Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 33 of 126
Found at i:6948206 original size:72 final size:71
Alignment explanation
Indices: 6948114--6948290 Score: 174
Period size: 72 Copynumber: 2.5 Consensus size: 71
6948104 GATGACCAGA
* * * *
6948114 ACAATACCGTAGGTCAAAAAAATAAAGATGACCAAGATAACACCAATGATCAAAAAAATAAATAT
1 ACAATACCGCA-GTCAAAAAAATAAAGATGACCAAGACAACACCAACGATAAAAAAAATAAATAT
6948179 GATCGGG
65 GATCGGG
* * * * *** * *
6948186 ATAATACCGCAGATCGAAAAAACAAAGATAACTGGGACAACACTAACGATAAAAAAAATGAATAT
1 ACAATACCGCAG-TCAAAAAAATAAAGATGACCAAGACAACACCAACGATAAAAAAAATAAATAT
*
6948251 GATTGGG
65 GATCGGG
* * *
6948258 ACAACACCAACAGTCAAAAAAATAAATATGACC
1 ACAATACC-GCAGTCAAAAAAATAAAGATGACC
6948291 TCTACAATAT
Statistics
Matches: 81, Mismatches: 22, Indels: 4
0.76 0.21 0.04
Matches are distributed among these distances:
71 1 0.01
72 77 0.95
73 3 0.04
ACGTcount: A:0.53, C:0.16, G:0.15, T:0.16
Consensus pattern (71 bp):
ACAATACCGCAGTCAAAAAAATAAAGATGACCAAGACAACACCAACGATAAAAAAAATAAATATG
ATCGGG
Found at i:6948318 original size:144 final size:144
Alignment explanation
Indices: 6948167--6948427 Score: 337
Period size: 144 Copynumber: 1.8 Consensus size: 144
6948157 CAATGATCAA
* *
6948167 AAAAATAAATATGATCGGGATAATACCGCA-GATCGAAAAAACAAAGATAACTGGGACAACACTA
1 AAAAATAAATATGATCGAGATAATACC-AATGATCGAAAAAACAAAGATAACTGGGACAACACTA
* *
6948231 ACGATAAAAAAAATGAATATGATTGGGACAACACCA-ACAGTCAAAAAAATAAATATGACCTCTA
65 ACGATAAAAAAAATAAATATGAGTGGGACAACACCACA-AGTCAAAAAAATAAATATGACCTCTA
6948295 CAATATCGCAGGTTGG
129 CAATATCGCAGGTTGG
* * * * ** * * * * *
6948311 AAAAATAAATATGGTCGAGCTAATACCAATGGTTGAGGAAACAAATATGATTGGGGCAATACTAA
1 AAAAATAAATATGATCGAGATAATACCAATGATCGAAAAAACAAAGATAACTGGGACAACACTAA
* *
6948376 CGATCAAAAAAATAAATATGAGTGGGATAACACCACAAGTCAAAAAAATAAA
66 CGATAAAAAAAATAAATATGAGTGGGACAACACCACAAGTCAAAAAAATAAA
6948428 AATGCTTGTG
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
143 1 0.01
144 96 0.98
145 1 0.01
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (144 bp):
AAAAATAAATATGATCGAGATAATACCAATGATCGAAAAAACAAAGATAACTGGGACAACACTAA
CGATAAAAAAAATAAATATGAGTGGGACAACACCACAAGTCAAAAAAATAAATATGACCTCTACA
ATATCGCAGGTTGG
Found at i:6948445 original size:36 final size:36
Alignment explanation
Indices: 6948378--6948468 Score: 87
Period size: 36 Copynumber: 2.5 Consensus size: 36
6948368 AATACTAACG
*
6948378 ATCAAAAAAATAAATATGAGTGGGATAACACC-ACA
1 ATCAAAAAAATAAAAATGAGTGGGATAACACCAACA
** *
6948413 AGTCAAAAAAATAAAAATGCTTGTGACT-ACACCAACA
1 A-TCAAAAAAATAAAAATGAGTGGGA-TAACACCAACA
* * *
6948450 ATAAAAAAAACAAATATGA
1 ATCAAAAAAATAAAAATGA
6948469 CTAGGACAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
35 1 0.02
36 39 0.87
37 5 0.11
ACGTcount: A:0.57, C:0.14, G:0.11, T:0.18
Consensus pattern (36 bp):
ATCAAAAAAATAAAAATGAGTGGGATAACACCAACA
Found at i:6948485 original size:22 final size:22
Alignment explanation
Indices: 6948457--6948499 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6948447 ACAATAAAAA
6948457 AAACAAATATGACTAGGACAAT
1 AAACAAATATGACTAGGACAAT
* *
6948479 AAACAAATATGATTGGGACAA
1 AAACAAATATGACTAGGACAA
6948500 CACCAACGGT
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:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (22 bp):
AAACAAATATGACTAGGACAAT
Found at i:6948526 original size:36 final size:36
Alignment explanation
Indices: 6948483--6948607 Score: 117
Period size: 36 Copynumber: 3.5 Consensus size: 36
6948473 GACAATAAAC
* *
6948483 AAATATGATTGGGACAACACCAACGGTCGAGAAAAT
1 AAATATGATTGGGACAACACCAACGGTCAAAAAAAT
**** **
6948519 AAATATGAGCAAGACAACATCTTA-GGTCAAAAAAAT
1 AAATATGATTGGGACAACA-CCAACGGTCAAAAAAAT
* * * *
6948555 AAAGATGATTGGAACCACACCAACGGTCAAAAAAAC
1 AAATATGATTGGGACAACACCAACGGTCAAAAAAAT
*
6948591 AAATATGACTGGGACAA
1 AAATATGATTGGGACAA
6948608 TACCGTAAGT
Statistics
Matches: 65, Mismatches: 22, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
35 2 0.03
36 61 0.94
37 2 0.03
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.16
Consensus pattern (36 bp):
AAATATGATTGGGACAACACCAACGGTCAAAAAAAT
Found at i:6948587 original size:130 final size:130
Alignment explanation
Indices: 6948349--6948609 Score: 317
Period size: 130 Copynumber: 2.0 Consensus size: 130
6948339 ATGGTTGAGG
* * * *** *
6948349 AAACAAATATGATTGGGGCAATACTAACGATCAAAAAAATAAATATGAGTGGGATAACACCACAA
1 AAACAAATATGATTGGGACAACACCAACGATCAAAAAAATAAATATGAGCAAGACAACACCACAA
* *
6948414 GTCAAAAAAATAAAAATGCTTGTGACTACACCAACAATAAAAAAAACAAATATGACTAGGACAAT
66 GTCAAAAAAATAAAAATGATTGTGACCACACCAACAATAAAAAAAACAAATATGACTAGGACAAT
* * * * ** *
6948479 AAACAAATATGATTGGGACAACACCAACGGTCGAGAAAATAAATATGAGCAAGACAACATCTTAG
1 AAACAAATATGATTGGGACAACACCAACGATCAAAAAAATAAATATGAGCAAGACAACACCACAA
* ** * *
6948544 GTCAAAAAAATAAAGATGATTG-GAACCACACCAACGGTCAAAAAAACAAATATGACTGGGACAA
66 GTCAAAAAAATAAAAATGATTGTG-ACCACACCAACAATAAAAAAAACAAATATGACTAGGACAA
6948608 T
130 T
6948609 A
1 A
6948610 CCGTAAGTCA
Statistics
Matches: 109, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
129 1 0.01
130 108 0.99
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.17
Consensus pattern (130 bp):
AAACAAATATGATTGGGACAACACCAACGATCAAAAAAATAAATATGAGCAAGACAACACCACAA
GTCAAAAAAATAAAAATGATTGTGACCACACCAACAATAAAAAAAACAAATATGACTAGGACAAT
Found at i:6948607 original size:72 final size:71
Alignment explanation
Indices: 6948487--6948633 Score: 170
Period size: 72 Copynumber: 2.1 Consensus size: 71
6948477 ATAAACAAAT
* * * * * * *
6948487 ATGATTGGGACAACACCAACGGTCGAGAAAATAAATATGAGCAAGACAACATCTTAGGTCAAAAA
1 ATGATTGGAACAACACCAACGGTCAAAAAAACAAATATGAGCAAGACAACACCGTAAGTC-AAAA
6948552 AATAAAG
65 AATAAAG
* ** *
6948559 ATGATTGGAACCACACCAACGGTCAAAAAAACAAATATGA-CTGGGACAATACCGTAAGTCAAAA
1 ATGATTGGAACAACACCAACGGTCAAAAAAACAAATATGAGC-AAGACAACACCGTAAGTCAAAA
6948623 AATAAAG
65 AATAAAG
6948630 ATGA
1 ATGA
6948634 CCAGACAACA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
71 16 0.25
72 47 0.75
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.16
Consensus pattern (71 bp):
ATGATTGGAACAACACCAACGGTCAAAAAAACAAATATGAGCAAGACAACACCGTAAGTCAAAAA
ATAAAG
Found at i:6948760 original size:36 final size:35
Alignment explanation
Indices: 6948682--6948950 Score: 136
Period size: 36 Copynumber: 7.6 Consensus size: 35
6948672 CATCGCAGGT
* * * *
6948682 AAAA-AAAAATGAAT-AAGACAAAACCAACGGTCGAG
1 AAAATAAAAATG-ATCAGGACAACACCAATGGTTG-G
* * *
6948717 AAAATAAAAATGATCAAGACAATACCAATAGTTGG
1 AAAATAAAAATGATCAGGACAACACCAATGGTTGG
* *
6948752 AAAGATAAAGATAAT-AGGACAACACCAATGGTTAGG
1 AAA-ATAAAAATGATCAGGACAACACCAATGGTT-GG
* * * *
6948788 -AAACAAAAGTGACTC-GGACAACACTAATGGTTGA
1 AAAATAAAAATGA-TCAGGACAACACCAATGGTTGG
* ** **
6948822 AAAGATAAAAATGATTAGGACAACACCAACAGTCAAG
1 AAA-ATAAAAATGATCAGGACAACACCAATGGT-TGG
* * *
6948859 AAAATAAAGATGATC-GAGACAACACTAATGGTTGA
1 AAAATAAAAATGATCAG-GACAACACCAATGGTTGG
** ** **
6948894 AAAGATAAAAACAATTGGGACAACACCAACAGTTGGG
1 AAA-ATAAAAATGATCAGGACAACACCAATGGTT-GG
* * *
6948931 AAGATAAAGATGATTAGGAC
1 AAAATAAAAATGATCAGGAC
6948951 CTCCTTCTAA
Statistics
Matches: 175, Mismatches: 45, Indels: 27
0.71 0.18 0.11
Matches are distributed among these distances:
34 7 0.04
35 51 0.29
36 110 0.63
37 7 0.04
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.16
Consensus pattern (35 bp):
AAAATAAAAATGATCAGGACAACACCAATGGTTGG
Found at i:6948889 original size:72 final size:72
Alignment explanation
Indices: 6948686--6948944 Score: 258
Period size: 72 Copynumber: 3.6 Consensus size: 72
6948676 GCAGGTAAAA
* * * * * * * * *
6948686 AAAAATGAATAAGACAAAACCAACGGTCGAGAAAATAAAAATGATCAAGACAATACCAATAGTTG
1 AAAAATGAATAGGACAACACCAACAGTCAAGAAAATAAAGATGATCGAGACAACACTAATGGTTG
*
6948751 GAAAGAT
66 AAAAGAT
* ** * *
6948758 AAAGAT-AATAGGACAACACCAATGGTTAGGAAACA-AAAG-TGACTCG-GACAACACTAATGGT
1 AAAAATGAATAGGACAACACCAACAGTCAAGAAA-ATAAAGATGA-TCGAGACAACACTAATGGT
6948819 TGAAAAGAT
64 TGAAAAGAT
*
6948828 AAAAATGATTAGGACAACACCAACAGTCAAGAAAATAAAGATGATCGAGACAACACTAATGGTTG
1 AAAAATGAATAGGACAACACCAACAGTCAAGAAAATAAAGATGATCGAGACAACACTAATGGTTG
6948893 AAAAGAT
66 AAAAGAT
* * *** *
6948900 AAAAA-CAATTGGGACAACACCAACAGTTGGGAAGATAAAGATGAT
1 AAAAATGAA-TAGGACAACACCAACAGTCAAGAAAATAAAGATGAT
6948945 TAGGACCTCC
Statistics
Matches: 154, Mismatches: 26, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
70 29 0.19
71 56 0.36
72 69 0.45
ACGTcount: A:0.51, C:0.14, G:0.19, T:0.16
Consensus pattern (72 bp):
AAAAATGAATAGGACAACACCAACAGTCAAGAAAATAAAGATGATCGAGACAACACTAATGGTTG
AAAAGAT
Found at i:6949061 original size:36 final size:36
Alignment explanation
Indices: 6948697--6949061 Score: 90
Period size: 36 Copynumber: 10.2 Consensus size: 36
6948687 AAAATGAATA
* * * * * *
6948697 AGACAAAACCAACGGTCGAGAAAATAAAAATGATCA
1 AGACAACACCAATGGTCAAGAAGATAAAGATGATCG
* * ** * *
6948733 AGACAATACCAATAGT-TGGAAAGATAAAGATAATAG
1 AGACAACACCAATGGTCAAG-AAGATAAAGATGATCG
* * *
6948769 -GACAACACCAATGGTTAGGAA-ACAAA-AGTGACTCG
1 AGACAACACCAATGGTCAAGAAGATAAAGA-TGA-TCG
* * * *
6948804 -GACAACACTAATGGTTGAA-AAGATAAAAATGAT-T
1 AGACAACACCAATGG-TCAAGAAGATAAAGATGATCG
** *
6948838 AGGACAACACCAACAGTCAAGAAAATAAAGATGATCG
1 A-GACAACACCAATGGTCAAGAAGATAAAGATGATCG
* * * ** *
6948875 AGACAACACTAATGGTTGAA-AAGATAAAAACAATTG
1 AGACAACACCAATGG-TCAAGAAGATAAAGATGATCG
* ** *** *
6948911 GGACAACACCAACAGTTGGGAAGATAAAGATGAT-T
1 AGACAACACCAATGGTCAAGAAGATAAAGATGATCG
** *** * *
6948946 AGGACCTC-CTTCTAATGGTTGGGAA-ATAGAAG-TGACCA
1 A-GACAACAC--C-AATGGTCAAGAAGATA-AAGATGATCG
* * * * * *
6948984 AAACAACACCAACGATAAAAAAGATAAAGAT-AACTG
1 AGACAACACCAATGGTCAAGAAGATAAAGATGATC-G
*
6949020 GGACAACACCAATGGTCAAGAAGATAAAGATGATCG
1 AGACAACACCAATGGTCAAGAAGATAAAGATGATCG
6949056 AGACAA
1 AGACAA
6949062 GGAAAATAAA
Statistics
Matches: 231, Mismatches: 74, Indels: 48
0.65 0.21 0.14
Matches are distributed among these distances:
33 1 0.00
34 6 0.03
35 50 0.22
36 142 0.61
37 17 0.07
38 15 0.06
ACGTcount: A:0.49, C:0.15, G:0.20, T:0.16
Consensus pattern (36 bp):
AGACAACACCAATGGTCAAGAAGATAAAGATGATCG
Found at i:6949132 original size:35 final size:35
Alignment explanation
Indices: 6949081--6949173 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 35
6949071 AAATAACCAA
* *
6949081 GATAATACCAATGGTTAAAAAGTAAAGATGACTGG
1 GATAACACCAATGGTTAAAAAGTAAAAATGACTGG
* * *
6949116 GATAACACCAACGGTTAAAAAAATAAAAATGATTGG
1 GATAACACCAATGGTT-AAAAAGTAAAAATGACTGG
* *
6949152 GATAACACTAATGGTCAAAAAG
1 GATAACACCAATGGTTAAAAAG
6949174 ATCATTGGGA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
35 19 0.40
36 29 0.60
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.20
Consensus pattern (35 bp):
GATAACACCAATGGTTAAAAAGTAAAAATGACTGG
Found at i:6949850 original size:80 final size:81
Alignment explanation
Indices: 6949676--6949851 Score: 219
Period size: 80 Copynumber: 2.2 Consensus size: 81
6949666 ATACGGATCC
** *
6949676 AATGCAAATGTAAACATAAGTGATGTAAATGCGCATACTTTTTTTTTTATTTTTACAACATGCAA
1 AATGCAAATGTAAACATAAGTGATGTAAATGCAAAGAC--TTTTTTTTATTTTTACAACATGCAA
* *
6949741 ATTAATTGTCTTTCTTAT
64 ATCAAATGTCTTTCTTAT
* * * * *
6949759 AATGCATATGTAAGCATAAGTGATGTGAATGCAAAGAC-TTTTTTTATTTTTGCAACTTGCAAAT
1 AATGCAAATGTAAACATAAGTGATGTAAATGCAAAGACTTTTTTTTATTTTTACAACATGCAAAT
6949823 CAAATGTCTTTCTTAT
