Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 191 of 310
Found at i:62280427 original size:60 final size:59
Alignment explanation
Indices: 62280298--62280434 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
62280288 CTATGATTTT
* * * * *
62280298 TTTCCTTTTCGGTCACTCAACTATGAAAAGTTACAAAATGGCCATCCAGCTATTAGTAAA
1 TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGCCATCCAACTATTA-CAAA
* *
62280358 TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGTCA-CTCAACTATT-CAAT
1 TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGCCATC-CAACTATTACAAA
62280416 TTTCTCTTTTTTGGTCACC
1 TTTC-C-TTTTTGGTCACC
62280435 TTACTATTGA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
58 6 0.09
59 2 0.03
60 59 0.88
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (59 bp):
TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGCCATCCAACTATTACAAA
Found at i:62287089 original size:46 final size:49
Alignment explanation
Indices: 62287039--62287197 Score: 121
Period size: 51 Copynumber: 3.2 Consensus size: 49
62287029 TAGCTTTGCC
*
62287039 ATGGTCTTACACGGATCACA-TA-ACAT-ACCGATACCATATCCCAGAT
1 ATGGTCTTACACGGATCACATTACACATCACCGATACCATAGCCCAGAT
* * * *
62287085 ATGGTCTTATATGGAATCACATTATCACATCACACCGATGCCATAGCCCAGCT
1 ATGGTCTTACACGG-ATCACATTA-CACAT--CACCGATACCATAGCCCAGAT
* * * * *
62287138 ATGGTCTTACAGGGATCTCGAAT-CACATTGTACCGATGCCATAGCCCA-ACT
1 ATGGTCTTACACGGATCAC-ATTACACA-T-CACCGATACCATAGCCCAGA-T
62287189 ATGGTCTTA
1 ATGGTCTTA
62287198 TATGGAAGTA
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
46 12 0.13
47 6 0.07
48 2 0.02
50 4 0.04
51 31 0.34
52 5 0.05
53 31 0.34
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
ATGGTCTTACACGGATCACATTACACATCACCGATACCATAGCCCAGAT
Found at i:62287135 original size:53 final size:52
Alignment explanation
Indices: 62287065--62287204 Score: 151
Period size: 51 Copynumber: 2.7 Consensus size: 52
62287055 CACATAACAT
* *
62287065 ACCGATACCATATCCCAGATATGGTCTTATATGGAATCAC-ATTATCACATCAC
1 ACCGATGCCATAGCCCAGATATGGTCTTATATGGAATCACGA--ATCACATCAC
* * * * ***
62287118 ACCGATGCCATAGCCCAGCTATGGTCTTACA-GGGATCTCGAATCACATTGT
1 ACCGATGCCATAGCCCAGATATGGTCTTATATGGAATCACGAATCACATCAC
62287169 ACCGATGCCATAGCCCA-ACTATGGTCTTATATGGAA
1 ACCGATGCCATAGCCCAGA-TATGGTCTTATATGGAA
62287205 GTACATAACA
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
51 35 0.49
52 9 0.12
53 28 0.39
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (52 bp):
ACCGATGCCATAGCCCAGATATGGTCTTATATGGAATCACGAATCACATCAC
Found at i:62293606 original size:17 final size:17
Alignment explanation
Indices: 62293584--62293619 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
62293574 TATAACCAGA
62293584 TTGTCTTGGTCTACTCT
1 TTGTCTTGGTCTACTCT
62293601 TTGTCTTGGTCTACTCT
1 TTGTCTTGGTCTACTCT
62293618 TT
1 TT
62293620 CTCGATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.22, G:0.17, T:0.56
Consensus pattern (17 bp):
TTGTCTTGGTCTACTCT
Found at i:62295739 original size:52 final size:52
Alignment explanation
Indices: 62295577--62295742 Score: 185
Period size: 52 Copynumber: 3.2 Consensus size: 52
62295567 TCTTGCACGG
* * *
62295577 ATCACATAACGTACCGAT-CCAAATCCCAGATATGGTCTTATACGGAATCACATT
1 ATCACAT--CGTACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACA-T
** * * *
62295631 ATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATATGGGATCTCGA-
1 ATCACATCGTACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-AT
*
62295683 ATCACATTGTACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGT-ACAT
1 ATCACATCGTACCGATGCCATAGCCCAGCTATGGTCTTATACGGAA-TCACAT
62295735 ATCACATC
1 ATCACATC
62295743 TTTTTCGTCA
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
51 1 0.01
52 56 0.60
53 28 0.30
54 8 0.09
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (52 bp):
ATCACATCGTACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACAT
Found at i:62298946 original size:25 final size:25
Alignment explanation
Indices: 62298918--62298969 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
62298908 TAATAGTTAG
*
62298918 TTCAAGAATGAGTAATTATAAATAT
1 TTCAAGAACGAGTAATTATAAATAT
62298943 TTCAAGAACGAGTAATTATAAATAT
1 TTCAAGAACGAGTAATTATAAATAT
62298968 TT
1 TT
62298970 AAAACCTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (25 bp):
TTCAAGAACGAGTAATTATAAATAT
Found at i:62300738 original size:54 final size:54
Alignment explanation
Indices: 62300656--62300765 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
62300646 AACGGTGAAT
62300656 GAAGAATATAAACCTCGTATCCCATACCTTAACGCGACAAGGAAAGACCACTTA
1 GAAGAATATAAACCTCGTATCCCATACCTTAACGCGACAAGGAAAGACCACTTA
*
62300710 GAAGAATATAAACCTCGTATCCCATACCTTAACGCGACAAGGAAAGACCGCTTA
1 GAAGAATATAAACCTCGTATCCCATACCTTAACGCGACAAGGAAAGACCACTTA
62300764 GA
1 GA
62300766 TAAACAATTC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.18
Consensus pattern (54 bp):
GAAGAATATAAACCTCGTATCCCATACCTTAACGCGACAAGGAAAGACCACTTA
Found at i:62306083 original size:27 final size:27
Alignment explanation
Indices: 62306052--62306105 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
62306042 AAAGTATTGT
62306052 TAGATGAAAAAGACCCTAGAATTGCTA
1 TAGATGAAAAAGACCCTAGAATTGCTA
*
62306079 TAGATGAAAAGGACCCTAGAATTGCTA
1 TAGATGAAAAAGACCCTAGAATTGCTA
62306106 CTTCAGAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (27 bp):
TAGATGAAAAAGACCCTAGAATTGCTA
Found at i:62309307 original size:14 final size:15
Alignment explanation
Indices: 62309288--62309317 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
62309278 ATATTTAATT
62309288 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
62309302 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
62309317 T
1 T
62309318 TTTGATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:62309546 original size:14 final size:14
Alignment explanation
Indices: 62309527--62309563 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
62309517 GAAAGGTCTC
*
62309527 AATTATTTGTTCTT
1 AATTATGTGTTCTT
62309541 AATTATGTGTTCTT
1 AATTATGTGTTCTT
62309555 AATTCATGT
1 AATT-ATGT
62309564 TTTGATATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.57
Consensus pattern (14 bp):
AATTATGTGTTCTT
Found at i:62309656 original size:246 final size:246
Alignment explanation
Indices: 62309285--62309779 Score: 990
Period size: 246 Copynumber: 2.0 Consensus size: 246
62309275 TAAATATTTA
62309285 ATTTGTTCTTAATTATGTGTTCTTAATTCATGTTTTGATATCCCAGGATACTAATTCAAGATAAG
1 ATTTGTTCTTAATTATGTGTTCTTAATTCATGTTTTGATATCCCAGGATACTAATTCAAGATAAG
62309350 CTCTTATTCAGAAGAGGAATAGACCCTGTCTAAAAGTACATTTGTCATAATTACGCGGAGTTGAT
66 CTCTTATTCAGAAGAGGAATAGACCCTGTCTAAAAGTACATTTGTCATAATTACGCGGAGTTGAT
62309415 TGCGCGCCTAGACTTAGGGTGATAAGATTTTTATGGATTAGGGTAAAACCTAATAAGGGGATCCA
131 TGCGCGCCTAGACTTAGGGTGATAAGATTTTTATGGATTAGGGTAAAACCTAATAAGGGGATCCA
62309480 TAGATCGAGTTAATACAACTCTAGGGTGTTAATTAGAGAAAGGTCTCAATT
196 TAGATCGAGTTAATACAACTCTAGGGTGTTAATTAGAGAAAGGTCTCAATT
62309531 ATTTGTTCTTAATTATGTGTTCTTAATTCATGTTTTGATATCCCAGGATACTAATTCAAGATAAG
1 ATTTGTTCTTAATTATGTGTTCTTAATTCATGTTTTGATATCCCAGGATACTAATTCAAGATAAG
62309596 CTCTTATTCAGAAGAGGAATAGACCCTGTCTAAAAGTACATTTGTCATAATTACGCGGAGTTGAT
66 CTCTTATTCAGAAGAGGAATAGACCCTGTCTAAAAGTACATTTGTCATAATTACGCGGAGTTGAT
62309661 TGCGCGCCTAGACTTAGGGTGATAAGATTTTTATGGATTAGGGTAAAACCTAATAAGGGGATCCA
131 TGCGCGCCTAGACTTAGGGTGATAAGATTTTTATGGATTAGGGTAAAACCTAATAAGGGGATCCA
62309726 TAGATCGAGTTAATACAACTCTAGGGTGTTAATTAGAGAAAGGTCTCAATT
196 TAGATCGAGTTAATACAACTCTAGGGTGTTAATTAGAGAAAGGTCTCAATT
62309777 ATT
1 ATT
62309780 CAATCTAGGG
Statistics
Matches: 249, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
246 249 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (246 bp):
ATTTGTTCTTAATTATGTGTTCTTAATTCATGTTTTGATATCCCAGGATACTAATTCAAGATAAG
CTCTTATTCAGAAGAGGAATAGACCCTGTCTAAAAGTACATTTGTCATAATTACGCGGAGTTGAT
TGCGCGCCTAGACTTAGGGTGATAAGATTTTTATGGATTAGGGTAAAACCTAATAAGGGGATCCA
TAGATCGAGTTAATACAACTCTAGGGTGTTAATTAGAGAAAGGTCTCAATT
Found at i:62312985 original size:21 final size:21
Alignment explanation
Indices: 62312961--62313002 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
62312951 AAAACCATAT
62312961 TTTGATGAGATTAATAGCAGG
1 TTTGATGAGATTAATAGCAGG
62312982 TTTGATGAGATTAATAGCAGG
1 TTTGATGAGATTAATAGCAGG
62313003 AATGAGGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (21 bp):
TTTGATGAGATTAATAGCAGG
Found at i:62318930 original size:30 final size:29
Alignment explanation
Indices: 62318890--62318953 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
62318880 TGATGGTGAA
62318890 TTTTTTGACCCAACACTCACTTGGCGAAT
1 TTTTTTGACCCAACACTCACTTGGCGAAT
*
62318919 TTTTATTGACCCAACACTCACTTGGTGAAT
1 TTTT-TTGACCCAACACTCACTTGGCGAAT
62318949 TTTTT
1 TTTTT
62318954 GGAATTTTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 5 0.15
30 28 0.85
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.41
Consensus pattern (29 bp):
TTTTTTGACCCAACACTCACTTGGCGAAT
Found at i:62325608 original size:73 final size:74
Alignment explanation
Indices: 62325523--62325660 Score: 244
Period size: 73 Copynumber: 1.9 Consensus size: 74
62325513 TGGAAAGCAA
62325523 AAATTGAAATTACCTCAACGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT
1 AAATTGAAATTACCTCAACGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
62325586 TGACAAACAG
65 TGACAAACAG
*
62325596 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
62325661 TTGAAAAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
73 53 0.85
74 9 0.15
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (74 bp):
AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
GACAAACAG
Found at i:62325659 original size:163 final size:164
Alignment explanation
Indices: 62325387--62325831 Score: 664
Period size: 163 Copynumber: 2.7 Consensus size: 164
62325377 NNNNNNNNNN
** *
62325387 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAC-AACAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGACAAACAGAAATTGAAATTACCTCAG
* *
62325451 CGTGTCCTGAGGCTCAACTCACCTGTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGG
64 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGA
*
62325516 AAAGCAAAAATTGAAATTACCTCAACGTGCCTCGAG
129 AAAGCAAAAATTAAAATTACCTCAACGTGCCTCGAG
62325552 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCAGCG
*
62325616 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAA
66 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAA
* *
62325681 AGCAGAAATTAAAATTACCTCAACGTGCCTTGAG
131 AGCAAAAATTAAAATTACCTCAACGTGCCTCGAG
* * * *
62325715 GCTCAACTTACCCCTCGCAGTATGAGTTGATTTTTTTTGA-AAAGCAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGACAAA-CAGAAATTGAAATTACCTCA
** * *
62325779 ATGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTG-ATTTTTTTGAAA
63 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAA
62325832 TAGAAATAAA
