Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 225 of 318
Found at i:71501070 original size:46 final size:46
Alignment explanation
Indices: 71500899--71501117 Score: 187
Period size: 46 Copynumber: 4.7 Consensus size: 46
71500889 TCATGCATGT
* * *
71500899 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* * * * * *
71500945 GAGCAAATGTAAGACCATGTCGGGGACATGGCATCGGCATTGAGACAA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
** * *
71500993 GAGCTAGTGTAAGACATGTCTGAAACTTGCATCGGCCTCGGGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* *
71501040 -AGCTAGTGTAAGACATGTCCGGGACATGCATCGG-CTACGAGACGT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA
* *
71501085 G-TC-AGTGTAAGACCATGTCTGGGGCATGGCATC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
71501118 AGCATGGATA
Statistics
Matches: 137, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
44 9 0.07
45 15 0.11
46 66 0.48
47 24 0.18
48 22 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:71511675 original size:30 final size:32
Alignment explanation
Indices: 71511612--71511678 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
71511602 GGTGTGGCCA
* * *
71511612 TGTGGGCCACATGGGCTATGCCAAATTAGGCG
1 TGTGGGCCACATGAGCTACGCCAAATCAGGCG
*
71511644 TGTGGGCCACATGAGC-ACGCCACA-CAGGCG
1 TGTGGGCCACATGAGCTACGCCAAATCAGGCG
71511674 TGTGG
1 TGTGG
71511679 TATCTGGGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 10 0.32
31 6 0.19
32 15 0.48
ACGTcount: A:0.21, C:0.25, G:0.36, T:0.18
Consensus pattern (32 bp):
TGTGGGCCACATGAGCTACGCCAAATCAGGCG
Found at i:71514672 original size:27 final size:27
Alignment explanation
Indices: 71514642--71514924 Score: 165
Period size: 27 Copynumber: 10.4 Consensus size: 27
71514632 ATTACCAAAG
* * * *
71514642 TACCCCCGGTTTACAGAATTACCGTTC
1 TACCCTCGATTTATAGAATTACCGTTT
*
71514669 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
71514696 TACCCTCGATTCATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *****
71514723 TACCCTCGATTTATAAAATTACTAAAA
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *****
71514750 TACTCCT-GGTTTGTAAAATTACTAAAG
1 TAC-CCTCGATTTATAGAATTACCGTTT
* * * * * ***
71514777 TACCCCCTAATTTGTAAAATTACTGAAA
1 TACCCTC-GATTTATAGAATTACCGTTT
* ****
71514805 TACCCTCGACTTGTA-AAAATTACCAAAG
1 TACCCTCGA-TT-TATAGAATTACCGTTT
*
71514833 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
71514860 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
71514887 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
71514914 TACCCTCGATT
1 TACCCTCGATT
71514925 GTGAAATTAC
Statistics
Matches: 211, Mismatches: 39, Indels: 12
0.81 0.15 0.05
Matches are distributed among these distances:
26 4 0.02
27 160 0.76
28 46 0.22
29 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:71514799 original size:28 final size:28
Alignment explanation
Indices: 71514725--71514855 Score: 108
Period size: 28 Copynumber: 4.7 Consensus size: 28
71514715 TACCGTTTTA
* *
71514725 CCCTCGATTTATAAAATTACTAAAATA-C
1 CCCT-GATTTGTAAAATTACTAAAGTACC
* *
71514753 TCCTGGTTTGTAAAATTACTAAAGTACC
1 CCCTGATTTGTAAAATTACTAAAGTACC
*
71514781 CCCTAATTTGTAAAATTACTGAAA-TACC
1 CCCTGATTTGTAAAATTACT-AAAGTACC
* * *
71514809 CTC-GACTTGTAAAAATTACCAAAGTACC
1 CCCTGATTTGT-AAAATTACTAAAGTACC
* * *
71514837 CTC-GATTTATAGAATTACT
1 CCCTGATTTGTAAAATTACT
71514856 GTTTTACCCT
Statistics
Matches: 84, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
27 34 0.40
28 47 0.56
29 3 0.04
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (28 bp):
CCCTGATTTGTAAAATTACTAAAGTACC
Found at i:71514856 original size:55 final size:54
Alignment explanation
Indices: 71514723--71514856 Score: 162
Period size: 55 Copynumber: 2.4 Consensus size: 54
71514713 ATTACCGTTT
* ** *
71514723 TACCCTCGATTTATAAAATTACTAAAATACTCCTGGTTTGTAAAATTACTAAAG
1 TACCCTCGATTTATAAAATTACTGAAATACTCCTGACTTGTAAAATTACCAAAG
* * *
71514777 TACCCCCTAATTTGTAAAATTACTGAAATAC-CCTCGACTTGTAAAAATTACCAAAG
1 TACCCTC-GATTTATAAAATTACTGAAATACTCCT-GACTTGT-AAAATTACCAAAG
*
71514833 TACCCTCGATTTATAGAATTACTG
1 TACCCTCGATTTATAAAATTACTG
71514857 TTTTACCCTC
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
54 9 0.14
55 39 0.59
56 18 0.27
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTGAAATACTCCTGACTTGTAAAATTACCAAAG
Found at i:71514971 original size:27 final size:27
Alignment explanation
Indices: 71514941--71515000 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
71514931 TTACTGAAAT
*
71514941 ACCCCTA-TAGGGTAGAATTACCAAAAC
1 ACCCCTAGT-GGGTAAAATTACCAAAAC
** *
71514968 ACCCCTAGTTTGTAAAATTACCAAAAT
1 ACCCCTAGTGGGTAAAATTACCAAAAC
71514995 ACCCCT
1 ACCCCT
71515001 GATTTACAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.23
Consensus pattern (27 bp):
ACCCCTAGTGGGTAAAATTACCAAAAC
Found at i:71515055 original size:27 final size:27
Alignment explanation
Indices: 71514956--71515052 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
71514946 TATAGGGTAG
71514956 AATTACCAAAACACCCCT-AGTTTGTAA
1 AATTACCAAAACACCCCTGA-TTTGTAA
* **
71514983 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAACACCCCTGATTTGTAA
* * * *
71515010 AATTA-TAGAAATACCCTTGATTTGTAG
1 AATTACCA-AAACACCCCTGATTTGTAA
*
71515037 ATTTACCAAAACACCC
1 AATTACCAAAACACCC
71515053 TTGTAGGATG
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
26 1 0.02
27 53 0.95
28 2 0.04
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAACACCCCTGATTTGTAA
Found at i:71515882 original size:20 final size:20
Alignment explanation
Indices: 71515857--71515923 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
71515847 GATATGATAT
*
71515857 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
71515877 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
71515897 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
71515917 ACATGAT
1 ACATGAT
71515924 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:71516051 original size:52 final size:51
Alignment explanation
Indices: 71515973--71516108 Score: 215
Period size: 52 Copynumber: 2.7 Consensus size: 51
71515963 GAGGAAGTGC
*
71515973 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCA
*
71516025 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCATTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCA
71516076 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
71516109 AGGCCTCCAG
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 23 0.28
52 36 0.44
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCA
Found at i:71516072 original size:25 final size:26
Alignment explanation
Indices: 71515973--71516108 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
71515963 GAGGAAGTGC
71515973 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
71515999 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
71516025 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* ***
71516051 AAAAGGGCTT-TGCCCCATTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTG
71516076 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
71516099 AAAAGAGGCT
1 AAAAG-GGCT
71516109 AGGCCTCCAG
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 28 0.29
26 58 0.59
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:71516321 original size:42 final size:42
Alignment explanation
Indices: 71516243--71516325 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
71516233 GTCTCCCCAA
* * ** *
71516243 ATGGGCTTGCATAGATTCATTGGTATTTCATATGATATTGAG
1 ATGGGCTTGCATACATCCATTGACATTACATATGATATTGAG
* *
71516285 ATGGGCTTGCATACATCCATTGACATTACTTGTGATATTGA
1 ATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
71516326 AATAGGCCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.39
Consensus pattern (42 bp):
ATGGGCTTGCATACATCCATTGACATTACATATGATATTGAG
Found at i:71518706 original size:13 final size:13
Alignment explanation
Indices: 71518686--71518723 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
71518676 CCAAAGCAGT
71518686 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
* *
71518699 GTAAAAGAATAAA
1 GAAAAAGAAAAAA
71518712 GAAAAAGAAAAA
1 GAAAAAGAAAAA
71518724 TGGAAGAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:71519046 original size:66 final size:66
Alignment explanation
Indices: 71518940--71519070 Score: 244
Period size: 66 Copynumber: 2.0 Consensus size: 66
71518930 CACTGAATTA
71518940 AACTTAAGTCAATACTTCAAGGGTAAGGATTTAGTTAAAACAAAATAGCAAGCCTTAACAAAAGA
1 AACTTAAGTCAATACTTCAAGGGTAAGGATTTAGTTAAAACAAAATAGCAAGCCTTAACAAAAGA
71519005 G
66 G
* *
71519006 AACTTAAGTTAATACTTCAAGGGTAAGGATTTGGTTAAAACAAAATAGCAAGCCTTAACAAAAGA
1 AACTTAAGTCAATACTTCAAGGGTAAGGATTTAGTTAAAACAAAATAGCAAGCCTTAACAAAAGA
71519071 AAGACTCGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.24
Consensus pattern (66 bp):
AACTTAAGTCAATACTTCAAGGGTAAGGATTTAGTTAAAACAAAATAGCAAGCCTTAACAAAAGA
G
Found at i:71523975 original size:27 final size:27
Alignment explanation
Indices: 71523864--71524154 Score: 374
Period size: 27 Copynumber: 10.9 Consensus size: 27
71523854 CCAAATTGAT
* *
71523864 AAATGATTGTTTTGCCTTTA-GTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
*
71523890 AAATGACTATTTTGCCCTTA-GTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
71523916 AAATGACTGTTTTGCCCTTA-GTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
*
71523942 AAATGACTGTTTTGCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
*
71523969 AAATGACTGTTTTGCCCTTATGTAGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
71523996 AAATGACTATTTTTGCTCTTATGTGGTA
1 AAATGACT-GTTTTGCCCTTATGTGGTA
* *
71524024 AAATAATTGTTTTGCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* *
71524051 AAATGATTGTTTTGCCCTTATGTGATA
1 AAATGACTGTTTTGCCCTTATGTGGTA
**
71524078 AAATGACTGTTTTGCCCTTATACGGTA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* * *
71524105 AAATGACTATTTTGCCCTTATATGATA
1 AAATGACTGTTTTGCCCTTATGTGGTA
* * *
71524132 AGATGACTATTTTGCTC-TATGTG
1 AAATGACTGTTTTGCCCTTATGTG
71524155 ATGCATACAT
Statistics
Matches: 237, Mismatches: 26, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 73 0.31
