Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 106 of 109
Found at i:21695445 original size:16 final size:16
Alignment explanation
Indices: 21695376--21695446 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
21695366 TAATAATTGA
*
21695376 TATATTTATATTATATT
1 TATA-TTATATTAAATT
* * *
21695393 TATTTTTTATTAAATA
1 TATATTATATTAAATT
* *
21695409 TATATGATATAAAACTCT
1 TATATTATATTAAA-T-T
*
21695427 TATATTATATTATATT
1 TATATTATATTAAATT
21695443 TATA
1 TATA
21695447 CATCAAAATA
Statistics
Matches: 40, Mismatches: 12, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
16 24 0.60
17 5 0.12
18 11 0.28
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (16 bp):
TATATTATATTAAATT
Found at i:21698834 original size:24 final size:24
Alignment explanation
Indices: 21698806--21698869 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
21698796 AAAATTTTAA
*
21698806 ATTATATTATTTTTATATCTTA-T
1 ATTATATTATTTTTATATCATATT
* *
21698829 ATTTATATCATATTTATATCATATT
1 A-TTATATTATTTTTATATCATATT
21698854 ATTATATTATATTTTA
1 ATTATATTAT-TTTTA
21698870 AATTATCATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 1 0.03
24 26 0.79
25 6 0.18
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTATATTATTTTTATATCATATT
Found at i:21698860 original size:13 final size:13
Alignment explanation
Indices: 21698813--21698866 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
21698803 TAAATTATAT
* *
21698813 TATTTTTATATCT
1 TATTATTATATCA
21698826 TA-TATTTATATCA
1 TATTA-TTATATCA
21698839 TA-T-TTATATCA
1 TATTATTATATCA
*
21698850 TATTATTATATTA
1 TATTATTATATCA
21698863 TATT
1 TATT
21698867 TTAAATTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
11 10 0.29
12 2 0.06
13 23 0.66
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATTATATCA
Found at i:21699418 original size:3 final size:3
Alignment explanation
Indices: 21699410--21699435 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21699400 ACCCAAGTTC
21699410 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
21699436 GAAAATTTCT
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:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:21702172 original size:22 final size:23
Alignment explanation
Indices: 21702115--21702172 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
21702105 GCAAAGATAA
*
21702115 AATTTAAATGAAACTTTTTAAGTG
1 AATTT-AATGAAAATTTTTAAGTG
* *
21702139 AATTTTAT-AAAATTTTTAATTG
1 AATTTAATGAAAATTTTTAAGTG
21702161 -ATTTAATGAAAA
1 AATTTAATGAAAA
21702173 ATTAAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 6 0.21
22 16 0.55
23 2 0.07
24 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (23 bp):
AATTTAATGAAAATTTTTAAGTG
Found at i:21705552 original size:7 final size:7
Alignment explanation
Indices: 21705540--21705571 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
21705530 AATAATTAAC
21705540 TAAAATT
1 TAAAATT
21705547 TAAAATT
1 TAAAATT
21705554 TAAAATT
1 TAAAATT
21705561 TAAAATT
1 TAAAATT
21705568 TAAA
1 TAAA
21705572 TTGGTAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAAAATT
Found at i:21705651 original size:14 final size:15
Alignment explanation
Indices: 21705632--21705665 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
