Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 39 of 202
Found at i:11465289 original size:14 final size:15
Alignment explanation
Indices: 11465259--11465292 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11465249 TTAACATGGC
*
11465259 AATTTGGAACCTTTG
1 AATTTGGAACATTTG
11465274 AATTTGGAA-ATTTG
1 AATTTGGAACATTTG
11465288 AATTT
1 AATTT
11465293 TAAAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (15 bp):
AATTTGGAACATTTG
Found at i:11465793 original size:21 final size:22
Alignment explanation
Indices: 11465753--11465794 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11465743 TTTTGAATTA
*
11465753 ATTCAAATTTAATGTTTGGATG
1 ATTCAAATTTAATATTTGGATG
11465775 ATTCAAATTTAA-ATTTGGAT
1 ATTCAAATTTAATATTTGGAT
11465795 TTTATCTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
ATTCAAATTTAATATTTGGATG
Found at i:11466831 original size:31 final size:31
Alignment explanation
Indices: 11466793--11466855 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
11466783 AACTTATATA
11466793 AGCAAATATATCAAATACAATTTTCAGACAT
1 AGCAAATATATCAAATACAATTTTCAGACAT
11466824 AGCAAATATATCAAATACAATTTTCAGACAT
1 AGCAAATATATCAAATACAATTTTCAGACAT
11466855 A
1 A
11466856 CTTTCAGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (31 bp):
AGCAAATATATCAAATACAATTTTCAGACAT
Found at i:11470028 original size:21 final size:22
Alignment explanation
Indices: 11470002--11470043 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
11469992 GAAACCAACA
11470002 AGTTTATAC-GCAA-AAATTAGC
1 AGTTTAT-CTGCAATAAATTAGC
11470023 AGTTTATCTGCAATAAATTAG
1 AGTTTATCTGCAATAAATTAG
11470044 TAAAAATCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.05
21 11 0.58
22 7 0.37
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (22 bp):
AGTTTATCTGCAATAAATTAGC
Found at i:11470582 original size:27 final size:27
Alignment explanation
Indices: 11470552--11470618 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
11470542 CCTATTAGGT
*
11470552 AGGCCCCAATGAAGGTGCCTCACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
* *
11470579 AGGCGCTAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
11470606 AGGCGCCAATGAA
1 AGGCGCCAATGAA
11470619 TATTGTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.24, G:0.31, T:0.13
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCACAGAG
Found at i:11470713 original size:21 final size:21
Alignment explanation
Indices: 11470688--11470758 Score: 88
Period size: 21 Copynumber: 3.1 Consensus size: 21
11470678 TGGATTAGTA
11470688 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
11470709 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
11470734 AATTTTGTATGAATATTGTAATT
1 --TTTTGTATGAATATTGTAATT
11470757 TT
1 TT
11470759 GTAATTTTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
21 19 0.43
22 1 0.02
23 2 0.05
24 2 0.05
25 2 0.05
26 1 0.02
27 17 0.39
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:11470734 original size:61 final size:61
Alignment explanation
Indices: 11470626--11470740 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
11470616 GAATATTGTA
* *
11470626 ATTTTATATGAATATTGTAATTATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGT
1 ATTTTATATGAATATTGTAATTATTTTATAATGAAATTTGTATTTATAATTTTGGATTAGT
* *
11470687 ATTTTGTATGAATATTGTAATT-TTTTGT-ATG-AATATTGTAATATTATAATTTTG
1 ATTTTATATGAATATTGTAATTATTTTATAATGAAAT-TTGT-AT-TTATAATTTTG
11470741 TATGAATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
58 3 0.06
59 6 0.13
60 7 0.15
61 31 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (61 bp):
ATTTTATATGAATATTGTAATTATTTTATAATGAAATTTGTATTTATAATTTTGGATTAGT
Found at i:11470747 original size:27 final size:27
Alignment explanation
Indices: 11470709--11470782 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
11470699 TATTGTAATT
11470709 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTATAA
* *
11470736 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATTATAA
11470763 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
11470783 GTCGGGATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (27 bp):
TTTTGTATGAATATTGTAATATTATAA
Found at i:11470782 original size:19 final size:19
Alignment explanation
Indices: 11470614--11470761 Score: 70
Period size: 19 Copynumber: 8.1 Consensus size: 19
11470604 AGAGGCGCCA
*
11470614 ATGAATATTGTAATTTTAT
1 ATGAATATTGTAATTTTGT
*
11470633 ATGAATATTGTAATTATTTT
1 ATGAATATTGTAATT-TTGT
11470653 AT-AATTAAATTTGT-ATTTATAGTT
1 ATGAA-T--A-TTGTAATTT-T-G-T
* * *
11470677 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
11470694 ATGAATATTGTAATTTT-T
1 ATGAATATTGTAATTTTGT
*
11470712 -TG--TA-TG-AATATTG-
1 ATGAATATTGTAATTTTGT
*
11470725 -T-AATATTATAATTTTGT
1 ATGAATATTGTAATTTTGT
11470742 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
11470761 A
1 A
11470762 ATTTTGTATG
Statistics
Matches: 98, Mismatches: 12, Indels: 38
0.66 0.08 0.26
Matches are distributed among these distances:
13 6 0.06
14 4 0.04
15 3 0.03
16 6 0.06
17 7 0.07
18 6 0.06
19 39 0.40
20 13 0.13
21 1 0.01
22 5 0.05
23 4 0.04
24 3 0.03
25 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (19 bp):
ATGAATATTGTAATTTTGT
Found at i:11470904 original size:60 final size:60
Alignment explanation
Indices: 11470823--11470944 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
11470813 TGTATGAATA
* * * * *
11470823 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
11470883 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
11470943 TT
1 TT
11470945 AGTTTAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:11471022 original size:38 final size:38
Alignment explanation
Indices: 11470977--11471058 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
11470967 CATATAAAGT
11470977 TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
*
11471015 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
11471053 TTATAA
1 TTATAA
11471059 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATCTTATTAAAAGTTTAA
Found at i:11471330 original size:21 final size:21
Alignment explanation
Indices: 11471299--11471483 Score: 119
Period size: 21 Copynumber: 8.2 Consensus size: 21
11471289 AATTAATTAT
11471299 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
11471321 AAAAAATTACAATATTACAATATATC
1 AAAAAATTACAATATT-C---ATA-C
** *
11471347 CCAACATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
*
11471368 ---AATTTACAATATTACAATATTC
1 AAAAAATTACAATATT-C-ATA--C
* *
11471390 ATACAAAATTATAGTATTACAATATTC
1 A-A-AAAATTACAATATT-C-ATA--C
11471417 ATAAAAAATTACAATATTCAT--
1 --AAAAAATTACAATATTCATAC
11471438 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
11471459 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
11471480 AAAA
1 AAAA
11471484 TACTAATCCA
Statistics
Matches: 135, Mismatches: 10, Indels: 37
0.74 0.05 0.20
Matches are distributed among these distances:
18 11 0.08
19 20 0.15
20 3 0.02
21 38 0.28
22 9 0.07
25 6 0.04
26 15 0.11
27 31 0.23
28 1 0.01
29 1 0.01
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:11471375 original size:65 final size:66
Alignment explanation
Indices: 11471297--11471474 Score: 200
Period size: 71 Copynumber: 2.6 Consensus size: 66
11471287 CAAATTAATT
** *
11471297 ATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATATC-CCAACATTACAATA
1 ATAAAA-AATTACAATATTCATACAAAAAATTACAATATTACAATAT-TCAAAAAAATTACAATA
11471361 TTC
64 TTC
* *
11471364 ATACAATTTACAATATTACAATATTCATAC--AAAATTATAGTATTACAATATTCATAAAAAATT
1 AT--AA---A-AA-ATTACAATATTCATACAAAAAATTACAATATTACAATATTCA-AAAAAATT
11471427 ACAATATTC
58 ACAATATTC
11471436 ATAAAAAATTACAATATTCATACAAAAAATTACAATATT
1 ATAAAAAATTACAATATTCATACAAAAAATTACAATATT
11471475 CATACAAAAT
Statistics
Matches: 93, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
65 16 0.17
66 2 0.02
67 15 0.16
69 2 0.02
70 4 0.04
71 19 0.20
72 18 0.19
73 17 0.18
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (66 bp):
ATAAAAAATTACAATATTCATACAAAAAATTACAATATTACAATATTCAAAAAAATTACAATATT
C
Found at i:11471400 original size:19 final size:19
Alignment explanation
Indices: 11471372--11471557 Score: 101
Period size: 19 Copynumber: 9.1 Consensus size: 19
11471362 TCATACAATT
*
11471372 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
11471391 TACAAAATTATAGTATTACAA
1 TACAAAATTACAATATT-C-A
11471412 TATTCATAAAAAATTACAATATTCA
1 TA--C---A-AAATTACAATATTCA
*
11471437 TAAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
11471456 TACAAAAAATTACAATATTCA
1 TAC--AAAATTACAATATTCA
* *
11471477 TACAAAA-TACTA-ATCCAA
1 TACAAAATTACAATATTC-A
*
11471495 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
* *
11471518 TAAAATAATTACAATATTAA
1 TACAA-AATTACAATATTCA
11471538 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
