Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008283.1 Hibiscus syriacus cultivar Beakdansim tig00110945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2862730
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 14
Found at i:734131 original size:19 final size:20
Alignment explanation
Indices: 734086--734133 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
734076 TCAAAATCAT
* *
734086 TTTTCAAAATTTTATTTTGC
1 TTTTCAAAATCTAATTTTGC
*
734106 TTTTCAAAATCTAATTTTTC
1 TTTTCAAAATCTAATTTTGC
734126 -TTTCAAAA
1 TTTTCAAAA
734134 GAAAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTCAAAATCTAATTTTGC
Found at i:740651 original size:20 final size:20
Alignment explanation
Indices: 740622--740659 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
740612 CCCCTTCAAA
*
740622 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
740642 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
740660 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:749681 original size:20 final size:19
Alignment explanation
Indices: 749658--749703 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
749648 CGATATACCA
749658 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
749678 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
749698 GGTAAA
1 GGTAAA
749704 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:749848 original size:20 final size:21
Alignment explanation
Indices: 749816--749869 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
749806 GATCCACAAC
* * *
749816 GATATAACAGGTAAT-AATAT
1 GATAAAACCGGTAATCAAAAT
749836 GATAAAACCGGT-ATCAAAAT
1 GATAAAACCGGTAATCAAAAT
749856 GATAAAACCGGTAA
1 GATAAAACCGGTAA
749870 AATGATACCG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (21 bp):
GATAAAACCGGTAATCAAAAT
Found at i:749873 original size:17 final size:19
Alignment explanation
Indices: 749834--749876 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
749824 AGGTAATAAT
749834 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
749854 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
749871 ATGATA
1 ATGATA
749877 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:752179 original size:6 final size:6
Alignment explanation
Indices: 752155--752252 Score: 79
Period size: 6 Copynumber: 16.3 Consensus size: 6
752145 AGCTGTCGCA
* * * * *
752155 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GAAGAT GACGAT GATGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * ** * * * *
752203 GACGAT GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
752251 GA
1 GA
752253 TGATCCAAAC
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 72 1.00
ACGTcount: A:0.38, C:0.08, G:0.35, T:0.19
Consensus pattern (6 bp):
GAAGAT
Found at i:752256 original size:12 final size:12
Alignment explanation
Indices: 752158--752252 Score: 118
Period size: 12 Copynumber: 7.9 Consensus size: 12
752148 TGTCGCAGAA
*
752158 GATGAAGCTGAC
1 GATGAAGATGAC
752170 GATGAAGATGAC
1 GATGAAGATGAC
752182 GATGAAGATGAC
1 GATGAAGATGAC
*
752194 GATGATGATGAC
1 GATGAAGATGAC
* *
752206 GATGAAGCTGGC
1 GATGAAGATGAC
*
752218 GATGAAGATGAT
1 GATGAAGATGAC
* * *
752230 GACGATGATGAT
1 GATGAAGATGAC
752242 GATGAAGATGA
1 GATGAAGATGA
752253 TGATCCAAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 71 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:754072 original size:183 final size:183
Alignment explanation
Indices: 753726--754388 Score: 1249
Period size: 183 Copynumber: 3.6 Consensus size: 183
753716 CTTTCAACAT
* * * *
753726 ATTATAAT-AAATAGGTAAATTTGCAATATAACCGGTAT-AATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
753789 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
753854 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
753907 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
753972 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
754037 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
754090 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTGTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
754155 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
754220 AATGTGTCGATACGATTTAAAAAAGTGTTGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
754273 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
754338 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTC
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTC
754389 TAAAATGTGT
Statistics
Matches: 472, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
181 8 0.02
182 26 0.06
183 438 0.93
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:756923 original size:25 final size:25
Alignment explanation
Indices: 756889--756953 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
756879 TTATCATTAA
756889 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
756914 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
756939 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
756954 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:757329 original size:23 final size:23
Alignment explanation
Indices: 757298--757361 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
757288 ATAGGTAAAC
*
757298 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
757321 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
757344 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
757362 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:757368 original size:23 final size:23
Alignment explanation
Indices: 757298--757370 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
757288 ATAGGTAAAC
* **
757298 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
757321 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
757344 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
757367 ATAT
1 ATAT
757371 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:758028 original size:334 final size:334
Alignment explanation
Indices: 757413--758414 Score: 1927
Period size: 334 Copynumber: 3.0 Consensus size: 334
757403 CATATTTTTT
*
757413 TCACTATGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
*
757478 TATAGGCGTCTAATGATTTATTTTTTACGTTATGATATATATTATTATTAAATTAAAAATTCTAA
66 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
* *
757543 TTATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
131 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
757608 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
196 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
757673 GAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
261 GAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
757738 TTGCAATGC
326 TTGCAATGC
757747 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
757812 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
66 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
757877 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
131 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
*
757942 TATTATAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
196 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
758007 GAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
261 GAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
758072 TTGCAATGC
326 TTGCAATGC
758081 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
758146 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
66 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
758211 ATAATA-TTT-TAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
131 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
758274 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAA
196 TATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAA
*
758339 AGAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAA
260 AGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAA
758404 TTTGCAATGC
325 TTTGCAATGC
758414 T
1 T
758415 ATCGGTATAA
Statistics
Matches: 660, Mismatches: 7, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
332 83 0.13
333 112 0.17
334 465 0.70
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (334 bp):
TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
GAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
TTGCAATGC
Found at i:759146 original size:2 final size:2
Alignment explanation
Indices: 759139--759172 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
