Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007978.1 Hibiscus syriacus cultivar Beakdansim tig00110415_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1479011
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 4 of 7
Found at i:742460 original size:20 final size:20
Alignment explanation
Indices: 742435--742481 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
742425 TATGTTGCGA
*
742435 GCAACGCGATAGTCAAATTC
1 GCAACGCGAAAGTCAAATTC
742455 GCAACGCGAAAGTCAAATTC
1 GCAACGCGAAAGTCAAATTC
742475 GCAACGC
1 GCAACGC
742482 TTATTTCGCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.15
Consensus pattern (20 bp):
GCAACGCGAAAGTCAAATTC
Found at i:742628 original size:25 final size:25
Alignment explanation
Indices: 742587--742636 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
742577 AAATCAATTA
* *
742587 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGAGTACATTATTTG
742612 AACATTGTTATGAGTACATTATTTG
1 AACATTGTTATGAGTACATTATTTG
742637 GAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGAGTACATTATTTG
Found at i:743043 original size:24 final size:24
Alignment explanation
Indices: 743016--743067 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
743006 TTTCATATGT
*
743016 AATTGGA-TTATGAATTTAAATTTC
1 AATTGGAGTT-TGAATTTAAATATC
* *
743040 AATTTGAGTTTGAATTTCAATATC
1 AATTGGAGTTTGAATTTAAATATC
743064 AATT
1 AATT
743068 TAACCTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.46
Consensus pattern (24 bp):
AATTGGAGTTTGAATTTAAATATC
Found at i:743076 original size:24 final size:24
Alignment explanation
Indices: 743026--743076 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
743016 AATTGGATTA
* * **
743026 TGAATTTAAATTTCAATTTGAGTT
1 TGAATTTAAATATCAATTTAACCT
*
743050 TGAATTTCAATATCAATTTAACCT
1 TGAATTTAAATATCAATTTAACCT
743074 TGA
1 TGA
743077 TGTTGTATGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (24 bp):
TGAATTTAAATATCAATTTAACCT
Found at i:743118 original size:20 final size:20
Alignment explanation
Indices: 743093--743135 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
743083 ATGTTGCGAT
743093 CAACGCGAAAGTAAAATTCG
1 CAACGCGAAAGTAAAATTCG
*
743113 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTAAAATTCG
743133 CAA
1 CAA
743136 ATCAAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (20 bp):
CAACGCGAAAGTAAAATTCG
Found at i:743379 original size:61 final size:63
Alignment explanation
Indices: 743249--743389 Score: 180
Period size: 61 Copynumber: 2.2 Consensus size: 63
743239 TTTTAGAAAC
*
743249 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATT
1 AACAAATCAACTTTTACAAATCAATT--A-AAGCAAAAAAATAAATCTTATTTACAAATCAAATT
743314 A
63 A
* * **
743315 AACAAATCAACTTTTACAAATCAATT-AATC-AAAAAATAAATCTTATTTTTCTCATC-AATTA
1 AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTA-TTTACAAATCAAATTA
743376 AACAAATCAACTTT
1 AACAAATCAACTTT
743390 CAATGTAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
61 33 0.48
62 10 0.14
66 26 0.38
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.32
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATTA
Found at i:744716 original size:21 final size:21
Alignment explanation
Indices: 744692--744781 Score: 76
Period size: 21 Copynumber: 4.3 Consensus size: 21
744682 GGCGGGACCA
* *
744692 CTTGAACGATGATAGGTGCCT
1 CTTGAACGATGAGAGGGGCCT
* * *
744713 CTTGAACGGTGGGAGGGGCTT
1 CTTGAACGATGAGAGGGGCCT
*
744734 CTTCG-ATGATGAGAGGGGCCT
1 CTT-GAACGATGAGAGGGGCCT
* *
744755 CTTGAACGAT-ACAAGGCGCCT
1 CTTGAACGATGA-GAGGGGCCT
744776 CTTGAA
1 CTTGAA
744782 TGATTATAGG
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.04
21 51 0.94
22 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.24
Consensus pattern (21 bp):
CTTGAACGATGAGAGGGGCCT
Found at i:747260 original size:22 final size:22
Alignment explanation
Indices: 747232--747282 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
747222 GATGGAGATA
* *
747232 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCATCGGAAATAGG
*
747254 GACGGATTTCATCGGAGATAGG
1 GACGGATTTCATCGGAAATAGG
747276 GACGGAT
1 GACGGAT
747283 ATCGCCGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.39, T:0.22
Consensus pattern (22 bp):
GACGGATTTCATCGGAAATAGG
Found at i:747435 original size:20 final size:20
Alignment explanation
Indices: 747410--747477 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
747400 GCGTAAAAAC
* *
747410 ATTTGACTTTCGCGTAGCGA
1 ATTTGACTATCGCGTTGCGA
747430 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
747450 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
747470 ATTTGACT
1 ATTTGACT
747478 TCTGTGTTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
ATTTGACTATCGCGTTGCGA
Found at i:747503 original size:40 final size:41
Alignment explanation
Indices: 747410--747510 Score: 122
Period size: 40 Copynumber: 2.5 Consensus size: 41
747400 GCGTAAAAAC
* *
747410 ATTTGACT-TTCGCGTAGCGAATTTGACTATCGCGTTGCGA
1 ATTTGACTATTCGCGTTGCGAATTTGACTATCGCGTTACGA
*
747450 ATTTGACTA-TCGCGTTGCGAATTTGACT-TCTGTGTTACG-
1 ATTTGACTATTCGCGTTGCGAATTTGACTATC-GCGTTACGA
747489 ATTT-ACATATTCGCGTTGCGAA
1 ATTTGAC-TATTCGCGTTGCGAA
747511 ATTAAAAACT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
38 2 0.04
39 8 0.15
40 44 0.81
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (41 bp):
ATTTGACTATTCGCGTTGCGAATTTGACTATCGCGTTACGA
Found at i:756853 original size:10 final size:10
Alignment explanation
Indices: 756838--756862 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
756828 ACAACAAATT
756838 AAAATATAGC
1 AAAATATAGC
756848 AAAATATAGC
1 AAAATATAGC
756858 AAAAT
1 AAAAT
756863 GCATTAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAATATAGC
Found at i:759079 original size:22 final size:22
Alignment explanation
Indices: 759036--759076 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
759026 AAAAATTTAT
759036 TTTTTATTAAATATTTTTAATA
1 TTTTTATTAAATATTTTTAATA
*
759058 TTTTTATTTAAT-TTTTTAA
1 TTTTTATTAAATATTTTTAA
759077 ATAATTATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTATTAAATATTTTTAATA
Found at i:759183 original size:17 final size:17
Alignment explanation
Indices: 759161--759193 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
759151 GACATGTTCA
759161 TTAACCGATCCGATTCG
1 TTAACCGATCCGATTCG
*
759178 TTAACCGGTCCGATTC
1 TTAACCGATCCGATTC
759194 TGAAAACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.30
Consensus pattern (17 bp):
TTAACCGATCCGATTCG
Found at i:761178 original size:51 final size:51
Alignment explanation
Indices: 761113--761242 Score: 133
Period size: 50 Copynumber: 2.6 Consensus size: 51
761103 CACTCATAGC
* * * *
761113 AGTAAAGCGCGCCCCCTGAACCGCGCTATATGCTGATTTGGCG-T-CACGTGG
1 AGTATAGCGCGCCCCCTGAACCGCGCTATACGCTGA-CTGG-GTTACACATGG
761164 AGTATAGCGCG-CCCCT-ATACCGCGCTATACGCTGACTGGGTTACACATGG
1 AGTATAGCGCGCCCCCTGA-ACCGCGCTATACGCTGACTGGGTTACACATGG
* * **
761214 GGTATAGCGTGCCCCCTGCTCCGCGCTAT
1 AGTATAGCGCGCCCCCTGAACCGCGCTAT
761243 GGGTATACCG
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
48 1 0.02
49 5 0.08
50 36 0.55
51 24 0.36
ACGTcount: A:0.18, C:0.32, G:0.28, T:0.22
Consensus pattern (51 bp):
AGTATAGCGCGCCCCCTGAACCGCGCTATACGCTGACTGGGTTACACATGG
Found at i:767012 original size:110 final size:110
Alignment explanation
Indices: 766867--767189 Score: 585
Period size: 110 Copynumber: 2.9 Consensus size: 110
766857 ATTACAAAAA
766867 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
766932 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATT-AAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
766978 TTAATTCTTAATCTAAT-ATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
767042 AATTAAACGTTAAAATGTTACCGTATCAGTAAAATGTCGAGATAT
66 AATTAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* *
767087 TTAATTATTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
767152 AATTTAAACGTTAAAATGTTACCGTATCAGCAAAGTGT
66 AA-TTAAACGTTAAAATGTTACCGTATCAGCAAAGTGT
767190 ATAGATATAT
Statistics
Matches: 204, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
109 55 0.27
110 99 0.49
111 50 0.25
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.37
Consensus pattern (110 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:767352 original size:10 final size:10
Alignment explanation
Indices: 767319--767358 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
767309 ATCTTAAAAA
*
767319 GAGAGTATTT
1 GAGAGAATTT
*
767329 GAGAGAAATT
1 GAGAGAATTT
767339 -AGAGAATTT
1 GAGAGAATTT
767348 GAGAGAATTT
1 GAGAGAATTT
767358 G
1 G
767359 GTGTGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:767539 original size:50 final size:50
Alignment explanation
Indices: 767479--767599 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
767469 AGATACGCAG
*
767479 GTATAGCGCGGATCAGGGGGTGCACTATACCCACGTGGCGCCAAATCACC
1 GTATAGCGCGGATCAGGGGGCGCACTATACCCACGTGGCGCCAAATCACC