11471557 T
1 T
11471558 TGGCGCCTCT
Statistics
Matches: 130, Mismatches: 16, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
17 3 0.02
18 7 0.05
19 53 0.41
20 14 0.11
21 24 0.18
22 5 0.04
23 6 0.05
25 5 0.04
26 2 0.02
27 11 0.08
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:11471415 original size:8 final size:8
Alignment explanation
Indices: 11471326--11471388 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
11471316 CATACAAAAA
11471326 ATTACAAT
1 ATTACAAT
11471334 ATTACAAT
1 ATTACAAT
* *
11471342 ATATCCCAAC
1 AT-T-ACAAT
11471352 ATTACAAT
1 ATTACAAT
11471360 ATTCATACAAT
1 A-T--TACAAT
11471371 -TTACAAT
1 ATTACAAT
11471378 ATTACAAT
1 ATTACAAT
11471386 ATT
1 ATT
11471389 CATACAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
7 6 0.13
8 24 0.53
9 4 0.09
10 5 0.11
11 6 0.13
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (8 bp):
ATTACAAT
Found at i:11471415 original size:27 final size:27
Alignment explanation
Indices: 11471352--11471434 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
11471342 ATATCCCAAC
*
11471352 ATTACAATATTCATAC-AATTTACAAT
1 ATTACAATATTCATACAAAATTACAAT
* *
11471378 ATTACAATATTCATACAAAATTATAGT
1 ATTACAATATTCATACAAAATTACAAT
*
11471405 ATTACAATATTCATAAAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
11471432 ATT
1 ATT
11471435 CATAAAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
26 16 0.32
27 34 0.68
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.37
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:11471473 original size:40 final size:38
Alignment explanation
Indices: 11471405--11471557 Score: 134
Period size: 38 Copynumber: 3.9 Consensus size: 38
11471395 AAATTATAGT
11471405 ATTACAATATTCATAAAAAATTACAATATTCATAAAAA
1 ATTACAATATTCATAAAAAATTACAATATTCATAAAAA
*
11471443 ATTACAATATTCATACAAAAAATTACAATATTCATACAAA
1 ATTACAATATTCAT--AAAAAATTACAATATTCATAAAAA
* * *
11471483 A-TACTA-ATCCA-AAACTATAAATACAAATTTAATT-ATAAAATA
1 ATTACAATATTCATAAA--A-AATTAC-AA--T-ATTCATAAAA-A
* *
11471525 ATTACAATATTAATACAAAATTACAATATTCAT
1 ATTACAATATTCATAAAAAATTACAATATTCAT
11471558 TGGCGCCTCT
Statistics
Matches: 91, Mismatches: 10, Indels: 27
0.71 0.08 0.21
Matches are distributed among these distances:
35 3 0.03
37 1 0.01
38 26 0.29
39 9 0.10
40 24 0.26
41 8 0.09
42 10 0.11
43 5 0.05
44 3 0.03
45 2 0.02
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (38 bp):
ATTACAATATTCATAAAAAATTACAATATTCATAAAAA
Found at i:11477741 original size:24 final size:23
Alignment explanation
Indices: 11477714--11477759 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11477704 CTGTTGGTCT
*
11477714 TGTCGTTTCATGTTACTGTGTTGC
1 TGTCGTTTCA-GCTACTGTGTTGC
*
11477738 TGTCTTTTCAGCTACTGTGTTG
1 TGTCGTTTCAGCTACTGTGTTG
11477760 TCTTGAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.09, C:0.17, G:0.24, T:0.50
Consensus pattern (23 bp):
TGTCGTTTCAGCTACTGTGTTGC
Found at i:11485588 original size:25 final size:26
Alignment explanation
Indices: 11485545--11485594 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
11485535 TATGTACATG
*
11485545 TATATTTTTTTTAACGAATATTTTCC
1 TATATTTTTTTTAAAGAATATTTTCC
11485571 TATA-TTTTTTTAAAGAATATTTTC
1 TATATTTTTTTTAAAGAATATTTTC
11485595 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (26 bp):
TATATTTTTTTTAAAGAATATTTTCC
Found at i:11487918 original size:20 final size:20
Alignment explanation
Indices: 11487895--11487934 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11487885 AATATTTTTT
11487895 ATAAATTTAAT-ACTTTTTAA
1 ATAAATTTAATGA-TTTTTAA
*
11487915 ATAACTTTAATGATTTTTAA
1 ATAAATTTAATGATTTTTAA
11487935 TTTTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
ATAAATTTAATGATTTTTAA
Found at i:11489117 original size:20 final size:21
Alignment explanation
Indices: 11489061--11489124 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 21
11489051 CATAGAACAC
11489061 AATAATAATAATGA-CATAAT
1 AATAATAATAATGACCATAAT
* *
11489081 TATAATAATAATCACCA-AAT
1 AATAATAATAATGACCATAAT
* *
11489101 AATAATAACAATGACCATATT
1 AATAATAATAATGACCATAAT
11489122 AAT
1 AAT
11489125 TACTATTCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 29 0.81
21 7 0.19
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (21 bp):
AATAATAATAATGACCATAAT
Found at i:11490334 original size:20 final size:20
Alignment explanation
Indices: 11490298--11490349 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
11490288 TTATTATTTT
* *
11490298 CTTTTGTCTT-TTTGCGTTTG
1 CTTTTG-CTTGTTGGCGTTGG
11490318 CTTTTGCTTGTTGGCGTTGG
1 CTTTTGCTTGTTGGCGTTGG
* *
11490338 CTGTTGCGTGTT
1 CTTTTGCTTGTT
11490350 TATTTCCTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.00, C:0.15, G:0.29, T:0.56
Consensus pattern (20 bp):
CTTTTGCTTGTTGGCGTTGG
Found at i:11492175 original size:23 final size:23
Alignment explanation
Indices: 11492121--11492178 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 23
11492111 ATTTTTAATT
* *
11492121 AATATTTTTATTTATATAAATAA
1 AATATATTTAATTATATAAATAA
11492144 AATA-A--TAATTATAT-AATAAA
1 AATATATTTAATTATATAAAT-AA
11492164 AATATATTTAATTAT
1 AATATATTTAATTAT
11492179 GTTTAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 3 0.10
20 14 0.48
21 1 0.03
23 11 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AATATATTTAATTATATAAATAA
Found at i:11501711 original size:43 final size:42
Alignment explanation
Indices: 11501650--11501782 Score: 176
Period size: 43 Copynumber: 3.1 Consensus size: 42
11501640 CTAAAGACCA
*
11501650 AGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTT
1 AGCGGCGCTTTT-ACACAAACGCCGCTAAAGACCAAGACCTTT
** * *
11501693 AGCGGCGCATTTTACACAATTGCCACTAAAGACCATGACCTTT
1 AGCGGCGC-TTTTACACAAACGCCGCTAAAGACCAAGACCTTT
* *
11501736 AGCGGCGCTTTTACCACAAACGCTGCTAAAGATCAAGACCTTT
1 AGCGGCGCTTTTA-CACAAACGCCGCTAAAGACCAAGACCTTT
11501779 AGCG
1 AGCG
11501783 ACGCGTCTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 5 0.06
43 68 0.88
44 4 0.05
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (42 bp):
AGCGGCGCTTTTACACAAACGCCGCTAAAGACCAAGACCTTT
Found at i:11501798 original size:43 final size:42
Alignment explanation
Indices: 11501665--11501803 Score: 136
Period size: 43 Copynumber: 3.2 Consensus size: 42
11501655 CGCTTTTCCC
11501665 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCATT-TT
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCATTATT
* * * * **
11501706 ACACAATTGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTACC
1 ACA-AA-CGCCGCTAAAGACCAAGACCTTTAGCGGCGC-ATTATT
* * * *
11501751 ACAAACGCTGCTAAAGATCAAGACCTTTAGCGACGCGTCTATT
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCAT-TATT
*
11501794 ACAAATGCCG
1 ACAAACGCCG
11501804 TTATAAGATT
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
41 3 0.04
42 3 0.04
43 63 0.83
44 4 0.05
45 3 0.04
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (42 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCATTATT
Found at i:11503214 original size:17 final size:17
Alignment explanation
Indices: 11503189--11503221 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11503179 GCAACATAAC
*
11503189 ACAATCATTCATCAAAA
1 ACAACCATTCATCAAAA
11503206 ACAACCATTCATCAAA
1 ACAACCATTCATCAAA
11503222 CTTACCAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (17 bp):
ACAACCATTCATCAAAA
Found at i:11505514 original size:89 final size:89
Alignment explanation
Indices: 11505420--11505589 Score: 268
Period size: 89 Copynumber: 1.9 Consensus size: 89
11505410 CCCCTAAACA
** *
11505420 CTAACCCCTAAACCTTATTGAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCT
1 CTAACCCCTAAAAATTATTGAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCT
*
11505485 AACCCGACCCCGAATCTCTAACCC
66 AACCCGACACCGAATCTCTAACCC
* * *
11505509 CTAACCCCTAAAAATTATTTAATATATAAATTAAAACACACTAATTAATCTAAACCCTAAACCTT
1 CTAACCCCTAAAAATTATTGAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCT
*
11505574 AACCTGACACCGAATC
66 AACCCGACACCGAATC
11505590 CATAAACCTT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.44, C:0.28, G:0.03, T:0.26
Consensus pattern (89 bp):
CTAACCCCTAAAAATTATTGAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCT
AACCCGACACCGAATCTCTAACCC
Found at i:11505659 original size:21 final size:22
Alignment explanation
Indices: 11505592--11505659 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 22
11505582 ACCGAATCCA
*
11505592 TAAACCTTAAATCCCTAACTCT
1 TAAACCTTAAATCCCTAACCCT
* * *
11505614 T-AACCTTTAACCCCTAACCCA
1 TAAACCTTAAATCCCTAACCCT
*
11505635 TAAACCTTAAATCAC-AACCCT
1 TAAACCTTAAATCCCTAACCCT
11505656 TAAA
1 TAAA
11505660 TCAGAATCCC
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 26 0.70
22 11 0.30
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAACCTTAAATCCCTAACCCT
Found at i:11506113 original size:41 final size:41
Alignment explanation
Indices: 11506068--11506343 Score: 426
Period size: 41 Copynumber: 6.7 Consensus size: 41
11506058 AAATGTTTTT
* ** *
11506068 GCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
11506109 GCGGCGCTTTTCCAAAAATGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
11506150 CCGGCGCTTTTCCAAAAACGGCGCTAAAGATCTGAGCATTC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
11506191 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
11506232 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATCA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
11506273 GCGGCGCTTTTTCAAAAACGCTGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
11506314 GCGGCGCTTTTTTTAAAAACGCCGCTAAAG
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAAG
11506344 CCCCGAAAGG
Statistics
Matches: 215, Mismatches: 19, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
41 195 0.91
42 20 0.09
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:11506438 original size:39 final size:41
Alignment explanation
Indices: 11506381--11506513 Score: 101
Period size: 40 Copynumber: 3.3 Consensus size: 41
11506371 GGGCTTAGGT
* * * *
11506381 TTTTTTGCGGCGTTTTTCCAAAAAACGCCGCTAATGCTC-A
1 TTTTTAGCGGCGTCTTTCCAAAAAACGCCGCAAATGATCGA
** *
11506421 TTTTTAGCGGCG-CTTTCCTGAAAGCGCCGCAAATGATCGA
1 TTTTTAGCGGCGTCTTTCCAAAAAACGCCGCAAATGATCGA
* * * ** ** *
11506461 TCTTTAGCGGCAT-TTTACGTAATGCGCCGCTAATGATCGA
1 TTTTTAGCGGCGTCTTTCCAAAAAACGCCGCAAATGATCGA
*
11506501 TTTTTAGTGGCGT
1 TTTTTAGCGGCGT
11506514 TTTTTTGTCA
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 20 0.27
40 54 0.73
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (41 bp):
TTTTTAGCGGCGTCTTTCCAAAAAACGCCGCAAATGATCGA
Found at i:11506467 original size:40 final size:40
Alignment explanation
Indices: 11506406--11506512 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
11506396 TTCCAAAAAA
* *
11506406 CGCCGCTAATGCTC-ATTTTTAGCGGCGCTTT-CCTGAAAG
1 CGCCGCTAATGATCGATTTTTAGCGGCGCTTTACGT-AAAG
* * ** *
11506445 CGCCGCAAATGATCGATCTTTAGCGGCATTTTACGTAATG
1 CGCCGCTAATGATCGATTTTTAGCGGCGCTTTACGTAAAG
*
11506485 CGCCGCTAATGATCGATTTTTAGTGGCG
1 CGCCGCTAATGATCGATTTTTAGCGGCG
11506513 TTTTTTTGTC
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 12 0.22
40 41 0.75
41 2 0.04
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (40 bp):
CGCCGCTAATGATCGATTTTTAGCGGCGCTTTACGTAAAG
Found at i:11522989 original size:43 final size:43
Alignment explanation
Indices: 11522818--11522990 Score: 149
Period size: 43 Copynumber: 4.0 Consensus size: 43
11522808 ACATAGGATT
* * * *
11522818 TCGATATGAG-TTATCGTGTAAGACCACGTCTGGAACGTTGGCG
1 TCGATATTAGATTA-CGTGTAAGACCACGTCTGGGACATTGGCA
* * *
11522861 TCGAT-TTGAGATTTACGTATAAGACCATGTCTGGGACATCGGCA
1 TCGATATT-AGA-TTACGTGTAAGACCACGTCTGGGACATTGGCA
* ** *
11522905 TCG-TA-TACGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCA
1 TCGATATTA-GATTACGTGTAAGACCACGTCTGGGACATTGGCA
* *
11522947 TCGATATTTGATTACATGTAAGACCACGTCTGGGA-ATTTGGCA
1 TCGATATTAGATTACGTGTAAGACCACGTCTGGGACA-TTGGCA
11522990 T
1 T
11522991 TGTAAGAGCT
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
42 33 0.32
43 41 0.39
44 27 0.26
45 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGATATTAGATTACGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:11527965 original size:4 final size:4
Alignment explanation
Indices: 11527942--11528000 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
11527932 GATGGAATAA
* * *
11527942 AAAT AAAAT AAAGA AAAT AAAT AAAT AAAT -AA- AAAT AAAC AAAG AAAT
1 AAAT -AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
11527990 AAAT CAAT AAA
1 AAAT AAAT AAA
11528001 CCAATCAGGA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
3 4 0.09
4 33 0.75
5 7 0.16
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:11527965 original size:18 final size:18
Alignment explanation
Indices: 11527942--11527992 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
11527932 GATGGAATAA
*
11527942 AAATAAAATAAA-GAAAAT
1 AAAT-AAATAAATAAAAAT
11527960 AAATAAATAAATAAAAAT
1 AAATAAATAAATAAAAAT
* *
11527978 AAACAAAGAAATAAA
1 AAATAAATAAATAAA
11527993 TCAATAAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 7 0.24
18 22 0.76
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (18 bp):
AAATAAATAAATAAAAAT
Found at i:11527989 original size:26 final size:27
Alignment explanation
Indices: 11527942--11528000 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
11527932 GATGGAATAA
*
11527942 AAAT-AAAATAAAGAAAATAAATAAAT
1 AAATAAAAATAAAGAAAAGAAATAAAT
*
11527968 AAATAAAAATAAA-CAAAGAAATAAAT
1 AAATAAAAATAAAGAAAAGAAATAAAT
*
11527994 CAATAAA
1 AAATAAA
11528001 CCAATCAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (27 bp):
AAATAAAAATAAAGAAAAGAAATAAAT
Found at i:11530902 original size:11 final size:11
Alignment explanation
Indices: 11530886--11530912 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11530876 TTATAAAATG
11530886 ACAATATCTCA
1 ACAATATCTCA
11530897 ACAATATCTCA
1 ACAATATCTCA
11530908 ACAAT
1 ACAAT
11530913 TGATAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (11 bp):
ACAATATCTCA
Found at i:11534042 original size:18 final size:17
Alignment explanation
Indices: 11534014--11534048 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11534004 ATTATTAAGA
*
11534014 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11534031 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11534049 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11534120 original size:120 final size:120
Alignment explanation
Indices: 11533923--11534305 Score: 748
Period size: 120 Copynumber: 3.2 Consensus size: 120
11533913 TTTTCAAGTT
11533923 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
11533988 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
11534043 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
11534108 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
11534163 ATATATTTAATAATAATTATGTTAATTTATACTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
11534228 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
11534283 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
11534306 TAAATATGAT
Statistics
Matches: 260, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 260 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:11534162 original size:18 final size:17
Alignment explanation
Indices: 11534134--11534168 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11534124 ATTATTAAGA
*
11534134 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11534151 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11534169 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11534282 original size:18 final size:17
Alignment explanation
Indices: 11534254--11534288 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11534244 ATTATTAAGA
*
11534254 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11534271 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11534289 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11534546 original size:16 final size:16
Alignment explanation
Indices: 11534525--11534560 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11534515 GATTTGCTAT
11534525 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11534541 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11534557 TACA
1 TACA
11534561 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11543683 original size:20 final size:20
Alignment explanation
Indices: 11543651--11543688 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11543641 TTTGTTAAAA
*
11543651 AAATTTCAAAATATTTAACT
1 AAATTTCAAAATAATTAACT
11543671 AAATTT-AACAATAATTAA
1 AAATTTCAA-AATAATTAA
11543689 AAAATATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATTTCAAAATAATTAACT
Found at i:11551728 original size:28 final size:28
Alignment explanation
Indices: 11551696--11551769 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 28
11551686 TAAATCCAAA
11551696 AAGTAAGGGACTAAATTCTTGGAAATAG
1 AAGTAAGGGACTAAATTCTTGGAAATAG
11551724 AAGTAAGGGACTAAATTCTTGGAAATAG
1 AAGTAAGGGACTAAATTCTTGGAAATAG
*
11551752 AAGTAAGGGACCAAATTC
1 AAGTAAGGGACTAAATTC
11551770 AAAACGTGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.23
Consensus pattern (28 bp):
AAGTAAGGGACTAAATTCTTGGAAATAG
Found at i:11551851 original size:14 final size:14
Alignment explanation
Indices: 11551819--11551852 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
11551809 CCATTAGTAA
11551819 AATA-TCATATTTT
1 AATATTCATATTTT
11551832 ATATATTCATATTTT
1 A-ATATTCATATTTT
11551847 AATATT
1 AATATT
11551853 TTGAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 8 0.42
15 10 0.53
