Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 104 of 290
Found at i:35750524 original size:44 final size:44
Alignment explanation
Indices: 35750408--35750509 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
35750398 TATTGTTCAT
*
35750408 ATTTTATTATATATT-TT-ATT-TA-TACATTT-TATTATATATC
1 ATTTTATTATATATTATTCATTATATTA-TTTTATATTATATATC
*
35750448 ATTTTATTATATATTATTCATTATATTATTTTATATTATATAATT
1 ATTTTATTATATATTATTCATTATATTATTTTATATTATAT-ATC
*
35750493 A-TTTATTATTTATTATT
1 ATTTTATTATATATTATT
35750510 ATGTATAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
40 15 0.28
41 2 0.04
42 3 0.06
43 5 0.09
44 25 0.47
45 3 0.06
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (44 bp):
ATTTTATTATATATTATTCATTATATTATTTTATATTATATATC
Found at i:35750698 original size:17 final size:17
Alignment explanation
Indices: 35750647--35750698 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
35750637 ATTTTTATAA
35750647 ATATATATTAAGCTATTAT
1 ATATATATTAA-CTATT-T
*
35750666 ATCATATAGT-A-TATTT
1 AT-ATATATTAACTATTT
35750682 ATATATATTAACTATTT
1 ATATATATTAACTATTT
35750699 TTTTAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 6 0.21
16 4 0.14
17 9 0.32
19 3 0.11
20 6 0.21
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (17 bp):
ATATATATTAACTATTT
Found at i:35750868 original size:14 final size:14
Alignment explanation
Indices: 35750849--35750879 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
35750839 ATTTAATATT
35750849 ATTTTATTATGTAA
1 ATTTTATTATGTAA
*
35750863 ATTTTATTTTGTAA
1 ATTTTATTATGTAA
35750877 ATT
1 ATT
35750880 ATTTGTATTT
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:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
ATTTTATTATGTAA
Found at i:35754551 original size:2 final size:2
Alignment explanation
Indices: 35754544--35754602 Score: 82
Period size: 2 Copynumber: 29.5 Consensus size: 2
35754534 AAAATTACAA
*
35754544 AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * *
35754586 AA AG AA AG AG TG AG AG A
1 AG AG AG AG AG AG AG AG A
35754603 AAGAAAACCT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.47, T:0.02
Consensus pattern (2 bp):
AG
Found at i:35754595 original size:16 final size:16
Alignment explanation
Indices: 35754542--35754608 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 16
35754532 TTAAAATTAC
*
35754542 AAAGAGAGAGAGAGAG
1 AAAGAGAGAGAGAAAG
** *
35754558 AGGGAGAGAGAGAGAG
1 AAAGAGAGAGAGAAAG
*
35754574 AGAGAGAGAGAGAAAG
1 AAAGAGAGAGAGAAAG
*
35754590 AAAGAGTGAGAGAAAG
1 AAAGAGAGAGAGAAAG
35754606 AAA
1 AAA
35754609 ACCTGGAAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.55, C:0.00, G:0.43, T:0.01
Consensus pattern (16 bp):
AAAGAGAGAGAGAAAG
Found at i:35757803 original size:23 final size:23
Alignment explanation
Indices: 35757777--35757874 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
35757767 ATAAGTGCCA
35757777 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
35757800 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
35757823 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
35757845 CACTGAAATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
35757868 CACTGAT
1 CACTGAT
35757875 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:35757842 original size:45 final size:45
Alignment explanation
Indices: 35757784--35757872 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
35757774 CCACACTGAT
* *
35757784 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
*
35757829 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGTTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
35757873 ATCAATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:35765175 original size:23 final size:23
Alignment explanation
Indices: 35765149--35765246 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
35765139 ATAAGTGCCA
35765149 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
35765172 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
35765195 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
35765217 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
35765240 CACTGAT
1 CACTGAT
35765247 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:35765214 original size:45 final size:45
Alignment explanation
Indices: 35765156--35765244 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
35765146 CCACACTGAT
* *
35765156 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
35765201 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
35765245 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:35772769 original size:90 final size:90
Alignment explanation
Indices: 35772616--35773539 Score: 1265
Period size: 90 Copynumber: 10.5 Consensus size: 90
35772606 TCGAAGAAGT
* * * * * *
35772616 AGATTTGGCATCTCTGTATTAGGCAGGGAGTAGATCGAAGATATCATATCTGACATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
35772681 TACATCGAAGCAGATCGAAGATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* *
35772706 AGATTTGGCGTCTCCGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGGCATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
*
35772771 TACATCAAAGCAGATCGAAGATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* *
35772796 AGATTTGGCGTCTCTGTATTAGACGGGGAGCATATCGAAGATAGCAGATCTGGCATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
*
35772861 TAC-TCGAAGCATATCGAAGATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* *
35772885 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAAATCGAAGATAGCAGATCTGAGATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
*
35772950 TACAGCGAAGCAGATCGAAGATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* *
35772975 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAAATCGAAG--A-CAG--CAGACATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
*
35773035 TACATCGAAGTAGATCGAAGATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* * * *
35773060 AGATTTGGCGTCTCTATATTAGATGGGGAGCAAATCGAAGACAGCAGATCTGACATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
* * *
35773125 TACATCAAAACAGATCGAAAATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* * * * *
35773150 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGGTCAAAGATAGCAGATCTGATATTCATATGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
*
35773215 TACATCGAAGCAGATCGAAGATGAT
66 TACATCGAAGCAGATCGAAGATGAC
*
35773240 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATTGAAGATAGCAGATCTGACATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
*
35773305 TACATCGAAGCAGATCGAATATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* *
35773330 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGATCTGACA-T--T-TG--
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
*
35773389 T--AT----GCAGATCGAAGATGAT
66 TACATCGAAGCAGATCGAAGATGAC
* ** *
35773408 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAATAGATCTGACATTTGTGT-TG
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT-
* * * *
35773472 TTACATCGAAACAAATTGAAGATGAT
65 TTACATCGAAGCAGATCGAAGATGAC
* * * * *
35773498 AAATTTGGCTTCTATGTATTAGGCGGGGAGCAGATCAAAGAT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGAT
35773540 TTCAGCATGG
Statistics
Matches: 752, Mismatches: 63, Indels: 38
0.88 0.07 0.04
Matches are distributed among these distances:
78 68 0.09
79 1 0.00
81 1 0.00
82 3 0.00
84 2 0.00
85 75 0.10
86 4 0.01
87 5 0.01
88 4 0.01
89 85 0.11
90 504 0.67
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (90 bp):
AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
TACATCGAAGCAGATCGAAGATGAC
Found at i:35773362 original size:45 final size:45
Alignment explanation
Indices: 35772572--35773449 Score: 403
Period size: 45 Copynumber: 20.0 Consensus size: 45
35772562 ATGTAGATAG
* * * *
35772572 CAGATTTGGCATCTCTGTATT-GACGGGGAACAAATCGAAGAAG-
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATGA
* * * * *
35772615 TAGATTTGGCATCTCTGTATTAGGCAGGGAGTAGATCGAAGAT-A
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATGA
* * * * * * *
35772659 TCATATCTGACAT-TCGTGTGTTTACATC--GAAGCAGATCGAAGATGA
1 -CAGATTTGGCGTCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATGA
*
35772705 CAGATTTGGCGTCTCCGTATTAGACGGGGAGCAGATCGAAGAT-A
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATGA
* * * * **
35772749 GCAGATCTGGCAT-TCGTGTGTTTACATC--AAAGCAGATCGAAGATGA
1 -CAGATTTGGCGTCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATGA
*
35772795 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCATATCGAAGAT-A
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATGA
* * * * ** * *
35772839 GCAGATCTGGCAT-TCGTGTGTT-TACTCGAAGCATATCGAAGATGA
1 -CAGATTTGGCGTCTC-TGTATTAGACGGGGAGCAGATCGAAGATGA
*
35772884 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAAATCGAAGAT-A
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATGA
* ** * * * *
35772928 GCAGATCTGAGATTCGTGTGT-TTACA-GCGAAGCAGATCGAAGATGA
1 -CAGATTTG-GCGTC-TCTGTATTAGACGGGGAGCAGATCGAAGATGA
* *
35772974 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAAATCGAAGA-CA
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATGA
* * * * *
35773018 GCAGACATT--CG--TGTGT-TTACATC--GAAGTAGATCGAAGATGA
1 -CAGA-TTTGGCGTCTCTGTATTAGA-CGGGGAGCAGATCGAAGATGA
* * * *
35773059 CAGATTTGGCGTCTCTATATTAGATGGGGAGCAAATCGAAGA-CA
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATGA
* * * * * ** * *
35773103 GCAGATCTGACAT-TCGTGTGTTTACATC--AAAACAGATCGAAAATGA
1 -CAGATTTGGCGTCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATGA
* *
35773149 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGGTCAAAGAT-A
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATGA
* *** * * *
35773193 GCAGATCTGATATTCATATGT-TTACATC--GAAGCAGATCGAAGATGA
1 -CAGATTTG-GCGTC-TCTGTATTAGA-CGGGGAGCAGATCGAAGATGA
* *
35773239 TAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATTGAAGAT-A
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATGA
* * * * * * *
35773283 GCAGATCTGACAT-TCGTGTGTTTACATC--GAAGCAGATCGAATATGA
1 -CAGATTTGGCGTCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATGA
* *
35773329 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAA
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATGA
* * *
35773374 CAGATCTGACAT-T-TGTA-T---------GCAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATGA
* *
35773407 TAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGAT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGAT
35773450 AATAGATCTG
Statistics
Matches: 603, Mismatches: 156, Indels: 150
0.66 0.17 0.17
Matches are distributed among these distances:
33 21 0.03
34 1 0.00
35 4 0.01
36 1 0.00
39 2 0.00
40 16 0.03
41 7 0.01
42 6 0.01
43 40 0.07
44 100 0.17
45 349 0.58
46 44 0.07
47 12 0.02
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (45 bp):
CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATGA
Found at i:35773417 original size:78 final size:78
Alignment explanation
Indices: 35773314--35773467 Score: 281
Period size: 78 Copynumber: 2.0 Consensus size: 78
35773304 TTACATCGAA
*
35773314 GCAGATCGAATATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGAT
1 GCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGAT
35773379 CTGACATTTGTAT
66 CTGACATTTGTAT
* *
35773392 GCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAATAGAT
1 GCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGAT
35773457 CTGACATTTGT
66 CTGACATTTGT
35773468 GTTGTTACAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (78 bp):
GCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGAT
CTGACATTTGTAT
Found at i:35773422 original size:168 final size:168
Alignment explanation
Indices: 35773224--35773539 Score: 490
Period size: 168 Copynumber: 1.9 Consensus size: 168
35773214 TTACATCGAA
** *
35773224 GCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATTGAAGATAGCAGAT
1 GCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGAT
* * * * *
35773289 CTGACATTCGTG-TGTTTACATCGAAGCAGATCGAATATGACAGATTTGGCGTCTCTGTATTAGA
66 CTGACATTCGTGTTG-TTACATCGAAACAAATCGAAGATGACAAATTTGGCGTCTATGTATTAGA
35773353 CGGGGAGCAGATCAAAGATAACAGATCTGACATTTGTAT
130 CGGGGAGCAGATCAAAGATAACAGATCTGACATTTGTAT
*
35773392 GCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAATAGAT
1 GCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGAT
* * * * *
35773457 CTGACATTTGTGTTGTTACATCGAAACAAATTGAAGATGATAAATTTGGCTTCTATGTATTAGGC
66 CTGACATTCGTGTTGTTACATCGAAACAAATCGAAGATGACAAATTTGGCGTCTATGTATTAGAC
35773522 GGGGAGCAGATCAAAGAT
131 GGGGAGCAGATCAAAGAT
35773540 TTCAGCATGG
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
168 131 0.98
169 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (168 bp):
GCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAACAGAT
CTGACATTCGTGTTGTTACATCGAAACAAATCGAAGATGACAAATTTGGCGTCTATGTATTAGAC
GGGGAGCAGATCAAAGATAACAGATCTGACATTTGTAT
Found at i:35775010 original size:25 final size:24
Alignment explanation
Indices: 35774972--35775033 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
35774962 GTTTTATTTT
* *
35774972 TATTTCATTTTAATCCT-TTTTAAA
1 TATTTTATTATAAT-CTATTTTAAA
* *
35774996 TTTTTTATATATAATTTATTTTAAA
1 TATTTTAT-TATAATCTATTTTAAA
35775021 TATTTTATTATAA
1 TATTTTATTATAA
35775034 ATATTATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTTTATTATAATCTATTTTAAA
Found at i:35775027 original size:14 final size:14
Alignment explanation
Indices: 35774995--35775038 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
35774985 TCCTTTTTAA
*
35774995 ATTTT-TTATATAT
1 ATTTTATTATAAAT
* *
35775008 AATTTATTTTAAAT
1 ATTTTATTATAAAT
35775022 ATTTTATTATAAAT
1 ATTTTATTATAAAT
35775036 ATT
1 ATT
35775039 ATTTACATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTTATTATAAAT
Found at i:35775043 original size:25 final size:25
Alignment explanation
Indices: 35774989--35775042 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
35774979 TTTTAATCCT
*
35774989 TTTTAAATTTTTTATATATAATTTA
1 TTTTAAATATTTTATATATAATTTA
35775014 TTTTAAATATTTTAT-TATAAATATTA
1 TTTTAAATATTTTATATAT-AAT-TTA
35775040 TTT
1 TTT
35775043 ACATGTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 17 0.65
26 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTTAAATATTTTATATATAATTTA
Found at i:35775386 original size:40 final size:40
Alignment explanation
Indices: 35775342--35775422 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
35775332 TCAAATACAT
35775342 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
* * * * **
35775382 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
35775422 T
1 T
35775423 AATAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:35775450 original size:6 final size:6
Alignment explanation
Indices: 35775439--35775480 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
35775429 AATTGATTAT
* *
35775439 ATTAAA ATTAAA ATTAAA ATTAAA A-TATA ATTAAA AATAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
35775481 AATATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATTAAA
Found at i:35775462 original size:18 final size:17
Alignment explanation
Indices: 35775439--35775480 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
35775429 AATTGATTAT
35775439 ATTAAAATTAAAATTAAA
1 ATTAAAA-TAAAATTAAA
*
35775457 ATTAAAATATAATTAAA
1 ATTAAAATAAAATTAAA
*
35775474 AATAAAA
1 ATTAAAA
35775481 AATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATTAAAATAAAATTAAA
Found at i:35775715 original size:7 final size:7
Alignment explanation
Indices: 35775679--35775759 Score: 62
Period size: 7 Copynumber: 11.7 Consensus size: 7
35775669 CACACCTCTA
35775679 ATTATAT
1 ATTATAT
*
35775686 ATTTTAT
1 ATTATAT
*
35775693 -TTATAC
1 ATTATAT
35775699 ATT-T-T
1 ATTATAT
35775704 ATTATAT
1 ATTATAT
35775711 ATTAT-T
1 ATTATAT
35775717 CATTATATT
1 -ATTATA-T
*
35775726 ATTTTAT
1 ATTATAT
35775733 ATTATAT
1 ATTATAT
*
35775740 AATTATTT
1 -ATTATAT
*
35775748 ATTATTT
1 ATTATAT
35775755 ATTAT
1 ATTAT
35775760 TATGTATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
5 3 0.05
6 7 0.12
7 38 0.63
8 11 0.18
9 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (7 bp):
ATTATAT
Found at i:35775729 original size:27 final size:26
Alignment explanation
Indices: 35775679--35775759 Score: 82
Period size: 25 Copynumber: 3.2 Consensus size: 26
35775669 CACACCTCTA
*
35775679 ATTATATATT-TTATT-TATACATTTT
1 ATTATATATTATTATTATAT-TATTTT
35775704 ATTATATATTATTCATTATATTATTTT
1 ATTATATATTATT-ATTATATTATTTT
*
35775731 A-TATTATATAATTATT-TATTA-TTT
1 ATTA-TATATTATTATTATATTATTTT
35775755 ATTAT
1 ATTAT
35775760 TATGTATAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
24 5 0.10
25 17 0.35
26 7 0.14
27 17 0.35
28 3 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
ATTATATATTATTATTATATTATTTT
Found at i:35775733 original size:22 final size:21
Alignment explanation
Indices: 35775679--35775760 Score: 73
Period size: 22 Copynumber: 4.0 Consensus size: 21
35775669 CACACCTCTA
* *
35775679 ATTATATATTTTAT-TTATAC
1 ATTATTTATTTTATATTATTC
*
35775699 A-T-TTTATTATATATTATTC
1 ATTATTTATTTTATATTATTC
*
35775718 ATTATATTATTTTATATTATATA
1 ATTAT-TTATTTTATATTAT-TC
35775741 ATTATTTATTATT-TATTATT
1 ATTATTTATT-TTATATTATT
35775761 ATGTATAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
18 8 0.16
19 7 0.14
20 2 0.04
21 2 0.04
22 24 0.47
23 8 0.16
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTATTTATTTTATATTATTC
Found at i:35775761 original size:10 final size:10
Alignment explanation
Indices: 35775702--35775762 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 10
35775692 TTTATACATT
*
35775702 TTATTATATA
1 TTATTATTTA
35775712 TTATTCATTATA
1 TTATT-ATT-TA
35775724 TTATT-TTATA
1 TTATTATT-TA
*
35775734 TTATATAATTA
1 TTAT-TATTTA
35775745 TTTATTATTTA
1 -TTATTATTTA
35775756 TTATTAT
1 TTATTAT
35775763 GTATAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 21 0.49
11 10 0.23
12 12 0.28
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATTATTTA
Found at i:35776121 original size:14 final size:14
Alignment explanation
Indices: 35776102--35776131 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35776092 TTTAATATTG
35776102 TTTTATTATGTAAA
1 TTTTATTATGTAAA
*
35776116 TTTTATTTTGTAAA
1 TTTTATTATGTAAA
35776130 TT
1 TT
35776132 GTTTGTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTATTATGTAAA
Found at i:35781452 original size:21 final size:21
Alignment explanation
Indices: 35781423--35781470 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
35781413 TTCTGTTTTG
*
35781423 CTCCGCCTCCCTCACTGCTAC
1 CTCCGCCTCCCGCACTGCTAC
* * *
35781444 CTCCTCCTCCCGCGCTGCTGC
1 CTCCGCCTCCCGCACTGCTAC
35781465 CTCCGC
1 CTCCGC
35781471 TCTAAGTTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.58, G:0.15, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCGCACTGCTAC
Found at i:35789171 original size:17 final size:19
Alignment explanation
Indices: 35789135--35789172 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35789125 TTTTAAGTAG
35789135 TATTATGAGATAAAATTAT
1 TATTATGAGATAAAATTAT
*
35789154 TATTATTAGA-AAAA-TAT
1 TATTATGAGATAAAATTAT
35789171 TA
1 TA
35789173 CTGCATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
19 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (19 bp):
TATTATGAGATAAAATTAT
Found at i:35789278 original size:15 final size:15
Alignment explanation
Indices: 35789258--35789290 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
35789248 TTAGATATAT
35789258 TTATAAATATTATTA
1 TTATAAATATTATTA
*
35789273 TTATAATTATTATTA
1 TTATAAATATTATTA
35789288 TTA
1 TTA
35789291 GATAGGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAAATATTATTA
Found at i:35791059 original size:60 final size:59
Alignment explanation
Indices: 35790980--35791116 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
35790970 AACTGTGTTA
* * *
35790980 ATATGGCCAAGGCCCAATATA-TCTTG-ACTTGTAATAAGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTC-TGAAC-TGTAA-AAGGCTACGGCCCAGATTAATACTG
* ** * *
35791040 ATATGGGCTAGGCCTAATATACTCTGAAACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTG-AACTGTAAAAGGCTACGGCCCAGATTAATACTG
35791100 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
35791117 GTTAACACTG
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
60 49 0.77
61 13 0.20
62 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGAACTGTAAAAGGCTACGGCCCAGATTAATACTG
Found at i:35795186 original size:28 final size:27
Alignment explanation
Indices: 35795134--35795186 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
35795124 GGCCTCTCTA
*
35795134 ATATATTTAAATTTTAGATTTATTTGC
1 ATATATTTAAATTTTAGATTCATTTGC
*
35795161 ATATACTTTAATTTTTA-ATATCATTT
1 ATATA-TTTAAATTTTAGAT-TCATTT
35795187 AGTCTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.57
Consensus pattern (27 bp):
ATATATTTAAATTTTAGATTCATTTGC
Found at i:35795330 original size:70 final size:70
Alignment explanation
Indices: 35795250--35795391 Score: 250
Period size: 70 Copynumber: 2.0 Consensus size: 70
35795240 AATATAAAAT
* *
35795250 TTGAAAATTTAGATAATAGAGATTGAAATGTGGTTTCCCATTTTTTATATGTTTGTGTC-TTTCT
1 TTGAAAATTTAGAGAATAGAGATTGAAATGTGGTTTCCCATTTTTTATATGTTTGTGCCGTTT-T
35795314 TTCACA
65 TTCACA
35795320 TTGAAAATTTAGAGAATAGAGATTGAAATGTGGTTTCCCATTTTTTATATGTTTGTGCCGTTTTT
1 TTGAAAATTTAGAGAATAGAGATTGAAATGTGGTTTCCCATTTTTTATATGTTTGTGCCGTTTTT
35795385 TCACA
66 TCACA
35795390 TT
1 TT
35795392 AATATATATA
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
70 66 0.96
71 3 0.04
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (70 bp):
TTGAAAATTTAGAGAATAGAGATTGAAATGTGGTTTCCCATTTTTTATATGTTTGTGCCGTTTTT
TCACA
Found at i:35795525 original size:21 final size:21
Alignment explanation
Indices: 35795495--35795548 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
35795485 AGTTTAAGGT
* *
35795495 TTTATTGTTTTGGATTTAGGG
1 TTTATAGTTTTAGATTTAGGG
* *
35795516 TTTATGGTTTAAGATTTAGGG
1 TTTATAGTTTTAGATTTAGGG
35795537 TTTATAGTTTTA
1 TTTATAGTTTTA
35795549 AGATGTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (21 bp):
TTTATAGTTTTAGATTTAGGG
Found at i:35795716 original size:21 final size:21
Alignment explanation
Indices: 35795664--35795716 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
35795654 GGTTTTATGG
**
35795664 TTTAGGATCCAAGGTTTAATA
1 TTTAGGATTTAAGGTTTAATA
*
35795685 TTTAGGGTTTAAGGTTT-ATA