27 142 0.60
28 22 0.09
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATGTGGTA
Found at i:71524425 original size:38 final size:38
Alignment explanation
Indices: 71524374--71524461 Score: 158
Period size: 38 Copynumber: 2.3 Consensus size: 38
71524364 GTGCTAATTC
* *
71524374 TGGAGTGTAGGGATGGGTGGGTTGATTATATCCCCGCA
1 TGGAGTGTAGGGATGGGTGAGTTGATTATATCCCCACA
71524412 TGGAGTGTAGGGATGGGTGAGTTGATTATATCCCCACA
1 TGGAGTGTAGGGATGGGTGAGTTGATTATATCCCCACA
71524450 TGGAGTGTAGGG
1 TGGAGTGTAGGG
71524462 TTGGACGGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.20, C:0.11, G:0.40, T:0.28
Consensus pattern (38 bp):
TGGAGTGTAGGGATGGGTGAGTTGATTATATCCCCACA
Found at i:71524529 original size:18 final size:18
Alignment explanation
Indices: 71524506--71524552 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
71524496 AGGACTTGTA
71524506 TACTGTTACTACACTGAT
1 TACTGTTACTACACTGAT
* *
71524524 TACTGTTATTGCACTGAT
1 TACTGTTACTACACTGAT
*
71524542 TATTGTTACTA
1 TACTGTTACTA
71524553 TAATGGGCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (18 bp):
TACTGTTACTACACTGAT
Found at i:71544909 original size:27 final size:27
Alignment explanation
Indices: 71544865--71544946 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
71544855 GCTGCTAGAT
71544865 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATA-TTTGTGGCAGTGCCACCAGA
* *
71544893 ACAGATATATGTGGCAGGGCCACCAGA
1 ACAGATATTTGTGGCAGTGCCACCAGA
71544920 ACAGATAATTTGTGGCA-TAGCCACCAG
1 ACAGAT-ATTTGTGGCAGT-GCCACCAG
71544947 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.50
28 24 0.50
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (27 bp):
ACAGATATTTGTGGCAGTGCCACCAGA
Found at i:71545099 original size:28 final size:28
Alignment explanation
Indices: 71545052--71545144 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
71545042 AAATTAACCC
* * *
71545052 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGCATACA
71545080 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGCATACA
71545108 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGCATACA
*
71545136 TTGGGGTAT
1 TAGGGGTAT
71545145 AATAGTACAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.28, C:0.08, G:0.27, T:0.38
Consensus pattern (28 bp):
TAGGGGTATTATGGTAATTTTGCATACA
Found at i:71567288 original size:27 final size:27
Alignment explanation
Indices: 71567236--71567325 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
71567226 GTGACAGAGT
71567236 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
71567265 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
71567292 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
71567320 CACCAG
1 CACCAG
71567326 GACGTTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:71567478 original size:28 final size:28
Alignment explanation
Indices: 71567447--71567551 Score: 183
Period size: 28 Copynumber: 3.8 Consensus size: 28
71567437 TATAAAGGTC
71567447 ATTTTGCATACATAGGGGTATTATGGTA
1 ATTTTGCATACATAGGGGTATTATGGTA
*
71567475 ATTTTGTATACATAGGGGTATTATGGTA
1 ATTTTGCATACATAGGGGTATTATGGTA
71567503 ATTTTGCATACATAGGGGTATTATGGTA
1 ATTTTGCATACATAGGGGTATTATGGTA
* *
71567531 ATTTTGCATGCATTGGGGTAT
1 ATTTTGCATACATAGGGGTAT
71567552 AATAGTACAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.27, C:0.07, G:0.26, T:0.41
Consensus pattern (28 bp):
ATTTTGCATACATAGGGGTATTATGGTA
Found at i:71585935 original size:27 final size:27
Alignment explanation
Indices: 71585884--71585973 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
71585874 GTGACAGAGT
71585884 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* * *
71585913 CACCAGAATAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
*
71585940 CACCGGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
71585968 CACCAG
1 CACCAG
71585974 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:71586227 original size:28 final size:28
Alignment explanation
Indices: 71586079--71586212 Score: 232
Period size: 28 Copynumber: 4.8 Consensus size: 28
71586069 AAATTAACTC
* * * *
71586079 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGTATACA
71586107 TAGGGGTATTATGGTAATTTTGTATACA
1 TAGGGGTATTATGGTAATTTTGTATACA
71586135 TAGGGGTATTATGGTAATTTTGTATACA
1 TAGGGGTATTATGGTAATTTTGTATACA
71586163 TAGGGGTATTATGGTAATTTTGTATACA
1 TAGGGGTATTATGGTAATTTTGTATACA
71586191 TAGGGGTATTATGGTAATTTTG
1 TAGGGGTATTATGGTAATTTTG
71586213 CATGCATTAG
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 102 1.00
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.41
Consensus pattern (28 bp):
TAGGGGTATTATGGTAATTTTGTATACA
Found at i:71595319 original size:27 final size:27
Alignment explanation
Indices: 71595251--71595351 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 27
71595241 ATATAGAGAA
* *
71595251 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATA-TT
* * *
71595280 TCTGGCAGTGCCACCAGAACAGATATA
1 TGTGGCAGAGCCACCAGAACAGATATT
*
71595307 TGTGGCAGGGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGAT-ATT
*
71595335 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
71595352 GACGCTTCCT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 23 0.38
28 24 0.39
29 14 0.23
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAACAGATATT
Found at i:71595504 original size:28 final size:28
Alignment explanation
Indices: 71595457--71595523 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
71595447 AAATTAACCC
*
71595457 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
71595485 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
71595513 TAGGGGTATAA
1 TAGGGGTATAA
71595524 TAGTACATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:71595783 original size:8 final size:8
Alignment explanation
Indices: 71595767--71595798 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
71595757 CCCAAAATAC
71595767 CGGCTTTT
1 CGGCTTTT
*
71595775 CGGCATTT
1 CGGCTTTT
71595783 CGGCTTTT
1 CGGCTTTT
71595791 CGGCTTTT
1 CGGCTTTT
71595799 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:71600173 original size:23 final size:23
Alignment explanation
Indices: 71600143--71600187 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
71600133 ACGGCCTAGA
71600143 CACACGGTAGTGTCTAAAGCCGC
1 CACACGGTAGTGTCTAAAGCCGC
*
71600166 CACACGGTCGTGTCTAAAGCCG
1 CACACGGTAGTGTCTAAAGCCG
71600188 TGTAAAGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (23 bp):
CACACGGTAGTGTCTAAAGCCGC
Found at i:71606913 original size:93 final size:93
Alignment explanation
Indices: 71606754--71606925 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
71606744 AGGATTTTTG
* * * * * * *
71606754 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
71606819 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
71606847 GGCATCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGTAAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
71606912 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
71606926 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:71614049 original size:42 final size:43
Alignment explanation
Indices: 71613999--71614111 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
71613989 ATGTTTTATG
* *
71613999 TGTAAGACCACGTCTAGGACGTTGGCATCG-TATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
*
71614041 TGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
* * *
71614084 TATAAGACCACATCTGGGACGTTAGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
71614112 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.02
42 25 0.42
43 32 0.54
44 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:71625025 original size:46 final size:46
Alignment explanation
Indices: 71624975--71625147 Score: 194
Period size: 46 Copynumber: 3.7 Consensus size: 46
71624965 TGGTTGAGCA
* *
71624975 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
71625021 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
*
71625068 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
71625114 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71625148 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 3 0.03
46 57 0.53
47 26 0.24
48 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:71625131 original size:93 final size:93
Alignment explanation
Indices: 71624972--71625141 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
71624962 GGATGGTTGA
* *
71624972 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
71625037 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* *
71625065 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAG
71625129 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
71625142 CACTTAGGGG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:71628425 original size:56 final size:56
Alignment explanation
Indices: 71628339--71628458 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
71628329 ACAAGGGATG
71628339 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
71628395 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
71628451 ATGGGCAA
1 ATGGGCAA
71628459 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:71629817 original size:40 final size:40
Alignment explanation
Indices: 71629586--71629810 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
71629576 TCGAATGATG
* * * *
71629586 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
71629626 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
71629666 TCCGGGCTAAG-CCCGAAGGCATTGGTGCCAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71629705 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71629745 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
71629786 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71629811 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 120 0.75
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71629832 original size:119 final size:119
Alignment explanation
Indices: 71629586--71629843 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
71629576 TCGAATGATG
* *
71629586 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * **
71629651 GTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCCAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACCAGTTACTAAA
* * * **
71629705 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
71629768 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACCAGTTA-CTAAA
* *
71629825 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
71629844 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACCAGTTACTAAA
Found at i:71635754 original size:46 final size:46
Alignment explanation
Indices: 71635704--71635829 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
71635694 TGGTTGAGCA
* *
71635704 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACG
*
71635750 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACG
* *
71635796 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71635830 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACG
Found at i:71637579 original size:32 final size:32
Alignment explanation
Indices: 71637543--71637608 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
71637533 ATTTTGGGCT
* *
71637543 CACACAGCCTAAATTGCCTTACCCGTGTGGCC
1 CACACAGCCCAAATTGCCTTACCCATGTGGCC
* *
71637575 CACACGGCCCAAATTGTCTTACCCATGTGGCC
1 CACACAGCCCAAATTGCCTTACCCATGTGGCC
71637607 CA
1 CA
71637609 AATTGTCTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.21
Consensus pattern (32 bp):
CACACAGCCCAAATTGCCTTACCCATGTGGCC
Found at i:71637606 original size:23 final size:23
Alignment explanation
Indices: 71637580--71637629 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
71637570 TGGCCCACAC
71637580 GGCCCAAATTGTCTTACCCATGT
1 GGCCCAAATTGTCTTACCCATGT
*
71637603 GGCCCAAATTGTCTTGCCCATGT
1 GGCCCAAATTGTCTTACCCATGT
71637626 GGCC
1 GGCC
71637630 ACATGGCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.32, G:0.22, T:0.28
Consensus pattern (23 bp):
GGCCCAAATTGTCTTACCCATGT
Found at i:71645679 original size:6 final size:6
Alignment explanation
Indices: 71645663--71645711 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
71645653 TCCAAAGTAC
* * *
71645663 AGAAAA GGAAAA AGAAAA AGAATAA AGGAAA AGAAAA ATGGAAA AGAAA
1 AGAAAA AGAAAA AGAAAA AGAA-AA AGAAAA AGAAAA A-GAAAA AGAAA
71645712 GAAGGGGGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (6 bp):
AGAAAA
Found at i:71645689 original size:13 final size:12
Alignment explanation
Indices: 71645663--71645711 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
71645653 TCCAAAGTAC
*
71645663 AGAAAAGGAAAA
1 AGAAAAAGAAAA
71645675 AGAAAAAGAATAA
1 AGAAAAAGAA-AA
*
71645688 AGGAAAAGAAAA
1 AGAAAAAGAAAA
*
71645700 ATGGAAAAGAAA
1 A-GAAAAAGAAA
71645712 GAAGGGGGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 12 0.36
13 21 0.64
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (12 bp):
AGAAAAAGAAAA
Found at i:71650591 original size:18 final size:18
Alignment explanation
Indices: 71650568--71650602 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71650558 TGGCTCAACT
*
71650568 AAATATTTAAAAAATATA
1 AAATATGTAAAAAATATA
*
71650586 AAATATGTGAAAAATAT
1 AAATATGTAAAAAATAT
71650603 TGTCCACGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
AAATATGTAAAAAATATA
Found at i:71653278 original size:14 final size:14
Alignment explanation
Indices: 71653253--71653287 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
71653243 ATGGAAATAG
*
71653253 AAATAGATATATAT
1 AAATAAATATATAT
*
71653267 ATATAAATATATAT
1 AAATAAATATATAT
71653281 AAATAAA
1 AAATAAA
71653288 AGAAAGACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AAATAAATATATAT
Found at i:71654443 original size:13 final size:13
Alignment explanation
Indices: 71654425--71654453 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
71654415 GAGCTACCTT
71654425 ATATAATGTTTTA
1 ATATAATGTTTTA
71654438 ATATAATGTTTTA
1 ATATAATGTTTTA
71654451 ATA
1 ATA
71654454 GATAACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
ATATAATGTTTTA
Found at i:71656501 original size:22 final size:22
Alignment explanation
Indices: 71656473--71656537 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
71656463 GCAAATACTT
*
71656473 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
71656495 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
71656517 TTGGCGCAAAGTCATAATCAG
1 TTGGCACAAAGCCATAATCAG
71656538 AATAATTGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:71656741 original size:41 final size:41
Alignment explanation
Indices: 71656684--71656801 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 41
71656674 GCCACCAGCG
* *
71656684 GATCCACGGTCGTCAAGCAACCATGCAATCCTTAATCGGTA
1 GATCCACGGTCGTCAAGCAACCATGCAATCCTCAATCAGTA
* * *
71656725 GATCCACGGTCCTCAAGCAACCATGCGATCCTCAATCAGTG
1 GATCCACGGTCGTCAAGCAACCATGCAATCCTCAATCAGTA
* * **
71656766 GATCCACGATCGTCAAACAACCATGTGATCCTCAAT
1 GATCCACGGTCGTCAAGCAACCATGCAATCCTCAAT
71656802 TTCTTCCTCT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (41 bp):
GATCCACGGTCGTCAAGCAACCATGCAATCCTCAATCAGTA
Found at i:71657069 original size:27 final size:27
Alignment explanation
Indices: 71657039--71657109 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
71657029 TTTCACCCTA
* *
71657039 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAAATCTACAAAC
* * *
71657066 CAAGGGTATTTCGGTGATTTTACAAAC
1 CAAGGGTATTTCGGTAAATCTACAAAC
* *
71657093 CAATGGTATTTCTGTAA
1 CAAGGGTATTTCGGTAA
71657110 TTTTTGAAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAAATCTACAAAC
Found at i:71657112 original size:27 final size:27
Alignment explanation
Indices: 71657059--71657444 Score: 229
Period size: 27 Copynumber: 14.2 Consensus size: 27
71657049 TTGGTAAATC
* * *
71657059 TACAAACCAAGGGTATTTCGGTGATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* *
71657086 TACAAACCAATGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
** *
71657113 TTGAAAGTTAAGGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTCTGTAATTT
* *
71657141 GT--AAATTAGGGGTATTTCTGTAATTT
1 -TACAAATCAAGGGTATTTCTGTAATTT
* *
71657167 TCCAAATTAAGGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCTG-TAATTT
* *
71657194 TCCAAATCATGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
** *
71657221 TACAAATTGAGGGTATTT-TGGTTATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
* * *
71657248 TACAAGTCGAGGATATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCTG-TAATTT
** *
71657275 TACATGTCAAGGGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* * *
71657302 CACAAAT-TAGTGGTATTT-TGGT-GTTT
1 TACAAATCAAG-GGTATTTCT-GTAATTT
* * *
71657328 TACAAATCTAGGGTACTTC-GATAATCT
1 TACAAATCAAGGGTATTTCTG-TAATTT
* * *
71657355 TACAAGTCGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* ** *
71657382 TATAGGT-AGAGGGTATTTCGGTAATTT
1 TACAAATCA-AGGGTATTTCTGTAATTT
*
71657409 CACAAATCAAGGGTGGTATTT-TGGTAATTT
1 TACAAATCAA--G-GGTATTTCT-GTAATTT
71657439 TACAAA
1 TACAAA
71657445 CCAGAGGTAT
Statistics
Matches: 288, Mismatches: 48, Indels: 43
0.76 0.13 0.11
Matches are distributed among these distances:
25 2 0.01
26 41 0.14
27 203 0.70
28 21 0.07
29 2 0.01
30 19 0.07
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCTGTAATTT
Found at i:71657228 original size:81 final size:81
Alignment explanation
Indices: 71657041--71657422 Score: 286
Period size: 81 Copynumber: 4.7 Consensus size: 81
71657031 TCACCCTACA
* * * ** * * * *
71657041 AGGGTGTTTTGGTAAATCTACAAACCA-AGGGTATTTCGGTGATTTTACAAACCAATGGTATTTC
1 AGGGTATTTTGGTAATTTTACAAATTAGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTC
*
71657105 TG-TAATTTTTGA-AAGTTA
66 -GATAA-TTTT-ACAAG-TC
* *
71657123 AGGGTATTTCT-GTAATTTGT--AAATTAG-GGGTATTTCT-GTAATTTTCCAAATTAAGGGTAT
1 AGGGTATTT-TGGTAATTT-TACAAATTAGAGGGTATTT-TGGTAATTTTACAAATCAAGGGTAT
* *
71657183 TTCGATAATTTTCCAAATC
63 TTCGATAATTTTACAAGTC
* * * *
71657202 ATGGGTATTTTGGTAATTTTACAAATT-GAGGGTATTTTGGTTATTTTACAAGTCGAGGATATTT
1 A-GGGTATTTTGGTAATTTTACAAATTAGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTT
*
71657266 CGATAATTTTACATGTC
65 CGATAATTTTACAAGTC
* * * * * *
71657283 AAGGGTATTTCT-ATAATTTCACAAATTAG-TGGTATTTTGGT-GTTTTACAAATCTAGGGTACT
1 -AGGGTATTT-TGGTAATTTTACAAATTAGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATT
*
71657345 TCGATAATCTTACAAGTC
64 TCGATAATTTTACAAGTC
* * ** * *
71657363 GAGGGTATTTCGGTAATTTTA-TAGGTAGAGGGTATTTCGGTAATTTCACAAATCAAGGGT
1 -AGGGTATTTTGGTAATTTTACAAATTAGAGGGTATTTTGGTAATTTTACAAATCAAGGGT
71657423 GGTATTTTGG
Statistics
Matches: 237, Mismatches: 45, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
79 8 0.03
80 82 0.35
81 129 0.54
82 16 0.07
83 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAATTAGAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTC
GATAATTTTACAAGTC
Found at i:71657486 original size:27 final size:26
Alignment explanation
Indices: 71657454--71657555 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 26
71657444 ACCAGAGGTA
*
71657454 TTCAGTAATTCTACCTTACAGGGGGAT
1 TTCAGTAATTCTACC-TACAGGGGCAT
71657481 TTCAGTAATTCTATCCTACAGGGGCAT
1 TTCAGTAATTCTA-CCTACAGGGGCAT
*
71657508 TTCAGTAATTCTACCCTACTA-GGGTAT
1 TTCAGTAATTCTA-CCTAC-AGGGGCAT
*
71657535 TTCAGTAATACTAGCCTACAG
1 TTCAGTAATTCTA-CCTACAG
71657556 ATATGAGATT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
26 1 0.01
27 63 0.94
28 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (26 bp):
TTCAGTAATTCTACCTACAGGGGCAT
Found at i:71659771 original size:22 final size:22
Alignment explanation
Indices: 71659742--71659811 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
71659732 ACACTAAGTC
*
71659742 AACAGGACAGCTCA-ACGCCGTA
1 AACAGGACAGCACATA-GCCGTA
* *
71659764 GACAGGACGGCACATAGCCGTA
1 AACAGGACAGCACATAGCCGTA
* *
71659786 AACAGGACAACACATAGCTGTA
1 AACAGGACAGCACATAGCCGTA
71659808 AACA
1 AACA
71659812 TTGCAGCAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 39 0.98
23 1 0.03
ACGTcount: A:0.40, C:0.27, G:0.23, T:0.10
Consensus pattern (22 bp):
AACAGGACAGCACATAGCCGTA
Found at i:71660281 original size:41 final size:41
Alignment explanation
Indices: 71660223--71660341 Score: 166