66 CAAATGTCTTTCTTAT
* *
6949839 GATGTAAATGTAA
1 AATGCAAATGTAA
6949852 TTGTTGCAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 48 0.60
83 32 0.40
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (81 bp):
AATGCAAATGTAAACATAAGTGATGTAAATGCAAAGACTTTTTTTTATTTTTACAACATGCAAAT
CAAATGTCTTTCTTAT
Found at i:6960029 original size:23 final size:23
Alignment explanation
Indices: 6959980--6960037 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
6959970 ATCATACTTC
**
6959980 TTTAATTTTTTAAAAAATCAGGT
1 TTTAATTTTTTAAAAAATCAGAA
6960003 TTTAATATTTTTAAAAAATCA-AA
1 TTTAAT-TTTTTAAAAAATCAGAA
6960026 TTT-ATTTCTTTA
1 TTTAATTT-TTTA
6960038 TTTTTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 2 0.06
22 6 0.19
23 9 0.29
24 14 0.45
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (23 bp):
TTTAATTTTTTAAAAAATCAGAA
Found at i:6960351 original size:30 final size:30
Alignment explanation
Indices: 6960290--6960351 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
6960280 GATTTTTATG
* *
6960290 AAAATACTATATCATAATTATGTAATTTAT
1 AAAATACTATATCATAATTATATAATATAT
* *
6960320 AAAATTCTATATCATAATTGTATAATATAT
1 AAAATACTATATCATAATTATATAATATAT
6960350 AA
1 AA
6960352 GATTAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (30 bp):
AAAATACTATATCATAATTATATAATATAT
Found at i:6962065 original size:13 final size:13
Alignment explanation
Indices: 6962047--6962077 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6962037 AGGAAAAGAT
*
6962047 AAAAAAAAAGTAA
1 AAAAAAAAAGGAA
6962060 AAAAAAAAAGGAA
1 AAAAAAAAAGGAA
6962073 AAAAA
1 AAAAA
6962078 GAGAAAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAGGAA
Found at i:6962801 original size:18 final size:18
Alignment explanation
Indices: 6962764--6962802 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
6962754 ATTGTGAAAT
6962764 AATTAAATGATTAAAACAA
1 AATTAAATGATT-AAACAA
6962783 AATTAAAATGATT-AACAA
1 AATT-AAATGATTAAACAA
6962801 AA
1 AA
6962803 AATATGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 4 0.21
20 8 0.42
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AATTAAATGATTAAACAA
Found at i:6964043 original size:3 final size:3
Alignment explanation
Indices: 6964030--6964094 Score: 58
Period size: 3 Copynumber: 21.7 Consensus size: 3
6964020 ATTTTCTAAC
* * * * * * *
6964030 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAC AAC AAC AAC AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
6964078 AAC AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
6964095 AAGGAAAATG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.66, C:0.11, G:0.02, T:0.22
Consensus pattern (3 bp):
AAT
Found at i:6969511 original size:59 final size:59
Alignment explanation
Indices: 6969422--6969641 Score: 327
Period size: 59 Copynumber: 3.7 Consensus size: 59
6969412 TTATGTAGGA
6969422 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAGG
* * * *
6969481 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAGG
**
6969540 AAAATTGATACTTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAAACTTTGATTTTCGAGG
1 AAAATTGATAC-TTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAA-TTT-ATTTTTAAGG
*
6969600 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTT
6969642 AAATCTTTTT
Statistics
Matches: 145, Mismatches: 10, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
58 10 0.07
59 90 0.62
60 39 0.27
62 6 0.04
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAAGG
Found at i:6969561 original size:119 final size:118
Alignment explanation
Indices: 6969422--6969645 Score: 362
Period size: 119 Copynumber: 1.9 Consensus size: 118
6969412 TTATGTAGGA
*
6969422 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAA-TTT-ATTTTTAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGAAAACTTTGATTTTCAAGGAAAA
* *
6969485 TTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAATTTTATTTTTAAGG
64 TTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTGAAATTTTATTTTTAAGG
*
6969540 AAAATTGATACTTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGATTTTCGAGGAAAAT
1 AAAATTGATAC-TTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGGAAAAT
*
6969605 TGATACTTTCAACTTTTCCTCAAAAATATATTTTTTTAAAT
65 TGATACTTTCAACTTTTCCTCAAAAATATATTTTTTGAAAT
6969646 CTTTTTATCT
Statistics
Matches: 98, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
117 11 0.11
118 14 0.14
119 73 0.74
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGATTTTCAAGGAAAATT
GATACTTTCAACTTTTCCTCAAAAATATATTTTTTGAAATTTTATTTTTAAGG
Found at i:6972269 original size:28 final size:28
Alignment explanation
Indices: 6972228--6972290 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
6972218 TGGGCAAAAG
* *
6972228 GAGAAGCGGTTGTCGGCATCTTGGGGCA
1 GAGAAGCGGGTGTCGGCACCTTGGGGCA
* *
6972256 GAGAAGTGGGTGTCGGCGCCTTGGGGCA
1 GAGAAGCGGGTGTCGGCACCTTGGGGCA
6972284 GAGAAGC
1 GAGAAGC
6972291 TGGATGAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.17, G:0.46, T:0.17
Consensus pattern (28 bp):
GAGAAGCGGGTGTCGGCACCTTGGGGCA
Found at i:6972981 original size:108 final size:104
Alignment explanation
Indices: 6972754--6973107 Score: 465
Period size: 108 Copynumber: 3.4 Consensus size: 104
6972744 GTTTTAAAAC
* * *
6972754 TTGATCAAAGCTCCTTTAAGCAGAGGCTCAATGATTTTGAGAAACATAAACAAAGCTCCTCTAAA
1 TTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAACTCCTCTAAA
* *
6972819 TAGAGGTAAC---TT-TTTTTTGT-TTTTTTTTTTTATT
66 TAGAGGCAACTTTTTATTTTTTTTATTTTTTTTTTTATT
* *
6972853 TTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGATTTTGAGAAACATAAACAAAGCTCCTCTAAA
1 TTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAACTCCTCTAAA
*
6972918 TAGAGGCAA-TTTTT-TTTTGTCCATTTTTTTGCTTTTTTTTATT
66 TAGAGGCAACTTTTTATTTT-T---TTTATTT--TTTTTTTTATT
*
6972961 TTGATCAAAGCTCCTCTAAGCAGAAGCTCAATGACTTTGAGAAACATAAACAAAACTCCTCTAAA
1 TTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAACTCCTCTAAA
*
6973026 TAGAGGCAACCTTTTTATTTTTTTTATTTTTGTTTTTATT
66 TAGAGGCAA-CTTTTTATTTTTTTTATTTTTTTTTTTATT
** *
6973066 TT-ATCAAAGCTCCTCTAAATAGAGGCTCAACGACTTTG-GAAA
1 TTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAA
6973108 GTAAATTGCT
Statistics
Matches: 230, Mismatches: 12, Indels: 22
0.87 0.05 0.08
Matches are distributed among these distances:
99 72 0.31
101 6 0.03
102 1 0.00
103 4 0.02
104 32 0.14
105 14 0.06
106 3 0.01
107 6 0.03
108 82 0.36
110 6 0.03
111 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (104 bp):
TTGATCAAAGCTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAACTCCTCTAAA
TAGAGGCAACTTTTTATTTTTTTTATTTTTTTTTTTATT
Found at i:6973166 original size:42 final size:42
Alignment explanation
Indices: 6973074--6973533 Score: 655
Period size: 42 Copynumber: 11.1 Consensus size: 42
6973064 TTTTATCAAA
* * *
6973074 GCTCCTCTAAATAGAGGCTCAACGACTTTG-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
*
6973115 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
* * *
6973157 GCTCCTCTAAACAGAGGCACCATGACTTTGGGAATGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
*
6973199 GCTCCTCTAAACAGAGGCACCACGAC-TT-CGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
* * * *
6973239 GCTCCTCTAAACAGAGACACCACGACTTTAAAAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
* * *
6973281 GCTCATCTAAACAGAGGCACCACGACTTTGGGAATGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
*
6973323 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
* * *
6973365 GCTCCTCTAAACAGAGGCACCATGAC-TTCAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
* * *
6973406 GCTCCTCTAAACAGAGGCACCATGAC-TTCAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
6973447 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
*
6973488 GCTCCTCTAAACAGAGGCACCACGACTTCGA-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
*
6973529 ACTCC
1 GCTCC
6973534 CTGACAATCA
Statistics
Matches: 381, Mismatches: 34, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
40 35 0.09
41 163 0.43
42 183 0.48
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
Found at i:6973295 original size:124 final size:125
Alignment explanation
Indices: 6973074--6973515 Score: 676
Period size: 124 Copynumber: 3.6 Consensus size: 125
6973064 TTTTATCAAA
* * * *
6973074 GCTCCTCTAAATAGAGGCTCAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* *
6973139 ACTTTGAGAAATTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGGAATGTAAATT
66 ACTTTAAAAAATTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGGAATGTAAATT
* *
6973199 GCTCCTCTAAACAGAGGCACCACGAC-TTCGAAAGTAAATTGCTCCTCTAAACAGAGACACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* *
6973263 ACTTTAAAAAATTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGGGAATGTAAATT
66 ACTTTAAAAAATTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGGAATGTAAATT
* *
6973323 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAATTAAATTGCTCCTCTAAACAGAGGCACCAT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-AGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * *** *
6973388 GAC-TTCAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGAC-TTCAAAAAGTAAATT
65 GACTTTAAAAAATTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGGAATGTAAATT
6973447 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTAG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
6973511 GACTT
65 GACTT
6973516 CGAAAAGTAA
Statistics
Matches: 290, Mismatches: 23, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
122 1 0.00
123 34 0.12
124 159 0.55
125 62 0.21
126 34 0.12
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (125 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTAGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTAAAAAATTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTGGGAATGTAAATT
Found at i:6973352 original size:166 final size:166
Alignment explanation
Indices: 6973074--6973533 Score: 687
Period size: 166 Copynumber: 2.8 Consensus size: 166
6973064 TTTTATCAAA
* * * **
6973074 GCTCCTCTAAATAGAGGCTCAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* *
6973139 ACTTTGAGAAAT-TAAATTGCTCCTCTAAACAGAGGCACCATGACTTTG-GGAATGTAAATTGCT
66 ACTTTG-GAAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAT-TAAATTGCT
*
6973202 CCTCTAAACAGAGGCACCACGACTTC-GAAAGTAAATT
129 CCTCTAAACAGAGGCACCACGACTTCAAAAAGTAAATT
* * *
6973239 GCTCCTCTAAACAGAGACACCACGACTTTAAAAAATTAAATTGCTCATCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-AAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
6973304 GACTTTGGGAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAATTAAATTGCTC
65 GACTTTGGAAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAATTAAATTGCTC
*
6973369 CTCTAAACAGAGGCACCATGACTTCAAAAAGTAAATT
130 CTCTAAACAGAGGCACCACGACTTCAAAAAGTAAATT
* *
6973406 GCTCCTCTAAACAGAGGCACCATGACTTCAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
* * * *
6973471 ACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTCGA-AAAGTAAATTACTCC
66 ACTTTGGAAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAATTAAATTGCTCC
6973534 CTGACAATCA
Statistics
Matches: 268, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
164 13 0.05
165 69 0.26
166 146 0.54
167 40 0.15