1 TTTAGGATTTAAGGTTTAATA
*
35795705 GTTTATGATTTA
1 -TTTAGGATTTA
35795717 CGACTATAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (21 bp):
TTTAGGATTTAAGGTTTAATA
Found at i:35796647 original size:40 final size:40
Alignment explanation
Indices: 35796592--35796675 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
35796582 AGCACAGTTA
* *
35796592 ATCTTTAGCGGCGCTTCTT-TAAAAACGCCGCTAATTCTTG
1 ATCTTTAGCGGCGCTT-TTCTAAAAACGCCGCTAATACTCG
*
35796632 ATCTTTAGCGGCGCTTTTCTAGAAACGCCGCTAATACTCG
1 ATCTTTAGCGGCGCTTTTCTAAAAACGCCGCTAATACTCG
35796672 ATCT
1 ATCT
35796676 ATTTGATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (40 bp):
ATCTTTAGCGGCGCTTTTCTAAAAACGCCGCTAATACTCG
Found at i:35799123 original size:18 final size:19
Alignment explanation
Indices: 35799095--35799130 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35799085 TCCCTTAGTC
*
35799095 TTTCGTTTTTCTTTCTTTT
1 TTTCGTTTTTCTTCCTTTT
35799114 TTTC-TTTTTCTTCCTTT
1 TTTCGTTTTTCTTCCTTT
35799131 CCTTTCTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTCGTTTTTCTTCCTTTT
Found at i:35799414 original size:10 final size:10
Alignment explanation
Indices: 35799401--35799426 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
35799391 AATTATTTTT
35799401 AATTCAAGCA
1 AATTCAAGCA
35799411 AATTCAAGCA
1 AATTCAAGCA
35799421 AATTCA
1 AATTCA
35799427 CTTAACCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (10 bp):
AATTCAAGCA
Found at i:35803230 original size:14 final size:13
Alignment explanation
Indices: 35803190--35803230 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
35803180 TTACAAAATA
35803190 AAATAAAAATCCC
1 AAATAAAAATCCC
*
35803203 AAA-ACAAA-CCC
1 AAATAAAAATCCC
35803214 AAATTAAAAATCCC
1 AAA-TAAAAATCCC
35803228 AAA
1 AAA
35803231 CTAGCCCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 6 0.26
12 4 0.17
13 7 0.30
14 6 0.26
ACGTcount: A:0.63, C:0.24, G:0.00, T:0.12
Consensus pattern (13 bp):
AAATAAAAATCCC
Found at i:35804150 original size:23 final size:23
Alignment explanation
Indices: 35804096--35804142 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
35804086 AAAACTATTG
*
35804096 AATCGAAACGAGCAACCACTTTT
1 AATCGAAACGAGCAACCACCTTT
35804119 AATCGAAACGAGCAACCACCTTT
1 AATCGAAACGAGCAACCACCTTT
35804142 A
1 A
35804143 CACTAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (23 bp):
AATCGAAACGAGCAACCACCTTT
Found at i:35810904 original size:25 final size:25
Alignment explanation
Indices: 35810876--35810933 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
35810866 AAGCTCAAGT
* *
35810876 GAGCTGAATAACGGGAAGCTTATAC
1 GAGCTGAATAACGAGAAGCTTATAA
* * *
35810901 GAGCTGAGTATCGAGAAGTTTATAA
1 GAGCTGAATAACGAGAAGCTTATAA
35810926 GAGCTGAA
1 GAGCTGAA
35810934 ATCGGTAACC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.22
Consensus pattern (25 bp):
GAGCTGAATAACGAGAAGCTTATAA
Found at i:35813536 original size:8 final size:8
Alignment explanation
Indices: 35813523--35813548 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
35813513 TTATCAGCTA
35813523 TTATTATT
1 TTATTATT
35813531 TTATTATT
1 TTATTATT
35813539 TTATTATT
1 TTATTATT
35813547 TT
1 TT
35813549 GAATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTATT
Found at i:35814003 original size:18 final size:17
Alignment explanation
Indices: 35813980--35814022 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
35813970 AAAAGTGATT
35813980 AAAAAAATGCAAAAACAA
1 AAAAAAATG-AAAAACAA
*
35813998 AAAAAAATGAAAAATAA
1 AAAAAAATGAAAAACAA
*
35814015 AGAAAAAT
1 AAAAAAAT
35814023 TTTAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.79, C:0.05, G:0.07, T:0.09
Consensus pattern (17 bp):
AAAAAAATGAAAAACAA
Found at i:35821530 original size:17 final size:17
Alignment explanation
Indices: 35821508--35821545 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
35821498 CACTTGGGTT
35821508 GGCTTTAATATATGGTC
1 GGCTTTAATATATGGTC
35821525 GGCTTTAATATATGGTC
1 GGCTTTAATATATGGTC
35821542 GGCT
1 GGCT
35821546 CTGCCACCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.39
Consensus pattern (17 bp):
GGCTTTAATATATGGTC
Found at i:35833736 original size:15 final size:15
Alignment explanation
Indices: 35833725--35833770 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
35833715 AAGAAAATGT
*
35833725 AAAGATAGAAAATCA
1 AAAGATAGAAAATAA
*
35833740 AAAGAAATGAAAAATAA
1 AAAGATA-G-AAAATAA
35833757 AAAGATAGAAAATA
1 AAAGATAGAAAATA
35833771 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 12 0.46
16 2 0.08
17 12 0.46
ACGTcount: A:0.72, C:0.02, G:0.13, T:0.13
Consensus pattern (15 bp):
AAAGATAGAAAATAA
Found at i:35833767 original size:16 final size:16
Alignment explanation
Indices: 35833725--35833768 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
35833715 AAGAAAATGT
*
35833725 AAAGATAG-AAAATCA
1 AAAGATAGAAAAATAA
*
35833740 AAAGAAATGAAAAATAA
1 AAAGATA-GAAAAATAA
35833757 AAAGATAGAAAA
1 AAAGATAGAAAA
35833769 TATATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 6 0.25
16 6 0.25
17 12 0.50
ACGTcount: A:0.73, C:0.02, G:0.14, T:0.11
Consensus pattern (16 bp):
AAAGATAGAAAAATAA
Found at i:35842592 original size:21 final size:21
Alignment explanation
Indices: 35842568--35842611 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
35842558 TTTTACAAGC
* * *
35842568 ATAATAAATATTAATATTTTA
1 ATAAGAAATATTAAAATATTA
*
35842589 ATAAGAATTATTAAAATATTA
1 ATAAGAAATATTAAAATATTA
35842610 AT
1 AT
35842612 TATATAACAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATAAGAAATATTAAAATATTA
Found at i:35848334 original size:13 final size:11
Alignment explanation
Indices: 35848301--35848327 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
35848291 ATCATGTCCC
35848301 AAAAAGAAAAA
1 AAAAAGAAAAA
35848312 AAAAAGAAAAA
1 AAAAAGAAAAA
35848323 AAAAA
1 AAAAA
35848328 CTGAAAACAA
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:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:35853953 original size:22 final size:23
Alignment explanation
Indices: 35853928--35853976 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
35853918 TTTGTGCTAG
35853928 TTTTAAGT-TTTTAACACTAGGC
1 TTTTAAGTATTTTAACACTAGGC
* * *
35853950 TTTT-ATTATTTTAACAGTGGGC
1 TTTTAAGTATTTTAACACTAGGC
35853972 TTTTA
1 TTTTA
35853977 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.51
Consensus pattern (23 bp):
TTTTAAGTATTTTAACACTAGGC
Found at i:35853977 original size:22 final size:22
Alignment explanation
Indices: 35853936--35853978 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
35853926 AGTTTTAAGT
35853936 TTTTAACACTAGGCTTTTATTA
1 TTTTAACACTAGGCTTTTATTA
* *
35853958 TTTTAACAGTGGGCTTTTATT
1 TTTTAACACTAGGCTTTTATT
35853979 TTATTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.51
Consensus pattern (22 bp):
TTTTAACACTAGGCTTTTATTA
Found at i:35854504 original size:18 final size:17
Alignment explanation
Indices: 35854483--35854528 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
35854473 CAAATTACAT
35854483 AATATATAAAAATAACAA
1 AATATA-AAAAATAACAA
* *
35854501 AATATAAAATATTACAA
1 AATATAAAAAATAACAA
35854518 AAT-TAAAAAAT
1 AATATAAAAAAT
35854529 CTCGAGTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.28
17 12 0.48
18 6 0.24
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (17 bp):
AATATAAAAAATAACAA
Found at i:35854507 original size:16 final size:16
Alignment explanation
Indices: 35854486--35854526 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
35854476 ATTACATAAT
35854486 ATATAAAAATAACAAA
1 ATATAAAAATAACAAA
*
35854502 ATATAAAATATTACAAA
1 ATATAAAA-ATAACAAA
35854519 AT-TAAAAA
1 ATATAAAAA
35854527 ATCTCGAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 1 0.04
16 13 0.57
17 9 0.39
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
ATATAAAAATAACAAA
Found at i:35855454 original size:5 final size:5
Alignment explanation
Indices: 35855444--35855470 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
35855434 CTAGTATATA
35855444 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
35855471 TACATTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:35859211 original size:37 final size:37
Alignment explanation
Indices: 35859161--35859236 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
35859151 TTGAAATATC
*
35859161 AAGATGATTATATGTTTTTATGATTCATGTATTTATT
1 AAGATGATTATATGTTTTTATGATTCATGCATTTATT
*
35859198 AAGATGATTATATGTTTTTGTGATTCATGCATTTATT
1 AAGATGATTATATGTTTTTATGATTCATGCATTTATT
35859235 AA
1 AA
35859237 TTGACCCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.51
Consensus pattern (37 bp):
AAGATGATTATATGTTTTTATGATTCATGCATTTATT
Found at i:35864649 original size:4 final size:4
Alignment explanation
Indices: 35864642--35864668 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
35864632 TTTACTTGAA
35864642 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
35864669 GTTAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:35866484 original size:23 final size:24
Alignment explanation
Indices: 35866452--35866501 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
35866442 CTTTAACAAG
35866452 ATTTAATATTAAATTAAATTTAAT
1 ATTTAATATTAAATTAAATTTAAT
* *
35866476 ATTT-ATATTATATTAGATTTAAT
1 ATTTAATATTAAATTAAATTTAAT
35866499 ATT
1 ATT
35866502 AAAGTGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTAATATTAAATTAAATTTAAT
Found at i:35873811 original size:18 final size:18
Alignment explanation
Indices: 35873788--35873823 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
35873778 TCAAATTTGA
35873788 GCCTCGATTTCAAAAATG
1 GCCTCGATTTCAAAAATG
35873806 GCCTCGATTTCAAAAATG
1 GCCTCGATTTCAAAAATG
35873824 ATCTCAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (18 bp):
GCCTCGATTTCAAAAATG
Found at i:35875396 original size:3 final size:3
Alignment explanation
Indices: 35875385--35875464 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
35875375 TTTATTTTTT
* *
35875385 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
35875428 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
35875465 ATATGCCCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 46 0.74
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:35875442 original size:21 final size:18
Alignment explanation
Indices: 35875389--35875464 Score: 82
Period size: 18 Copynumber: 4.1 Consensus size: 18
35875379 TTTTTTTTAT
* *
35875389 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
35875408 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
35875426 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
35875447 TTTATATTATTA-TATTA
1 TTTATATTATTATTATTA
35875464 T
1 T
35875465 ATATGCCCTC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
17 6 0.12
18 18 0.36
19 9 0.18
20 5 0.10
21 12 0.24
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:35875465 original size:27 final size:26
Alignment explanation
Indices: 35875376--35875468 Score: 82
Period size: 26 Copynumber: 3.6 Consensus size: 26
35875366 GAGCTTTGTT
* * * *
35875376 TTATTTTTTTTATTTTATTATTTTTA
1 TTATTATTTATATATTATTATTTATA
*
35875402 CTATTATTTATATTATTATTA-TTAT-
1 TTATTATTTATA-TATTATTATTTATA
* * *