Period size: 41 Copynumber: 2.9 Consensus size: 41
71660213 AGCCACCAGC
* * * *
71660223 GGATCCACAGTCGTCAAGTAACCATGCAATCCTTAATCGGT
1 GGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCGGT
* *
71660264 GGATCCACGGTCCTCAAGCAACCATGTGATCCTCAATCGGT
1 GGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCGGT
* *
71660305 GGATCCACGATCGTCAAACAACCATGCGATCCTCAAT
1 GGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
71660342 TTCTTCCTCT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (41 bp):
GGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCGGT
Found at i:71660734 original size:27 final size:27
Alignment explanation
Indices: 71660631--71660988 Score: 220
Period size: 27 Copynumber: 13.2 Consensus size: 27
71660621 ACAGACCAAT
*
71660631 GGTATTTCTG-TAATTTTTA-AAACTTAAG
1 GGTATTTC-GATAA-TTTTACAAA-TCAAG
** * *
71660659 GGTATTTCTG-TAATTTTGTAAAACAGG
1 GGTATTTC-GATAATTTTACAAATCAAG
* *
71660686 GGTATTTCCATAATTTTTCAAATCAAG
1 GGTATTTCGATAATTTTACAAATCAAG
* * * * *
71660713 GGTATTTTGGTAATTTTCCAAATTAGG
1 GGTATTTCGATAATTTTACAAATCAAG
* * *
71660740 GGTATTTTGCTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCAAG
* * * *
71660767 AGTATTTCGATAATTTTCCGAGTCAAG
1 GGTATTTCGATAATTTTACAAATCAAG
* ** *
71660794 GGTATTTCGATAACTTTACAGGTCGAG
1 GGTATTTCGATAATTTTACAAATCAAG
* * *
71660821 GGTATTTCGATAATTTCATAAATCAGG
1 GGTATTTCGATAATTTTACAAATCAAG
* * *
71660848 GGTATTTTGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCAAG
* * * *
71660875 GGTATTTTGATAATCTTACAAGTCGAG
1 GGTATTTCGATAATTTTACAAATCAAG
* * ** **
71660902 GGTATTTCGGTAATTTTATAGGTTGAG
1 GGTATTTCGATAATTTTACAAATCAAG
* * * *
71660929 GGTATTTC-AGTAATTTCATAAATTAGG
1 GGTATTTCGA-TAATTTTACAAATCAAG
* * * *
71660956 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTCGATAATTTTACAAATCAAG
71660983 GGTATT
1 GGTATT
71660989 CAGTAATTCT
Statistics
Matches: 259, Mismatches: 67, Indels: 9
0.77 0.20 0.03
Matches are distributed among these distances:
27 243 0.94
28 16 0.06
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAATCAAG
Found at i:71660781 original size:108 final size:108
Alignment explanation
Indices: 71660660--71660977 Score: 273
Period size: 108 Copynumber: 2.9 Consensus size: 108
71660650 AAACTTAAGG
** * * * * *
71660660 GTATTTCTG-TAATTTTGTAAAACAGGGGTATTTCCATAATTTTTCAAATCAAGGGTATTTTGGT
1 GTATTTC-GATAATTTTCCAAAACAAGGGTATTTCCATAACTTTACAAATCAAGGGTATTTCGAT
*
71660724 AATTTTC-CAAATTAGGGGTATTTTGCTAATTTTACAAATCGAGA
65 AA-TTTCACAAATCAGGGGTATTTTGCTAATTTTACAAATCGAGA
* ** * ** *
71660768 GTATTTCGATAATTTTCCGAGTCAAGGGTATTTCGATAACTTTACAGGTCGAGGGTATTTCGATA
1 GTATTTCGATAATTTTCCAAAACAAGGGTATTTCCATAACTTTACAAATCAAGGGTATTTCGATA
* * *
71660833 ATTTCATAAATCAGGGGTATTTTGGTAATTTTACAAATCGAGG
66 ATTTCACAAATCAGGGGTATTTTGCTAATTTTACAAATCGAGA
* * * ** * ** * * ** **
71660876 GTATTTTGATAATCTTACAAGTCGAGGGTATTTCGGTAATTTTATAGGTTGAGGGTATTTC-AGT
1 GTATTTCGATAATTTTCCAAAACAAGGGTATTTCCATAACTTTACAAATCAAGGGTATTTCGA-T
* * *
71660940 AATTTCATAAATTAGGGGTATTTTGGTAATTTTACAAA
65 AATTTCACAAATCAGGGGTATTTTGCTAATTTTACAAA
71660978 CCAGGGGTAT
Statistics
Matches: 179, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
107 6 0.03
108 173 0.97
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (108 bp):
GTATTTCGATAATTTTCCAAAACAAGGGTATTTCCATAACTTTACAAATCAAGGGTATTTCGATA
ATTTCACAAATCAGGGGTATTTTGCTAATTTTACAAATCGAGA
Found at i:71660988 original size:108 final size:108
Alignment explanation
Indices: 71660732--71660977 Score: 368
Period size: 108 Copynumber: 2.3 Consensus size: 108
71660722 GTAATTTTCC
* * * * *
71660732 AAATTAGGGGTATTTTGCTAATTTTACAAATCGAGAGTATTTCGATAATTTTCCGAGTCAAGGGT
1 AAATTAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATCTTACAAGTCAAGGGT
71660797 ATTTCGATAACTTTACAGGTCGAGGGTATTTCGATAATTTCAT
66 ATTTCGATAACTTTACAGGTCGAGGGTATTTCGATAATTTCAT
* * *
71660840 AAATCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGATAATCTTACAAGTCGAGGGT
1 AAATTAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATCTTACAAGTCAAGGGT
* * * *
71660905 ATTTCGGTAATTTTATAGGTTGAGGGTATTTC-AGTAATTTCAT
66 ATTTCGATAACTTTACAGGTCGAGGGTATTTCGA-TAATTTCAT
71660948 AAATTAGGGGTATTTTGGTAATTTTACAAA
1 AAATTAGGGGTATTTTGGTAATTTTACAAA
71660978 CCAGGGGTAT
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
107 1 0.01
108 123 0.99
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (108 bp):
AAATTAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATCTTACAAGTCAAGGGT
ATTTCGATAACTTTACAGGTCGAGGGTATTTCGATAATTTCAT
Found at i:71661022 original size:53 final size:55
Alignment explanation
Indices: 71660952--71661076 Score: 141
Period size: 54 Copynumber: 2.3 Consensus size: 55
71660942 TTTCATAAAT
** * * *
71660952 TAGGGGTATTTTGGTAATTTTA-CAAACCAGGGGTA-TTCAGTAATTCTACCTTA-
1 TAGGGGTATTTCAGTAATTCTATCAAA-CAGGGGCATTTCAGTAATTCTACCCTAC
** *
71661005 TAGGGGTATTTCAGTAATTCTATCCTATAGGGGCATTTCAGTAATTCTACCCTAC
1 TAGGGGTATTTCAGTAATTCTATCAAACAGGGGCATTTCAGTAATTCTACCCTAC
71661060 TA-GGGTATTTCAGTAAT
1 TAGGGGTATTTCAGTAAT
71661077 ACTAGCCTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
53 25 0.41
54 34 0.56
55 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (55 bp):
TAGGGGTATTTCAGTAATTCTATCAAACAGGGGCATTTCAGTAATTCTACCCTAC
Found at i:71661086 original size:27 final size:26
Alignment explanation
Indices: 71660980--71661085 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
71660970 TTTACAAACC
71660980 AGGGGTA-TTCAGTAATTCTACCTTAT
1 AGGGGTATTTCAGTAATTCTACC-TAT
71661006 AGGGGTATTTCAGTAATTCTATCCTAT
1 AGGGGTATTTCAGTAATTCTA-CCTAT
*
71661033 AGGGGCATTTCAGTAATTCTACCCTACT
1 AGGGGTATTTCAGTAATTCTA-CCTA-T
*
71661061 A-GGGTATTTCAGTAATACTAGCCTA
1 AGGGGTATTTCAGTAATTCTA-CCTA
71661086 CAGATATGAG
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
26 7 0.10
27 61 0.85
28 4 0.06
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (26 bp):
AGGGGTATTTCAGTAATTCTACCTAT
Found at i:71661887 original size:36 final size:36
Alignment explanation
Indices: 71661847--71661917 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
71661837 AAAACCAAAT
71661847 TTTTTGCTAAAGCCCAGGTTTGAACCCAAGATTTCA
1 TTTTTGCTAAAGCCCAGGTTTGAACCCAAGATTTCA
* *
71661883 TTTTTGCTAAAGCCTAGGTTTGAAGCCAAGATTTC
1 TTTTTGCTAAAGCCCAGGTTTGAACCCAAGATTTC
71661918 TCCAACACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (36 bp):
TTTTTGCTAAAGCCCAGGTTTGAACCCAAGATTTCA
Found at i:71663465 original size:13 final size:12
Alignment explanation
Indices: 71663433--71663482 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
71663423 AACCATATAT
71663433 AAATAA-TAA-A
1 AAATAATTAATA
71663443 AAATAA-TAATA
1 AAATAATTAATA
*
71663454 ATAGTAATTAATA
1 A-AATAATTAATA
71663467 GAAATAATTAATA
1 -AAATAATTAATA
71663480 AAA
1 AAA
71663483 CGACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:71663812 original size:14 final size:14
Alignment explanation
Indices: 71663793--71663823 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
71663783 ATATATTTAC
*
71663793 ATAATAAATATATA
1 ATAATAAATAAATA
71663807 ATAATAAATAAATA
1 ATAATAAATAAATA
71663821 ATA
1 ATA
71663824 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:71663824 original size:19 final size:18
Alignment explanation
Indices: 71663795--71663831 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
71663785 ATATTTACAT
71663795 AATAAATATATAATAATA
1 AATAAATATATAATAATA
71663813 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
71663832 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:71663912 original size:64 final size:64
Alignment explanation
Indices: 71663804--71663933 Score: 160
Period size: 64 Copynumber: 2.0 Consensus size: 64
71663794 TAATAAATAT
* *
71663804 ATAATAATAAATAAATAATATAATAATATGAAACATAACTCAAATTAATTAAATTAATAG-AAA
1 ATAATAATAAATAAATAATATAAAAATATGAAACATAACTCAAATTAATTAAATTAACAGTAAA
* *
71663867 ATAATAAT-AATAACA-AATATAAAAATAATGAGA-ATAAAGCTCAAATTAATTAATTTAACAGT
1 ATAATAATAAATAA-ATAATATAAAAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAACAGT
71663929 AAA
62 AAA
71663932 AT
1 AT
71663934 TACAAAAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
62 17 0.29
63 16 0.28
64 20 0.34
65 5 0.09
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (64 bp):
ATAATAATAAATAAATAATATAAAAATATGAAACATAACTCAAATTAATTAAATTAACAGTAAA
Found at i:71664289 original size:37 final size:37
Alignment explanation
Indices: 71664239--71664310 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
71664229 AGAGTTAGTG
71664239 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTA
1 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTA
71664276 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTG
1 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTG
71664311 ATGGAGTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.18, C:0.00, G:0.53, T:0.29
Consensus pattern (37 bp):
GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTA
Found at i:71664311 original size:29 final size:29
Alignment explanation
Indices: 71664277--71664339 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
71664267 TAGGGTGTAG
71664277 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGTGG-TCGGTTTAGTA
* *
71664306 GGGTGATGGAGTTAGTGGTCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGTCGGTTTAGTA
71664335 GGGTG
1 GGGTG
71664340 TTTAATCTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.16, C:0.02, G:0.51, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGTCGGTTTAGTA
Found at i:71664753 original size:87 final size:87
Alignment explanation
Indices: 71664565--71664955 Score: 420
Period size: 87 Copynumber: 4.5 Consensus size: 87
71664555 CAACGAAGAT
* * * * *
71664565 AAGATCTG-CAATTTTAGCCTGTTACCCTACTGCTTAGGTGGTTAAGGCGAG--TCTTCGACCTG
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTGTATCTTTGATCTG
** * *
71664627 CTCTGCCACTGC-TCGGCGAGCC
66 CTCCACCACTGCTTAGG-GAGAC
* *
71664649 CAGATCTGTAAATTTTAGCCTGTTAGCCTACTGCTTAGGGGGTTAAGGCGTGTATCTTTGATCTG
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTGTATCTTTGATCTG
*
71664714 CTCCACCACTGC-TCGGCGA-AC
66 CTCCACCACTGCTTAGG-GAGAC