759129 TTAATAAGAA
759139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
759173 TTGTTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:762484 original size:27 final size:27
Alignment explanation
Indices: 762446--762498 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
762436 TATTTTCACG
*
762446 GGATCTCTGATCATGAGCGAGAAATCT
1 GGATCTCTGATCATGACCGAGAAATCT
762473 GGATCTCTGATCATGACCGAGAAATC
1 GGATCTCTGATCATGACCGAGAAATC
762499 CGCCTGGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (27 bp):
GGATCTCTGATCATGACCGAGAAATCT
Found at i:770745 original size:20 final size:20
Alignment explanation
Indices: 770720--770762 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
770710 TCTAAGAGCC
* *
770720 CATTTAGGATCATTTAGATG
1 CATTTAGGAGCATATAGATG
*
770740 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
770760 CAT
1 CAT
770763 GAGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:771030 original size:27 final size:27
Alignment explanation
Indices: 770992--771044 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
770982 TATTTTCACG
*
770992 GGATCTCTGATCATGATCGAGAAATCC
1 GGATCTCTGATCATGACCGAGAAATCC
771019 GGATCTCTGATCATGACCGAGAAATC
1 GGATCTCTGATCATGACCGAGAAATC
771045 TGCTTGGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (27 bp):
GGATCTCTGATCATGACCGAGAAATCC
Found at i:773106 original size:17 final size:17
Alignment explanation
Indices: 773086--773131 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
773076 AATTTATATT
773086 AGTAAAATATTAAATAA
1 AGTAAAATATTAAATAA
*
773103 AGTAAAATACATAAATAA
1 AGTAAAATA-TTAAATAA
*
773121 ATTAAATATAT
1 AGTAAA-ATAT
773132 AATATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (17 bp):
AGTAAAATATTAAATAA
Found at i:773133 original size:17 final size:18
Alignment explanation
Indices: 773086--773133 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
773076 AATTTATATT
773086 AGTAAAATAT-TAAATAA
1 AGTAAAATATATAAATAA
*
773103 AGTAAAATACATAAATAA
1 AGTAAAATATATAAATAA
*
773121 A-TTAAATATATAA
1 AGTAAAATATATAA
773134 TATTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
AGTAAAATATATAAATAA
Found at i:773186 original size:10 final size:10
Alignment explanation
Indices: 773167--773197 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
773157 CCTTAAACGA
*
773167 GAGAGTATTT
1 GAGAGAATTT
773177 GAGAGAATTT
1 GAGAGAATTT
773187 GAGAGAATTT
1 GAGAGAATTT
773197 G
1 G
773198 GTGTGATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:773372 original size:50 final size:50
Alignment explanation
Indices: 773318--773440 Score: 122
Period size: 51 Copynumber: 2.4 Consensus size: 50
773308 AGATAAATAG
* * * *
773318 GTATAGCGCGGAGCAGGGGGCGCGATATA-GCCACGTGTAACCCAGTCAGC
1 GTATAGCGCGG-GCAGGGGGCGCGATATACCCCACGTGGAACCAAATCAGC
* * * ***
773368 GTATAGCGAGGTGCAAGGGGCGCGCTATACCCCACGTGGCGTCAAATCAGC
1 GTATAGCGCGG-GCAGGGGGCGCGATATACCCCACGTGGAACCAAATCAGC
773419 GTATAGCGCGGGTCAGGGGGCG
1 GTATAGCGCGGG-CAGGGGGCG
773441 GGCTTTACTG
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
50 26 0.45
51 32 0.55
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (50 bp):
GTATAGCGCGGGCAGGGGGCGCGATATACCCCACGTGGAACCAAATCAGC
Found at i:773439 original size:51 final size:51
Alignment explanation
Indices: 773288--773440 Score: 138
Period size: 50 Copynumber: 3.0 Consensus size: 51
773278 CGCCCTGCAC
773288 CGCGCTATACCCCACGTGTCAGAT-AAAT-AG-GTATAGCGCGGAG-CAGGGGG
1 CGCGCTATACCCCACGTGTC-G-TCAAATCAGCGTATAGCGCGG-GTCAGGGGG
* * *** * * * *
773338 CGCGATATA-GCCACGTGTAACCCAGTCAGCGTATAGCG-AGGTGCAAGGGG
1 CGCGCTATACCCCACGTGTCGTCAAATCAGCGTATAGCGCGGGT-CAGGGGG
*
773388 CGCGCTATACCCCACGTGGCGTCAAATCAGCGTATAGCGCGGGTCAGGGGG
1 CGCGCTATACCCCACGTGTCGTCAAATCAGCGTATAGCGCGGGTCAGGGGG
773439 CG
1 CG
773441 GGCTTTACTG
Statistics
Matches: 77, Mismatches: 19, Indels: 13
0.71 0.17 0.12
Matches are distributed among these distances:
48 3 0.04
49 11 0.14
50 30 0.39
51 30 0.39
52 3 0.04
ACGTcount: A:0.24, C:0.26, G:0.35, T:0.16
Consensus pattern (51 bp):
CGCGCTATACCCCACGTGTCGTCAAATCAGCGTATAGCGCGGGTCAGGGGG
Found at i:774911 original size:23 final size:24
Alignment explanation
Indices: 774854--774911 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
774844 TTGTGACATG
774854 TTCTCTACCTTTATAGCACGTTTA
1 TTCTCTACCTTTATAGCACGTTTA
* * *
774878 TT-TCTGA-CTTTGTATCTCGTTT-
1 TTCTCT-ACCTTTATAGCACGTTTA
774900 TTCTCTACCTTT
1 TTCTCTACCTTT
774912 TGGTATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
22 3 0.11
23 22 0.79
24 3 0.11
ACGTcount: A:0.14, C:0.24, G:0.09, T:0.53
Consensus pattern (24 bp):
TTCTCTACCTTTATAGCACGTTTA
Found at i:778864 original size:13 final size:14
Alignment explanation
Indices: 778841--778870 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
778831 GAGTTGGATT
778841 AGGAGAGAAGAAGA
1 AGGAGAGAAGAAGA
778855 AGGA-AGAAGAAGA
1 AGGAGAGAAGAAGA
778868 AGG
1 AGG
778871 GGTCAACGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (14 bp):
AGGAGAGAAGAAGA
Found at i:779473 original size:46 final size:45
Alignment explanation
Indices: 779395--779510 Score: 171
Period size: 46 Copynumber: 2.6 Consensus size: 45
779385 ACGTAAGATA
* * *
779395 TAGAAAAATAATAATTTAGGTAGCGCCCAATATTAATATTT-TCGG
1 TAGAAAAATAATATTTTAGGTAACGCCCAATATTAACATTTCT-GG
*
779440 TAGAAAAATAAATATTTTAGGTAACGCCTAATATTAACATTTCTGG
1 TAGAAAAAT-AATATTTTAGGTAACGCCCAATATTAACATTTCTGG
779486 TAGAAAAATAATATTTTAGGTAACG
1 TAGAAAAATAATATTTTAGGTAACG
779511 TTTTACTGGA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
45 25 0.38
46 39 0.60
47 1 0.02
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (45 bp):
TAGAAAAATAATATTTTAGGTAACGCCCAATATTAACATTTCTGG
Found at i:781083 original size:15 final size:15
Alignment explanation
Indices: 781039--781088 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
781029 CCAAACTATT
*
781039 TAAAAATTGTT-AAA
1 TAAAAATTATTAAAA
* *
781053 TAAAAA-TAATACAA
1 TAAAAATTATTAAAA
781067 TAAAAATTATTAAAA
1 TAAAAATTATTAAAA
*
781082 TATAAAT
1 TAAAAAT
781089 AACAACATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 2 0.07
14 14 0.50
15 12 0.43
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
TAAAAATTATTAAAA
Found at i:781680 original size:17 final size:17
Alignment explanation
Indices: 781631--781671 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
781621 TTGTATAATC
* *
781631 ATTTTAACAGAAATAAA
1 ATTTTAACACAAACAAA
781648 ATTTTAACACAAACAAA
1 ATTTTAACACAAACAAA
781665 ATTTTAA
1 ATTTTAA
781672 AATAAACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (17 bp):
ATTTTAACACAAACAAA
Found at i:795670 original size:25 final size:25
Alignment explanation
Indices: 795640--795718 Score: 70
Period size: 28 Copynumber: 3.0 Consensus size: 25
795630 TTTATATCTG
795640 TAAAAAAATTAATTAAATAAAATAT
1 TAAAAAAATTAATTAAATAAAATAT
* *
795665 T-AAAAAATTAAATTTAAATAAATTAC
1 TAAAAAAATT-AA-TTAAATAAAATAT
* *
795691 TAACAAAATACTAAATATAATAAAATAT
1 TAA-AAAA-ATTAATTA-AATAAAATAT
795719 ACCTTAAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
24 8 0.19
25 3 0.07
26 12 0.29
27 3 0.07
28 14 0.33
29 2 0.05
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
TAAAAAAATTAATTAAATAAAATAT
Found at i:795688 original size:15 final size:16
Alignment explanation
Indices: 795647--795689 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
795637 CTGTAAAAAA
* *
795647 ATTAATTAAATAAAAT
1 ATTAAATAAATTAAAT
795663 ATTAAA-AAATTAAAT
1 ATTAAATAAATTAAAT
795678 -TTAAATAAATTA
1 ATTAAATAAATTA
795690 CTAACAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.21
15 14 0.58
16 5 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTAAATAAATTAAAT
Found at i:796133 original size:35 final size:35
Alignment explanation
Indices: 796089--796155 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
796079 GGAAACATGT
*
796089 ATTCTCGTTTAGCATAAACGGTTATTTAAACGAAC
1 ATTCCCGTTTAGCATAAACGGTTATTTAAACGAAC
*
796124 ATTCCCGTTTTGCATAAACGGTTATTTAAACG
1 ATTCCCGTTTAGCATAAACGGTTATTTAAACG
796156 GGTATCAGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (35 bp):
ATTCCCGTTTAGCATAAACGGTTATTTAAACGAAC
Found at i:796222 original size:37 final size:37
Alignment explanation
Indices: 796170--796254 Score: 136
Period size: 37 Copynumber: 2.3 Consensus size: 37
796160 TCAGGCCGGG
796170 TATATAT-ATTTAAATTAAATATATAAATATTATATA
1 TATATATAATTTAAATTAAATATATAAATATTATATA
* *
796206 TATATATAATTTAAATTAAATTTATTAATATTATATA