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTCATATTTT
Found at i:11554488 original size:5 final size:5
Alignment explanation
Indices: 11554478--11554502 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11554468 AAAGGTGCAG
11554478 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
11554503 ACTGTAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:11554986 original size:18 final size:19
Alignment explanation
Indices: 11554946--11554987 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
11554936 ATTTTTAAAA
**
11554946 AATTTCAAAAAAAAACTTT
1 AATTTCAAAAAAAAACTAG
11554965 AATTTCAAAAAAAAA-TAG
1 AATTTCAAAAAAAAACTAG
11554983 AATTT
1 AATTT
11554988 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (19 bp):
AATTTCAAAAAAAAACTAG
Found at i:11555427 original size:7 final size:8
Alignment explanation
Indices: 11555383--11555430 Score: 51
Period size: 8 Copynumber: 5.5 Consensus size: 8
11555373 ATTAAACTAA
11555383 TTTTATTT
1 TTTTATTT
11555391 TTTTATTTT
1 TTTTA-TTT
*
11555400 TTATTAAACTT
1 TT-TT--ATTT
11555411 TTTTATTT
1 TTTTATTT
11555419 TTTTATTT
1 TTTTATTT
11555427 TTTT
1 TTTT
11555431 GAAATTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
8 20 0.59
9 5 0.15
10 4 0.12
11 4 0.12
12 1 0.03
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTATTT
Found at i:11555430 original size:29 final size:29
Alignment explanation
Indices: 11555373--11555429 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
11555363 TTTTTTAAAA
11555373 ATTAAACTAATTTTATTTTTTTATTTTTT
1 ATTAAACTAATTTTATTTTTTTATTTTTT
*
11555402 ATTAAACT-TTTTTATTTTTTTATTTTTT
1 ATTAAACTAATTTTATTTTTTTATTTTTT
11555430 TGAAATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (29 bp):
ATTAAACTAATTTTATTTTTTTATTTTTT
Found at i:11559703 original size:31 final size:31
Alignment explanation
Indices: 11559668--11559772 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
11559658 TAATCATATT
11559668 AATATTAAATTAATAAAATAATATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
** * * *
11559699 AATATTAAATT-A-AATTTCATATCTCATATT
1 AATATTAAATTAATAAAATAATATCT-AGATA
* * * *
11559729 AATATTCAATTGATAAAATACTATTTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
*
11559760 AATATTGAATTAA
1 AATATTAAATTAA
11559773 ATTTAATTTT
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
29 9 0.16
30 14 0.25
31 26 0.46
32 7 0.12
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAGATA
Found at i:11559758 original size:61 final size:61
Alignment explanation
Indices: 11559661--11559776 Score: 187
Period size: 61 Copynumber: 1.9 Consensus size: 61
11559651 TTAGAATTAA
11559661 TCATATTAATATTAAATTAATAAAATAATATCTAGATAAATATTAAATTAAATTTCATATC
1 TCATATTAATATTAAATTAATAAAATAATATCTAGATAAATATTAAATTAAATTTCATATC
* * * * *
11559722 TCATATTAATATTCAATTGATAAAATACTATTTAGATAAATATTGAATTAAATTT
1 TCATATTAATATTAAATTAATAAAATAATATCTAGATAAATATTAAATTAAATTT
11559777 AATTTTAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
TCATATTAATATTAAATTAATAAAATAATATCTAGATAAATATTAAATTAAATTTCATATC
Found at i:11561040 original size:3 final size:3
Alignment explanation
Indices: 11561032--11561072 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11561022 GAGTATTAAA
11561032 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
11561073 AATAATAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:11561077 original size:3 final size:3
Alignment explanation
Indices: 11561071--11561105 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
11561061 GATGATGATG
11561071 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA A
11561106 GTAGGTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11561499 original size:23 final size:23
Alignment explanation
Indices: 11561473--11561516 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11561463 TAAATATTAT
*
11561473 TTTATTAATGTTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
11561496 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
11561517 AAATGGTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:11562537 original size:26 final size:26
Alignment explanation
Indices: 11562501--11562552 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11562491 TACTAAGAGA
11562501 TAATTAATTTTTAGTAAAGAAATGTC
1 TAATTAATTTTTAGTAAAGAAATGTC
11562527 TAATTAATTTTTAGTAAAGAAATGTC
1 TAATTAATTTTTAGTAAAGAAATGTC
11562553 GAAGTCATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (26 bp):
TAATTAATTTTTAGTAAAGAAATGTC
Found at i:11576276 original size:46 final size:46
Alignment explanation
Indices: 11576209--11576300 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
11576199 GCTTCCAGTC
*
11576209 CTGTCTTCAGATAAGAAGGTTGTCATTAGGAAACCCATAATCCATT
1 CTGTCTTCAGATAAGAAGGTTGTAATTAGGAAACCCATAATCCATT
11576255 CTGTCTTCAGATAAGAAGGTTGTAATTAGGAAACCCATAATCCATT
1 CTGTCTTCAGATAAGAAGGTTGTAATTAGGAAACCCATAATCCATT
11576301 TACTTATGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (46 bp):
CTGTCTTCAGATAAGAAGGTTGTAATTAGGAAACCCATAATCCATT
Found at i:11579256 original size:29 final size:27
Alignment explanation
Indices: 11579204--11579272 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 27
11579194 AAAAAATTTC
11579204 AATAAAAAT-ATATAAAATTATTAAATA
1 AATAAAAATAATATAAAATTATTAAA-A
*
11579231 TTAATTAAAATAATAT-AAA-TATTTAAAA
1 --AATAAAAATAATATAAAATTA-TTAAAA
11579259 AATAAAAATAATAT
1 AATAAAAATAATAT
11579273 GGTTTAACCT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
26 13 0.36
28 3 0.08
29 16 0.44
30 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
AATAAAAATAATATAAAATTATTAAAA
Found at i:11579267 original size:17 final size:18
Alignment explanation
Indices: 11579204--11579268 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
11579194 AAAAAATTTC
*
11579204 AATAAAAATATATAAAATT
1 AATAAAAATATTTAAAA-T
* * *
11579223 ATTAAATATTAATTAAAAT
1 AATAAA-AATATTTAAAAT
*
11579242 AATATAAATATTTAAAA-
1 AATAAAAATATTTAAAAT
11579259 AATAAAAATA
1 AATAAAAATA
11579269 ATATGGTTTA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
17 9 0.25
18 9 0.25
19 10 0.28
20 8 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAAAAATATTTAAAAT
Found at i:11580236 original size:258 final size:258
Alignment explanation
Indices: 11579779--11580300 Score: 1008
Period size: 258 Copynumber: 2.0 Consensus size: 258
11579769 GTGGGGCATA
*
11579779 TTTTGTGTAACTTAGAAACTTACTAAGTTCATTCGAACTTACAAGGGTATGACTTGTGACTACAG
1 TTTTGTGTAACTTAGAAACTTACTAAGTTCATTCGAACTTACAAGGGTATGACTTGTGACTACAA
11579844 GATTCATTGGATAAGGAGCTCGAGAAGGGACCAAGCTAGACCGTGTGAGATCAAGGAAATTCATC
66 GATTCATTGGATAAGGAGCTCGAGAAGGGACCAAGCTAGACCGTGTGAGATCAAGGAAATTCATC
11579909 TGGAAAGTGTAAGGCACATAAGGAAGGGGTACCGTTGAGACTTTGACAAAAGGCGAATATGTTGT
131 TGGAAAGTGTAAGGCACATAAGGAAGGGGTACCGTTGAGACTTTGACAAAAGGCGAATATGTTGT
11579974 AACAAAATAGTTTCATTAGGGTCTAAAGTCGAGACAACAAACTTTATTTAGTAATTTGGTCTC
196 AACAAAATAGTTTCATTAGGGTCTAAAGTCGAGACAACAAACTTTATTTAGTAATTTGGTCTC
*
11580037 TTTTGTGTAACTTAGAAACTTACTAAGTTCATTCGAACTTACAAGGGTATGACTTGTGATTACAA
1 TTTTGTGTAACTTAGAAACTTACTAAGTTCATTCGAACTTACAAGGGTATGACTTGTGACTACAA
*
11580102 GATTCATTGGATAAGGAGCTCGAGAAGGGACCAAGTTAGACCGTGTGAGATCAAGGAAATTCATC
66 GATTCATTGGATAAGGAGCTCGAGAAGGGACCAAGCTAGACCGTGTGAGATCAAGGAAATTCATC
11580167 TGGAAAGTGTAAGGCACATAAGGAAGGGGTACCGTTGAGACTTTGACAAAAGGCGAATATGTTGT
131 TGGAAAGTGTAAGGCACATAAGGAAGGGGTACCGTTGAGACTTTGACAAAAGGCGAATATGTTGT
*
11580232 AACAAAATAGTTTCATTCGGGTCTAAAGTCGAGACAACAAACTTTATTTAGTAATTTGGTCTC
196 AACAAAATAGTTTCATTAGGGTCTAAAGTCGAGACAACAAACTTTATTTAGTAATTTGGTCTC
11580295 TTTTGT
1 TTTTGT
11580301 AAGTTTTTTA
Statistics
Matches: 260, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
258 260 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (258 bp):
TTTTGTGTAACTTAGAAACTTACTAAGTTCATTCGAACTTACAAGGGTATGACTTGTGACTACAA
GATTCATTGGATAAGGAGCTCGAGAAGGGACCAAGCTAGACCGTGTGAGATCAAGGAAATTCATC
TGGAAAGTGTAAGGCACATAAGGAAGGGGTACCGTTGAGACTTTGACAAAAGGCGAATATGTTGT
AACAAAATAGTTTCATTAGGGTCTAAAGTCGAGACAACAAACTTTATTTAGTAATTTGGTCTC
Found at i:11584397 original size:24 final size:24
Alignment explanation
Indices: 11584344--11584398 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
11584334 TGTATAACAA
* *
11584344 GAAGCTCATGCGAGCCATAATTGG
1 GAAGCTCATGCGAGCAATAATAGG
11584368 GAAGCTCATGCGAGGCAATAA-AGG
1 GAAGCTCATGCGA-GCAATAATAGG
*
11584392 GTAGCTC
1 GAAGCTC
11584399 CGAAGAGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.18
Consensus pattern (24 bp):
GAAGCTCATGCGAGCAATAATAGG
Found at i:11584421 original size:24 final size:25
Alignment explanation
Indices: 11584385--11584496 Score: 63
Period size: 24 Copynumber: 4.6 Consensus size: 25
11584375 ATGCGAGGCA
* *
11584385 ATAAAGGGTAGCTCCGAAGAGCCAT
1 ATAACGGGAAGCTCCGAAGAGCCAT
* * * *
11584410 -TAACGGGAAGCTTCGGATAGCTAT
1 ATAACGGGAAGCTCCGAAGAGCCAT