* *
71664735 GCAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCGTGTATCTTTGATCT
1 -AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTGTATCTTTGATCT
* *
71664800 GCTCCACTACTGCTTAGGGAGAT
65 GCTCCACCACTGCTTAGGGAGAC
* * * * * * *
71664823 AAGATCTAT-AATCTTCAGCTTGTTACCCTATTGCTTAAGGAGTTAAAGCGTGTATCTTTGATCT
1 AAGATCTGTAAAT-TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTGTATCTTTGATCT
* * *
71664887 GCTCCACTACCGCTTAAGGAGAC
65 GCTCCACCACTGCTTAGGGAGAC
** * *
71664910 AAGATCTGTAGTTTTTAGCCTATTA-CCTACTGTTTAGGGGGTTAAG
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
71664956 ATTGGTGGTT
Statistics
Matches: 263, Mismatches: 36, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
84 7 0.03
85 39 0.15
86 20 0.08
87 192 0.73
88 5 0.02
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.33
Consensus pattern (87 bp):
AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTGTATCTTTGATCTG
CTCCACCACTGCTTAGGGAGAC
Found at i:71664906 original size:43 final size:43
Alignment explanation
Indices: 71664763--71664907 Score: 134
Period size: 43 Copynumber: 3.3 Consensus size: 43
71664753 GCCTGTTACC
* *
71664763 CTACTGCTTAAGGGGTTAAGGCGTGTATCTTTGATCTGCTCCA
1 CTACTGCTTAAGGAGTTAAAGCGTGTATCTTTGATCTGCTCCA
* * * * * * *
71664806 CTACTGCTTAGGGAGATAAGATC-TATAATC-TTCAGCTTGTTACC-
1 CTACTGCTTAAGGAGTTAA-AGCGTGT-ATCTTTGATC-TGCT-CCA
*
71664850 CTATTGCTTAAGGAGTTAAAGCGTGTATCTTTGATCTGCTCCA
1 CTACTGCTTAAGGAGTTAAAGCGTGTATCTTTGATCTGCTCCA
*
71664893 CTACCGCTTAAGGAG
1 CTACTGCTTAAGGAG
71664908 ACAAGATCTG
Statistics
Matches: 76, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
42 2 0.03
43 43 0.57
44 29 0.38
45 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (43 bp):
CTACTGCTTAAGGAGTTAAAGCGTGTATCTTTGATCTGCTCCA
Found at i:71665264 original size:133 final size:134
Alignment explanation
Indices: 71664967--71665720 Score: 989
Period size: 133 Copynumber: 5.6 Consensus size: 134
71664957 TTGGTGGTTT
* * * * ** *
71664967 GAATTTGCTCCATTGCCGATACATGGAGATAAGATTCTCCAAAATTCAATCTGCTTCACTCCTGC
1 GAATCTGCTCCATCGCCGGTACGTGGAGATAAGATT-TCCAAAATTTGATCTGCTCCACTCCTGC
* * *
71665032 TCAATGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGTTAAT
65 TCAGTGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGAT
71665097 GATTG
130 GATTG
* *
71665102 GAATCTGCTCCATCGCTGGTACGTGGAGATAAGATTTGTCAAAATTTGATCTGCTCCACTCCTGC
1 GAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTT-CCAAAATTTGATCTGCTCCACTCCTGC
* * *
71665167 TCAGCGAAGATAAGATCTAG-A-GTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGAT
65 TCAGTGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGAT
**
71665230 GGCTG
130 GATTG
* * * * * *
71665235 AAACCTGCTCCATTGCCGATACATGGAGATAAGA-TTCATCAAAATTTGATCTGCTCCGCTCCTG
1 GAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTTC--CAAAATTTGATCTGCTCCACTCCTG
* *
71665299 CTCA-TGAAGATAAGACCTGGTATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGA
64 CTCAGTGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGA
*
71665363 TGATTA
129 TGATTG
* * * * *
71665369 GAATCTTCTCCATCGCTGGTACGTTGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTAC
1 GAATCTGCTCCATCGCCGGTACGTGGAGATAAGATT-TCCAAAATTTGATCTGCTCCACTCCTGC
* * *
71665434 TCAATGAAGATAAGATCTGGTATATTTAGCCTACTCCACTCCTGCTCAGTGAAGATAAGGTTGAT
65 TCAGTGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGAT
71665499 GATTG
130 GATTG
* * * * * *
71665504 GAATCTGCTCCATCGCCGGTACGTGAAGATAATATTCTCTAAAATTCGATCTGCTTCACTCTTGC
1 GAATCTGCTCCATCGCCGGTACGTGGAGATAAGATT-TCCAAAATTTGATCTGCTCCACTCCTGC
* *
71665569 TCAGTGAAGATAAGATCTGG--TATTTAGCCTGCTCCACTCCTACTTAGTGAAGATAAGGCTGAT
65 TCAGTGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGAT
71665632 GATTG
130 GATTG
* * *
71665637 GAATCTACTCCATCGCCGGTACGTGGAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGC
1 GAATCTGCTCCATCGCCGGTACGTGGAGATAAGATT-TCCAAAATTTGATCTGCTCCACTCCTGC
*
71665702 TCAGCGAAGATAAGATCTG
65 TCAGTGAAGATAAGATCTG
71665721 TCGAAATTTG
Statistics
Matches: 538, Mismatches: 73, Indels: 18
0.86 0.12 0.03
Matches are distributed among these distances:
132 15 0.03
133 217 0.40
134 96 0.18
135 208 0.39
136 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (134 bp):
GAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTTCCAAAATTTGATCTGCTCCACTCCTGCT
CAGTGAAGATAAGATCTGGTATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATG
ATTG
Found at i:71665355 original size:90 final size:87
Alignment explanation
Indices: 71664993--71665356 Score: 249
Period size: 90 Copynumber: 4.1 Consensus size: 87
71664983 CGATACATGG
** *
71664993 AGATAAGATTCTCCAAAATTCAATCTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTATATT
1 AGATAAGATTCT--AAAATTTGATCTGCTCCACTCCTGCTC-ATGAAGATAAGA-CTGGTATATT
71665058 TAGCCTGCTCCACTCCTGCTCAGTGA
62 TAGCCTGCTCCACTCCTGCTCAGTGA
* * * * * * * * *
71665084 AGATAAG-GT-TAATGATTGGAATCTGCTCCA-TCGCTGGTACGTGGAGATAAGATTTGTCAAAA
1 AGATAAGATTCTAA-AATTTG-ATCTGCTCCACTC-CTGCT-CATGAAGATAAGACTGGT--ATA
* *
71665146 TTT-GATCTGCTCCACTCCTGCTCAGCGA
60 TTTAG-CCTGCTCCACTCCTGCTCAGTGA
* * * * * *** **
71665174 AGATAAGA-TCTAGAGTTT-AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGGCTGAA
1 AGATAAGATTCTAAAATTTGA-TCTGCTCCACTCCTGCTCA-TGAAGATAAGACTGGTATATTTA
* * * *
71665237 ACCTGCTCCATTGCC-GATACA-TGG
64 GCCTGCTCCACT-CCTGCT-CAGTGA
*
71665261 AGATAAGATTCATCAAAATTTGATCTGCTCCGCTCCTGCTCATGAAGATAAGACCTGGTATATTT
1 AGATAAGATTC-T-AAAATTTGATCTGCTCCACTCCTGCTCATGAAGATAAGA-CTGGTATATTT
71665326 AGCCTGCTCCACTCCTGCTCAGTGA
63 AGCCTGCTCCACTCCTGCTCAGTGA
71665351 AGATAA
1 AGATAA
71665357 AGCTGATGAT
Statistics
Matches: 200, Mismatches: 51, Indels: 45
0.68 0.17 0.15
Matches are distributed among these distances:
87 23 0.12
88 16 0.08
89 63 0.31
90 88 0.44
91 10 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (87 bp):
AGATAAGATTCTAAAATTTGATCTGCTCCACTCCTGCTCATGAAGATAAGACTGGTATATTTAGC
CTGCTCCACTCCTGCTCAGTGA
Found at i:71667080 original size:24 final size:24
Alignment explanation
Indices: 71667053--71667100 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
71667043 TCGCCTTGGC
*
71667053 CTCTCATTTGCTTTTCTTTTCTTT
1 CTCTCATTTGCTTTTCTCTTCTTT
** *
71667077 CTCTTTTTTGGTTTTCTCTTCTTT
1 CTCTCATTTGCTTTTCTCTTCTTT
71667101 TTCCTTTTCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.02, C:0.23, G:0.06, T:0.69
Consensus pattern (24 bp):
CTCTCATTTGCTTTTCTCTTCTTT
Found at i:71667108 original size:24 final size:24
Alignment explanation
Indices: 71667059--71667152 Score: 81
Period size: 24 Copynumber: 4.1 Consensus size: 24
71667049 TGGCCTCTCA
* *
71667059 TTTGCTTTTCTTTTCTTTCTCTTT
1 TTTGCTTTTCTCTTCTTTCTCCTT
* *
71667083 TTTGGTTTTCTCTTCTTTTTCC-T
1 TTTGCTTTTCTCTTCTTTCTCCTT
* *
71667106 TTTCCTTTTTTC-TCTTTCT--TT
1 TTTGCTTTTCTCTTCTTTCTCCTT
*
71667127 TTT-CTCTTTCTCTTCTTTTTCCTT
1 TTTGCT-TTTCTCTTCTTTCTCCTT
71667151 TT
1 TT
71667153 CCTTTTTTCT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
20 2 0.04
21 9 0.16
22 12 0.22
23 10 0.18
24 22 0.40
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.73
Consensus pattern (24 bp):
TTTGCTTTTCTCTTCTTTCTCCTT
Found at i:71667115 original size:13 final size:13
Alignment explanation
Indices: 71667097--71667174 Score: 75
Period size: 14 Copynumber: 5.5 Consensus size: 13
71667087 GTTTTCTCTT
71667097 CTTTTTCCTTTTC
1 CTTTTTCCTTTTC
*
71667110 CTTTTTTCTCTTTC
1 CTTTTTCCT-TTTC
*
71667124 TTTTTTCTCTTTCTC
1 CTTTTTC-CTTT-TC
71667139 TTCTTTTTCCTTTTC
1 --CTTTTTCCTTTTC
*
71667154 CTTTTTTCTCTTTC
1 CTTTTTCCT-TTTC
71667168 CTTTTTC
1 CTTTTTC
71667175 TCTTCTTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
13 16 0.30
14 21 0.40
15 6 0.11
16 4 0.08
17 6 0.11
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
CTTTTTCCTTTTC
Found at i:71667134 original size:38 final size:39
Alignment explanation
Indices: 71667063--71667184 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 39
71667053 CTCTCATTTG
* *
71667063 CTTTTCTTTTCTTTCTCTTTTTTGGTTTTCTCTTCTTTTTC
1 CTTTTCCTTT-TTTCTCTTTCTT-GTTTTCTCTTCTTTTTC
*
71667104 CTTTTCCTTTTTTCTCTTTCTTTTTTCTCTTTCTCTTCTTTTTC
1 CTTTTCCTTTTTTCTCTTTC----TTGT-TTTCTCTTCTTTTTC
*
71667148 CTTTTCCTTTTTTCTCTTTCCT-TTTTCTCTTCTTTTT
1 CTTTTCCTTTTTTCTCTTTCTTGTTTTCTCTTCTTTTT
71667185 TTTTTTTGAA
Statistics
Matches: 72, Mismatches: 4, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
38 14 0.19
39 1 0.01
40 10 0.14
41 9 0.12
43 1 0.01
44 37 0.51
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (39 bp):
CTTTTCCTTTTTTCTCTTTCTTGTTTTCTCTTCTTTTTC
Found at i:71667185 original size:13 final size:13
Alignment explanation
Indices: 71667066--71667186 Score: 75
Period size: 13 Copynumber: 8.8 Consensus size: 13
71667056 TCATTTGCTT
71667066 TTCTTTTCTTTCTC
1 TTCTTTT-TTTCTC
*
71667080 TTTTTTGGTTTTCTC
1 TTCTTT--TTTTCTC
* *
71667095 TTC-TTTTTCCTT
1 TTCTTTTTTTCTC
*
71667107 TTCCTTTTTTCTC
1 TTCTTTTTTTCTC
*
71667120 TTTCTTTTTTCTCTT
1 -TTCTTTTTT-TCTC
*
71667135 TCTCTTCTTTTTCCTT
1 T-TCTT-TTTTT-CTC
*
71667151 TTCCTTTTTTCTC
1 TTCTTTTTTTCTC
*
71667164 TT-TCCTTTTTCTC
1 TTCT-TTTTTTCTC
71667177 TTCTTTTTTT
1 TTCTTTTTTT
71667187 TTTTTGAAAG
Statistics
Matches: 84, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
12 8 0.10
13 26 0.31
14 22 0.26
15 19 0.23
16 9 0.11
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.74
Consensus pattern (13 bp):
TTCTTTTTTTCTC
Found at i:71667190 original size:44 final size:44
Alignment explanation
Indices: 71667089--71667178 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
71667079 CTTTTTTGGT
*
71667089 TTTCTCTTCTTTTTCCTTTTCCTTTTTTCTCTTTCTTTTTTCTC
1 TTTCTCTTCTTTTTCCTTTTCCTTTTTTCTCTTTCCTTTTTCTC
71667133 TTTCTCTTCTTTTTCCTTTTCCTTTTTTCTCTTTCCTTTTTCTC
1 TTTCTCTTCTTTTTCCTTTTCCTTTTTTCTCTTTCCTTTTTCTC
71667177 TT
1 TT
71667179 CTTTTTTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (44 bp):
TTTCTCTTCTTTTTCCTTTTCCTTTTTTCTCTTTCCTTTTTCTC
Found at i:71673574 original size:13 final size:12
Alignment explanation
Indices: 71673542--71673591 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