21705622 AAATTTTGAT
21705632 ATATTTTTAA-ATAA
1 ATATTTTTAATATAA
21705646 ATATTTTTAATATAA
1 ATATTTTTAATATAA
21705661 ATATT
1 ATATT
21705666 AACAGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTTTAATATAA
Found at i:21705739 original size:19 final size:19
Alignment explanation
Indices: 21705717--21705754 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21705707 ATTATAAATA
*
21705717 ATATTTTTAATATTTATAT
1 ATATTATTAATATTTATAT
*
21705736 ATATTATTAATTTTTATAT
1 ATATTATTAATATTTATAT
21705755 TAAATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTATTAATATTTATAT
Found at i:21705748 original size:17 final size:17
Alignment explanation
Indices: 21705728--21705796 Score: 53
Period size: 17 Copynumber: 4.4 Consensus size: 17
21705718 TATTTTTAAT
21705728 ATTTATATATATTATTA
1 ATTTATATATATTATTA
21705745 ATTT-T-TATATTA--A
1 ATTTATATATATTATTA
21705758 ATTT-TAT-TAATTTATTA
1 ATTTATATAT-A-TTATTA
*
21705775 ATTTA-ATTTATTATTA
1 ATTTATATATATTATTA
*
21705791 AATTAT
1 ATTTAT
21705797 TTTTAAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 16
0.72 0.02 0.27
Matches are distributed among these distances:
13 7 0.16
14 2 0.05
15 10 0.23
16 11 0.26
17 12 0.28
18 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTATATATATTATTA
Found at i:21705764 original size:22 final size:21
Alignment explanation
Indices: 21705739--21705787 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
21705729 TTTATATATA
21705739 TTATTAATTT-TTATATTAAATT
1 TTATTAATTTATTA-ATTAAA-T
*
21705761 TTATTAATTTATTAATTTAAT
1 TTATTAATTTATTAATTAAAT
21705782 TTATTA
1 TTATTA
21705788 TTAAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 15 0.60
23 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATTAATTTATTAATTAAAT
Found at i:21708163 original size:9 final size:9
Alignment explanation
Indices: 21708149--21708181 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
21708139 TTTTATCAAT
21708149 TAAAATATA
1 TAAAATATA
21708158 TAAAATATA
1 TAAAATATA
21708167 TTAAAATATA
1 -TAAAATATA
21708177 -AAAAT
1 TAAAAT
21708182 TCGATTAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.22
9 9 0.39
10 9 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAATATA
Found at i:21708173 original size:10 final size:10
Alignment explanation
Indices: 21708147--21708176 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
21708137 TATTTTATCA
21708147 ATTAAAATAT
1 ATTAAAATAT
21708157 A-TAAAATAT
1 ATTAAAATAT
21708166 ATTAAAATAT
1 ATTAAAATAT
21708176 A
1 A
21708177 AAAATTCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:21717763 original size:4 final size:4
Alignment explanation
Indices: 21717754--21717778 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
21717744 TCGCTTTTCT
21717754 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
21717779 ATATGTTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:21718980 original size:33 final size:31
Alignment explanation
Indices: 21718938--21719009 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 31
21718928 AAAATTTAAA
21718938 ATTTAATTTAAATTTAAATCAAGTTTTTATTTG
1 ATTTAATTTAAA-TTAAATCAA-TTTTTATTTG
* * *
21718971 ATTTGATTTAAATTAAATTAATTTTTATCTG
