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:349283 original size:45 final size:44
Alignment explanation
Indices: 349198--349476 Score: 256
Period size: 45 Copynumber: 6.2 Consensus size: 44
349188 GTCGAGGTTC
* * * * * *
349198 TTTTGGAAGCAAAGAAGATTAATATTGTATCAGAAAATGATACTG
1 TTTTGGAAGAAAAGAGGATTGATATTGCATCA-AAGATGATACAG
* *
349243 TTTTGGAAGAAAAGAGGATTGATCTTGCATCAAATGATGATACTG
1 TTTTGGAAGAAAAGAGGATTGATATTGCATCAAA-GATGATACAG
* *
349288 TTTTGGAAGAAAAGAGAATTGATTTTGCATCAAATGATGATACAG
1 TTTTGGAAGAAAAGAGGATTGATATTGCATCAAA-GATGATACAG
* *** *
349333 TTTTGGATGAAAAGAGGACCAATATTCCATCCGAAA-ATGATACAG
1 TTTTGGAAGAAAAGAGGATTGATATTGCAT-C-AAAGATGATACAG
* * * * *
349378 TTTTGGATGAAGAGAGGATCGATGTTCCATCCGAAA-ATGATACAG
1 TTTTGGAAGAAAAGAGGATTGATATTGCAT-C-AAAGATGATACAG
* * *
349423 TTTTGGATGAAAAGAGGATTGATCTTGCATCAAATGATGATACTG
1 TTTTGGAAGAAAAGAGGATTGATATTGCATCAAA-GATGATACAG
*
349468 TTTCGGAAG
1 TTTTGGAAG
349477 GACATAGCAC
Statistics
Matches: 202, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
43 3 0.01
44 3 0.01
45 192 0.95
46 1 0.00
47 3 0.01
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (44 bp):
TTTTGGAAGAAAAGAGGATTGATATTGCATCAAAGATGATACAG
Found at i:349463 original size:90 final size:89
Alignment explanation
Indices: 349230--349476 Score: 293
Period size: 90 Copynumber: 2.8 Consensus size: 89
349220 TATTGTATCA
* *
349230 GAAAATGATACTGTTTTGGAAGAAAAGAGGATTGATCTTGCATCAAATGATGATACTGTTTTGGA
1 GAAAATGATACAGTTTTGGATGAAAAGAGGATTGATCTTGCATCAAATGATGATACTGTTTTGGA
* * *
349295 AGAAAAGAGAATTGATTTTGCATC
66 AGAAAAGAGAATCGATGTTCCATC
*** * * *
349319 -AAATGATGATACAGTTTTGGATGAAAAGAGGACCAATATTCCATCCGAAA--ATGATACAGTTT
1 GAAA--ATGATACAGTTTTGGATGAAAAGAGGATTGATCTTGCAT-C-AAATGATGATACTGTTT
* * *
349381 TGGATGAAGAGAGGATCGATGTTCCATCC
62 TGGAAGAAAAGAGAATCGATGTTCCAT-C
*
349410 GAAAATGATACAGTTTTGGATGAAAAGAGGATTGATCTTGCATCAAATGATGATACTGTTTCGGA
1 GAAAATGATACAGTTTTGGATGAAAAGAGGATTGATCTTGCATCAAATGATGATACTGTTTTGGA
349475 AG
66 AG
349477 GACATAGCAC
Statistics
Matches: 128, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
88 6 0.05
89 1 0.01
90 113 0.88
91 2 0.02
92 6 0.05
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (89 bp):
GAAAATGATACAGTTTTGGATGAAAAGAGGATTGATCTTGCATCAAATGATGATACTGTTTTGGA
AGAAAAGAGAATCGATGTTCCATC
Found at i:352228 original size:121 final size:122
Alignment explanation
Indices: 352014--352314 Score: 358
Period size: 121 Copynumber: 2.5 Consensus size: 122
352004 GTTAAATTGT
* * * *
352014 AAAAAATTGAAAATTTAGGTAATAAAACGGACTATAATTGATAGTTAGGTACTAAATGCGCTAGG
1 AAAAAATTGAAAGTTTAGGTACTAAAACGGACAATAATTGATAGTTAGGTACTAAATGCACTAGG
* ** *
352079 TTTTAAATGGCGGGATACTGAAATGAAATGAAAAACTAAACGTCATGTATG-GTTTG-
66 TTTTAAATGGCGAGATACAAAAATGAAATG-AAAACTAAACGTCAGGTATGAGTTTGA
* * * *
352135 AAAAAATTGAAGGTTTAGGTACTAAAACGAGTCAAT-ATTGATAGTTAGGTACTAAATGTATTAG
1 AAAAAATTGAAAGTTTAGGTACTAAAACG-GACAATAATTGATAGTTAGGTACTAAATGCACTAG
* * *
352199 GTTTTAAATGGCGATATACAAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGA
65 GTTTTAAATGGCGAGATACAAAAATGAAATGAAAACTAAACGTCAGGTATGAGTTTGA
* * * * *
352257 AAAAAATTAAAAGTTTACGTACTAATATGGACTAA-AACTGATAGTTTAGGTACTAAAT
1 AAAAAATTGAAAGTTTAGGTACTAAAACGGAC-AATAATTGATAG-TTAGGTACTAAAT
352315 ATATAATTTA
Statistics
Matches: 152, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
120 18 0.12
121 84 0.55
122 37 0.24
123 13 0.09
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (122 bp):
AAAAAATTGAAAGTTTAGGTACTAAAACGGACAATAATTGATAGTTAGGTACTAAATGCACTAGG
TTTTAAATGGCGAGATACAAAAATGAAATGAAAACTAAACGTCAGGTATGAGTTTGA
Found at i:354869 original size:15 final size:15
Alignment explanation
Indices: 354849--354879 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
354839 TCGTGATGGC
354849 GAGTAGAGATAGAGA
1 GAGTAGAGATAGAGA
*
354864 GAGTAGAGATCGAGA
1 GAGTAGAGATAGAGA
354879 G
1 G
354880 CTTCTAATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.03, G:0.42, T:0.13
Consensus pattern (15 bp):
GAGTAGAGATAGAGA
Found at i:372328 original size:30 final size:30
Alignment explanation
Indices: 372261--372326 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
372251 GTCGAGCGAC
*
372261 CATTTTGTAACATACGATAACGTTAGTGAT
1 CATTTTGTAACAAACGATAACGTTAGTGAT
*
372291 CATTTTGTAACAAACGATAATGTTAGTGAT
1 CATTTTGTAACAAACGATAACGTTAGTGAT
372321 CGATTT
1 C-ATTT
372327 GTGACTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (30 bp):
CATTTTGTAACAAACGATAACGTTAGTGAT
Found at i:378072 original size:29 final size:30
Alignment explanation
Indices: 378039--378095 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
378029 AAAATTTTGG
*
378039 TTAGTGACCAAAATAT-AAATTTTGAAAGT
1 TTAGTGACCAAAATATAAAATTTAGAAAGT
**
378068 TTAGTGATTAAAATATAAAATTTAGAAA
1 TTAGTGACCAAAATATAAAATTTAGAAA
378096 AGTTCATGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.35
Consensus pattern (30 bp):
TTAGTGACCAAAATATAAAATTTAGAAAGT
Found at i:379400 original size:60 final size:60
Alignment explanation
Indices: 379334--379581 Score: 478
Period size: 60 Copynumber: 4.1 Consensus size: 60
379324 GAAAATTAAT
*
379334 GTTTGAGTGATGAATTTGATGTTAGAATGTGAAATTTGACTATTTTGAGAAGTTGTCAAA
1 GTTTGAGTGATGAATTTGATGTTAGAATGTGAAATTTGACTATTTTGGGAAGTTGTCAAA
379394 GTTTGAGTGATGAATTTGATGTTAGAATGTGAAATTTGACTATTTTGGGAAGTTGTCAAA
1 GTTTGAGTGATGAATTTGATGTTAGAATGTGAAATTTGACTATTTTGGGAAGTTGTCAAA
379454 GTTTGAGTGATGAATTTGATGTTAGAATGTGAAATTTGACTATTTTGGGAAGTTGTCAAA
1 GTTTGAGTGATGAATTTGATGTTAGAATGTGAAATTTGACTATTTTGGGAAGTTGTCAAA
*
379514 GTTTGAGTGATGAATTTGAAGTTAGAATGTGAAATTTGACTATTTTGGGAAGTTGTCAAA
1 GTTTGAGTGATGAATTTGATGTTAGAATGTGAAATTTGACTATTTTGGGAAGTTGTCAAA
379574 GTTTGAGT
1 GTTTGAGT
379582 AATAAATGGA
Statistics
Matches: 186, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 186 1.00
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.40
Consensus pattern (60 bp):
GTTTGAGTGATGAATTTGATGTTAGAATGTGAAATTTGACTATTTTGGGAAGTTGTCAAA
Found at i:385607 original size:23 final size:23
Alignment explanation
Indices: 385563--385631 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
385553 AAGAAAATTA
*
385563 AATAAAAAC-ATTATAA-ACTAAAT
1 AATAAAAACAATTA-AATA-TAAAC
385586 AATAAAAACAATTAAATATAAAC
1 AATAAAAACAATTAAATATAAAC
385609 AATAAGAAA-AATTAAATAATAAA
1 AATAA-AAACAATTAAAT-ATAAA
385632 AACATGAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
23 28 0.68
24 13 0.32
ACGTcount: A:0.70, C:0.06, G:0.01, T:0.23
Consensus pattern (23 bp):
AATAAAAACAATTAAATATAAAC
Found at i:385644 original size:24 final size:23
Alignment explanation
Indices: 385595--385657 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
385585 TAATAAAAAC
*
385595 AATTAAAT-ATAAACAATAAGAAA
1 AATTAAATAATAAA-AACAAGAAA
*
385618 AATTAAATAATAAAAACATGAAGA
1 AATTAAATAATAAAAACAAGAA-A
*
385642 AATAAAATAAATAAAA
1 AATTAAAT-AATAAAA
385658 TGTCCATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.41
24 13 0.38
25 7 0.21
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (23 bp):
AATTAAATAATAAAAACAAGAAA
Found at i:388744 original size:73 final size:74
Alignment explanation
Indices: 388625--388765 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 74
388615 TATGCAAAAC
* *** *
388625 GATGTTGTTTTGGTGAAAATTTTGTTCTTTCAAAATTTCATCG-TTTTAATGTCGTTAACAATTT
1 GATGTTGTTTTGGTGAAAATTTTATTCTTTCAAAACGGCATCGTTTTTAATGCCGTTAACAATTT
388689 AACAACAAT
66 AACAACAAT
* *
388698 GATGTTGTTTTGGTGAAAATTTTATTCTTTTAAAACGGCGTCGTTTTTAATGCCGTTAACAATTT