35875427 TTCTCATGTATATATTATTATTTATA
1 TTATTATTTATATATTATTATTTATA
35875453 TTATTATATTATATAT
1 TTATTAT-TTATATAT
35875469 GCCCTCTCCA
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
24 8 0.16
25 12 0.24
26 17 0.33
27 14 0.27
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (26 bp):
TTATTATTTATATATTATTATTTATA
Found at i:35875512 original size:15 final size:15
Alignment explanation
Indices: 35875489--35875609 Score: 52
Period size: 15 Copynumber: 7.7 Consensus size: 15
35875479 TATTTATTTA
35875489 TATTATTACTATC-AT
1 TATTATTACT-TCTAT
*
35875504 TATTGTTACTTCTAT
1 TATTATTACTTCTAT
* *
35875519 TATTTTTTATTTCTGACT
1 TA-TTATTACTTCT-A-T
* *
35875537 ACTATTATTATATATATAT
1 --TATTATTA-CT-TCTAT
* *
35875556 GTATTATTGCTTGTAT
1 -TATTATTACTTCTAT
35875572 TATTATTA--T-TAT
1 TATTATTACTTCTAT
* *
35875584 TATTATCACCTCTAT
1 TATTATTACTTCTAT
35875599 TATTATTACTT
1 TATTATTACTT
35875610 TACTTTTGTA
Statistics
Matches: 81, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
12 10 0.12
13 1 0.01
14 3 0.04
15 32 0.40
16 13 0.16
17 2 0.02
18 8 0.10
19 6 0.07
20 4 0.05
21 2 0.02
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (15 bp):
TATTATTACTTCTAT
Found at i:35880357 original size:9 final size:9
Alignment explanation
Indices: 35880345--35880424 Score: 74
Period size: 9 Copynumber: 8.6 Consensus size: 9
35880335 TCAAAATTTT
*
35880345 AAAAAAATA
1 AAAAAAACA
35880354 AAAAAAACA
1 AAAAAAACA
35880363 AAAAAACACA
1 AAAAAA-ACA
*
35880373 AAAAAGAAGA
1 AAAAA-AACA
35880383 AGAAGAAAAC-
1 A-AA-AAAACA
*
35880393 AAAACAACA
1 AAAAAAACA
35880402 AAAACAAAC-
1 AAAA-AAACA
35880411 AAAAAAACA
1 AAAAAAACA
35880420 AAAAA
1 AAAAA
35880425 TGCCAAAAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
8 8 0.14
9 29 0.49
10 15 0.25
11 5 0.08
12 2 0.03
ACGTcount: A:0.82, C:0.11, G:0.05, T:0.01
Consensus pattern (9 bp):
AAAAAAACA
Found at i:35880365 original size:8 final size:8
Alignment explanation
Indices: 35880354--35880424 Score: 63
Period size: 8 Copynumber: 8.8 Consensus size: 8
35880344 TAAAAAAATA
35880354 AAAAAAAC
1 AAAAAAAC
35880362 AAAAAAAC
1 AAAAAAAC
*
35880370 ACAAAAA-
1 AAAAAAAC
* * *
35880377 AGAAGAAG
1 AAAAAAAC
*
35880385 AAGAAAAC
1 AAAAAAAC
*
35880393 AAAACAAC
1 AAAAAAAC
35880401 AAAAACAAAC
1 -AAAA-AAAC
35880411 AAAAAAAC
1 AAAAAAAC
35880419 AAAAAA
1 AAAAAA
35880425 TGCCAAAAAG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
7 5 0.10
8 34 0.68
9 8 0.16
10 3 0.06
ACGTcount: A:0.82, C:0.13, G:0.06, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:35882407 original size:88 final size:88
Alignment explanation
Indices: 35882286--35882580 Score: 545
Period size: 88 Copynumber: 3.4 Consensus size: 88
35882276 TGACCTTCGC
*
35882286 TGAAGCAGATCCAAGATGATTTGGCGTCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCTG
1 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCTG
35882351 ATTTGGCTTTCACGTGTTTACGT
66 ATTTGGCTTTCACGTGTTTACGT
* * * *
35882374 TGAAACAGATCCAAGATGATTTGGCATCTCTGTACTAGGCGGGGAGCAGATCGAAGACATAGCTG
1 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCTG
35882439 ATTTGGCTTTCACGTGTTTACGT
66 ATTTGGCTTTCACGTGTTTACGT
35882462 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCTG
1 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCTG
35882527 ATTTGGCTTTCACGTGTTTACGT
66 ATTTGGCTTTCACGTGTTTACGT
35882550 TGAAGCAAATCCAAGATGATTTGGCGTCTCT
1 TGAAGCAAATCCAAGATGATTTGGCGTCTCT
35882581 ATAGCGACGG
Statistics
Matches: 200, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 200 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (88 bp):
TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTATTAGGCGGGGAGCAGATCGAAGACATAGCTG
ATTTGGCTTTCACGTGTTTACGT
Found at i:35882789 original size:44 final size:44
Alignment explanation
Indices: 35882596--35882921 Score: 216
Period size: 44 Copynumber: 7.4 Consensus size: 44
35882586 GACGGAGAGT
** * *
35882596 AGATCGAAGATTGCAGATTTGGCATCCCTATGTTTATAGGGAAC
1 AGATCGAAGATAACAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * * ** * **
35882640 ATATCAAAGATAGCAGATCTGAAATTCCC-GTACTTATAATGAAGC
1 AGATCGAAGATAACAGATTTGGCA-TCCCTGTGCTTATAGGGAA-C
** *
35882685 AGATCGAAGATTTCAGCA--TGGCATCTCTGTGCTTATAGGGAAC
1 AGATCGAAGATAACAG-ATTTGGCATCCCTGTGCTTATAGGGAAC
* * * *
35882728 A-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAAT
1 AGA-TCGAAGATAACAGATTTGGCATCCCTGTGCTTATAGGGAAC
* * * * * *
35882772 AGATCGAAGATAACAGATCTGACATTCCTATGCTTACAGTGAAAC
1 AGATCGAAGATAACAGATTTGGCATCCCTGTGCTTATAG-GGAAC
* ** * *
35882817 AGATCGAAGGTTTCAGCA--TGACATCCCTGTGCTTATAAGGAAC
1 AGATCGAAGATAACAG-ATTTGGCATCCCTGTGCTTATAGGGAAC
* * * *
35882860 A-AGTTGAAAATAATAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGA-TCGAAGATAACAGATTTGGCATCCCTGTGCTTATAGGGAAC
*
35882904 ATATCGAAGATAACAGAT
1 AGATCGAAGATAACAGAT
35882922 GAAGCAGATC
Statistics
Matches: 211, Mismatches: 57, Indels: 28
0.71 0.19 0.09
Matches are distributed among these distances:
42 4 0.02
43 26 0.12
44 144 0.68
45 35 0.17
46 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (44 bp):
AGATCGAAGATAACAGATTTGGCATCCCTGTGCTTATAGGGAAC
Found at i:35882820 original size:132 final size:132
Alignment explanation
Indices: 35882608--35882921 Score: 457
Period size: 132 Copynumber: 2.4 Consensus size: 132
35882598 ATCGAAGATT
* * * *
35882608 GCAGATTTGGCATCCCTATGTTTATAGGGAACATATCAAAGATAGCAGATCTGAAATTCCCGTAC
1 GCAGATTTGGCATCCCTGTGTTTATAGGGAACATATCGAAGATAACAGATCTGAAATTCCCATAC
* * * * *
35882673 TTATAATGAAGCAGATCGAAGATTTCAGCATGGCATCTCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAATGAAACAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAAGGAACAAGTTGAAAA
35882738 TA
131 TA
* * * * * *
35882740 GCAGATTTGGCATCCCTGTGCTTATAGGGAATAGATCGAAGATAACAGATCTGACATTCCTATGC
1 GCAGATTTGGCATCCCTGTGTTTATAGGGAACATATCGAAGATAACAGATCTGAAATTCCCATAC
* *
35882805 TTACAGTGAAACAGATCGAAGGTTTCAGCATGACATCCCTGTGCTTATAAGGAACAAGTTGAAAA
66 TTACAATGAAACAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAAGGAACAAGTTGAAAA
35882870 TA
131 TA
**
35882872 ATAGATTTGGCATCCCTGTGTTTATAGGGAACATATCGAAGATAACAGAT
1 GCAGATTTGGCATCCCTGTGTTTATAGGGAACATATCGAAGATAACAGAT
35882922 GAAGCAGATC
Statistics
Matches: 160, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 160 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (132 bp):
GCAGATTTGGCATCCCTGTGTTTATAGGGAACATATCGAAGATAACAGATCTGAAATTCCCATAC
TTACAATGAAACAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAAGGAACAAGTTGAAAA
TA
Found at i:35883008 original size:44 final size:44
Alignment explanation
Indices: 35882945--35883146 Score: 223
Period size: 44 Copynumber: 4.6 Consensus size: 44
35882935 GATTTCAGCA
35882945 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGATT
* *
35882989 TGGCATCCCTGTGCTTATAGGGAAC-AGATTGAAGATAACAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAATAACAGATT
* * * * * * **
35883033 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ATAACAG-ATT
*
35883077 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGATT
* *
35883121 TGGTATCCCTGTGTTTATAGGGAACA
1 TGGCATCCCTGTGCTTATAGGGAACA
35883147 GATCGAATAG
Statistics
Matches: 130, Mismatches: 21, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
42 1 0.01
43 8 0.06
44 112 0.86
45 8 0.06
46 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGATT
Found at i:35883009 original size:110 final size:110
Alignment explanation
Indices: 35882807--35883031 Score: 362
Period size: 110 Copynumber: 2.1 Consensus size: 110
35882797 TCCTATGCTT
* *
35882807 ACAG-TGAAACAGATCGAAGGTTTCAGCATGACATCCCTGTGCTTATAAGGAACAAGTTGAAAAT
1 ACAGATGAAACAGATCAAAGATTTCAGCATGACATCCCTGTGCTTATAAGGAACAAGTTGAAAAT
* * *
35882871 AATAGATTTGGCATCCCTGTGTTTATAGGGAACATATCGAAGATA
66 AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATA
* * *
35882916 ACAGATGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
1 ACAGATGAAACAGATCAAAGATTTCAGCATGACATCCCTGTGCTTATAAGGAACAAGTTGAAAAT
*
35882981 AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATA
66 AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATA
35883026 ACAGAT
1 ACAGAT
35883032 CTGACATTCC
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
109 4 0.04
110 102 0.96
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (110 bp):
ACAGATGAAACAGATCAAAGATTTCAGCATGACATCCCTGTGCTTATAAGGAACAAGTTGAAAAT
AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATA
Found at i:35883103 original size:242 final size:242
Alignment explanation
Indices: 35882678--35883153 Score: 817
Period size: 242 Copynumber: 2.0 Consensus size: 242
35882668 CGTACTTATA
* * *
35882678 ATGAAGCAGATCGAAGATTTCAGCATGGCATCTCTGTGCTTATAGGGAACAAGTTGAAAATAGCA
1 ATGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACA
*
35882743 GATTTGGCATCCCTGTGCTTATAGGGAATAGATCGAAGATAACAGATCTGACATTCCTATGCTTA
66 GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTATGCTTA
* *
35882808 CAGTGAAACAGATCGAAGGTTTCAGCATGACATCCCTGTGCTTATAAGGAACAAGTTGAAAATAA
131 CAGTGAAACAGATCAAAGATTTCAGCATGACATCCCTGTGCTTATAAGGAACAAGTTGAAAATAA
* *
35882873 TAGATTTGGCATCCCTGTGTTTATAGGGAACATATCGAAGATAACAG
196 CAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAG
35882920 ATGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACA
1 ATGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACA
* *
35882985 GATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAACAGATCTGACATTCCTGTGCTTA
66 GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTATGCTTA
* * * *
35883050 CAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAG
131 CAGTGAAACAGATCAAAGATTTCAGCATGACATCCCTGTGCTTATAAGGAACAAGTTGAAAATAA
*
35883115 CAGATTTGGTATCCCTGTGTTTATAGGGAACAGATCGAA
196 CAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAA
35883154 TAGATGATCT
Statistics
Matches: 219, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
242 219 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (242 bp):
ATGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACA
GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTATGCTTA
CAGTGAAACAGATCAAAGATTTCAGCATGACATCCCTGTGCTTATAAGGAACAAGTTGAAAATAA
CAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAG
Found at i:35883245 original size:130 final size:132
Alignment explanation
Indices: 35882916--35883252 Score: 527
Period size: 132 Copynumber: 2.6 Consensus size: 132
35882906 ATCGAAGATA
35882916 ACAGATGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
1 ACAG-TGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
* * *
35882981 AACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAACAGATCTGACATTCCTGTG
65 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTACTGTG
35883046 CTT
130 CTT
35883049 ACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATA
1 ACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATA
* * *
35883114 GCAGATTTGGTATCCCTGTGTTTATAGGGAACAGATCG-A-ATAGA-TGATCTGACATTACTGTG
66 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATA-ACAGATCTGACATTACTGTG
35883176 CTT
130 CTT
** * * * *
35883179 ACAGTGAAGCAGATTGAAGATTTTAGTATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
1 ACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATA
35883244 GCAGATTTG