1 TATATATAATTTAAATTAAATATATAAATATTATATA
796243 TATATAATAATT
1 TATAT-ATAATT
796255 ATTTTTAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
36 7 0.16
37 32 0.71
38 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (37 bp):
TATATATAATTTAAATTAAATATATAAATATTATATA
Found at i:797129 original size:101 final size:100
Alignment explanation
Indices: 796934--797166 Score: 231
Period size: 101 Copynumber: 2.3 Consensus size: 100
796924 TTCAACTTCA
* * * *
796934 TACTCCACTTCGTTGAATTCGATTCAAAATTTAGATTTTATTCTTTTATTTTGTGTGCAATTTTT
1 TACTTCACTTAGTTGAATTCGATTC-AAATTTAGATTTTATTCTTTTATTATGTATGCAATTTTT
* * * * *
796999 GTTCTAACTAATTGTTTAACTTTTTGGCATCAATAG
65 CTTCTAAATAATTGTTTAACTCTTAGGCATCAACAG
** * *
797035 TACTTTTCTTAGTTGAATTCGATTCAAATTTAG-TTTTAATTC-TTTATATATGTATATCATTTT
1 TACTTCACTTAGTTGAATTCGATTCAAATTTAGATTTT-ATTCTTTTAT-TATGTAT-GCA-ATT
* *
797098 TTTCTTCTAAATAGTTGTTTAA-TCTTAGGCATCGACAG
62 TTTCTTCTAAATAATTGTTTAACTCTTAGGCATCAACAG
* * *
797136 TACTTCACTTCGCTGAATCCGA-TCAAATTTA
1 TACTTCACTTAGTTGAATTCGATTCAAATTTA
797167 AGCTTTAGTT
Statistics
Matches: 108, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
99 9 0.08
100 26 0.24
101 52 0.48
102 21 0.19
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (100 bp):
TACTTCACTTAGTTGAATTCGATTCAAATTTAGATTTTATTCTTTTATTATGTATGCAATTTTTC
TTCTAAATAATTGTTTAACTCTTAGGCATCAACAG
Found at i:797293 original size:101 final size:99
Alignment explanation
Indices: 797033--797363 Score: 247
Period size: 101 Copynumber: 3.3 Consensus size: 99
797023 TGGCATCAAT
* * * * *
797033 AGTACTTTTCTTAGTTGAATTCGATTCAAATTTAGTTTTAATTCTTTATAT-ATGTATATCATTT
1 AGTACTTTACTTCG-TGAATTCGATTCAAATTTAGCTTTAATTCTTT-TATGATATATATAATTT
* *
797097 TTTTCTTCTAAATAGTTGTTTAATCTTAGGCATCGAC
64 TTTTC-TCTAAATAGTTGTATAATCTTAAGCATCGAC
* * * * * * *
797134 AGTACTTCACTTCGCTGAATCCGA-TCAAATTTAAGCTTTAGTTATTTTCTGTTTTATATAAATT
1 AGTACTTTACTTCG-TGAATTCGATTCAAATTT-AGCTTTAATTCTTTTATGATATATAT-AATT
* * * *
797198 TTTTTC-CTGACTAGTTGTATAGTCTTAAGCATCGGC
63 TTTTTCTCTAAATAGTTGTATAATCTTAAGCATCGAC
* *
797234 AATTACTTTACTTCGTAGAATTCGATTGAAATTTAGCTTTAATTCTTTGTATGAATATATATATA
1 -AGTACTTTACTTCGT-GAATTCGATTCAAATTTAGCTTTAATTCTTT-TATG-ATATATATA-A
* * * * * * * * *
797299 ATTTTTGCTCCAATTAATTGTTTAATCTTAGGCGTCAAC
61 TTTTTTTCTCTAAATAGTTGTATAATCTTAAGCATCGAC
*
797338 -GATACTTTACTTTGCTGAATTCGATT
1 AG-TACTTTACTTCG-TGAATTCGATT
797364 TTAGCTGTAC
Statistics
Matches: 177, Mismatches: 41, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
100 35 0.20
101 67 0.38
102 20 0.11
103 34 0.19
104 21 0.12
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (99 bp):
AGTACTTTACTTCGTGAATTCGATTCAAATTTAGCTTTAATTCTTTTATGATATATATAATTTTT
TTCTCTAAATAGTTGTATAATCTTAAGCATCGAC
Found at i:802678 original size:2 final size:2
Alignment explanation
Indices: 802673--802703 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
802663 TACTACAGTG
802673 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
802704 ATACATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:805966 original size:18 final size:18
Alignment explanation
Indices: 805943--805979 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
805933 AAGAAGGGAA
805943 TGTTTCTAAGTCAAAGGC
1 TGTTTCTAAGTCAAAGGC
805961 TGTTTCTAAGTCAAAGGC
1 TGTTTCTAAGTCAAAGGC
805979 T
1 T
805980 CAAATGCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTTTCTAAGTCAAAGGC
Found at i:814718 original size:19 final size:19
Alignment explanation
Indices: 814691--814742 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
814681 AAATGCAATT
814691 AGTGCATCGATGCATAAAG
1 AGTGCATCGATGCATAAAG
* *
814710 AGTGAATCGATGCATAAGG
1 AGTGCATCGATGCATAAAG
814729 AGTGCATCGATGCA
1 AGTGCATCGATGCA
814743 GCTTCTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATAAAG
Found at i:821789 original size:19 final size:21
Alignment explanation
Indices: 821752--821794 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
821742 TAACTTTTTC
*
821752 TTTTCTCTTTCTTTATTAA-T
1 TTTTCTCTTTCATTATTAACT
821772 TTTTCTCTTTCATT-TTAACT
1 TTTTCTCTTTCATTATTAACT
821792 TTT
1 TTT
821795 ACTTTCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTCTTTCATTATTAACT
Found at i:821826 original size:45 final size:45
Alignment explanation
Indices: 821739--821826 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
821729 CCTCTTAAAT
* *
821739 TTTTAACTTTTTCTTTTCTCTTTCTTTATTAATTTTTCTCTTTCA
1 TTTTAACTTTTACTTTTCTCTTTCTTAATTAATTTTTCTCTTTCA
*
821784 TTTTAACTTTTAC-TTTCTCTTTCCTTAATTCATCTTTT-TCTTT
1 TTTTAACTTTTACTTTTCTCTTT-CTTAATTAAT-TTTTCTCTTT
821827 TGTTATTCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 9 0.24
45 25 0.66
46 4 0.11
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (45 bp):
TTTTAACTTTTACTTTTCTCTTTCTTAATTAATTTTTCTCTTTCA
Found at i:827152 original size:11 final size:11
Alignment explanation
Indices: 827136--827166 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
827126 TAAAAACAAT
827136 AAATAAAATGA
1 AAATAAAATGA
827147 AAATAAAATGA
1 AAATAAAATGA
*
827158 AAAGAAAAT
1 AAATAAAAT
827167 AATCCTCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (11 bp):
AAATAAAATGA
Found at i:827155 original size:16 final size:16
Alignment explanation
Indices: 827136--827168 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
827126 TAAAAACAAT
827136 AAAT-AAAATGAAAATA
1 AAATGAAAA-GAAAATA
827152 AAATGAAAAGAAAATA
1 AAATGAAAAGAAAATA
827168 A
1 A
827169 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATGAAAAGAAAATA
Found at i:828969 original size:30 final size:30
Alignment explanation
Indices: 828935--828999 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
828925 GGTTCTTCGG
828935 GACCTATAGACAGTTACCGAGGATCTTTAT
1 GACCTATAGACAGTTACCGAGGATCTTTAT
* * *
828965 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTATAGACAGTTACCGAGGATCTTTAT
828995 GACCT
1 GACCT
829000 CTGGATAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (30 bp):
GACCTATAGACAGTTACCGAGGATCTTTAT
Found at i:829000 original size:30 final size:30
Alignment explanation
Indices: 828946--829007 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
828936 ACCTATAGAC
828946 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
828976 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
829006 AG
1 AG
829008 GTCCTTCGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (30 bp):
AGTTACCGAGGATCTTTATGACCTCTGGAT
Found at i:831714 original size:2 final size:2
Alignment explanation
Indices: 831707--831734 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
831697 AGAGTTTGGA
831707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
831735 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:833487 original size:44 final size:44
Alignment explanation
Indices: 833424--833520 Score: 194
Period size: 44 Copynumber: 2.2 Consensus size: 44
833414 CTTCAATATG
833424 ATCGATGCACTCTCAAATAATTAAACATCAAATACAATTAGTGC
1 ATCGATGCACTCTCAAATAATTAAACATCAAATACAATTAGTGC
833468 ATCGATGCACTCTCAAATAATTAAACATCAAATACAATTAGTGC
1 ATCGATGCACTCTCAAATAATTAAACATCAAATACAATTAGTGC
833512 ATCGATGCA
1 ATCGATGCA
833521 TAAAGAGTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (44 bp):
ATCGATGCACTCTCAAATAATTAAACATCAAATACAATTAGTGC
Found at i:833557 original size:19 final size:19
Alignment explanation
Indices: 833507--833558 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
833497 AAATACAATT
833507 AGTGCATCGATGCATAAAG
1 AGTGCATCGATGCATAAAG
** * *
833526 AGTAAATCAATGCATAAGG
1 AGTGCATCGATGCATAAAG
833545 AGTGCATCGATGCA
1 AGTGCATCGATGCA
833559 CCTGCTTAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATAAAG
Found at i:834373 original size:31 final size:31
Alignment explanation
Indices: 834335--834399 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
834325 AGAGTCTAGG
*
834335 GTTTACCTATGTTCTAAGGAACATATGGATA
1 GTTTACCTAGGTTCTAAGGAACATATGGATA
** * *
834366 GTTTACCTAGGTTCTTCGGGACCTATGGATA
1 GTTTACCTAGGTTCTAAGGAACATATGGATA
834397 GTT
1 GTT
834400 ACCGAGGATC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTAGGTTCTAAGGAACATATGGATA
Found at i:834419 original size:30 final size:30
Alignment explanation
Indices: 834358--834457 Score: 128
Period size: 30 Copynumber: 3.3 Consensus size: 30
834348 CTAAGGAACA
* * ***
834358 TATGGATAGTTTACCTAGGTTCTTCGGGACC
1 TATGGATAG-TTACCGAGGATCTTTATGACC
834389 TATGGATAGTTACCGAGGATCTTTATGACC
1 TATGGATAGTTACCGAGGATCTTTATGACC
*