Statistics
Matches: 258, Mismatches: 17, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
162 7 0.03
163 145 0.56
165 43 0.17
166 63 0.24
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (164 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACCTCAGCG
TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAA
AGCAAAAATTAAAATTACCTCAACGTGCCTCGAG
Found at i:62325715 original size:90 final size:90
Alignment explanation
Indices: 62325593--62325757 Score: 260
Period size: 90 Copynumber: 1.8 Consensus size: 90
62325583 TTTTGACAAA
* * *
62325593 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 CAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCCCTCGCAATATGAGTTGAATT
62325658 TTTTTGAAAAATATAAATTTAAAAG
66 TTTTTGAAAAATATAAATTTAAAAG
* * *
62325683 CAGAAATTAAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCCCTCGCAGTATGAGTTGATT
1 CAGAAATTAAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCCCTCGCAATATGAGTTGAAT
62325747 TTTTTTGAAAA
65 TTTTTTGAAAA
62325758 GCAGAAATTG
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
89 2 0.03
90 66 0.97
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (90 bp):
CAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCCCTCGCAATATGAGTTGAATT
TTTTTGAAAAATATAAATTTAAAAG
Found at i:62325766 original size:90 final size:90
Alignment explanation
Indices: 62325585--62325771 Score: 252
Period size: 90 Copynumber: 2.1 Consensus size: 90
62325575 GAGTTGATTT
* * *
62325585 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGA-AAAGCAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCCCTCGCAATATG
* *
62325649 AGTTGAATTTTTTTGAAAAATATAAA
65 AGTTGAATTTTTTTGAAAAACAGAAA
* * *
62325675 TTTAAAAGCAGAAATTAAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCCCTCGCAGTATG
1 TTGAAAAGCAGAAATTAAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCCCTCGCAATATG
* *
62325739 AGTTGATTTTTTTTGAAAAGCAGAAA
65 AGTTGAATTTTTTTGAAAAACAGAAA
62325765 TTGAAAA
1 TTGAAAA
62325772 TACCTCAATG
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
89 5 0.06
90 79 0.94
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (90 bp):
TTGAAAAGCAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCCCTCGCAATATGA
GTTGAATTTTTTTGAAAAACAGAAA
Found at i:62325776 original size:76 final size:75
Alignment explanation
Indices: 62325678--62325831 Score: 229
Period size: 76 Copynumber: 2.0 Consensus size: 75
62325668 ATATAAATTT
* * *
62325678 AAAAGCAGAAATTAAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCCCTCGCAGTATGAGTT
1 AAAAGCAGAAATTAAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCCCTCACAATATGAGTT
62325743 GATTTTTTTTG
66 GA-TTTTTTTG
* * *
62325754 AAAAGCAGAAATTGAAAA-TACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGT
1 AAAAGCAGAAATT-AAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCCCTCACAATATGAGT
62325818 TGATTTTTTTG
65 TGATTTTTTTG
62325829 AAA
1 AAA
62325832 TAGAAATAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
75 11 0.15
76 56 0.79
77 4 0.06
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (75 bp):
AAAAGCAGAAATTAAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCCCTCACAATATGAGTT
GATTTTTTTG
Found at i:62335605 original size:17 final size:18
Alignment explanation
Indices: 62335580--62335625 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
62335570 CGAGATTTTT
62335580 TTTTGAAAACA-CGAAAA
1 TTTTGAAAACACCGAAAA
* *
62335597 TTTTCAAAACACCGAAAT
1 TTTTGAAAACACCGAAAA
62335615 TTTTGAAAACA
1 TTTTGAAAACA
62335626 AGAGGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (18 bp):
TTTTGAAAACACCGAAAA
Found at i:62335607 original size:38 final size:37
Alignment explanation
Indices: 62335491--62335618 Score: 104
Period size: 38 Copynumber: 3.4 Consensus size: 37
62335481 GATCCGATTG
* *
62335491 AAACACGAGAATTTCTTGTTTTGAACACACGAGAATTTTA
1 AAACACGAG-ATTT-TT-TTTTGAAAACACGAAAATTTTA
* * *
62335531 AGACA-TA-ATATTTTTTTT-AAAAC-C-AAAATTTATG
1 AAACACGAGAT-TTTTTTTTGAAAACACGAAAATTT-TA
62335565 AAACACGAGATTTTTTTTTGAAAACACGAAAATTTTCA
1 AAACACGAGATTTTTTTTTGAAAACACGAAAATTTT-A
*
62335603 AAACACCGAAATTTTT
1 AAACA-CGAGATTTTT
62335619 GAAAACAAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
33 6 0.09
34 6 0.09
35 13 0.19
36 11 0.16
37 6 0.09
38 14 0.20
39 10 0.14
40 4 0.06
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.35
Consensus pattern (37 bp):
AAACACGAGATTTTTTTTTGAAAACACGAAAATTTTA
Found at i:62347016 original size:95 final size:94
Alignment explanation
Indices: 62346851--62347041 Score: 364
Period size: 95 Copynumber: 2.0 Consensus size: 94
62346841 ACCTCCACAT
62346851 CTCATCGCCAGTCCCACATCGCGAACCATCCAGCGATGAAGATGTTTAGAAATATTTATTTATTA
1 CTCATCGCCAGTCCCACATCGCGAACCATCCAGCGATGAAGATGTTTAGAAATATTTATTTATTA
*
62346916 TTTTATGTTTTTAATTTTTATTGAAACTA
66 TTTTATATTTTTAATTTTTATTGAAACTA
62346945 CTNCATCGCCAGTCCCACATCGCGAACCATCCAGCGATGAAGATGTTTAGAAATATTTATTTATT
1 CT-CATCGCCAGTCCCACATCGCGAACCATCCAGCGATGAAGATGTTTAGAAATATTTATTTATT
62347010 ATTTTATATTTTTAATTTTTATTGAAACTA
65 ATTTTATATTTTTAATTTTTATTGAAACTA
62347040 CT
1 CT
62347042 TTTTATTTTT
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
94 2 0.02
95 93 0.98
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (94 bp):
CTCATCGCCAGTCCCACATCGCGAACCATCCAGCGATGAAGATGTTTAGAAATATTTATTTATTA
TTTTATATTTTTAATTTTTATTGAAACTA
Found at i:62350768 original size:16 final size:16
Alignment explanation
Indices: 62350747--62350786 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
62350737 CTCCCTAAAT
62350747 ACCTAAGAGAGATGAA
1 ACCTAAGAGAGATGAA
62350763 ACCTAAGAGAGATGAA
1 ACCTAAGAGAGATGAA
62350779 ACCTAAGA
1 ACCTAAGA
62350787 CGAATGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.15, G:0.23, T:0.12
Consensus pattern (16 bp):
ACCTAAGAGAGATGAA
Found at i:62352978 original size:8 final size:8
Alignment explanation
Indices: 62352965--62352995 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
62352955 TTGTTTTAAT
62352965 TATAATAA
1 TATAATAA
62352973 TATAATAA
1 TATAATAA
62352981 TATAATAA
1 TATAATAA
62352989 TA-AATAA
1 TATAATAA
62352996 ATGTATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.22
8 18 0.78
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TATAATAA
Found at i:62353123 original size:15 final size:15
Alignment explanation
Indices: 62353103--62353133 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
62353093 CACTTTTCTC
62353103 TAATCTATAATTCAA
1 TAATCTATAATTCAA
62353118 TAATCTATAATTCAA
1 TAATCTATAATTCAA
62353133 T
1 T
62353134 TTTTACTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATCTATAATTCAA
Found at i:62361243 original size:35 final size:35
Alignment explanation
Indices: 62361191--62361353 Score: 220
Period size: 35 Copynumber: 4.7 Consensus size: 35
62361181 TTTCCTCATT
* *
62361191 GAATTGCCATACCTACATTTCACAACTCAGTATGG
1 GAATTGCCATACCTACGTTTCACAACTCGGTATGG
* * * *
62361226 GAAATACCATACCTACATTTCACAACTTGGTATGG
1 GAATTGCCATACCTACGTTTCACAACTCGGTATGG
*
62361261 GAATTGCCACACCTA-GTTTCACAACTCGGTATGG
1 GAATTGCCATACCTACGTTTCACAACTCGGTATGG
* * **
62361295 GAATTGCCACACTTGTGTTTCACAACTCGGTATGG
1 GAATTGCCATACCTACGTTTCACAACTCGGTATGG
62361330 GAATTGCCATACCTACGTTTCACA
1 GAATTGCCATACCTACGTTTCACA
62361354 CTTTTCCATG
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
34 30 0.27
35 82 0.73
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (35 bp):
GAATTGCCATACCTACGTTTCACAACTCGGTATGG
Found at i:62361316 original size:69 final size:70
Alignment explanation
Indices: 62361191--62361353 Score: 220
Period size: 69 Copynumber: 2.3 Consensus size: 70
62361181 TTTCCTCATT
* * *
62361191 GAATTGCCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACTTGG
1 GAATTGCCATACCTACGTTTCACAACTCAGTATGGGAAATACCACACCTACATTTCACAACTCGG
62361256 TATGG
66 TATGG
* * * * * ***
62361261 GAATTGCCACACCTA-GTTTCACAACTCGGTATGGGAATTGCCACACTTGTGTTTCACAACTCGG
1 GAATTGCCATACCTACGTTTCACAACTCAGTATGGGAAATACCACACCTACATTTCACAACTCGG
62361325 TATGG
66 TATGG
62361330 GAATTGCCATACCTACGTTTCACA
1 GAATTGCCATACCTACGTTTCACA
62361354 CTTTTCCATG
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
69 58 0.73
70 22 0.28
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (70 bp):
GAATTGCCATACCTACGTTTCACAACTCAGTATGGGAAATACCACACCTACATTTCACAACTCGG
TATGG
Found at i:62362279 original size:21 final size:21
Alignment explanation
Indices: 62362255--62362296 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
62362245 CTTCAAATAC
62362255 ATGTTAAT-TCAGCATAAAAAA
1 ATGTT-ATCTCAGCATAAAAAA
*
62362276 ATGTTATCTCATCATAAAAAA
1 ATGTTATCTCAGCATAAAAAA
62362297 CCAACACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (21 bp):
ATGTTATCTCAGCATAAAAAA
Found at i:62364087 original size:433 final size:433
Alignment explanation
Indices: 62363276--62364138 Score: 1232
Period size: 433 Copynumber: 2.0 Consensus size: 433
62363266 TAATCGGAAC
* * * *
62363276 GAATTAGATAATAGTGTCTGGTCACCCATTAGGGTTGAACCTACATAACAAATAGCCTGGCCAGG
1 GAATCAGATAATAGTGTCTGGTCACCCATTAGGGTTGAACCTACACAACAAATAGCCTGGCAAAG
* * * * * *
62363341 GCTTAATAAACCTATATTGTCGAGTCTACAACATATGTTGGAGCTCGAAACATGTGGGCAATAAT
66 GCTTAATAAACCTATATTCTCGAGTCTACAACACATGCTGAAGCTCGAAACATGCGGGCAATAAC
* *
62363406 CTGTAACCTCGTATACAAGACTTTTACTAATTTCGTCAGGATTTATCTCACATTATAACATAATT
131 CCGTAACCTCGTATACAAGACTTTTACTAATTTCATCAGGATTTATCTCACATTATAACATAATT
62363471 CCAATCACCAACAATCACCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATTAT
196 CCAATCACCAACAATCACCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATTAT
* ** * *
62363536 ATTGTATGAGTTTACATGAAAAAACTGTAGCCGTTTAGCTAATAAGGAATAGTCGACAATTTTTC
261 ACTGTATGAACTTACATGAAAAAACTATAGCCGTTTAACTAATAAGGAATAGTCGACAATTTTTC
* * ** *
62363601 CTTTTCCTCATACATCATTTTATTGTTGAAATTCTTAATCTAAATCATAATTTGTCTCAATTAAC
326 CTTTTCCTCATACATCATCTGATAATTAAAATTCTTAATCTAAATCATAATTTGTCTCAATTAAC
62363666 TAATCCAATTATCATTTAACAACATATAGAAATCATACTACAT
391 TAATCCAATTATCATTTAACAACATATAGAAATCATACTACAT
* * * *
62363709 GAATCAGATAATAGTGTCTGGTTATCCGTTAGGGTTGAACCTACACAACAAATAGCTTGGCAAAG
1 GAATCAGATAATAGTGTCTGGTCACCCATTAGGGTTGAACCTACACAACAAATAGCCTGGCAAAG
* * *
62363774 GCTTAATAAACCTGTATTC-CTGAGT-TCACAACACATGCTGAAGCTCGGAACTTGCGGGCAATA
66 GCTTAATAAACCTATATTCTC-GAGTCT-ACAACACATGCTGAAGCTCGAAACATGCGGGCAATA
* * *
62363837 GCCCGTAACCTTGTATACAAGACTTTTACTAATTTCATCGGGATTTATCTCACATTATAACATAA
129 ACCCGTAACCTCGTATACAAGACTTTTACTAATTTCATCAGGATTTATCTCACATTATAACATAA
* *
62363902 TTCTAATCACCAACAATCATCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATT
194 TTCCAATCACCAACAATCACCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATT
* * * * * *
62363967 ATACTGTATGAACTTACTTGACAAAA-TCATAGCGGTTTAACTAAT-AGTAACTAGTTGGCAATT
259 ATACTGTATGAACTTACATGAAAAAACT-ATAGCCGTTTAACTAATAAGGAA-TAGTCGACAATT
* * * * *
62364030 TTTCCTTTTCCTCGA-ACGTCCTCTGGTAATTAAAATTCTTGATCTAAGTCATAATTTGTCTCAA