1 GATGTTGTTTTGGTGAAAATTTTATTCTTTCAAAACGGCATCGTTTTTAATGCCGTTAACAATTT
388763 AAC
66 AAC
388766 GACATAGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
73 37 0.62
74 23 0.38
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (74 bp):
GATGTTGTTTTGGTGAAAATTTTATTCTTTCAAAACGGCATCGTTTTTAATGCCGTTAACAATTT
AACAACAAT
Found at i:389171 original size:2 final size:2
Alignment explanation
Indices: 389164--389190 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
389154 TCATAAAATT
389164 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
389191 TACAAAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:394454 original size:60 final size:60
Alignment explanation
Indices: 394383--394499 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
394373 AATAGTCATG
* * * * * *
394383 TGATTATTTTATAATATTTAATAGCCAGGGGACTCAACAAAGCAACGTCCTATAATCAAA
1 TGATCATTTTATAACATTTAATAGCCAGGAGACTCAACAAAACAACATCATATAATCAAA
* * *
394443 TGATCATTTTATAACATTTAATAGTCAGTAGACTCAATAAAACAACATCATATAATC
1 TGATCATTTTATAACATTTAATAGCCAGGAGACTCAACAAAACAACATCATATAATC
394500 GGATCATTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (60 bp):
TGATCATTTTATAACATTTAATAGCCAGGAGACTCAACAAAACAACATCATATAATCAAA
Found at i:397861 original size:2 final size:2
Alignment explanation
Indices: 397854--397879 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
397844 TTACATAGAC
397854 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
397880 CCCAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:400429 original size:29 final size:29
Alignment explanation
Indices: 400392--400538 Score: 186
Period size: 29 Copynumber: 5.1 Consensus size: 29
400382 CCCCAACACC
*
400392 CCTACAAGGTCGCCAAGCACTCCCAGCGA
1 CCTACAAGGTCGCCAAGCACTCCCGGCGA
* *
400421 CCTACAAGGTCGCCAAACACTCCCAGCGA
1 CCTACAAGGTCGCCAAGCACTCCCGGCGA
*
400450 CCTACAAGGTCGCCATGCACTCCCGGCGA
1 CCTACAAGGTCGCCAAGCACTCCCGGCGA
*** *
400479 CCTTGTAGGTCGCCAAGCAATCCCGGCGA
1 CCTACAAGGTCGCCAAGCACTCCCGGCGA
*** *
400508 CCTTGTAGGTCGCCAAGCAATCCCGGCGA
1 CCTACAAGGTCGCCAAGCACTCCCGGCGA
400537 CC
1 CC
400539 AAGCCTCGAC
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 109 1.00
ACGTcount: A:0.24, C:0.39, G:0.23, T:0.14
Consensus pattern (29 bp):
CCTACAAGGTCGCCAAGCACTCCCGGCGA
Found at i:400619 original size:32 final size:32
Alignment explanation
Indices: 400578--400638 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
400568 ACTTAAACCT
*
400578 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
1 GCTCCCTCGTGCATGGGTTGCAACCATAGCTG
400610 GCTCCCTCGTGCATGGGTTGCAACCATAG
1 GCTCCCTCGTGCATGGGTTGCAACCATAG
400639 TTGGGAGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.15, C:0.31, G:0.28, T:0.26
Consensus pattern (32 bp):
GCTCCCTCGTGCATGGGTTGCAACCATAGCTG
Found at i:400659 original size:23 final size:23
Alignment explanation
Indices: 400628--400671 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
400618 GTGCATGGGT
*
400628 TGCAACCATAGTTGGGAGATTCC
1 TGCAACCATAGCTGGGAGATTCC
*
400651 TGCATCCATAGCTGGGAGATT
1 TGCAACCATAGCTGGGAGATT
400672 GTAGCCAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (23 bp):
TGCAACCATAGCTGGGAGATTCC
Found at i:401131 original size:28 final size:30
Alignment explanation
Indices: 401091--401152 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
401081 AATTTAGTTA
401091 ATTAGTTTGTTAGTTTAAG-T-TATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
401119 ATTAGTTTGTTAGTTTAAGTTATATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
401149 ATTA
1 ATTA
401153 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (30 bp):
ATTAGTTTGTTAGTTTAAGTTATATATTAT
Found at i:404718 original size:49 final size:49
Alignment explanation
Indices: 404650--405002 Score: 246
Period size: 49 Copynumber: 6.4 Consensus size: 49
404640 TTATAAGATT
*
404650 TAGTAATGATTAGTAATGATGAAATTATTATT-ATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
404698 TAGTAATGATGTAGTAATGATTAGTAATAATGAAATTATT-ATAATTTAATGATTTGATATTAAT
1 TAGTAATGAT-TAGTAAT-A--A-TGA-AAT--TATTATTAAT-ATTT-A--A--TG--ATT--T
404762 GA
48 GA
*
404764 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
* *
404815 TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTT-A--A--TGAT--T--TGA
404873 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTTATAGTAATGA
1 -TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG-----AT--T--TGA
*
404932 TTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
404983 TAGTAATGATT--TAATAATGA
1 TAGTAATGATTAGTAATAATGA
405003 TTAGTAATAA
Statistics
Matches: 258, Mismatches: 10, Indels: 75
0.75 0.03 0.22
Matches are distributed among these distances:
47 9 0.03
48 10 0.04
49 56 0.22
50 1 0.00
51 6 0.02
52 2 0.01
53 6 0.02
54 9 0.03
55 4 0.02
56 10 0.04
57 5 0.02
58 5 0.02
59 48 0.19
60 53 0.21
61 2 0.01
62 5 0.02
63 2 0.01
64 4 0.02
66 4 0.02
67 7 0.03
68 10 0.04
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.45
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:404807 original size:46 final size:48
Alignment explanation
Indices: 404757--405362 Score: 470
Period size: 49 Copynumber: 11.6 Consensus size: 48
404747 TGATTTGATA
*
404757 TTAATGA-TT-TAGTAATGATTAGTAATAATGAAATTATTATTAATTT
1 TTAATGATTTATAGTAATGATTAGTAATAATAAAATTATTATTAATTT
404803 TTAATGATTTGATAGTAATGATTAGTAATAATAAAATTATTATTAATTT
1 TTAATGATTT-ATAGTAATGATTAGTAATAATAAAATTATTATTAATTT
*
404852 TTAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATAT
1 TTAATGATTT-ATAGTAATGATTAG---T-A--A-TAAT-A--AAATTATTATTAATTT
* *
404911 TTAATGATTTTATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATAT
1 TTAATGA-TTTATAGTAATGA-TTAG---T-A--A-TAAT-A--AAATTATTATTAATTT
* * *
404971 TTAATGATTTGATAGTAATGATTTAATAATGATTAGTAATAATGAAATTCTT-ATTAAT
1 TTAATGATTT-ATAGTAATGA-TTAGTAAT-A--A-TAA-AAT--TATTATTAATT--T
*
405029 ATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATAAAATTATTATTAATTT
1 -TTA-ATGA-TT--TA-T--------AGTAATGATTAGTAATAATAAAATTATTATTAATTT
*
405091 TTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATTT
1 TTAATGATTT-ATAGTAATGATTAGTAATAATAAAATTATTATTAATTT
* * *
405140 TTAATGATTTGATAATTATGATTAGTAATAATGAAATTATTATTAATTT
1 TTAATGATTT-ATAGTAATGATTAGTAATAATAAAATTATTATTAATTT
* *
405189 TTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATAT
1 TTAATGATTT-ATAGTAATGATTAGTAATAATAAAATTATTATTAATTT
* * *
405238 TTAATGATTGATATTAATGATTTAGTAATAAATGAAATTATTATTAA-TT
1 TTAATGATTTATAGTAATGA-TTAGTAAT-AATAAAATTATTATTAATTT
* *
405287 TTAATGATTTGATAGTAATGA-TAGTAATAAT-AATTTATTATTAATAT
1 TTAATGATTT-ATAGTAATGATTAGTAATAATAAAATTATTATTAATTT
*
405334 TT-ATGATTTGATATTAATGATTTAGTAAT
1 TTAATGATTT-ATAGTAATGA-TTAGTAAT
405363 GATTTGATAG
Statistics
Matches: 486, Mismatches: 27, Indels: 92
0.80 0.04 0.15
Matches are distributed among these distances:
46 36 0.07
47 8 0.02
48 23 0.05
49 216 0.44
50 26 0.05
52 1 0.00
53 2 0.00
54 3 0.01
55 4 0.01
56 9 0.02
57 9 0.02
58 2 0.00
59 39 0.08
60 69 0.14
61 4 0.01
62 2 0.00
63 7 0.01
64 3 0.01
65 3 0.01
66 3 0.01
67 1 0.00
69 1 0.00
70 7 0.01
71 8 0.02
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (48 bp):
TTAATGATTTATAGTAATGATTAGTAATAATAAAATTATTATTAATTT
Found at i:404825 original size:60 final size:60
Alignment explanation
Indices: 404646--405119 Score: 730
Period size: 60 Copynumber: 8.2 Consensus size: 60
404636 GTATTTATAA
*
404646 GATTTAGTAATGATTAGTAATGATGAAATTATTATT-ATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