66 GCAGATTTG
35883253 ACCCCCTAAG
Statistics
Matches: 191, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
130 90 0.47
131 2 0.01
132 95 0.50
133 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (132 bp):
ACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATA
GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTACTGTGC
TT
Found at i:35883358 original size:87 final size:87
Alignment explanation
Indices: 35883245--35884460 Score: 1675
Period size: 87 Copynumber: 14.0 Consensus size: 87
35883235 TTGAAGATAG
* * * * *
35883245 CAGAT-TTGACCCCCTAAGCAGTAGGGAAATAGATCGAAAGCGACGGGCCTT-AACTCCCTAAGT
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGGACCTTAAAC-CCCTAAGC
* *
35883308 AGTAGGGTAACGGGCTAAATTTA
65 AGTAGGGTAACAGGCTGAATTTA
* * *
35883331 CAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGGACCTTAAACCCCTAAGCA
* *
35883396 GTAGGGTAATAGGTTGAATTTA
66 GTAGGGTAACAGGCTGAATTTA
* * *
35883418 CAGATCTTAACCCCCTAAGTAGTAGGGAAACAAATCGAAAGCGA-CGAGCCTT-AACTCCCTAAG
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGGA-CCTTAAAC-CCCTAAG
* * *
35883481 TAGCAGGGTAACAGGCTAAATTTA
64 CAGTAGGGTAACAGGCTGAATTTA
* *
35883505 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGGACCTTAAACCCCTAAGCA
* *
35883570 GTAGGGTAACAGGTTGGATTTA
66 GTAGGGTAACAGGCTGAATTTA
35883592 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-AAAGGCGATGGACCTTAAACCCCTAAGC
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAA-GCGATGGACCTTAAACCCCTAAGC
35883656 AGTAGGGTAACAGG-TGGAATTTA
65 AGTAGGGTAACAGGCT-GAATTTA
35883679 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-AAAGGCGATGGACCTTAAACCCCTAAGC
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAA-GCGATGGACCTTAAACCCCTAAGC
35883743 AGTAGGGTAACAGGCTGAATTTA
65 AGTAGGGTAACAGGCTGAATTTA
* * * * * *
35883766 CAAATCTTAACCCCCTAAGCAGTAAGGAAATAGATCG-AAGATGATGGGCCTTAAAACCCTAAGC
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAG-CGATGGACCTTAAACCCCTAAGC
35883830 AGTAGGGTAACAGGCTGAATTTA
65 AGTAGGGTAACAGGCTGAATTTA
* * *
35883853 CAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCTTAAGC
1 C-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGGACCTTAAACCCCTAAGC
35883918 AGTAGGGTAACAGGCTGAATTTA
65 AGTAGGGTAACAGGCTGAATTTA
* *
35883941 CAAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGGACCTTAAACCCCTAAGC
1 C-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGGACCTTAAACCCCTAAGC
35884006 AGTAGGGTAACAGG-TGGAATTTA
65 AGTAGGGTAACAGGCT-GAATTTA
* * * *
35884029 CAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGGAGATGGACCTTAAACCCCTAAACA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGGACCTTAAACCCCTAAGCA
* *
35884094 GTAGGGTAACAGGTTAAATTTA
66 GTAGGGTAACAGGCTGAATTTA
* *
35884116 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-AAAGGTGATGGTCCTTAAACCCCTAAGC
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAA-GCGATGGACCTTAAACCCCTAAGC
* *
35884180 AGTAGGGTAATAGG-TGGAGTTTA
65 AGTAGGGTAACAGGCT-GAATTTA
* * * *
35884203 CAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGGCGATAGACCTTAAACCCCTAAGTA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGGACCTTAAACCCCTAAGCA
*
35884268 GTAGGGTAACAGGCTGGATTTA
66 GTAGGGTAACAGGCTGAATTTA
* * * * * * *
35884290 CAAGATCTTAACCCCTTAAGCAGTAGGAAAATAGATTGAAGGTGATGGGCCTTAAACCCCTAAGC
1 C-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGGACCTTAAACCCCTAAGC
35884355 AGTAGGGTAACAGG-TGGAATTTA
65 AGTAGGGTAACAGGCT-GAATTTA
* *
35884378 CAGATCATAACCCCCTAAGCAGTAGGGAATCAGATC-AAAGGCGATGGACCTTAAACCCCTAAGC
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAA-GCGATGGACCTTAAACCCCTAAGC
* *
35884442 AATAGGGTAATAGGCTGAA
65 AGTAGGGTAACAGGCTGAA
35884461 AATTATAGAT
Statistics
Matches: 1012, Mismatches: 95, Indels: 45
0.88 0.08 0.04
Matches are distributed among these distances:
86 18 0.02
87 746 0.74
88 246 0.24
89 2 0.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (87 bp):
CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGGACCTTAAACCCCTAAGCA
GTAGGGTAACAGGCTGAATTTA
Found at i:35884058 original size:524 final size:523
Alignment explanation
Indices: 35883253--35884460 Score: 1899
Period size: 524 Copynumber: 2.3 Consensus size: 523
35883243 AGCAGATTTG
* * * ** *
35883253 ACCCCCTAAGCAGTAGGGAAATAGATCGAA-AGCGACGGGCCTTAACTCCCTAAGTAGTAGGGTA
1 ACCCCCTAAGCAGTAAGGAAATAGATCGAAGA-TGATGGGCCTTAAAACCCTAAGCAGTAGGGTA
* * *
35883317 ACGGGCTAAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGGCGATGAACCT
65 ACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCT
* *
35883382 TAAACCCCTAAGCAGTAGGGTAATAGGTTGAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAA
130 TAAACCCCTAAGCAGTAGGGTAATAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAA
*
35883447 ACAAATCGAAAGCGACGAGCCTTAACTCCCTAAGTAGCAGGGTAACAGGCTAAATTTACAGATCT
195 ACAAATCGAAAGCGACGAGCCTTAACTCCCTAAGCAGCAGGGTAACAGGCTAAATTTACAGATCT
* *
35883512 TAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGCAGTAGGGT
260 TAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGAGATGAACCTTAAACCCCTAAACAGTAGGGT
**
35883577 AACAGGTTGGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGATGGACC
325 AACAGGTTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGATGGACC
35883642 TTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
390 TTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA
*
35883707 AACAGATCAAAGGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAA-AT
455 AACAGATCAAAGGCGATAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGAT
35883771 CTTA
520 CTTA
35883775 ACCCCCTAAGCAGTAAGGAAATAGATCGAAGATGATGGGCCTTAAAACCCTAAGCAGTAGGGTAA
1 ACCCCCTAAGCAGTAAGGAAATAGATCGAAGATGATGGGCCTTAAAACCCTAAGCAGTAGGGTAA
35883840 CAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCT
66 CAGGCTGAATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCT
* *
35883905 TAAACCCTTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGGGA
130 TAAACCCCTAAGCAGTAGGGTAATAGGCTGAATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGA
* * * * * *
35883970 AATAGATCGAAGGCGATG-GACCTTAAAC-CCCTAAGCAGTAGGGTAACAGG-TGGAATTTACAG
194 AACAAATCGAAAGCGACGAG-CCTT-AACTCCCTAAGCAGCAGGGTAACAGGCT-AAATTTACAG
* *
35884032 ATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGGAGATGGACCTTAAACCCCTAAACAGTA
256 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGAGATGAACCTTAAACCCCTAAACAGTA
*
35884097 GGGTAACAGGTTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGTGATG
321 GGGTAACAGGTTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGATG
* * * *
35884162 GTCCTTAAACCCCTAAGCAGTAGGGTAATAGGTGGAGTTTACAGATCTTAACCCCCTAAGTAGTA
386 GACCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAACCCCCTAAGCAGTA
* * *
35884227 GGGAAACAGATCGAAGGCGATAGACCTTAAACCCCTAAGTAGTAGGGTAACAGGCTGGATTTACA
451 GGGAAACAGATCAAAGGCGATAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACA
35884292 AGATCTTA
516 AGATCTTA
* * * *
35884300 ACCCCTTAAGCAGT-AGGAAAATAGATTGAAGGTGATGGGCCTTAAACCCCTAAGCAGTAGGGTA
1 ACCCCCTAAGCAGTAAGG-AAATAGATCGAAGATGATGGGCCTTAAAACCCTAAGCAGTAGGGTA
* * * *
35884364 ACAGG-TGGAATTTACAGATCATAACCCCCTAAGCAGTAGGGAATCAGATCAAAGGCGATGGACC
65 ACAGGCT-GAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACC
*
35884428 TTAAACCCCTAAGCAATAGGGTAATAGGCTGAA
129 TTAAACCCCTAAGCAGTAGGGTAATAGGCTGAA
35884461 AATTATAGAT
Statistics
Matches: 631, Mismatches: 46, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
522 69 0.11
523 86 0.14
524 398 0.63
525 78 0.12
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (523 bp):
ACCCCCTAAGCAGTAAGGAAATAGATCGAAGATGATGGGCCTTAAAACCCTAAGCAGTAGGGTAA
CAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTT
AAACCCCTAAGCAGTAGGGTAATAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAA
CAAATCGAAAGCGACGAGCCTTAACTCCCTAAGCAGCAGGGTAACAGGCTAAATTTACAGATCTT
AACCCCCTAAGCAGTAGGGAAACAGATCGAAGGAGATGAACCTTAAACCCCTAAACAGTAGGGTA
ACAGGTTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGGCGATGGACCT
TAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAA
ACAGATCAAAGGCGATAGACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATC
TTA
Found at i:35884653 original size:68 final size:67
Alignment explanation
Indices: 35884571--35884874 Score: 401
Period size: 68 Copynumber: 4.5 Consensus size: 67
35884561 TCTTCTTGAG
35884571 GCCACAACAGATCTCCTTGAAGTTTCAGCGGATCTCTTTTCCCTGAAATGGCGTTGGAGCGGCTA
1 GCCACAACAGATCTCCTTGAAGTTTCAGCGGATCTCTTTT-CCTGAAATGGCGTTGGAGCGGCTA
35884636 AAA
65 AAA
* * * * *
35884639 GCCACAATAGATCTCCTTGAAGTTTCAGCGGAACTTTTTTCCCTGAAATGGCATTGGAGCGGTTA
1 GCCACAACAGATCTCCTTGAAGTTTCAGCGGATCTCTTTT-CCTGAAATGGCGTTGGAGCGGCTA
35884704 AAA
65 AAA
* * * * * *
35884707 GCCATAGCAGATCTCCTTGAAGTTTAAGCGAACCTCTTCTTCCTGAAATGGCGTTGGAGTGGCTA
1 GCCACAACAGATCTCCTTGAAGTTTCAGCGGATCTCTT-TTCCTGAAATGGCGTTGGAGCGGCTA
35884772 AAA
65 AAA
* * * * * **
35884775 GCCACGACAGATCTCCTTGAAGTTTCAGTGGATTTCTCCTTCCTGAATTGGCGTTGGAGAAGCTA
1 GCCACAACAGATCTCCTTGAAGTTTCAGCGGATCTCT-TTTCCTGAAATGGCGTTGGAGCGGCTA
35884840 AAA
65 AAA
*
35884843 GCCACAGCAGATCTCCTTGAAGTTTCAGCGGA
1 GCCACAACAGATCTCCTTGAAGTTTCAGCGGA
35884875 AGAAGATCAA
Statistics
Matches: 204, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
68 202 0.99
69 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (67 bp):
GCCACAACAGATCTCCTTGAAGTTTCAGCGGATCTCTTTTCCTGAAATGGCGTTGGAGCGGCTAA
AA
Found at i:35885302 original size:30 final size:30
Alignment explanation
Indices: 35885261--35885346 Score: 145
Period size: 30 Copynumber: 2.9 Consensus size: 30
35885251 AAAACCTTAG
35885261 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
* *
35885291 CCACTTTGCCTCCCACTTGCTCCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
35885321 CCACCTTGTCTCCCACTTGCACCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
35885347 ACCATCAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.15, C:0.51, G:0.07, T:0.27
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:35885841 original size:8 final size:9
Alignment explanation
Indices: 35885828--35885915 Score: 52
Period size: 9 Copynumber: 9.0 Consensus size: 9
35885818 GAGAGCTTTG
35885828 TTTTATT-T
1 TTTTATTAT
35885836 TTTTATTAT
1 TTTTATTAT
*
35885845 TTTTACTAT
1 TTTTATTAT
35885854 TATTTATACTAT
1 T-TTTAT--TAT
*
35885866 TATTATTAT
1 TTTTATTAT
*
35885875 TTCTCATGTAT
1 TT-TTAT-TAT
*
35885886 ATATTATTAT
1 -TTTTATTAT
*
35885896 TTATATTAT
1 TTTTATTAT
35885905 TATTATATTAT
1 T-TT-TATTAT
35885916 ATATACCCTC
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
8 7 0.11
9 22 0.36
10 11 0.18
11 16 0.26
12 5 0.08
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTATTAT
Found at i:35885854 original size:12 final size:12
Alignment explanation
Indices: 35885830--35885869 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
35885820 GAGCTTTGTT
*
35885830 TTATTTTT-TTA
1 TTATTTTTACTA
35885841 TTATTTTTACTA
1 TTATTTTTACTA
*
35885853 TTATTTATACTA
1 TTATTTTTACTA
35885865 TTATT
1 TTATT
35885870 ATTATTTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATTTTTACTA
Found at i:35885902 original size:12 final size:12
Alignment explanation
Indices: 35885838--35885915 Score: 63
Period size: 12 Copynumber: 6.3 Consensus size: 12