322 TTTCCTTTTCCTC-ATACATCATCTGATAATTAAAATTCTTAATCTAAATCATAATTTGTCTCAA
*
62364094 TTAACTAATCCAATTATCATTTAACAACTTATAGAAATCATACTA
386 TTAACTAATCCAATTATCATTTAACAACATATAGAAATCATACTA
62364139 TATCTCAATT
Statistics
Matches: 379, Mismatches: 46, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
432 7 0.02
433 371 0.98
434 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (433 bp):
GAATCAGATAATAGTGTCTGGTCACCCATTAGGGTTGAACCTACACAACAAATAGCCTGGCAAAG
GCTTAATAAACCTATATTCTCGAGTCTACAACACATGCTGAAGCTCGAAACATGCGGGCAATAAC
CCGTAACCTCGTATACAAGACTTTTACTAATTTCATCAGGATTTATCTCACATTATAACATAATT
CCAATCACCAACAATCACCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATTAT
ACTGTATGAACTTACATGAAAAAACTATAGCCGTTTAACTAATAAGGAATAGTCGACAATTTTTC
CTTTTCCTCATACATCATCTGATAATTAAAATTCTTAATCTAAATCATAATTTGTCTCAATTAAC
TAATCCAATTATCATTTAACAACATATAGAAATCATACTACAT
Found at i:62366005 original size:2 final size:2
Alignment explanation
Indices: 62365993--62366035 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
62365983 ATGTTTAATC
62365993 CT CT C- CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
62366034 CT
1 CT
62366036 TAAGATAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:62377008 original size:12 final size:12
Alignment explanation
Indices: 62376991--62377022 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
62376981 ACCCCCTAAC
62376991 CAAGCCTCACTA
1 CAAGCCTCACTA
62377003 CAAGCCTCACTA
1 CAAGCCTCACTA
*
62377015 CAACCCTC
1 CAAGCCTC
62377023 TAAAGACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.47, G:0.06, T:0.16
Consensus pattern (12 bp):
CAAGCCTCACTA
Found at i:62387579 original size:29 final size:29
Alignment explanation
Indices: 62387544--62387600 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
62387534 AAAATATAAT
* *
62387544 TTTTAAAAGATTAAATTAAAATTTTATCA
1 TTTTAAAAGATCAAAGTAAAATTTTATCA
* *
62387573 TTTTAAAAGGTCAAAGTATAATTTTATC
1 TTTTAAAAGATCAAAGTAAAATTTTATC
62387601 TTTATTAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (29 bp):
TTTTAAAAGATCAAAGTAAAATTTTATCA
Found at i:62402660 original size:21 final size:22
Alignment explanation
Indices: 62402631--62402677 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
62402621 CAGAAGGAGT
*
62402631 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
62402653 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
62402674 GAGT
1 GAGT
62402678 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:62403608 original size:19 final size:17
Alignment explanation
Indices: 62403567--62403612 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
62403557 TTTTAATAAA
*
62403567 TTATATATTTTTATATT
1 TTATATATTTTTAAATT
*
62403584 TAATATATTTTCTAAATTT
1 TTATATATTTT-TAAA-TT
62403603 TTATATATTT
1 TTATATATTT
62403613 AATTATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.42
18 3 0.12
19 11 0.46
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATATTTTTAAATT
Found at i:62403858 original size:46 final size:46
Alignment explanation
Indices: 62403791--62403883 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
62403781 TTGGTCACAA
62403791 TATGCCTAACGGTACTTTTTCATTGGCTGAATCTACTCAACGGTTT
1 TATGCCTAACGGTACTTTTTCATTGGCTGAATCTACTCAACGGTTT
*
62403837 TATGCCTAATGGTACTTTTTCATTGGCTGAATCTACTCAACGGTTT
1 TATGCCTAACGGTACTTTTTCATTGGCTGAATCTACTCAACGGTTT
62403883 T
1 T
62403884 TTCTTAATGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (46 bp):
TATGCCTAACGGTACTTTTTCATTGGCTGAATCTACTCAACGGTTT
Found at i:62405671 original size:22 final size:22
Alignment explanation
Indices: 62405643--62405693 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
62405633 TAATAGGAAA
62405643 ATGATAAATTATATTTCTTC-TC
1 ATGATAAATTA-ATTTCTTCATC
*
62405665 ATGAT-AATTAATTTTTTCATC
1 ATGATAAATTAATTTCTTCATC
*
62405686 CTGATAAA
1 ATGATAAA
62405694 ATTTAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 7 0.28
21 11 0.44
22 7 0.28
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (22 bp):
ATGATAAATTAATTTCTTCATC
Found at i:62405891 original size:12 final size:12
Alignment explanation
Indices: 62405874--62405903 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
62405864 TTGTTATATT
62405874 TTTAACATTATA
1 TTTAACATTATA
62405886 TTTAACATTATA
1 TTTAACATTATA
62405898 TGTTAA
1 T-TTAA
62405904 ATATTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (12 bp):
TTTAACATTATA
Found at i:62409241 original size:17 final size:17
Alignment explanation
Indices: 62409219--62409253 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
62409209 TAATGGAATT
62409219 ATAAATTATGAGATATA
1 ATAAATTATGAGATATA
* *
62409236 ATAAATTTTGTGATATA
1 ATAAATTATGAGATATA
62409253 A
1 A
62409254 GGTCAGAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (17 bp):
ATAAATTATGAGATATA
Found at i:62412620 original size:24 final size:24
Alignment explanation
Indices: 62412558--62412628 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
62412548 TGTAAACAGA
* * * *
62412558 AAGCTCATGTGAGCTATGTAACCGG
1 AAGCTCATATGAGCCA-ATAACGGG
* *
62412583 AAGCTCCAGA-GAGCCACTAACGGG
1 AAGCT-CATATGAGCCAATAACGGG
62412607 AAGCTCATATGAGCCAATAACG
1 AAGCTCATATGAGCCAATAACG
62412629 AGAATGTTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 3 0.08
24 22 0.59
25 10 0.27
26 2 0.05
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (24 bp):
AAGCTCATATGAGCCAATAACGGG
Found at i:62413701 original size:33 final size:33
Alignment explanation
Indices: 62413659--62413725 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
62413649 CCCTACTGAG
* *
62413659 TACATGTTAAGCGTGCCT-ACTGCTAGTGTTGAA
1 TACATGTTAAGCATG-CTGACTGCTAATGTTGAA
*
62413692 TACATGTTAAGCATGTTGACTGCTAATGTTGAA
1 TACATGTTAAGCATGCTGACTGCTAATGTTGAA
62413725 T
1 T
62413726 TGTTCTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (33 bp):
TACATGTTAAGCATGCTGACTGCTAATGTTGAA
Found at i:62416424 original size:11 final size:11
Alignment explanation
Indices: 62416408--62416432 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62416398 TTCAGCTGAT
62416408 GAAAATGAAGA
1 GAAAATGAAGA
62416419 GAAAATGAAGA
1 GAAAATGAAGA
62416430 GAA
1 GAA
62416433 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:62418429 original size:15 final size:17
Alignment explanation
Indices: 62418405--62418438 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
62418395 ATTATTTACG
62418405 TAGATAAATTTTA-AAA
1 TAGATAAATTTTATAAA
62418421 TAGAT-AATTTTATAAA
1 TAGATAAATTTTATAAA
62418437 TA
1 TA
62418439 ATTAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
TAGATAAATTTTATAAA
Found at i:62419733 original size:15 final size:16
Alignment explanation
Indices: 62419694--62419743 Score: 57
Period size: 15 Copynumber: 3.0 Consensus size: 16
62419684 TTAAGTATGG
62419694 TAAAAAATAAGAAATTA
1 TAAAAAATAA-AAATTA
*
62419711 TAATAAAATAAATATT-
1 TAA-AAAATAAAAATTA
62419727 TAAAAAATAAAACATTA
1 TAAAAAATAAAA-ATTA
62419744 GAAATATGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 8 0.29
16 6 0.21
17 7 0.25
18 7 0.25
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (16 bp):
TAAAAAATAAAAATTA
Found at i:62429089 original size:26 final size:27
Alignment explanation
Indices: 62429060--62429120 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
62429050 ATCCTCTCTC
62429060 GAGCCATATAAT-AAGAAGCTCACAAA
1 GAGCCATATAATCAAGAAGCTCACAAA
** *
62429086 GAGCCAT-TAATCGGGAAGCTCACAGA
1 GAGCCATATAATCAAGAAGCTCACAAA
*
62429112 GAACCATAT
1 GAGCCATAT
62429121 CGGGAAGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.14
26 24 0.83
27 1 0.03
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (27 bp):
GAGCCATATAATCAAGAAGCTCACAAA
Found at i:62429122 original size:24 final size:26
Alignment explanation
Indices: 62429074--62429129 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
62429064 CATATAATAA
*
62429074 GAAGCTCACAAAGAGCCATTAATCGG
1 GAAGCTCACAAAGAACCATTAATCGG
*
62429100 GAAGCTCACAGAGAACCA-T-ATCGG
1 GAAGCTCACAAAGAACCATTAATCGG
62429124 GAAGCT
1 GAAGCT
62429130 TATTCGGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 11 0.39
25 1 0.04
26 16 0.57
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (26 bp):
GAAGCTCACAAAGAACCATTAATCGG
Found at i:62429216 original size:24 final size:23
Alignment explanation
Indices: 62429188--62429250 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 23
62429178 TCACAAAGAA
*
62429188 CCATATCGGGAAGCTCATAGATAG
1 CCATATCGGGAAGCTC-CAGATAG
*
62429212 CCATATAACGGGAAGCTCCGGATAG
1 CCATAT--CGGGAAGCTCCAGATAG
62429237 CCAATATCGGGAAG
1 CC-ATATCGGGAAG
62429251 TTTAAACAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 13 0.38
25 7 0.21
26 14 0.41
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.17
Consensus pattern (23 bp):
CCATATCGGGAAGCTCCAGATAG
Found at i:62429225 original size:26 final size:24
Alignment explanation
Indices: 62429194--62429250 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
62429184 AGAACCATAT
*
62429194 CGGGAAGCTCATAGATAGCCATATAA
1 CGGGAAGCTC-CAGATAGCCA-ATAA
* *
62429220 CGGGAAGCTCCGGATAGCCAATAT
1 CGGGAAGCTCCAGATAGCCAATAA
62429244 CGGGAAG
1 CGGGAAG
62429251 TTTAAACAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 10 0.36
25 8 0.29
26 10 0.36
ACGTcount: A:0.33, C:0.21, G:0.30, T:0.16
Consensus pattern (24 bp):
CGGGAAGCTCCAGATAGCCAATAA
Found at i:62429252 original size:74 final size:73
Alignment explanation
Indices: 62429060--62429252 Score: 174
Period size: 74 Copynumber: 2.6 Consensus size: 73
62429050 ATCCTCTCTC
*** * * *
62429060 GAGCCATATAATAAGAAGCTCACAAAGAGCCATTAATCGGGAAGCTCACAGAGAACCATATCGGG
1 GAGCCATATAACGGGAAGCTCAGAAA-AGCCA-TAATCGGGAAGTTCACAAAGAACCATATCGGG
* *
62429125 AAGCTTATTC
64 AAGCTCATTA
* * * * **
62429135 GGGCTATATAACGGGAAGCTCATAAAAGCCATAATTGATAAGTTCACAAAGAACCATATCGGGAA
1 GAGCCATATAACGGGAAGCTCAGAAAAGCCATAATCGGGAAGTTCACAAAGAACCATATCGGGAA
62429200 GCTCA-TA
66 GCTCATTA
* * *
62429207 GATAGCCATATAACGGGAAGCTCCGGATAGCCA-ATATCGGGAAGTT
1 G--AGCCATATAACGGGAAGCTCAGAAAAGCCATA-ATCGGGAAGTT
62429253 TAAACAAGCA
Statistics
Matches: 93, Mismatches: 22, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
72 2 0.02
73 34 0.37
74 37 0.40
75 20 0.22
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (73 bp):
GAGCCATATAACGGGAAGCTCAGAAAAGCCATAATCGGGAAGTTCACAAAGAACCATATCGGGAA
GCTCATTA
Found at i:62432854 original size:20 final size:19
Alignment explanation
Indices: 62432825--62432883 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
62432815 AAAATTACAA
*
62432825 AAAAAATCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
62432844 CAAAAATTCAAAATATTTAT
1 -AAAAATTCAAAATATTTAT
62432864 AAAAATTCAAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
62432882 AA
1 AA
62432884 TAGTTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 8 0.22
19 16 0.43
20 13 0.35