404705 GATGTAGTAATGATTAGTAATAATGAAATTATTA-T-A-ATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
404762 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
404822 GA-TTAG---T-A--A-TAAT-A--AAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
404871 GA-TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTTATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
*
404930 GATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
404990 GATTTAATAATGATTAGTAATAATGAAATTCTTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
* *
405050 GATTTAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
405110 GA-TTAGTAAT
1 GATTTAGTAAT
405120 AATGAAATTA
Statistics
Matches: 385, Mismatches: 16, Indels: 28
0.90 0.04 0.07
Matches are distributed among these distances:
49 41 0.11
51 1 0.00
52 5 0.01
53 2 0.01
55 2 0.01
56 5 0.01
57 54 0.14
58 3 0.01
59 80 0.21
60 192 0.50
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (60 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
Found at i:404877 original size:10 final size:10
Alignment explanation
Indices: 404864--404950 Score: 58
Period size: 10 Copynumber: 8.7 Consensus size: 10
404854 AATGATTTGA
404864 TAGTAATGAT
1 TAGTAATGAT
404874 TAGTAATGAT
1 TAGTAATGAT
*
404884 TAGTAAT-AA
1 TAGTAATGAT
* *
404893 T-GAAATTAT
1 TAGTAATGAT
*
404902 TATTAAT-AT
1 TAGTAATGAT
404911 T--TAATGATTTT
1 TAGTAATGA---T
404922 ATAGTAATGATT
1 -TAGTAATGA-T
404934 TAGTAATGAT
1 TAGTAATGAT
404944 TAGTAAT
1 TAGTAAT
404951 AATGAAATTG
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
7 4 0.06
8 5 0.08
9 7 0.11
10 28 0.44
11 10 0.16
12 3 0.05
14 6 0.10
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:404879 original size:98 final size:98
Alignment explanation
Indices: 404766--405362 Score: 637
Period size: 98 Copynumber: 5.7 Consensus size: 98
404756 ATTAATGATT
*
404766 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
*
404831 TAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
66 TAATGAAATTATTATTAATTTTT-A--A--TGAT--T--TGA
404873 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTTATAGTAATGATTTAGT
1 -TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG-----AT--T--TGA--TAGT
* *
404938 AATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATA
54 AATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTG--A
*
404985 GTAATGATTTAATAATGATTAGTAATAATGAAATTCTTATTAATATTTAATGATTTGATAGTAAT
1 -T-A-G------TAATGATTAGTAATAATGAAATTATTATTAATATTT-A--A--TGAT--T--T
*
405050 GATTTAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGA
48 GA--TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
* * *
405103 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAATTATGATTAGTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
405168 TAATGAAATTATTATTAATTTTTAATGATTTGA
66 TAATGAAATTATTATTAATTTTTAATGATTTGA
*
405201 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGA-TTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-TTAGTA
405265 ATAAATGAAATTATTATTAA-TTTTAATGATTTGA
65 AT-AATGAAATTATTATTAATTTTTAATGATTTGA
* *
405299 TAGTAATGA-TAGTAATAAT-AATTTATTATTAATATTT-ATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-TTAGTA
405361 AT
65 AT
405363 GATTTGATAG
Statistics
Matches: 442, Mismatches: 18, Indels: 70
0.83 0.03 0.13
Matches are distributed among these distances:
95 4 0.01
96 39 0.09
97 21 0.05
98 120 0.27
99 17 0.04
100 3 0.01
102 1 0.00
104 4 0.01
106 1 0.00
108 43 0.10
109 34 0.08
110 2 0.00
112 3 0.01
113 3 0.01
114 5 0.01
115 2 0.00
116 2 0.00
117 4 0.01
118 2 0.00
119 36 0.08
120 92 0.21
121 1 0.00
123 1 0.00
125 2 0.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (98 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
TAATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:404947 original size:21 final size:20
Alignment explanation
Indices: 404864--405071 Score: 67
Period size: 21 Copynumber: 10.4 Consensus size: 20
404854 AATGATTTGA
404864 TAGTAATGA-TTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
404884 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * * **
404902 TATTAATATTTAATGATTTT
1 TAGTAATATTTAGTAATGAT
404922 ATAGTAATGATTTAGTAATGAT
1 -TAGTAAT-ATTTAGTAATGAT
* *
404944 TAGTAATA-AT-GAAATTG-T
1 TAGTAATATTTAGTAA-TGAT
* * *
404962 TATTAATATTTAATGATTTGA-
1 TAGTAATATTTAGT-A-ATGAT
*
404983 TAGTAATGATTTAATAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * **
405004 TAGTAATA-AT-GAAATTCT
1 TAGTAATATTTAGTAATGAT
* * *
405022 TATTAATATTTAATGATTTGA-
1 TAGTAATATTTAGT-A-ATGAT
405043 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
405064 TAGTAATA
1 TAGTAATA
405072 ATAAAATTAT
Statistics
Matches: 132, Mismatches: 38, Indels: 36
0.64 0.18 0.17
Matches are distributed among these distances:
18 35 0.27
19 9 0.07
20 20 0.15
21 45 0.34
22 23 0.17
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.45
Consensus pattern (20 bp):
TAGTAATATTTAGTAATGAT
Found at i:405108 original size:49 final size:49
Alignment explanation
Indices: 405054--405362 Score: 484
Period size: 49 Copynumber: 6.3 Consensus size: 49
405044 AGTAATGATT
*
405054 TAGTAATGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
405103 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
* *
405152 TAATTATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
405201 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGA-TTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
405249 TATTAATGATTTAGTAATAAATGAAATTATTATTAA-TTTTAATGATTTGA
1 TAGTAATGA-TTAGTAAT-AATGAAATTATTATTAATTTTTAATGATTTGA
* *
405299 TAGTAATGA-TAGTAATAAT-AATTTATTATTAATATTT-ATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
405345 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
405363 GATTTGATAG
Statistics
Matches: 242, Mismatches: 12, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
46 29 0.12
47 6 0.02
48 26 0.11
49 152 0.63
50 29 0.12
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:405135 original size:21 final size:21
Alignment explanation
Indices: 405111--405184 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
405101 GATAGTAATG
405111 ATTAGTAATAATGAAATTATT
1 ATTAGTAATAATGAAATTATT
* * *
405132 ATTAATTTTTAATGATTTGATAATTATG
1 ATT-A---GTAAT-A-ATGA-AATTATT
405160 ATTAGTAATAATGAAATTATT
1 ATTAGTAATAATGAAATTATT
405181 ATTA
1 ATTA
405185 ATTTTTAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 13 0.32
22 4 0.10
23 1 0.03
24 4 0.10
25 4 0.10
26 1 0.03
27 4 0.10
28 9 0.22
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.47
Consensus pattern (21 bp):
ATTAGTAATAATGAAATTATT
Found at i:405144 original size:22 final size:22
Alignment explanation
Indices: 405119--405195 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
405109 TGATTAGTAA
405119 TAATGAAATTATTATTAATTTT
1 TAATGAAATTATTATTAATTTT
* * *
405141 TAATG-ATTTGATAATTATGATTAGTAA
1 TAATGAAATT-ATTATTA--ATT--T-T
405168 TAATGAAATTATTATTAATTTT
1 TAATGAAATTATTATTAATTTT
405190 TAATGA
1 TAATGA
405196 TTTGATAGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
21 3 0.07
22 17 0.40
23 1 0.02
24 3 0.07
25 3 0.07
26 1 0.02
27 11 0.26
28 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (22 bp):
TAATGAAATTATTATTAATTTT
Found at i:405217 original size:288 final size:281
Alignment explanation
Indices: 404646--405308 Score: 941
Period size: 288 Copynumber: 2.4 Consensus size: 281