834419 TCTGGATAGTTACCGAGGATCTTTATGACC
1 TATGGATAGTTACCGAGGATCTTTATGACC
*
834449 TCTGGATAG
1 TATGGATAG
834458 GTCCTTCGGG
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 54 0.86
31 9 0.14
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (30 bp):
TATGGATAGTTACCGAGGATCTTTATGACC
Found at i:835924 original size:3 final size:3
Alignment explanation
Indices: 835916--835965 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
835906 ACTTGTTTGA
* * * *
835916 ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC GTC ATC TTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
835964 AT
1 AT
835966 TGACCGCTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.26, C:0.32, G:0.04, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:845223 original size:33 final size:33
Alignment explanation
Indices: 845186--845251 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
845176 CATCTTAAGA
*
845186 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
845219 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
845252 CCATCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:845310 original size:21 final size:21
Alignment explanation
Indices: 845285--845328 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
845275 CCCCTTATGC
*
845285 CTCTCAAGTGTATCTTTGACT
1 CTCTCAAGTGTATCTTCGACT
* *
845306 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
845327 CT
1 CT
845329 TGATTGTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:845431 original size:15 final size:15
Alignment explanation
Indices: 845411--845442 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
845401 ACTCTGTTTT
845411 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
845426 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
845441 CC
1 CC
845443 TAATACAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.62, G:0.06, T:0.19
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:849599 original size:22 final size:22
Alignment explanation
Indices: 849545--849599 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
849535 ATCGATTCCC
*
849545 TCAAGGAGGGAATCGGTTCCCAT
1 TCAAGG-GGGAATAGGTTCCCAT
*
849568 TCAAAGGGGGAATATGTTCCTC-T
1 TC-AAGGGGGAATAGGTTCC-CAT
849591 TCAAGGGGG
1 TCAAGGGGG
849600 GTATCGATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 7 0.25
23 16 0.57
24 5 0.18
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (22 bp):
TCAAGGGGGAATAGGTTCCCAT
Found at i:849613 original size:21 final size:22
Alignment explanation
Indices: 849528--849610 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 22
849518 CAGAACCCGT
849528 GGGGGGTATCGATTCCC-TCAA
1 GGGGGGTATCGATTCCCTTCAA
* * *
849549 GGAGGGAATCGGTTCCCATTCAAA
1 GGGGGGTATCGATTCCC-TTC-AA
*
849573 GGGGGAATAT-G-TTCCTCTTCAA
1 GGGGG-GTATCGATTCC-CTTCAA
849595 GGGGGGTATCGATTCC
1 GGGGGGTATCGATTCC
849611 TTCTGCACTA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
21 17 0.35
22 8 0.17
23 13 0.27
24 8 0.17
25 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (22 bp):
GGGGGGTATCGATTCCCTTCAA
Found at i:856605 original size:20 final size:19
Alignment explanation
Indices: 856560--856605 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
856550 CCGGTAACGC
*
856560 TTTACCGGTTTTATCATTT
1 TTTACCGATTTTATCATTT
*
856579 TGATACCGATTTTATCATATT
1 T-TTACCGATTTTATCAT-TT
856600 TTTACC
1 TTTACC
856606 TGTTATATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (19 bp):
TTTACCGATTTTATCATTT
Found at i:857145 original size:5 final size:5
Alignment explanation
Indices: 857137--857161 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
857127 AAAGTTTAGT
857137 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
857162 GTACCCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:857768 original size:15 final size:15
Alignment explanation
Indices: 857710--857761 Score: 95
Period size: 15 Copynumber: 3.5 Consensus size: 15
857700 ACATTATTTT
857710 GCTGAATCAGTCAGC
1 GCTGAATCAGTCAGC
857725 GCTGAATCAGTCAGC
1 GCTGAATCAGTCAGC
857740 GCTGAATCAGTCAGC
1 GCTGAATCAGTCAGC
*
857755 ACTGAAT
1 GCTGAAT
857762 TATTCAGAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (15 bp):
GCTGAATCAGTCAGC
Found at i:858302 original size:18 final size:18
Alignment explanation
Indices: 858255--858302 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
858245 ATTAAAATCA
*
858255 TAAAATTTATAAAATGTTT
1 TAAAA-TTATAAAATATTT
*
858274 CAAAA-TATAAAATATTT
1 TAAAATTATAAAATATTT
858291 TAAAATTATAAA
1 TAAAATTATAAA
858303 TATGAGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 15 0.60
18 6 0.24
19 4 0.16
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
TAAAATTATAAAATATTT
Found at i:858355 original size:8 final size:8
Alignment explanation
Indices: 858342--858389 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
858332 ATATAACTTT
858342 TATAAAAA
1 TATAAAAA
*
858350 TATAAAAT
1 TATAAAAA
858358 TATCAAAAA
1 TAT-AAAAA
858367 -ATAAAAA
1 TATAAAAA
*
858374 AATAATAAA
1 TATAA-AAA
858383 TATAAAA
1 TATAAAA
858390 TTTATTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 5 0.15
8 18 0.53
9 11 0.32
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
TATAAAAA
Found at i:858365 original size:16 final size:16
Alignment explanation
Indices: 858341--858406 Score: 62
Period size: 17 Copynumber: 4.0 Consensus size: 16
858331 AATATAACTT
858341 TTATAAAAATATAAAA
1 TTATAAAAATATAAAA
858357 TTATCAAAAA-ATAAAA
1 TTAT-AAAAATATAAAA
**
858373 AAATAATAAATATAAAA
1 TTATAA-AAATATAAAA
* *
858390 TTTATTAAAATTTAAAA
1 -TTATAAAAATATAAAA
858407 AAATCAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
15 2 0.05
16 15 0.38
17 20 0.50
18 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
TTATAAAAATATAAAA
Found at i:859206 original size:65 final size:64
Alignment explanation
Indices: 859137--859296 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 64
859127 GAATAAATTG
* * * *
859137 AACATCGAATGCATTTTATGCATCGATGCACATA-CCATGCAACGATGCTCTCAGGGT-TTTATG
1 AACATCGAATGCATTTTATGCATCGATGCACA-AGACATGCAACGATGCACTCACGCTATTT-TG
859200 AA
64 -A
* *
859202 AACATCGAATGCATTTGATGCATCGATGCACAAGACATGCATCGATGCACTCACGCTATTTTGA
1 AACATCGAATGCATTTTATGCATCGATGCACAAGACATGCAACGATGCACTCACGCTATTTTGA
*
859266 AACATCGAATGCACTTTATGCATCGATGCAC
1 AACATCGAATGCATTTTATGCATCGATGCAC
859297 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 31 0.36
65 51 0.60
66 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACAAGACATGCAACGATGCACTCACGCTATTTTGA
Found at i:859291 original size:18 final size:19
Alignment explanation
Indices: 859268--859316 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
859258 TATTTTGAAA
859268 CATCGAATGCACT-TTA-TG
1 CATCG-ATGCACTCTTAGTG
859286 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTTAGTG
*
859305 CACCGATGCACT
1 CATCGATGCACT
859317 AAGGCTCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 7 0.25
18 8 0.29
19 13 0.46
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (19 bp):
CATCGATGCACTCTTAGTG
Found at i:863548 original size:23 final size:23
Alignment explanation
Indices: 863477--863557 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
863467 ACACTTAATA
*
863477 GTGCATCAATGCATC-CCTTTGAAT
1 GTGCATCGATGCA-CACC-TTGAAT
* *
863501 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
863522 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
863545 GTGCATCGATGCA
1 GTGCATCGATGCA
863558 TCCGTCGGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
21 14 0.30
22 3 0.07
23 20 0.43
24 9 0.20
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:866871 original size:16 final size:16
Alignment explanation
Indices: 866850--866894 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
866840 TTTTTGTGTG
*
866850 ATATAAATTATATTAT
1 ATATAAATTATATAAT
*
866866 ATATAAATAATATAAT
1 ATATAAATTATATAAT
*
866882 ATAATATATTATA
1 AT-ATAAATTATA
866895 AATTATGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATAAATTATATAAT
Found at i:867221 original size:23 final size:23
Alignment explanation
Indices: 867169--867221 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
867159 AAAATAAGTT
*
867169 TGTCTTTGTGACACATTTATCTT
1 TGTCTTTGTGACACATTTATCTC
* *
867192 TGCCTTTGTGACACGTTTATCTC
1 TGTCTTTGTGACACATTTATCTC
867215 TGTCTTT
1 TGTCTTT
867222 TGATAGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.13, C:0.21, G:0.15, T:0.51
Consensus pattern (23 bp):