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:62432872 original size:27 final size:27
Alignment explanation
Indices: 62432842--62432895 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
62432832 CAAAATAATT
62432842 TTCAAAAATTCAAAATA-TTTATAAAAA
1 TTCAAAAATTCAAAATAGTTT-TAAAAA
* *
62432869 TTCAAAAATTTATAATAGTTTTAAAAA
1 TTCAAAAATTCAAAATAGTTTTAAAAA
62432896 AAATTCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (27 bp):
TTCAAAAATTCAAAATAGTTTTAAAAA
Found at i:62447336 original size:24 final size:25
Alignment explanation
Indices: 62447304--62447376 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
62447294 AGAAAAATGA
*
62447304 AAAATTAAAGGTTAAAAGGTTAAAG
1 AAAATAAAAGGTTAAAAGGTTAAAG
*
62447329 AAAATAAAAGG-TGAAAGGTT-AAG
1 AAAATAAAAGGTTAAAAGGTTAAAG
* * *
62447352 AGAGATGAAAGGTTTAAAGGTTAAA
1 A-AAATAAAAGGTTAAAAGGTTAAA
62447377 CATCTACTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.10
24 16 0.40
25 18 0.45
26 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (25 bp):
AAAATAAAAGGTTAAAAGGTTAAAG
Found at i:62447588 original size:22 final size:21
Alignment explanation
Indices: 62447559--62447601 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
62447549 ATTGTTAAAA
*
62447559 TAAAAAATTAA-AATACAAATT
1 TAAAAAATGAAGAA-ACAAATT
62447580 TAAAGAAATGAAGAAACAAATT
1 TAAA-AAATGAAGAAACAAATT
62447602 AGAGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 13 0.68
23 2 0.11
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (21 bp):
TAAAAAATGAAGAAACAAATT
Found at i:62453092 original size:18 final size:19
Alignment explanation
Indices: 62453048--62453095 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
62453038 TATCATATGC
* *
62453048 AATAAAATTTTTAAATATT
1 AATAAAATTATTAAATATA
*
62453067 AAT-TAATTATTAAATA-A
1 AATAAAATTATTAAATATA
62453084 AATAAAATTATT
1 AATAAAATTATT
62453096 CTTAGATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATAAAATTATTAAATATA
Found at i:62466531 original size:16 final size:16
Alignment explanation
Indices: 62466510--62466566 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
62466500 TTTGGTTCGC
*
62466510 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
62466526 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
62466542 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
62466558 TGTAATGGA
1 TGTAATGGA
62466567 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:62466833 original size:18 final size:17
Alignment explanation
Indices: 62466812--62466846 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62466802 TTATTATTAA
*
62466812 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62466830 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62466847 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62466854 original size:79 final size:79
Alignment explanation
Indices: 62466771--62467014 Score: 220
Period size: 79 Copynumber: 3.1 Consensus size: 79
62466761 TTATTATCAA
62466771 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
1 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
62466836 TTTAATAAAATTCT
66 TTTAATAAAATTCT
* * * * **** * * *
62466850 TAATAATTAGCA-TAAAT-TTGTTTTGGTA-AATTATTATT--GT-TATTGTT-ATTTAAAT-TT
1 TAATAAATA--ATTTAATCATATTTAAACATAATTATTATTAAATATATT-TTAATTAAAATATA
* * *
62466907 TAA--TAAGATTAATATCAA
63 TAATTTAATA-AAAT-TC-T
*
62466925 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
1 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
62466990 TTTAATAAAATTCT
66 TTTAATAAAATTCT
*
62467004 TAATAATTAAT
1 TAATAAATAAT
62467015 ATTCTTATAT
Statistics
Matches: 119, Mismatches: 30, Indels: 32
0.66 0.17 0.18
Matches are distributed among these distances:
72 4 0.03
73 4 0.03
74 10 0.08
75 24 0.20
76 13 0.11
78 12 0.10
79 34 0.29
80 10 0.08
81 4 0.03
82 4 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (79 bp):
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
TTTAATAAAATTCT
Found at i:62466983 original size:16 final size:16
Alignment explanation
Indices: 62466946--62466987 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
62466936 TTAATCATAT
*
62466946 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
62466962 TT-AAATATATTATAA
1 TTAAAATATATTATAA
62466977 TTAAAATATAT
1 TTAAAATATAT
62466988 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:62466985 original size:154 final size:156
Alignment explanation
Indices: 62466699--62467012 Score: 578
Period size: 154 Copynumber: 2.0 Consensus size: 156
62466689 TAGAATACCC
62466699 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
62466764 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
62466829 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
62466856 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
62466919 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
62466984 ATATAATTTAATAAAATTCTTAATAA
131 ATATAATTTAATAAAATTCTTAATAA
62467010 TTA
1 TTA
62467013 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 93 0.60
155 1 0.01
157 60 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:62466994 original size:14 final size:15
Alignment explanation
Indices: 62466955--62466996 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62466945 TTTAAACATA
*
62466955 ATTATTATTAAATAT
1 ATTATAATTAAATAT
62466970 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
62466984 A-TATAATTTAATA
1 ATTATAATTAAATA
62466997 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:62467063 original size:17 final size:16
Alignment explanation
Indices: 62467041--62467087 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
62467031 ACTCAAATCA
62467041 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
62467058 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
62467072 TAAATATATGATTTAA
1 T-AATATATGATTTAA
62467088 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:62467088 original size:17 final size:17
Alignment explanation
Indices: 62467060--62467093 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62467050 ATTATAACTA
*
62467060 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
62467077 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
62467094 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:62467236 original size:93 final size:92
Alignment explanation
Indices: 62467126--62467320 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
62467116 GATTATAGTT
* * *
62467126 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
62467189 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
62467219 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
62467284 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
62467311 TATGAATTTA
1 TATGAATTTA
62467321 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:62468920 original size:34 final size:34
Alignment explanation
Indices: 62468882--62468949 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
62468872 TCTGAAATTC
62468882 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
62468916 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
1 AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
62468950 CTACATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (34 bp):
AATCTCGATCTGCTTTGGGCAAAACCCAAATGTT
Found at i:62469222 original size:78 final size:78
Alignment explanation
Indices: 62469093--62469249 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
62469083 TATTAGTCAA
* * *
62469093 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
* *
62469158 GGCAGCGACACTC
66 GACAGCAACACTC
** * * * *
62469171 GGGGTTAATGAGGACTGAATTCGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAA
1 GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
62469236 GACAGCAACACTC
66 GACAGCAACACTC
62469249 G
1 G
62469250 AAACTTGCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (78 bp):
GGGGTTAACAAGGACTGAATTCGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAA
GACAGCAACACTC
Found at i:62472879 original size:6 final size:6
Alignment explanation
Indices: 62472868--62472897 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
62472858 GCTTTTTTGT
62472868 TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC
1 TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC
62472898 CATCCTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
TTCCCC
Found at i:62477751 original size:39 final size:38
Alignment explanation
Indices: 62477623--62477774 Score: 126
Period size: 39 Copynumber: 3.8 Consensus size: 38
62477613 AGCGGCGCTT
**
62477623 TTAGCGGCGATTGGACAACAAACGCCGCTAAAAATTAAGCA
1 TTAGCGGCGATTTTACAA-AAACGCCGCT-AAAA-TAAGCA
* * * * *
62477664 TTAGCGGCGATTTAAAAAAAAATGCCGCTAAATATCAGTA
1 TTAGCGGCGATTT-TACAAAAACGCCGCTAAA-ATAAGCA
* * *
62477704 TTACCGGCGCTTTTACAAAAACGCCGCTAATAATGAGCA
1 TTAGCGGCGATTTTACAAAAACGCCGCTAA-AATAAGCA
* *
62477743 TTAGCGGCGTTTCTTA-AAAAGCGCCGCTAAAA
1 TTAGCGGCGATT-TTACAAAAACGCCGCTAAAA
62477775 ACCTAAACCA
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
38 2 0.02
39 42 0.46
40 22 0.24
41 22 0.24
42 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (38 bp):
TTAGCGGCGATTTTACAAAAACGCCGCTAAAATAAGCA
Found at i:62478065 original size:114 final size:114
Alignment explanation
Indices: 62477743--62478069 Score: 415
Period size: 113 Copynumber: 2.9 Consensus size: 114
62477733 ATAATGAGCA
* * * *
62477743 TTAGCGGCGTTTCTTAAAAAGCGCCGCTAAAAACCTAAACCAAACGACGTCGTTTTTCTTAGTTT
1 TTAGCGGCGTTTCTTAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTCTTAGTTT
* * * *
62477808 TCGAGGCTTTGGTGGCGTTTTTGGAGAAGCGCAAG-TAATTCTCAGGGCT
66 TCGAGGCTTTGGTGGCGTTTTTGGAAAAGCGC-CGCTAATGCTCAAGGCT
* * *
62477857 TTAGCAGCGTTTCTTAAAAAGCGCCGCAAAAGACCTAAGCCCAACGACATC-ATTTTCTTAGTTT
1 TTAGCGGCGTTTCTTAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTCTTAGTTT
* * * *
62477921 TCGAGGCTTTGGTGGCGTTTTCGGGAAAGCGCCGCTAATGCTCAATGTT
66 TCGAGGCTTTGGTGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAAGGCT
* * * * *
62477970 TTAGCGGCATTTTTTAAAAATCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTTCTTAGTTT
1 TTAGCGGCGTTTCTTAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTCTTAGTTT
** * *
62478035 GGGAGGCTTTAGTGGCGTTTTTGTAAAAGCGCCGC
66 TCGAGGCTTTGGTGGCGTTTTTGGAAAAGCGCCGC
62478070 AAAAAGCCTA
Statistics
Matches: 182, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
112 1 0.01
113 95 0.52
114 86 0.47
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (114 bp):
TTAGCGGCGTTTCTTAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACATCGTTTTTCTTAGTTT
TCGAGGCTTTGGTGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAAGGCT
Found at i:62478088 original size:73 final size:72
Alignment explanation
Indices: 62477969--62478106 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 72
62477959 TGCTCAATGT
*