404636 GTATTTATAA
*
404646 GATTTAGTAATGATTAGTAATGATGAAATTATTATTATATTTAATGATTTGATAGTAATGATGTA
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTATATTTAATGATTTGATAGTAATGATGTA
* *
404711 GTAATGATTAGTAATAATGAAATTATTATAATTTAATGATTTGATATTAATGATTTAGTAATGAT
66 ATAATGATTAGTAATAATGAAATTATTATAATTTAATGATTTGATAGTAATGATTTAGTAATGAT
*
404776 TAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAAAATT
131 TAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAAAATT
404841 ATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAATGAAATTATTATT
196 ATTATTAATTTTTAATGATTTGA-AGTAA-GATTA-TAATGATTAGTAATAATGAAATTATTATT
404906 AATATTTAATGATTTTATAGTAAT
258 AATATTTAATGATTTTATAGTAAT
* *
404930 GATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTGATAGTAATGATTT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATT-ATATTTAATGATTTGATAGTAATGATGT
*
404995 AATAATGATTAGTAATAATGAAATTCTTATTAATATTTAATGATTTGATAGTAATGATTTAGTAA
65 AATAATGATTAGTAATAATGAAATTATTA-T-A-ATTTAATGATTTGATAGTAATGATTTAGTAA
*
405060 TGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGA
127 TGATTAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAA
405125 AATTATTATTAATTTTTAATGATTTG-A-T-A-A-T-T-ATGATTAGTAATAATGAAATTATTAT
192 AATTATTATTAATTTTTAATGATTTGAAGTAAGATTATAATGATTAGTAATAATGAAATTATTAT
*
405183 TAATTTTTAATG-----AT--T--T
257 TAATATTTAATGATTTTATAGTAAT
*
405199 GA--TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGA-TTGATATTAATGAT-T
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATT-ATATTTAATGATTTGATAGTAATGATGT
*
405260 --T-A-G--TAAT-A-AATGAAATTATTATTAATTTTAATGATTTGATAGTAATGAT
65 AATAATGATTAGTAATAATGAAATTATTA-TAA-TTTAATGATTTGATAGTAATGAT
405309 AGTAATAATA
Statistics
Matches: 361, Mismatches: 13, Indels: 38
0.88 0.03 0.09
Matches are distributed among these distances:
255 1 0.00
256 24 0.07
257 14 0.04
258 1 0.00
259 3 0.01
261 1 0.00
262 1 0.00
263 1 0.00
265 1 0.00
266 13 0.04
267 43 0.12
269 3 0.01
271 1 0.00
273 2 0.01
278 37 0.10
279 1 0.00
281 1 0.00
282 1 0.00
284 35 0.10
285 55 0.15
286 2 0.01
287 1 0.00
288 119 0.33
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (281 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTATATTTAATGATTTGATAGTAATGATGTA
ATAATGATTAGTAATAATGAAATTATTATAATTTAATGATTTGATAGTAATGATTTAGTAATGAT
TAGTAATAATAAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATAAAATT
ATTATTAATTTTTAATGATTTGAAGTAAGATTATAATGATTAGTAATAATGAAATTATTATTAAT
ATTTAATGATTTTATAGTAAT
Found at i:405347 original size:14 final size:14
Alignment explanation
Indices: 405330--405381 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
405320 TTTATTATTA
*
405330 ATATTTATGATTTG
1 ATATTAATGATTTG
405344 ATATTAATGA-TT-
1 ATATTAATGATTTG
*
405356 -TAGTAATGATTTG
1 ATATTAATGATTTG
*
405369 ATAGTAATGATTT
1 ATATTAATGATTT
405382 ACGACTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 8 0.24
12 2 0.06
13 2 0.06
14 21 0.64
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (14 bp):
ATATTAATGATTTG
Found at i:407831 original size:43 final size:45
Alignment explanation
Indices: 407761--407847 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 45
407751 CAACAAACAA
* * *
407761 ATATAACTTAACTATTTAACTACACAAACTAATTAAATATTTTTT
1 ATATAACTTAACGATTTAACAAAACAAACTAATTAAATATTTTTT
*
407806 ATATAAC-TAACGA-TTAACAAAACAAACTAATTAATTATTTTT
1 ATATAACTTAACGATTTAACAAAACAAACTAATTAAATATTTTT
407848 AACTATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 26 0.68
44 5 0.13
45 7 0.18
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (45 bp):
ATATAACTTAACGATTTAACAAAACAAACTAATTAAATATTTTTT
Found at i:408083 original size:20 final size:19
Alignment explanation
Indices: 408045--408084 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
408035 GCCTTATCTC
*
408045 CCTTTCTTCTTCTTCCTTT
1 CCTTTCTCCTTCTTCCTTT
*
408064 CCTTTCTCCTTTCTTTCTTT
1 CCTTTCTCC-TTCTTCCTTT
408084 C
1 C
408085 TCGGCTGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (19 bp):
CCTTTCTCCTTCTTCCTTT
Found at i:408085 original size:15 final size:15
Alignment explanation
Indices: 408045--408086 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
408035 GCCTTATCTC
*
408045 CCTTTC-TTCTTCTT
1 CCTTTCTTTCTCCTT
408059 CCTTTCCTTTCTCCTT
1 CCTTT-CTTTCTCCTT
*
408075 TCTTTCTTTCTC
1 CCTTTCTTTCTC
408087 GGCTGCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.21
15 8 0.33
16 11 0.46
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (15 bp):
CCTTTCTTTCTCCTT
Found at i:408220 original size:32 final size:33
Alignment explanation
Indices: 408178--408243 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
408168 ATAATTTAGG
*
408178 TGTCACCGGCTGCCTC-ATTATTTCACCAATAA
1 TGTCAACGGCTGCCTCAATTATTTCACCAATAA
408210 TGTCAACGGCTGCCTCAATTATTTCACCAATAA
1 TGTCAACGGCTGCCTCAATTATTTCACCAATAA
408243 T
1 T
408244 ATGCAATTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTCAACGGCTGCCTCAATTATTTCACCAATAA
Found at i:408474 original size:29 final size:29
Alignment explanation
Indices: 408396--408477 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
408386 CTTGGTCGGC
* *** *
408396 GGGACTGCTTGGCGACCTACAAGGTCGCT
1 GGGAGTGCTTGGCGACCTTGTAGGTCACT
* *
408425 GGGAGTGCATGGCGACGTTGTAGGTCACT
1 GGGAGTGCTTGGCGACCTTGTAGGTCACT
408454 GGGAGTGCTTGGCGACCTTGTAGG
1 GGGAGTGCTTGGCGACCTTGTAGG
408478 GGTGTTGGGG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.16, C:0.21, G:0.40, T:0.23
Consensus pattern (29 bp):
GGGAGTGCTTGGCGACCTTGTAGGTCACT
Found at i:408870 original size:4 final size:4
Alignment explanation
Indices: 408850--411231 Score: 3286
Period size: 4 Copynumber: 599.8 Consensus size: 4
408840 CAAGTAGAAT
* *
408850 ATAC AAAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
408898 ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
408945 ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
408993 ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATGC ATGC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
409041 ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
409089 ATA- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
409136 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
409183 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
409231 ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
409277 ATAC ATGC ATAC ATGC ATAC ATAC ATAC ATAC ATGC ATAC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
409325 ATAC ATGC ATAC ATAC ATAC ATAC ATGC ATAC ATGC ATGC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
409373 ATAC ATGC ATAC ATAC ATAC ATGC ATGC ATAC ATTC ATGC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
409421 ATAC ATAC ATGC ATAC ATGC ATGC ATAC ATGC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
409469 ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATGC ATAC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
409517 ATGC ATGC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
409565 ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATGC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
409613 ATAC ATGC ATAC ATGC ATGC ATAC ATGC ATAC ATAC ATAC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
409661 ATAC ATGC ATGC ATAC ATGC ATAC ATGC ATAC ATAC ATAC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * *
409709 ATAC ATGC ATGC ATGC ATGC ATAC ATAC ATGC ATAC ATGC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