*** * * * *
767529 GTAT-GTCGCGGGGAAAGGGGCGCGCTATACCCACGTGGTGCCAAATCAGC
1 GTATAG-CGCGGATCAGGGGGCGCACTATACCCACGTGGCGCCAAATCACC
*
767579 GTATAGCGCGGTTCAGGGGGC
1 GTATAGCGCGGATCAGGGGGC
767600 TCGCTTTACT
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
49 1 0.02
50 55 0.96
51 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.36, T:0.17
Consensus pattern (50 bp):
GTATAGCGCGGATCAGGGGGCGCACTATACCCACGTGGCGCCAAATCACC
Found at i:767678 original size:30 final size:29
Alignment explanation
Indices: 767616--767678 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
767606 TACTGCTACG
* *
767616 GGTGTTAGATCGGGAAATATAATCTGACC
1 GGTGTTAGATCGAGAAATATAATCTCACC
*
767645 GGTGTTAGATCGATAAATAT-ATCGATCACC
1 GGTGTTAGATCGAGAAATATAATC--TCACC
767675 GGTG
1 GGTG
767679 ATTTATTGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 3 0.10
29 18 0.62
30 8 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (29 bp):
GGTGTTAGATCGAGAAATATAATCTCACC
Found at i:768915 original size:26 final size:27
Alignment explanation
Indices: 768895--768990 Score: 174
Period size: 27 Copynumber: 3.6 Consensus size: 27
768885 AAGAATGAAG
*
768895 TTATAAAATTTTAAATGAGAAATAAAT
1 TTATAAAATTTTAAGTGAGAAATAAAT
768922 TTATAAAATTTTAAGTGAGAAATAAAT
1 TTATAAAATTTTAAGTGAGAAATAAAT
768949 TTATAAAATTTTAAGTGAGAAATAAAT
1 TTATAAAATTTTAAGTGAGAAATAAAT
*
768976 TTAAAAAATTTTAAG
1 TTATAAAATTTTAAG
768991 ATAGTAAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (27 bp):
TTATAAAATTTTAAGTGAGAAATAAAT
Found at i:768927 original size:27 final size:27
Alignment explanation
Indices: 768895--769010 Score: 164
Period size: 27 Copynumber: 4.3 Consensus size: 27
768885 AAGAATGAAG
768895 TTATAAAATTTTAAATGAGAAATAAAT
1 TTATAAAATTTTAAATGAGAAATAAAT
*
768922 TTATAAAATTTTAAGTGAGAAATAAAT
1 TTATAAAATTTTAAATGAGAAATAAAT
*
768949 TTATAAAATTTTAAGTGAGAAATAAAT
1 TTATAAAATTTTAAATGAGAAATAAAT
*
768976 TTAAAAAATTTTAAGAT-AGTAAA-AAAT
1 TTATAAAATTTTAA-ATGAG-AAATAAAT
*
769003 TAATAAAA
1 TTATAAAA
769011 AATATATAAA
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
27 78 0.95
28 4 0.05
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (27 bp):
TTATAAAATTTTAAATGAGAAATAAAT
Found at i:770421 original size:26 final size:26
Alignment explanation
Indices: 770376--770434 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
770366 TATGTTTAAT
* *
770376 TATATT-CTGATTATTAATTTATTTA
1 TATATTACTAATTATAAATTTATTTA
*
770401 TATATTACTAATTATAAATTTATTTG
1 TATATTACTAATTATAAATTTATTTA
770427 TATATTAC
1 TATATTAC
770435 ATTTATTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (26 bp):
TATATTACTAATTATAAATTTATTTA
Found at i:770578 original size:143 final size:143
Alignment explanation
Indices: 770320--770607 Score: 567
Period size: 143 Copynumber: 2.0 Consensus size: 143
770310 TATTTTTGAC
770320 ATTTATGCATATAATAAACAAGGGCAATTCCTTATCTATTGTAATTTATGTTTAATTATATTCTG
1 ATTTATGCATATAATAAACAAGGGCAATTCCTTATCTATTGTAATTTATGTTTAATTATATTCTG
*
770385 ATTATTAATTTATTTATATATTACTAATTATAAATTTATTTGTATATTACATTTATTAAGTTTGA
66 ATTATTAATTTATTTATATACTACTAATTATAAATTTATTTGTATATTACATTTATTAAGTTTGA
770450 TTTTGATTATACG
131 TTTTGATTATACG
770463 ATTTATGCATATAATAAACAAGGGCAATTCCTTATCTATTGTAATTTATGTTTAATTATATTCTG
1 ATTTATGCATATAATAAACAAGGGCAATTCCTTATCTATTGTAATTTATGTTTAATTATATTCTG
770528 ATTATTAATTTATTTATATACTACTAATTATAAATTTATTTGTATATTACATTTATTAAGTTTGA
66 ATTATTAATTTATTTATATACTACTAATTATAAATTTATTTGTATATTACATTTATTAAGTTTGA
770593 TTTTGATTATACG
131 TTTTGATTATACG
770606 AT
1 AT
770608 ATATTTTTTC
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 144 1.00
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.50
Consensus pattern (143 bp):
ATTTATGCATATAATAAACAAGGGCAATTCCTTATCTATTGTAATTTATGTTTAATTATATTCTG
ATTATTAATTTATTTATATACTACTAATTATAAATTTATTTGTATATTACATTTATTAAGTTTGA
TTTTGATTATACG
Found at i:789153 original size:20 final size:20
Alignment explanation
Indices: 789128--789177 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
789118 AACTGCGCTA
789128 TATTTTTTTGTTAATTTTGT
1 TATTTTTTTGTTAATTTTGT
*
789148 TATTTTTTTGTTATTTTTGT
1 TATTTTTTTGTTAATTTTGT
789168 TATTTTTTTG
1 TATTTTTTTG
789178 CTTTTGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (20 bp):
TATTTTTTTGTTAATTTTGT
Found at i:789174 original size:9 final size:9
Alignment explanation
Indices: 789132--789209 Score: 61
Period size: 9 Copynumber: 8.4 Consensus size: 9
789122 GCGCTATATT
789132 TTTTTGTTA
1 TTTTTGTTA
*
789141 ATTTTGTTA
1 TTTTTGTTA
789150 TTTTTTTGTTA
1 --TTTTTGTTA
789161 TTTTTGTTA
1 TTTTTGTTA
*
789170 TTTTT-TTG
1 TTTTTGTTA
* *
789178 CTTTTGTTT
1 TTTTTGTTA
*
789187 TTTTTACTT-
1 TTTTT-GTTA
789196 TCTTTTGTTA
1 T-TTTTGTTA
789206 TTTT
1 TTTT
789210 GATATTTATT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
8 6 0.11
9 34 0.62
10 7 0.13
11 8 0.15
ACGTcount: A:0.09, C:0.04, G:0.09, T:0.78
Consensus pattern (9 bp):
TTTTTGTTA
Found at i:798111 original size:23 final size:24
Alignment explanation
Indices: 798058--798112 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
798048 ATAAGGATCG
* *
798058 TGCCATAAGAGCAGAGAAAATGCA
1 TGCCACAAGAGCAGAGAAAATACA
*
798082 TGCCACAAGAGTAGAGAAAA-ACA
1 TGCCACAAGAGCAGAGAAAATACA
*
798105 TGTCACAA
1 TGCCACAA
798113 TGACAAAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (24 bp):
TGCCACAAGAGCAGAGAAAATACA
Found at i:798350 original size:2 final size:2
Alignment explanation
Indices: 798343--798372 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
798333 CTAAAAGTAT
798343 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
798373 GAAACCACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:801556 original size:40 final size:41
Alignment explanation
Indices: 801482--801582 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 41
801472 GAATTTTTTT
* *
801482 ATATTATTAAAATATATTATTTAATTATTAAAATATAA-AA
1 ATATTATTAAAATACATTATTTAATCATTAAAATATAATAA
*
801522 ATATTA-TAAAATACATTAATTTAA-CAGTTTAAATATAATAA
1 ATATTATTAAAATACATT-ATTTAATCA-TTAAAATATAATAA
*
801563 ATAATT-TT-AAATATATTATT
1 AT-ATTATTAAAATACATTATT
801583 CTAAAATATA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
39 11 0.21
40 25 0.48
41 12 0.23
42 4 0.08
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (41 bp):
ATATTATTAAAATACATTATTTAATCATTAAAATATAATAA
Found at i:801855 original size:2 final size:2
Alignment explanation
Indices: 801848--801881 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
801838 CTCTGTTTTC
801848 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
801882 ATGCGGTTGA
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):
TA
Found at i:802573 original size:23 final size:23
Alignment explanation
Indices: 802507--802583 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
802497 GTCAAGTGTT
* * *
802507 GCACATTTATCTTTGTCTGTATT
1 GCACATTTATCTTTGTCTTTGTG
* *
802530 GCACGTTTATCTCT-TCTTTTGTG
1 GCACATTTATCTTTGTC-TTTGTG
802553 GCACATTTATCTTTGTCTTTGTG
1 GCACATTTATCTTTGTCTTTGTG
*
802576 ACACATTT
1 GCACATTT
802584 TTCGATTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
22 2 0.05
23 40 0.91
24 2 0.05
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (23 bp):
GCACATTTATCTTTGTCTTTGTG
Found at i:805192 original size:78 final size:80
Alignment explanation
Indices: 805104--805257 Score: 215
Period size: 78 Copynumber: 1.9 Consensus size: 80
805094 GAAAAAAAAT
* ** * **
805104 AATATTTTAGGTAGGGTCCAATATTAATATTT-TCGGT-AAAA-AAATAATATTTTATGTAACAT
1 AATATTTTAGGTAGCGTCCAATATTAATATTTCT-AATAAAAATAAATAAAATTTTAAATAACAT
805166 TTTACCTAAAATGTTG
65 TTTACCTAAAATGTTG
*
805182 AATATTTTAGGTAGCGTCCAATATTAATATTTCTAATAAAAATAAATAAAATTTTAAATAACGTT
1 AATATTTTAGGTAGCGTCCAATATTAATATTTCTAATAAAAATAAATAAAATTTTAAATAACATT
805247 TTACCTAAAAT
66 TTACCTAAAAT
805258 ATTAAAAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
78 32 0.48
79 5 0.08
80 29 0.44
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (80 bp):
AATATTTTAGGTAGCGTCCAATATTAATATTTCTAATAAAAATAAATAAAATTTTAAATAACATT
TTACCTAAAATGTTG
Found at i:805701 original size:15 final size:15
Alignment explanation
Indices: 805683--805717 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
805673 TTTTTTACTA
*
805683 ATATTATCTATAATT
1 ATATTATCAATAATT
805698 ATATTATCAATAATT
1 ATATTATCAATAATT
805713 ATATT
1 ATATT
805718 TTTTATTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATTATCAATAATT
Found at i:806439 original size:18 final size:17
Alignment explanation
Indices: 806416--806449 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
806406 ATGAATATTA
806416 ATTTATTAAATGATTTTT
1 ATTTATT-AATGATTTTT
*
806434 ATTTATTCATGATTTT
1 ATTTATTAATGATTTT
806450 ATTCAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
ATTTATTAATGATTTTT
Found at i:808570 original size:153 final size:153
Alignment explanation
Indices: 808319--808625 Score: 587
Period size: 153 Copynumber: 2.0 Consensus size: 153
808309 GGCGAGCGTA
808319 GCAAGTGCTGGTTCAACACAGAACTCTGATATTAGTGGGCTCGAGGCAGTCAATAGCATAGGTGC