* * *
11584434 ATATCAGGAAG-TTC-AAGTGAGCC--
1 ATAACGGGAAGCTCCGAA--GAGCCAT
*
11584457 ATAACGGGAAGCTCACAAAGAGCCAT
1 ATAACGGGAAGCTC-CGAAGAGCCAT
*
11584483 ATAACGGGACGCTC
1 ATAACGGGAAGCTC
11584497 ATAAGAGCTG
Statistics
Matches: 64, Mismatches: 15, Indels: 15
0.68 0.16 0.16
Matches are distributed among these distances:
23 10 0.16
24 27 0.42
25 12 0.19
26 15 0.23
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.18
Consensus pattern (25 bp):
ATAACGGGAAGCTCCGAAGAGCCAT
Found at i:11589844 original size:75 final size:75
Alignment explanation
Indices: 11589667--11589862 Score: 317
Period size: 75 Copynumber: 2.6 Consensus size: 75
11589657 TAAAATTGGA
*
11589667 AAAGCCCTTCCTTGTCAATTGGAATGTTTTATGTCCTCAACTGAAAATCCTTTTTATGCTCAAAA
1 AAAGTCCTTCCTTGTCAATTGGAATGTTTTATGTCCTCAACTGAAAATCCTTTTTATGCTCAAAA
11589732 TAAGAAGAAG
66 TAAGAAGAAG
* * *
11589742 -AAGTCCTTCCTTGTCAATTGGAGTGTTTTATGTCCTCAATTGAAAA-CTTTTTTATGCTCAAAA
1 AAAGTCCTTCCTTGTCAATTGGAATGTTTTATGTCCTCAACTGAAAATCCTTTTTATGCTCAAAA
11589805 TCAGAGAA-AAG
66 T-A-AGAAGAAG
11589816 AAAGTCCTTCCTTGTCAATTGGAATGTTTTATGTCCTCAACTGAAAA
1 AAAGTCCTTCCTTGTCAATTGGAATGTTTTATGTCCTCAACTGAAAA
11589863 AATAAATCTC
Statistics
Matches: 112, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
73 17 0.15
74 47 0.42
75 48 0.43
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (75 bp):
AAAGTCCTTCCTTGTCAATTGGAATGTTTTATGTCCTCAACTGAAAATCCTTTTTATGCTCAAAA
TAAGAAGAAG
Found at i:11597203 original size:24 final size:24
Alignment explanation
Indices: 11597158--11597275 Score: 83
Period size: 24 Copynumber: 4.9 Consensus size: 24
11597148 GACACACCAC
* * * *
11597158 AGCTCGCAAGAGCGTCCTGATAAT
1 AGCTCTCATGAGCATCCCGATAAT
* *
11597182 AACTCTCATGAGCATCCCGATATT
1 AGCTCTCATGAGCATCCCGATAAT
* * **
11597206 AGCTCTCTTGAGCTTCCTAATATAT
1 AGCTCTCATGAGCATCCCGATA-AT
* * * *
11597231 GGCTCTCACGAGCTTCCCGTTAAT
1 AGCTCTCATGAGCATCCCGATAAT
* *
11597255 AGCTCTTATGAGTATCCCGAT
1 AGCTCTCATGAGCATCCCGAT
11597276 TTGGTTGTGA
Statistics
Matches: 69, Mismatches: 24, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
24 52 0.75
25 17 0.25
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (24 bp):
AGCTCTCATGAGCATCCCGATAAT
Found at i:11603070 original size:18 final size:19
Alignment explanation
Indices: 11603033--11603071 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
11603023 TTTTTGTCAC
* *
11603033 AATATATTTTGAAATTAAA
1 AATATATGTTGAAATGAAA
11603052 AATATATGTT-AAATGAAA
1 AATATATGTTGAAATGAAA
11603070 AA
1 AA
11603072 AAAAGTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (19 bp):
AATATATGTTGAAATGAAA
Found at i:11605160 original size:19 final size:20
Alignment explanation
Indices: 11605133--11605173 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
11605123 CCTCCCAAAC
*
11605133 AAAACTTTTACTT-CCCCTA
1 AAAAATTTTACTTCCCCCTA
11605152 AAAAATTTTACTTCCCCCTA
1 AAAAATTTTACTTCCCCCTA
11605172 AA
1 AA
11605174 CCCCCAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTTTACTTCCCCCTA
Found at i:11605261 original size:52 final size:55
Alignment explanation
Indices: 11605152--11605287 Score: 174
Period size: 53 Copynumber: 2.5 Consensus size: 55
11605142 ACTTCCCCTA
* * * *
11605152 AAAAATTTTACTTCCCCCTAAACCCC--CAATTTTTTTCTTTTTTACTTTCTCCCC
1 AAAACTTTTACTTCCACC-AAACCCCAAAAATATTTTTCTTTTTTACTTTCTCCCC
*
11605206 AAAACTTTTACTT-CTCCAAACCCCAAAAATATTTTTC-TTTTTACTTT-TCCCC
1 AAAACTTTTACTTCCACCAAACCCCAAAAATATTTTTCTTTTTTACTTTCTCCCC
*
11605258 AAAACTTTTACTTCCACCAAACCTCAAAAA
1 AAAACTTTTACTTCCACCAAACCCCAAAAA
11605288 CTTTTTTTTG
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
52 25 0.34
53 27 0.37
54 21 0.29
ACGTcount: A:0.30, C:0.31, G:0.00, T:0.39
Consensus pattern (55 bp):
AAAACTTTTACTTCCACCAAACCCCAAAAATATTTTTCTTTTTTACTTTCTCCCC
Found at i:11612000 original size:15 final size:15
Alignment explanation
Indices: 11611982--11612012 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11611972 CCACATATAA
*
11611982 TTCATACACACGCAT
1 TTCATACACAAGCAT
11611997 TTCATACACAAGCAT
1 TTCATACACAAGCAT
11612012 T
1 T
11612013 CAACCAATAC
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:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (15 bp):
TTCATACACAAGCAT
Found at i:11614462 original size:19 final size:19
Alignment explanation
Indices: 11614438--11614474 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11614428 TTTTATGATT
11614438 TTTTAAATAA-TTTTATAAG
1 TTTT-AATAAGTTTTATAAG
11614457 TTTTAATAAGTTTTATAA
1 TTTTAATAAGTTTTATAA
11614475 ATTTATGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTTAATAAGTTTTATAAG
Found at i:11618500 original size:2 final size:2
Alignment explanation
Indices: 11618493--11618542 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
11618483 ACATGTAAAC
11618493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11618535 AT AT AT AT
1 AT AT AT AT
11618543 CTATGAACTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11624439 original size:38 final size:39
Alignment explanation
Indices: 11624388--11624468 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
11624378 TTTTGCCTTC
11624388 AATTTAGTCCCTACAATAT-AAAAAACCATAAAAGCCCA
1 AATTTAGTCCCTACAATATAAAAAAACCATAAAAGCCCA
11624426 AATTTAGTCCCTACAATATAAAAAAACCATAAAAGCCCA
1 AATTTAGTCCCTACAATATAAAAAAACCATAAAAGCCCA
11624465 AATT
1 AATT
11624469 AGTAGGATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 19 0.45
39 23 0.55
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (39 bp):
AATTTAGTCCCTACAATATAAAAAAACCATAAAAGCCCA
Found at i:11625826 original size:9 final size:9
Alignment explanation
Indices: 11625812--11625836 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11625802 ATTAACATGT
11625812 AAGAAAATA
1 AAGAAAATA
11625821 AAGAAAATA
1 AAGAAAATA
11625830 AAGAAAA
1 AAGAAAA
11625837 AAATTGGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (9 bp):
AAGAAAATA
Found at i:11636723 original size:12 final size:12
Alignment explanation
Indices: 11636690--11636725 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
11636680 TTCTCTATAA
*
11636690 AAATTACAAAAT
1 AAATTTCAAAAT
11636702 AAATTT-AAAAT
1 AAATTTCAAAAT
11636713 AAATTTCAAAAT
1 AAATTTCAAAAT
11636725 A
1 A
11636726 TTTATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATTTCAAAAT
Found at i:11636800 original size:21 final size:20
Alignment explanation
Indices: 11636754--11636801 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
11636744 TTTATCTTTA
*
11636754 TTAAAAAAATTATAAAAAAT
1 TTAAAAAAATTATAAAAAAG
11636774 TCTAAAAAAGA-TATAAAGAAAG
1 T-TAAAAAA-ATTATAAA-AAAG
11636796 TTAAAA
1 TTAAAA
11636802 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 18 0.75
22 5 0.21
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
TTAAAAAAATTATAAAAAAG
Found at i:11647344 original size:29 final size:31
Alignment explanation
Indices: 11647319--11647376 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
11647309 TGTTTTTCTA
*
11647319 ATAAATGGCCCAATAT-TTT-TACTTTTTAC
1 ATAAATGACCCAATATGTTTATACTTTTTAC
*
11647348 GTAAATGACCCAATATGTTTATACTTTTT
1 ATAAATGACCCAATATGTTTATACTTTTT
11647377 CTCCATCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.56
30 3 0.12
31 8 0.32
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.45
Consensus pattern (31 bp):
ATAAATGACCCAATATGTTTATACTTTTTAC
Found at i:11648932 original size:19 final size:20
Alignment explanation
Indices: 11648910--11648947 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11648900 AAATGATTGC
11648910 AAAAT-GAAAAAATTTTAAA
1 AAAATAGAAAAAATTTTAAA
* *
11648929 AAAATAGTAAAAGTTTTAA
1 AAAATAGAAAAAATTTTAA
11648948 TATATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (20 bp):
AAAATAGAAAAAATTTTAAA
Found at i:11650628 original size:31 final size:31
Alignment explanation
Indices: 11650593--11650653 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
11650583 GAAGGGTAAG
11650593 GTGAGACCTGCTGACAAGTAGCGAACAATCA
1 GTGAGACCTGCTGACAAGTAGCGAACAATCA
11650624 GTGAGACCTGCTGACAAGTAGCGAACAATC
1 GTGAGACCTGCTGACAAGTAGCGAACAATC
11650654 TCAATTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.16
Consensus pattern (31 bp):
GTGAGACCTGCTGACAAGTAGCGAACAATCA
Found at i:11651455 original size:14 final size:14
Alignment explanation
Indices: 11651436--11651466 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11651426 TGATGAAGAT
11651436 TGAATAGAAAGAAA
1 TGAATAGAAAGAAA
*
11651450 TGAATAGATAGAAA
1 TGAATAGAAAGAAA
11651464 TGA
1 TGA
11651467 CTTAATAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.23, T:0.19
Consensus pattern (14 bp):
TGAATAGAAAGAAA
Found at i:11655692 original size:42 final size:42
Alignment explanation
Indices: 11655646--11655728 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
11655636 ACGACCAAAC
*