62477969 TTTAGCGGCATTTTTTAAAAATCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTTCTTAGTT
1 TTTAGCGGCATTTTTTAAAAAGCGCCACAAAAAACCGAAGCCCAACGACATCG-TTTTCTTAGTT
62478034 TGGGAGGC
65 TGGGAGGC
* * * * *
62478042 TTTAGTGGCGTTTTTGT-AAAAGCGCCGCAAAAAGCCTAAGCCCAACGACATCGTTTTCTTAGTT
1 TTTAGCGGCATTTTT-TAAAAAGCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTCTTAGTT
62478106 T
65 T
62478107 TCGAGTCTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 12 0.21
73 45 0.78
74 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (72 bp):
TTTAGCGGCATTTTTTAAAAAGCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTCTTAGTTT
GGGAGGC
Found at i:62478130 original size:73 final size:73
Alignment explanation
Indices: 62477969--62478130 Score: 184
Period size: 73 Copynumber: 2.2 Consensus size: 73
62477959 TGCTCAATGT
* * *
62477969 TTTAGCGGC-ATTTTTTAAAAATCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTTCTTAGT
1 TTTAGTGGCGATTTTGT-AAAAGCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTTCTTAGT
*
62478033 TTGGGAGGC
65 TTGCGAGGC
* * * *
62478042 TTTAGTGGCGTTTTTGTAAAAGCGCCGCAAAAAGCCTAAGCCCAACGACATCG-TTTTCTTAGTT
1 TTTAGTGGCGATTTTGTAAAAGCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTTCTTAGTT
* *
62478106 TTCGAGTC
66 TGCGAGGC
* *
62478114 TTTGGTTGGGGATTTTG
1 TTTAG-TGGCGATTTTG
62478131 CGGCGTTTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
72 20 0.27
73 49 0.66
74 5 0.07
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (73 bp):
TTTAGTGGCGATTTTGTAAAAGCGCCACAAAAAACCGAAGCCCAACGACATCGTTTTTCTTAGTT
TGCGAGGC
Found at i:62478571 original size:7 final size:7
Alignment explanation
Indices: 62478538--62478711 Score: 51
Period size: 7 Copynumber: 25.1 Consensus size: 7
62478528 TGCAAATTAT
62478538 GGGTTTA
1 GGGTTTA
* *
62478545 GTGATTA
1 GGGTTTA
*
62478552 TGGTTTA
1 GGGTTTA
**
62478559 CAGTTTA
1 GGGTTTA
62478566 GGGTTTA
1 GGGTTTA
* *
62478573 CGAG-TTG
1 -GGGTTTA
62478580 GGGTTTA
1 GGGTTTA
*
62478587 AGGTTTA
1 GGGTTTA
62478594 CGGG-TT-
1 -GGGTTTA
* *
62478600 GGGGTTG
1 GGGTTTA
62478607 GGGTTTA
1 GGGTTTA
*
62478614 AGGTTTA
1 GGGTTTA
*
62478621 CGGG-TTG
1 -GGGTTTA
*
62478628 GGGTTCA
1 GGGTTTA
*
62478635 GGGTCTA
1 GGGTTTA
*
62478642 -GG-CTA
1 GGGTTTA
62478647 -GGTTTA
1 GGGTTTA
*
62478653 GGGATTA
1 GGGTTTA
* *
62478660 TGATTT-
1 GGGTTTA
62478666 GGGTTTA
1 GGGTTTA
62478673 GGGTTTAA
1 GGGTTT-A
62478681 GGGATTTAA
1 GGG-TTT-A
62478690 GGG-TTA
1 GGGTTTA
*
62478696 TGTGTTTA
1 -GGGTTTA
62478704 GGGTTTA
1 GGGTTTA
62478711 G
1 G
62478712 ATTGATTAGT
Statistics
Matches: 120, Mismatches: 33, Indels: 28
0.66 0.18 0.15
Matches are distributed among these distances:
5 8 0.07
6 16 0.13
7 75 0.62
8 13 0.11
9 8 0.07
ACGTcount: A:0.17, C:0.04, G:0.39, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:62478585 original size:21 final size:21
Alignment explanation
Indices: 62478561--62478613 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
62478551 ATGGTTTACA
62478561 GTTTAGGGTTTACGAGTTGGG
1 GTTTAGGGTTTACGAGTTGGG
* *
62478582 GTTTAAGGTTTACGGGTTGGG
1 GTTTAGGGTTTACGAGTTGGG
*
62478603 G-TTGGGGTTTA
1 GTTTAGGGTTTA
62478614 AGGTTTACGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.13, C:0.04, G:0.43, T:0.40
Consensus pattern (21 bp):
GTTTAGGGTTTACGAGTTGGG
Found at i:62478613 original size:27 final size:27
Alignment explanation
Indices: 62478576--62478632 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
62478566 GGGTTTACGA
62478576 GTTGGGGTTTAAGGTTTACGGGTTGGG
1 GTTGGGGTTTAAGGTTTACGGGTTGGG
62478603 GTTGGGGTTTAAGGTTTACGGGTTGGG
1 GTTGGGGTTTAAGGTTTACGGGTTGGG
62478630 GTT
1 GTT
62478633 CAGGGTCTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.11, C:0.04, G:0.47, T:0.39
Consensus pattern (27 bp):
GTTGGGGTTTAAGGTTTACGGGTTGGG
Found at i:62479282 original size:75 final size:74
Alignment explanation
Indices: 62479159--62479304 Score: 177
Period size: 75 Copynumber: 1.9 Consensus size: 74
62479149 ATTTAAAGGA
* * *
62479159 ATTTTGTTTCAATAAAAACGGCAGTGTTCTATAGGATATATTAGTGGCGTTTTGGGTAAAACACC
1 ATTTTGTTTCAATAAAAACGGCA-CGTTCTATAAGATATATTACTGGCGTTTTGGGTAAAACACC
62479224 GCAAAATGTG
65 GCAAAATGTG
* * * * *
62479234 ATTTTGTTTCAATAAAAACGTTGC-CGTTCTGTAAGATTTCTTACTGGCGTTTTTGGTAAAACGC
1 ATTTTGTTTCAATAAAAACG--GCACGTTCTATAAGATATATTACTGGCGTTTTGGGTAAAACAC
*
62479298 CGGAAAA
64 CGCAAAA
62479305 GATCATCCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
75 58 0.97
77 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (74 bp):
ATTTTGTTTCAATAAAAACGGCACGTTCTATAAGATATATTACTGGCGTTTTGGGTAAAACACCG
CAAAATGTG
Found at i:62479499 original size:114 final size:115
Alignment explanation
Indices: 62479244--62479500 Score: 286
Period size: 114 Copynumber: 2.3 Consensus size: 115
62479234 ATTTTGTTTC
* *
62479244 AATAAAAACGTTGCCGTTCTGTAAGATTTCTTACTGGCGTTTTTGGTAAAACGCCGGAAAAGATC
1 AATAAAAACGTTGCCGTTCTGTAGGATTTATTACTGGCGTTTTTGGTAAAACGCCGGAAAAGATC
* * * * * * *
62479309 ATCCTTTAGCGGCGCTATGTCAAAAACGCCGCAAAATGTGATTCTGTTTT
66 AGCCTTTAGCGGCGCTACGTCAAAAACGCCACAAAATGTCAATCGGTTAT
* ** * *
62479359 AAT-AAAACGCTGCCGTGGTGTAGGATTTATTAGTGGCGTTTTTTGTAAAACGCC-GAAAACG-T
1 AATAAAAACGTTGCCGTTCTGTAGGATTTATTACTGGCGTTTTTGGTAAAACGCCGGAAAA-GAT
* *** * *
62479421 CAGCCTTTAGCGGCGCTGCGTTGGAAACGCCACAAAATTTCAATGGGTTAT
65 CAGCCTTTAGCGGCGCTACGTCAAAAACGCCACAAAATGTCAATCGGTTAT
* *
62479472 AATAAAAACGTTGCCGTTTTGTTGGATTT
1 AATAAAAACGTTGCCGTTCTGTAGGATTT
62479501 TGTGTTGACC
Statistics
Matches: 116, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
113 47 0.41
114 66 0.57
115 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (115 bp):
AATAAAAACGTTGCCGTTCTGTAGGATTTATTACTGGCGTTTTTGGTAAAACGCCGGAAAAGATC
AGCCTTTAGCGGCGCTACGTCAAAAACGCCACAAAATGTCAATCGGTTAT
Found at i:62480476 original size:11 final size:11
Alignment explanation
Indices: 62480439--62480478 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
62480429 GAATATCTCA
62480439 AACT-ATGGGT
1 AACTAATGGGT
*
62480449 AACTAGTGGGT
1 AACTAATGGGT
62480460 AACTAATGGGT
1 AACTAATGGGT
62480471 AACTAATG
1 AACTAATG
62480479 TATTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:62481843 original size:17 final size:17
Alignment explanation
Indices: 62481821--62481864 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
62481811 GTTAAATTTA
62481821 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
62481838 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
62481855 TTACTAAAAT
1 TTACTAAAAT
62481865 TTGTTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:62481887 original size:13 final size:13
Alignment explanation
Indices: 62481869--62481911 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
62481859 TAAAATTTGT
62481869 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
62481882 TTAAATATGTTAC
1 TTAAATTTATTAC
62481895 TTAAATTTATTAC
1 TTAAATTTATTAC
62481908 TTAA
1 TTAA
62481912 TGACATGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:62483949 original size:21 final size:21
Alignment explanation
Indices: 62483923--62483993 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
62483913 CTACAACTTA
* *
62483923 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
62483944 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
62483965 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
62483986 AAGCAGAG
1 AAGCAGAG
62483994 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:62484236 original size:14 final size:14
Alignment explanation
Indices: 62484217--62484250 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
62484207 ATTGCTATTG
62484217 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
62484231 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
62484245 TTTGCT
1 GTTGCT
62484251 ACAGGAGGGC
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:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:62484468 original size:42 final size:41
Alignment explanation
Indices: 62484404--62484731 Score: 431
Period size: 42 Copynumber: 7.9 Consensus size: 41
62484394 AGAAAAAAAA
* **
62484404 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTT-TTTTAAG
*
62484446 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT-TAAG
* * * * *
62484488 TGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT-TAAG
*
62484530 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT-TAAG
* * * * *
62484572 TGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT-TAAG
*
62484614 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT-TAAG
* *
62484656 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTAAG
*
62484697 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
62484732 GTTTGTAAAC
Statistics
Matches: 250, Mismatches: 35, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
41 38 0.15
42 212 0.85
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTTAAG
Found at i:62484534 original size:84 final size:83
Alignment explanation
Indices: 62484405--62484731 Score: 487
Period size: 84 Copynumber: 3.9 Consensus size: 83
62484395 GAAAAAAAAC
* * *
62484405 GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTT-AAGCGCCGCTAAAGAACATGTTCTTT
1 GCCGCTAAAGAACATGATCTTTAGCGGCATTTT--TTTCAAACGCCGCTAAAGAACATGTTCTTT
62484469 AGCGGCGTTTTTTTCTAAGT
64 AGCGGCGTTTTTTTCTAAGT
* *
62484489 GCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTA
1 GCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTT-CAAACGCCGCTAAAGAACATGTTCTTTA
62484554 GCGGCGTTTTTTTCTAAGT
65 GCGGCGTTTTTTTCTAAGT
* *
62484573 GCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTA
1 GCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTT-CAAACGCCGCTAAAGAACATGTTCTTTA
*
62484638 GCGGCGTTTTTTTCTAAGC
65 GCGGCGTTTTTTTCTAAGT
* * *
62484657 GCCGCTAAAGAACATGATCTTTAGCGGC-GTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
1 GCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTC-AAACGCCGCTAAAGAACATGTTCTTTA
*
62484721 ACGGCGTTTTT
65 GCGGCGTTTTT
62484732 GTTTGTAAAC
Statistics
Matches: 228, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
82 3 0.01
83 41 0.18
84 184 0.81
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (83 bp):
GCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCAAACGCCGCTAAAGAACATGTTCTTTAG
CGGCGTTTTTTTCTAAGT
Found at i:62484561 original size:126 final size:124
Alignment explanation
Indices: 62484318--62484731 Score: 501
Period size: 126 Copynumber: 3.3 Consensus size: 124
62484308 TTTTGTATAA
* * * * ** *
62484318 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCG-TTTGTAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCAAATGCCGCTAAAGAACATGTTCT
***** * *
62484382 TTAGCGGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTT
66 TTAGCGGC-ATTTTTTTACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TCTT
* * *