1 GCAAGTGCTGGTTCAACACAGAACTCTGATATTAGTGGGCTCGAGGCAGTCAATAGCATAGGTGC
*
808384 TGGTCAAGGGGATGTTGGTGGGTCTCCATCAACAAAAATGTTGTCACCTAGAGGGAATTCAGGTA
66 TGGTCAAGGGGATGTTGGTGGGTCTCCACCAACAAAAATGTTGTCACCTAGAGGGAATTCAGGTA
808449 CTCCACATGATCGTAAATCAGCT
131 CTCCACATGATCGTAAATCAGCT
*
808472 GCAAGTGCTGGTTCAACACAGAACTCTGATATTAGTGGGCTCGAGGCAGTCGATAGCATAGGTGC
1 GCAAGTGCTGGTTCAACACAGAACTCTGATATTAGTGGGCTCGAGGCAGTCAATAGCATAGGTGC
808537 TGGTCAAGGGGATGTTGGTGGGTCTCCACCAACAAAAATGTTGTCACCTAGAGGGAATTCAGGTA
66 TGGTCAAGGGGATGTTGGTGGGTCTCCACCAACAAAAATGTTGTCACCTAGAGGGAATTCAGGTA
*
808602 CTCCACATGATTGTAAATCAGCT
131 CTCCACATGATCGTAAATCAGCT
808625 G
1 G
808626 TTCATTTAGG
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
153 151 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (153 bp):
GCAAGTGCTGGTTCAACACAGAACTCTGATATTAGTGGGCTCGAGGCAGTCAATAGCATAGGTGC
TGGTCAAGGGGATGTTGGTGGGTCTCCACCAACAAAAATGTTGTCACCTAGAGGGAATTCAGGTA
CTCCACATGATCGTAAATCAGCT
Found at i:814201 original size:3 final size:3
Alignment explanation
Indices: 814193--814267 Score: 89
Period size: 3 Copynumber: 24.0 Consensus size: 3
814183 CATTTTACTT
* *
814193 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA ATA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
814242 TATA TATA TATA TTA -TA TTA TTA TTA
1 T-TA T-TA T-TA TTA TTA TTA TTA TTA
814268 AATAAAAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.03
3 49 0.74
4 15 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:815459 original size:19 final size:20
Alignment explanation
Indices: 815420--815496 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 20
815410 ATCAGATTGT
815420 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
815440 CCAGGGGGTATC-GATT--CC
1 CCAGGGGGTA-CAGATTCCCC
*
815458 CCA---GGAACAGATTCCCTCC
1 CCAGGGGGTACAGATT-CC-CC
815477 CCA-GGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
815496 C
1 C
815497 TGTATGGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
14 1 0.02
15 7 0.15
18 5 0.11
19 8 0.17
20 16 0.34
21 10 0.21
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.17
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:815634 original size:21 final size:21
Alignment explanation
Indices: 815608--815649 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
815598 TATTTGAATA
*
815608 TTATGAAGGGGTATCGATTCC
1 TTATGAAGGGGTACCGATTCC
815629 TTATGAAGGGGTACCGATTCC
1 TTATGAAGGGGTACCGATTCC
815650 CCCCATTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (21 bp):
TTATGAAGGGGTACCGATTCC
Found at i:815712 original size:21 final size:21
Alignment explanation
Indices: 815679--815718 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
815669 TTTTTGCAGA
*
815679 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
815701 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
815719 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:818385 original size:20 final size:20
Alignment explanation
Indices: 818360--818434 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
818350 TCAGATTGTT
818360 CAGGGGGTACAGATTCCCCC
1 CAGGGGGTACAGATTCCCCC
818380 CAGGGGGTATC-GATT--CCC
1 CAGGGGGTA-CAGATTCCCCC
*
818398 C---GGGAACAGATTCCCCC
1 CAGGGGGTACAGATTCCCCC
*
818415 CAAGGGGTACAGATTCCCCC
1 CAGGGGGTACAGATTCCCCC
818435 TGTATGGTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.02
15 8 0.17
17 4 0.09
18 4 0.09
20 28 0.61
21 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.28, T:0.16
Consensus pattern (20 bp):
CAGGGGGTACAGATTCCCCC
Found at i:818573 original size:21 final size:21
Alignment explanation
Indices: 818547--818588 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
818537 ATTTGAATAT
*
818547 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
818568 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
818589 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:818910 original size:34 final size:32
Alignment explanation
Indices: 818871--818940 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
818861 TATTGTAAAG
* *
818871 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
* *
818905 GGGAAATGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
818937 GGGA
1 GGGA
818941 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:820188 original size:22 final size:21
Alignment explanation
Indices: 820146--820198 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
820136 CATTTTCTGA
*
820146 TATTTTTAAATAAATAAATATCC
1 TATTTTT--ATAAATAAATATAC
*
820169 TATTTTTATAAATTATATATAC
1 TATTTTTATAAA-TAAATATAC
*
820191 TAATTTTA
1 TATTTTTA
820199 ATTATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 5 0.19
22 14 0.54
23 7 0.27
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTTTATAAATAAATATAC
Found at i:826120 original size:23 final size:23
Alignment explanation
Indices: 826094--826154 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
826084 CTCATATAAA
*
826094 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
826117 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
826140 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
826155 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:826288 original size:18 final size:18
Alignment explanation
Indices: 826265--826300 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
826255 GAATACATAT
826265 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
826283 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
826301 TATCATTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:826317 original size:121 final size:121
Alignment explanation
Indices: 826161--826839 Score: 1133
Period size: 121 Copynumber: 5.6 Consensus size: 121
826151 GCCATATAAT
** * * * *
826161 AATGTCCATAAGGACCACATATCATTCATTAAGAATCATATACATATACTAGGGATCAAGTATGC
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGT
826226 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
*
826282 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGT
826347 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
* * *
826403 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATTATATACATATGCCAAGGATTAAGTATGT
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGT
*
826468 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATATCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
* * * *
826524 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATTATATATATATATACTAGGGATCAAGTAT
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAA-T-CATATACATATACCAAGGATCAAGTAT
* *
826589 GTGTCTCACCAGACTTCACACATGTTCCAAATAATACATATATGTCCTGAAGGACCAC
64 GTGTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
* *
826647 AATATCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGT
826712 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
* * * *
826768 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATATATATACTAGGGATCAAGTATAT
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGT
826833 GTCTCAC
66 GTCTCAC
826840 ATGTTCCAAA
Statistics
Matches: 524, Mismatches: 32, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
121 411 0.78
122 2 0.00
123 111 0.21
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (121 bp):
AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGT
GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCAC
Found at i:826409 original size:18 final size:18
Alignment explanation
Indices: 826386--826421 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
826376 GAATACATAT
826386 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
826404 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
826422 TATCATTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:826690 original size:244 final size:242
Alignment explanation
Indices: 826170--826839 Score: 1169
Period size: 244 Copynumber: 2.8 Consensus size: 242
826160 TAATGTCCAT
* * * * *
826170 AAGGACCACATATCATTCATTAAGAATCATATACATATACTAGGGATCAAGTATGCGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
826235 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAGGACCAC
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAGGACCAC
* * * *
826300 ATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCACA
131 ATATCATTCCTTAAGAATCATATATATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACA
*
826365 CATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCG
196 CATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATATCCCG
* *
826412 AAGGACCACATATCATTCCTTAAGAATTATATACATATGCCAAGGATTAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
826477 GACTTCACACATGTTCCAAAGAATACATATATATCCCGAAGGACCACAATGTCCCGAAGGACCAC
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAGGACCAC
*
826542 ATATCATTCCTTAAGAATTATATATATATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCA
131 ATATCATTCCTTAAGAA-T-CATATATATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCA
* *