35885828 TTTTATTTTT
*
35885838 TTATTATTTTTA
1 TTATTATTTATA
*
35885850 CTATTATTTATA
1 TTATTATTTATA
*
35885862 CTATTA-TTATTA
1 TTATTATTTA-TA
35885874 TT-TCTCATGTATATA
1 TTAT-T-AT-T-TATA
35885889 TTATTATTTATA
1 TTATTATTTATA
35885901 TTATTA-TTATA
1 TTATTATTTATA
35885912 TTAT
1 TTAT
35885916 ATATACCCTC
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
11 13 0.23
12 30 0.54
13 2 0.04
14 2 0.04
15 6 0.11
16 3 0.05
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (12 bp):
TTATTATTTATA
Found at i:35885918 original size:18 final size:17
Alignment explanation
Indices: 35885851--35885919 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 17
35885841 TTATTTTTAC
35885851 TATTATTTATACTATTAT
1 TATTATTTATA-TATTAT
*
35885869 TATTATTTCTCATGTATATAT
1 TATTA-TT-T-ATATAT-TAT
35885890 TATTA-TT-TATATTAT
1 TATTATTTATATATTAT
35885905 TATTATATTATATAT
1 TATTAT-TTATATAT
35885920 ACCCTCTCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
15 8 0.19
16 4 0.10
17 2 0.05
18 11 0.26
19 3 0.07
20 4 0.10
21 10 0.24
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (17 bp):
TATTATTTATATATTAT
Found at i:35891851 original size:33 final size:33
Alignment explanation
Indices: 35891814--35891877 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
35891804 GATTATATGT
35891814 TTTTATCTTTCATTCCAATAA-ATTTGTTTTTTA
1 TTTTATCTTTCATTCCAATAATA-TTGTTTTTTA
*
35891847 TTTTATCTTTCATTCCGATAATATTGTTTTT
1 TTTTATCTTTCATTCCAATAATATTGTTTTT
35891878 ATACTTTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.61
Consensus pattern (33 bp):
TTTTATCTTTCATTCCAATAATATTGTTTTTTA
Found at i:35895242 original size:25 final size:24
Alignment explanation
Indices: 35895194--35895243 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
35895184 TGTGAAAGAG
* * *
35895194 AATTTTTTTTTAAATTATGGTTAA
1 AATTTTTTTTTAAAGTAAGATTAA
35895218 AATTTATTTTTTAAAGTAAGATTAA
1 AATTT-TTTTTTAAAGTAAGATTAA
35895243 A
1 A
35895244 CCTCATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (24 bp):
AATTTTTTTTTAAAGTAAGATTAA
Found at i:35895688 original size:31 final size:31
Alignment explanation
Indices: 35895650--35895733 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
35895640 GTGGGGATGG
35895650 GTAAGTTTACAATTTGGTCACTCAACTATTA
1 GTAAGTTTACAATTTGGTCACTCAACTATTA
* * *
35895681 GTAAGTTTAGAAATTGGTAACTCAACTATTA
1 GTAAGTTTACAATTTGGTCACTCAACTATTA
*
35895712 GTATGTTTACAATTTGGTCACT
1 GTAAGTTTACAATTTGGTCACT
35895734 AAATAACACT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.39
Consensus pattern (31 bp):
GTAAGTTTACAATTTGGTCACTCAACTATTA
Found at i:35895799 original size:31 final size:31
Alignment explanation
Indices: 35895764--35895831 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
35895754 TGTAAATTTG
**
35895764 CTAATAGTCAAGTGACCAAATTATAATTTTA
1 CTAATAGTCAAGTGACCAAATTATAAACTTA
* * * *
35895795 CTAATATTTAATTGACCAAATTGTAAACTTA
1 CTAATAGTCAAGTGACCAAATTATAAACTTA
35895826 CTAATA
1 CTAATA
35895832 CAAGAGTGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (31 bp):
CTAATAGTCAAGTGACCAAATTATAAACTTA
Found at i:35906247 original size:31 final size:32
Alignment explanation
Indices: 35906207--35906284 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 32
35906197 TATACAGACC
35906207 CACGCAAATATAT-TATACATATAACA-CCATG
1 CACGCAAATATATAT-TACATATAACACCCATG
* *
35906238 CACGTAAATATATATTATATATAACACCCATG
1 CACGCAAATATATATTACATATAACACCCATG
* *
35906270 CATGCATATATATAT
1 CACGCAAATATATAT
35906285 ATATTATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
31 22 0.55
32 18 0.45
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (32 bp):
CACGCAAATATATATTACATATAACACCCATG
Found at i:35906285 original size:36 final size:31
Alignment explanation
Indices: 35906214--35906297 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 31
35906204 ACCCACGCAA
*
35906214 ATATATTATACATATAACACCATGCACGTAAAT
1 ATATATTAT--ATATAACACCATGCACATAAAT
35906247 ATATATTATATATAACACCCATGCATGCATATATAT
1 ATATATTATATATAACA-CCATGCA--CATA-A-AT
35906283 ATATATTATATATAA
1 ATATATTATATATAA
35906298 ATAACAAAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
31 8 0.18
32 7 0.16
33 9 0.20
34 3 0.07
35 1 0.02
36 17 0.38
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (31 bp):
ATATATTATATATAACACCATGCACATAAAT
Found at i:35907633 original size:20 final size:20
Alignment explanation
Indices: 35907605--35907642 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35907595 TTTAACCATT
35907605 CAAATATCAAATT-AAATAA
1 CAAATATCAAATTCAAATAA
35907624 CAAATAATCAAATTCAAAT
1 CAAAT-ATCAAATTCAAAT
35907643 GTCATTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (20 bp):
CAAATATCAAATTCAAATAA
Found at i:35911237 original size:42 final size:41
Alignment explanation
Indices: 35911126--35911237 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 41
35911116 TACCATACCA
* *
35911126 ATGCCATATCCCAGATATGGTTTTACATGGGATCTCATATAG
1 ATGCCA-ATCCCAGACATGGTTTTACATGAGATCTCATATAG
* *
35911168 ATGCCAATAGCCCAG-CTATGGTCTTACATGA-AGTCTCATATCG
1 ATGCCAAT--CCCAGAC-ATGGTTTTACATGAGA-TCTCATATAG
35911211 ATGCCACATCCCAGACATGGTTTTACA
1 ATGCCA-ATCCCAGACATGGTTTTACA
35911238 CGTAATCTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
41 2 0.03
42 22 0.37
43 33 0.56
44 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (41 bp):
ATGCCAATCCCAGACATGGTTTTACATGAGATCTCATATAG
Found at i:35916160 original size:95 final size:96
Alignment explanation
Indices: 35915972--35916167 Score: 340
Period size: 99 Copynumber: 2.0 Consensus size: 96
35915962 AAATATTTAT
35915972 AATTACTCGTTCTTGAACTAACTATTATCGTGATGTAGGCAAGTGTACCTATCGAACAGTAGTAT
1 AATTACTCGTTCTTGAACTAACTATTATCGTGATGTAGGCAAGTGTACCTATCG---AGTAGTAT
35916037 AGTTTTAGCAAGACCAAATTATCGAACCCAAAGG
63 AGTTTTAGCAAGACCAAATTATCGAACCCAAAGG
35916071 AATTACTCGTTCTTGAACTAACTATTATCGTGATGTAGGCAAGTGTACCTATCG-GTAGTATAGT
1 AATTACTCGTTCTTGAACTAACTATTATCGTGATGTAGGCAAGTGTACCTATCGAGTAGTATAGT
* *
35916135 TTTAGCAAGACCAGATTGTCGAACCCAAAGG
66 TTTAGCAAGACCAAATTATCGAACCCAAAGG
35916166 AA
1 AA
35916168 CTAAAAGTAT
Statistics
Matches: 95, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
95 41 0.43
99 54 0.57
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (96 bp):
AATTACTCGTTCTTGAACTAACTATTATCGTGATGTAGGCAAGTGTACCTATCGAGTAGTATAGT
TTTAGCAAGACCAAATTATCGAACCCAAAGG
Found at i:35932910 original size:16 final size:16
Alignment explanation
Indices: 35932891--35932922 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35932881 AAATACAAGT
*
35932891 CATTTATAATCAATCA
1 CATTCATAATCAATCA
35932907 CATTCATAATCAATCA
1 CATTCATAATCAATCA
35932923 TATTGTCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (16 bp):
CATTCATAATCAATCA
Found at i:35937898 original size:45 final size:46
Alignment explanation
Indices: 35937813--35937926 Score: 139
Period size: 45 Copynumber: 2.6 Consensus size: 46
35937803 TGCTATGTGT
35937813 TTTCATGTAAGACCAC-TCT-AGGACGTTGGCATCGATATATGTAC
1 TTTCATGTAAGACCACGTCTGAGGACGTTGGCATCGATATATGTAC
* * *
35937857 TTTCATGTAAGACCACGTCTGA-GATGTTGGCATTGATATATGTAG
1 TTTCATGTAAGACCACGTCTGAGGACGTTGGCATCGATATATGTAC
* *
35937902 TTACGA-GTAAGACCATGTCTG-GGAC
1 TTTC-ATGTAAGACCACGTCTGAGGAC
35937927 ATCAGCATTG
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
44 16 0.27
45 42 0.70
46 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (46 bp):
TTTCATGTAAGACCACGTCTGAGGACGTTGGCATCGATATATGTAC
Found at i:35951729 original size:55 final size:55
Alignment explanation
Indices: 35951655--35951793 Score: 154
Period size: 55 Copynumber: 2.5 Consensus size: 55
35951645 CTTCTCCCAT
* * *
35951655 GCCCATGTTAGTTTAACAGGTTCGACCAC-GGTTGCTTGGCACGGGCGTGTCAAAC
1 GCCCATGTTAGTTTGACAGGTTCGACCACGGGTT-CTAGACACGGGCGTGTCAAAC
* * * *
35951710 GCCCATGTTGGTTTGACAGGTTCGGCTACGGGTTCTAGACACGGGCGTGTCGAAC
1 GCCCATGTTAGTTTGACAGGTTCGACCACGGGTTCTAGACACGGGCGTGTCAAAC
* * * * *
35951765 GTCCGTGTTATTTTGGCAGGTTCGCCCAC
1 GCCCATGTTAGTTTGACAGGTTCGACCAC
35951794 AGCTATGTCG
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
55 65 0.94
56 4 0.06
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.27
Consensus pattern (55 bp):
GCCCATGTTAGTTTGACAGGTTCGACCACGGGTTCTAGACACGGGCGTGTCAAAC
Found at i:35960213 original size:26 final size:26
Alignment explanation
Indices: 35960174--35960281 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
35960164 TGGTACAAAT
35960174 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
35960200 TAATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35960226 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
35960252 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35960278 TGAT
1 TGAT
35960282 GGGNNNNNNN
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:35961721 original size:27 final size:26
Alignment explanation
Indices: 35961683--35961820 Score: 177
Period size: 27 Copynumber: 5.1 Consensus size: 26
35961673 AAGCGTCCAA
*
35961683 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
* *
35961710 GTGGCTCTGCCACATGTATCTGTTTTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
*
35961737 GTGGCTATGCCACGATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
35961764 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
*
35961791 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACATTATCTG-ATCTG
35961818 GTG
1 GTG
35961821 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
26 10 0.10
27 85 0.88
28 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:35961765 original size:54 final size:53
Alignment explanation
Indices: 35961683--35961820 Score: 213
Period size: 54 Copynumber: 2.5 Consensus size: 53
35961673 AAGCGTCCAA
* *
35961683 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATGTATCTGTTTTG
1 GTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
35961737 GTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
* *
35961791 GTGGCTCTGCCACAATATCTGTATCTGGTG
1 GTGGCTATGCCACATTATCTG-ATCTGGTG
35961821 ACTTCGTCAC
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 7 0.09
54 71 0.91
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.36
Consensus pattern (53 bp):
GTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
Found at i:35961831 original size:27 final size:27
Alignment explanation
Indices: 35961683--35961838 Score: 169
Period size: 27 Copynumber: 5.8 Consensus size: 27
35961673 AAGCGTCCAA
*
35961683 GTGGCTATGCCACAATTATCTG-ATCTG
1 GTGGCTCTGCCACAA-TATCTGTATCTG
* *
35961710 GTGGCTCTGCCACATGTATCTGT-TTTG
1 GTGGCTCTGCCACA-ATATCTGTATCTG
* *
35961737 GTGGCTATGCCACGATTATCTG-ATCTG
1 GTGGCTCTGCCAC-AATATCTGTATCTG
35961764 GTGGCTCTGCCACATATATCTGT-TCTG
1 GTGGCTCTGCCACA-ATATCTGTATCTG
35961791 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
35961818 GTGACT-TCGTCACAATATCTG
1 GTGGCTCT-GCCACAATATCTG
35961839 GCAGCCTCGC
Statistics
Matches: 111, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 100 0.90
28 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:35966797 original size:26 final size:26
Alignment explanation
Indices: 35966768--35966875 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
35966758 TGGTACAAAT