11655646 CACACACCCGTGTGCATGGTCGTGTGTCACACACGACTGAGA
1 CACACACCCGTGTGCATGGCCGTGTGTCACACACGACTGAGA
* * *
11655688 CACACACTCGTGTGCATGGCCGTGTGTGACACACGGCTGAG
1 CACACACCCGTGTGCATGGCCGTGTGTCACACACGACTGAG
11655729 GGACATGCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.30, G:0.29, T:0.19
Consensus pattern (42 bp):
CACACACCCGTGTGCATGGCCGTGTGTCACACACGACTGAGA
Found at i:11668332 original size:20 final size:20
Alignment explanation
Indices: 11668303--11668354 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
11668293 GGTAGTACAA
*
11668303 CAGAATAGAACAGAACAAAG
1 CAGAACAGAACAGAACAAAG
* *
11668323 CAGAGCAGAATAGAACAAAG
1 CAGAACAGAACAGAACAAAG
11668343 CAGAACAGAACA
1 CAGAACAGAACA
11668355 ACAAATGTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.58, C:0.17, G:0.21, T:0.04
Consensus pattern (20 bp):
CAGAACAGAACAGAACAAAG
Found at i:11668344 original size:15 final size:15
Alignment explanation
Indices: 11668313--11668355 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11668303 CAGAATAGAA
*
11668313 CAGAACA-AAGCAGAG
1 CAGAACAGAA-CAAAG
*
11668328 CAGAATAGAACAAAG
1 CAGAACAGAACAAAG
11668343 CAGAACAGAACAA
1 CAGAACAGAACAA
11668356 CAAATGTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 22 0.92
16 2 0.08
ACGTcount: A:0.58, C:0.19, G:0.21, T:0.02
Consensus pattern (15 bp):
CAGAACAGAACAAAG
Found at i:11674181 original size:32 final size:32
Alignment explanation
Indices: 11674145--11674205 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
11674135 ACTTTTAAAC
11674145 TGAAATTGCTAATTATATTGCATCATCACAAT
1 TGAAATTGCTAATTATATTGCATCATCACAAT
*
11674177 TGAAATTGTTAATTATATTGCATCATCAC
1 TGAAATTGCTAATTATATTGCATCATCAC
11674206 TCATTAACAT
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:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (32 bp):
TGAAATTGCTAATTATATTGCATCATCACAAT
Found at i:11677355 original size:56 final size:50
Alignment explanation
Indices: 11677259--11677545 Score: 290
Period size: 50 Copynumber: 5.6 Consensus size: 50
11677249 ATTTGGGTAA
* *
11677259 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
*
11677315 AGAGGTCCCATGTAAGACCATGTCTGGGACTTGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
11677365 AAAGGTCCCATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
11677415 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * * * *
11677465 AGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATG
* ** *
11677514 AAACATCCCATGTAAGACTATGTCTGGGACAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACAT
11677546 AGTTTTGGTA
Statistics
Matches: 199, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
49 29 0.15
50 126 0.63
53 3 0.02
55 1 0.01
56 40 0.20
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:11682727 original size:51 final size:51
Alignment explanation
Indices: 11682655--11682854 Score: 219
Period size: 51 Copynumber: 3.9 Consensus size: 51
11682645 TTAATGATAC
* * * *
11682655 CGGTTCACATAGTAGCTTGCACATAGTACTACACATGTGACCATCACTATT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATT
* * * *
11682706 CGATACACGTAGTAGCCTGCACATAGTACCACACACGTGATCGA--AGCTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATT
* * * *
11682757 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATT
* *
11682807 TGGTACACGTAGTAGCCTGCACATAGCACTACACACGTGACCATCACT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
11682855 TTCACTTTCA
Statistics
Matches: 121, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
49 4 0.03
50 40 0.33
51 74 0.61
52 2 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATT
Found at i:11682870 original size:101 final size:102
Alignment explanation
Indices: 11682654--11682846 Score: 282
Period size: 102 Copynumber: 1.9 Consensus size: 102
11682644 ATTAATGATA
* *
11682654 CCGGTTCACATAGTAGCTTGCACATAGTACTACACATGTGACCATCACTATTCGATACACGTAGT
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATTCGATACACGTAGT
* *
11682719 AGCCTGCACATAGTACCACACACGTGATCGAAGCTAT
66 AGCCTGCACATAGCACCACACACGTGATCCAAGCTAT
* * * *
11682756 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TTTGGTACACGTAG
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATTCGATACACGTAG
*
11682819 TAGCCTGCACATAGCACTACACACGTGA
65 TAGCCTGCACATAGCACCACACACGTGA
11682847 CCATCACTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 38 0.46
102 40 0.49
103 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (102 bp):
CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATTCGATACACGTAGT
AGCCTGCACATAGCACCACACACGTGATCCAAGCTAT
Found at i:11685115 original size:27 final size:27
Alignment explanation
Indices: 11685047--11685120 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
11685037 AACATGTCAA
* * *
11685047 AAAAGAGTAGCCTTCATGGCGAAGCCT
1 AAAAGAATAGCCTTTATGGCAAAGCCT
* * *
11685074 AAAAGAATAACCTTTTTGGCAAAGTCT
1 AAAAGAATAGCCTTTATGGCAAAGCCT
*
11685101 AAAAGAATAGCCTTTGTGGC
1 AAAAGAATAGCCTTTATGGC
11685121 GTATTACGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (27 bp):
AAAAGAATAGCCTTTATGGCAAAGCCT
Found at i:11688147 original size:23 final size:21
Alignment explanation
Indices: 11688121--11688183 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
11688111 TTAAAAACCC
* *
11688121 TAAATTTTAAGCCTTAATTATAT
1 TAAATTCTAAACCTTAA--ATAT
*
11688144 TAAACTCTAAACCTTAAATAT
1 TAAATTCTAAACCTTAAATAT
* *
11688165 TAAATACTAAATCTTAAAT
1 TAAATTCTAAACCTTAAAT
11688184 GTATCTAACC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 20 0.59
23 14 0.41
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAACCTTAAATAT
Found at i:11688797 original size:2 final size:2
Alignment explanation
Indices: 11688790--11688822 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11688780 ATAATGGTTA
11688790 AT AT AT AT 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 AT AT AT AT A
11688823 AACATTTCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11695366 original size:13 final size:12
Alignment explanation
Indices: 11695340--11695378 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
11695330 AAAATAAGGG
11695340 AGAAGGAGAAAGA
1 AGAA-GAGAAAGA
11695353 AGAAGAGAAGAGA
1 AGAAGAGAA-AGA
11695366 AGAAGATGAAAGA
1 AGAAGA-GAAAGA
11695379 TAGAGAAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.21
13 16 0.67
14 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.03
Consensus pattern (12 bp):
AGAAGAGAAAGA
Found at i:11700311 original size:26 final size:25
Alignment explanation
Indices: 11700261--11700313 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
11700251 AAGGGAGAAG
* *
11700261 GAGAAAGAAAAAGAGAACTTTTAGA
1 GAGAAAGAAAAAGAGAACATATAGA
11700286 GAGAAGAGAAAAAGATGAA-ATATAGA
1 GAGAA-AGAAAAAGA-GAACATATAGA
11700312 GA
1 GA
11700314 AGCTAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.21
26 16 0.67
27 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.26, T:0.13
Consensus pattern (25 bp):
GAGAAAGAAAAAGAGAACATATAGA
Found at i:11712990 original size:11 final size:11
Alignment explanation
Indices: 11712974--11713003 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
11712964 TTTAGAATAA
11712974 TAGGTGGAGTC
1 TAGGTGGAGTC
11712985 TAGGTGGAGTC
1 TAGGTGGAGTC
11712996 TAGGTGGA
1 TAGGTGGA
11713004 TTCTTTCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.47, T:0.27
Consensus pattern (11 bp):
TAGGTGGAGTC
Found at i:11715814 original size:98 final size:98
Alignment explanation
Indices: 11715642--11715836 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
11715632 ACAATAAAAT
*
11715642 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATTCC
* *
11715707 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGAAATATTTCCTTTAC
*
11715740 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATTCC
*
11715805 TTTAAAATCCCAAACTCGAAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGAAATATTTCCTTTA
11715837 TTGTTTTTAG
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGACACAATTCC
TCTAAAATCCCAAACTCGAAATATTTCCTTTAC
Found at i:11717310 original size:19 final size:19
Alignment explanation
Indices: 11717286--11717358 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
11717276 AATCATATAT
11717286 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
11717305 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
11717324 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11717343 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
11717359 CTCAAAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11719611 original size:6 final size:6
Alignment explanation
Indices: 11719602--11719636 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
11719592 TTTTTTTCAT
11719602 TTTTTG TTTTTG TTTTTG TTTTTG TTTTT- TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