826607 CACATGTTCCAAATAATACATATATGTCCTGAAGGACCACAATATCCCG
194 CACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATATCCCG
826656 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
826721 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAGGACCAC
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAGGACCAC
*
826786 ATATCATTCCTTAAGAATCATATATATATACTAGGGATCAAGTATATGTCTCAC
131 ATATCATTCCTTAAGAATCATATATATATACTAGGGATCAAGTATGTGTCTCAC
826840 ATGTTCCAAA
Statistics
Matches: 405, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
242 173 0.43
243 2 0.00
244 230 0.57
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (242 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCCCGAAGGACCAC
ATATCATTCCTTAAGAATCATATATATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACA
CATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATATCCCG
Found at i:826774 original size:18 final size:18
Alignment explanation
Indices: 826751--826786 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
826741 GAATACATAT
826751 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
826769 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
826787 TATCATTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.22, T:0.11
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:828183 original size:21 final size:21
Alignment explanation
Indices: 828157--828200 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
828147 ATTTTATTCG
* *
828157 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
828178 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
828199 CT
1 CT
828201 AGCCCAGAAT
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:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:831098 original size:75 final size:75
Alignment explanation
Indices: 831007--831177 Score: 236
Period size: 75 Copynumber: 2.3 Consensus size: 75
830997 CAACAATAAA
* * * *
831007 CAAATGCTGAGGCATGCTGAAAGCCCATTTCAATCATAATCAGGAATATT-GACGTATTTTGAAT
1 CAAATGCTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAGGAATATTGGA-GCATTTTGAAC
*
831071 GTTTGTATCAG
65 GCTTGTATCAG
* * *
831082 CAAATGCTGGGGCATGCTGAAAGCCCATTTCAATCAGAATGAGGGATGTTGGAGCATTTTGAACG
1 CAAATGCTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAGGAATATTGGAGCATTTTGAACG
*
831147 CTTGTATCGG
66 CTTGTATCAG
*
831157 CAAATGTTGGGGCATGCTGAA
1 CAAATGCTGGGGCATGCTGAA
831178 GGCCTATATC
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
75 83 0.98
76 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (75 bp):
CAAATGCTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAGGAATATTGGAGCATTTTGAACG
CTTGTATCAG
Found at i:832510 original size:3 final size:3
Alignment explanation
Indices: 832502--832571 Score: 56
Period size: 3 Copynumber: 24.0 Consensus size: 3
832492 CGTTTTACTT
** ** * *
832502 TTA TTA TTA TTA AAA TTA AAA TTA TTA TTA TTA TAA ATA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
832549 TTA -TA TATA TTA -TA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA
832572 AATAAAAATA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
2 6 0.12
3 42 0.82
4 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:832534 original size:15 final size:15
Alignment explanation
Indices: 832524--832566 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
832514 AAATTAAAAT
832524 TATTATTATTATAAA
1 TATTATTATTATAAA
*
832539 TATTATTATATTATATA
1 TATTA-T-TATTATAAA
832556 TATTA-TATTAT
1 TATTATTATTAT
832567 TATTAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.24
15 5 0.20
16 1 0.04
17 13 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTATTATTATAAA
Found at i:832550 original size:17 final size:18
Alignment explanation
Indices: 832503--832575 Score: 80
Period size: 18 Copynumber: 4.1 Consensus size: 18
832493 GTTTTACTTT
**
832503 TATTATTATTAAAATTAAA
1 TATTATTATTATTA-TAAA
832522 -ATTATTATTATTATAAA
1 TATTATTATTATTATAAA
*
832539 TATTATTA-TATTATATA
1 TATTATTATTATTATAAA
832556 TATTA-TATTATTATTAAA
1 TATTATTATTATTA-TAAA
832574 TA
1 TA
832576 AAAATATACA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
16 2 0.04
17 22 0.47
18 23 0.49
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTATTATTATTATAAA
Found at i:832561 original size:14 final size:13
Alignment explanation
Indices: 832522--832571 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 13
832512 TAAAATTAAA
832522 ATTATTATTATTAT
1 ATTA-TATTATTAT
*
832536 A-AATATTATTAT
1 ATTATATTATTAT
832548 ATTATATATATTAT
1 ATTATAT-TATTAT
832562 ATTATTATTA
1 ATTA-TATTA
832572 AATAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 10 0.32
13 5 0.16
14 13 0.42
15 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTATATTATTAT
Found at i:834234 original size:2 final size:2
Alignment explanation
Indices: 834222--834254 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
834212 ATCTTAGTCT
*
834222 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
834255 TTGTTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 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):
TA
Found at i:838022 original size:17 final size:17
Alignment explanation
Indices: 838000--838038 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
837990 TGAATCAAAT
838000 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
838017 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
838034 -AATTA
1 TAATTA
838039 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:838787 original size:16 final size:16
Alignment explanation
Indices: 838768--838798 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
838758 ATATAATATA
838768 ATATAATGAATTATTT
1 ATATAATGAATTATTT
*
838784 ATATTATGAATTATT
1 ATATAATGAATTATT
838799 AGATTTTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
ATATAATGAATTATTT
Found at i:838940 original size:23 final size:24
Alignment explanation
Indices: 838911--838965 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
838901 TAATTTGAAA
* *
838911 ATAAAAAAAGGGTATCGGGTACCC
1 ATAAAATAAGGATATCGGGTACCC
* **
838935 GTAAAATCCGGATATCGGGTACCC
1 ATAAAATAAGGATATCGGGTACCC
838959 ATAAAAT
1 ATAAAAT
838966 CCGGGTACCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (24 bp):
ATAAAATAAGGATATCGGGTACCC
Found at i:838965 original size:24 final size:24
Alignment explanation
Indices: 838923--838969 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
838913 AAAAAAAGGG
*
838923 TATCGGGTACCCGTAAAATCCGGA
1 TATCGGGTACCCATAAAATCCGGA
838947 TATCGGGTACCCATAAAATCCGG
1 TATCGGGTACCCATAAAATCCGG
838970 GTACCCGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (24 bp):
TATCGGGTACCCATAAAATCCGGA
Found at i:838972 original size:17 final size:17
Alignment explanation
Indices: 838950--838988 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
838940 ATCCGGATAT
838950 CGGGTACCCATAAAATC
1 CGGGTACCCATAAAATC
* *
838967 CGGGTACCCGTAACATC
1 CGGGTACCCATAAAATC
838984 CGGGT
1 CGGGT
838989 TAGGACACGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.18
Consensus pattern (17 bp):
CGGGTACCCATAAAATC
Found at i:842125 original size:23 final size:23
Alignment explanation
Indices: 842079--842125 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
842069 AGTCTGTCTG
* * *
842079 TATGACATATTTTCATCTGTTTT
1 TATGAAATATTTTCATATGCTTT
*
842102 TATGAAATATTTTCTTATGCTTT
1 TATGAAATATTTTCATATGCTTT
842125 T
1 T
842126 TGACATGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (23 bp):
TATGAAATATTTTCATATGCTTT
Found at i:842778 original size:375 final size:375
Alignment explanation
Indices: 842084--842796 Score: 1060
Period size: 375 Copynumber: 1.9 Consensus size: 375
842074 GTCTGTATGA
* *
842084 CATATTTTCATCTGTTTTTATGAAATATTTTCTTATGCTTTTTGACATGTTTTTTTGTTGTTTGA
1 CATATTTTCATCTGTCTTTATGAAATATATTCTTATGCTTTTTGACA-GTTTTTTTGTTGTTTGA
* * *
842149 CCGTTTTTTCGTTTATCTTTTTTTCTTCTAAGGATTGATTTGATATCATCATGACTGAATGAATA
65 CCGTTTTTTCATTTATCTTTTTTTCTTCCAAGGATTGATTTGATATCATCATGAC---ATGAACA
* * * * *
842214 ATATAACACTTGTATGATATTTTGTTGATATTTTCTATTTTGGATTCTCAGATTAGATTTGGATA
127 ATATAACACTTATATGATATCTTGTTGATATTCTCTATTTTGGATCCTCAGATTAGAATTGGATA
* * ** *
842279 CTCGATTTGCTTTTGTGGATAACTTTTCATGTTGCTTGATTTTGATTTGTGGTTTGTTAGTGGTC
192 CCCGATTTGCTTTTGTGGATAACTTTTCACGTCACTCGATTTTGATTTGTGGTTTGTTAGTGGTC
*
842344 TTTCAATAGTTTGATTTCCTTTTATGGTTTGTTTGCCGATGTAATCAGATCTTTTTGTATCTATT
257 TTTCAATAGTTTGATTTCCTTTTATGGTTTGTTTGCCGATGCAATCAGATCTTTTTGTATCTATT
842409 TTTGTTCGAGTTTTTTTTCTTATTTTGAACAAGTATGCTTGTATGATATATTAT
322 TTTGTTCGAGTTTTTTTTCTTATTTTGAACAAGTATGCTTGTATGATATATTAT
842463 CATATTTTCATCTGTCTTTATGAAATATATTCTTATGCTTTTTGACA-TTTTTTTGTTGTTTGAC
1 CATATTTTCATCTGTCTTTATGAAATATATTCTTATGCTTTTTGACAGTTTTTTTGTTGTTTGAC
* *
842527 CGTTTTTTCATTTATATTTTTTCTTCTTCCAAGGATTGATTTGATATCGTCATGAC-TGAACAAT
66 CGTTTTTTCATTTAT-CTTTTT-TTCTTCCAAGGATTGATTTGATATCATCATGACATGAACAAT
* * * * *
842591 ATGACGCTTATATGATATCTTGTTGGTCTTC-CTTATTTTGGA-CCATCATATT-GAAATTGGAT