35966768 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
35966794 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35966820 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
35966846 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35966872 TGAT
1 TGAT
35966876 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:35981861 original size:46 final size:46
Alignment explanation
Indices: 35981785--35982291 Score: 511
Period size: 46 Copynumber: 10.8 Consensus size: 46
35981775 TGATGTCATA
* * * * * *
35981785 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCACGTTGCCATG
** *** * *
35981831 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGTTGCCATG
* * *
35981878 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
** *
35981924 GTATCTTTCAACCATGGTCTTATTCATTTCGTATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
35981970 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCAT-
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
* ** * ** * * * * * *
35982015 GT-CCCGTGAACC-TCATCCTTACAGTGGGATTACCAGT-CCAGGCTAAATCCCCTG
1 GTATCTTTCAACCATGGT-CTTACA----CATT-TCA-TATCACG-T---TGCCATG
*
35982069 TAAGTATCTTTCAACCATGGTCTTACACATTTTATATCACGTTGCCATG
1 ---GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
35982118 TTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
35982164 GTATCTTTCAACCATGGTCTTACACATTTTATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
35982210 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
35982256 GTATCTTTCAACCATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCA
35982292 GAGAGCACAC
Statistics
Matches: 391, Mismatches: 50, Indels: 40
0.81 0.10 0.08
Matches are distributed among these distances:
43 2 0.01
44 12 0.03
45 2 0.01
46 293 0.75
47 38 0.10
48 3 0.01
49 10 0.03
50 2 0.01
52 2 0.01
53 8 0.02
54 3 0.01
57 2 0.01
58 12 0.03
59 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.38
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
Found at i:35982308 original size:286 final size:287
Alignment explanation
Indices: 35981784--35982357 Score: 866
Period size: 286 Copynumber: 2.0 Consensus size: 287
35981774 ATGATGTCAT
* * * * * * *
35981784 AGTATCTTTCAACTATGGTTTTACTCGTTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 AGTATCTTTCAACCATGGTCTTACACATTTTATATCACGTTGCCATGGTATCTTTCAACCATGGT
** * * * * * *
35981849 CTTATTCATTTTCCCGTCATGTTGTCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCA
66 CTTACACATTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
* ** *
35981914 GGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCGTATCACGTTGCCATGGTATCTTTC
131 CGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTC
* ** *
35981979 AACCATGGTCTTACACATTTCATATCACGTTGCCATGTCCCGTGAACCTCATCCTTACAGTGGGA
196 AACCATGGTCTTACACATTCCATATCACGGAGCCATCTCCCGTGAACCTCATCCTTACAGTGGGA
35982044 TTACCAGTCCAGGCTAAATCCCCTGTA
261 TTACCAGTCCAGGCTAAATCCCCTGTA
*
35982071 AGTATCTTTCAACCATGGTCTTACACATTTTATATCACGTTGCCATGTTATCTTTCAACCATGGT
1 AGTATCTTTCAACCATGGTCTTACACATTTTATATCACGTTGCCATGGTATCTTTCAACCATGGT
* *
35982136 CTTACACA-TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCA
66 CTTACACATTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
*
35982200 CGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTC
131 CGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTC
35982265 AACCATGGTCTTACACATTCCATATCA-GAGAGCACA-CTCCCGTGAACCTCATCCTTACAGTGG
196 AACCATGGTCTTACACATTCCATATCACG-GAGC-CATCTCCCGTGAACCTCATCCTTACAGTGG
35982328 GATTACCAGTCCAGGCTAAATCCCCTGTA
259 GATTACCAGTCCAGGCTAAATCCCCTGTA
35982357 A
1 A
35982358 TATAAACTCA
Statistics
Matches: 258, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
285 1 0.00
286 192 0.74
287 65 0.25
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (287 bp):
AGTATCTTTCAACCATGGTCTTACACATTTTATATCACGTTGCCATGGTATCTTTCAACCATGGT
CTTACACATTTTCACATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
CGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTC
AACCATGGTCTTACACATTCCATATCACGGAGCCATCTCCCGTGAACCTCATCCTTACAGTGGGA
TTACCAGTCCAGGCTAAATCCCCTGTA
Found at i:35985940 original size:43 final size:43
Alignment explanation
Indices: 35985877--35985958 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
35985867 ACATGTATAC
35985877 ATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTCGT
1 ATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTCGT
*
35985920 ATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGC
1 ATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
35985959 CACATAGATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (43 bp):
ATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTCGT
Found at i:35998466 original size:96 final size:97
Alignment explanation
Indices: 35998296--35998481 Score: 293
Period size: 96 Copynumber: 1.9 Consensus size: 97
35998286 TTTTTAAGAA
* * *
35998296 TGTGTTTGGCTGAGTAACTGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCG
1 TGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
* *
35998361 ATGTGTTCTTAAA-AAAAATAAAAATTAGGAG
66 ATATATTCTTAAACAAAAATAAAAATTAGGAG
* *
35998392 TGTGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGTGTCAAAAGGTTCA
1 TGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
*
35998457 ATATATTCTTAAACAAAACTAAAAA
66 ATATATTCTTAAACAAAAATAAAAA
35998482 AAACACATTA
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 71 0.88
97 10 0.12
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (97 bp):
TGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCA
ATATATTCTTAAACAAAAATAAAAATTAGGAG
Found at i:35999643 original size:29 final size:31
Alignment explanation
Indices: 35999595--35999658 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
35999585 TTTATAATTA
*
35999595 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
35999626 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
35999655 TTTA
1 TTTA
35999659 TTATTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:35999665 original size:8 final size:8
Alignment explanation
Indices: 35999636--35999668 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
35999626 TTTAATAAGA
35999636 TATTTTAT
1 TATTTTAT
35999644 TATTTTAT
1 TATTTTAT
35999652 TATTTTAT
1 TATTTTAT
35999660 TATTTTAT
1 TATTTTAT
35999668 T
1 T
35999669 TAGTCTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:36008795 original size:44 final size:44
Alignment explanation
Indices: 36008734--36009151 Score: 288
Period size: 44 Copynumber: 9.7 Consensus size: 44
36008724 CTTCAGTCTT
* *
36008734 CTCCACTGTAAATTCAGGGAGATAAGATTTGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTG
* * * * * **
36008778 CCCCGCTGCACCTTCAGGGAGATAAGGTTTATGGCTT-----T-
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTG
* * * * **
36008816 AT---CTGCAACTTCAGAGAGATAATA-TTGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAACCTG
* * *
36008857 CTCCACTACAACTTCAGGGAGATAAGACTCGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTG
* * * * * *
36008901 -TCCCACTGCAACTTCAGGGGGATAAGGTTTATAGCTTTAATCTG
1 CT-CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTG
* * * *
36008945 CTCTACTGCAACTTCAGAGAGATAAGATTT-CAATCTTCAGTCC-G
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAA-CTTCA-ACCTG
* * * *
36008989 CTTCACTGCAACTTCAGGGAGATAAGACTCGTTACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTG
* * * * *
36009033 CCCCACTGCAACTTTAGGGAGATAATG-TTTGCTATCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAA-GATTTG-TAACTTCAACCTG
* * * * *
36009078 CTCCACTGCAACTTTAGGGAGATAAGATCTATAACTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTG
* *
36009122 CTCCACTGCAACTTTAAGGAGATAAGATTT
1 CTCCACTGCAACTTCAGGGAGATAAGATTT
36009152 CCCACGATGA
Statistics
Matches: 287, Mismatches: 67, Indels: 40
0.73 0.17 0.10
Matches are distributed among these distances:
34 2 0.01
35 22 0.08
39 1 0.00
40 1 0.00
41 1 0.00
43 4 0.01
44 215 0.75
45 41 0.14
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAACCTG
Found at i:36009057 original size:132 final size:133
Alignment explanation
Indices: 36008818--36009148 Score: 425
Period size: 132 Copynumber: 2.5 Consensus size: 133
36008808 ATGGCTTTAT
* * * *
36008818 CTGCAACTTCAGAGAGATAATATTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAAGATTTCAATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
36008883 ACTCGTAACTTCAACCTGTCCCACTGCAACTTCAGGGGGATAAGGTTT-ATAGCTTTAATCTGCT
66 ACTCGTAACTTCAACCTGCCCCACTGCAACTTCAGGGAGATAAGGTTTGATAGCTTCAATCTACT
*
36008947 CTA
131 CCA
* *
36008950 CTGCAACTTCAGAGAGATAAGATTTCAATCTTCAGTCCGCTTCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAAGATTTCAATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
36009015 ACTCGTTACTTCAACCTGCCCCACTGCAACTTTAGGGAGATAATGTTTGCTATCTTCAATCTACT
66 ACTCGTAACTTCAACCTGCCCCACTGCAACTTCAGGGAGATAAGGTTTGATAGCTTCAATCTACT
36009080 CCA
131 CCA
* * * * * *
36009083 CTGCAACTTTAGGGAGATAAGATCTAT-AA-CTTCAATCTACTCCACTGCAACTTTAAGGAGATA
1 CTGCAACTTCAGAGAGATAAGAT-T-TCAATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
36009146 AGA
64 AGA
36009149 TTTCCCACGA
Statistics
Matches: 172, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
132 102 0.59
133 66 0.38
134 3 0.02
135 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (133 bp):
CTGCAACTTCAGAGAGATAAGATTTCAATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
ACTCGTAACTTCAACCTGCCCCACTGCAACTTCAGGGAGATAAGGTTTGATAGCTTCAATCTACT
CCA
Found at i:36009097 original size:89 final size:88
Alignment explanation
Indices: 36008903--36009152 Score: 254
Period size: 89 Copynumber: 2.8 Consensus size: 88
36008893 TCAACCTGTC
* * * * * * * * * * *
36008903 CCACTGCAACTTCAGGGGGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGAT
1 CCACTGCAACTTCAGGGAGATAAGATCTATAACTTCAACCTACCCCACTGCAACTTTAGGGAGAT
* *
36008968 AAGATTTCAATCTTCAGTCCGCT
66 AAGATTTCAATCTTCAATCCACT
* *
36008991 TCACTGCAACTTCAGGGAGATAAGACTCGT-T-ACTTCAACCTGCCCCACTGCAACTTTAGGGAG
1 CCACTGCAACTTCAGGGAGATAAGA-TC-TATAACTTCAACCTACCCCACTGCAACTTTAGGGAG
* *
36009054 ATAATG-TTTGCTATCTTCAATCTACT
64 ATAA-GATTT-CAATCTTCAATCCACT
* * * *
36009080 CCACTGCAACTTTAGGGAGATAAGATCTATAACTTCAATCTACTCCACTGCAACTTTAAGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGATCTATAACTTCAACCTACCCCACTGCAACTTTAGGGAGAT
36009145 AAGATTTC
66 AAGATTTC
36009153 CCACGATGAC
Statistics
Matches: 134, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
87 1 0.01
88 59 0.44
89 73 0.54
90 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (88 bp):
CCACTGCAACTTCAGGGAGATAAGATCTATAACTTCAACCTACCCCACTGCAACTTTAGGGAGAT
AAGATTTCAATCTTCAATCCACT
Found at i:36016104 original size:19 final size:20
Alignment explanation
Indices: 36016071--36016126 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
36016061 AGGGTCTTTT
* *
36016071 CATGAAATTTAATGCATATG
1 CATGAAATGTAATGCAAATG
*
36016091 -ATGCAATGTAATGCAAATG
1 CATGAAATGTAATGCAAATG
36016110 CATGAAATG-AATGCAAA
1 CATGAAATGTAATGCAAA
36016127 AAGAGGCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 24 0.77
20 7 0.23
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.27
Consensus pattern (20 bp):
CATGAAATGTAATGCAAATG