TGTCTTTGTGACACATTTATCTC
Found at i:867508 original size:14 final size:14
Alignment explanation
Indices: 867489--867516 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
867479 GTTGGTATTC
867489 GTTATTTTGTTAGA
1 GTTATTTTGTTAGA
867503 GTTATTTTGTTAGA
1 GTTATTTTGTTAGA
867517 TTTTTTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (14 bp):
GTTATTTTGTTAGA
Found at i:880082 original size:115 final size:116
Alignment explanation
Indices: 879950--880165 Score: 346
Period size: 115 Copynumber: 1.9 Consensus size: 116
879940 TTTTTATTAT
**
879950 TTTTTTTAACTTTGTCTCATTTATTATTTATATGTTATTATGACTCAATATTATTT-AAAATTTT
1 TTTTTTTAAC-TTGTCTCATTTATTATTTATATGTTATTATGACTCAATATTATTTAAAAAAATT
* *
880014 ATTATTGATAAAAATATGAAAATTTTTATTTTAAAATGTTGATTTATTTTTGA
65 ATTATTGAT-AAAATATGAAAATCTGTATTTTAAAATGTTGATTTATTTTTGA
* *
880067 TTTTTTTAAC-TGTCTCATTTATTATTTATATTTTATTATGACTCATTATTATTTAAAAAAATTA
1 TTTTTTTAACTTGTCTCATTTATTATTTATATGTTATTATGACTCAATATTATTTAAAAAAATTA
880131 TTATTGATAAAATATGAAAATCTGTATTTTAAAAT
66 TTATTGATAAAATATGAAAATCTGTATTTTAAAAT
880166 TTTTAAATCA
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
115 67 0.73
116 15 0.16
117 10 0.11
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (116 bp):
TTTTTTTAACTTGTCTCATTTATTATTTATATGTTATTATGACTCAATATTATTTAAAAAAATTA
TTATTGATAAAATATGAAAATCTGTATTTTAAAATGTTGATTTATTTTTGA
Found at i:880100 original size:28 final size:28
Alignment explanation
Indices: 880055--880121 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
880045 TAAAATGTTG
* *
880055 ATTTATT-TTTGAT-TTTTTTAACTGTCTC
1 ATTTATTATTT-ATATTTTATAA-TGACTC
*
880083 ATTTATTATTTATATTTTATTATGACTC
1 ATTTATTATTTATATTTTATAATGACTC
880111 A-TTATTATTTA
1 ATTTATTATTTA
880122 AAAAAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 10 0.29
28 15 0.44
29 9 0.26
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.63
Consensus pattern (28 bp):
ATTTATTATTTATATTTTATAATGACTC
Found at i:883663 original size:21 final size:22
Alignment explanation
Indices: 883622--883663 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
883612 ATTAACATCT
*
883622 AAATTTTAAAATATTTCAAATA
1 AAATTTTAAAATATTTAAAATA
*
883644 AAATTTTAAATTA-TTAAAAT
1 AAATTTTAAAATATTTAAAAT
883664 TGTATCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATTTTAAAATATTTAAAATA
Found at i:884459 original size:2 final size:2
Alignment explanation
Indices: 884452--884492 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
884442 TTCCTCAGGG
884452 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
884493 GAATAACATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:890082 original size:21 final size:21
Alignment explanation
Indices: 890053--890099 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
890043 ATTCAGACTA
890053 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
890074 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
890095 TCGCA
1 TCGCA
890100 ATGTGAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:890170 original size:20 final size:20
Alignment explanation
Indices: 890052--890381 Score: 296
Period size: 20 Copynumber: 16.3 Consensus size: 20
890042 GATTCAGACT
* **
890052 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTACGTA
* * *
890072 ATTCGCGTTGCGATTTTCCTA
1 A-TCGCATTGCGATTTACGTA
* * *
890093 ATTCGCAATGTGA-ATACGTAA
1 A-TCGCATTGCGATTTACGT-A
* * *
890114 ATCGCAATGTGA-ATACGTAA
1 ATCGCATTGCGATTTACGT-A
* *
890134 ATCGCAATGCGA-ATACGTA
1 ATCGCATTGCGATTTACGTA
*
890153 ATCGCAATGCGATTTACGTA
1 ATCGCATTGCGATTTACGTA
* *
890173 ATCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTACGTA
*
890193 ATTCGCATTGCGATTTACATA
1 A-TCGCATTGCGATTTACGTA
*
890214 ACCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTACGTA
*
890234 ACCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTACGTA
*
890254 ACCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTACGTA
*
890274 ATCACATTGCGATTTTAC-TA
1 ATCGCATTGCGA-TTTACGTA
890294 ATTCGCATTGCGATTTACGTA
1 A-TCGCATTGCGATTTACGTA
* *
890315 ATCGCATTGCGTTTTTTC-TA
1 ATCGCATTGCG-ATTTACGTA
890335 ATTCGCACTT-CGATTTACGTA
1 A-TCGCA-TTGCGATTTACGTA
890356 ATCGCATTGCGATTTA-GTAA
1 ATCGCATTGCGATTTACGT-A
890376 ATCGCA
1 ATCGCA
890382 ACGAGATTCT
Statistics
Matches: 272, Mismatches: 25, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.06
20 175 0.64
21 78 0.29
22 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (20 bp):
ATCGCATTGCGATTTACGTA
Found at i:890196 original size:121 final size:122
Alignment explanation
Indices: 890052--890368 Score: 313
Period size: 121 Copynumber: 2.6 Consensus size: 122
890042 GATTCAGACT
* * * * *
890052 ATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCTAATTCGCAATGTGA-ATACGTAAAT
1 ATCGCATTGCGATTTACCTAATTCGCATTGCGATTTTCCTAATTCGCAATGCGATATACGT-AAC
* * *
890116 CGCAATGTGA-ATACGTAAATCGCAATGCGA-ATACGTAATCGCAATGCGA-TTTACGTA
65 CGCAATGCGATATACGT-AACCGCAATGCGATATACGTAATCACAATGCGATTTTAC-TA
* * * * * *
890173 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACATAA-CCGCATTGCGATTTACGTAACC
1 ATCGCATTGCGATTTACCTAATTCGCATTGCGATTTTCCTAATTCGCAATGCGATATACGTAACC
* * * * *
890237 GCATTGCGATTTACGTAACCGCATTGCGATTTACGTAATCACATTGCGATTTTACTA
66 GCAATGCGATATACGTAACCGCAATGCGATATACGTAATCACAATGCGATTTTACTA
* * * * * * *
890294 ATTCGCATTGCGATTTACGTAA-TCGCATTGCGTTTTTTCTAATTCGCACTTCGATTTACGTAAT
1 A-TCGCATTGCGATTTACCTAATTCGCATTGCGATTTTCCTAATTCGCAATGCGATATACGTAAC
*
890358 CGCATTGCGAT
65 CGCAATGCGAT
890369 TTAGTAAATC
Statistics
Matches: 162, Mismatches: 28, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
120 29 0.18
121 82 0.51
122 51 0.31
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (122 bp):
ATCGCATTGCGATTTACCTAATTCGCATTGCGATTTTCCTAATTCGCAATGCGATATACGTAACC
GCAATGCGATATACGTAACCGCAATGCGATATACGTAATCACAATGCGATTTTACTA
Found at i:890207 original size:41 final size:40
Alignment explanation
Indices: 890052--890381 Score: 296
Period size: 41 Copynumber: 8.2 Consensus size: 40
890042 GATTCAGACT
* ** * * *
890052 ATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCTA
1 ATCGCATTGCGATTTACGTAA-TCGCATTGCGATTTACGTA
* * * * * *
890093 ATTCGCAATGTGA-ATACGTAAATCGCAATGTGA-ATACGTAA
1 A-TCGCATTGCGATTTACGT-AATCGCATTGCGATTTACGT-A
* * *
890134 ATCGCAATGCGA-ATACGTAATCGCAATGCGATTTACGTA
1 ATCGCATTGCGATTTACGTAATCGCATTGCGATTTACGTA
* * *
890173 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACATA
1 ATCGCATTGCGATTTACGTAA-TCGCATTGCGATTTACGTA
* *
890214 ACCGCATTGCGATTTACGTAACCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTACGTAATCGCATTGCGATTTACGTA
* *
890254 ACCGCATTGCGATTTACGTAATCACATTGCGATTTTAC-TA
1 ATCGCATTGCGATTTACGTAATCGCATTGCGA-TTTACGTA
* *
890294 ATTCGCATTGCGATTTACGTAATCGCATTGCGTTTTTTC-TA
1 A-TCGCATTGCGATTTACGTAATCGCATTGCG-ATTTACGTA
890335 ATTCGCACTT-CGATTTACGTAATCGCATTGCGATTTA-GTAA
1 A-TCGCA-TTGCGATTTACGTAATCGCATTGCGATTTACGT-A
890376 ATCGCA
1 ATCGCA
890382 ACGAGATTCT
Statistics
Matches: 243, Mismatches: 34, Indels: 25
0.80 0.11 0.08
Matches are distributed among these distances:
39 24 0.10
40 88 0.36
41 118 0.49
42 13 0.05
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (40 bp):
ATCGCATTGCGATTTACGTAATCGCATTGCGATTTACGTA
Found at i:890233 original size:61 final size:59
Alignment explanation
Indices: 890052--890381 Score: 285
Period size: 61 Copynumber: 5.4 Consensus size: 59
890042 GATTCAGACT
* ** * * * * *
890052 ATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCTAATTCGCAATGTGA-ATACGTAA
1 ATCGCATTGCGATTTACGTAA-TCGCATTGCGA-TTTACTAA-TCGCATTGCGATTTACGT-A
* * * * * *
890114 ATCGCAATGTGA-ATACGTAAATCGCAATGCGA-ATACGTAATCGCAATGCGATTTACGTA
1 ATCGCATTGCGATTTACGT-AATCGCATTGCGATTTAC-TAATCGCATTGCGATTTACGTA
* * *
890173 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACATAACCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTACGTAA-TCGCATTGCGATTTAC-TAATCGCATTGCGATTTACGTA
* * *
890234 ACCGCATTGCGATTTACGTAACCGCATTGCGATTTACGTAATCACATTGCGATTTTAC-TA
1 ATCGCATTGCGATTTACGTAATCGCATTGCGATTTAC-TAATCGCATTGCGA-TTTACGTA
* *
890294 ATTCGCATTGCGATTTACGTAATCGCATTGCGTTTTTTCTAATTCGCACTT-CGATTTACGTA
1 A-TCGCATTGCGATTTACGTAATCGCATTGCG-ATTTACTAA-TCGCA-TTGCGATTTACGTA
890356 ATCGCATTGCGATTTA-GTAAATCGCA
1 ATCGCATTGCGATTTACGT-AATCGCA
890382 ACGAGATTCT
Statistics
Matches: 221, Mismatches: 34, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
59 25 0.11
60 53 0.24
61 115 0.52
62 26 0.12
63 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (59 bp):