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (166 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGGAAATGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAGAAATTAAATTGCTCC
TCTAAACAGAGGCACCACGACTTCAAAAAGTAAATT
Found at i:6973562 original size:82 final size:81
Alignment explanation
Indices: 6973074--6973533 Score: 607
Period size: 82 Copynumber: 5.6 Consensus size: 81
6973064 TTTTATCAAA
* * * * *
6973074 GCTCCTCTAAATAGAGGCTCAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTCGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
6973139 ACTTTGAGAAATTAAATT
66 AC-TTGA-AAAGTAAATT
* * * *
6973157 GCTCCTCTAAACAGAGGCACCATGACTTTGGGAATGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTCGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
6973222 GACTTCG-AAAGTAAATT
65 GACTT-GAAAAGTAAATT
* ** * *
6973239 GCTCCTCTAAACAGAGACACCACGACTTTAAAAAATTAAATTGCTCATCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTCGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
6973304 GACTTTGGGAATGTAAATT
65 GAC-TT-GAAAAGTAAATT
* * *
6973323 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAATTAAATTGCTCCTCTAAACAGAGGCACCAT
1 GCTCCTCTAAACAGAGGCACCACGACTTCGA-AAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
6973388 GACTTCAAAAAGTAAATT
65 GACTT-GAAAAGTAAATT
* *
6973406 GCTCCTCTAAACAGAGGCACCATGACTTCAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTCGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
6973471 ACTTTGAAAAGTAAATT
66 AC-TTGAAAAGTAAATT
*
6973488 GCTCCTCTAAACAGAGGCACCACGACTTCGAAAAGTAAATTACTCC
1 GCTCCTCTAAACAGAGGCACCACGACTTCGAAAAGTAAATTGCTCC
6973534 CTGACAATCA
Statistics
Matches: 336, Mismatches: 35, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
82 157 0.47
83 71 0.21
84 108 0.32
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCACCACGACTTCGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTGAAAAGTAAATT
Found at i:6974782 original size:9 final size:9
Alignment explanation
Indices: 6974757--6974825 Score: 51
Period size: 9 Copynumber: 8.2 Consensus size: 9
6974747 TCAATTTAGA
*
6974757 TCTCTTTTT
1 TCTCATTTT
6974766 TC-CA-TTT
1 TCTCATTTT
6974773 TCTCATTTT
1 TCTCATTTT
6974782 T-TC-TTTT
1 TCTCATTTT
*
6974789 T-T-TTTTT
1 TCTCATTTT
6974796 TCATCATTTT
1 TC-TCATTTT
* *
6974806 TTTCCTTTT
1 TCTCATTTT
6974815 TCTCATTTT
1 TCTCATTTT
6974824 TC
1 TC
6974826 ATCTATTATT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
7 16 0.33
8 5 0.10
9 22 0.46
10 5 0.10
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.72
Consensus pattern (9 bp):
TCTCATTTT
Found at i:6978825 original size:60 final size:60
Alignment explanation
Indices: 6978723--6978893 Score: 258
Period size: 60 Copynumber: 2.9 Consensus size: 60
6978713 TCTTATGCAG
* **
6978723 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATCCTTTTTT-GAAATTTTATTTTTAA
6978783 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-ATCCCTTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-CCTTTTTTGAAATTTTATTTTTAA
* *
6978843 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTTTAAATTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATCCTTTTTTGAAATTTT
6978894 TTTATCTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
59 19 0.18
60 82 0.80
61 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATCCTTTTTTGAAATTTTATTTTTAA
Found at i:6981583 original size:10 final size:9
Alignment explanation
Indices: 6981563--6981587 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6981553 GGGAAGAAAA
6981563 TTTTCTTTT
1 TTTTCTTTT
6981572 TTTTCTTTT
1 TTTTCTTTT
6981581 TTTTCTT
1 TTTTCTT
6981588 CCCCCCCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:6981793 original size:24 final size:22
Alignment explanation
Indices: 6981753--6981807 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
6981743 ATCAGATAAT
** *
6981753 AATAAAAAAAATGATAAATATG
1 AATAAAAAAAAAAATAAAAATG
6981775 AAATAAAAATAAAAAATAAAAATG
1 -AATAAAAA-AAAAAATAAAAATG
6981799 AATAAAAAA
1 AATAAAAAA
6981808 TCCCTGCAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.04
23 16 0.57
24 11 0.39
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (22 bp):
AATAAAAAAAAAAATAAAAATG
Found at i:6982985 original size:18 final size:17
Alignment explanation
Indices: 6982955--6982992 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
6982945 ATATTTTTGC
6982955 AAAAAATGGAAA-TCAA
1 AAAAAATGGAAATTCAA
6982971 AAAAAACTGGTAAATTCAA
1 AAAAAA-TGG-AAATTCAA
6982990 AAA
1 AAA
6982993 GCCTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 3 0.16
18 3 0.16
19 7 0.37
ACGTcount: A:0.66, C:0.08, G:0.11, T:0.16
Consensus pattern (17 bp):
AAAAAATGGAAATTCAA
Found at i:6996801 original size:11 final size:10
Alignment explanation
Indices: 6996787--6996829 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
6996777 AAAAAATCAT
6996787 AAAAAGAAGAA
1 AAAAAGAA-AA
6996798 AAAAAG--AA
1 AAAAAGAAAA
6996806 AAAAAGAAAA
1 AAAAAGAAAA
*
6996816 AAAGAGAAAA
1 AAAAAGAAAA
6996826 AAAA
1 AAAA
6996830 GATGAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 8 0.29
10 14 0.50
11 6 0.21
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:6996809 original size:7 final size:8
Alignment explanation
Indices: 6996787--6996827 Score: 64
Period size: 8 Copynumber: 4.9 Consensus size: 8
6996777 AAAAAATCAT
6996787 AAAAAGAAG
1 AAAAA-AAG
6996796 AAAAAAAG
1 AAAAAAAG
6996804 AAAAAAAG
1 AAAAAAAG
6996812 AAAAAAAG
1 AAAAAAAG
6996820 AGAAAAAA
1 A-AAAAAA
6996828 AAGATGAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 20 0.65
9 11 0.35
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:6996823 original size:29 final size:28
Alignment explanation
Indices: 6996766--6996829 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
6996756 GAAGAAGGGT
** *
6996766 AAAAAAAAGGAAAAAAATCATAAAAAGA
1 AAAAAAAAGGAAAAAAAGAAAAAAAAGA
6996794 AGAAAAAAA-GAAAAAAAGAAAAAAAGAGA
1 A-AAAAAAAGGAAAAAAAGAAAAAAA-AGA
6996823 AAAAAAA
1 AAAAAAA
6996830 GATGAATCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.03
Consensus pattern (28 bp):
AAAAAAAAGGAAAAAAAGAAAAAAAAGA
Found at i:6996829 original size:27 final size:27
Alignment explanation
Indices: 6996766--6996831 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
6996756 GAAGAAGGGT
* *
6996766 AAAAAAAAGGAAAAAAATCATAAAAAG
1 AAAAAAAAAGAAAAAAATCAAAAAAAG
*
6996793 AAGAAAAAAAGAAAAAAA-GAAAAAAAG
1 AA-AAAAAAAGAAAAAAATCAAAAAAAG
6996820 AGAAAAAAAAGA
1 A-AAAAAAAAGA
6996832 TGAATCAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 19 0.56
28 15 0.44
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.03
Consensus pattern (27 bp):
AAAAAAAAAGAAAAAAATCAAAAAAAG
Found at i:6997799 original size:50 final size:50
Alignment explanation
Indices: 6997716--6997897 Score: 217
Period size: 49 Copynumber: 3.7 Consensus size: 50
6997706 TGTCATGAGG
* *
6997716 CATTTTCAAACAAGA-TTTTAAAATTTCAAAGCCTCTGTTGGGGAGAAGC
1 CATTTTCAAACAAAATTTTTAAAGTTTCAAAGCCTCTGTTGGGGAGAAGC
* *
6997765 CATTTTCAAACAAAATTTTTAAAGTTTCAAAGCCTTTGTT-TGGAGAAGC
1 CATTTTCAAACAAAATTTTTAAAGTTTCAAAGCCTCTGTTGGGGAGAAGC
* * * * * *
6997814 CAATTTCAGACAAGATTTTTAAAGTTTCAAAGTCTCT-ATGGGGAGTAGC
1 CATTTTCAAACAAAATTTTTAAAGTTTCAAAGCCTCTGTTGGGGAGAAGC
* * * *
6997863 CATTTTTAGACAAAATATTTAAAGTTTTAAAGCCT
1 CATTTTCAAACAAAATTTTTAAAGTTTCAAAGCCT
6997898 TTTCTAGGGG
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
48 1 0.01
49 90 0.80
50 22 0.19
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (50 bp):
CATTTTCAAACAAAATTTTTAAAGTTTCAAAGCCTCTGTTGGGGAGAAGC
Found at i:6997888 original size:98 final size:98
Alignment explanation
Indices: 6997719--6997899 Score: 265
Period size: 98 Copynumber: 1.8 Consensus size: 98
6997709 CATGAGGCAT
* *
6997719 TTTCAAACAAGATTTTAAAATTTCAAAGCCTCTGTTGGGGAGAAGCCATTTTCAAACAAAATTTT
1 TTTCAAACAAGATTTTAAAATTTCAAAGCCTCTGATGGGGAGAAGCCATTTTCAAACAAAATATT
6997784 TAAAGTTTCAAAGCCTTTGTTTGGAGAAGCCAA
66 TAAAGTTTCAAAGCCTTTGTTTGGAGAAGCCAA
* * * * * *
6997817 TTTCAGACAAGATTTTTAAAGTTTCAAAGTCTCT-ATGGGGAGTAGCCATTTTTAGACAAAATAT
1 TTTCAAACAAGA-TTTTAAAATTTCAAAGCCTCTGATGGGGAGAAGCCATTTTCAAACAAAATAT
*
6997881 TTAAAGTTTTAAAGCCTTT
65 TTAAAGTTTCAAAGCCTTT
6997900 TCTAGGGGGA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 54 0.74
99 19 0.26
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (98 bp):
TTTCAAACAAGATTTTAAAATTTCAAAGCCTCTGATGGGGAGAAGCCATTTTCAAACAAAATATT
TAAAGTTTCAAAGCCTTTGTTTGGAGAAGCCAA
Found at i:6997913 original size:49 final size:49
Alignment explanation
Indices: 6997716--6997950 Score: 169
Period size: 49 Copynumber: 4.7 Consensus size: 49
6997706 TGTCATGAGG
* * * *
6997716 CATTTTCAAACAAGA-TTTTAAAATTTCAAAGCCTCTGT-T-GGGGAGAAGC
1 CATTTTCAGACAAAATTTTTAAAGTTTCAAAGCCT-TTTCTAGGGG-G-AGC
* * * *
6997765 CATTTTCAAACAAAATTTTTAAAGTTTCAAAGCCTTTGT-TTGGAGAAGC
1 CATTTTCAGACAAAATTTTTAAAGTTTCAAAGCCTTT-TCTAGGGGGAGC
* * *
6997814 CAATTTCAGACAAGATTTTTAAAGTTTCAAAG---TCTCTATGGGGAGTAGC
1 CATTTTCAGACAAAATTTTTAAAGTTTCAAAGCCTTTTCTA-GGGG-G-AGC
* * *
6997863 CATTTTTAGACAAAATATTTAAAGTTTTAAAGCCTTTTCTAGGGGGAGC
1 CATTTTCAGACAAAATTTTTAAAGTTTCAAAGCCTTTTCTAGGGGGAGC
* * *
6997912 CATTTTTAGATAATATTCCTTTCAAAAGTTTCAAAGCCT
1 CATTTTCAGACAAAATT--TTT--AAAGTTTCAAAGCCT
6997951 CCGATTAGAG
Statistics
Matches: 150, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
45 1 0.01
46 2 0.01
47 3 0.02
49 94 0.63
50 21 0.14
51 10 0.07
52 5 0.03
53 14 0.09
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (49 bp):
CATTTTCAGACAAAATTTTTAAAGTTTCAAAGCCTTTTCTAGGGGGAGC
Found at i:7005525 original size:19 final size:19
Alignment explanation
Indices: 7005478--7005527 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
7005468 TTAAGTTAAG
*
7005478 GTTTAGAGTTTGGGATTCA
1 GTTTAGGGTTTGGGATTCA
* * *
7005497 ATTT-GGGTTTGTGATTTA
1 GTTTAGGGTTTGGGATTCA
7005515 GTTTAGGGTTTGG
1 GTTTAGGGTTTGG
7005528 CTTAAAGATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.16, C:0.02, G:0.34, T:0.48
Consensus pattern (19 bp):
GTTTAGGGTTTGGGATTCA
Found at i:7005544 original size:20 final size:20
Alignment explanation
Indices: 7005516--7005572 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
7005506 TGTGATTTAG
* *
7005516 TTTAGGGTTTGGCTTAAAGA
1 TTTAAGGTTTGGTTTAAAGA
*
7005536 TTTAAGGTTTGGTTTAGAGA
1 TTTAAGGTTTGGTTTAAAGA
7005556 TTTAAGGTTTGGTTTAA
1 TTTAAGGTTTGGTTTAA
7005573 GAGTTTGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.02, G:0.28, T:0.46
Consensus pattern (20 bp):
TTTAAGGTTTGGTTTAAAGA
Found at i:7005598 original size:18 final size:19
Alignment explanation
Indices: 7005566--7005601 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
7005556 TTTAAGGTTT
7005566 GGTTTAAGAGTTTGATTTA
1 GGTTTAAGAGTTTGATTTA
7005585 GGTTTAAG-GTTTGATTT
1 GGTTTAAGAGTTTGATTT
7005602 GGGTGTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (19 bp):
GGTTTAAGAGTTTGATTTA
Found at i:7005610 original size:31 final size:33
Alignment explanation
Indices: 7005534--7005601 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 33
7005524 TTGGCTTAAA
*
7005534 GATTTAAG-GTTTGGTTTAGAGATTTAAGGTTT
1 GATTTAAGAGTTTGATTTAGAGATTTAAGGTTT
*
7005566 GGTTTAAGAGTTTGATTTAG-G-TTTAAGGTTT
1 GATTTAAGAGTTTGATTTAGAGATTTAAGGTTT
7005597 GATTT
1 GATTT
7005602 GGGTGTTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 14 0.44