129 ATAACACTTATATGATATCTTGTTGATATTCTC-TATTTTGGATCC-TCAGATTAG-AATTGGAT
*
842653 ACCCGATTTG-TGTTTGTGGATAACTTTTCACGTCACTCGATTTTGATTTGTGGTTTGTTTGTGG
191 ACCCGATTTGCT-TTTGTGGATAACTTTTCACGTCACTCGATTTTGATTTGTGGTTTGTTAGTGG
* *
842717 TCTTTCAATAGTTTGATTTCCTTTTATGGTTTGTTTGCCTATGCAATCAGATCTTTTTGTATTTA
255 TCTTTCAATAGTTTGATTTCCTTTTATGGTTTGTTTGCCGATGCAATCAGATCTTTTTGTATCTA
842782 TTTTTGTTCGAGTTT
320 TTTTTGTTCGAGTTT
842797 CTTGATTATA
Statistics
Matches: 302, Mismatches: 26, Indels: 16
0.88 0.08 0.05
Matches are distributed among these distances:
374 4 0.01
375 186 0.62
377 31 0.10
378 5 0.02
379 76 0.25
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (375 bp):
CATATTTTCATCTGTCTTTATGAAATATATTCTTATGCTTTTTGACAGTTTTTTTGTTGTTTGAC
CGTTTTTTCATTTATCTTTTTTTCTTCCAAGGATTGATTTGATATCATCATGACATGAACAATAT
AACACTTATATGATATCTTGTTGATATTCTCTATTTTGGATCCTCAGATTAGAATTGGATACCCG
ATTTGCTTTTGTGGATAACTTTTCACGTCACTCGATTTTGATTTGTGGTTTGTTAGTGGTCTTTC
AATAGTTTGATTTCCTTTTATGGTTTGTTTGCCGATGCAATCAGATCTTTTTGTATCTATTTTTG
TTCGAGTTTTTTTTCTTATTTTGAACAAGTATGCTTGTATGATATATTAT
Found at i:843766 original size:19 final size:19
Alignment explanation
Indices: 843703--843774 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
843693 TAGTTTCTAG
*
843703 TATTATATACTATTTTATT-
1 TATT-TATAATATTTTATTA
* *
843722 TAGTTTATAATAATTTAATA
1 TA-TTTATAATATTTTATTA
843742 TATTTATAAT-TTTTATTA
1 TATTTATAATATTTTATTA
843760 TATTT-TAATGATTTT
1 TATTTATAAT-ATTTT
843775 TTGGATTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.09
18 11 0.25
19 25 0.57
20 4 0.09
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (19 bp):
TATTTATAATATTTTATTA
Found at i:843794 original size:12 final size:12
Alignment explanation
Indices: 843787--843811 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
843777 GGATTATTTT
843787 AAATATTATATA
1 AAATATTATATA
843799 AAATATTATATA
1 AAATATTATATA
843811 A
1 A
843812 TTTTAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATATTATATA
Found at i:846056 original size:44 final size:44
Alignment explanation
Indices: 846006--846092 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
845996 GTGAAACTGT
846006 GAAATGTAACATGGCAGATACATTTGCATTTTAACAATACATCA
1 GAAATGTAACATGGCAGATACATTTGCATTTTAACAATACATCA
846050 GAAATGTAACATGGCAGATACATTTGCATTTTAACAATACATC
1 GAAATGTAACATGGCAGATACATTTGCATTTTAACAATACATC
846093 TGGCTTAGGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (44 bp):
GAAATGTAACATGGCAGATACATTTGCATTTTAACAATACATCA
Found at i:846084 original size:25 final size:25
Alignment explanation
Indices: 846012--846085 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
846002 CTGTGAAATG
846012 TAACATGGCAGATACATTTGCATTT
1 TAACATGGCAGATACATTTGCATTT
** * * *
846037 T-A-A---CA-ATACATCAGAAATG
1 TAACATGGCAGATACATTTGCATTT
846056 TAACATGGCAGATACATTTGCATTT
1 TAACATGGCAGATACATTTGCATTT
846081 TAACA
1 TAACA
846086 ATACATCTGG
Statistics
Matches: 33, Mismatches: 10, Indels: 12
0.60 0.18 0.22
Matches are distributed among these distances:
19 10 0.30
20 3 0.09
21 1 0.03
23 1 0.03
24 3 0.09
25 15 0.45
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (25 bp):
TAACATGGCAGATACATTTGCATTT
Found at i:856223 original size:37 final size:38
Alignment explanation
Indices: 856173--856247 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
856163 TAAAGAATTC
856173 GAATGCTCTTTCTAAAAAAAAT-TCAAAGCAATTGACT
1 GAATGCTCTTTCTAAAAAAAATCTCAAAGCAATTGACT
856210 GAATGCTCTTTCTAAAAAAAATCTCAAAGCAATTGACT
1 GAATGCTCTTTCTAAAAAAAATCTCAAAGCAATTGACT
856248 AACATCAGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 22 0.59
38 15 0.41
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (38 bp):
GAATGCTCTTTCTAAAAAAAATCTCAAAGCAATTGACT
Found at i:864430 original size:30 final size:30
Alignment explanation
Indices: 864394--864468 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
864384 CACCATTTTT
*
864394 CAACACCTAACACCCCATTTTTTTCAACAC
1 CAACACCCAACACCCCATTTTTTTCAACAC
* * *
864424 CAACACCCATCATCTCATTTTTTTCAACAC
1 CAACACCCAACACCCCATTTTTTTCAACAC
*
864454 CAAC-CCCATCACCCC
1 CAACACCCAACACCCC
864469 TTGTTCCCTG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 9 0.23
30 30 0.77
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.25
Consensus pattern (30 bp):
CAACACCCAACACCCCATTTTTTTCAACAC
Found at i:865186 original size:20 final size:20
Alignment explanation
Indices: 865161--865228 Score: 77
Period size: 20 Copynumber: 3.3 Consensus size: 20
865151 ATATCCATTA
865161 TAAATATATGTTATAATATT
1 TAAATATATGTTATAATATT
*
865181 TAAATA-AT-ATATATATCCATT
1 TAAATATATGTTATA-AT--ATT
865202 ATAAATATATGTTATAATATT
1 -TAAATATATGTTATAATATT
865223 TAAATA
1 TAAATA
865229 ATATATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
18 4 0.10
19 4 0.10
20 12 0.30
21 6 0.15
22 6 0.15
23 4 0.10
24 4 0.10
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TAAATATATGTTATAATATT
Found at i:865204 original size:42 final size:42
Alignment explanation
Indices: 865151--865238 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
865141 ATATACGTGC
865151 ATATCCATTATAAATATATGTTATAATATTTAAATAATATAT
1 ATATCCATTATAAATATATGTTATAATATTTAAATAATATAT
865193 ATATCCATTATAAATATATGTTATAATATTTAAATAATATAT
1 ATATCCATTATAAATATATGTTATAATATTTAAATAATATAT
865235 ATAT
1 ATAT
865239 ATATATATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (42 bp):
ATATCCATTATAAATATATGTTATAATATTTAAATAATATAT
Found at i:871649 original size:16 final size:16
Alignment explanation
Indices: 871625--871655 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
871615 CACCCCCAAC
871625 GTCCCTGCTTCATACT
1 GTCCCTGCTTCATACT
*
871641 GTCCTTGCTTCATAC
1 GTCCCTGCTTCATAC
871656 ATAAGGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.35, G:0.13, T:0.39
Consensus pattern (16 bp):
GTCCCTGCTTCATACT
Found at i:878006 original size:2 final size:2
Alignment explanation
Indices: 877999--878054 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
877989 TGGGCTTGTA
877999 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
878041 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
878055 TAATAATAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:878359 original size:76 final size:76
Alignment explanation
Indices: 878228--879022 Score: 1500
Period size: 76 Copynumber: 10.5 Consensus size: 76
878218 GATGGAAATG
* * *
878228 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
878293 CCCGAAGGCTT
66 CCCGAAGGCTT
*
878304 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAATGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
878369 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
878380 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
878445 CCCGAAGGCTT
66 CCCGAAGGCTT
*
878456 TTTGGAAACATCATGCACTGAAGGACTTACAGATAACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
878521 CCCGAAGGCTT
66 CCCGAAGGCTT
*
878532 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTGAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
878597 CCCGAAGGCTT
66 CCCGAAGGCTT
878608 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
878673 CCCGAAGGCTT
66 CCCGAAGGCTT
*
878684 TTTGGAAACATCATGCACTGAAGGACTTACATATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
878749 CCCGAAGGCTT
66 CCCGAAGGCTT
*
878760 TTTGGAAACATCATGCATTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
878825 CCCGAAGGCTT
66 CCCGAAGGCTT
878836 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
878901 CCCGAAGGCTT
66 CCCGAAGGCTT
878912 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
878977 CCCGAAGGCTT
66 CCCGAAGGCTT
878988 TTTGGAAACATCATGCACTGAAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATG
879023 TGGGAAATAG
Statistics
Matches: 702, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 702 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:879495 original size:22 final size:22
Alignment explanation
Indices: 879470--879546 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
879460 GATAAAGCTT
*
879470 TCATCTTTGAAAAGAGAAAT-TG
1 TCATCTTTGAAAAGAG-AATCTA
* *
879492 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
879514 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
879536 TCATCTTTGAA
1 TCATCTTTGAA
879547 GAGTGTAGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
21 3 0.06
22 46 0.94
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:889759 original size:11 final size:11
Alignment explanation
Indices: 889745--889820 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 11
889735 ATAACTTAAT
889745 AATAATAATAA
1 AATAATAATAA
*
889756 AATAATCATGAA
1 AATAATAAT-AA
*
889768 GATAATAATTTAA
1 AATAATAA--TAA
889781 ACAT-AT-ATCAA
1 A-ATAATAAT-AA
889792 AAGTAATAATAA
1 AA-TAATAATAA
889804 AATAA-AATAA
1 AATAATAATAA
889814 TAATAAT
1 -AATAAT
889821 TAAAATGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
10 7 0.14
11 20 0.39
12 15 0.29
13 6 0.12
14 3 0.06