ATCGCATTGCGATTTACGTAATCGCATTGCGATTTACTAATCGCATTGCGATTTACGTA
Found at i:891277 original size:24 final size:24
Alignment explanation
Indices: 891250--891303 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
891240 GTATTCGAAA
891250 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
891274 TTTGATCTTGGTTAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
891298 TTTGAT
1 TTTGAT
891304 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:891486 original size:3 final size:3
Alignment explanation
Indices: 891478--891507 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
891468 ATATAACACT
891478 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
891508 ATCCCCAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:893847 original size:20 final size:19
Alignment explanation
Indices: 893819--893873 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
893809 CAATCATCTT
*
893819 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
893839 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
893858 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
893874 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:893883 original size:14 final size:14
Alignment explanation
Indices: 893864--893951 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
893854 GCGAAATGAA
893864 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
893878 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
893897 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
893911 AATTGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
893930 AATCGCAACGAGGG
1 AATCGCAACGAGAG
893944 AATCGCAA
1 AATCGCAA
893952 AGCGAAATGA
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
14 26 0.46
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 19 0.33
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.12
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:893888 original size:33 final size:33
Alignment explanation
Indices: 893846--893972 Score: 227
Period size: 33 Copynumber: 3.8 Consensus size: 33
893836 GGAAATGACT
893846 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
893879 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
893912 ATTGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
893945 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
893973 CGAATTTAGT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 90 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:893902 original size:19 final size:18
Alignment explanation
Indices: 893826--893976 Score: 92
Period size: 19 Copynumber: 8.7 Consensus size: 18
893816 CTTAATGTCT
**
893826 ATCGCAACGCGGAAATGACT
1 ATCGCAA-GC-GAAATGAAA
893846 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
893865 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
893879 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
893898 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
*
893912 ATTGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
893931 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
893945 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
893964 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
893977 TTTAGTTTCG
Statistics
Matches: 102, Mismatches: 13, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
14 26 0.25
15 5 0.05
16 6 0.06
17 6 0.06
18 5 0.05
19 45 0.44
20 9 0.09
ACGTcount: A:0.44, C:0.19, G:0.25, T:0.13
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:894029 original size:33 final size:33
Alignment explanation
Indices: 893982--894053 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
893972 GCGAATTTAG
* * *
893982 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTACGATTCTCTCGTTGCGATTTTCA
894015 TTTCGCGTTACGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTACGATTCTCTCGTTGCGATTTTCA
894048 TTTCGC
1 TTTCGC
894054 ATTGCGATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.10, C:0.22, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTACGATTCTCTCGTTGCGATTTTCA
Found at i:894060 original size:19 final size:18
Alignment explanation
Indices: 894003--894061 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
893993 GATTTTGTCG
894003 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
* *
894021 GTTACGA--TTC-TCTCG-
1 -TTGCGATTTTCATTTCGC
894036 TTGCGATTTTCATTTCGC
1 TTGCGATTTTCATTTCGC
894054 ATTGCGAT
1 -TTGCGAT
894062 AGTCATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 5 0.16
16 7 0.23
17 7 0.23
19 12 0.39
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (18 bp):
TTGCGATTTTCATTTCGC
Found at i:894187 original size:14 final size:14
Alignment explanation
Indices: 894168--894201 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
894158 CATCAATTAA
894168 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
894182 ACAAATCATCTTTT
1 ACAAATCAACTTTT
894196 ACAAAT
1 ACAAAT
894202 TAATTAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:895621 original size:21 final size:21
Alignment explanation
Indices: 895555--895621 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
895545 GTGAATCGGG
*
895555 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
895575 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
895597 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
895618 CTCT
1 CTCT
895622 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:895640 original size:42 final size:42
Alignment explanation
Indices: 895555--895677 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
895545 GTGAATCGGG
* * * *
895555 CTCTTGAATGGTGGGA-GGGACCTCTTCAACG-ATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGAATGACAGGGGC
*
895597 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGACAGGGGC
* * * * *
895639 CTCTTCAACGATAGGAGTGGACTCTTGAGGAATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGACAGG
895678 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 4 0.06
42 60 0.88
43 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGACAGGGGC
Found at i:896147 original size:19 final size:20
Alignment explanation
Indices: 896123--896170 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
896113 ATAACGAGAG
**
896123 AATCGCAACACGAAA-TGAA
1 AATCGCAACACGAAACCAAA
*
896142 AATCGCAACGCGAAACCAAA
1 AATCGCAACACGAAACCAAA
896162 AATCGCAAC
1 AATCGCAAC
896171 GCGATTATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.50, C:0.27, G:0.15, T:0.08
Consensus pattern (20 bp):
AATCGCAACACGAAACCAAA
Found at i:896193 original size:19 final size:18
Alignment explanation
Indices: 896171--896249 Score: 76
Period size: 19 Copynumber: 4.4 Consensus size: 18
896161 AAATCGCAAC
*
896171 GCGATTATAGTTTCGCGTT
1 GCGATTTTA-TTTCGCGTT
*
896190 GCGA-TTT-TGT--CGTT
1 GCGATTTTATTTCGCGTT
896204 GCGATTTTCATTTCGCGTT
1 GCGATTTT-ATTTCGCGTT
*
896223 GCGATTTTCGTTTCGCGTT
1 GCGATTTT-ATTTCGCGTT
896242 GCGATTTT
1 GCGATTTT
896250 CATTCTCTCG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
14 8 0.16
15 3 0.06
16 2 0.04
17 2 0.04
18 2 0.04
19 34 0.67
ACGTcount: A:0.10, C:0.18, G:0.25, T:0.47
Consensus pattern (18 bp):
GCGATTTTATTTCGCGTT
Found at i:896218 original size:33 final size:36
Alignment explanation
Indices: 896181--896262 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 36
896171 GCGATTATAG
896181 TTTCGCGTTGCGATTTT-G-T-CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCGTTCCGTTGCGATTTTCA
896214 TTTCGCGTTGCGATTTTCGTTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCG-TTC-CGTTGCGATTTTCA
*
896252 TTCTCTCGTTG
1 TT-TCGCGTTG
896263 TTATTTTCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
33 17 0.40
34 1 0.02
36 1 0.02
38 16 0.38
39 7 0.17
ACGTcount: A:0.07, C:0.21, G:0.23, T:0.49
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTTCGTTCCGTTGCGATTTTCA
Found at i:896250 original size:19 final size:19
Alignment explanation
Indices: 896180--896250 Score: 98
Period size: 19 Copynumber: 4.0 Consensus size: 19
896170 CGCGATTATA
896180 GTTTCGCGTTGCGATTTT-
1 GTTTCGCGTTGCGATTTTC
896198 G--T--CGTTGCGATTTTC
1 GTTTCGCGTTGCGATTTTC
*
896213 ATTTCGCGTTGCGATTTTC
1 GTTTCGCGTTGCGATTTTC
896232 GTTTCGCGTTGCGATTTTC
1 GTTTCGCGTTGCGATTTTC
896251 ATTCTCTCGT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
14 12 0.26
16 1 0.02
17 1 0.02
18 1 0.02
19 31 0.67
ACGTcount: A:0.07, C:0.20, G:0.25, T:0.48