71673532 AACCATATAT
71673542 AAATAA-TAA-A
1 AAATAATTAATA
71673552 AAATAA-TAATA
1 AAATAATTAATA
*
71673563 ATAGTAATTAATA
1 A-AATAATTAATA
71673576 GAAATAATTAATA
1 -AAATAATTAATA
71673589 AAA
1 AAA
71673592 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:71673918 original size:14 final size:14
Alignment explanation
Indices: 71673899--71673929 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
71673889 ATATATTTAC
*
71673899 ATAATAAATATATA
1 ATAATAAATAAATA
71673913 ATAATAAATAAATA
1 ATAATAAATAAATA
71673927 ATA
1 ATA
71673930 TAATAATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:71673930 original size:19 final size:18
Alignment explanation
Indices: 71673901--71673938 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
71673891 ATATTTACAT
71673901 AATAAATATATAATAATA
1 AATAAATATATAATAATA
71673919 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
71673938 A
1 A
71673939 GAAACATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:71674391 original size:37 final size:36
Alignment explanation
Indices: 71674341--71674414 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 36
71674331 GAAAGAGTTA
71674341 GTGGGGGTGATGGAGGTAGTGGATAGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATAGTTT-GTAGGGT
*
71674378 GTGGGGGTGATGGAGGTAGTGGATGGTTTGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATAGTTTGTAGGGT
71674414 G
1 G
71674415 ATGGAGTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 8 0.22
37 28 0.78
ACGTcount: A:0.16, C:0.00, G:0.54, T:0.30
Consensus pattern (36 bp):
GTGGGGGTGATGGAGGTAGTGGATAGTTTGTAGGGT
Found at i:71674433 original size:28 final size:29
Alignment explanation
Indices: 71674382--71674443 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
71674372 TAGGGTGTGG
71674382 GGGTGATGGAGGTAGTGGATGGTTT-GTA
1 GGGTGATGGAGGTAGTGGATGGTTTAGTA
* *
71674410 GGGTGATGGAGTTAGTGG-TCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
71674439 GGGTG
1 GGGTG
71674444 TTTAATTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 1 0.03
28 22 0.73
29 7 0.23
ACGTcount: A:0.15, C:0.02, G:0.52, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGATGGTTTAGTA
Found at i:71674805 original size:26 final size:26
Alignment explanation
Indices: 71674775--71674829 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
71674765 AACTATCCCG
71674775 GGCCTTAGATGTAACACCCTAAACCC
1 GGCCTTAGATGTAACACCCTAAACCC
* *
71674801 GGCCTTAGTTGTAACATCCTAAACCC
1 GGCCTTAGATGTAACACCCTAAACCC
71674827 GGC
1 GGC
71674830 TAGACGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (26 bp):
GGCCTTAGATGTAACACCCTAAACCC
Found at i:71684207 original size:16 final size:14
Alignment explanation
Indices: 71684178--71684211 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
71684168 TAAGTTTAAA
71684178 ATAATATTAAATTT
1 ATAATATTAAATTT
71684192 ATAATATATAACATTT
1 ATAATAT-TAA-ATTT
71684208 ATAA
1 ATAA
71684212 AAACTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 3 0.17
16 8 0.44
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATATTAAATTT
Found at i:71685377 original size:20 final size:21
Alignment explanation
Indices: 71685341--71685384 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
71685331 TTTTCGTTAT
*
71685341 CTAATAAAAATCTAAAATT-C
1 CTAATAAAAATCCAAAATTGC
71685361 CTAATAATAAA-CCAAAATTGC
1 CTAATAA-AAATCCAAAATTGC
71685382 CTA
1 CTA
71685385 TATGATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.27
Consensus pattern (21 bp):
CTAATAAAAATCCAAAATTGC
Found at i:71686055 original size:38 final size:38
Alignment explanation
Indices: 71686013--71686086 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
71686003 GGTTACAAAC
*
71686013 TTTATCTGTTTTTTACATGTTTATCCCACAAATTTTCT
1 TTTATCTGTTTTTCACATGTTTATCCCACAAATTTTCT
*
71686051 TTTATCTGTTTTTCACATGTTTATCTCACAAATTTT
1 TTTATCTGTTTTTCACATGTTTATCCCACAAATTTT
71686087 GGTTTATCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.22, C:0.18, G:0.05, T:0.55
Consensus pattern (38 bp):
TTTATCTGTTTTTCACATGTTTATCCCACAAATTTTCT
Found at i:71686189 original size:3 final size:3
Alignment explanation
Indices: 71686181--71686206 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
71686171 AGGGATAAAT
71686181 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
71686207 TGATTCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:71692428 original size:27 final size:27
Alignment explanation
Indices: 71692397--71692574 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71692387 TAAATTGTAC
71692397 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
71692424 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71692450 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71692478 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71692506 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71692533 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71692560 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71692575 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71692511 original size:82 final size:81
Alignment explanation
Indices: 71692398--71692553 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71692388 AAATTGTACA
* *
71692398 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
71692462 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
71692479 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
71692544 TGCGAGTTGA
65 TGCGAATTGA
71692554 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71692565 original size:82 final size:81
Alignment explanation
Indices: 71692394--71692574 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
71692384 GATTAAATTG
* *
71692394 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71692459 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
71692475 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71692539 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
71692557 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71692575 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71700482 original size:27 final size:27
Alignment explanation
Indices: 71700451--71700628 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71700441 TAAATTGTAC
71700451 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
71700478 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71700504 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71700532 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71700560 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71700587 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71700614 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71700629 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71700565 original size:82 final size:81
Alignment explanation
Indices: 71700452--71700607 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71700442 AAATTGTACA
* *
71700452 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
71700516 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
71700533 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
71700598 TGCGAGTTGA
65 TGCGAATTGA
71700608 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71700619 original size:82 final size:81
Alignment explanation
Indices: 71700448--71700628 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
71700438 GATTAAATTG
* *
71700448 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71700513 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
71700529 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71700593 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
71700611 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71700629 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71702922 original size:30 final size:30
Alignment explanation
Indices: 71702887--71702946 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
71702877 TCTATTCACT
71702887 AACATTTCAACCACTCAATTCCATATTCAA
1 AACATTTCAACCACTCAATTCCATATTCAA
71702917 AACATTTCAACCACTCAATTCCATATTCAA
1 AACATTTCAACCACTCAATTCCATATTCAA
71702947 GCATACCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (30 bp):
AACATTTCAACCACTCAATTCCATATTCAA
Found at i:71710323 original size:13 final size:13
Alignment explanation
Indices: 71710305--71710330 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71710295 ATATTATAAT
71710305 TATTTTATGTTAA
1 TATTTTATGTTAA
71710318 TATTTTATGTTAA
1 TATTTTATGTTAA
71710331 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:71711750 original size:40 final size:40
Alignment explanation
Indices: 71711702--71711943 Score: 388
Period size: 40 Copynumber: 6.2 Consensus size: 40
71711692 GGACTAAGAT
71711702 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
71711742 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
71711782 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
71711822 CCGAAGGCATTTGTGCTAGTGACTATAT-C-GGCT-AGT-
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
71711858 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
71711898 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGTTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
71711937 CCGAAGG
1 CCGAAGG
71711944 TACTTGGGTT
Statistics
Matches: 190, Mismatches: 7, Indels: 11
0.91 0.03 0.05
Matches are distributed among these distances:
36 27 0.14
37 4 0.02
38 8 0.04
39 18 0.09
40 131 0.69
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:71711903 original size:116 final size:119
Alignment explanation
Indices: 71711702--71711943 Score: 386
Period size: 116 Copynumber: 2.1 Consensus size: 119
71711692 GGACTAAGAT
*
71711702 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
* *
71711767 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
66 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
*
71711822 CCGAAGGCATTTGTGCTAGTGACTATAT-C-GGCT-AGT-CCGAAGGCATTTGTGCTAGTGATTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
*
71711883 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGTTAAATC
66 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATC
71711937 CCGAAGG
1 CCGAAGG
71711944 TACTTGGGTT
Statistics
Matches: 116, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
115 14 0.12
116 64 0.55
117 5 0.04
118 4 0.03
119 1 0.01
120 28 0.24
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (119 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATC
Found at i:71714946 original size:17 final size:16
Alignment explanation
Indices: 71714920--71714951 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
71714910 AGTAAAACTT
71714920 AAGTTCTAATAGCTAA
1 AAGTTCTAATAGCTAA
71714936 AAGTGTCTAATAGCTA
1 AAGT-TCTAATAGCTA
71714952 TAGAACCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (16 bp):
AAGTTCTAATAGCTAA
Found at i:71719785 original size:23 final size:22
Alignment explanation
Indices: 71719684--71719791 Score: 123
Period size: 21 Copynumber: 5.0 Consensus size: 22
71719674 ACTGATCAGT
**
71719684 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAAGTGCCTGA
* *
71719705 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAAGTGCCTGA
*
71719726 ATACGACACACGAGGTGCCTG-
1 ATACGACACACGAAGTGCCTGA
71719747 ATACGACACACGAAGTGCCTGAA
1 ATACGACACACGAAGTGCCTG-A
**
71719770 ATACGACACATAAAGTGCCTGA
1 ATACGACACACGAAGTGCCTGA
71719792 TCGATAAAGC
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
21 56 0.74
22 1 0.01
23 19 0.25
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAAGTGCCTGA
Found at i:71720190 original size:15 final size:15
Alignment explanation
Indices: 71720164--71720220 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
71720154 CATATATATT
71720164 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
71720178 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
71720193 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
71720208 ATATAAATTCAAT
1 ATATAATTTCAAT
71720221 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:71720555 original size:5 final size:5
Alignment explanation
Indices: 71720542--71720593 Score: 95
Period size: 5 Copynumber: 10.2 Consensus size: 5
71720532 TTCTTTAGTT
71720542 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
71720593 T
1 T
71720594 TAAAACATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 42 0.91
6 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:71720629 original size:8 final size:8
Alignment explanation
Indices: 71720616--71720644 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
71720606 TATCTTTATT
71720616 ATATAATA
1 ATATAATA
71720624 ATATAATA
1 ATATAATA
71720632 ATATAATA
1 ATATAATA
71720640 ATATA
1 ATATA
71720645 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:71723595 original size:36 final size:34
Alignment explanation
Indices: 71723502--71723569 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
71723492 CTGTAAGTTT
71723502 CTGAAACTCTGTTTAGAATTGTTTTAAAGCATGC
1 CTGAAACTCTGTTTAGAATTGTTTTAAAGCATGC
71723536 CTGAAACTCTGTTTAGAATTGTTTTAAAGCATGC
1 CTGAAACTCTGTTTAGAATTGTTTTAAAGCATGC
71723570 TTAGAATATG
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:0.15, G:0.18, T:0.38
Consensus pattern (34 bp):
CTGAAACTCTGTTTAGAATTGTTTTAAAGCATGC
Found at i:71726210 original size:37 final size:37
Alignment explanation
Indices: 71726150--71726225 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
71726140 TATTACGAAA
* * *
71726150 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
71726187 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
71726224 TC
1 TC
71726226 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:71726424 original size:47 final size:47
Alignment explanation
Indices: 71726346--71726749 Score: 628
Period size: 47 Copynumber: 8.6 Consensus size: 47
71726336 CCCTTCGGGA
* * * * * *
71726346 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
71726393 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
71726440 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
71726487 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71726534 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71726583 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71726630 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
71726677 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71726724 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
71726750 ATGGGTTTAA
Statistics
Matches: 334, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 291 0.87
49 43 0.13
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71726684 original size:190 final size:190
Alignment explanation
Indices: 71726346--71726749 Score: 627
Period size: 190 Copynumber: 2.1 Consensus size: 190
71726336 CCCTTCGGGA
* * * * *
71726346 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATAC
*
71726409 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACA
*
71726474 TCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
131 TCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
* * * *
71726534 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATAC
* *
71726599 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACA
* * * *
71726664 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
71726724 CTTATCAC--ATATATACACTTTCACAT
1 CTTATCACATATATATACACTTTCACAT
71726750 ATGGGTTTAA
Statistics
Matches: 197, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
188 28 0.14
189 1 0.01
190 168 0.85
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATAC
ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACA
TCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:71730510 original size:40 final size:40
Alignment explanation
Indices: 71730466--71730569 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
71730456 GAATACATGT
* * *
71730466 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* * ***
71730506 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
*
71730546 CACTAGCACGAATGCTCTTCGGAA
1 CACCAGCACGAATGCTCTTCGGAA
71730570 TTTAGCCCAG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
Found at i:71730606 original size:40 final size:40
Alignment explanation
Indices: 71730571--71730742 Score: 183
Period size: 40 Copynumber: 4.3 Consensus size: 40
71730561 TCTTCGGAAT
*
71730571 TTAGCCCAGATTTAGT-AACTCGCACCAATGCCTTCGGGTC
1 TTAGCCCAGATATA-TCAACTCGCACCAATGCCTTCGGGTC
* *
71730611 TTAGCCCGGATATATCAACTTGCA-CAATTGCCTTCGGGTC
1 TTAGCCCAGATATATCAACTCGCACCAA-TGCCTTCGGGTC
* * *
71730651 TTAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTC
1 TTAGCCCAGATATATCAACTCGCACCAATGCCTTCGGGTC
* * *
71730691 TTAGCCCAGATATAATC-ACTAGC-TCAATTGCCTTC-GGAC
1 TTAGCCCAGATAT-ATCAACTCGCACCAA-TGCCTTCGGGTC
*
71730730 TTAGCCCGGATAT
1 TTAGCCCAGATAT
71730743 CATTCAAATG
Statistics
Matches: 114, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 21 0.18
40 88 0.77
41 5 0.04
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (40 bp):
TTAGCCCAGATATATCAACTCGCACCAATGCCTTCGGGTC
Found at i:71730614 original size:80 final size:80
Alignment explanation
Indices: 71730511--71730742 Score: 224
Period size: 80 Copynumber: 2.9 Consensus size: 80
71730501 TATAACACCA
* ** * *
71730511 GCACGAATGCTCTTCGGAACTTAGTCCGGATACCTC-ACTAGCACGAA-TGCTCTTCGGAAT-TT
1 GCACAAATGC-CTTCGGGTCTTAGCCCGGATACATCAACTAGCAC-AATTGC-CTTCGG-ATCTT
*
71730573 AGCCCAGATTTAGT-AACTC
62 AGCCCAGATATA-TCAACTC
* * * *
71730592 GCACCAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATACATCAACTAGCACAATTGCCTTCGGATCTTAGCC
* *
71730657 CGGATATATCAATTC
66 CAGATATATCAACTC
* * *
71730672 GCACAAATGCCTTCGGGTCTTAGCCCAGATATAATC-ACTAGCTCAATTGCCTTCGGA-CTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA-CATCAACTAGCACAATTGCCTTCGGATCTTAGC
*
71730735 CCGGATAT
65 CCAGATAT
71730743 CATTCAAATG
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
79 16 0.12
80 91 0.71
81 22 0.17
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATACATCAACTAGCACAATTGCCTTCGGATCTTAGCC
CAGATATATCAACTC
Found at i:71730756 original size:40 final size:40
Alignment explanation
Indices: 71730599--71730742 Score: 195
Period size: 40 Copynumber: 3.6 Consensus size: 40
71730589 CTCGCACCAA
71730599 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTAGCACAAT
* *
71730639 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTAGCACAAT
* * *
71730679 TGCCTTCGGGTCTTAGCCCAGATATAATC-ACTAGCTCAAT
1 TGCCTTCGGGTCTTAGCCCGGATAT-ATCAATTAGCACAAT
*
71730719 TGCCTTC-GGACTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
71730743 CATTCAAATG
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 17 0.18
40 74 0.79
41 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTAGCACAAT
Found at i:71731069 original size:29 final size:29
Alignment explanation
Indices: 71731030--71731108 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
71731020 CTTAATAATC
*
71731030 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
71731060 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
71731089 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
71731109 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:71731190 original size:43 final size:43
Alignment explanation
Indices: 71731090--71731233 Score: 256
Period size: 43 Copynumber: 3.4 Consensus size: 43
71731080 TGCATTTCAA
71731090 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACAC-T-TT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
71731131 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
71731174 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
* *
71731217 ACTCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
71731234 TGAAAACCAA
Statistics
Matches: 99, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
41 38 0.38
42 1 0.01
43 60 0.61
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:71733350 original size:47 final size:47
Alignment explanation
Indices: 71733272--71733675 Score: 601
Period size: 47 Copynumber: 8.6 Consensus size: 47
71733262 CCCTTCGGGA
* * * * * **
71733272 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