62484443 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGTGCCGCTAAAGAACATGGTC
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTC-AAATGCCGCTAAAGAACATGTTC
* * *
62484508 TTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCATTTTTTTACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCT-T
* * * *
62484569 AAGTGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT-CAAATGCCGCTAAAGAACATGTTC
* *
62484634 TTTAGCGGCGTTTTTTT-CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TCT
65 TTTAGCGGCATTTTTTTAC-AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCT-T
*
62484694 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
62484732 GTTTGTAAAC
Statistics
Matches: 251, Mismatches: 33, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
125 70 0.28
126 152 0.61
127 29 0.12
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (124 bp):
AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCAAATGCCGCTAAAGAACATGTTCT
TTAGCGGCATTTTTTTACAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTT
Found at i:62484921 original size:25 final size:25
Alignment explanation
Indices: 62484893--62484944 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
62484883 TTCACAATTT
62484893 TTTTTAATCATAAATATAATTAATG
1 TTTTTAATCATAAATATAATTAATG
*
62484918 TTTTTAATCATAAATATAATTACTG
1 TTTTTAATCATAAATATAATTAATG
62484943 TT
1 TT
62484945 ACAAACACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTTTAATCATAAATATAATTAATG
Found at i:62485379 original size:16 final size:16
Alignment explanation
Indices: 62485343--62485378 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
62485333 ATTATTTTTT
62485343 ATTTTATGATTTTGGA
1 ATTTTATGATTTTGGA
*
62485359 ATTTTATGGTTTTGG-
1 ATTTTATGATTTTGGA
62485374 ATTTT
1 ATTTT
62485379 TGTATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (16 bp):
ATTTTATGATTTTGGA
Found at i:62485460 original size:23 final size:24
Alignment explanation
Indices: 62485434--62485479 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
62485424 GAATACTTAA
62485434 TTAT-ATAAAAATAAAAAAAAAAG
1 TTATAATAAAAATAAAAAAAAAAG
*
62485457 TTATAAATAAAAATAAAATAAAA
1 TTAT-AATAAAAATAAAAAAAAA
62485480 TAAAATATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
25 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (24 bp):
TTATAATAAAAATAAAAAAAAAAG
Found at i:62485825 original size:14 final size:14
Alignment explanation
Indices: 62485806--62485832 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62485796 CAAAAAAAGT
62485806 AAATTATTTTCCAG
1 AAATTATTTTCCAG
62485820 AAATTATTTTCCA
1 AAATTATTTTCCA
62485833 AAAAAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:62486181 original size:31 final size:31
Alignment explanation
Indices: 62486146--62486210 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
62486136 ATATAAAATG
** *
62486146 ATTTAAACTTAATTATAATATTGAT-TATACA
1 ATTTAAACAAAATCATAA-ATTGATATATACA
*
62486177 ATTTATACAAAATCATAAATTGATATATACA
1 ATTTAAACAAAATCATAAATTGATATATACA
62486208 ATT
1 ATT
62486211 GAATTTGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.42
Consensus pattern (31 bp):
ATTTAAACAAAATCATAAATTGATATATACA
Found at i:62487042 original size:31 final size:31
Alignment explanation
Indices: 62486977--62487034 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
62486967 GTTTTAAGAT
*
62486977 AATTTTAATTATACTCTTTAAAATTTTTGAA
1 AATTCTAATTATACTCTTTAAAATTTTTGAA
* *
62487008 AATTCTAATTATAC-CTTTTAATTTTTT
1 AATTCTAATTATACTCTTTAAAATTTTT
62487035 TTAAAATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (31 bp):
AATTCTAATTATACTCTTTAAAATTTTTGAA
Found at i:62489139 original size:23 final size:23
Alignment explanation
Indices: 62489057--62489143 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
62489047 CCTAATCAGT
*
62489057 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
62489079 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
62489099 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
62489122 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
62489144 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:62489539 original size:15 final size:15
Alignment explanation
Indices: 62489514--62489571 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
62489504 TCATATATAT
62489514 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
62489530 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
62489545 AATAATTTCAATCAA
1 TATAAATTCAATCAA
62489560 TATAAATTCAAT
1 TATAAATTCAAT
62489572 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:62499723 original size:142 final size:142
Alignment explanation
Indices: 62499461--62500012 Score: 861
Period size: 142 Copynumber: 3.9 Consensus size: 142
62499451 CAATTCGTTC
* * * * *
62499461 CCCTACGTAAGCATTGGTTTCAAGTTCATTTCATTTAGAACCGACCACATAGTTTGAGGACTGTC
1 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
*
62499526 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGACCTAGATTTCAATT
66 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTCAATT
62499591 CACTGATTCCTT
131 CACTGATTCCTT
* * * * *
62499603 CCCTACGTAAGCATCGGTTTCAGGTTCATTTCATTTAGAAGCGACCACATAGTTCGAGGACTGTC
1 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
* * * *
62499668 TTAAGTAACGGCTACAATAAAACCTTGTTGGCAAGTTATGTCCAAGTGTGGCCTAGATTTCAATT
66 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTCAATT
62499733 CACTGATTCCTT
131 CACTGATTCCTT
* * *
62499745 CCCTACCTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACTGACAATATAGTTCGAGGACCGTC
1 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
* * * *
62499810 TTAAGTAACAGTTACAATAAGCCCTTCTTTGCAAGTTATGTCCAAGTGTGGCCTAGATTTCAATT
66 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTCAATT
62499875 CACTGATTCCTT
131 CACTGATTCCTT
* *
62499887 CCCTACTTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAATATAGTTCGAGGACCGTC
1 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
* * *
62499952 TTAAGTAACGGTTACAATAAGCCCTTGTTTGCAAGTAATGCCCAAATGTGGCCTAGATTTC
66 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTC
62500013 CTCACTTAAT
Statistics
Matches: 380, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 380 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (142 bp):
CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTCAATT
CACTGATTCCTT
Found at i:62501168 original size:3 final size:3
Alignment explanation
Indices: 62501160--62501184 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
62501150 AAACTATGGC
62501160 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
62501185 TTGAAGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:62523928 original size:69 final size:69
Alignment explanation
Indices: 62523834--62524313 Score: 351
Period size: 69 Copynumber: 7.0 Consensus size: 69
62523824 CAAAGAGCCA
* * * ** * * *
62523834 TAGCCTTTAAAACAATTAGCAAGAGCAAAGCTCTTAATTGTGAAAATAAGGTTCACAGGCGAAGA
1 TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAGA
*
62523899 ATCG
66 AGCG
* * * ** * *
62523903 TAGCCTCTAAAATAGTTAGAGAGAGCAAAGCTCCCAACGGTAAAAACAAGGTTCGTAAGCAAAG-
1 TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAGA
62523967 AGCTG
66 AGC-G
* * ** * *
62523972 CAGCCTCTAAAACAGTTAGCGATAGCAAAGCTCCCAGGTGTGAAAACAAGGTTCACAAGCGAA-A
1 TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAGA
*
62524036 AGCCT
66 AG-CG
* * * * * ** *
62524041 TAGCCTCTAAAACAGTTAGCGAAAGCTAAGATCCTAGCTGTAAAAACAAGGTTTGCAGGTGAAG-
1 TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAGA
*
62524105 AGTTG
66 AG-CG
* * * * *
62524110 TAGGCTCTAAAACAGTTAGTGAGAGCAAAGCTCTCAACTGTAAAAACAATGTTC-CTAGGTGAAG
1 TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCAC-AGGCGAAG
*
62524174 -AGCC
65 AAGCG
* * * * * * **
62524178 TCAACCTCTAAAAAAGTTAGTGAGAGCAAAGCTCCCAACTGTAAAAATAAAGTTCGCATACGAA-
1 T-AGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAG
62524242 AAGCCG
65 AAG-CG
* * * * * * * * * * *
62524248 CAGCTTCTAAAATAATTAACGAAAGTAAAGCTCCCAATTGTAAAAACAAAGCTCACTGGCGAAGA
1 TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAGA
62524313 A
66 A
62524314 TTTTATAACC
Statistics
Matches: 321, Mismatches: 80, Indels: 19
0.76 0.19 0.05
Matches are distributed among these distances:
68 4 0.01
69 312 0.97
70 5 0.02
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (69 bp):
TAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCACAGGCGAAGA
AGCG
Found at i:62524084 original size:138 final size:137
Alignment explanation
Indices: 62523801--62524224 Score: 388
Period size: 138 Copynumber: 3.1 Consensus size: 137
62523791 ACCTCGCTCT
* ** * * *
62523801 CAACTGTAAAAATAA-GTTGTAAGCAAAGAGCCATAGCCTTTAAAACAATTAGCAAGAGCAAAGC
1 CAACTGTAAAAACAAGGTTGTAAGCAAAGAGCTGTAGCCTCTAAAACAGTTAGCGAGAGCAAAGC
** * * * * * *
62523865 TCTTAATTGTGAAAATAAGGTTCACAGGCGAAGAATCGTAGCCTCTAAAATAGTTAGAGAGAGCA
66 TCCCAAGTGTGAAAACAAGGTTCACAAGCGAAGAACCGTAGCCTCTAAAACAGTTAGAGAAAGCA
*
62523930 AAGCTCC
131 AAGATCC
* * *
62523937 CAACGGTAAAAACAAGGTTCGTAAGCAAAGAGCTGCAGCCTCTAAAACAGTTAGCGATAGCAAAG
1 CAACTGTAAAAACAAGGTT-GTAAGCAAAGAGCTGTAGCCTCTAAAACAGTTAGCGAGAGCAAAG
* * *
62524002 CTCCCAGGTGTGAAAACAAGGTTCACAAGCGAA-AAGCCTTAGCCTCTAAAACAGTTAGCGAAAG
65 CTCCCAAGTGTGAAAACAAGGTTCACAAGCGAAGAA-CCGTAGCCTCTAAAACAGTTAGAGAAAG
*
62524066 CTAAGATCC
129 CAAAGATCC
* * * * ** * * *
62524075 TAGCTGTAAAAACAAGGTTTGCAGGTGAAGAGTTGTAGGCTCTAAAACAGTTAGTGAGAGCAAAG
1 CAACTGTAAAAACAAGG-TTGTAAGCAAAGAGCTGTAGCCTCTAAAACAGTTAGCGAGAGCAAAG
* * * * * * * * * * *
62524140 CTCTCAACTGTAAAAACAATGTTC-CTAGGTGAAGAGCC-TCAACCTCTAAAAAAGTTAGTGAGA
65 CTCCCAAGTGTGAAAACAAGGTTCAC-AAGCGAAGAACCGT-AGCCTCTAAAACAGTTAGAGAAA
*
62524203 GCAAAGCTCC
128 GCAAAGATCC
62524213 CAACTGTAAAAA
1 CAACTGTAAAAA
62524225 TAAAGTTCGC
Statistics
Matches: 231, Mismatches: 50, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
136 13 0.06
137 7 0.03
138 208 0.90
139 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (137 bp):
CAACTGTAAAAACAAGGTTGTAAGCAAAGAGCTGTAGCCTCTAAAACAGTTAGCGAGAGCAAAGC
TCCCAAGTGTGAAAACAAGGTTCACAAGCGAAGAACCGTAGCCTCTAAAACAGTTAGAGAAAGCA
AAGATCC
Found at i:62524157 original size:34 final size:34
Alignment explanation
Indices: 62524118--62524224 Score: 96
Period size: 33 Copynumber: 3.1 Consensus size: 34
62524108 TGTAGGCTCT
62524118 AAAACAGTTAGTGAGAGCAAAGCTCTCAACTGTA
1 AAAACAGTTAGTGAGAGCAAAGCTCTCAACTGTA
** * *
62524152 AAAACAATGTTCCT-AG-GTGAAGAGC-CTCAACCTCTA
1 AAAAC-A-GTTAGTGAGAG-CAA-AGCTCTCAA-CTGTA
*
62524188 AAAA-AGTTAGTGAGAGCAAAGCTCCCAACTGTA
1 AAAACAGTTAGTGAGAGCAAAGCTCTCAACTGTA
62524221 AAAA
1 AAAA
62524225 TAAAGTTCGC
Statistics
Matches: 56, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
33 15 0.27
34 15 0.27
35 11 0.20
36 15 0.27
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.20
Consensus pattern (34 bp):
AAAACAGTTAGTGAGAGCAAAGCTCTCAACTGTA