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTC
Found at i:896476 original size:94 final size:94
Alignment explanation
Indices: 896364--896739 Score: 593
Period size: 94 Copynumber: 4.1 Consensus size: 94
896354 ATGGATTGCA
* * * *
896364 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATTCCAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
896428 TTAGCAGAATTGGCAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
896457 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCATAGTGTTAAAGAATACACAAT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
896522 TTAGCAGAATTGGCAGCAACCAAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
896551 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
896616 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
896645 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
896705 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
896735 TTACT
1 TTACT
896740 AAGCAATCTA
Statistics
Matches: 267, Mismatches: 13, Indels: 8
0.93 0.05 0.03
Matches are distributed among these distances:
90 41 0.15
93 23 0.09
94 203 0.76
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:898492 original size:19 final size:19
Alignment explanation
Indices: 898426--898552 Score: 121
Period size: 19 Copynumber: 7.2 Consensus size: 19
898416 TCTTTTGATT
898426 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
898445 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
898463 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
898479 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
898498 GAAATGAAAATCGCAA--T
1 GAAATGAAAATCGCAACGC
*
898515 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
898531 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
898550 GAA
1 GAA
898553 TTTGGGAAAT
Statistics
Matches: 87, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.22
15 2 0.02
16 3 0.03
17 2 0.02
18 3 0.03
19 44 0.51
20 14 0.16
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:898520 original size:52 final size:52
Alignment explanation
Indices: 898426--898552 Score: 209
Period size: 52 Copynumber: 2.4 Consensus size: 52
898416 TCTTTTGATT
**
898426 GAAATGAAAATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC-GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
898479 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
898531 GAAATGAAAATCGCAATGCGAA
1 GAAATGAAAATCGCAACGCGAA
898553 TTTGGGAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
52 51 0.73
53 19 0.27
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.12
Consensus pattern (52 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:899116 original size:20 final size:20
Alignment explanation
Indices: 899093--899185 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 20
899083 CGATAGTCAG
*
899093 ATTCGCATTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
*
899113 ATTCGCGTTGCGATTTACTT
1 ATTCGCGTTGCGATTTACGT
*
899133 AATCGCGTTGCGATTTACGT
1 ATTCGCGTTGCGATTTACGT
*
899153 AATT-GTGTTGCGATTTACGT
1 -ATTCGCGTTGCGATTTACGT
*
899173 ATTCGCATTGCGA
1 ATTCGCGTTGCGA
899186 ATTAGGAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.05
20 58 0.92
21 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTACGT
Found at i:899206 original size:21 final size:21
Alignment explanation
Indices: 899182--899227 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
899172 TATTCGCATT
899182 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
899203 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
899224 GCGA
1 GCGA
899228 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:900470 original size:18 final size:18
Alignment explanation
Indices: 900447--900483 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
900437 AGAAAAGCCA
900447 TTTTCATTCATATCATAT
1 TTTTCATTCATATCATAT
* *
900465 TTTTCATTTATTTCATAT
1 TTTTCATTCATATCATAT
900483 T
1 T
900484 CTTAACCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTCATTCATATCATAT
Found at i:901946 original size:36 final size:36
Alignment explanation
Indices: 901905--901980 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
901895 ATTTTCGGGA
*
901905 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
901941 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
901977 TTTT
1 TTTT
901981 TTTGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:902421 original size:15 final size:15
Alignment explanation
Indices: 902401--902430 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
902391 TATCACAATC
902401 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
902416 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
902431 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:906972 original size:35 final size:36
Alignment explanation
Indices: 906898--906972 Score: 134
Period size: 35 Copynumber: 2.1 Consensus size: 36
906888 ATTTTCGGGA
*
906898 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
906934 TTTTGCTA-TTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
906969 TTTT
1 TTTT
906973 TTGCTATAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 30 0.79
36 8 0.21
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:909900 original size:18 final size:17
Alignment explanation
Indices: 909873--909908 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
909863 ATTGATATTG
909873 ACTTTATTTATAATTTT
1 ACTTTATTTATAATTTT
909890 ACTTCTATTTATAATTTT
1 ACTT-TATTTATAATTTT
909908 A
1 A
909909 AAATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (17 bp):
ACTTTATTTATAATTTT
Found at i:910152 original size:46 final size:46
Alignment explanation
Indices: 910085--910223 Score: 278
Period size: 46 Copynumber: 3.0 Consensus size: 46
910075 AATATAGAGG
910085 TCTATCTGCAGAGTTGCTTAAGGCTGAAATCTCTCATCGACTTACC
1 TCTATCTGCAGAGTTGCTTAAGGCTGAAATCTCTCATCGACTTACC
910131 TCTATCTGCAGAGTTGCTTAAGGCTGAAATCTCTCATCGACTTACC
1 TCTATCTGCAGAGTTGCTTAAGGCTGAAATCTCTCATCGACTTACC
910177 TCTATCTGCAGAGTTGCTTAAGGCTGAAATCTCTCATCGACTTACC
1 TCTATCTGCAGAGTTGCTTAAGGCTGAAATCTCTCATCGACTTACC
910223 T
1 T
910224 GCTCTCACAC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 93 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (46 bp):
TCTATCTGCAGAGTTGCTTAAGGCTGAAATCTCTCATCGACTTACC
Found at i:920869 original size:18 final size:18
Alignment explanation
Indices: 920848--920884 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
920838 CTTTCAGGAT
*
920848 ATAGTGGTCCTTCGGGAC
1 ATAGTGGTCATTCGGGAC
920866 ATAGTGGTCATTCGGGAC
1 ATAGTGGTCATTCGGGAC
920884 A
1 A
920885 AATATTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (18 bp):
ATAGTGGTCATTCGGGAC
Found at i:923103 original size:35 final size:35
Alignment explanation
Indices: 923043--923110 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
923033 GTTTCAAAGA
*
923043 TGGTAACGATACCGTCCTTATGGTATCGGTACCCT
1 TGGTAACGATACCGTCCTTATGGTATCGATACCCT
* *
923078 TGGTAACGATACTGTTCTTCA-GGTATCGATACC
1 TGGTAACGATACCGTCCTT-ATGGTATCGATACC
923111 TCATTAATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 28 0.97
36 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (35 bp):
TGGTAACGATACCGTCCTTATGGTATCGATACCCT
Found at i:930002 original size:20 final size:20
Alignment explanation
Indices: 929977--930050 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
929967 TCGTTTCAAA
929977 GATGGTATCGATACCGTCCT
1 GATGGTATCGATACCGTCCT
929997 GATGGTATCGATACCGTCCT
1 GATGGTATCGATACCGTCCT
* * * *
930017 GATGGTACCAATATCGTCTT
1 GATGGTATCGATACCGTCCT
*
930037 TATGGTATCGATAC
1 GATGGTATCGATAC
930051 TGTTCTTCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (20 bp):
GATGGTATCGATACCGTCCT
Found at i:930065 original size:20 final size:20
Alignment explanation
Indices: 930040--930110 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
930030 TCGTCTTTAT
930040 GGTATCGATACTGTTCTTCA
1 GGTATCGATACTGTTCTTCA
* *
930060 GGTATCGATATTGTTCTTTA
1 GGTATCGATACTGTTCTTCA
*
930080 GGTATCGATAATGTTCTTCA
1 GGTATCGATACTGTTCTTCA
930100 GGTATCGATAC
1 GGTATCGATAC
930111 CTCATGAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (20 bp):
GGTATCGATACTGTTCTTCA
Found at i:930084 original size:40 final size:41
Alignment explanation
Indices: 930033--930109 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 41
930023 ACCAATATCG
*
930033 TCTTTATGGTATCGATACTGTTCTTCAGGTATCGATATTGT
1 TCTTTATGGTATCGATAATGTTCTTCAGGTATCGATATTGT