1 ATTTAATTTAAATTAAATCAATTTTTATTTG
21719002 -TTTAATTT
1 ATTTAATTT
21719010 GATTTATAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.20
31 9 0.26
32 8 0.23
33 11 0.31
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.57
Consensus pattern (31 bp):
ATTTAATTTAAATTAAATCAATTTTTATTTG
Found at i:21719158 original size:21 final size:23
Alignment explanation
Indices: 21719114--21719159 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
21719104 TTAATTTTGT
21719114 TTTATAAAAATCTAAAAAATATA
1 TTTATAAAAATCTAAAAAATATA
21719137 TTTA-AAAAAT-TAATAAAAATATA
1 TTTATAAAAATCT-A-AAAAATATA
21719160 CGATTCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 1 0.05
22 7 0.33
23 13 0.62
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TTTATAAAAATCTAAAAAATATA
Found at i:21723929 original size:36 final size:36
Alignment explanation
Indices: 21723882--21723954 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 36
21723872 TCAGCCCCAT
21723882 TTTCATAGAAAACTGACTC-ATGGGACTCTTTCTGCC
1 TTTCATAGAAAACTGACTCAAT-GGACTCTTTCTGCC
21723918 TTTCATAGAAAACTGACTCAATGGACTCTTTCTGCC
1 TTTCATAGAAAACTGACTCAATGGACTCTTTCTGCC
21723954 T
1 T
21723955 ATTACCTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 34 0.94
37 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (36 bp):
TTTCATAGAAAACTGACTCAATGGACTCTTTCTGCC
Found at i:21726358 original size:36 final size:36
Alignment explanation
Indices: 21726308--21726380 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
21726298 GATACACAAG
*
21726308 TGTGAAGTACAGAGATTATTTTATGTATCTAAGCTT
1 TGTGAAGTACAGAGATTATTTTATATATCTAAGCTT
* *
21726344 TGTGAAGTATAGAGATTATTTTATATATGTAAGCTT
1 TGTGAAGTACAGAGATTATTTTATATATCTAAGCTT
21726380 T
1 T
21726381 CTTGTTACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (36 bp):
TGTGAAGTACAGAGATTATTTTATATATCTAAGCTT
Found at i:21727867 original size:27 final size:26
Alignment explanation
Indices: 21727816--21727878 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
21727806 TAAAAAAAAG
*
21727816 ATAATATTATTTAATCTAATCTTATTC
1 ATAATATTATTTAATCTAATATTA-TC
* * *
21727843 ATAATATTATTTTATTTTATATTATC
1 ATAATATTATTTAATCTAATATTATC
*
21727869 ATAATCTTAT
1 ATAATATTAT
21727879 ATACCAAACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (26 bp):
ATAATATTATTTAATCTAATATTATC
Found at i:21728725 original size:19 final size:20
Alignment explanation
Indices: 21728692--21728730 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
21728682 ATATTTAAAA
21728692 ATTTTGATATCCAA-TAATT
1 ATTTTGATATCCAATTAATT
21728711 ATTTT-ATATCTCAATTAATT
1 ATTTTGATATC-CAATTAATT
21728731 CAGAATCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTTTGATATCCAATTAATT
Found at i:21739057 original size:13 final size:13
Alignment explanation
Indices: 21739039--21739079 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
21739029 ATTTGTGATA
21739039 ATAATGAATTATT
1 ATAATGAATTATT
21739052 ATAATGAATTATT
1 ATAATGAATTATT
*
21739065 ATTAATTAATT-TT
1 A-TAATGAATTATT
21739078 AT
1 AT
21739080 GATATATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 1 0.04
13 17 0.65
14 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (13 bp):
ATAATGAATTATT