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (11 bp):
AATAATAATAA
Found at i:891214 original size:2 final size:2
Alignment explanation
Indices: 891207--891232 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
891197 TGGGCTTGTA
891207 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
891233 TAATAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:907725 original size:11 final size:11
Alignment explanation
Indices: 907711--907748 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
907701 TTTCTTTTCC
907711 TTTTTCAGACT
1 TTTTTCAGACT
*
907722 TTTTTC--ACC
1 TTTTTCAGACT
907731 TTTTTCAGACT
1 TTTTTCAGACT
907742 TTTTTCA
1 TTTTTCA
907749 CCTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.16, C:0.21, G:0.05, T:0.58
Consensus pattern (11 bp):
TTTTTCAGACT
Found at i:907732 original size:20 final size:20
Alignment explanation
Indices: 907709--907755 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
907699 CTTTTCTTTT
907709 CCTTTTTCAGACTTTTTTCA
1 CCTTTTTCAGACTTTTTTCA
907729 CCTTTTTCAGACTTTTTTCA
1 CCTTTTTCAGACTTTTTTCA
907749 CCTTTTT
1 CCTTTTT
907756 TTTCCTCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.13, C:0.26, G:0.04, T:0.57
Consensus pattern (20 bp):
CCTTTTTCAGACTTTTTTCA
Found at i:915097 original size:19 final size:19
Alignment explanation
Indices: 915073--915189 Score: 108
Period size: 21 Copynumber: 5.7 Consensus size: 19
915063 CATATTCGCA
915073 TTGCGATAGTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCG
*
915092 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
* *
915113 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCG
915134 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
* * *
915155 TTGCGATTTATTTCAAGCTCG
1 TTGCGA--TAGTCCAAGTTCG
915176 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
915190 AATCGCAACG
Statistics
Matches: 79, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
19 31 0.39
21 32 0.41
23 16 0.20
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (19 bp):
TTGCGATAGTCCAAGTTCG
Found at i:915136 original size:42 final size:42
Alignment explanation
Indices: 915082--915189 Score: 180
Period size: 42 Copynumber: 2.6 Consensus size: 42
915072 ATTGCGATAG
*
915082 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
*
915124 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
* *
915166 TTCAAGCTCGTTGCGATAGTCCAA
1 TCCAAGTTCGTTGCGATAGTCCAA
915190 AATCGCAACG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (42 bp):
TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTAT
Found at i:915300 original size:12 final size:12
Alignment explanation
Indices: 915279--915317 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
915269 CGTATTACCA
*
915279 CGACCACGACCC
1 CGACCCCGACCC
915291 CGACCCCGACCC
1 CGACCCCGACCC
915303 CGA-CCCGA-CC
1 CGACCCCGACCC
915313 CGACC
1 CGACC
915318 AGAGACGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 5 0.20
11 6 0.24
12 14 0.56
ACGTcount: A:0.21, C:0.62, G:0.18, T:0.00
Consensus pattern (12 bp):
CGACCCCGACCC
Found at i:915987 original size:21 final size:21
Alignment explanation
Indices: 915961--916014 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
915951 GATTTACATA
915961 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
915982 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
916003 TTCGCATTGCGA
1 TTCGCATTGCGA
916015 ATCTGGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:923493 original size:3 final size:3
Alignment explanation
Indices: 923476--923650 Score: 145
Period size: 3 Copynumber: 58.3 Consensus size: 3
923466 CTTTGTTGCG
* * * * * *
923476 GCT GCG GCT GCT GTT GTT GTT GCT GCT GCT GTT GTT GCT GCT GCT GCT
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT
* * * * *
923524 GCT GTT G-T AGTT GCT GTT GCT GCT GCT GTT GTT GCT GCT GCT GCT
1 GCT GCT GCT -GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT
* * * * * *
923569 GTT GTT GCT GCT GCT GCT GTT GTT GTT GCT GCT GCT GCT GCT GCT GTT
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT
* * * *
923617 GTT GCT GCT GTT GTT GTT GCT GCT GCT GCT GCT G
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT G
923651 AGCATGCCTC
Statistics
Matches: 150, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
2 1 0.01
3 148 0.99
4 1 0.01
ACGTcount: A:0.01, C:0.21, G:0.34, T:0.44
Consensus pattern (3 bp):
GCT
Found at i:923493 original size:21 final size:21
Alignment explanation
Indices: 923468--923650 Score: 234
Period size: 21 Copynumber: 9.0 Consensus size: 21
923458 CATCCCTTCT
* *
923468 TTGTTGCGGCTGCGGCTGCTG
1 TTGTTGCTGCTGCTGCTGCTG
923489 TTGTTG-T--TGCTGCTGCTG
1 TTGTTGCTGCTGCTGCTGCTG
923507 TTGTTGCTGCTGCTGCTGCTG
1 TTGTTGCTGCTGCTGCTGCTG
* * *
923528 TTGTAGTTGCTGTTGCTGCTG
1 TTGTTGCTGCTGCTGCTGCTG
* *
923549 CTGTTGTTGCTGCTGCTGCTG
1 TTGTTGCTGCTGCTGCTGCTG
*
923570 TTGTTGCTGCTGCTGCTGTTG
1 TTGTTGCTGCTGCTGCTGCTG
923591 TTGTTGCTGCTGCTGCTGCTG
1 TTGTTGCTGCTGCTGCTGCTG
* *
923612 CTGTTG-T--TGCTGCTGTTG
1 TTGTTGCTGCTGCTGCTGCTG
923630 TTGTTGCTGCTGCTGCTGCTG
1 TTGTTGCTGCTGCTGCTGCTG
923651 AGCATGCCTC
Statistics
Matches: 140, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
18 31 0.22
19 2 0.01
20 1 0.01
21 106 0.76
ACGTcount: A:0.01, C:0.21, G:0.34, T:0.44
Consensus pattern (21 bp):
TTGTTGCTGCTGCTGCTGCTG
Found at i:923503 original size:18 final size:18
Alignment explanation
Indices: 923482--923644 Score: 182
Period size: 18 Copynumber: 8.4 Consensus size: 18
923472 TGCGGCTGCG
923482 GCTGCTGTTGTTGTTGCT
1 GCTGCTGTTGTTGTTGCT
923500 GCTGCTGTTGTTGCTGCTGCT
1 GCTGCTGTTGTTG-T--TGCT
923521 GCTGCTGTTGTAGTTGCTGTTGCT
1 GCTGCTG-T-T-G-T--TGTTGCT
*
923545 GCTGCTGTTGTTGCTGCT
1 GCTGCTGTTGTTGTTGCT
*
923563 GCTGCTGTTGTTGCTGCT
1 GCTGCTGTTGTTGTTGCT
923581 GCTGCTGTTGTTGTTGCT
1 GCTGCTGTTGTTGTTGCT
* *
923599 GCTGCTGCTGCTGCTGTTGTT
1 GCTGCTG-T--TGTTGTTGCT
923620 GCTGCTGTTGTTGTTGCT
1 GCTGCTGTTGTTGTTGCT
923638 GCTGCTG
1 GCTGCTG
923645 CTGCTGAGCA
Statistics
Matches: 127, Mismatches: 6, Indels: 24
0.81 0.04 0.15
Matches are distributed among these distances:
18 76 0.60
19 2 0.02
20 2 0.02
21 27 0.21
22 2 0.02
23 2 0.02
24 12 0.09
25 1 0.01
26 1 0.01
27 2 0.02
ACGTcount: A:0.01, C:0.20, G:0.34, T:0.45
Consensus pattern (18 bp):
GCTGCTGTTGTTGTTGCT
Found at i:923525 original size:39 final size:39
Alignment explanation
Indices: 923468--923650 Score: 240
Period size: 39 Copynumber: 4.5 Consensus size: 39
923458 CATCCCTTCT
* *
923468 TTGTTGCGGCTGCGGCTGCTGTTGTTGTTGCTGCTGCTG
1 TTGTTGCTGCTGCTGCTGCTGTTGTTGTTGCTGCTGCTG
923507 TTGTTGCTGCTGCTGCTGCTGTTGTAGTTGCTGTTGCTGCTGCTG
1 TTGTTGCTGCTGCTGCTGCTG-T-T-G-T--TGTTGCTGCTGCTG
* * * *
923552 TTGTTGCTGCTGCTGCTGTTGTTGCTGCTGCTGCTGTTG
1 TTGTTGCTGCTGCTGCTGCTGTTGTTGTTGCTGCTGCTG
* *
923591 TTGTTGCTGCTGCTGCTGCTGCTGTTGTTGCTGCTGTTG
1 TTGTTGCTGCTGCTGCTGCTGTTGTTGTTGCTGCTGCTG
923630 TTGTTGCTGCTGCTGCTGCTG
1 TTGTTGCTGCTGCTGCTGCTG
923651 AGCATGCCTC
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
39 87 0.68
40 1 0.01
41 1 0.01
42 2 0.02
43 2 0.02
44 1 0.01
45 34 0.27
ACGTcount: A:0.01, C:0.21, G:0.34, T:0.44
Consensus pattern (39 bp):
TTGTTGCTGCTGCTGCTGCTGTTGTTGTTGCTGCTGCTG
Found at i:930845 original size:13 final size:13
Alignment explanation
Indices: 930827--930884 Score: 80
Period size: 13 Copynumber: 4.3 Consensus size: 13
930817 GTCACAACCC
930827 GACCCGACCCGTT
1 GACCCGACCCGTT
930840 GACCCGACCCGTT
1 GACCCGACCCGTT
*
930853 TACCCGACCCGTT
1 GACCCGACCCGTT
*
930866 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
930881 GACC
1 GACC
930885 AAAACTTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
13 28 0.70
15 12 0.30
ACGTcount: A:0.16, C:0.43, G:0.22, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:932196 original size:18 final size:18
Alignment explanation
Indices: 932156--932196 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
932146 ATTGTTCGAA
*
932156 AAGATTGAAGTAAATGAT
1 AAGATTGAAGTAAATAAT
* *
932174 TAGATTGAATTAAATAAT
1 AAGATTGAAGTAAATAAT
932192 AAGAT
1 AAGAT
932197 CAGATGGAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (18 bp):
AAGATTGAAGTAAATAAT
Found at i:933364 original size:24 final size:23
Alignment explanation
Indices: 933337--933411 Score: 60
Period size: 24 Copynumber: 3.1 Consensus size: 23
933327 AATTATTTTA
* *
933337 TCTGATTTTCGACTTGAATTCTGT
1 TCTGATTTT-GACCTGAATTATGT
**
933361 TCTGATACATGACCTGAATTATGT
1 TCTGAT-TTTGACCTGAATTATGT
** *
933385 TCTGATTTCTGATATGGATTATGT
1 TCTGATTT-TGACCTGAATTATGT
933409 TCT
1 TCT
933412 AATATCTGTT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (23 bp):
TCTGATTTTGACCTGAATTATGT
Found at i:933389 original size:12 final size:12
Alignment explanation
Indices: 933374--933443 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
933364 GATACATGAC
*
933374 CTGAATTATGTT
1 CTGAATTCTGTT
* *
933386 CTGATTTCTGAT
1 CTGAATTCTGTT
* * *
933398 ATGGATTATGTT