409757 ATGC ATAC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
409805 ATAC ATGC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
409853 ATGC ATGC ATAC ATAC ATGC ATAC ATGC ATGC ATAC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
409901 ATGC ATAC ATAT ATAC ATAC ATGC ATAC ATGC ATGC ATAC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * * *
409949 ATGC ATAA ATTC ATAC ATGC ATGC ATAC ATGC ATGC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
409997 ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATGC ATAC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
410045 ATGC ATAC ATAC ATAC ATGC ATGC ATGC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
410093 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
410141 ATAC ATGC ATGC ATAC ATGC ATAC ATAC ATAC ATAC ATGC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
410189 ATGC ATAC ATGC ATAC ATGC ATAC ATAC ATAC ATGC ATAC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * ** * * *
410237 ATGC ATGC ATGC ATAC ATAC ATGC ATAC ATGT ATGC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
410285 ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
410333 ATAC ATAC ATAC ATAC ATGC ATAC ATGC ATAC ATGC ATGC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
410381 ATAC ATGC ATAC ATAC ATAC ATGC ATGC ATAC ATGC ATGC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
410429 ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATGC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
410477 ATAC ATAC ATAC ATAC ATGC ATGC ATAC ATAC ATGC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
410525 ATAC ATAC ATAC ATGC ATAC ATAC ATGC ATAC ATGC ATGC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
410573 ATAC ATAC ATAC ATGC ATGC ATGC ATGC ATGC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
410621 ATGC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
410669 ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT--
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
410713 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
410761 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
410809 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
410857 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
410905 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
410953 ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
410999 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
411047 ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
411094 ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
411140 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
411187 AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
411232 TACTTGCATG
Statistics
Matches: 2184, Mismatches: 177, Indels: 34
0.91 0.07 0.01
Matches are distributed among these distances:
2 12 0.01
3 15 0.01
4 2157 0.99
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:411900 original size:103 final size:103
Alignment explanation
Indices: 411770--411977 Score: 380
Period size: 103 Copynumber: 2.0 Consensus size: 103
411760 AATTGTAATG
* *
411770 GTGTATAAGTGATTAGTTCTTATTGTAATAATAATTTTAAAAATTAAATTAAAGTAAAATGCATT
1 GTGTATAAGTGATTAGTTATTATTGTAATAATAATTTTAAAAATTAAATTAAAATAAAATGCATT
411835 GCATTTTATATTTATATTAGGATGAAATTTAATGTGTT
66 GCATTTTATATTTATATTAGGATGAAATTTAATGTGTT
* *
411873 GTGTATACGTGATTAGTTATTATTGTAATTATAATTTTAAAAATTAAATTAAAATAAAATGCATT
1 GTGTATAAGTGATTAGTTATTATTGTAATAATAATTTTAAAAATTAAATTAAAATAAAATGCATT
411938 GCATTTTATATTTATATTAGGATGAAATTTAATGTGTT
66 GCATTTTATATTTATATTAGGATGAAATTTAATGTGTT
411976 GT
1 GT
411978 TGGTGTCTAT
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.45
Consensus pattern (103 bp):
GTGTATAAGTGATTAGTTATTATTGTAATAATAATTTTAAAAATTAAATTAAAATAAAATGCATT
GCATTTTATATTTATATTAGGATGAAATTTAATGTGTT
Found at i:418951 original size:15 final size:15
Alignment explanation
Indices: 418931--418959 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
418921 TCACTTATCA
418931 TTAACATTAGGGAAC
1 TTAACATTAGGGAAC
418946 TTAACATTAGGGAA
1 TTAACATTAGGGAA
418960 TTGTTGACGT
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:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (15 bp):
TTAACATTAGGGAAC
Found at i:420187 original size:22 final size:22
Alignment explanation
Indices: 420162--420206 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
420152 TTTAAATTCC
420162 ATAATCCTACGTGTGTAGAATT
1 ATAATCCTACGTGTGTAGAATT
420184 ATAATCCTACGTGTGTAGAATT
1 ATAATCCTACGTGTGTAGAATT
420206 A
1 A
420207 CATTACATGT
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:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (22 bp):
ATAATCCTACGTGTGTAGAATT
Found at i:420857 original size:16 final size:16
Alignment explanation
Indices: 420836--420867 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
420826 TGGAGTTTTG
420836 TGTGACAAGAAGGTAC
1 TGTGACAAGAAGGTAC
420852 TGTGACAAGAAGGTAC
1 TGTGACAAGAAGGTAC
420868 CTCTAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (16 bp):
TGTGACAAGAAGGTAC
Found at i:422093 original size:5 final size:5
Alignment explanation
Indices: 422083--422115 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
422073 TTTATGTCTT
*
422083 TTTTC TTTTC TTTTC TTTTC GTTTC TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
422116 ATTTAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:426365 original size:183 final size:183
Alignment explanation
Indices: 426052--426404 Score: 634
Period size: 183 Copynumber: 1.9 Consensus size: 183
426042 TTAAATCCGA
* *
426052 AAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGTCTTGGCTTTATGAA
1 AAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGAA
*
426117 TAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCATTGCTTT
66 TAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTT
*
426182 TGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTCT
131 TGTCAGGCCAAAGACTTTGTGATAAGACGAACCCTTCAGTGATTTGTCCCTCT
*
426235 AAAGTTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGAA
1 AAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGAA
* *
426300 TATATTACATTTAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTT
66 TAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTT
*
426365 TTTCAGGCCAAAGACTTTGTGATAAGACGAACCCTTCAGT
131 TGTCAGGCCAAAGACTTTGTGATAAGACGAACCCTTCAGT
426405 TAAACTAGGT
Statistics
Matches: 162, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 162 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (183 bp):
AAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGAA
TAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTT
TGTCAGGCCAAAGACTTTGTGATAAGACGAACCCTTCAGTGATTTGTCCCTCT
Found at i:427620 original size:36 final size:36
Alignment explanation
Indices: 427580--427763 Score: 111
Period size: 36 Copynumber: 5.1 Consensus size: 36
427570 ATACTTTGTC
*
427580 TCACTTGAGACTGTTTTACTCGAAAGAAGATTTATT
1 TCACTTGAGACTGTTTTACTCAAAAGAAGATTTATT
** * * * * * * *
427616 TCACTCAAG-TTTTCTTTGCTTAAAA-CAGACTTTGTC
1 TCACTTGAGACTGT-TTTACTCAAAAGAAGA-TTTATT
*
427652 TCACCTGAGACTGTTTTACTCAAAAGAAGATTTATT
1 TCACTTGAGACTGTTTTACTCAAAAGAAGATTTATT
* ** * * * ** *
427688 CCACTCAAGATTGTTTTTCTTAAAACCAGATTTATC
1 TCACTTGAGACTGTTTTACTCAAAAGAAGATTTATT
* * * *
427724 TCTCTTGGGACCGTTTTCACTCGAAAGAAGATTTATT
1 TCACTTGAGACTGTTTT-ACTCAAAAGAAGATTTATT
427761 TCA
1 TCA
427764 GTCAAGATTG