930074 TCTTTA-GGTATCGATAATGTTCTTCAGGTATCGATA
1 TCTTTATGGTATCGATAATGTTCTTCAGGTATCGATA
930110 CCTCATGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 29 0.83
41 6 0.17
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.44
Consensus pattern (41 bp):
TCTTTATGGTATCGATAATGTTCTTCAGGTATCGATATTGT
Found at i:935500 original size:23 final size:23
Alignment explanation
Indices: 935474--935517 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
935464 CAATGGAAGG
* *
935474 TGGATGATGGTGTTGAAGTTGAA
1 TGGATGATGGAGATGAAGTTGAA
935497 TGGATGATGGAGATGAAGTTG
1 TGGATGATGGAGATGAAGTTG
935518 TACCTCAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.41, T:0.32
Consensus pattern (23 bp):
TGGATGATGGAGATGAAGTTGAA
Found at i:939923 original size:27 final size:26
Alignment explanation
Indices: 939891--939959 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
939881 TTTAAATAAA
939891 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAATATTTTTAAA-TAAGTTAAT
*
939918 AATAAAATATATTT-AATAAGTTAAT
1 AATAAAATATTTTTAAATAAGTTAAT
*
939943 ATAAAAAATATTTTTAA
1 A-ATAAAATATTTTTAA
939960 GTTTTATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 10 0.27
26 13 0.35
27 14 0.38
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (26 bp):
AATAAAATATTTTTAAATAAGTTAAT
Found at i:951416 original size:6 final size:6
Alignment explanation
Indices: 951402--951480 Score: 104
Period size: 6 Copynumber: 13.2 Consensus size: 6
951392 GACACGTATT
* * * *
951402 ACCATG ACCACG ACCACG ACCACG ACCACG ACCACG ACCTCG AACTCG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
* *
951450 ACCTCG ACCATG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG A
951481 GTCGAGCCGA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.32, C:0.46, G:0.16, T:0.06
Consensus pattern (6 bp):
ACCACG
Found at i:957201 original size:6 final size:6
Alignment explanation
Indices: 957190--957268 Score: 104
Period size: 6 Copynumber: 13.2 Consensus size: 6
957180 GACATGTATT
* * *
957190 ACCACG ACCACG ACCACG ACCACG ACCACG ACCTCG ACCTCG ACCTCG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
* * *
957238 ACCTCG ACCTCG ACCACG ACCACG ACAACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG A
957269 GCCGTGCAGC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.29, C:0.48, G:0.16, T:0.06
Consensus pattern (6 bp):
ACCACG
Found at i:963517 original size:2 final size:2
Alignment explanation
Indices: 963512--963536 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
963502 AAAAGATAAG
963512 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
963537 AAGATGATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:963723 original size:2 final size:2
Alignment explanation
Indices: 963716--963773 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
963706 TTTAACATTA
963716 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
963758 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
963774 GGATTTGACG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:967251 original size:58 final size:60
Alignment explanation
Indices: 967184--967297 Score: 153
Period size: 58 Copynumber: 1.9 Consensus size: 60
967174 AAATATCATA
* * *
967184 AAATTATGATCTGT-TTTTAATTTAATCTCTAAATTTT-AAAATA-TTTATAATAATTTTT
1 AAATTATGATCT-TATTCTAACTTAATCCCTAAATTTTCAAAATAGTTTATAATAATTTTT
* *
967242 AAATTATGATCTTATTCTAGCTTAATCCCTAAATTTTCAAAATAGTTTATATTAAT
1 AAATTATGATCTTATTCTAACTTAATCCCTAAATTTTCAAAATAGTTTATAATAAT
967298 CCTCGAACTG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 1 0.02
58 31 0.65
59 6 0.12
60 10 0.21
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (60 bp):
AAATTATGATCTTATTCTAACTTAATCCCTAAATTTTCAAAATAGTTTATAATAATTTTT
Found at i:973848 original size:29 final size:29
Alignment explanation
Indices: 973806--973864 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
973796 ATTTTCACCT
973806 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
973835 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
973864 A
1 A
973865 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:978526 original size:29 final size:29
Alignment explanation
Indices: 978484--978542 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
978474 ATTTTCACCT
978484 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
978513 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
978542 A
1 A
978543 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:983593 original size:18 final size:18
Alignment explanation
Indices: 983570--983613 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
983560 TTAACTCCCT
983570 GTGCCCGGCTGACGGCGA
1 GTGCCCGGCTGACGGCGA
*
983588 GTGCCCGGCTGCCGGCGA
1 GTGCCCGGCTGACGGCGA
*
983606 GTTCCCGG
1 GTGCCCGG
983614 AGCTCGAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.07, C:0.36, G:0.43, T:0.14
Consensus pattern (18 bp):
GTGCCCGGCTGACGGCGA
Found at i:984595 original size:32 final size:32
Alignment explanation
Indices: 984546--984633 Score: 122
Period size: 32 Copynumber: 2.7 Consensus size: 32
984536 CTTACCCAAT
*
984546 TTCAACAAAAATTAGCTGCCTACCATTCGATGC
1 TTCAAC-AAAATCAGCTGCCTACCATTCGATGC
* *
984579 TTCAACAAAATCAGCTGCCTGCCATTCGGTGC
1 TTCAACAAAATCAGCTGCCTACCATTCGATGC
* *
984611 TTCAACAAAATCAACTCCCTACC
1 TTCAACAAAATCAGCTGCCTACC
984634 CATCGAATGG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
32 43 0.88
33 6 0.12
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.25
Consensus pattern (32 bp):
TTCAACAAAATCAGCTGCCTACCATTCGATGC
Found at i:987254 original size:34 final size:34
Alignment explanation
Indices: 987209--987275 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
987199 AATAGGAATT
*
987209 ACAACTTCTCTC-GATCTAACAAGGAGAAAACAATA
1 ACAACTTCTCTCTGA--TAAAAAGGAGAAAACAATA
987244 ACAA-TTCTCTCTTGATAAAAAGGAGAAAACAA
1 ACAACTTCTCTC-TGATAAAAAGGAGAAAACAA
987276 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 23 0.79
35 4 0.14
36 2 0.07
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (34 bp):
ACAACTTCTCTCTGATAAAAAGGAGAAAACAATA
Found at i:987486 original size:32 final size:32
Alignment explanation
Indices: 987443--987533 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 32
987433 CTTACCCAAT
987443 TTCAACAAAAATCAGCTGCCTCCCATTCAGTGC
1 TTCAAC-AAAATCAGCTGCCTCCCATTCAGTGC
* * ** * *
987476 TTCAAGAAAATCAACTGTATGCCATTCGGTGC
1 TTCAACAAAATCAGCTGCCTCCCATTCAGTGC
*
987508 TTTAACAAAATCAGCTGCCTACCCAT
1 TTCAACAAAATCAGCTGCCT-CCCAT
987534 CGAATGGACT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
32 36 0.80
33 9 0.20
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (32 bp):
TTCAACAAAATCAGCTGCCTCCCATTCAGTGC
Found at i:988224 original size:38 final size:38
Alignment explanation
Indices: 988173--988250 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
988163 GGATTTTCAG
*
988173 TTAGATTGCATGGATATGGTAATTAACTAATTATTAGT
1 TTAGATTGCATGGATATGATAATTAACTAATTATTAGT
*
988211 TTAGATTGCATGGATATGATAATTAACTAATTATTGGT
1 TTAGATTGCATGGATATGATAATTAACTAATTATTAGT
988249 TT
1 TT
988251 GGTTTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (38 bp):
TTAGATTGCATGGATATGATAATTAACTAATTATTAGT
Found at i:990036 original size:81 final size:80
Alignment explanation
Indices: 989890--990048 Score: 225
Period size: 81 Copynumber: 2.0 Consensus size: 80
989880 GCGTATATCT
* *
989890 GTTTAATATTTTAAATTTTAAATATATTATATGTTTAAATTTAGATATTAAAAGATCTATGGTTG
1 GTTTAATATTTTAAATTTAAAATATATTATATGTTTAAATTTAGATATTAAAAGATCTATAGTTG
*
989955 G-GTAAATCTCTCAG
66 GAGTAAAACTCTCAG
*
989969 GTTTAATATTTTAAATTTAAAAATATTATTATCTGTTTAAATTTAGATATTGAAAAAGAT-T-TA
1 GTTTAATATTTTAAATTT-AAAATA-TATTATATGTTTAAATTTAGATATT--AAAAGATCTATA
990032 GTTGGAGTAAAACTCTC
62 GTTGGAGTAAAACTCTC
990049 TCGAAATTCT
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
79 18 0.25
80 5 0.07
81 30 0.42
82 11 0.15
83 7 0.10
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (80 bp):
GTTTAATATTTTAAATTTAAAATATATTATATGTTTAAATTTAGATATTAAAAGATCTATAGTTG
GAGTAAAACTCTCAG
Found at i:996652 original size:18 final size:18
Alignment explanation
Indices: 996642--996687 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
996632 TCTGGTCGTG
996642 CTTGTTCCTCTGGTGGAA
1 CTTGTTCCTCTGGTGGAA
996660 CTTGTTCCTCTGGTGGAA
1 CTTGTTCCTCTGGTGGAA
996678 CTTGTTCCTC
1 CTTGTTCCTC
996688 GTGTTGTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.41
Consensus pattern (18 bp):
CTTGTTCCTCTGGTGGAA
Done.