Found at i:21739156 original size:113 final size:108
Alignment explanation
Indices: 21739039--21739255 Score: 256
Period size: 113 Copynumber: 2.0 Consensus size: 108
21739029 ATTTGTGATA
*
21739039 ATAATGAATTATTATAATGAATTATT-ATTAATTAATTTTATGATATATTAATATAAAAGTAAAC
1 ATAATGAATTATTATAATGAATT-TTCATTAATTAATTTTATG--ATATTAATATAAAACTAAAC
*
21739103 ATAAATTTATATTATTTAAATTGTTAATTAATTAATAAATAATTTAAAT
63 AT-AATTTATATT-TTCAAATTGTTAATT-ATTAATAAATAATTTAAAT
* * * * * * * *
21739152 ATAATTAATTATTATAATTAGTTTTCTTTTATTATTTTTATGATATTAATATAATACTAAATATA
1 ATAATGAATTATTATAATGAATTTTCATTAATTAATTTTATGATATTAATATAAAACTAAACATA
* * *
21739217 ATTTTTATTTTCAAATTGTTAATTTTTAGTAAATAATTT
66 ATTTATATTTTCAAATTGTTAATTATTAATAAATAATTT
21739256 TATTAATTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
108 13 0.14
109 14 0.16
110 9 0.10
111 19 0.21
112 2 0.02
113 33 0.37
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (108 bp):
ATAATGAATTATTATAATGAATTTTCATTAATTAATTTTATGATATTAATATAAAACTAAACATA
ATTTATATTTTCAAATTGTTAATTATTAATAAATAATTTAAAT
Found at i:21742834 original size:343 final size:338
Alignment explanation
Indices: 21742213--21742892 Score: 1128
Period size: 343 Copynumber: 2.0 Consensus size: 338
21742203 GTATTCATAA
*
21742213 AACAAAACTAAGATGAAATCACTATAAATTAACTTCAATTATACCATGCAAGGAAATAAAACAAA
1 AACAAAACTAAGATGAAATCACTATAAATTAACTTCAATTATACCATGCAAGGAAACAAAACAAA
* * *
21742278 CTTCCTGATTATTGCTATCCATAAAGTTAAAAGGATAATACATGGGAATTAAAGGGTCAAACAAC
66 CTTCCTGATTATTGCAATCCATAAAGTCAAAAGGATAATACAGGGGAATTAAAGGGTCAAACAAC
*
21742343 AACCTCAAACCAGTTATTCAAAACCTTTGGAGCCGGAGACAATAAAAGATCCATAAAATCCTTGT
131 AACCTCAAACCAGTTATTCAAAACCTTTGAAGCCGGAGACAATAAAAGATCCATAAAATCCTTGT
*
21742408 AAAATTAAATAAATAGAGTTGATTTAAGGCTTAGACTGGATTCACAGGAATGGACTGACTAACTT
196 AAAATTAAATAAATAGAGATGATTTAAGGCTTAGACTGGATTCACAGGAATGGACTGACTAACTT
* * * * * *
21742473 CAGATTGAAATGTGCAAGTACCTCAAGCTGGTTAGTTAATTACTGTGTATGAACTTGGCTGAAGA
261 CAGATTGAAACGTGCAAGTACATCAAGCTCGTTAGGTAATTACTGTGTATGAACATGACTGAAGA
21742538 AAGCATCCCTATC
326 AAGCATCCCTATC
*
21742551 AACAAAACTAAGATGAAATCACTATAAATTAACTTCAATTATGCCATGCAAGGAAACAAAACAAA
1 AACAAAACTAAGATGAAATCACTATAAATTAACTTCAATTATACCATGCAAGGAAACAAAACAAA
*
21742616 CTTCCTGATTATTGCAATCCATGAAGTCAAAAGGATAATACACGGAGGAATT-AAGGGATCAAAC
66 CTTCCTGATTATTGCAATCCATAAAGTCAAAAGGATAATACA-GG-GGAATTAAAGGG-TC--A-
* *
21742680 AACAACAACCTCAAACCGGTTATTCAAAACCTTTGAAGCCGGAGACAATAAATGATCCATAAAAT
125 AACAACAACCTCAAACCAGTTATTCAAAACCTTTGAAGCCGGAGACAATAAAAGATCCATAAAAT
*
21742745 CCTTGTAAAATTAAATAAATAGAGATGATTTAAGGCTTAGACTGGATTCACGGGAATGGACTGAC
190 CCTTGTAAAATTAAATAAATAGAGATGATTTAAGGCTTAGACTGGATTCACAGGAATGGACTGAC
*
21742810 TAACTTCAGATTGAAACGTGCAAGTACATCAAGCTCGTTAGGTAATTACTTTGTATGAACATGAC
255 TAACTTCAGATTGAAACGTGCAAGTACATCAAGCTCGTTAGGTAATTACTGTGTATGAACATGAC
*
21742875 TGAAGAAAGTATCCCTAT
320 TGAAGAAAGCATCCCTAT
21742893 TAGTCACTTT
Statistics
Matches: 317, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
338 102 0.32
339 6 0.02
340 8 0.03
342 1 0.00
343 200 0.63
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (338 bp):
AACAAAACTAAGATGAAATCACTATAAATTAACTTCAATTATACCATGCAAGGAAACAAAACAAA
CTTCCTGATTATTGCAATCCATAAAGTCAAAAGGATAATACAGGGGAATTAAAGGGTCAAACAAC