32 8 0.25
33 10 0.31
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.49
Consensus pattern (33 bp):
GATTTAAGAGTTTGATTTAGAGATTTAAGGTTT
Found at i:7005687 original size:19 final size:20
Alignment explanation
Indices: 7005665--7005718 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
7005655 TTTAGGGTTT
7005665 GGTTTGAGG-TTTAGTTTAA
1 GGTTTGAGGATTTAGTTTAA
* *
7005684 GGTTT-AGGATTTGGTTTAG
1 GGTTTGAGGATTTAGTTTAA
7005703 GGTTTG-GGATTT-GTTT
1 GGTTTGAGGATTTAGTTT
7005719 TAGGATTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 7 0.23
19 24 0.77
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (20 bp):
GGTTTGAGGATTTAGTTTAA
Found at i:7005697 original size:31 final size:32
Alignment explanation
Indices: 7005655--7005764 Score: 88
Period size: 31 Copynumber: 3.5 Consensus size: 32
7005645 TTAGCTCAAT
*
7005655 TTTAGGGTTTGGTTTGA-GGTTT-AG-TTTAAGG
1 TTTAGGATTTGGTTTGAGGGTTTGAGATTT--GG
* *
7005686 TTTAGGATTTGGTTT-AGGGTTTGGGATTTGT
1 TTTAGGATTTGGTTTGAGGGTTTGAGATTTGG
* *
7005717 TTTAGGATTTGGTTTGA--ATTTGGGATTTGG
1 TTTAGGATTTGGTTTGAGGGTTTGAGATTTGG
*
7005747 TTTAAGGTTTATGGTTTG
1 TTT-AGGATT-TGGTTTG
7005765 GTTTAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
30 15 0.22
31 40 0.60
32 9 0.13
33 3 0.04
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (32 bp):
TTTAGGATTTGGTTTGAGGGTTTGAGATTTGG
Found at i:7005720 original size:19 final size:19
Alignment explanation
Indices: 7005665--7005877 Score: 83
Period size: 20 Copynumber: 11.4 Consensus size: 19
7005655 TTTAGGGTTT
* *
7005665 GGTTTGAGG-TTTAGTTTAA
1 GGTTTG-GGATTTGGTTTAG
*
7005684 GGTTTAGGATTTGGTTTAG
1 GGTTTGGGATTTGGTTTAG
7005703 GGTTTGGGATTT-G--T--
1 GGTTTGGGATTTGGTTTAG
*
7005717 --TTTAGGATTTGGTTT-G
1 GGTTTGGGATTTGGTTTAG
** *
7005733 AATTTGGGATTTGGTTTAA
1 GGTTTGGGATTTGGTTTAG
* *
7005752 GGTTTATGG-TTTGGTTTAA
1 GGTTT-GGGATTTGGTTTAG
** *
7005771 AATTT-TGAGTTT-GTATTAG
1 GGTTTGGGA-TTTGGT-TTAG
** *
7005790 GGTTTTTAGATTTGGTATAG
1 GG-TTTGGGATTTGGTTTAG
*
7005810 GGTTTTGGGGTTTGGTTTAG
1 GG-TTTGGGATTTGGTTTAG
*
7005830 GGTTTTGGGGTTTGGTTTAAG
1 GG-TTTGGGATTTGGTTT-AG
* *
7005851 GTTTTGAGG-TTTGGCTTAG
1 GGTTTG-GGATTTGGTTTAG
7005870 GGTTTGGG
1 GGTTTGGG
7005878 GTTTTAGTTC
Statistics
Matches: 152, Mismatches: 25, Indels: 35
0.72 0.12 0.17
Matches are distributed among these distances:
12 9 0.06
13 1 0.01
15 1 0.01
16 1 0.01
17 1 0.01
18 21 0.14
19 53 0.35
20 56 0.37
21 9 0.06
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.49
Consensus pattern (19 bp):
GGTTTGGGATTTGGTTTAG
Found at i:7005823 original size:20 final size:20
Alignment explanation
Indices: 7005735--7005881 Score: 124
Period size: 20 Copynumber: 7.5 Consensus size: 20
7005725 TTGGTTTGAA
* *
7005735 TTTGGGATTTGGTTTAAGGT
1 TTTGGGGTTTGGTTTAGGGT
***
7005755 TTAT--GGTTTGGTTTAAAAT
1 TT-TGGGGTTTGGTTTAGGGT
*
7005774 TTT-GAGTTT-GTATTAGGGT
1 TTTGGGGTTTGGT-TTAGGGT
** * *
7005793 TTTTAGATTTGGTATAGGGT
1 TTTGGGGTTTGGTTTAGGGT
7005813 TTTGGGGTTTGGTTTAGGGT
1 TTTGGGGTTTGGTTTAGGGT
*
7005833 TTTGGGGTTTGGTTTAAGGT
1 TTTGGGGTTTGGTTTAGGGT
* *
7005853 TTTGAGGTTTGGCTTAGGG-
1 TTTGGGGTTTGGTTTAGGGT
7005872 TTTGGGGTTT
1 TTTGGGGTTT
7005882 TAGTTCGATT
Statistics
Matches: 102, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
18 3 0.03
19 34 0.33
20 62 0.61
21 3 0.03
ACGTcount: A:0.14, C:0.01, G:0.35, T:0.50
Consensus pattern (20 bp):
TTTGGGGTTTGGTTTAGGGT
Found at i:7006005 original size:20 final size:20
Alignment explanation
Indices: 7005715--7006015 Score: 106
Period size: 20 Copynumber: 14.9 Consensus size: 20
7005705 TTTGGGATTT
7005715 GTTTTAGGATTTGGTTT--G
1 GTTTTAGGATTTGGTTTAGG
** * *
7005733 AATTTGGGATTTGGTTTAAG
1 GTTTTAGGATTTGGTTTAGG
**
7005753 G-TTTATGG-TTTGGTTTAAA
1 GTTTTA-GGATTTGGTTTAGG
*
7005772 ATTTT--GAGTTT-GTATTAGG
1 GTTTTAGGA-TTTGGT-TTAGG
*
7005791 GTTTTTA-GATTTGGTATAGG
1 G-TTTTAGGATTTGGTTTAGG
* *
7005811 GTTTTGGGGTTTGGTTTAGG
1 GTTTTAGGATTTGGTTTAGG
* * *
7005831 GTTTTGGGGTTTGGTTTAAG
1 GTTTTAGGATTTGGTTTAGG
* *
7005851 GTTTTGAGGTTTGGCTTAGGGTTTGGG
1 GTTTT-AGG-AT---TT--GGTTTAGG
*
7005878 GTTTTAGTTCGATTTGGTTTAAG
1 GTTTTAG---GATTTGGTTTAGG
* * *
7005901 G-TTTGGGGTTTGGTTTTGG
1 GTTTTAGGATTTGGTTTAGG
* * *
7005920 ATTTTAGGGA-TTAGTTTTGG
1 GTTTTA-GGATTTGGTTTAGG
** *
7005940 GTTGAAGG-TTTGATTTAGAG
1 GTTTTAGGATTTGGTTTAG-G
* * *
7005960 TTTTTAAG-TTTGGTTTAAG
1 GTTTTAGGATTTGGTTTAGG
7005979 G-TTTAGGATTTGGTTTAGG
1 GTTTTAGGATTTGGTTTAGG
*
7005998 GTTTTAGGATTTAGTTTA
1 GTTTTAGGATTTGGTTTA
7006016 AGTGATGCAT
Statistics
Matches: 210, Mismatches: 46, Indels: 52
0.68 0.15 0.17
Matches are distributed among these distances:
17 1 0.00
18 21 0.10
19 53 0.25
20 96 0.46
21 8 0.04
22 5 0.02
23 7 0.03
25 4 0.02
26 2 0.01
27 11 0.05
28 1 0.00
29 1 0.00
ACGTcount: A:0.16, C:0.01, G:0.33, T:0.50
Consensus pattern (20 bp):
GTTTTAGGATTTGGTTTAGG
Found at i:7006015 original size:39 final size:38
Alignment explanation
Indices: 7005870--7006017 Score: 102
Period size: 39 Copynumber: 3.7 Consensus size: 38
7005860 TTTGGCTTAG
* * *
7005870 GGTTTGGGGTTTTAGTTCGATTTGGTTTAAGGTTTGGGGTTT
1 GGTTTAGGGTTTTAG---GATTTAGTTTAAGGTTT-AGGTTT
* * ** *
7005912 GGTTTTGGATTTTAGGGA-TTAGTTTTGGGTTGAAGGTTT
1 GGTTTAGGGTTTTA-GGATTTAGTTTAAGGTT-TAGGTTT
* * * *
7005951 GATTTAGAGTTTTTAAG-TTTGGTTTAAGGTTTAGGATTT
1 GGTTTAG-GGTTTTAGGATTTAGTTTAAGGTTTAGG-TTT
7005990 GGTTTAGGGTTTTAGGATTTAGTTTAAG
1 GGTTTAGGGTTTTAGGATTTAGTTTAAG
7006018 TGATGCATGT
Statistics
Matches: 81, Mismatches: 19, Indels: 15
0.70 0.17 0.13
Matches are distributed among these distances:
38 10 0.12
39 50 0.62
40 8 0.10
42 12 0.15
43 1 0.01
ACGTcount: A:0.17, C:0.01, G:0.33, T:0.49
Consensus pattern (38 bp):
GGTTTAGGGTTTTAGGATTTAGTTTAAGGTTTAGGTTT
Found at i:7016595 original size:20 final size:21
Alignment explanation
Indices: 7016554--7016599 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
7016544 CTCAAAATTA
*
7016554 ATAAAATATTATTTTTTAAAT
1 ATAAAACATTATTTTTTAAAT
7016575 ATAAAACATTATTTTTT-AAT
1 ATAAAACATTATTTTTTAAAT
7016595 ATAAA
1 ATAAA
7016600 TATAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAACATTATTTTTTAAAT
Found at i:7019515 original size:18 final size:18
Alignment explanation
Indices: 7019491--7019534 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7019481 TGATTCAGAG
*
7019491 ATTTTTTTCTCTTTTTTC
1 ATTTTTTTCTATTTTTTC
* *
7019509 TTTTTTTTTTATTTTTTC
1 ATTTTTTTCTATTTTTTC
7019527 ATTTTTTT
1 ATTTTTTT
7019535 GTTTATTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (18 bp):
ATTTTTTTCTATTTTTTC
Found at i:7019531 original size:16 final size:16
Alignment explanation
Indices: 7019512--7019548 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
7019502 TTTTTTCTTT
*
7019512 TTTTTTTATTTTTTCA
1 TTTTTTTATTTATTCA
*
7019528 TTTTTTTGTTTATTCA
1 TTTTTTTATTTATTCA
7019544 TTTTT
1 TTTTT
7019549 ATTTTTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTTTTATTTATTCA
Found at i:7019647 original size:46 final size:46
Alignment explanation
Indices: 7019591--7019849 Score: 297
Period size: 46 Copynumber: 5.7 Consensus size: 46
7019581 TTATAAATCT
* * * * * *
7019591 AAAATGAATTTAAAAGCTCCTCTT-ATCAGAGACTCCATAACTTTTT
1 AAAATAAATTTAAAAGCT-CTTTTAAACAAAGACTCGATAACTTTTG
* *
7019637 AAAATAAATTTAAAAGCTCTTTTAAACAAAAACTTGATAACTTTTG
1 AAAATAAATTTAAAAGCTCTTTTAAACAAAGACTCGATAACTTTTG
* * *
7019683 AAAATAAATTT-AAATCTCTTTTAAACAAAGACTCGACAACCTTTG
1 AAAATAAATTTAAAAGCTCTTTTAAACAAAGACTCGATAACTTTTG
* * * *
7019728 AAAATAAATTTAAAAGCTCTTTGAAACAAAGGCTCAACAACTTTTG
1 AAAATAAATTTAAAAGCTCTTTTAAACAAAGACTCGATAACTTTTG
* * * * *
7019774 AAAATAAAGTTAAAAGCTTTTTTAAACAAAAACTCGACAGCTTTTG
1 AAAATAAATTTAAAAGCTCTTTTAAACAAAGACTCGATAACTTTTG
* *
7019820 AAAATAAATTTAAAATCTCCTTTAAACAAA
1 AAAATAAATTTAAAAGCTCTTTTAAACAAA
7019850 AGCTCGACGA
Statistics
Matches: 182, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
45 44 0.24
46 138 0.76
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.32
Consensus pattern (46 bp):
AAAATAAATTTAAAAGCTCTTTTAAACAAAGACTCGATAACTTTTG
Found at i:7019795 original size:23 final size:23
Alignment explanation
Indices: 7019724--7019795 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 23
7019714 CTCGACAACC
* *
7019724 TTTGAAAATAAATTTAAAAGCTC
1 TTTGAAAATAAAGTTAAAAGCTT
* *
7019747 TTTGAAACA-AAGGCTCAACAA-C-T
1 TTTGAAA-ATAAAG-TTAA-AAGCTT
7019770 TTTGAAAATAAAGTTAAAAGCTT
1 TTTGAAAATAAAGTTAAAAGCTT
7019793 TTT
1 TTT
7019796 TAAACAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
21 2 0.05
22 5 0.14
23 23 0.62
24 5 0.14
25 2 0.05
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (23 bp):
TTTGAAAATAAAGTTAAAAGCTT
Found at i:7019850 original size:46 final size:46
Alignment explanation
Indices: 7019629--7019863 Score: 310
Period size: 46 Copynumber: 5.1 Consensus size: 46
7019619 GAGACTCCAT
* * *
7019629 AACTTTTTAAAATAAATTTAAAAGCTCTTTTAAACAAAAACTTGAT
1 AACTTTTGAAAATAAATTTAAAAGCTCTTTTAAACAAAAACTCGAC
* *
7019675 AACTTTTGAAAATAAATTT-AAATCTCTTTTAAACAAAGACTCGAC
1 AACTTTTGAAAATAAATTTAAAAGCTCTTTTAAACAAAAACTCGAC
* * ** *
7019720 AACCTTTGAAAATAAATTTAAAAGCTCTTTGAAACAAAGGCTCAAC
1 AACTTTTGAAAATAAATTTAAAAGCTCTTTTAAACAAAAACTCGAC
* *
7019766 AACTTTTGAAAATAAAGTTAAAAGCTTTTTTAAACAAAAACTCGAC
1 AACTTTTGAAAATAAATTTAAAAGCTCTTTTAAACAAAAACTCGAC
* * * *
7019812 AGCTTTTGAAAATAAATTTAAAATCTCCTTTAAACAAAAGCTCGAC
1 AACTTTTGAAAATAAATTTAAAAGCTCTTTTAAACAAAAACTCGAC
*
7019858 GACTTT
1 AACTTT
7019864 AAAAATCTTA
Statistics
Matches: 163, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 40 0.25
46 123 0.75
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (46 bp):
AACTTTTGAAAATAAATTTAAAAGCTCTTTTAAACAAAAACTCGAC
Found at i:7022739 original size:21 final size:22
Alignment explanation
Indices: 7022715--7022756 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
7022705 ATGTTTTTTT
*
7022715 TTTTTTTTTAGATTT-TTCAAG
1 TTTTTGTTTAGATTTATTCAAG
*
7022736 TTTTTGTTTGGATTTATTCAA
1 TTTTTGTTTAGATTTATTCAA
7022757 ATTTCTTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.19, C:0.05, G:0.12, T:0.64
Consensus pattern (22 bp):
TTTTTGTTTAGATTTATTCAAG
Found at i:7030657 original size:24 final size:22
Alignment explanation
Indices: 7030610--7030659 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
7030600 ATAATACCCT
7030610 AATT-ATATTAAGACAAAATGA
1 AATTAATATTAAGACAAAATGA
* *
7030631 AATTAATATTCAAGAACTAAATTA
1 AATTAATATT-AAG-ACAAAATGA
7030655 AATTA
1 AATTA
7030660 CTGAATTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.17
22 5 0.21
23 3 0.12
24 12 0.50
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (22 bp):
AATTAATATTAAGACAAAATGA
Found at i:7034916 original size:23 final size:25
Alignment explanation
Indices: 7034871--7034922 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
7034861 AATCCAATAA
* *
7034871 AAATATATCACCAACAAATTTAAAG
1 AAATATATAACCAACAAACTTAAAG
7034896 AAATATATAACC-A-AAACTTAAAG
1 AAATATATAACCAACAAACTTAAAG
7034919 AAAT
1 AAAT
7034923 TTCAACAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 13 0.52
24 1 0.04
25 11 0.44
ACGTcount: A:0.60, C:0.13, G:0.04, T:0.23
Consensus pattern (25 bp):
AAATATATAACCAACAAACTTAAAG
Found at i:7036985 original size:3 final size:3
Alignment explanation