11719637 AATCTGAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:11723773 original size:96 final size:96
Alignment explanation
Indices: 11723631--11723820 Score: 319
Period size: 96 Copynumber: 2.0 Consensus size: 96
11723621 ACAATAATAT
* * *
11723631 TTTAAAAGAACATCCACTTATCTAATATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
11723696 TCTAGAATCCCAAACTCGGAATATTCCCTTAC
66 T-TAAAATCCCAAACTCGGAATATTCCCTTAC
11723728 TTTAAAAG-ACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
11723792 TTAAAATCCCAAACTCGGAATATTTCCTT
66 TTAAAATCCCAAACTCGGAATATTCCCTT
11723821 TANNNNNNNN
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 26 0.30
96 54 0.61
97 8 0.09
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (96 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TTAAAATCCCAAACTCGGAATATTCCCTTAC
Found at i:11725307 original size:19 final size:19
Alignment explanation
Indices: 11725283--11725374 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
11725273 AATCATATAT
*
11725283 TCTAAGATTGCAGATCATA
1 TCTAAGATTGCATATCATA
**
11725302 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
11725321 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11725340 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11725359 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
11725375 CTCAAAAATT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 66 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11725371 original size:38 final size:38
Alignment explanation
Indices: 11725260--11725374 Score: 149
Period size: 38 Copynumber: 2.9 Consensus size: 38
11725250 AAATTAAATC
* *
11725260 TCTAAGATTACAAAATCATATATTCTAAGATTGCAGATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATA
*
11725302 TCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
11725340 TCTAGGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
11725375 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 50 0.75
39 3 0.04
41 4 0.06
42 10 0.15
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:11731664 original size:56 final size:56
Alignment explanation
Indices: 11731600--11731706 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 56
11731590 ATTTGGCTTC
* *
11731600 TGAGCATGAAAGGTATGCAAGTCTTTTTTATTAGTTT-TTCTACCTGCTTTAAATGT
1 TGAGCATGAAAGGTATGCAAGTCTTTCTAATT-GTTTCTTCTACCTGCTTTAAATGT
11731656 TGAGCATGAAAGGTATGCAAGTCTTTCTAATTGTTTCTTCTACCTGCTTTA
1 TGAGCATGAAAGGTATGCAAGTCTTTCTAATTGTTTCTTCTACCTGCTTTA
11731707 TGTGGATGCT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
55 4 0.08
56 44 0.92
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (56 bp):
TGAGCATGAAAGGTATGCAAGTCTTTCTAATTGTTTCTTCTACCTGCTTTAAATGT
Found at i:11736348 original size:5 final size:5
Alignment explanation
Indices: 11736338--11736369 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
11736328 GAGAGAGACC
11736338 TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TG
1 TGGAT TGGAT TGGAT TGGAT TGGAT TGGAT TG
11736370 AAGGAAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.41
Consensus pattern (5 bp):
TGGAT
Found at i:11737396 original size:16 final size:16
Alignment explanation
Indices: 11737361--11737430 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
11737351 TTTGGTTCAC
* * *
11737361 TGTAATAGAATAGGGC
1 TGTAATTGAATAGAGT
11737377 TGTAATTGAATAGAGT
1 TGTAATTGAATAGAGT
*
11737393 TGTAA-TGAAATAAAGT
1 TGTAATTG-AATAGAGT
*
11737409 TGTAATGGAATAGAGT
1 TGTAATTGAATAGAGT
11737425 TGTAAT
1 TGTAAT
11737431 CAGTAATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
15 2 0.04
16 43 0.93
17 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.26, T:0.33
Consensus pattern (16 bp):
TGTAATTGAATAGAGT
Found at i:11737652 original size:20 final size:20
Alignment explanation
Indices: 11737627--11737666 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11737617 ATTTAATCAT
11737627 TTTTTAACATAATTATTATA
1 TTTTTAACATAATTATTATA
*
11737647 TTTTTAATATAATTATTATA
1 TTTTTAACATAATTATTATA
11737667 ATATGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTTAACATAATTATTATA
Found at i:11741441 original size:2 final size:2
Alignment explanation
Indices: 11741360--11741421 Score: 74
Period size: 2 Copynumber: 32.0 Consensus size: 2
11741350 GGAGTTAGTA
** * *
11741360 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GC GT GT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11741401 AT AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
11741422 GAGTGTGGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11741729 original size:5 final size:5
Alignment explanation
Indices: 11741719--11741744 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11741709 TGAGCATTCG
11741719 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
11741745 AATTTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:11742236 original size:17 final size:18
Alignment explanation
Indices: 11742198--11742240 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
11742188 CAATTTTAAT
11742198 ATAAAT-ATTCAATATGAC
1 ATAAATAATTCAATA-GAC
11742216 -TAAATAATTCAATA-AC
1 ATAAATAATTCAATAGAC
11742232 ATAAATAAT
1 ATAAATAAT
11742241 ATAAAATGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.09
17 13 0.57
18 8 0.35
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (18 bp):
ATAAATAATTCAATAGAC
Found at i:11742385 original size:18 final size:19
Alignment explanation
Indices: 11742351--11742387 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11742341 TTGAGAGTAC
*
11742351 AGGGTGAAAAGTAAAAGTT
1 AGGGGGAAAAGTAAAAGTT
11742370 AGGGGGAAAA-TAAAAGTT
1 AGGGGGAAAAGTAAAAGTT
11742388 TTGAGGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.32, T:0.19
Consensus pattern (19 bp):
AGGGGGAAAAGTAAAAGTT
Found at i:11742411 original size:16 final size:16
Alignment explanation
Indices: 11742378--11742408 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11742368 TTAGGGGGAA
11742378 AATAAAAGTTTTGAGG
1 AATAAAAGTTTTGAGG
11742394 AATAAAAG-TTTGAGG
1 AATAAAAGTTTTGAGG
11742409 GAAAGTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (16 bp):
AATAAAAGTTTTGAGG
Found at i:11742561 original size:14 final size:14
Alignment explanation
Indices: 11742542--11742587 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
11742532 TTTTGAGGGT
11742542 TTTTGAGAGTAAAA
1 TTTTGAGAGTAAAA
11742556 TTTTGAGA--AAAA
1 TTTTGAGAGTAAAA
*
11742568 TATTTGGGAGTAAAA
1 T-TTTGAGAGTAAAA
11742583 TTTTG
1 TTTTG
11742588 GTGGGAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 12 0.43
15 5 0.18
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (14 bp):
TTTTGAGAGTAAAA
Found at i:11742749 original size:9 final size:9
Alignment explanation
Indices: 11742735--11742771 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11742725 TATAGTTTGA
11742735 TATTCGAAT
1 TATTCGAAT
11742744 TATTCGAAT
1 TATTCGAAT
*
11742753 TATTCGAGT
1 TATTCGAAT
11742762 TATTCGAAT
1 TATTCGAAT
11742771 T
1 T
11742772 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11753062 original size:17 final size:17
Alignment explanation
Indices: 11753037--11753070 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11753027 ACACAGTTAT
11753037 CCTACTCATAAGGCCTA
1 CCTACTCATAAGGCCTA
*
11753054 CCTATTCATAAGGCCTA
1 CCTACTCATAAGGCCTA
11753071 TGAGAAAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (17 bp):
CCTACTCATAAGGCCTA
Found at i:11753903 original size:27 final size:26
Alignment explanation
Indices: 11753873--11753930 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
11753863 CCGTGTTGAT
11753873 TGTCCCAGTGGACTACCCTGTATTTAG
1 TGTCCCAGTGGACTACCC-GTATTTAG
*** * *
11753900 TGTCTTGGTGGACTACTCGTGTTTAG
1 TGTCCCAGTGGACTACCCGTATTTAG
11753926 TGTCC
1 TGTCC
11753931 TGACGAACTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (26 bp):
TGTCCCAGTGGACTACCCGTATTTAG
Found at i:11756659 original size:20 final size:20
Alignment explanation
Indices: 11756634--11756671 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11756624 TGATTCTTTG
11756634 TTTTTTAA-TAATTATTTAAT
1 TTTTTTAATTAATT-TTTAAT
11756654 TTTTTTAATTAATTTTTA
1 TTTTTTAATTAATTTTTA
11756672 CCGACATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTAATTAATTTTTAAT
Found at i:11756779 original size:40 final size:41
Alignment explanation
Indices: 11756718--11756829 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 41
11756708 CATGTCAACA
* * * *
11756718 TTTAATTAATTTTTATAATTTTAAAAAT-ATTTTTGTA-CTT
1 TTTAAATAATTTTAAT-ATTTTAAAAATAATTTTTATATATT
11756758 TTTAAATAATTTTAATGATTTTTAAAAATAATTTTTATATATT
1 TTTAAATAATTTTAAT-A-TTTTAAAAATAATTTTTATATATT
11756801 TTTAAAT--TTTTAA-ATTTTAAAAATTAATT
1 TTTAAATAATTTTAATATTTTAAAAA-TAATT
11756830 AAATGTTGAC
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
38 9 0.14
39 6 0.10
40 15 0.24