Statistics
Matches: 99, Mismatches: 44, Indels: 9
0.65 0.29 0.06
Matches are distributed among these distances:
35 5 0.05
36 74 0.75
37 20 0.20
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (36 bp):
TCACTTGAGACTGTTTTACTCAAAAGAAGATTTATT
Found at i:427650 original size:72 final size:72
Alignment explanation
Indices: 427552--427807 Score: 295
Period size: 72 Copynumber: 3.5 Consensus size: 72
427542 TCTCACTTGT
* * * *
427552 GATTATTTTTATTAAAGCATACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTT
1 GATTGTTTTTCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTT
427617 CACTCAA
66 CACTCAA
* *
427624 G-TT-TTCTTTGCTTAAAACAGACTTTGTCTCACCTGAGACTGTTTTACTCAAAAGAAGATTTAT
1 GATTGTT-TTT-CTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTAT
*
427687 TCCACTCAA
64 TTCACTCAA
* * * *
427696 GATTGTTTTTCTTAAAACCAGA-TTTATCTCTCTTGGGACCGTTTTCACTCGAAAGAAGATTTAT
1 GATTGTTTTTCTTAAAA-CAGACTTTGTCTCACTTGAGACTGTTTT-ACTCGAAAGAAGATTTAT
*
427760 TTCAGTCAA
64 TTCACTCAA
* * * *
427769 GATTGTTTCTCTTGAAACA-AATTTCGTCTCCCTTGAGAC
1 GATTGTTTTTCTTAAAACAGACTTT-GTCTCACTTGAGAC
427808 ATTTTCTTTT
Statistics
Matches: 157, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
70 2 0.01
71 6 0.04
72 88 0.56
73 59 0.38
74 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (72 bp):
GATTGTTTTTCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTT
CACTCAA
Found at i:427981 original size:65 final size:65
Alignment explanation
Indices: 427827--427981 Score: 186
Period size: 65 Copynumber: 2.4 Consensus size: 65
427817 TAGAACTAAG
**
427827 TTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAATGAA
1 TTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAACAAA
* * * * * * *
427892 TTTTGCCTCTCTTAAGATAGTTTCTCTTGAAACA-AAATCTTTGAATATGTTTCCCTTGAAACAA
1 TTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAA-CATTGAAAATATTTCCCTTGAAACAA
427956 A
65 A
* * *
427957 TTTCATCTCCCTTGAGACATTTTCT
1 TTTCGTCTCTCTTGAGACAGTTTCT
427982 TTTGGAACTA
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
64 3 0.04
65 70 0.96
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (65 bp):
TTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAACAAA
Found at i:428047 original size:102 final size:102
Alignment explanation
Indices: 427877--428226 Score: 314
Period size: 102 Copynumber: 3.5 Consensus size: 102
427867 TTGAAAATAT
** * * * * *
427877 TTCCCTTGAAA-TGAATTTTGCCTCTCTTAAGATAGTTTCTCTTGAAACA-AAATCTTTGAATAT
1 TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTGAAAAC
* **
427940 GTTTCCCTTGAAACAAATTTCATCTCCCTTGAGACATT
65 ATTTCCCTTGAAACAAATTTCATCTCCCTTGAGACAGG
** * * * * * *
427978 TTCTTTTGGAACTAAGTTTTTTTTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTAAAAACA
1 TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACA
** ** * *
428043 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGG
66 TTTCCCTTGAAACAAATTTCATCTCCCTTGAGACAGG
* *
428080 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
1 TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACA
** ** * * * * *
428145 TTTCCCTTGAAATGAATTTTGTCACTCATGAGATAGT
66 TTTCCCTTGAAACAAATTTCATCTCCCTTGAGACAGG
* * *
428182 TTCCCTTGAAAC-AAA--TTGTCTCCCTTGAGACAGTTTCTTTTGAAA
1 TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAA
428227 GTTTTTGTCT
Statistics
Matches: 211, Mismatches: 36, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
99 29 0.14
101 11 0.05
102 168 0.80
103 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (102 bp):
TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACA
TTTCCCTTGAAACAAATTTCATCTCCCTTGAGACAGG
Found at i:428055 original size:167 final size:166
Alignment explanation
Indices: 427772--428100 Score: 532
Period size: 167 Copynumber: 2.0 Consensus size: 166
427762 CAGTCAAGAT
* *
427772 TGTTTCTCTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCT
1 TGTTTCCCTTGAAACAAATTTCATCTCCCTTGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCT
* *
427837 CTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAATGAATTTTGCCTCT
66 CTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGCCTCT
* *
427902 CTTAAGATAGTTTCTCTTGAAACAAAATCTTTGAATA
131 CTTAAGATAGGTTCCCTTGAAACAAAAT-TTTGAATA
* ** *
427939 TGTTTCCCTTGAAACAAATTTCATCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTTTTTCT
1 TGTTTCCCTTGAAACAAATTTCATCTCCCTTGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCT
* *
428004 CTTGAGATAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCT
66 CTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGCCTCT
*
428069 CTTGAGATAGGTTCCCTTGAAACAAAATTTTG
131 CTTAAGATAGGTTCCCTTGAAACAAAATTTTG
428101 TCTCCCTTGA
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
166 4 0.03
167 145 0.97
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (166 bp):
TGTTTCCCTTGAAACAAATTTCATCTCCCTTGAGACATTTTCTTTTAGAACTAAGTTTCGTCTCT
CTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGCCTCT
CTTAAGATAGGTTCCCTTGAAACAAAATTTTGAATA
Found at i:428104 original size:37 final size:37
Alignment explanation
Indices: 428044--428129 Score: 111
Period size: 37 Copynumber: 2.4 Consensus size: 37
428034 TTAAAAACAT
** * *
428044 TTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAGG
1 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGG
*
428080 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGT
1 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGG
*
428117 TTCTCTTGAAACA
1 TTCCCTTGAAACA
428130 TAAACATTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 11 0.26
37 32 0.74
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGG
Found at i:428341 original size:33 final size:34
Alignment explanation
Indices: 428301--428374 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 34
428291 TTGAATACAA
*
428301 TTTCTCTTGAAACAC-AAAAAACCTTTGAAATTG
1 TTTCTCTTGAAACACAAAAAAACCTTTGAAAATG
428334 TTTCTCTTGAAACACGAAAAAAAACCTTTGAAAATG
1 TTTCTCTTGAAACAC--AAAAAAACCTTTGAAAATG
428370 TTTCT
1 TTTCT
428375 GTTGGAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
33 15 0.41
36 22 0.59
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (34 bp):
TTTCTCTTGAAACACAAAAAAACCTTTGAAAATG
Found at i:429172 original size:84 final size:85
Alignment explanation
Indices: 429033--429190 Score: 212
Period size: 84 Copynumber: 1.9 Consensus size: 85
429023 CACCAAACCC
* * *
429033 TCGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCTATAAGGGT
1 TCGAGTTCGACTACACTCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGT
429098 TATCTGTCACCAAAAGACCG
66 TATCTGTCACCAAAAGACCG
** * * * *
429118 TCGAGTTCGACTATGCTCAGC-TCTAA-GGCACATCATTTATAGCATAGCTTAAGGCAAGAAGGG
1 TCGAGTTCGACTACACTCAGCTTC-AAGGGCACATCATTTACAACATAACTCAAGGCAAGAAGGG
429181 TTATCTGTCA
65 TTATCTGTCA
429191 ATAAAATTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
84 43 0.68
85 20 0.32
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (85 bp):
TCGAGTTCGACTACACTCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGT
TATCTGTCACCAAAAGACCG
Found at i:430483 original size:18 final size:18
Alignment explanation
Indices: 430445--430483 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
430435 TTTTATGGAC
* *
430445 TTTATTTTTTTTATGTCT
1 TTTATTTTATTTATGTAT
*
430463 TTTATTTTATTTATTTAT
1 TTTATTTTATTTATGTAT
430481 TTT
1 TTT
430484 TCTTTTCGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTATTTTATTTATGTAT
Found at i:431290 original size:4 final size:4
Alignment explanation
Indices: 431281--431315 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
431271 TTCAACTATG
431281 TATT TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TAT
431316 ACATGCATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:432620 original size:2 final size:2
Alignment explanation
Indices: 432613--432637 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
432603 TTAATTGAAA
432613 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
432638 AGGGTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:434876 original size:17 final size:17
Alignment explanation
Indices: 434854--434886 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
434844 TGACTAAAAA
434854 ATGATAGTTTATGTACC
1 ATGATAGTTTATGTACC
434871 ATGATAGTTTATGTAC
1 ATGATAGTTTATGTAC
434887 TTAATGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (17 bp):
ATGATAGTTTATGTACC
Found at i:435991 original size:2 final size:2
Alignment explanation
Indices: 435984--436008 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
435974 CGAATAAGCA
435984 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
436009 GGCTAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:437757 original size:2 final size:2
Alignment explanation
Indices: 437750--437777 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
437740 AAAATATTAA
437750 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
437778 TGAGAAATAG
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:440414 original size:2 final size:2
Alignment explanation
Indices: 440407--440450 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
440397 TCAATTCATT
440407 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
440449 TA
1 TA
440451 ACGTTTAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:441087 original size:20 final size:19
Alignment explanation
Indices: 441064--441103 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
441054 TCCTCTGAAA
441064 ATTTCAATTTCAATTTTTAT
1 ATTTCAATTT-AATTTTTAT
* *
441084 ATTTTAATTTATTTTTTAT
1 ATTTCAATTTAATTTTTAT
441103 A
1 A
441104 AGTTGGCCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTCAATTTAATTTTTAT
Found at i:442089 original size:20 final size:19
Alignment explanation
Indices: 442066--442141 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
442056 AGTTTCCGAA
442066 TTCGCAACACGAATTTTTTT
1 TTCGCAACACG-ATTTTTTT
* **
442086 TTCGCAACTCGATTTTTAAA
1 TTCGCAACACGATTTTT-TT
* **
442106 TTCGTAACACGAGTTTCGTT
1 TTCGCAACACGA-TTTTTTT
*
442126 TTCGCAACTCGATTTT
1 TTCGCAACACGATTTT
442142 CTAATTCGTA
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
19 9 0.21
20 30 0.71
21 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (19 bp):
TTCGCAACACGATTTTTTT
Found at i:442149 original size:20 final size:19
Alignment explanation
Indices: 442064--442149 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 19
442054 ACAGTTTCCG
442064 AATTCGCAACACGAATTTTT
1 AATTCGCAACACG-ATTTTT
** *
442084 TTTTCGCAACTCGATTTTT
1 AATTCGCAACACGATTTTT
*
442103 AAATTCGTAACACGAGTTTCGTT
1 -AATTCGCAACACGA-TTT--TT
*
442126 --TTCGCAACTCGATTTTCT
1 AATTCGCAACACGATTTT-T
442144 AATTCG
1 AATTCG
442150 TAATGCGAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
17 1 0.02
18 1 0.02
19 9 0.18
20 34 0.68
21 3 0.06
23 2 0.04
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (19 bp):
AATTCGCAACACGATTTTT
Found at i:442150 original size:40 final size:40
Alignment explanation
Indices: 442064--442162 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
442054 ACAGTTTCCG
* * **
442064 AATTCGCAACACGAATTTTTTTTTCGCAACTCGATTTTTA
1 AATTCGTAACACGAGTTTCGTTTTCGCAACTCGATTTTTA
442104 AATTCGTAACACGAGTTTCGTTTTCGCAACTCGATTTTCT-
1 AATTCGTAACACGAGTTTCGTTTTCGCAACTCGATTTT-TA
**
442144 AATTCGTAATGCGAGTTTC
1 AATTCGTAACACGAGTTTC
442163 AATTAACACG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 51 0.98
41 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (40 bp):
AATTCGTAACACGAGTTTCGTTTTCGCAACTCGATTTTTA
Found at i:442227 original size:20 final size:20
Alignment explanation
Indices: 442202--442249 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
442192 GATTTTTGAA
442202 TTCGCAACGCGAA-TTTAAAT
1 TTCGCAACGC-AACTTTAAAT
* *
442222 TTCGCAACTCAACTTTTAAT
1 TTCGCAACGCAACTTTAAAT
442242 TTCGCAAC
1 TTCGCAAC
442250 ACAAATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (20 bp):
TTCGCAACGCAACTTTAAAT
Found at i:442354 original size:20 final size:20
Alignment explanation
Indices: 442329--442440 Score: 136
Period size: 20 Copynumber: 5.6 Consensus size: 20
442319 AAAATGAAAA
*
442329 TCGAGTTACGAATTCGAATT
1 TCGAGTTGCGAATTCGAATT
*
442349 TTGAGTTGCGAATTCGAATT
1 TCGAGTTGCGAATTCGAATT
* *
442369 TCAAGTTGCGAATT-TAAGTT
1 TCGAGTTGCGAATTCGAA-TT
*
442389 TCGAGTTGCGAATTTGAATT
1 TCGAGTTGCGAATTCGAATT
* *
442409 TCGAGATGCGAATTCGATTT
1 TCGAGTTGCGAATTCGAATT
*
442429 TCAAGTTGCGAA
1 TCGAGTTGCGAA
442441 ATCCATATTC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
19 2 0.03
20 74 0.95
21 2 0.03
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGAGTTGCGAATTCGAATT
Found at i:442395 original size:40 final size:40
Alignment explanation
Indices: 442332--442463 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 40
442322 ATGAAAATCG
* *
442332 AGTTACGAATTCGAA-TTTTGAGTTGCGAATTCGAATTTCA
1 AGTTGCGAATTC-AAGTTTCGAGTTGCGAATTCGAATTTCA
* * *
442372 AGTTGCGAATTTAAGTTTCGAGTTGCGAATTTGAATTTCG
1 AGTTGCGAATTCAAGTTTCGAGTTGCGAATTCGAATTTCA
* * * * * *
442412 AGATGCGAATTCGATTTTCAAGTTGCGAAATC-CATATTCA
1 AGTTGCGAATTCAAGTTTCGAGTTGCGAATTCGAAT-TTCA
*
442452 AGTTACGAATTC
1 AGTTGCGAATTC
442464 GAAAACTGAG
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 4 0.05
40 70 0.95
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (40 bp):
AGTTGCGAATTCAAGTTTCGAGTTGCGAATTCGAATTTCA
Found at i:442461 original size:60 final size:60
Alignment explanation
Indices: 442332--442466 Score: 173
Period size: 60 Copynumber: 2.2 Consensus size: 60
442322 ATGAAAATCG
* * * * *
442332 AGTTACGAATTCGAATTTTGAGTTGCGAATTCGAATTTCAAGTTGCGAATTTAAGTTTCG
1 AGTTACGAATTCGAATTTCGAGATGCGAATTCGAATTTCAAGTTGCGAAATCAAGTTTCA
* * * *
442392 AGTTGCGAATTTGAATTTCGAGATGCGAATTCGATTTTCAAGTTGCGAAATCCA-TATTCA
1 AGTTACGAATTCGAATTTCGAGATGCGAATTCGAATTTCAAGTTGCGAAATCAAGT-TTCA
442452 AGTTACGAATTCGAA
1 AGTTACGAATTCGAA
442467 AACTGAGTTG
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 1 0.02
60 62 0.98
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (60 bp):
AGTTACGAATTCGAATTTCGAGATGCGAATTCGAATTTCAAGTTGCGAAATCAAGTTTCA
Found at i:442476 original size:40 final size:40
Alignment explanation
Indices: 442432--442511 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
442422 TCGATTTTCA
*
442432 AGTTGCGAAATCCATATTCAAGTTACGAATTCGAAAACTG
1 AGTTGCGAAATCCAAATTCAAGTTACGAATTCGAAAACTG
** ** *
442472 AGTTGCGAAATGTAAATTCTTGTTGCGAATTCGAAAACTG
1 AGTTGCGAAATCCAAATTCAAGTTACGAATTCGAAAACTG
442512 TGATTTCGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (40 bp):
AGTTGCGAAATCCAAATTCAAGTTACGAATTCGAAAACTG
Found at i:442687 original size:13 final size:13
Alignment explanation
Indices: 442669--442693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
442659 TAGTATACGG
442669 TTTGAAAACAGTT
1 TTTGAAAACAGTT
442682 TTTGAAAACAGT
1 TTTGAAAACAGT
442694 AAATAGTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
TTTGAAAACAGTT