Indices: 7036977--7037019 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
7036967 ACACACATAT
7036977 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7037020 AATTTTAACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7039161 original size:19 final size:20
Alignment explanation
Indices: 7039139--7039180 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
7039129 AACAATAAAG
*
7039139 ATAAAATAATAA-AATATTA
1 ATAAAATAATAATAATAGTA
*
7039158 AT-AAATGATAATAATAGTA
1 ATAAAATAATAATAATAGTA
7039177 ATAA
1 ATAA
7039181 CAAAACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
18 8 0.42
19 10 0.53
20 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAAAATAATAATAATAGTA
Found at i:7039432 original size:13 final size:13
Alignment explanation
Indices: 7039308--7039443 Score: 69
Period size: 14 Copynumber: 10.1 Consensus size: 13
7039298 TAAATTTGTG
*
7039308 AAATGAAACCTTA
1 AAATGAAACCCTA
*
7039321 AAATTAAAACCCCTA
1 AAA-TGAAA-CCCTA
* *
7039336 ACA--AAACCTTA
1 AAATGAAACCCTA
**
7039347 AAATTGAAACCAAA
1 AAA-TGAAACCCTA
7039361 AAATTGAAACCCTA
1 AAA-TGAAACCCTA
* *
7039375 TAATTGAAATCCTA
1 -AAATGAAACCCTA
* *
7039389 TAATTAAAACCCTA
1 -AAATGAAACCCTA
* * *
7039403 AAATCAAAACCTT
1 AAATGAAACCCTA
*
7039416 AAATGATACCCTA
1 AAATGAAACCCTA
7039429 AAATTGAAACCCTA
1 AAA-TGAAACCCTA
7039443 A
1 A
7039444 TATCAAAATC
Statistics
Matches: 94, Mismatches: 22, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
11 6 0.06
12 3 0.03
13 24 0.26
14 53 0.56
15 8 0.09
ACGTcount: A:0.52, C:0.21, G:0.04, T:0.23
Consensus pattern (13 bp):
AAATGAAACCCTA
Found at i:7039443 original size:14 final size:14
Alignment explanation
Indices: 7039339--7039443 Score: 97
Period size: 14 Copynumber: 7.6 Consensus size: 14
7039329 ACCCCTAACA
*
7039339 AAACCTTAAAATTG
1 AAACCCTAAAATTG
**
7039353 AAACCAAAAAATTG
1 AAACCCTAAAATTG
*
7039367 AAACCCTATAATTG
1 AAACCCTAAAATTG
* * *
7039381 AAATCCTATAATTA
1 AAACCCTAAAATTG
*
7039395 AAACCCTAAAA-TC
1 AAACCCTAAAATTG
* *
7039408 AAAACCTTAAA-TG
1 AAACCCTAAAATTG
*
7039421 ATACCCTAAAATTG
1 AAACCCTAAAATTG
7039435 AAACCCTAA
1 AAACCCTAA
7039444 TATCAAAATC
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
13 19 0.26
14 54 0.74
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.24
Consensus pattern (14 bp):
AAACCCTAAAATTG
Found at i:7052975 original size:24 final size:24
Alignment explanation
Indices: 7052923--7052976 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
7052913 TTAAATTCAC
7052923 AATTTTATTTAGATTATAATAAAA
1 AATTTTATTTAGATTATAATAAAA
* *
7052947 TATTTATATTT-GATT-TAGTAACAA
1 AATTT-TATTTAGATTATAATAA-AA
7052971 AATTTT
1 AATTTT
7052977 TACTTGAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (24 bp):
AATTTTATTTAGATTATAATAAAA
Found at i:7054849 original size:18 final size:18
Alignment explanation
Indices: 7054828--7054865 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7054818 TCTTGAATTG
* *
7054828 TTTTATTTTTTGGATTTT
1 TTTTAATTTTTAGATTTT
7054846 TTTTAATTTTTAGATTTT
1 TTTTAATTTTTAGATTTT
7054864 TT
1 TT
7054866 ATTTAGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTTAATTTTTAGATTTT
Found at i:7054862 original size:27 final size:28
Alignment explanation
Indices: 7054805--7054865 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
7054795 TTTTAAACTT
*
7054805 TTTTTTGGGATTTTCTTGAATTGTTTTA
1 TTTTTTGGGATTTTCTTGAATTGTTTGA
* *
7054833 TTTTTT-GGATTTTTTTTAATT-TTTAGA
1 TTTTTTGGGATTTTCTTGAATTGTTT-GA
7054860 TTTTTT
1 TTTTTT
7054866 ATTTAGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 3 0.10
27 20 0.69
28 6 0.21
ACGTcount: A:0.15, C:0.02, G:0.13, T:0.70
Consensus pattern (28 bp):
TTTTTTGGGATTTTCTTGAATTGTTTGA
Found at i:7054906 original size:14 final size:14
Alignment explanation
Indices: 7054844--7054906 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
7054834 TTTTTGGATT
*
7054844 TTTTTTAATTTTTAGA
1 TTTTTT-ATTTTGA-A
*
7054860 TTTTTTATTTAG-A
1 TTTTTTATTTTGAA
*
7054873 TTTCTTATTTTGAA
1 TTTTTTATTTTGAA
*
7054887 TCTTTTATTTTGAA
1 TTTTTTATTTTGAA
7054901 TTTTTT
1 TTTTTT
7054907 TAAGTTCTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 11 0.28
14 18 0.46
15 4 0.10
16 6 0.15
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (14 bp):
TTTTTTATTTTGAA
Found at i:7055038 original size:45 final size:46
Alignment explanation
Indices: 7054988--7055108 Score: 133
Period size: 45 Copynumber: 2.7 Consensus size: 46
7054978 CAACGACTCT
* *
7054988 ACAACTTTGGAAATAAACTTAAAAGCTCCTT-TCATTAGAGG-TTC
1 ACAACTTTGGAAATAAACTTAAAAGCTCATTCTCATTAGAGGCTCC
* * *
7055032 ACCAACTTTAGAAAATAATC-TAAAAGCT-ATTCTCATTGGAGGCTCC
1 A-CAACTTT-GGAAATAAACTTAAAAGCTCATTCTCATTAGAGGCTCC
* *
7055078 ATAACTTTGGAATTAAACTTAAAAGCTCATT
1 ACAACTTTGGAAATAAACTTAAAAGCTCATT
7055109 TAAATAGAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
44 10 0.16
45 38 0.61
46 14 0.23
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.31
Consensus pattern (46 bp):
ACAACTTTGGAAATAAACTTAAAAGCTCATTCTCATTAGAGGCTCC
Found at i:7056028 original size:23 final size:23
Alignment explanation
Indices: 7056002--7056197 Score: 101
Period size: 23 Copynumber: 9.0 Consensus size: 23
7055992 CTTATTGGTA
* *
7056002 CTAGCTAATCTGAGCTTAAAGTG
1 CTAGCTAAACTAAGCTTAAAGTG
*
7056025 CTAGCTAAACTTAGCTTAAAGTG
1 CTAGCTAAACTAAGCTTAAAGTG
*
7056048 CCAGCTAAAC-AAGGCTT-AAGTG
1 CTAGCTAAACTAA-GCTTAAAGTG
* * *
7056070 CTAGCTAAATTAGGCTTAAA-TC
1 CTAGCTAAACTAAGCTTAAAGTG
* *** * * *
7056092 CTATC-AGTGTCAGC-TAGATTG
1 CTAGCTAAACTAAGCTTAAAGTG
* *
7056113 -T-GCTTAA--AAGCTTG--GTG
1 CTAGCTAAACTAAGCTTAAAGTG
*
7056130 CTAGCTAAAGCTATGCTTAAAGTG
1 CTAGCTAAA-CTAAGCTTAAAGTG
** *
7056154 CTAGCTAATTTCAGCTTAAAGTG
1 CTAGCTAAACTAAGCTTAAAGTG
*
7056177 CTAGCTAATCT-AGCTTAAAGT
1 CTAGCTAAACTAAGCTTAAAGT
7056198 ACAACCTAAA
Statistics
Matches: 129, Mismatches: 31, Indels: 27
0.69 0.17 0.14
Matches are distributed among these distances:
17 2 0.02
18 4 0.03
19 7 0.05
20 4 0.03
21 5 0.04
22 38 0.29
23 58 0.45
24 11 0.09
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (23 bp):
CTAGCTAAACTAAGCTTAAAGTG
Found at i:7056206 original size:22 final size:22
Alignment explanation
Indices: 7056166--7056218 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7056156 AGCTAATTTC
* * * *
7056166 AGCTTAAAGTGCTAGCTAATCT
1 AGCTTAAAGTACAACCTAAACT
7056188 AGCTTAAAGTACAACCTAAACT
1 AGCTTAAAGTACAACCTAAACT
7056210 AGACTTAAA
1 AG-CTTAAA
7056219 TTTTATCGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (22 bp):
AGCTTAAAGTACAACCTAAACT
Found at i:7056248 original size:31 final size:31
Alignment explanation
Indices: 7056203--7056287 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
7056193 AAAGTACAAC
* * *
7056203 CTAAACTAGACTTAAATTTTATCGGTGCCAG
1 CTAAACTAGACTTAAATCTCATCGGTGCCAA
* * *
7056234 CTAAACTTGCCTTAAATCTCATCGGTGCTAA
1 CTAAACTAGACTTAAATCTCATCGGTGCCAA
*
7056265 CTAAACCA-AGCTTAAATCTCATC
1 CTAAACTAGA-CTTAAATCTCATC
7056288 TTTATTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.31
Consensus pattern (31 bp):
CTAAACTAGACTTAAATCTCATCGGTGCCAA
Found at i:7056248 original size:129 final size:129
Alignment explanation
Indices: 7056015--7056249 Score: 287
Period size: 129 Copynumber: 1.8 Consensus size: 129
7056005 GCTAATCTGA
* * * *
7056015 GCTTAAAGTGCTAGCTAAACTTAGCTTAAAGTGCCAGCTAAACAAGGCTTAAGTGCTAGCTAAAT
1 GCTTAAAGTGCTAGCTAAACTTAGCTTAAAGTGCCAGCTAAACAAGGCTTAAGTACAACCTAAAC
* * * *
7056080 TAGGCTTAAATCCTATCAGTGTCAGCTAGATTGTGCTTAAAAGCTTGGTGCTAGCTAAAGCTAT
66 TAGACTTAAATCCTATCAGTGCCAGCTAAATTGTCCTTAAAAGCTTGGTGCTAGCTAAAGCTAT
* * * *
7056144 GCTTAAAGTGCTAGCT-AATTTCAGCTTAAAGTGCTAGCTAATCTA-GCTTAAAGTACAACCTAA
1 GCTTAAAGTGCTAGCTAAACTT-AGCTTAAAGTGCCAGCTAAACAAGGCTT-AAGTACAACCTAA
** *
7056207 ACTAGACTTAAATTTTATCGGTGCCAGCTAAACTTG-CCTTAAA
64 ACTAGACTTAAATCCTATCAGTGCCAGCTAAA-TTGTCCTTAAA
7056250 TCTCATCGGT
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
128 8 0.09
129 77 0.88
130 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (129 bp):
GCTTAAAGTGCTAGCTAAACTTAGCTTAAAGTGCCAGCTAAACAAGGCTTAAGTACAACCTAAAC
TAGACTTAAATCCTATCAGTGCCAGCTAAATTGTCCTTAAAAGCTTGGTGCTAGCTAAAGCTAT
Found at i:7058563 original size:13 final size:13
Alignment explanation
Indices: 7058545--7058592 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
7058535 CATTCAATCA
*
7058545 TTTTTTTTTTGCT
1 TTTTTTTTTTACT
*
7058558 TTTTTTTTCTCACT
1 TTTTTTTT-TTACT
* *
7058572 TTTTCTTTCTACT
1 TTTTTTTTTTACT
7058585 TTTTTTTT
1 TTTTTTTT
7058593 CTCTTTATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTTACT
Found at i:7058573 original size:14 final size:14
Alignment explanation
Indices: 7058556--7058595 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
7058546 TTTTTTTTTG
7058556 CTTTTTTTTTCTCA
1 CTTTTTTTTTCTCA
*
7058570 CTTTTTCTTTCT-A
1 CTTTTTTTTTCTCA
7058583 CTTTTTTTTTCTC
1 CTTTTTTTTTCTC
7058596 TTTATTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (14 bp):
CTTTTTTTTTCTCA
Found at i:7058598 original size:12 final size:13
Alignment explanation
Indices: 7058545--7058606 Score: 74
Period size: 12 Copynumber: 4.8 Consensus size: 13
7058535 CATTCAATCA
*
7058545 TTTTTTTTT-TGC
1 TTTTTTTTTCTAC
7058557 TTTTTTTTTCTCAC
1 TTTTTTTTTCT-AC
*
7058571 TTTTTCTTTCTAC
1 TTTTTTTTTCTAC
7058584 TTTTTTTTTCT-C
1 TTTTTTTTTCTAC
*
7058596 TTTATTTTTCT
1 TTTTTTTTTCT
7058607 TTGCACACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
12 20 0.45
13 13 0.30
14 11 0.25
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTCTAC
Found at i:7061252 original size:19 final size:19
Alignment explanation
Indices: 7061230--7061272 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7061220 AAAAAATCCC
7061230 TTTTTTGAAAATTTT-TTT
1 TTTTTTGAAAATTTTATTT
* *
7061248 ATTTTTTTAATATTTTATTT
1 -TTTTTTGAAAATTTTATTT
7061268 TTTTT
1 TTTTT
7061273 ATGGAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTGAAAATTTTATTT
Found at i:7061923 original size:3 final size:3
Alignment explanation
Indices: 7061917--7061951 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
7061907 TTACTACTAC
* *
7061917 TAT TAT TAT TAT TAT TAT TAT TAT TGT TGT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7061952 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7065249 original size:20 final size:20
Alignment explanation
Indices: 7065220--7065258 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7065210 CTTAGCCAAT
* *
7065220 AAAGTTAAAATTAGTCAAAC
1 AAAGTCAAAATTACTCAAAC
7065240 AAAGTCAAAATTACTCAAA
1 AAAGTCAAAATTACTCAAA
7065259 ATTTAGTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.23
Consensus pattern (20 bp):
AAAGTCAAAATTACTCAAAC
Found at i:7065619 original size:144 final size:144
Alignment explanation
Indices: 7065439--7065782 Score: 433
Period size: 144 Copynumber: 2.4 Consensus size: 144
7065429 CCCAAACTTA
* *
7065439 GATTTTCATGAAACTTTCTAGATCTTACTTTTATAATATTTCATGATTTTTGGTGCATTTGAAAT
1 GATTTTCATGAAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTGAAAT
* * * *
7065504 TATAGCAATACCCTGATAGGTGTGAAATTACTAAAATACCCCTCAAGAGTAATTTT-ATAATTTG
66 CATAGCAATACCCTCAAAGGTGTGAAATTACCAAAATACCCCTCAAGAGT-ATTTTCATAATTTG
* *
7065568 ACCTT-TTCGAGCTT-
130 ACATTCTT-GAGATTC
* * *
7065582 GAATTTTTATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTTGTGCATTTGAAA
1 G-ATTTTCATGAAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTGAAA
* * * * *
7065647 TCATAGCAATACCTTCAAATGTGTGAAATTACCAAAATACCCTTTAAGAGTATTTTCGTAATTTG
65 TCATAGCAATACCCTCAAAGGTGTGAAATTACCAAAATACCCCTCAAGAGTATTTTCATAATTTG
7065712 ACATTCTTGAGATTC
130 ACATTCTTGAGATTC
** * * * * *
7065727 GATTTTCACAAAAATTTTCAGACCCTAATTTTATAATATTTCATGAATTTTGGTGC
1 GATTTTCATGAAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTTGGTGC
7065783 TTGAAAATCC
Statistics
Matches: 171, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
143 6 0.04
144 162 0.95
145 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (144 bp):
GATTTTCATGAAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTGAAAT
CATAGCAATACCCTCAAAGGTGTGAAATTACCAAAATACCCCTCAAGAGTATTTTCATAATTTGA
CATTCTTGAGATTC
Found at i:7074713 original size:3 final size:3
Alignment explanation
Indices: 7074705--7074735 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7074695 AAAAGAATGT
*
7074705 TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7074736 AACTTAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:7077634 original size:15 final size:16
Alignment explanation
Indices: 7077606--7077638 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7077596 TCCAAACATG
7077606 TTTTTTCATCTTTTTC
1 TTTTTTCATCTTTTTC
*
7077622 TTTTTTC-TTTTTTTC
1 TTTTTTCATCTTTTTC
7077637 TT
1 TT
7077639 GCATGATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTCATCTTTTTC
Found at i:7078074 original size:34 final size:34
Alignment explanation
Indices: 7078031--7078098 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
7078021 TCATTCTTAT
* *
7078031 AATGCAACTTCTTAAGTTTTTACTCAAGTGAAGC
1 AATGCAACTTCTCAAGTTTCTACTCAAGTGAAGC
7078065 AATGCAACTTCTCAAGTTTCTACTCAAGTGAAGC
1 AATGCAACTTCTCAAGTTTCTACTCAAGTGAAGC
7078099 CTAACAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (34 bp):
AATGCAACTTCTCAAGTTTCTACTCAAGTGAAGC
Found at i:7080428 original size:17 final size:16
Alignment explanation
Indices: 7080406--7080440 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
7080396 TAAATTGATG
7080406 AACTATAAGCAAATATA
1 AACTATAAGCAAA-ATA
*
7080423 AACTATAATCAAAATA
1 AACTATAAGCAAAATA
7080439 AA
1 AA
7080441 TAGATAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.23
Consensus pattern (16 bp):
AACTATAAGCAAAATA
Found at i:7085399 original size:21 final size:21
Alignment explanation
Indices: 7085374--7085415 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7085364 CCAAATAATT
*
7085374 AAAAAAATTAGACAAATATAAG
1 AAAAAAA-TAAACAAATATAAG
*
7085396 AAAAAAATAAATAAATATAA
1 AAAAAAATAAACAAATATAA
7085416 TTAAAGGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (21 bp):
AAAAAAATAAACAAATATAAG
Found at i:7090916 original size:32 final size:32
Alignment explanation
Indices: 7090880--7090957 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 32
7090870 TTTATTCCAA
*
7090880 AAATCAATTTTTTTTC-TTTTTCTTTTGAAAAC
1 AAATCAATTTTTTTTCATTTTT-TTTGGAAAAC
** *
7090912 AAATC-ATTTTTAAATCATTTTTTTTGGAAAGC
1 AAATCAATTTTT-TTTCATTTTTTTTGGAAAAC
*
7090944 AAAACAATTTTTTT
1 AAATCAATTTTTTT
7090958 GGATTAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
31 6 0.17
32 19 0.53
33 11 0.31
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.51
Consensus pattern (32 bp):
AAATCAATTTTTTTTCATTTTTTTTGGAAAAC
Found at i:7091409 original size:7 final size:7
Alignment explanation
Indices: 7091379--7091481 Score: 53
Period size: 7 Copynumber: 15.6 Consensus size: 7
7091369 GGTTTTAAGA
7091379 TTTAGGG
1 TTTAGGG
7091386 -TTAGGG
1 TTTAGGG
7091392 TTTTA--G
1 -TTTAGGG
7091398 TTTAGGG
1 TTTAGGG
7091405 TTTA-GG
1 TTTAGGG
*
7091411 ATT-GTGG
1 TTTAG-GG
* *
7091418 TCTAGGA
1 TTTAGGG
*
7091425 TTTAAGG
1 TTTAGGG
7091432 TTTAGGG
1 TTTAGGG
7091439 TTTA-GG
1 TTTAGGG
7091445 TTTAGGG
1 TTTAGGG
* *
7091452 CTT-GGT
1 TTTAGGG
7091458 TTTA-GG
1 TTTAGGG
*
7091464 TTT-GAGA
1 TTTAG-GG
7091471 TTTAGGG
1 TTTAGGG
7091478 TTTA
1 TTTA
7091482 AGATTTGAGG
Statistics
Matches: 70, Mismatches: 14, Indels: 24
0.65 0.13 0.22
Matches are distributed among these distances:
5 4 0.06
6 25 0.36
7 36 0.51
8 5 0.07
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:7091442 original size:14 final size:13
Alignment explanation
Indices: 7091333--7091521 Score: 63
Period size: 13 Copynumber: 14.5 Consensus size: 13
7091323 TTTGGGGGTT
7091333 GGTTTAGGG-TTA
1 GGTTTAGGGTTTA
* *
7091345 -ATTTAGGGTCTA
1 GGTTTAGGGTTTA
* *
7091357 GG-TTAGGATTTT
1 GGTTTAGGGTTTA
* *
7091369 GGTTTTAAGATTTA
1 GG-TTTAGGGTTTA
*
7091383 GGGTTAGGGTTTTA
1 GGTTTAGGG-TTTA
7091397 -GTTTAGGGTTTA
1 GGTTTAGGGTTTA
* *
7091409 GGATT-GTGGTCTA
1 GGTTTAG-GGTTTA
*
7091422 GGATTTAAGGTTTA
1 GG-TTTAGGGTTTA
7091436 GGGTTTA-GGTTTA
1 -GGTTTAGGGTTTA
* *
7091449 GGGCTT-GGTTTTA
1 -GGTTTAGGGTTTA
*
7091462 GGTTT-GAGATTTA
1 GGTTTAG-GGTTTA
* *
7091475 GGGTTTAAGATTTGA
1 -GGTTTAGGGTTT-A
* *
7091490 GGCTT-GGTTTTA
1 GGTTTAGGGTTTA
*
7091502 GGTTTAGGATTTA
1 GGTTTAGGGTTTA
7091515 GAGTTTA
1 G-GTTTA
7091522 AGTTTTAAGT
Statistics
Matches: 133, Mismatches: 27, Indels: 32
0.69 0.14 0.17
Matches are distributed among these distances:
11 7 0.05
12 26 0.20
13 53 0.40
14 44 0.33
15 3 0.02
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.45
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:7091500 original size:40 final size:40
Alignment explanation
Indices: 7091432--7091528 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
7091422 GGATTTAAGG
*
7091432 TTTAGGGTTT-AGGTTTAGGGCTTGGTTTTAGGTTT-GAGA
1 TTTAGGGTTTAAGATTTAGGGCTTGGTTTTAGGTTTAG-GA
7091471 TTTAGGGTTTAAGATTT-GAGGCTTGGTTTTAGGTTTAGGA
1 TTTAGGGTTTAAGATTTAG-GGCTTGGTTTTAGGTTTAGGA
* *
7091511 TTTAGAGTTTAAGTTTTA
1 TTTAGGGTTTAAGATTTA
7091529 AGTTTTAGAG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
39 11 0.22
40 39 0.76
41 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (40 bp):
TTTAGGGTTTAAGATTTAGGGCTTGGTTTTAGGTTTAGGA
Found at i:7091514 original size:7 final size:7
Alignment explanation
Indices: 7091359--7091590 Score: 50
Period size: 7 Copynumber: 34.6 Consensus size: 7
7091349 AGGGTCTAGG
7091359 TTAGGAT
1 TTAGGAT
* *
7091366 TTTGGTT
1 TTAGGAT
*
7091373 TTAAGAT
1 TTAGGAT
*
7091380 TTAGG-G
1 TTAGGAT
*
7091386 TTAGGGTT
1 TTA-GGAT
7091394 TTA-G-T
1 TTAGGAT
*
7091399 TTAGGGT
1 TTAGGAT
7091406 TTAGGAT
1 TTAGGAT
7091413 TGT-GG-T
1 T-TAGGAT
*
7091419 CTAGGAT
1 TTAGGAT
7091426 TTAAGG-T
1 TT-AGGAT
*
7091433 TTAGGGT
1 TTAGGAT
7091440 TTAGG-T
1 TTAGGAT
**
7091446 TTAGGGC
1 TTAGGAT
*
7091453 TT-GGTT
1 TTAGGAT
7091459 TTAGG-T
1 TTAGGAT
7091465 TT-GAGAT
1 TTAG-GAT
*
7091472 TTAGGGT
1 TTAGGAT
*
7091479 TTAAGAT
1 TTAGGAT
*
7091486 TTGAGG-C
1 TT-AGGAT
*
7091493 TT-GGTT
1 TTAGGAT
7091499 TTAGG-T
1 TTAGGAT
7091505 TTAGGAT
1 TTAGGAT
7091512 TTA-GAGT
1 TTAGGA-T
* *
7091519 TTAAGTT
1 TTAGGAT
* *
7091526 TTAAGTT
1 TTAGGAT
7091533 TTA-GAGT
1 TTAGGA-T
* *
7091540 TTGGGAG
1 TTAGGAT
*
7091547 TT-GGTT
1 TTAGGAT
7091553 TTAAGG-T
1 TT-AGGAT
7091560 TT-GGAT
1 TTAGGAT
7091566 TTAGGAT
1 TTAGGAT
*
7091573 TTAAGAT
1 TTAGGAT
*
7091580 TTAGGCT
1 TTAGGAT
7091587 TTAG
1 TTAG
7091591 AGTTTGGGGT
Statistics
Matches: 170, Mismatches: 29, Indels: 52
0.68 0.12 0.21
Matches are distributed among these distances:
5 10 0.06
6 43 0.25
7 102 0.60
8 15 0.09
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (7 bp):
TTAGGAT
Found at i:7091526 original size:27 final size:26
Alignment explanation
Indices: 7091496--7091620 Score: 64
Period size: 27 Copynumber: 4.7 Consensus size: 26
7091486 TTGAGGCTTG
7091496 GTTTTAGGTTTAGGATTTAGAGTTTAA
1 GTTTTAGGTTTAGGATTTAGAGTTT-A
* * *
7091523 GTTTTAAGTTTTA-GAGTTTGGGAG-TTG
1 GTTTT-AGGTTTAGGA-TTT-AGAGTTTA
7091550 GTTTTAAGGTTT-GGATTTAG-GATTTAA
1 GTTTT-AGGTTTAGGATTTAGAG-TTT-A
* * * *
7091577 GATTTAGGCTTTA-GAGTTTGGGGTTTG
1 GTTTTAGG-TTTAGGA-TTTAGAGTTTA
7091604 GTTTTAGGTTT-GGATTT
1 GTTTTAGGTTTAGGATTT
7091621 TGGGTTTGGA
Statistics
Matches: 76, Mismatches: 10, Indels: 26
0.68 0.09 0.23
Matches are distributed among these distances:
24 1 0.01
25 4 0.05
26 13 0.17
27 36 0.47
28 18 0.24
29 4 0.05
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (26 bp):
GTTTTAGGTTTAGGATTTAGAGTTTA
Found at i:7091568 original size:13 final size:12
Alignment explanation
Indices: 7091556--7091637 Score: 56
Period size: 13 Copynumber: 6.2 Consensus size: 12
7091546 GTTGGTTTTA
7091556 AGGTTTGGATTT
1 AGGTTTGGATTT
*
7091568 AGGATTTAAGATTT
1 AGG-TTT-GGATTT
*
7091582 AGGCTTTAGAGTTT
1 AGG-TTTGGA-TTT
* *
7091596 GGGGTTTGGTTTT
1 -AGGTTTGGATTT
7091609 AGGTTTGGATTTT
1 AGGTTTGGA-TTT
*
7091622 GGGTTTGGAATTT
1 AGGTTTGG-ATTT
7091635 AGG
1 AGG
7091638 GTTTTAGTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
12 10 0.18
13 24 0.44
14 19 0.35
15 2 0.04
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.46
Consensus pattern (12 bp):
AGGTTTGGATTT
Found at i:7091622 original size:19 final size:20
Alignment explanation
Indices: 7091586--7091623 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
7091576 AGATTTAGGC
*
7091586 TTTAGAGTTTGGGGTTTGGT
1 TTTAGAGTTTGGAGTTTGGT
*
7091606 TTTAG-GTTTGGATTTTGG
1 TTTAGAGTTTGGAGTTTGG
7091624 GTTTGGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.11, C:0.00, G:0.37, T:0.53
Consensus pattern (20 bp):
TTTAGAGTTTGGAGTTTGGT
Found at i:7091635 original size:26 final size:25
Alignment explanation
Indices: 7091556--7091663 Score: 74
Period size: 26 Copynumber: 4.1 Consensus size: 25
7091546 GTTGGTTTTA
* * *
7091556 AGGTTTGGATTTAGGATTTAAGATTT
1 AGGTTTGGATTTTGGGTTTGA-ATTT
* * **
7091582 AGGCTTTAGAGTTTGGGGTTTGGTTTT
1 AGG-TTTGGA-TTTTGGGTTTGAATTT
7091609 AGGTTTGGATTTTGGGTTTGGAATTT
1 AGGTTTGGATTTTGGGTTT-GAATTT
* *
7091635 AGGGTTT-TAGTTTGGAGTTTGAATTT
1 A-GGTTTGGATTTTGG-GTTTGAATTT
7091661 AGG
1 AGG
7091664 GGTTTGGAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
25 11 0.17
26 26 0.40
27 20 0.31
28 8 0.12
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47
Consensus pattern (25 bp):
AGGTTTGGATTTTGGGTTTGAATTT
Found at i:7091639 original size:14 final size:14
Alignment explanation
Indices: 7091552--7091673 Score: 62
Period size: 14 Copynumber: 9.1 Consensus size: 14
7091542 GGGAGTTGGT
*
7091552 TTTAAGGTTTGG-A
1 TTTAGGGTTTGGAA
* *
7091565 TTTAGGATTT-AAGA
1 TTTAGGGTTTGGA-A
* * *
7091579 TTTAGGCTTTAGAG
1 TTTAGGGTTTGGAA
* *
7091593 TTTGGGGTTTGG-T
1 TTTAGGGTTTGGAA
7091606 TTTA-GGTTTGG-A
1 TTTAGGGTTTGGAA
*
7091618 TTTTGGGTTTGGAA
1 TTTAGGGTTTGGAA
* *
7091632 TTTAGGGTTT-TAG
1 TTTAGGGTTTGGAA
7091645 TTT-GGAGTTT-GAA
1 TTTAGG-GTTTGGAA
7091658 TTTAGGGGTTTGGAA
1 TTTA-GGGTTTGGAA
7091673 T
1 T
7091674 GCAAGAAACA
Statistics
Matches: 82, Mismatches: 18, Indels: 16
0.71 0.16 0.14
Matches are distributed among these distances:
12 12 0.15
13 30 0.37
14 33 0.40
15 7 0.09
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTGGAA
Found at i:7091644 original size:54 final size:53
Alignment explanation
Indices: 7091431--7091644 Score: 195
Period size: 54 Copynumber: 4.0 Consensus size: 53
7091421 AGGATTTAAG
* * * *
7091431 GTTTAGGGTTTAGG-TTTAGGGCTTGGTTTTA-GGTTTGAGATTTAGGGTTTA-A
1 GTTTGGGGTTT-GGTTTTA-GGTTTGGATTTAGGGTTTGAGATTTAGGTTTTAGA
* * * * * *
7091483 GATTTGAGGCTTGGTTTTAGGTTTAGGATTTAGAGTTTAAGTTTTAAGTTTTAGA