Found at i:62524292 original size:207 final size:208
Alignment explanation
Indices: 62523835--62524314 Score: 504
Period size: 207 Copynumber: 2.3 Consensus size: 208
62523825 AAAGAGCCAT
* * * * *
62523835 AGCCTTTAAAACAATTAGC-AAGAGC-AAAGCTCTTAATTGTGAAAATAAGGTTCACAGGCGAAG
1 AGCCTCTAAAACAATTAACGAA-AGCTAAAGCTCCTAATTGTAAAAACAAGGTTCACAGGCGAAG
* *
62523898 AATCGTAGCCTCTAAAATAGTTAGAGAGAGCAAAGCTCCCAACGGTAAAAACAAGGTTCGTAAGC
65 AATCGTAGCCTCTAAAACAGTTAGAGAGAGCAAAGCTCCCAACGGTAAAAACAAGGTTCCTAAGC
* * * ** * *
62523963 AAAGAGCTGCAGCCTCTAAAACAGTTAGCGATAGCAAAGCTCCCAGGTGTGAAAACAAGGTTCAC
130 AAAGAGCTGCAACCTCTAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAAGTTCAC
**
62524028 AAGCGAAAAGCCTT
195 AAGCGAAAAGCCGC
* * * ** ** *
62524042 AGCCTCTAAAACAGTTAGCGAAAGCT-AAGATCCTAGCTGTAAAAACAAGGTTTGCAGGTGAAGA
1 AGCCTCTAAAACAATTAACGAAAGCTAAAGCTCCTAATTGTAAAAACAAGGTTCACAGGCGAAGA
* * * * * * * * **
62524106 GTTGTAGGCTCTAAAACAGTTAGTGAGAGCAAAGCTCTCAACTGTAAAAACAATGTTCCTAGGTG
66 ATCGTAGCCTCTAAAACAGTTAGAGAGAGCAAAGCTCCCAACGGTAAAAACAAGGTTCCTAAGCA
* * *
62524171 AAGAGCCT-CAACCTCTAAAAAAGTTAGTGAGAGCAAAGCTCCCAACTGTAAAAATAAAGTTCGC
131 AAGAG-CTGCAACCTCTAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAAGTTCAC
62524235 ATA-CGAAAAGCCGC
195 A-AGCGAAAAGCCGC
* * * * * *
62524249 AGCTTCTAAAATAATTAACGAAAG-TAAAGCTCCCAATTGTAAAAACAAAGCTCACTGGCGAAGA
1 AGCCTCTAAAACAATTAACGAAAGCTAAAGCTCCTAATTGTAAAAACAAGGTTCACAGGCGAAGA
62524313 AT
66 AT
62524315 TTTATAACCT
Statistics
Matches: 218, Mismatches: 50, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
206 1 0.00
207 212 0.97
208 5 0.02
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (208 bp):
AGCCTCTAAAACAATTAACGAAAGCTAAAGCTCCTAATTGTAAAAACAAGGTTCACAGGCGAAGA
ATCGTAGCCTCTAAAACAGTTAGAGAGAGCAAAGCTCCCAACGGTAAAAACAAGGTTCCTAAGCA
AAGAGCTGCAACCTCTAAAAAAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAAGTTCACA
AGCGAAAAGCCGC
Found at i:62530427 original size:44 final size:44
Alignment explanation
Indices: 62530336--62530520 Score: 187
Period size: 44 Copynumber: 4.2 Consensus size: 44
62530326 NNNNNNNNNN
* * *
62530336 CTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
1 CTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTAT
* **
62530380 CTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-AT
1 CTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTAT
* * * * *
62530424 CTTCGATCCACTTC-CTACCAATATAGGAAGATC-GGACCTGTTAT
1 CTTCGATCTACTTCAC-ACCAATACAGGAAGA-CAAGATCTGCTAT
* * * *
62530468 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
1 CTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTAT
62530512 CTTCGATCT
1 CTTCGATCT
62530521 CAATCCATCC
Statistics
Matches: 114, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
42 1 0.01
43 20 0.18
44 70 0.61
45 23 0.20
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
CTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTAT
Found at i:62540302 original size:8 final size:8
Alignment explanation
Indices: 62540289--62540330 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
62540279 AAATAGATTT
62540289 ATAAAAAA
1 ATAAAAAA
62540297 ATAAAAAA
1 ATAAAAAA
62540305 ATAAAATAA
1 ATAAAA-AA
62540314 ATAACAAAA
1 ATAA-AAAA
62540323 ATGAAAAA
1 AT-AAAAA
62540331 TGAACAAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 14 0.45
9 13 0.42
10 4 0.13
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (8 bp):
ATAAAAAA
Found at i:62548553 original size:32 final size:32
Alignment explanation
Indices: 62548512--62548581 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
62548502 TATGCGCTAC
62548512 AATTATGAGGTAAAAAATTAAAATTATATTAT
1 AATTATGAGGTAAAAAATTAAAATTATATTAT
62548544 AATTATGAGGTAAAAAATTAAAATTATATTAT
1 AATTATGAGGTAAAAAATTAAAATTATATTAT
*
62548576 TATTAT
1 AATTAT
62548582 ATTATGTTCG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (32 bp):
AATTATGAGGTAAAAAATTAAAATTATATTAT
Found at i:62551239 original size:2 final size:2
Alignment explanation
Indices: 62551232--62551261 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
62551222 GTAGCCAAAA
62551232 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
62551262 GAAGTTTCTG
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):
AT
Found at i:62555991 original size:44 final size:44
Alignment explanation
Indices: 62555899--62556055 Score: 158
Period size: 44 Copynumber: 3.6 Consensus size: 44
62555889 NNCTACTCTG
* * * * **
62555899 CTGTAACCTCAGAGAGATAAGATCCTTTA-TTTTAATCCGCTCCA
1 CTGTAACTTCAGAGAGATAAGAT-CTCTAGCTTCAATCTACTCCA
* *
62555943 CTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCAATCTACTCCG
1 CTGTAACTTCAGAGAGATAAGATCT-CTAGCTTCAATCTACTCCA
* *
62555987 CTGTAA-TCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACT-TCAGAGAGATAAGATCTCTAGCTTCAATCTACTCCA
* *
62556031 CTGTAACCTCAGGGAGATAAGATCT
1 CTGTAACTTCAGAGAGATAAGATCT
62556056 GAAATTCTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 89 0.95
45 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
CTGTAACTTCAGAGAGATAAGATCTCTAGCTTCAATCTACTCCA
Found at i:62556088 original size:46 final size:45
Alignment explanation
Indices: 62555977--62556268 Score: 209
Period size: 46 Copynumber: 6.7 Consensus size: 45
62555967 ACTAGCTTCA
* * * * * **
62555977 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCT--CTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTG
*
62556021 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTG
* * * *
62556067 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A---TGTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTG
* * * * *
62556108 ATCTTCTCTACTGTAA-CTTCAGAGAGAT---A-C-G-ATCCTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAATTCTTTG
* * * * *
62556147 ATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACTATCTTTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTG
*
62556191 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTG
* *
62556237 GTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA
62556269 CCTGTATAAT
Statistics
Matches: 192, Mismatches: 38, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
36 2 0.01
37 1 0.01
38 1 0.01
39 22 0.11
40 2 0.01
41 24 0.12
42 1 0.01
43 1 0.01
44 64 0.33
45 1 0.01
46 70 0.36
47 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (45 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTG
Found at i:62556217 original size:44 final size:44
Alignment explanation
Indices: 62555937--62556268 Score: 197
Period size: 44 Copynumber: 7.6 Consensus size: 44
62555927 ATTTTAATCC
* * * **
62555937 GCTCCACTGTAA-CTTCAGAGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTTGATCT
* * * ** **
62555981 ACTCCGCTGTAATCTCAGAGAGATAAGATCT-CTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTTGATCT
* * *
62556025 GCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTTGATCT
* * *
62556071 GTTCCACTGTAATCTCAGGGAGATAAGA--CCTGA--TGTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTTGATCT
* * * * * *
62556112 TCTCTACTGTAA-CTTCAGAGAGATACGA-T-C---CTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTTGATCT
* * *
62556151 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTTGATCT
* * *
62556195 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTTGATCT
*
62556241 GTTCCACTGTAATCTCAGGGAGATAAGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA
62556269 CCTGTATAAT
Statistics
Matches: 225, Mismatches: 44, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
39 25 0.11
40 3 0.01
41 29 0.13
44 96 0.43
45 4 0.02
46 68 0.30
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTTGATCT
Found at i:62561401 original size:17 final size:18
Alignment explanation
Indices: 62561375--62561410 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
62561365 ATATGTAATC
62561375 TTGAAAGGAAAA-TTTAA
1 TTGAAAGGAAAACTTTAA
*
62561392 TTGAATGGAAAACTTTAA
1 TTGAAAGGAAAACTTTAA
62561410 T
1 T
62561411 AAAAATAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (18 bp):
TTGAAAGGAAAACTTTAA
Found at i:62561562 original size:13 final size:14
Alignment explanation
Indices: 62561544--62561573 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
62561534 AAAGTATTTT
62561544 AAAATT-AAAAATA
1 AAAATTAAAAAATA
62561557 AAAATTAAAAAATA
1 AAAATTAAAAAATA
62561571 AAA
1 AAA
62561574 TTTTTATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATTAAAAAATA
Found at i:62562111 original size:109 final size:110
Alignment explanation
Indices: 62561910--62562336 Score: 596
Period size: 110 Copynumber: 3.9 Consensus size: 110
62561900 GAAATTCAAG
** * * * *
62561910 AGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGTACG-TTCCTC
1 AGGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACATTAGGGCACGTTTTCTC
* *
62561972 GAATTTCCAAAC-GCACAACATTGCCTTATTTTGAAATTTTTGAA
66 GAATTTCCAAACGGCAAAACATTGCCTTATTTTGAAATTTTTAAA
** *
62562016 AGGATATTTGGCTATTTGGTTGAATGAGAAAAATCGACACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACATTAGGGCACGTTTTCTC
* * *
62562081 GAATTTCCAAA-TGCAAAACATTGTCTTATTTTAAAATTTTTAAA
66 GAATTTCCAAACGGCAAAACATTGCCTTATTTTGAAATTTTTAAA
* *
62562125 AGGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACATTAGGGCACGTTTTCTC
*
62562190 GAATTTCCAAACGGCAAAACCTTGCCTTATTTT-AAACTTTTTAAA
66 GAATTTCCAAACGGCAAAACATTGCCTTATTTTGAAA-TTTTTAAA
* * * *
62562235 AGGATATTAAGCCATTTGGTTGAACGAGAAGAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACATTAGGGCACGTTTTCTC
* *
62562300 AAATTTCTAAACGGCAAAACATTGCCTTATTTTGAAA
66 GAATTTCCAAACGGCAAAACATTGCCTTATTTTGAAA
62562337 AATTTTCCTT
Statistics
Matches: 292, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
106 26 0.09
108 26 0.09
109 118 0.40
110 119 0.41
111 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (110 bp):
AGGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGGCAAAACATTGCCTTATTTTGAAATTTTTAAA
Found at i:62562289 original size:219 final size:217
Alignment explanation
Indices: 62561910--62562342 Score: 593
Period size: 219 Copynumber: 2.0 Consensus size: 217
62561900 GAAATTCAAG
** *
62561910 AGGATATTTGGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGTACGTTCCTCGAA
1 AGGATATTAAGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAA
* * ** *
62561975 TTTCCAAACGCACAACATTGCCTTATTTTGAAATTTTTGAAAGGATATTTGGCTATTTGGTTGAA
66 TTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAA
* * *
62562040 TGAGAAAAATCGACACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAA-TGCAAAACATTG
131 CGAGAAAAATCGACACCCAGCACATTAGGGCACGTTTTCTCAAATTTCCAAACGGCAAAACATTG
* *
62562104 TCTTATTTT-AAAATTTTTAAA
196 CCTTATTTTGAAAAATTTTAAA
* * * * *
62562125 AGGATATTAAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTAAGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACG-TTCCTC
*
62562190 GAATTTCCAAACGGCAAAACCTTGCCTTATTTT-AAACTTTTTAAAAGGATATTAAGCCATTTGG