71733319 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
71733366 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
71733413 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
71733460 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
71733507 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
71733556 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
71733603 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
71733650 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
71733676 ATGGGTTTAA
Statistics
Matches: 334, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 291 0.87
49 43 0.13
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:71733593 original size:190 final size:188
Alignment explanation
Indices: 71733272--71733675 Score: 610
Period size: 190 Copynumber: 2.1 Consensus size: 188
71733262 CCCTTCGGGA
** * * ** *
71733272 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAAGCCCTATCACATATATACAC
*
71733337 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
*
71733402 GGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
131 GGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
* * * *
71733460 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAAGCCCTATCAC--ATATATAC
* *
71733525 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACA
* * * *
71733590 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
129 TCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
71733650 CTTATCACATATATACACTTTCACAT
1 CTTATCACACATATACACTTTCACAT
71733676 ATGGGTTTAA
Statistics
Matches: 193, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
188 44 0.23
190 149 0.77
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (188 bp):
CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAAGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:71735343 original size:39 final size:39
Alignment explanation
Indices: 71735289--71735366 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
71735279 CTCTCCCTAA
*
71735289 ATCCAAATTCGGCATATTGAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
*
71735328 ATCCAAGTTCGGCATATTCAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
71735367 CAACGTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.23
Consensus pattern (39 bp):
ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
Found at i:71737421 original size:40 final size:40
Alignment explanation
Indices: 71737377--71737496 Score: 136
Period size: 39 Copynumber: 3.0 Consensus size: 40
71737367 GAATACATGT
* * *
71737377 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGAACTAGCCCGGATATAA
* ***
71737417 CACCAGCACGAATGCTCTTC-GGAACTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGGAACTAGCCCGGATATAA
* *
71737456 CACTAGCACGAATGCTCTTC-GGAATTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGAA-CTAGCCCGGATATAA
71737496 C
1 C
71737497 CACAAGCTCA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 37 0.56
40 29 0.44
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGAACTAGCCCGGATATAA
Found at i:71737785 original size:29 final size:29
Alignment explanation
Indices: 71737746--71737824 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
71737736 CTTAATAATC
*
71737746 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
71737776 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
* *
71737805 AGCCCACACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
71737825 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:71737872 original size:43 final size:43
Alignment explanation
Indices: 71737806--71737936 Score: 226
Period size: 43 Copynumber: 3.0 Consensus size: 43
71737796 TGCATTTCAA
* *
71737806 GCCCACACACTTAGTGCCAATCTCACAACCGTGAATACTTATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAATACTTATT
* *
71737849 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAATACTTATT
71737892 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAATACTTATT
1 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAATACTTATT
71737935 GC
1 GC
71737937 TGAAAACCAA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAATACTTATT
Found at i:71739809 original size:37 final size:37
Alignment explanation
Indices: 71739749--71739824 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
71739739 TATTACGAAA
* * *
71739749 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
71739786 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
71739823 TC
1 TC
71739825 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:71740086 original size:47 final size:47
Alignment explanation
Indices: 71740017--71740270 Score: 402
Period size: 47 Copynumber: 5.3 Consensus size: 47
71740007 TCCAACGAAT
*
71740017 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGC
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAC
*
71740064 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--AC
* *
71740113 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAC
*
71740160 ATATACACTTTCACATTCATCACATCGGCCATT-AGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--AC
* *
71740208 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAC
71740255 ATATACACTTTCACAT
1 ATATACACTTTCACAT
71740271 ATGGGTTTAA
Statistics
Matches: 191, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
46 10 0.05
47 95 0.50
48 33 0.17
49 53 0.28
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAC
Found at i:71740237 original size:95 final size:96
Alignment explanation
Indices: 71740015--71740270 Score: 478
Period size: 96 Copynumber: 2.7 Consensus size: 96
71740005 CATCCAACGA
* * *
71740015 ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
71740080 TCATCACATCGGCCATTAAGCCTTATCACAT
66 TCATCACATCGGCCATTAAGCCTTATCACAT
71740111 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
71740176 TCATCACATCGGCCATT-AGCCTTATCACAT
66 TCATCACATCGGCCATTAAGCCTTATCACAT
71740206 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
71740271 ATGGGTTTAA
Statistics
Matches: 157, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
95 78 0.50
96 79 0.50
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.32
Consensus pattern (96 bp):
ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
TCATCACATCGGCCATTAAGCCTTATCACAT
Found at i:71741935 original size:39 final size:39
Alignment explanation
Indices: 71741881--71741958 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
71741871 CTCTCCCTAA
*
71741881 ATCCAAATTCGGCATATTGAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
*
71741920 ATCCAAGTTCGGCATATTCAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
71741959 CAACGTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.23
Consensus pattern (39 bp):
ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
Found at i:71744037 original size:40 final size:40
Alignment explanation
Indices: 71743993--71744113 Score: 127
Period size: 40 Copynumber: 3.0 Consensus size: 40
71743983 GAATACATGT
* * *
71743993 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* * ***
71744033 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* **
71744073 CACTAGCACGAATGCTCTTCGGAATTTAGCCC-GATTATAA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGA-TATAA
71744113 C
1 C
71744114 CACAAGCTCC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 2 0.03
40 64 0.97
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
Found at i:71744214 original size:78 final size:79
Alignment explanation
Indices: 71744123--71744271 Score: 232
Period size: 78 Copynumber: 1.9 Consensus size: 79
71744113 CCACAAGCTC
* *
71744123 CAATTGCCTTCGGGTCTTAACCCGGATATATCAA-TCGCAC-AATGCC-TTCGGGTCTTAGCCCG
1 CAATTGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAATGCCTTTC--CTCTTAGCCCA
71744185 GATATATCAACTTGCA
64 GATATATCAACTTGCA
*
71744201 CAATTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGCCTTTCCTCTTAGCCCAGA
1 CAATTGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAATGCCTTTCCTCTTAGCCCAGA
71744266 TATATC
66 TATATC
71744272 CAATTCGCCA
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
78 33 0.51
79 23 0.35
80 6 0.09
81 3 0.05
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (79 bp):
CAATTGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAATGCCTTTCCTCTTAGCCCAGA
TATATCAACTTGCA
Found at i:71744218 original size:40 final size:39
Alignment explanation
Indices: 71744123--71744276 Score: 206
Period size: 40 Copynumber: 3.9 Consensus size: 39
71744113 CCACAAGCTC
* *
71744123 CAATTGCCTTCGGGTCTTAACCCGGATATATCAATCGCA
1 CAATTGCCTTCGGGTCTTAGCCCGGATATATCAATTGCA
71744162 CAA-TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCA
1 CAATTGCCTTCGGGTCTTAGCCCGGATATATCAA-TTGCA
71744201 CAATTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCA
1 CAATTGCCTTCGGGTCTTAGCCCGGATATATCAATT-GCA
* * *
71744241 CAAATGCCTTTC--CTCTTAGCCCAGATATATCCAATT
1 CAATTGCC-TTCGGGTCTTAGCCCGGATATAT-CAATT
71744277 CGCCACAAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
38 29 0.28
39 28 0.27
40 45 0.43
41 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (39 bp):
CAATTGCCTTCGGGTCTTAGCCCGGATATATCAATTGCA
Found at i:71744277 original size:40 final size:39
Alignment explanation
Indices: 71744127--71744306 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
71744117 AAGCTCCAAT
*
71744127 TGCCTTCGGGTCTTAACCCGGATATATCAA-TCGCAC-AA
1 TGCCTTC-GGTCTTAGCCCGGATATATCAATTCGCACAAA
*
71744165 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTC-GGTCTTAGCCCGGATATATCAA-TTCGCACAAA
71744205 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTC-GGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
71744245 TGCCTTTC-CTCTTAGCCCAGATATATCCAATTCGCCACAAA
1 TGCC-TTCGGTCTTAGCCCGGATATAT-CAATTCG-CACAAA
*
71744286 TG-CTT-GGTCTTA-TCCGGATAT
1 TGCCTTCGGTCTTAGCCCGGATAT
71744307 CATCGATCAA
Statistics
Matches: 126, Mismatches: 8, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
38 36 0.29
39 29 0.23
40 50 0.40
41 11 0.09
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (39 bp):
TGCCTTCGGTCTTAGCCCGGATATATCAATTCGCACAAA
Done.