1 G-TTTGGGGTTTGGTTTTAGGTTT-GGATTTAGGGTTTGAGATTTAGGTTTTAGA
* * *
7091538 GTTTGGGAG-TTGGTTTTAAGGTTTGGATTTAGGATTTAAGATTTAGGCTTTAGA
1 GTTTGGG-GTTTGGTTTT-AGGTTTGGATTTAGGGTTTGAGATTTAGGTTTTAGA
*
7091592 GTTTGGGGTTTGGTTTTAGGTTTGGATTTTGGGTTTG-GAATTTAGGGTTTTAG
1 GTTTGGGGTTTGGTTTTAGGTTTGGATTTAGGGTTTGAG-ATTTA-GGTTTTAG
7091645 TTTGGAGTTT
Statistics
Matches: 132, Mismatches: 20, Indels: 18
0.78 0.12 0.11
Matches are distributed among these distances:
52 8 0.06
53 40 0.30
54 75 0.57
55 9 0.07
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47
Consensus pattern (53 bp):
GTTTGGGGTTTGGTTTTAGGTTTGGATTTAGGGTTTGAGATTTAGGTTTTAGA
Found at i:7096833 original size:14 final size:14
Alignment explanation
Indices: 7096813--7096868 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 14
7096803 CGGGATGTAA
*
7096813 AAAAAAAAGCAAAAG
1 AAAAAAGAG-AAAAG
*
7096828 AAAAAATAG-AAAG
1 AAAAAAGAGAAAAG
7096841 AAAATAAGAGAAAAAG
1 AAAA-AAGAG-AAAAG
7096857 AAAAAA-AGAAAA
1 AAAAAAGAGAAAA
7096869 TTTTTTATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 12 0.33
14 6 0.17
15 10 0.28
16 8 0.22
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (14 bp):
AAAAAAGAGAAAAG
Found at i:7097341 original size:23 final size:25
Alignment explanation
Indices: 7097315--7097360 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
7097305 CTAAAAAAAA
*
7097315 AGAAAATAA-AAA-GTGAAAGAATG
1 AGAAAATAAGAAATGGGAAAGAATG
7097338 AGAAAATAAGAAATGGGAAAGAA
1 AGAAAATAAGAAATGGGAAAGAA
7097361 AATGAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 3 0.15
25 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.24, T:0.11
Consensus pattern (25 bp):
AGAAAATAAGAAATGGGAAAGAATG
Found at i:7097371 original size:21 final size:19
Alignment explanation
Indices: 7097338--7097378 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
7097328 TGAAAGAATG
*
7097338 AGAAAATAAGAAATGGGAA
1 AGAAAATAAGAAATGAGAA
7097357 AGAAAATGAAAGAAATGAGAA
1 AGAAAAT--AAGAAATGAGAA
7097378 A
1 A
7097379 AGAGAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.10
Consensus pattern (19 bp):
AGAAAATAAGAAATGAGAA
Found at i:7097427 original size:23 final size:21
Alignment explanation
Indices: 7097388--7097429 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
7097378 AAGAGAAATT
*
7097388 AAAAAAAAAGGAAAAAATGGG
1 AAAAAAAAAGAAAAAAATGGG
7097409 AAAAGAAAAAGAAATAAAATG
1 AAAA-AAAAAGAAA-AAAATG
7097430 ATTGAGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAAATGGG
Found at i:7099388 original size:26 final size:26
Alignment explanation
Indices: 7099352--7099402 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
7099342 TTGCATGGAA
7099352 CATTTGCATCAAGAAAAAGACATTTT
1 CATTTGCATCAAGAAAAAGACATTTT
*
7099378 CATTTGCATCAGGAAAAAGACATTT
1 CATTTGCATCAAGAAAAAGACATTT
7099403 GAATTCGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (26 bp):
CATTTGCATCAAGAAAAAGACATTTT
Found at i:7099412 original size:26 final size:26
Alignment explanation
Indices: 7099357--7099420 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
7099347 TGGAACATTT
* ** *
7099357 GCATCAAGAAAAAGACATTTTCATTT
1 GCATCAGGAAAAAGACATTTGAATTC
7099383 GCATCAGGAAAAAGACATTTGAATTC
1 GCATCAGGAAAAAGACATTTGAATTC
*
7099409 GCATTAGGAAAA
1 GCATCAGGAAAA
7099421 GATGTTTACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (26 bp):
GCATCAGGAAAAAGACATTTGAATTC
Found at i:7099879 original size:40 final size:40
Alignment explanation
Indices: 7099752--7099886 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 40
7099742 GACCTTTGGG
* * * * *
7099752 CAGAATTTTAAATTTTTAAAAGA-TTTCAAAAACCACCAAG
1 CAGAATTTTAAATTTTTAAATGACTTTC-AAGACCTCCGAT
* *
7099792 CAGAATTTTAAATTTTTGAATGACTTTCAAGACCTTCGAT
1 CAGAATTTTAAATTTTTAAATGACTTTCAAGACCTCCGAT
* ** * *
7099832 CAAAATTTTAAATTTTTAAATGGTTTTTAAGACCTCCGGGT
1 CAGAATTTTAAATTTTTAAATGACTTTCAAGACCTCC-GAT
7099873 -AGAATTTTAAATTT
1 CAGAATTTTAAATTT
7099887 GCATCATGGT
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
40 72 0.92
41 6 0.08
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (40 bp):
CAGAATTTTAAATTTTTAAATGACTTTCAAGACCTCCGAT
Found at i:7100159 original size:40 final size:39
Alignment explanation
Indices: 7100115--7100500 Score: 141
Period size: 40 Copynumber: 9.8 Consensus size: 39
7100105 TTTTGGGCAT
* * *
7100115 AATTTTAAATTTTTAAAAGATTTCAAAGACCACCAAGTAC
1 AATTTTAAATTTTTAAATGATTTC-AAGACCTCCAAGTAA
* * ***
7100155 AATTTTAAACTTTTGAATGATTTTCAAGACCTTTGA-TCAA
1 AATTTTAAATTTTTAAATGA-TTTCAAGACCTCCAAGT-AA
* *
7100195 AATTTTAAATTTTTAAATGGTTTTCAAGACCTCCAAGTAG
1 AATTTTAAATTTTTAAAT-GATTTCAAGACCTCCAAGTAA
* * * * * *
7100235 AATCTTAACTTTTTGAATGATTTCAATACCT-CAGGGCAA
1 AATTTTAAATTTTTAAATGATTTCAAGACCTCCA-AGTAA
** * * * *
7100274 AA-CCTAAGACTTTTT-AATGATTTTCAAGGCCTTCAGGCAA
1 AATTTTAA-A-TTTTTAAATGA-TTTCAAGACCTCCAAGTAA
* * ****
7100314 AATCTTAAAATTTTT-AACGA--T---GACCTTTGGGTAA
1 AAT-TTTAAATTTTTAAATGATTTCAAGACCTCCAAGTAA
* * * * *
7100348 AATCTTT-GACTTTTGAATGATTTCCAAGACCTCCGAGCAA
1 AAT-TTTAAATTTTTAAATGATTT-CAAGACCTCCAAGTAA
* *
7100388 AATTTTAAAATTTTGAAAT-ATTTCTAAGACCTTCAAG-AA
1 AATTTT-AAATTTTTAAATGATTTC-AAGACCTCCAAGTAA
* * ** * * *
7100427 GAATTTTAAATTTTTGAATGATTTTCAAAACCTTTAGGCAG
1 -AATTTTAAATTTTTAAATGA-TTTCAAGACCTCCAAGTAA
* *
7100468 AATTTTAAATTTTTAAATAGCTTTTAAGACCTC
1 AATTTTAAATTTTTAAAT-GATTTCAAGACCTC
7100501 TAGACAAAAT
Statistics
Matches: 260, Mismatches: 60, Indels: 52
0.70 0.16 0.14
Matches are distributed among these distances:
33 5 0.02
34 19 0.07
36 1 0.00
37 1 0.00
38 6 0.02
39 37 0.14
40 167 0.64
41 22 0.08
42 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (39 bp):
AATTTTAAATTTTTAAATGATTTCAAGACCTCCAAGTAA
Found at i:7100195 original size:360 final size:361
Alignment explanation
Indices: 7099524--7100242 Score: 1111
Period size: 360 Copynumber: 2.0 Consensus size: 361
7099514 TAATAGTCTA
* * *
7099524 TTGCGTCATGGTTATGTTTGCTAAATTTTGGTATAAAACAAGAAAAAAGAAATTTGATCTTCGAA
1 TTGCATCATGGTTATGTTTGCTAAATTTCGATATAAAACAAGAAAAAAGAAATTTGATCTTCGAA
* * *
7099589 ATATTTGAAAAATGTTGTGAAGCACTTCTAATAGGAAATAGGGGTTAGAACATAAATAAAATATT
66 ACATTTGAAAAATGCTGTGAAGCACTTCTAATAGGAAACAGGGGTTAGAACATAAATAAAATATT
** * *
7099654 AAGTGTTTTTCAAATCCAAATGATAAGACACCTTAGAATAAAGGGTGAAAAACTTTTAAGACAAA
131 AAGTCATTTTCAAATCCAAAGGATAAGACACCTTAGAATAAAGAGTGAAAAACTTTTAAGACAAA
*
7099719 GAGTGAAAATTTAGAAACATAAAGACCTTTGGGCAGAATTTTAAATTTTTAAAAGATTTCAAAAA
196 AAGTGAAAATTTAGAAACATAAAGACCTTTGGGCAGAATTTTAAATTTTTAAAAGATTTCAAAAA
* *
7099784 CCACCAAGCAGAATTTTAAATTTTTGAATGACTTTCAAGACCTTCGATCAAAATTTTAAATTTTT
261 CCACCAAGCACAATTTTAAACTTTTGAATGACTTTCAAGACCTTCGATCAAAATTTTAAATTTTT
* ** *
7099849 AAATGGTTTTTAAGACCTCCGGGTAGAATTTTAAAT
326 AAATGGTTTTCAAGACCTCCAAGTAGAATCTTAAAT
* *
7099885 TTGCATCATGGTTATGTTTGCTAAATTTCGATATAAAACAAGAAAGAAA-AAATTTGTTTTTCGA
1 TTGCATCATGGTTATGTTTGCTAAATTTCGATATAAAACAAGAAA-AAAGAAATTTGATCTTCGA
* * * *
7099949 AACATTT-AAGAAATGCTGTGAAGCACTTTTAGTGGGAAACATGGGTTAGAACATAAATAAAATA
65 AACATTTGAA-AAATGCTGTGAAGCACTTCTAATAGGAAACAGGGGTTAGAACATAAATAAAATA
* * *
7100013 TTGAG-CATTTTCAAATCCAAAGGATAAGACGCCTTAGAATAAAGAGTGAAAATCTTTTAAGACA
129 TTAAGTCATTTTCAAATCCAAAGGATAAGACACCTTAGAATAAAGAGTGAAAAACTTTTAAGACA
* *
7100077 AAAAGTGAAAATTTAGAAACATAAAGACTTTTGGGCATAATTTTAAATTTTTAAAAGATTTCAAA
194 AAAAGTGAAAATTTAGAAACATAAAGACCTTTGGGCAGAATTTTAAATTTTTAAAAGATTTCAAA
* * * *
7100142 GACCACCAAGTACAATTTTAAACTTTTGAATGATTTTCAAGACCTTTGATCAAAATTTTAAATTT
259 AACCACCAAGCACAATTTTAAACTTTTGAATGACTTTCAAGACCTTCGATCAAAATTTTAAATTT
7100207 TTAAATGGTTTTCAAGACCTCCAAGTAGAATCTTAA
324 TTAAATGGTTTTCAAGACCTCCAAGTAGAATCTTAA
7100243 CTTTTTGAAT
Statistics
Matches: 324, Mismatches: 32, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
360 208 0.64
361 113 0.35
362 3 0.01
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (361 bp):
TTGCATCATGGTTATGTTTGCTAAATTTCGATATAAAACAAGAAAAAAGAAATTTGATCTTCGAA
ACATTTGAAAAATGCTGTGAAGCACTTCTAATAGGAAACAGGGGTTAGAACATAAATAAAATATT
AAGTCATTTTCAAATCCAAAGGATAAGACACCTTAGAATAAAGAGTGAAAAACTTTTAAGACAAA
AAGTGAAAATTTAGAAACATAAAGACCTTTGGGCAGAATTTTAAATTTTTAAAAGATTTCAAAAA
CCACCAAGCACAATTTTAAACTTTTGAATGACTTTCAAGACCTTCGATCAAAATTTTAAATTTTT
AAATGGTTTTCAAGACCTCCAAGTAGAATCTTAAAT
Found at i:7100233 original size:80 final size:79
Alignment explanation
Indices: 7100115--7100265 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 79
7100105 TTTTGGGCAT
*
7100115 AATTTTAAATTTTTAAAAGATTTCAAAGACCACCAAGTACAATTTTAAAC-TTTTGAATGATTTT
1 AATTTTAAATTTTTAAAAGATTTCAAAGACCACCAAGTACAATCTT-AACTTTTTGAATGA-TTT
7100179 CAAGACCTTTGATCAA
64 CAAGACCTTTGATCAA
* * * *
7100195 AATTTTAAATTTTTAAATGGTTTTC-AAGACCTCCAAGTAGAATCTTAACTTTTTGAATGATTTC
1 AATTTTAAATTTTTAAA-AGATTTCAAAGACCACCAAGTACAATCTTAACTTTTTGAATGATTTC
*
7100259 AATACCT
65 AAGACCT
7100266 CAGGGCAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 13 0.21
80 45 0.71
81 5 0.08
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (79 bp):
AATTTTAAATTTTTAAAAGATTTCAAAGACCACCAAGTACAATCTTAACTTTTTGAATGATTTCA
AGACCTTTGATCAA
Found at i:7100448 original size:80 final size:79
Alignment explanation
Indices: 7100358--7100536 Score: 193
Period size: 80 Copynumber: 2.2 Consensus size: 79
7100348 AATCTTTGAC
7100358 TTTTGAATGATTTCCAAGACCTCCGA-GCAAAATTTTAAAATTTTGAAATA-TTTCTAAGACCTT
1 TTTTGAATGATTTCCAAGACCT-CGAGGCAAAATTTT-AAATTTTGAAATACTTT-TAAGACC-T
* *
7100421 CAAGA-AGAATTTTAAAT
62 CAAGACAAAATCTTAAAT
* * ** * * *
7100438 TTTTGAATGATTTTCAAAACCTTTAGGCAGAATTTTAAATTTTTAAATAGCTTTTAAGACCTCTA
1 TTTTGAATGATTTCCAAGACCTCGAGGCAAAATTTTAAATTTTGAAATA-CTTTTAAGACCTCAA
7100503 GACAAAATCTTAAAT
65 GACAAAATCTTAAAT
* *
7100518 TTTTGGATAATTTCCAAGA
1 TTTTGAATGATTTCCAAGA
7100537 AAATTGGGCA
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
79 18 0.22
80 61 0.74
81 3 0.04
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (79 bp):
TTTTGAATGATTTCCAAGACCTCGAGGCAAAATTTTAAATTTTGAAATACTTTTAAGACCTCAAG
ACAAAATCTTAAAT
Found at i:7100552 original size:80 final size:79
Alignment explanation
Indices: 7100384--7100617 Score: 186
Period size: 80 Copynumber: 2.9 Consensus size: 79
7100374 AGACCTCCGA
* * * *
7100384 GCAAAATTTTAAAATTTTGAAATATTTCTAAGACCTTCAAGAAGAATTTTAAATTTTTGAATGAT
1 GCAAAATTTT-AAATTTTTAAATATTTCTAAGACCTTCAAGAAAAATCTTAAATTTTTGAATAAT
* **
7100449 TTTCAAAACCTTTAG
65 TTCCAAAACAATTAG
* * *
7100464 GCAGAATTTTAAATTTTTAAATAGCTTT-TAAGACC-TCTAGACAAAATCTTAAATTTTTGGATA
1 GCAAAATTTTAAATTTTTAAATA--TTTCTAAGACCTTCAAGA-AAAATCTTAAATTTTTGAATA
*
7100527 ATTTCCAAGAA-AATTGG
63 ATTTCCAA-AACAATTAG
* * * * *** * * * * *
7100544 GCAAAATTTAAAATTTTTGAATGATTCCTAAAACCTTTGGGCAAAATATTAAAATTTTGAATGAC
1 GCAAAATTTTAAATTTTTAAAT-ATTTCTAAGACCTTCAAGAAAAATCTTAAATTTTTGAATAAT
7100609 TTCCAAAAC
65 TTCCAAAAC
7100618 CTCTGGGTGG
Statistics
Matches: 121, Mismatches: 25, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
79 21 0.17
80 92 0.76
81 8 0.07
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (79 bp):
GCAAAATTTTAAATTTTTAAATATTTCTAAGACCTTCAAGAAAAATCTTAAATTTTTGAATAATT
TCCAAAACAATTAG
Found at i:7100584 original size:40 final size:40
Alignment explanation
Indices: 7100336--7100662 Score: 150
Period size: 40 Copynumber: 8.2 Consensus size: 40
7100326 TTTAACGATG
* ** * *