63 GAATTTCCAAAC-GCAAAACATTGCCTTATTTTGAAA-TTTTTAAAAGGATATTAAGCCATTTGG
* * * *
62562254 TTGAACGAGAAGAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCTAAACGGCAAAA
126 TTGAACGAGAAAAATCGACACCCAGCACATTAGGGCACGTTTTCTCAAATTTCCAAACGGCAAAA
62562319 CATTGCCTTATTTTGAAAAATTTT
191 CATTGCCTTATTTTGAAAAATTTT
62562343 CCTTTTTTGA
Statistics
Matches: 188, Mismatches: 23, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
215 25 0.13
217 24 0.13
218 20 0.11
219 92 0.49
220 19 0.10
221 8 0.04
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (217 bp):
AGGATATTAAGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAA
CGAGAAAAATCGACACCCAGCACATTAGGGCACGTTTTCTCAAATTTCCAAACGGCAAAACATTG
CCTTATTTTGAAAAATTTTAAA
Found at i:62562672 original size:16 final size:17
Alignment explanation
Indices: 62562648--62562686 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
62562638 ATGTATGTAC
* *
62562648 ATATTTTAAAATTAT-T
1 ATATATTAAAAATATAT
62562664 ATATATTAAAAATATAT
1 ATATATTAAAAATATAT
62562681 ATATAT
1 ATATAT
62562687 ATATGAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATTAAAAATATAT
Found at i:62562792 original size:20 final size:20
Alignment explanation
Indices: 62562767--62562827 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
62562757 TATGTAAATC
62562767 ATAAAATATAAAGAACATAT
1 ATAAAATATAAAGAACATAT
62562787 AT-AAA-AT-----ACATAGT
1 ATAAAATATAAAGAACATA-T
62562801 -TAAAATATAAAGAACATAT
1 ATAAAATATAAAGAACATAT
62562820 ATAAAATA
1 ATAAAATA
62562828 CATATTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 18
0.64 0.00 0.36
Matches are distributed among these distances:
13 6 0.19
14 4 0.12
15 2 0.06
18 2 0.06
19 4 0.12
20 14 0.44
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAAAATATAAAGAACATAT
Found at i:62562810 original size:33 final size:33
Alignment explanation
Indices: 62562768--62562831 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
62562758 ATGTAAATCA
62562768 TAAAATATAAAGAACATATATAAAATACATAGT
1 TAAAATATAAAGAACATATATAAAATACATAGT
62562801 TAAAATATAAAGAACATATATAAAATACATA
1 TAAAATATAAAGAACATATATAAAATACATA
62562832 TTTATGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.27
Consensus pattern (33 bp):
TAAAATATAAAGAACATATATAAAATACATAGT
Found at i:62562861 original size:19 final size:21
Alignment explanation
Indices: 62562820--62562860 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
62562810 AAGAACATAT
*
62562820 ATAAAATACATATTTATGAAA
1 ATAAAATACATATATATGAAA
*
62562841 ATAATATACATATATA-GAAA
1 ATAAAATACATATATATGAAA
62562861 TGTACATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (21 bp):
ATAAAATACATATATATGAAA
Found at i:62563088 original size:3 final size:3
Alignment explanation
Indices: 62563082--62563147 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
62563072 AAATATGATG
62563082 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
62563130 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
62563148 GTACTAGATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:62584309 original size:287 final size:287
Alignment explanation
Indices: 62583793--62584367 Score: 1150
Period size: 287 Copynumber: 2.0 Consensus size: 287
62583783 GTTAATTCGT
62583793 TTACGTATCTATTCTTTTTTAAAAAGATCTCTTTTCAACAAATATATAAAGGACTTCTGTATTAA
1 TTACGTATCTATTCTTTTTTAAAAAGATCTCTTTTCAACAAATATATAAAGGACTTCTGTATTAA
62583858 GGTTATGATCACGATTTTTAAAAAATCAACTAGAATTCTTATCACTTCTTTATTATATTTCAGTA
66 GGTTATGATCACGATTTTTAAAAAATCAACTAGAATTCTTATCACTTCTTTATTATATTTCAGTA
62583923 TTTACTACCGTTTGTAAACATGAAAAATCAAGAGCAAGGCAGACAAAGCGCTTTTCAAAGCACTT
131 TTTACTACCGTTTGTAAACATGAAAAATCAAGAGCAAGGCAGACAAAGCGCTTTTCAAAGCACTT
62583988 GACTCAAAACGAAGTGAAAGATCGCATCATATTCTTCTCTTACACTGATGTTGCACCGTTCTTTG
196 GACTCAAAACGAAGTGAAAGATCGCATCATATTCTTCTCTTACACTGATGTTGCACCGTTCTTTG
62584053 AGTTTCAAGAAGGTCGTCTATTTTTCA
261 AGTTTCAAGAAGGTCGTCTATTTTTCA
62584080 TTACGTATCTATTCTTTTTTAAAAAGATCTCTTTTCAACAAATATATAAAGGACTTCTGTATTAA
1 TTACGTATCTATTCTTTTTTAAAAAGATCTCTTTTCAACAAATATATAAAGGACTTCTGTATTAA
62584145 GGTTATGATCACGATTTTTAAAAAATCAACTAGAATTCTTATCACTTCTTTATTATATTTCAGTA
66 GGTTATGATCACGATTTTTAAAAAATCAACTAGAATTCTTATCACTTCTTTATTATATTTCAGTA
62584210 TTTACTACCGTTTGTAAACATGAAAAATCAAGAGCAAGGCAGACAAAGCGCTTTTCAAAGCACTT
131 TTTACTACCGTTTGTAAACATGAAAAATCAAGAGCAAGGCAGACAAAGCGCTTTTCAAAGCACTT
62584275 GACTCAAAACGAAGTGAAAGATCGCATCATATTCTTCTCTTACACTGATGTTGCACCGTTCTTTG
196 GACTCAAAACGAAGTGAAAGATCGCATCATATTCTTCTCTTACACTGATGTTGCACCGTTCTTTG
62584340 AGTTTCAAGAAGGTCGTCTATTTTTCA
261 AGTTTCAAGAAGGTCGTCTATTTTTCA
62584367 T
1 T
62584368 GGATGTTACG
Statistics
Matches: 288, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
287 288 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (287 bp):
TTACGTATCTATTCTTTTTTAAAAAGATCTCTTTTCAACAAATATATAAAGGACTTCTGTATTAA
GGTTATGATCACGATTTTTAAAAAATCAACTAGAATTCTTATCACTTCTTTATTATATTTCAGTA
TTTACTACCGTTTGTAAACATGAAAAATCAAGAGCAAGGCAGACAAAGCGCTTTTCAAAGCACTT
GACTCAAAACGAAGTGAAAGATCGCATCATATTCTTCTCTTACACTGATGTTGCACCGTTCTTTG
AGTTTCAAGAAGGTCGTCTATTTTTCA
Found at i:62584890 original size:10 final size:11
Alignment explanation
Indices: 62584846--62584894 Score: 57
Period size: 10 Copynumber: 4.5 Consensus size: 11
62584836 TAAAAATGTA
*
62584846 TTAATAAATTT
1 TTAATTAATTT
62584857 TT-ATTAATGTT
1 TTAATTAAT-TT
62584868 TTAATTAATTTT
1 TTAATTAA-TTT
62584880 TTAATT-ATTT
1 TTAATTAATTT
62584890 TTAAT
1 TTAAT
62584895 ACTCTTTCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
10 13 0.38
11 7 0.21
12 13 0.38
13 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TTAATTAATTT
Found at i:62585557 original size:14 final size:14
Alignment explanation
Indices: 62585538--62585564 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62585528 TATTCTTCTA
62585538 TGATCCAACTATGG
1 TGATCCAACTATGG
62585552 TGATCCAACTATG
1 TGATCCAACTATG
62585565 CTAGGCAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (14 bp):
TGATCCAACTATGG
Found at i:62588775 original size:3 final size:3
Alignment explanation
Indices: 62588767--62588855 Score: 56
Period size: 3 Copynumber: 29.3 Consensus size: 3
62588757 TTTATATTTC
* * *
62588767 ATT ATT ATT ATT AGT GTT ACT ATT -TCT ATT ATT ATTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT A-TT ATT ATT ATT
** * * * *
62588813 ATT ATT GCT ATT AGT ACT ACTT -TT ATT ACT ATT ATT TTT ATT A
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT A
62588856 CGGTTACCAT
Statistics
Matches: 64, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
2 3 0.05
3 56 0.88
4 5 0.08
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:62590968 original size:16 final size:16
Alignment explanation
Indices: 62590947--62590978 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
62590937 GATTGAAATT
62590947 TGAAATAACCCAAAAG
1 TGAAATAACCCAAAAG
62590963 TGAAATAACCCAAAAG
1 TGAAATAACCCAAAAG
62590979 CCCTTGTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.12, T:0.12
Consensus pattern (16 bp):
TGAAATAACCCAAAAG
Found at i:62591579 original size:44 final size:44
Alignment explanation
Indices: 62591531--62592374 Score: 1652
Period size: 44 Copynumber: 19.1 Consensus size: 44
62591521 AATATAAATT
62591531 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62591575 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62591619 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62591663 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62591707 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62591751 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62591795 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62591839 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62591883 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62591927 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62591971 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62592015 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62592059 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62592103 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62592147 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62592191 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62592235 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
62592279 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
*
62592323 ATATGAAATTTGTGGTAAACTAATAAAATAAAGTGTAAAATAATTTG
1 ATATGAAATTTGTGGTAAACTAATAAAATAAA--GTAGAA-AATTTG
62592370 ATATG
1 ATATG
62592375 TGAAATAATA
Statistics
Matches: 796, Mismatches: 1, Indels: 3
1.00 0.00 0.00
Matches are distributed among these distances:
44 780 0.98
46 5 0.01
47 11 0.01
ACGTcount: A:0.50, C:0.02, G:0.16, T:0.32
Consensus pattern (44 bp):
ATATGAAATTTGTGGTAAACTAATAAAATAAAGTAGAAAATTTG
Found at i:62593474 original size:3 final size:3
Alignment explanation
Indices: 62593466--62593662 Score: 50
Period size: 3 Copynumber: 65.3 Consensus size: 3
62593456 TTAATATGTC
* * * * *
62593466 ATT ATT ATT ATT -TT GTT AAT ATT AAT ATT ATA ATT A-T ACT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
62593511 TTT ATTT ATTT ATG GTT -TT ATT ATT AATT CATT AAT -TT ACT ATT ATT
1 ATT A-TT A-TT ATT ATT ATT ATT ATT -ATT -ATT ATT ATT ATT ATT ATT
** * * * *
62593558 AAC A-T ATT ATT ATT ATT AAGGT ATT AAT ACT ACT ATTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT -A-TT ATT ATT ATT ATT A-TT ATT ATT ATT
** * * * *
62593605 ACC ATT -TT CATT ACT ATT ATT TTT ATT TTT ATT ACT ATT ATCT -TT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
*
62593650 TTT ATT ATT ATT A
1 ATT ATT ATT ATT A
62593663 CCTTTTTGCT
Statistics
Matches: 140, Mismatches: 39, Indels: 30
0.67 0.19 0.14
Matches are distributed among these distances:
2 12 0.09
3 107 0.76
4 20 0.14
5 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:62593624 original size:21 final size:21
Alignment explanation
Indices: 62593598--62593645 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
62593588 TACTATTTAT
62593598 TATTATTACCATTTTCATTAC
1 TATTATTACCATTTTCATTAC
*** *
62593619 TATTATTTTTATTTTTATTAC
1 TATTATTACCATTTTCATTAC
62593640 TATTAT
1 TATTAT
62593646 CTTTTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATTACCATTTTCATTAC
Found at i:62593651 original size:18 final size:18
Alignment explanation
Indices: 62593593--62593669 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 18
62593583 AATACTACTA
* *
62593593 TTTATTATTATTACCATT
1 TTTATTACTATTACCTTT
* **
62593611 TTCATTACTATTATTTTTATT
1 TTTATTACTATTA--CCT-TT
*
62593632 TTTATTACTATTATCTTT
1 TTTATTACTATTACCTTT
*
62593650 TTTATTATTATTACCTTT
1 TTTATTACTATTACCTTT
62593668 TT
1 TT
62593670 GCTATTTAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
18 31 0.66
19 2 0.04
21 14 0.30
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTATTACTATTACCTTT
Done.