1 CTGAATTCTGTT
933410 CT-AATATCTGTT
1 CTGAAT-TCTGTT
933422 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
933434 TTGATTTCTG
1 CTGAATTCTG
933444 ATATCTCCGT
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
11 2 0.05
12 38 0.88
13 3 0.07
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:933433 original size:24 final size:24
Alignment explanation
Indices: 933351--933445 Score: 84
Period size: 24 Copynumber: 4.0 Consensus size: 24
933341 ATTTTCGACT
* *
933351 TGAATTCTGTTCTGATA-CATGACC
1 TGAATTATGTTCTGATATC-TGATC
* *
933375 TGAATTATGTTCTGATTTCTGATA
1 TGAATTATGTTCTGATATCTGATC
* * *
933399 TGGATTATGTTCTAATATCTGTTC
1 TGAATTATGTTCTGATATCTGATC
* * *
933423 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTATGTTCTGATATCTGAT
933446 ATCTCCGTTT
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 54 0.98
25 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (24 bp):
TGAATTATGTTCTGATATCTGATC
Found at i:935506 original size:13 final size:13
Alignment explanation
Indices: 935488--935512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
935478 GGTCACAAAC
935488 CGACCCGACCCGT
1 CGACCCGACCCGT
935501 CGACCCGACCCG
1 CGACCCGACCCG
935513 ACCCGTTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.56, G:0.24, T:0.04
Consensus pattern (13 bp):
CGACCCGACCCGT
Found at i:935510 original size:18 final size:18
Alignment explanation
Indices: 935487--935530 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
935477 TGGTCACAAA
935487 CCGACCCGACCCGTCGAC
1 CCGACCCGACCCGTCGAC
**
935505 CCGACCCGACCCGTTTAC
1 CCGACCCGACCCGTCGAC
935523 CCGACCCG
1 CCGACCCG
935531 TTTACCCGAT
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:0.16, C:0.55, G:0.20, T:0.09
Consensus pattern (18 bp):
CCGACCCGACCCGTCGAC
Found at i:935524 original size:13 final size:13
Alignment explanation
Indices: 935508--935545 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
935498 CGTCGACCCG
935508 ACCCGACCCGTTT
1 ACCCGACCCGTTT
935521 ACCCGACCCGTTT
1 ACCCGACCCGTTT
*
935534 ACCCGATCCGTT
1 ACCCGACCCGTT
935546 GACCGTTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.45, G:0.16, T:0.24
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:936882 original size:18 final size:18
Alignment explanation
Indices: 936842--936882 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
936832 ATTGTTCGAA
*
936842 AAGATTGAAGTAAATGAT
1 AAGATTGAAGTAAATAAT
* *
936860 TAGATTGAATTAAATAAT
1 AAGATTGAAGTAAATAAT
936878 AAGAT
1 AAGAT
936883 CAGATGGAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (18 bp):
AAGATTGAAGTAAATAAT
Found at i:938091 original size:48 final size:48
Alignment explanation
Indices: 938039--938132 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 48
938029 TTCGACTTGA
*
938039 ATTCTGTTCTGATA-CATGACCTGAATTATGTTCTGATTTCTAATATGG
1 ATTCTGTTCTAATATC-TGACCTGAATTATGTTCTGATTTCTAATATGG
** * * *
938087 ATTCTGTTCTAATATCTGTTCTGAATTCTGTTTTGATTTCTGATAT
1 ATTCTGTTCTAATATCTGACCTGAATTATGTTCTGATTTCTAATAT
938133 CTCCGTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.22, C:0.14, G:0.15, T:0.49
Consensus pattern (48 bp):
ATTCTGTTCTAATATCTGACCTGAATTATGTTCTGATTTCTAATATGG
Found at i:938094 original size:24 final size:24
Alignment explanation
Indices: 938036--938132 Score: 79
Period size: 24 Copynumber: 4.0 Consensus size: 24
938026 ATTTTCGACT
* **
938036 TGAATTCTGTTCTGA-TACATGACC
1 TGAATTCTGTTCTGATTTC-TGATA
* *
938060 TGAATTATGTTCTGATTTCTAATA
1 TGAATTCTGTTCTGATTTCTGATA
* * * * *
938084 TGGATTCTGTTCTAATATCTGTTC
1 TGAATTCTGTTCTGATTTCTGATA
*
938108 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
938132 T
1 T
938133 CTCCGTTTAA
Statistics
Matches: 54, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
24 52 0.96
25 2 0.04
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATA
Found at i:938104 original size:12 final size:12
Alignment explanation
Indices: 938087--938128 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
938077 TCTAATATGG
938087 ATTCTGTTCT-A
1 ATTCTGTTCTGA
938098 ATATCTGTTCTGA
1 AT-TCTGTTCTGA
*
938111 ATTCTGTTTTGA
1 ATTCTGTTCTGA
*
938123 TTTCTG
1 ATTCTG
938129 ATATCTCCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 2 0.07
12 22 0.81
13 3 0.11
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (12 bp):
ATTCTGTTCTGA
Found at i:940216 original size:13 final size:13
Alignment explanation
Indices: 940216--940260 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
940206 CCGTTGACCC
940216 GACCCGACCCGTT
1 GACCCGACCCGTT
940229 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
940242 AACCGTTGACCCGTT
1 GACC--CGACCCGTT
940257 GACC
1 GACC
940261 AAAACTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 16 0.59
15 11 0.41
ACGTcount: A:0.18, C:0.42, G:0.22, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:940216 original size:18 final size:18
Alignment explanation
Indices: 940193--940254 Score: 97
Period size: 18 Copynumber: 3.3 Consensus size: 18
940183 GTCACAACCC
940193 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
940211 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
*
940229 GACCCGACCCGTTAACCGTT
1 GACCCGACCCG--ACCCGTT
940249 GACCCG
1 GACCCG
940255 TTGACCAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
18 29 0.71
20 12 0.29
ACGTcount: A:0.18, C:0.47, G:0.23, T:0.13
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:941569 original size:18 final size:18
Alignment explanation
Indices: 941543--941578 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
941533 TCGAAATGAC
*
941543 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
941561 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
941579 CAGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:942791 original size:24 final size:24
Alignment explanation
Indices: 942719--942829 Score: 82
Period size: 24 Copynumber: 4.6 Consensus size: 24
942709 AATTATTTTA
*
942719 TCTGATTT-TCGATTTGAATTCTGT
1 TCTGATTTCT-GATATGAATTCTGT
* ** *
942743 TCTGA-TACATGACCTGAATTATGT
1 TCTGATTTC-TGATATGAATTCTGT
* *
942767 TCTGATTTCTGATATGGATTTTGT
1 TCTGATTTCTGATATGAATTCTGT
* * * *
942791 TCTAATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
942815 TTTGATTTCTGATAT
1 TCTGATTTCTGATAT
942830 CTCCGTTTAA
Statistics
Matches: 64, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
23 1 0.02
24 60 0.94
25 3 0.05
ACGTcount: A:0.21, C:0.13, G:0.16, T:0.50
Consensus pattern (24 bp):
TCTGATTTCTGATATGAATTCTGT
Found at i:942805 original size:12 final size:12
Alignment explanation
Indices: 942733--942825 Score: 55
Period size: 12 Copynumber: 7.8 Consensus size: 12
942723 ATTTTCGATT
942733 TGAATTCTGTTC
1 TGAATTCTGTTC
* **
942745 TG-ATACATGACC
1 TGAATTC-TGTTC
*
942757 TGAATTATGTTC
1 TGAATTCTGTTC
* * *
942769 TGATTTCTGATA
1 TGAATTCTGTTC
* *
942781 TGGATTTTGTTC
1 TGAATTCTGTTC
942793 T-AATATCTGTTC
1 TGAAT-TCTGTTC
*
942805 TGAATTCTGTTT
1 TGAATTCTGTTC
*
942817 TGATTTCTG
1 TGAATTCTG
942826 ATATCTCCGT
Statistics
Matches: 57, Mismatches: 20, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
11 5 0.09
12 47 0.82
13 5 0.09
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.49
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:945218 original size:21 final size:22
Alignment explanation
Indices: 945177--945223 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
945167 TAATTTTACC
945177 TTTTATTATTTTGTCATTATTA
1 TTTTATTATTTTGTCATTATTA
945199 TTTTATTATCTTT-T-ATTATTA
1 TTTTATTAT-TTTGTCATTATTA
945220 TTTT
1 TTTT
945224 CCATTTCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 11 0.46
22 10 0.42
23 3 0.12
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTATTATTTTGTCATTATTA
Found at i:945349 original size:2 final size:2
Alignment explanation
Indices: 945301--945335 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
945291 ATATTTATGT
945301 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
945336 GTAGTTAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:945511 original size:14 final size:14
Alignment explanation
Indices: 945477--945514 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
945467 ACATATATAT
*
945477 ATATTTACTATTTTA
1 ATATTTA-TTTTTTA
945492 AT-TTTATTTTTTA
1 ATATTTATTTTTTA
945505 ATATTTATTT
1 ATATTTATTT
945515 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 11 0.52
15 2 0.10
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
ATATTTATTTTTTA
Found at i:957001 original size:105 final size:105
Alignment explanation
Indices: 956819--957384 Score: 946
Period size: 105 Copynumber: 5.4 Consensus size: 105
956809 AGGTTTTACC
956819 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
956884 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
956924 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACCCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
956989 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