7100336 ACCTTTGGGTAAAATCTTTGACTTTTGAATGATTTCC-AAG
1 ACCTTTGGGCAAAATCTTAAATTTTTGAATGA-TTCCTAAA
** * * * * *
7100376 ACCTCCGAGCAAAATTTTAAAATTTTGAAAT-ATTTCTAAG
1 ACCTTTGGGCAAAATCTTAAATTTTTG-AATGATTCCTAAA
*** * *
7100416 ACCTTCAAG-AAGAATTTTAAATTTTTGAATGATT-TTCAAA
1 ACCTTTGGGCAA-AATCTTAAATTTTTGAATGATTCCT-AAA
* * * * * * *
7100456 ACCTTTAGGCAGAATTTTAAATTTTTAAATAGCTT-TTAAG
1 ACCTTTGGGCAAAATCTTAAATTTTTGAAT-GATTCCTAAA
* * * * *
7100496 ACCTCTAGACAAAATCTTAAATTTTTGGATAATTTCC-AAGA
1 ACCTTTGGGCAAAATCTTAAATTTTTGAATGA-TTCCTAA-A
**
7100537 A-AATTGGGCAAAAT-TTAAAATTTTTGAATGATTCCTAAA
1 ACCTTTGGGCAAAATCTT-AAATTTTTGAATGATTCCTAAA
* *
7100576 ACCTTTGGGCAAAATATTAAAATTTTGAATGACTTCC-AAA
1 ACCTTTGGGCAAAATCTTAAATTTTTGAATGA-TTCCTAAA
* *** * * *
7100616 ACCTCTGGGTGGAATCTTAAATTTATGAATGATTTCTAAG
1 ACCTTTGGGCAAAATCTTAAATTTTTGAATGATTCCTAAA
7100656 ACCTTTG
1 ACCTTTG
7100663 AATAAAACCT
Statistics
Matches: 221, Mismatches: 50, Indels: 32
0.73 0.17 0.11
Matches are distributed among these distances:
39 20 0.09
40 185 0.84
41 16 0.07
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (40 bp):
ACCTTTGGGCAAAATCTTAAATTTTTGAATGATTCCTAAA
Found at i:7100948 original size:40 final size:38
Alignment explanation
Indices: 7100904--7101037 Score: 153
Period size: 40 Copynumber: 3.4 Consensus size: 38
7100894 TTGGGTAAGT
* *
7100904 TCTTAAATTTTTGAAGAATTTCCAAGACTGCATGGTGAAA
1 TCTTAAATTTTTGAATAATTTCCAAGACT-C-TGGTAAAA
* *
7100944 TCTTAAA-TTTTGAATAATTTCTAAGAACTCCGGGTAAAA
1 TCTTAAATTTTTGAATAATTTCCAAG-ACT-CTGGTAAAA
**
7100983 TCTTAAAAATTTGAATAATTTCCAAGACCTCTAGGTAAAA
1 TCTTAAATTTTTGAATAATTTCCAAGA-CTCT-GGTAAAA
7101023 TCTTAAATTTTTGAA
1 TCTTAAATTTTTGAA
7101038 AACCTCCAGG
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
39 31 0.39
40 49 0.61
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (38 bp):
TCTTAAATTTTTGAATAATTTCCAAGACTCTGGTAAAA
Found at i:7100952 original size:79 final size:79
Alignment explanation
Indices: 7100850--7101039 Score: 188
Period size: 79 Copynumber: 2.4 Consensus size: 79
7100840 GGTTTTCAAA
* * * ** ** ** **
7100850 ACCTCTAGGCAAAAGCTTAAAATTTT-AAAAGATTTTTAAGATTTTTGGGTAAGTTCTTAAATTT
1 ACCTCTAGGTAAAATCTT-AAATTTTGAAAA-ATTTCTAAGAACTCCGGGTAAAATCTTAAAAAT
7100914 TTGAAGAATTTCCAAG
64 TTGAAGAATTTCCAAG
* *
7100930 A-CTGC-ATGGTGAAATCTTAAATTTTGAATAATTTCTAAGAACTCCGGGTAAAATCTTAAAAAT
1 ACCT-CTA-GGTAAAATCTTAAATTTTGAAAAATTTCTAAGAACTCCGGGTAAAATCTTAAAAAT
*
7100993 TTGAATAATTTCCAAG
64 TTGAAGAATTTCCAAG
7101009 ACCTCTAGGTAAAATCTTAAATTTTTGAAAA
1 ACCTCTAGGTAAAATCTTAAA-TTTTGAAAA
7101040 CCTCCAGGTA
Statistics
Matches: 88, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
79 64 0.73
80 24 0.27
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (79 bp):
ACCTCTAGGTAAAATCTTAAATTTTGAAAAATTTCTAAGAACTCCGGGTAAAATCTTAAAAATTT
GAAGAATTTCCAAG
Found at i:7101043 original size:30 final size:30
Alignment explanation
Indices: 7101009--7101068 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
7100999 AATTTCCAAG
* * *
7101009 ACCTCTAGGTAAAATCTTAAATTTTTGAAA
1 ACCTCCAGGTAAAATATCAAATTTTTGAAA
*
7101039 ACCTCCAGGTAAAATATCATATTTTTGAAA
1 ACCTCCAGGTAAAATATCAAATTTTTGAAA
7101069 GATTTCCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (30 bp):
ACCTCCAGGTAAAATATCAAATTTTTGAAA
Found at i:7101099 original size:40 final size:41
Alignment explanation
Indices: 7101055--7101132 Score: 133
Period size: 40 Copynumber: 1.9 Consensus size: 41
7101045 AGGTAAAATA
7101055 TCATATTTTTGAA-AGATTTCCAAGACCTCCAAG-AAGAACC
1 TCATATTTTTGAACA-ATTTCCAAGACCTCCAAGCAAGAACC
7101095 TCATATTTTTGAACAATTTCCAAGACCTCCAAGCAAGA
1 TCATATTTTTGAACAATTTCCAAGACCTCCAAGCAAGA
7101133 TTCGTAACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
40 31 0.86
41 5 0.14
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (41 bp):
TCATATTTTTGAACAATTTCCAAGACCTCCAAGCAAGAACC
Found at i:7101329 original size:16 final size:16
Alignment explanation
Indices: 7101308--7101344 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
7101298 CTTTAATGAC
*
7101308 CAAAAAAAAAATCAAAA
1 CAAAAAAGAAA-CAAAA
7101325 CAAAAAAGAAACAAAA
1 CAAAAAAGAAACAAAA
7101341 CAAA
1 CAAA
7101345 CAACAAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.81, C:0.14, G:0.03, T:0.03
Consensus pattern (16 bp):
CAAAAAAGAAACAAAA
Found at i:7101355 original size:16 final size:16
Alignment explanation
Indices: 7101308--7101356 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7101298 CTTTAATGAC
*
7101308 CAAAAAAAAAATCAAAA
1 CAAAAAACAAA-CAAAA
*
7101325 CAAAAAAGAAACAAAA
1 CAAAAAACAAACAAAA
* *
7101341 CAAACAACAAGCAAAA
1 CAAAAAACAAACAAAA
7101357 ACCTTTCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.78, C:0.16, G:0.04, T:0.02
Consensus pattern (16 bp):
CAAAAAACAAACAAAA
Found at i:7101627 original size:10 final size:10
Alignment explanation
Indices: 7101614--7101652 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
7101604 GTTTAAACAA
7101614 AGTCAAACTT
1 AGTCAAACTT
*
7101624 AGTCAAAATT
1 AGTCAAACTT
*
7101634 AGTCAAACTG
1 AGTCAAACTT
*
7101644 AGTCGAACT
1 AGTCAAACT
7101653 CATGTTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (10 bp):
AGTCAAACTT
Found at i:7103506 original size:7 final size:7
Alignment explanation
Indices: 7103494--7103629 Score: 95
Period size: 7 Copynumber: 20.0 Consensus size: 7
7103484 AAACCAAAAC
7103494 CCCTAAA
1 CCCTAAA
7103501 CCCTAAA
1 CCCTAAA
7103508 CCCTAAA
1 CCCTAAA
7103515 CCCTAAA
1 CCCTAAA
7103522 -CCTAAA
1 CCCTAAA
*
7103528 CCTTAAA
1 CCCTAAA
7103535 CCCTAAA
1 CCCTAAA
*
7103542 -GC-AAA
1 CCCTAAA
**
7103547 CGTTAAA
1 CCCTAAA
**
7103554 TGCTAAA
1 CCCTAAA
7103561 CCCTTAAA
1 CCC-TAAA
7103569 -CC-AAA
1 CCCTAAA
*
7103574 CCTTAAA
1 CCCTAAA
*
7103581 CCTTAAA
1 CCCTAAA
7103588 CCCTAAA
1 CCCTAAA
*
7103595 CCTTAAA
1 CCCTAAA
** *
7103602 ATCTACA
1 CCCTAAA
7103609 CCCTAAAA
1 CCCT-AAA
*
7103617 TCCTAAA
1 CCCTAAA
7103624 -CCTAAA
1 CCCTAAA
7103630 TTCGAACCTC
Statistics
Matches: 103, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
5 6 0.06
6 15 0.15
7 73 0.71
8 9 0.09
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (7 bp):
CCCTAAA
Found at i:7103526 original size:27 final size:27
Alignment explanation
Indices: 7103495--7103744 Score: 106
Period size: 27 Copynumber: 9.3 Consensus size: 27
7103485 AACCAAAACC
7103495 CCTAAACCCTAAACCCTAAACCCTAAA
1 CCTAAACCCTAAACCCTAAACCCTAAA
* *
7103522 CCTAAACCTTAAACCCTAAA-GC-AAA
1 CCTAAACCCTAAACCCTAAACCCTAAA
* **
7103547 CGTTAAATGCTAAACCCTTAAA-CC-AAA
1 C-CTAAACCCTAAACCC-TAAACCCTAAA
* *
7103574 CCTTAAACCTTAAACCCTAAACCTTAAAA
1 CC-TAAACCCTAAACCCTAAACCCT-AAA
* * *
7103603 TCTACACCCTAAAATCCTAAA-CCTAAA
1 CCTAAACCCT-AAACCCTAAACCCTAAA
* * **
7103630 -TTCGAACCTCTAAAATCTAAACCCTAAA
1 CCT-AAACC-CTAAACCCTAAACCCTAAA
**** * *
7103658 CC-AAATTGAAAACCCTGAACCTTAAA
1 CCTAAACCCTAAACCCTAAACCCTAAA
* * *
7103684 -ATAAATCTTAAATCCC-AAACCCTAAA
1 CCTAAACCCTAAA-CCCTAAACCCTAAA
* * *
7103710 CCTAAAACCT-AACCACTAAAACCTAAT
1 CCTAAACCCTAAACC-CTAAACCCTAAA
*
7103737 GCTAAACC
1 CCTAAACC
7103745 AACCCCAAGC
Statistics
Matches: 162, Mismatches: 45, Indels: 32
0.68 0.19 0.13
Matches are distributed among these distances:
25 6 0.04
26 48 0.30
27 79 0.49
28 16 0.10
29 13 0.08
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (27 bp):
CCTAAACCCTAAACCCTAAACCCTAAA
Found at i:7103642 original size:28 final size:28
Alignment explanation
Indices: 7103589--7103657 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 28
7103579 AACCTTAAAC
*
7103589 CCTAAACCTTAAAATCTACACCCTAAAAT
1 CCTAAACC-TAAAATCGACACCCTAAAAT
*
7103618 CCTAAACCTAAATTCGA-ACCTCTAAAAT
1 CCTAAACCTAAAATCGACACC-CTAAAAT
7103646 -CTAAACCCTAAA
1 CCTAAA-CCTAAA
7103658 CCAAATTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 8 0.22
28 20 0.56
29 8 0.22
ACGTcount: A:0.45, C:0.30, G:0.01, T:0.23
Consensus pattern (28 bp):
CCTAAACCTAAAATCGACACCCTAAAAT
Found at i:7103656 original size:14 final size:14
Alignment explanation
Indices: 7103590--7103657 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 14
7103580 ACCTTAAACC
*
7103590 CTAAACCTTAAAAT
1 CTAAACCCTAAAAT
*
7103604 CTACACCCTAAAAT
1 CTAAACCCTAAAAT
*
7103618 CCTAAA-CCTAAATT
1 -CTAAACCCTAAAAT
*
7103632 C-GAACCTCTAAAAT
1 CTAAACC-CTAAAAT
7103646 CTAAACCCTAAA
1 CTAAACCCTAAA
7103658 CCAAATTGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
12 2 0.05
13 2 0.05
14 31 0.72
15 8 0.19
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (14 bp):
CTAAACCCTAAAAT
Found at i:7104737 original size:26 final size:27
Alignment explanation
Indices: 7104695--7104751 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
7104685 AAACAAATGC
*
7104695 ATGAGATGCATGAATAAAATAATGTATG
1 ATGAGATGCATGAATAAAATAATATA-G
*
7104723 ATGA-ATGCATG-ATAATATAATATAG
1 ATGAGATGCATGAATAAAATAATATAG
7104748 ATGA
1 ATGA
7104752 TAAAGTATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 5 0.19
26 11 0.41
27 7 0.26
28 4 0.15
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (27 bp):
ATGAGATGCATGAATAAAATAATATAG
Found at i:7104795 original size:18 final size:18
Alignment explanation
Indices: 7104726--7104786 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
7104716 ATGTATGATG
7104726 AATGCATGATAATAT-AA
1 AATGCATGATAATATAAA
* **
7104743 TATAG-ATGATAA-AGTATG
1 AAT-GCATGATAATA-TAAA
7104761 AATGCATGATAATATAAA
1 AATGCATGATAATATAAA
7104779 AATGCATG
1 AATGCATG
7104787 TGATGATAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
16 1 0.03
17 11 0.33
18 20 0.61
19 1 0.03
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (18 bp):
AATGCATGATAATATAAA
Found at i:7104886 original size:7 final size:7
Alignment explanation
Indices: 7104874--7104999 Score: 61
Period size: 6 Copynumber: 18.7 Consensus size: 7
7104864 TGGGTCTATG
7104874 TTAGGGT
1 TTAGGGT
7104881 TTAGGG-
1 TTAGGGT
7104887 TTAGGGT
1 TTAGGGT
*
7104894 TT-TGGT
1 TTAGGGT
* ***
7104900 ATATCAT
1 TTAGGGT
*
7104907 TTAGGAT
1 TTAGGGT
7104914 TTAGGGTT
1 TTAGGG-T
*
7104922 TTAAGG-
1 TTAGGGT
7104928 TTAGGGT
1 TTAGGGT
7104935 TTA-GGT
1 TTAGGGT
7104941 TTAGGG-
1 TTAGGGT
*
7104947 ATAGGG-
1 TTAGGGT
7104953 TTAGGG-
1 TTAGGGT
*
7104959 TTAAGG-
1 TTAGGGT
* *
7104965 TTATGAT
1 TTAGGGT
*
7104972 TTAAGGT
1 TTAGGGT
7104979 TTAGGGTTT
1 TTAGGG--T
7104988 TTAGGGT
1 TTAGGGT
7104995 TTAGG
1 TTAGG
7105000 TTAAGGGATA
Statistics
Matches: 93, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
6 40 0.43
7 40 0.43
8 6 0.06
9 7 0.08
ACGTcount: A:0.21, C:0.01, G:0.36, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:7104966 original size:12 final size:12
Alignment explanation
Indices: 7104922--7105027 Score: 83
Period size: 12 Copynumber: 8.8 Consensus size: 12
7104912 ATTTAGGGTT
7104922 TTAAGGTTAGGG
1 TTAAGGTTAGGG
*
7104934 TTTAGGTTTAGGG
1 TTAAGG-TTAGGG
* *
7104947 ATAGGGTTAGGG
1 TTAAGGTTAGGG
**
7104959 TTAAGGTTATGAT
1 TTAAGGTTA-GGG
7104972 TTAAGGTTTAGGG
1 TTAAGG-TTAGGG
*
7104985 TT---TTTAGGG
1 TTAAGGTTAGGG
*
7104994 TTTAGGTTAAGGG
1 TTAAGGTT-AGGG
*
7105007 ATAAGGTTAGGG
1 TTAAGGTTAGGG
7105019 TTAAGGTTA
1 TTAAGGTTA
7105028 TGATTTAAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
9 8 0.11
12 32 0.44
13 29 0.40
14 3 0.04
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.39
Consensus pattern (12 bp):
TTAAGGTTAGGG
Done.