Found at i:36018694 original size:42 final size:42
Alignment explanation
Indices: 36018614--36018692 Score: 126
Period size: 41 Copynumber: 1.9 Consensus size: 42
36018604 ACAGGGGTTT
*
36018614 TCACACGGCCAGGCACACGCCCGTGTCTATAGCCTGTGTCTC
1 TCACACGGCCAGGCACACGCCCGTGTCTACAGCCTGTGTCTC
*
36018656 TCACACGGCCATG-ACACGCCCGTGTC-ACAGCCTGTGT
1 TCACACGGCCAGGCACACGCCCGTGTCTACAGCCTGTGT
36018693 GTAAAAACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 10 0.29
41 13 0.37
42 12 0.34
ACGTcount: A:0.18, C:0.38, G:0.24, T:0.20
Consensus pattern (42 bp):
TCACACGGCCAGGCACACGCCCGTGTCTACAGCCTGTGTCTC
Found at i:36019913 original size:49 final size:48
Alignment explanation
Indices: 36019810--36019913 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 48
36019800 ATGCCGACGT
* *
36019810 CATGTCCCAGACAAGGTCTTACACTGGCTAGTACATCAAAGTCGATGC
1 CATGTCCCAGACAAGGTCCTACACTGGCTACTACATCAAAGTCGATGC
**
36019858 CATGTCCCAGAC-AGGTCCTACACTGGCT-CTCATCTATCAGTGTCGATGC
1 CATGTCCCAGACAAGGTCCTACACTGGCTACT-A-C-ATCAAAGTCGATGC
36019907 CATGTCC
1 CATGTCC
36019914 ACTATAGGTC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
46 1 0.02
47 16 0.33
48 13 0.27
49 19 0.39
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (48 bp):
CATGTCCCAGACAAGGTCCTACACTGGCTACTACATCAAAGTCGATGC
Found at i:36020080 original size:94 final size:94
Alignment explanation
Indices: 36019951--36020161 Score: 234
Period size: 94 Copynumber: 2.2 Consensus size: 94
36019941 AAGCTGACAC
* * * *
36019951 CATGTCCCAGACAGGTCTTACACAAGCTTGTATATC-TCGAGGCTGATGCAT-TCCCCAAACATG
1 CATGTCCCAGACATGTCTTACACAAGCTTGTATATCTTC-AGACCGATCCATGT-CCCAAACATG
* *
36020014 TCTTACACTAGCTCTCGTCTCA-AT-GTCGATG
64 TCTTACACTAGCTCTCAT-T-ATATGGTCAATG
* * * *
36020045 CATGTCCCGGACATGTCTTATAC-TGACTTGTATATCTTCAGACCGATCCATGTCCCAGACATGT
1 CATGTCCCAGACATGTCTTACACAAG-CTTGTATATCTTCAGACCGATCCATGTCCCAAACATGT
* *
36020109 CTTACACTGGCTCTCATTATGTGGTCAATG
65 CTTACACTAGCTCTCATTATATGGTCAATG
36020139 CATGTCCCAGACATGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
36020162 TAGCACACAT
Statistics
Matches: 98, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
92 1 0.01
93 3 0.03
94 91 0.93
95 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACAAGCTTGTATATCTTCAGACCGATCCATGTCCCAAACATGTC
TTACACTAGCTCTCATTATATGGTCAATG
Found at i:36029510 original size:49 final size:48
Alignment explanation
Indices: 36029413--36029623 Score: 143
Period size: 49 Copynumber: 4.4 Consensus size: 48
36029403 GATGCTGACA
* * * *
36029413 CCATATCCCAGACATGGTCTTACACT-AGC-T-AGTACATCAAAGTCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGA-CTTCA-TATATCAAGGCCGATG
36029461 CCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCAAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGAC-TTCATATATCAAGGCCGATG
* * * * * *
36029510 CCGTGTCCCAGATAGATCTTACACTTG-CTCTCATCTATC-GGTGTCGATG
1 CCATGTCCCAGACAGGTCTTACAC-TGACT-TCATATATCAAG-GCCGATG
* * * * * * *
36029559 CCATGTCCTAGACAGGTCTTTCACTAAC-ACACA-AT-AA-GCTGACG
1 CCATGTCCCAGACAGGTCTTACACTGACTTCATATATCAAGGCCGATG
36029603 CCATGTCCCAGACAGGTCTTA
1 CCATGTCCCAGACAGGTCTTA
36029624 TACTAGCTTG
Statistics
Matches: 129, Mismatches: 25, Indels: 22
0.73 0.14 0.12
Matches are distributed among these distances:
44 23 0.18
46 2 0.02
47 14 0.11
48 17 0.13
49 70 0.54
50 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
CCATGTCCCAGACAGGTCTTACACTGACTTCATATATCAAGGCCGATG
Found at i:36032485 original size:17 final size:18
Alignment explanation
Indices: 36032463--36032506 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
36032453 ATCCATGGTG
* *
36032463 TAAAATAAAT-AAAGTGA
1 TAAAATAAATAAAAATAA
*
36032480 TAAAATACATAAAAATAA
1 TAAAATAAATAAAAATAA
36032498 TAAAATAAA
1 TAAAATAAA
36032507 AATAAAGATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (18 bp):
TAAAATAAATAAAAATAA
Found at i:36034213 original size:15 final size:15
Alignment explanation
Indices: 36034189--36034234 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
36034179 TGTGGGCTAC
*
36034189 TGGGTCTGTAATTTT
1 TGGGTTTGTAATTTT
*
36034204 TGGGTTTGTAAGATTT
1 TGGGTTTGTAA-TTTT
36034220 TGGGTTTGTAATTTT
1 TGGGTTTGTAATTTT
36034235 ATTTAGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.15, C:0.02, G:0.28, T:0.54
Consensus pattern (15 bp):
TGGGTTTGTAATTTT
Found at i:36041001 original size:22 final size:23
Alignment explanation
Indices: 36040976--36041027 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
36040966 ATTAAATGTT
*
36040976 TTAATTTAATT-TTTATAGAACA
1 TTAATTTAATTATTAATAGAACA
* *
36040998 TTAATGTAATTATTAATATAACA
1 TTAATTTAATTATTAATAGAACA
36041021 TT-ATTTA
1 TTAATTTA
36041028 TCGTTAACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (23 bp):
TTAATTTAATTATTAATAGAACA
Found at i:36043345 original size:22 final size:22
Alignment explanation
Indices: 36043303--36043355 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
36043293 ATATCTAAAC
*
36043303 AATAATAATAATATAATAGCAA
1 AATAATAATAAAATAATAGCAA
*
36043325 TATAATAATAAAATGAA-AGCAA
1 AATAATAATAAAAT-AATAGCAA
*
36043347 AACAATAAT
1 AATAATAAT
36043356 GAAACAACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (22 bp):
AATAATAATAAAATAATAGCAA
Found at i:36051419 original size:65 final size:65
Alignment explanation
Indices: 36051315--36051445 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
36051305 ACGGAAGCAT
* *
36051315 GTCGGCTTTGTGGTTGTGTGGGAGAGGATGTTATTCATATTCTTTGGGGTTGTAGAGCGGCTCAA
1 GTCGGCTTTGTGGTTGTGTGCGAGAGGATGTTATTCATATTCTTTGGGATTGTAGAGCGGCTCAA
36051380 GTCGGCTTTGTGGTTGTGTGCGAGAGGATGTTATTCATATTCTTTGGGATTGTAGAGCGGCTCAA
1 GTCGGCTTTGTGGTTGTGTGCGAGAGGATGTTATTCATATTCTTTGGGATTGTAGAGCGGCTCAA
36051445 G
1 G
36051446 AGTTGTGGAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.16, C:0.11, G:0.36, T:0.37
Consensus pattern (65 bp):
GTCGGCTTTGTGGTTGTGTGCGAGAGGATGTTATTCATATTCTTTGGGATTGTAGAGCGGCTCAA
Found at i:36054996 original size:20 final size:20
Alignment explanation
Indices: 36054945--36054996 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
36054935 TAATAACGCA
36054945 AATAATAATAATACATTAAT
1 AATAATAATAATACATTAAT
* * *
36054965 AAAAAAAATAATACGTTAAT
1 AATAATAATAATACATTAAT
*
36054985 AATAATATTAAT
1 AATAATAATAAT
36054997 GGTAAAAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
AATAATAATAATACATTAAT
Found at i:36055419 original size:3 final size:3
Alignment explanation
Indices: 36055411--36055560 Score: 96
Period size: 3 Copynumber: 50.0 Consensus size: 3
36055401 TAGTACCATG
* * * *
36055411 ATA ATA ATA A-A ATA ATA AAA ATA ATA AT- ATG TTA CTA ATA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * * *
36055458 ATAA ATA ATG GTA ATAA ATA TATA A-A ATA ATA GTA ACA GTA ATA A-A
1 AT-A ATA ATA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
36055504 ATA A-A TATA AT- ATA ATA ATA ATA ATA ATA TATA ATA ATA ACA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* *
36055549 TTA AAA ATA ATA
1 ATA ATA ATA ATA
36055561 TTCTCCCCCT
Statistics
Matches: 114, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
2 11 0.10
3 86 0.75
4 17 0.15
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:36055435 original size:17 final size:17
Alignment explanation
Indices: 36055411--36055560 Score: 85
Period size: 17 Copynumber: 8.5 Consensus size: 17
36055401 TAGTACCATG
36055411 ATAATAATAAAATAATA
1 ATAATAATAAAATAATA
* * *
36055428 AAAATAATAATATGTTACTA
1 ATAATAATAA-A--ATAATA
36055448 ATAATAAT-AAATAAATA
1 ATAATAATAAAAT-AATA
**
36055465 ATGGTAAT-AAATATATA
1 ATAATAATAAAATA-ATA
* * *
36055482 A-AATAATAGTAACAGTA
1 ATAATAATA-AAATAATA
36055499 ATAA-AATAAATATAAT-
1 ATAATAATAAA-ATAATA
36055515 ATAATAATAATAATAATA
1 ATAATAATAA-AATAATA
*
36055533 TATAATAATAACAATATTA
1 -ATAATAATAA-AATAATA
*
36055552 AAAATAATA
1 ATAATAATA
36055561 TTCTCCCCCT
Statistics
Matches: 101, Mismatches: 19, Indels: 25
0.70 0.13 0.17
Matches are distributed among these distances:
16 11 0.11
17 46 0.46
18 16 0.16
19 17 0.17
20 11 0.11
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (17 bp):
ATAATAATAAAATAATA
Found at i:36055523 original size:50 final size:50
Alignment explanation
Indices: 36055411--36055554 Score: 118
Period size: 50 Copynumber: 2.9 Consensus size: 50
36055401 TAGTACCATG
* ** *
36055411 ATAATAATAA-AATAATAA-AAATAATAATATGTTACTAATAATAATAAATAA
1 ATAATAATAATAATAATAATATATAATAATA--ACAATAATAA-AATAAATAA
** * *
36055462 ATAATGGTAATAAATATATAA-A-ATAATAGTAACAGTAATAAAATAAATATA
1 ATAATAATAAT-AATA-ATAATATATAATAATAACAATAATAAAATAAATA-A
*
36055513 AT-ATAATAATAATAATAATATATAATAATAACAATATTAAAA
1 ATAATAATAATAATAATAATATATAATAATAACAATAATAAAA
36055555 ATAATATTCT
Statistics
Matches: 76, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
48 4 0.05
49 5 0.07
50 32 0.42
51 18 0.24
53 12 0.16
54 5 0.07
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (50 bp):
ATAATAATAATAATAATAATATATAATAATAACAATAATAAAATAAATAA
Found at i:36055981 original size:30 final size:30
Alignment explanation
Indices: 36055914--36055982 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
36055904 TTTGCAAGCA
* * *
36055914 AGTGGGGCGATGGAGTTAGTGGGGTGGTTT
1 AGTGGGGTGATGGAGTTAGTGGCGTGATTT
*
36055944 AGTGGGGTGTTGGAGTTAGTGGCGTGATTT
1 AGTGGGGTGATGGAGTTAGTGGCGTGATTT
36055974 AGTGGGGTG
1 AGTGGGGTG
36055983 GTATTTGGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.13, C:0.03, G:0.52, T:0.32
Consensus pattern (30 bp):
AGTGGGGTGATGGAGTTAGTGGCGTGATTT
Found at i:36060457 original size:2 final size:2
Alignment explanation
Indices: 36060450--36060475 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36060440 TAAAACTTAG
36060450 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
36060476 AATCCAAATG
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:36065586 original size:19 final size:20
Alignment explanation
Indices: 36065548--36065585 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
36065538 TATATATATT
36065548 TTTAT-ATTTTTTTAAAAAA
1 TTTATAATTTTTTTAAAAAA
36065567 TTTATAATTTTTTTAAAAA
1 TTTATAATTTTTTTAAAAA
36065586 TATAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTATAATTTTTTTAAAAAA
Found at i:36073933 original size:17 final size:16
Alignment explanation
Indices: 36073880--36073934 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 16
36073870 TATTTTGAAA
*
36073880 AATATATAAATATATGT
1 AATATATATA-ATATGT
36073897 AATATATTATAA-AT-T
1 AATATA-TATAATATGT
*
36073912 TATATATATAATATGT
1 AATATATATAATATGT
36073928 AA-ATATA
1 AATATATA
36073935 GAAAAGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 5 0.16
15 13 0.41
16 4 0.12
17 7 0.22
18 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (16 bp):
AATATATATAATATGT
Found at i:36074083 original size:22 final size:25
Alignment explanation
Indices: 36074055--36074108 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
36074045 TTTTTTATAT
36074055 TTTTATT-AA-TTATATATTTT-AA
1 TTTTATTAAAGTTATATATTTTGAA
36074077 TTTTATTAAAAGTTTATATATTTTGAA
1 TTTTATT-AAAG-TTATATATTTTGAA
36074104 TTTTA
1 TTTTA
36074109 AAATATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.26
24 2 0.07
26 11 0.41
27 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTTATTAAAGTTATATATTTTGAA
Done.