957029 CAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
957094 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
957134 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
* *
957199 ACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
** * * * * *
957239 TGGAGCCAATTTTAACTTCACAGCGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
957304 ACGAAGGGACCGCTGGTTGTCAAC-AA-AGTT-TC-A-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
957339 CAGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCGAGACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
957385 GCACAAGCTC
Statistics
Matches: 438, Mismatches: 22, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
100 41 0.09
101 1 0.00
102 1 0.00
103 3 0.01
104 3 0.01
105 389 0.89
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:957897 original size:2 final size:2
Alignment explanation
Indices: 957890--957951 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
957880 ATTTATGTGT
957890 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
957932 TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA
957952 CATTATTTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:959093 original size:21 final size:22
Alignment explanation
Indices: 959052--959098 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
959042 TAATTTTACC
959052 TTTTATTATTTTGTCATTATTA
1 TTTTATTATTTTGTCATTATTA
959074 TTTTATTATCTTT-T-ATTATTA
1 TTTTATTAT-TTTGTCATTATTA
959095 TTTT
1 TTTT
959099 CCATTTCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 11 0.46
22 10 0.42
23 3 0.12
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTATTATTTTGTCATTATTA
Found at i:959362 original size:14 final size:14
Alignment explanation
Indices: 959328--959365 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
959318 ACATATATAT
*
959328 ATATTTACTATTTTA
1 ATATTTA-TTTTTTA
959343 AT-TTTATTTTTTA
1 ATATTTATTTTTTA
959356 ATATTTATTT
1 ATATTTATTT
959366 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 8 0.38
14 11 0.52
15 2 0.10
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
ATATTTATTTTTTA
Found at i:960361 original size:13 final size:13
Alignment explanation
Indices: 960339--960417 Score: 53
Period size: 13 Copynumber: 6.5 Consensus size: 13
960329 AAATAGAAAT
*
960339 TAAATGAATATAA
1 TAAATAAATATAA
960352 TAAATAAATATAA
1 TAAATAAATATAA
960365 T-AAT--AT-TAA
1 TAAATAAATATAA
* *
960374 TTATTAAATATAA
1 TAAATAAATATAA
* * *
960387 TAATTAATTAAAA
1 TAAATAAATATAA
960400 TATAAT-AATAT-A
1 TA-AATAAATATAA
960412 TAAATA
1 TAAATA
960418 TAGTAATTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
9 4 0.08
10 4 0.08
11 3 0.06
12 8 0.15
13 31 0.60
14 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (13 bp):
TAAATAAATATAA
Found at i:960434 original size:18 final size:17
Alignment explanation
Indices: 960378--960455 Score: 58
Period size: 17 Copynumber: 4.6 Consensus size: 17
960368 TATTAATTAT
*
960378 TAAATATAATAATT-AAT
1 TAAATAT-ATAATTAAAA
960395 TAAA-ATATAA-TAATATA
1 TAAATATATAATTAA-A-A
960412 TAAATATAGTAATTAAAA
1 TAAATATA-TAATTAAAA
* *
960430 TAAATATTTTATTAAAA
1 TAAATATATAATTAAAA
960447 -AAAT-TATAA
1 TAAATATATAA
960456 ATTTTGAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
14 1 0.02
15 8 0.16
16 7 0.14
17 16 0.32
18 11 0.22
19 4 0.08
20 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
TAAATATATAATTAAAA
Found at i:962228 original size:2 final size:2
Alignment explanation
Indices: 962223--962276 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
962213 AACACACACA
962223 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
*
962265 AT AT AT TT AT AT
1 AT AT AT AT AT AT
962277 TTCATATACA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:965277 original size:20 final size:21
Alignment explanation
Indices: 965234--965277 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
965224 TACTAAACCC
*
965234 TATAAAATAATCATTTTAACTT
1 TATAAAATAATCA-TTTAAATT
*
965256 TATAAAATTATCA-TTAAATT
1 TATAAAATAATCATTTAAATT
965276 TA
1 TA
965278 ATGAACCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
22 12 0.60
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (21 bp):
TATAAAATAATCATTTAAATT
Found at i:970734 original size:28 final size:28
Alignment explanation
Indices: 970709--970788 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 28
970699 TTAAGTACCC
*
970709 ATTTTGACATAAAATATTTTAGGTACTT
1 ATTTTGACAAAAAATATTTTAGGTACTT
* *
970737 ATTTTGACTAAAAAGATAACTTTAGGTATTT
1 ATTTTGAC-AAAAA-AT-ATTTTAGGTACTT
970768 ATTTTGACAAAAAATATTTTA
1 ATTTTGACAAAAAATATTTTA
970789 TTTACTTAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 13 0.29
29 6 0.13
30 7 0.16
31 19 0.42
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (28 bp):
ATTTTGACAAAAAATATTTTAGGTACTT
Found at i:972324 original size:28 final size:28
Alignment explanation
Indices: 972292--972348 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
972282 TACTTGGACC
972292 GAATTAATAACCAATAATCATGAATCAA
1 GAATTAATAACCAATAATCATGAATCAA
*
972320 GAATTGATAACCAATAATCATGAATCAA
1 GAATTAATAACCAATAATCATGAATCAA
972348 G
1 G
972349 GTTATTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.25
Consensus pattern (28 bp):
GAATTAATAACCAATAATCATGAATCAA
Found at i:975358 original size:162 final size:161
Alignment explanation
Indices: 975078--975413 Score: 489
Period size: 162 Copynumber: 2.1 Consensus size: 161
975068 GTCACGAAAA
* * *
975078 GACAATACTGGTAAAGCCCTATCGGATATATTGAATATGTCGATACTTTAATATAATGATCGACA
1 GACAAAACCGGTAAAGCCCTACCGGATATATTGAATATGTCGATACTTTAATATAATGATCGACA
* * *
975143 GTTTGTGAATTTAAAAGAGAAGCAATTTTAACGCCTATAAAGTGTCAATACTTTATAAAAATGTA
66 CTTTGTGAATTTAAAAGAGAAACAATTTTAACACCTATAAAGTGTCAATACTTTATAAAAATGTA
975208 TCGATCCACAACGATATAACAAGTAAAAATAT
131 TCGATCCACAACGATATAAC-AGTAAAAATAT
* * *
975240 GACAAAACCGGTAAAGCGCTACCGGATATATTTAA-AGTGTCGGTACTTTAATATAA-GTATCGA
1 GACAAAACCGGTAAAGCCCTACCGGATATATTGAATA-TGTCGATACTTTAATATAATG-ATCGA
* *
975303 CACTTTGTGAATTTAAAAGAGAAACAGTTTTAGA-ACCTATAAAGTGTCGATACTTTATAAAAAT
64 CACTTTGTGAATTTAAAAGAGAAACAATTTTA-ACACCTATAAAGTGTCAATACTTTATAAAAAT
*
975367 GTATCGATCCACAACGATATAACGGTAAAAATAT
128 GTATCGATCCACAACGATATAACAGTAAAAATAT
* *
975401 GATAAAATCGGTA
1 GACAAAACCGGTA
975414 TCAAAATGAT
Statistics
Matches: 157, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
161 23 0.15
162 133 0.85
163 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (161 bp):
GACAAAACCGGTAAAGCCCTACCGGATATATTGAATATGTCGATACTTTAATATAATGATCGACA
CTTTGTGAATTTAAAAGAGAAACAATTTTAACACCTATAAAGTGTCAATACTTTATAAAAATGTA
TCGATCCACAACGATATAACAGTAAAAATAT
Found at i:978952 original size:36 final size:35
Alignment explanation
Indices: 978889--978993 Score: 169
Period size: 34 Copynumber: 3.0 Consensus size: 35
978879 CTCTCTTTAG
978889 CATACGCTCGTATC-TTTTTTTCGTCTTTGTTGAT
1 CATACGCTCGTATCTTTTTTTTCGTCTTTGTTGAT
978923 CATACGCTCGTATCTTTCTTTTTCGTCTTTGTTGAT
1 CATACGCTCGTATCTTT-TTTTTCGTCTTTGTTGAT
* *
978959 CATACGCTCGTAT-TTTTTTTTCATCTTTATTGAT
1 CATACGCTCGTATCTTTTTTTTCGTCTTTGTTGAT
978993 C
1 C
978994 GCGGTGGTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
34 31 0.46
35 5 0.07
36 31 0.46
ACGTcount: A:0.13, C:0.21, G:0.12, T:0.53
Consensus pattern (35 bp):
CATACGCTCGTATCTTTTTTTTCGTCTTTGTTGAT
Found at i:980515 original size:20 final size:19
Alignment explanation
Indices: 980482--980523 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
980472 TTTTATCACA
*
980482 CTAAATTCTCTCAAATTCT
1 CTAAATTCTCTCAAATACT
*
980501 CTAAATTTCTTTCAAATACT
1 CTAAA-TTCTCTCAAATACT
980521 CTA
1 CTA
980524 TCTTTTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (19 bp):
CTAAATTCTCTCAAATACT
Found at i:980843 original size:111 final size:111
Alignment explanation
Indices: 980649--980870 Score: 381
Period size: 111 Copynumber: 2.0 Consensus size: 111
980639 TAGAAATCAT
* *
980649 ATATCTCTACACTTTACTAATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTAATACGATAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
*
980714 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* * * *
980760 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTTATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTAATACGATAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
980825 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
980871 TTTTTGTAAT
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 104 1.00
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTACTAATACGATAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:982403 original size:18 final size:18
Alignment explanation
Indices: 982377--982411 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
982367 CAGCAGCCAC
982377 CGCAACCATATATGATGT
1 CGCAACCATATATGATGT
*
982395 CGCAGCCATATATGATG
1 CGCAACCATATATGATG
982412 CCGTCATCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (18 bp):
CGCAACCATATATGATGT
Done.