Found at i:442718 original size:19 final size:19
Alignment explanation
Indices: 442694--442731 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
442684 TGAAAACAGT
442694 AAATAGTATATAGTTTTAA
1 AAATAGTATATAGTTTTAA
*
442713 AAATAGTATTTAGTTTTAA
1 AAATAGTATATAGTTTTAA
442732 GAAAACGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (19 bp):
AAATAGTATATAGTTTTAA
Found at i:443850 original size:140 final size:139
Alignment explanation
Indices: 443556--443813 Score: 351
Period size: 140 Copynumber: 1.9 Consensus size: 139
443546 GTTCTCGAAC
* *
443556 CTTAGTCTTTAAACTTAGGAAATAATTCGATTTGACTCTCGCATTAAAATACCCGAGGGTTTTCA
1 CTTAGTCTTTAAATTTAGGAAATAATTCGATTTGACTCTCGCATTAAAATACCCGAGAGTTTTCA
* * * *
443621 TCGATTATTTGTTTCAATAATTGGTTAAAATGAATTAAGTTATTAATTAGAGCCTCCATTTTAGG
66 TCGATTATTAGCTTCAATAATTGGTTAAAATCAATTAAGTTAATAATTAGAGCCTCCATTTTAGG
443686 CAGAACTACA
131 CAGAAC-ACA
* * * * *
443696 CTTAGTCTTTAAATTTAAGG-AATAATTTGATTTGGCTCTCTCATTAAAATGCCCTAGAGTTTTC
1 CTTAGTCTTTAAATTT-AGGAAATAATTCGATTTGACTCTCGCATTAAAATACCCGAGAGTTTTC
* *
443760 ATCGATTATTAGCTTCAATAATTGG-TCAAATCAATTATGATTAAT-ATTAGAGCC
65 ATCGATTATTAGCTTCAATAATTGGTTAAAATCAATTAAG-TTAATAATTAGAGCC
443814 CACATTTCTA
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
139 20 0.19
140 80 0.78
141 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (139 bp):
CTTAGTCTTTAAATTTAGGAAATAATTCGATTTGACTCTCGCATTAAAATACCCGAGAGTTTTCA
TCGATTATTAGCTTCAATAATTGGTTAAAATCAATTAAGTTAATAATTAGAGCCTCCATTTTAGG
CAGAACACA
Found at i:447171 original size:29 final size:28
Alignment explanation
Indices: 447084--447172 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 28
447074 ACTAAAATAT
** *
447084 AACTTTTAAAATTATATTTTTTGTCCCTA
1 AACTTTTAAAATTATA-TTTTAATCACTA
* *
447113 AATTTTTAAAAATTTATACTTTAA-CAACTA
1 AACTTTT-AAAA-TTATATTTTAATC-ACTA
447143 AACTTTTAAAACTTATATTTTAATCACTA
1 AACTTTTAAAA-TTATATTTTAATCACTA
447172 A
1 A
447173 CCAAAATTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
29 26 0.54
30 17 0.35
31 5 0.10
ACGTcount: A:0.40, C:0.12, G:0.01, T:0.46
Consensus pattern (28 bp):
AACTTTTAAAATTATATTTTAATCACTA
Found at i:453031 original size:29 final size:30
Alignment explanation
Indices: 452997--453058 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
452987 AATGTATGTT
* *
452997 TTTTATT-TCAGTTTAGTGTCTAATGTTT-A
1 TTTTATTCT-AGTTTAGTGCCTAACGTTTCA
*
453026 TTTTATTCTAGTTTGGTGCCTAACGTTTCA
1 TTTTATTCTAGTTTAGTGCCTAACGTTTCA
453056 TTT
1 TTT
453059 CGTAATTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.18, C:0.11, G:0.15, T:0.56
Consensus pattern (30 bp):
TTTTATTCTAGTTTAGTGCCTAACGTTTCA
Found at i:453613 original size:20 final size:20
Alignment explanation
Indices: 453588--453647 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
453578 TTTCTTTTAA
453588 ATATATATATTTAAAATTAT
1 ATATATATATTTAAAATTAT
* *
453608 ATATATA-ATTTTAAATTTT
1 ATATATATATTTAAAATTAT
* * *
453627 AAATAAATTTTTTAAAATTAT
1 ATATATA-TATTTAAAATTAT
453648 TAGGTTATGA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 15 0.48
20 7 0.23
21 9 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATATATATTTAAAATTAT
Found at i:470684 original size:21 final size:23
Alignment explanation
Indices: 470656--470717 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 23
470646 AAACAAAAGG
470656 AGTAGTATCGGTACCATA-ACTA
1 AGTAGTATCGGTACCATACACTA
*
470678 AG-AGTATCGGTACTACTACACTA
1 AGTAGTATCGGTACCA-TACACTA
*
470701 AGTAGTATCGATACCAT
1 AGTAGTATCGGTACCAT
470718 TTTAACATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 12 0.35
22 4 0.12
23 7 0.21
24 11 0.32
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (23 bp):
AGTAGTATCGGTACCATACACTA
Found at i:474434 original size:4 final size:4
Alignment explanation
Indices: 474425--474530 Score: 52
Period size: 4 Copynumber: 24.8 Consensus size: 4
474415 ATACCCCTTC
** * * *
474425 AAAT AAAT AAAT AAAT AAATT ATTT GAAT AAAT -AAT AAAT AAAT CACT
1 AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * *
474473 AATT TATT CGAAAT AAAT GAACAT AAAT AAAA AAATT CAAAGT AAAT AAAT
1 AAAT AAAT --AAAT AAAT -AA-AT AAAT AAAT AAA-T -AAA-T AAAT AAAT
474524 AAAT AAA
1 AAAT AAA
474531 AATTACCTCC
Statistics
Matches: 78, Mismatches: 16, Indels: 16
0.71 0.15 0.15
Matches are distributed among these distances:
3 3 0.04
4 58 0.74
5 9 0.12
6 8 0.10
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:474463 original size:32 final size:33
Alignment explanation
Indices: 474426--474530 Score: 96
Period size: 32 Copynumber: 3.3 Consensus size: 33
474416 TACCCCTTCA
*
474426 AATAAATAAATAAATAAATTATTTG-AATAAAT
1 AATAAATAAATAAATAAATTATTCGAAATAAAT
* * *
474458 AATAAATAAATCACTAATTTATTCGAAATAAAT
1 AATAAATAAATAAATAAATTATTCGAAATAAAT
* *
474491 GA-ACATAAATAAA-AAA--ATTC-AAAGTAAAT
1 AATAAATAAATAAATAAATTATTCGAAA-TAAAT
474520 AAATAAATAAA
1 -AATAAATAAA
474531 AATTACCTCC
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
28 3 0.05
29 9 0.16
30 1 0.02
31 8 0.14
32 29 0.50
33 8 0.14
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.29
Consensus pattern (33 bp):
AATAAATAAATAAATAAATTATTCGAAATAAAT
Found at i:475792 original size:2 final size:2
Alignment explanation
Indices: 475780--475818 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
475770 CGGAAAAATA
*
475780 AT AT A- AT AT AT AT AT AT AT AT AG 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 AT AT
475819 TGTATATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:480655 original size:9 final size:9
Alignment explanation
Indices: 480641--480669 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
480631 GTCACTAAAA
480641 TTTTATATT
1 TTTTATATT
480650 TTTTATATT
1 TTTTATATT
480659 TTTTA-ATT
1 TTTTATATT
480667 TTT
1 TTT
480670 AAATTATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTATATT
Found at i:480682 original size:18 final size:16
Alignment explanation
Indices: 480638--480685 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
480628 TTAGTCACTA
* *
480638 AAATTTTATATTTTTT
1 AAATTTTTTAATTTTT
*
480654 ATATTTTTTAATTTTT
1 AAATTTTTTAATTTTT
480670 AAATTATTCTTAATTT
1 AAATT-TT-TTAATTT
480686 AATTACTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 17 0.65
17 2 0.08
18 7 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
AAATTTTTTAATTTTT
Found at i:482393 original size:3 final size:3
Alignment explanation
Indices: 482379--482424 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
482369 AATATATACC
482379 AAT AATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
482425 GTAGAATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:506803 original size:29 final size:29
Alignment explanation
Indices: 506770--506829 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
506760 GTTTTGTACT
506770 AATGAAAGATTCTATGATTCCTATAAGAG
1 AATGAAAGATTCTATGATTCCTATAAGAG
506799 AATGAAAGATTCTATGATTCCTATAAGAG
1 AATGAAAGATTCTATGATTCCTATAAGAG
506828 AA
1 AA
506830 GATTAGAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (29 bp):
AATGAAAGATTCTATGATTCCTATAAGAG
Found at i:508065 original size:18 final size:19
Alignment explanation
Indices: 508030--508066 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
508020 CACGGAATGT
508030 AAGATTATCAGTGGGAATAA
1 AAGATTATCAG-GGGAATAA
508050 AAGATTATCA-GGGAATA
1 AAGATTATCAGGGGAATA
508067 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.24
Consensus pattern (19 bp):
AAGATTATCAGGGGAATAA
Done.