41 16 0.25
42 8 0.13
43 9 0.14
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (41 bp):
TTTAAATAATTTTAATATTTTAAAAATAATTTTTATATATT
Found at i:11756789 original size:22 final size:23
Alignment explanation
Indices: 11756724--11756806 Score: 83
Period size: 20 Copynumber: 3.9 Consensus size: 23
11756714 AACATTTAAT
11756724 TAATTTTTATA-A-TTTTAAAAA
1 TAATTTTTATATATTTTTAAAAA
* *
11756745 T-ATTTTTGTA-CTTTTT--AAA
1 TAATTTTTATATATTTTTAAAAA
11756764 TAA-TTTTA-ATGATTTTTAAAAA
1 TAATTTTTATAT-ATTTTTAAAAA
11756786 TAATTTTTATATATTTTTAAA
1 TAATTTTTATATATTTTTAAA
11756807 TTTTTAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
18 1 0.02
19 8 0.16
20 14 0.28
21 5 0.10
22 6 0.12
23 14 0.28
24 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (23 bp):
TAATTTTTATATATTTTTAAAAA
Found at i:11774151 original size:174 final size:173
Alignment explanation
Indices: 11773862--11774538 Score: 879
Period size: 174 Copynumber: 3.9 Consensus size: 173
11773852 GCTGGCTCAA
* * *
11773862 AGGACACTGTAGTTTTAAGAGTGGAACCTCTTCGTGAATTTGAAGGAGAGTCCA-TTGTCTTATG
1 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCGTGAATTT---GGAGAG-GCAGTTGTCCTATG
* * ** * *
11773926 AGAAAAACCAGTGCTTGAATGAGTCTTTGAACTTGTTTCCGGAAGATCTTCATCAGAACCACTGT
62 AGAAAAACCA-TGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTAT
* * *
11773991 TTCCTGGACCTAAATATGGCATGGGGTCAGAAACTACCTTTGATTCAG
126 TTCCTGGACCAAAATATGGCATGGGGTCAGAAACTAGCTTCGATTCAG
* *
11774039 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCTTGCATTTGGAGAGGCAGTTGTCCTATGAGAA
1 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCGTGAATTTGGAGAGGCAGTTGTCCTATGAG-A
* *
11774104 AAAATCATGCGTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
65 AAAACCATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
** *
11774169 TGGACCAAAATGCGGCATGGGGTCAAAAACTAGCTTCGATTCAG
130 TGGACCAAAATATGGCATGGGGTCAGAAACTAGCTTCGATTCAG
*
11774213 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCGTGCATTTGGAGAGGCAGTTGTCCTATGAGAA
1 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCGTGAATTTGGAGAGGCAGTTGTCCTATGAG-A
***
11774278 AAAATTGTGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
65 AAAACCATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
* * * *
11774343 TGGACCAAAATATGGTATGGGGTTAGAAACTAGCGTCGATTCGG
130 TGGACCAAAATATGGCATGGGGTCAGAAACTAGCTTCGATTCAG
* * * * * * * * *
11774387 AGGAAACTGCAGCTTTAACAGTGGAACCTTTTCCTGAATTCGGGGAGGCAGTTGTCTTGTGAGAA
1 AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCGTGAATTTGGAGAGGCAGTTGTCCTATGAGAA
* * * * *
11774452 AAACCAATGCTTGTATGAACCTTTGAACCTGTTTTAGGAAGATCTTCATCGGAATCACTATTTCC
66 AAACC-ATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCC
* * *
11774517 TGAATCAAAATATGCCATGGGG
130 TGGACCAAAATATGGCATGGGG
11774539 ACCCTTGAGG
Statistics
Matches: 445, Mismatches: 52, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
173 7 0.02
174 393 0.88
175 7 0.02
177 38 0.09
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (173 bp):
AGGAAACTGTAGTTTTAAGAGTGGAACCTCTTCGTGAATTTGGAGAGGCAGTTGTCCTATGAGAA
AAACCATGCTTGAACGAGCCTTTGAACTTGTTTTAGGAAGATCTTCATCAGAATCACTATTTCCT
GGACCAAAATATGGCATGGGGTCAGAAACTAGCTTCGATTCAG
Found at i:11779866 original size:23 final size:23
Alignment explanation
Indices: 11779827--11779874 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11779817 ACATTTAATT
*
11779827 ATATTATACATTGATTTAT-TGA
1 ATATTATACATTAATTTATATGA
*
11779849 ATATTAATGCATTAATTTATATGA
1 ATATT-ATACATTAATTTATATGA
11779873 AT
1 AT
11779875 TTTTCAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 12 0.55
24 5 0.23
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (23 bp):
ATATTATACATTAATTTATATGA
Found at i:11783130 original size:17 final size:17
Alignment explanation
Indices: 11783108--11783142 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11783098 ATGTAAATAT
*
11783108 AATATATTATTTATAAA
1 AATATAGTATTTATAAA
11783125 AATATAGTATTTATAAA
1 AATATAGTATTTATAAA
11783142 A
1 A
11783143 TCTTAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AATATAGTATTTATAAA
Found at i:11783596 original size:100 final size:101
Alignment explanation
Indices: 11783468--11783663 Score: 295
Period size: 100 Copynumber: 2.0 Consensus size: 101
11783458 TATTTTAGTT
* * * ** *
11783468 TTTAATGTCATATGTGTTATGTGCAAGAACATGAAATGTCCCAATCAATTGTTGAAGTAGAAAGT
1 TTTAATATCATATGTGTTACGTGCAAGAACATGAAATATCCCAATCAATCATTAAAGTAGAAAGT
11783533 GCATCCTCT-ATGAAAACATTTCCATGGCATATGTG
66 GCATCCTCTGATGAAAACATTTCCATGGCATATGTG
* * *
11783568 TTTAATATCATATGTGTTGCGTGTAAGAACATGAAATATCCCAATCCATCATTAAAGTAGAAAGT
1 TTTAATATCATATGTGTTACGTGCAAGAACATGAAATATCCCAATCAATCATTAAAGTAGAAAGT
*
11783633 GCATCCTCTGATGAAGACATTTCCATGGCAT
66 GCATCCTCTGATGAAAACATTTCCATGGCAT
11783664 GCTCGAAGAA
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 65 0.76
101 20 0.24
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (101 bp):
TTTAATATCATATGTGTTACGTGCAAGAACATGAAATATCCCAATCAATCATTAAAGTAGAAAGT
GCATCCTCTGATGAAAACATTTCCATGGCATATGTG
Found at i:11785850 original size:98 final size:96
Alignment explanation
Indices: 11785562--11785859 Score: 397
Period size: 98 Copynumber: 3.1 Consensus size: 96
11785552 TAAATAAGAG
* * * * *
11785562 ATTAGGGTTTAGGATTTCTTAATTAAATTAATTATAAATTTTT-CAAAATTAGATTAGGGTTTCA
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTT-A
* *
11785626 -TGTTTATAGTTTTTAAAGAAAAAT-AATTAA
65 GTGTTTAGAGTTTTTAAAGAAAAATCAAATAA
* * *
11785656 ATTAGGGTTTAGAGTTACTTGAGTAAATTAATTAAAAATTTTTAAAAAATCAGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAG
*
11785721 TGTTAATG-GTTTTTAAAGAAAAATCAAATAA
66 TGTTTA-GAGTTTTTAAAGAAAAATCAAATAA
*
11785752 ATTAGGGTCTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAAAATTAGATTAGGGTTT
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTT--AAAAAATTAGATTAGGGTTT
* * *
11785817 AGTGTTTAGAATTTTTAAGGAAAACTCAAATAA
64 AGTGTTTAGAGTTTTTAAAGAAAAATCAAATAA
11785850 ATTAGGGTTT
1 ATTAGGGTTT
11785860 GAGGTTTAGG
Statistics
Matches: 177, Mismatches: 20, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
94 38 0.21
95 38 0.21
96 45 0.25
97 1 0.01
98 55 0.31
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.40
Consensus pattern (96 bp):
ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAG
TGTTTAGAGTTTTTAAAGAAAAATCAAATAA
Found at i:11786071 original size:125 final size:126
Alignment explanation
Indices: 11785897--11786191 Score: 441
Period size: 126 Copynumber: 2.4 Consensus size: 126
11785887 TTTGTTAATT
* ** *
11785897 TAAAA-AAGCTCCCACGTGGACGCTCTTTTGCTATTGTAGCTCCTG-AAAAATAATTTCGAGAAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAG
* *
11785960 ACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAACAATAGTAC
66 ACGTTTCTGAGCAAATAGTGCCAAAAACGCTTTAAGCAGGATGCATTGTCAACAAAAGTAC
* * * * *
11786021 TAAAAGAAGCTCCCACATGAACGCGCTTTTGTTACAGTAGCTCTTGAAAAAATAATTTCAAGTAG
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAG
* * *
11786086 ACGTTTCTGAGCAAATAGTGCCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTAT
66 ACGTTTCTGAGCAAATAGTGCCAAAAACGCTTTAAGCAGGATGCATTGTCAACAAAAGTAC
*
11786147 TGAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCT
1 TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCT
11786192 ATTTGGCCTA
Statistics
Matches: 150, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
124 5 0.03
125 33 0.22
126 112 0.75
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (126 bp):
TAAAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAG
ACGTTTCTGAGCAAATAGTGCCAAAAACGCTTTAAGCAGGATGCATTGTCAACAAAAGTAC
Found at i:11789903 original size:19 final size:18
Alignment explanation
Indices: 11789876--11789919 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11789866 GACTAGAAAA
* *
11789876 AGGAAACATATAAAGGGTT
1 AGGATACATA-AAAGGGCT
*
11789895 AGGATACATAAAATGGCT
1 AGGATACATAAAAGGGCT
11789913 AGGATAC
1 AGGATAC
11789920 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:11790541 original size:7 final size:7
Alignment explanation
Indices: 11790529--11790553 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11790519 TATTAGTTAT
11790529 ATACATA
1 ATACATA
11790536 ATACATA
1 ATACATA
11790543 ATACATA
1 ATACATA
11790550 ATAC
1 ATAC
11790554 TAAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:11790559 original size:7 final size:7
Alignment explanation
Indices: 11790549--11790605 Score: 114
Period size: 7 Copynumber: 8.1 Consensus size: 7
11790539 CATAATACAT
11790549 AATACTA
1 AATACTA
11790556 AATACTA
1 AATACTA
11790563 AATACTA
1 AATACTA
11790570 AATACTA
1 AATACTA
11790577 AATACTA
1 AATACTA
11790584 AATACTA
1 AATACTA
11790591 AATACTA
1 AATACTA
11790598 AATACTA
1 AATACTA
11790605 A
1 A
11790606 TCGACTATCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Done.