AACCTCAAACCAGTTATTCAAAACCTTTGAAGCCGGAGACAATAAAAGATCCATAAAATCCTTGT
AAAATTAAATAAATAGAGATGATTTAAGGCTTAGACTGGATTCACAGGAATGGACTGACTAACTT
CAGATTGAAACGTGCAAGTACATCAAGCTCGTTAGGTAATTACTGTGTATGAACATGACTGAAGA
AAGCATCCCTATC
Found at i:21743488 original size:102 final size:102
Alignment explanation
Indices: 21743369--21743557 Score: 281
Period size: 102 Copynumber: 1.8 Consensus size: 102
21743359 TATATAAGCA
* * * **
21743369 TACATACATTCATTCAAATTTTAAATGAATATCAATCGGATTAAAAGGAGATCGAAA-TCTAAGG
1 TACATACATACATTCAAATTTTAAAGGAATATCAATCGGATTAAAAGAAGATAAAAACTCTAA-G
*
21743433 TACCTTGGATAAGCATCGGCCTCTCGTTTGGAGATATG
65 TACCTTAGATAAGCATCGGCCTCTCGTTTGGAGATATG
*
21743471 TACATACATACATTCAAATTTTGAAGGAATATCAATCGGATTAAAAGAAGATAAAAATCTCTAAG
1 TACATACATACATTCAAATTTTAAAGGAATATCAATCGGATTAAAAGAAGATAAAAA-CTCTAAG
*
21743536 TATCTTAGATAAGCATCGGCCT
65 TACCTTAGATAAGCATCGGCCT
21743558 GTTGTTCGGA
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
102 51 0.66
103 21 0.27
104 5 0.06
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (102 bp):
TACATACATACATTCAAATTTTAAAGGAATATCAATCGGATTAAAAGAAGATAAAAACTCTAAGT
ACCTTAGATAAGCATCGGCCTCTCGTTTGGAGATATG
Found at i:21767106 original size:3 final size:3
Alignment explanation
Indices: 21767098--21767148 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
21767088 CCTTCGATTT
21767098 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
21767146 TTC
1 TTC
21767149 ATTCAGATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:21776474 original size:21 final size:21
Alignment explanation
Indices: 21776450--21776490 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21776440 TAATATTTTT
* *
21776450 TAAATTAATATTAAATTAATC
1 TAAAATAATATTAAAATAATC
*
21776471 TAAAATATTATTAAAATAAT
1 TAAAATAATATTAAAATAAT
21776491 ATCATCAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAATAATATTAAAATAATC
Found at i:21782030 original size:9 final size:9
Alignment explanation
Indices: 21782016--21782050 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
21782006 AAAATTTAAA
21782016 ATTTAATTC
1 ATTTAATTC
21782025 ATTTAATTC
1 ATTTAATTC
21782034 ATTTAATTC
1 ATTTAATTC
*
21782043 ATATAATT
1 ATTTAATT
21782051 ATCATTAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTTAATTC
Found at i:21783660 original size:3 final size:3
Alignment explanation
Indices: 21783652--21783735 Score: 91
Period size: 3 Copynumber: 28.0 Consensus size: 3
21783642 TGAAATCCAC
* * * *
21783652 TTA TTA TTA TTA TTA GTA TTA TTGA TGA TT- TTA -TA ATA CTTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA -TTA TTA
*
21783697 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21783736 CCATTAGTCA
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
2 4 0.06
3 60 0.88
4 4 0.06
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:21784089 original size:66 final size:68
Alignment explanation
Indices: 21783981--21784120 Score: 239
Period size: 66 Copynumber: 2.1 Consensus size: 68
21783971 TTAACAGAAA
21783981 AGCAAACCCAAATCAATGTGGAAAAAAGCTGAACCAAGTGAGAGAATTAAAATATAAATACTACA
1 AGCAAACCCAAATCAATGTGGAAAAAAGCTGAACCAAGTGAGAGAATTAAAATATAAATACTACA
21784046 GAG
66 GAG
* *
21784049 AGCAAA-CCAAATCAATGT-GAAAAAAGCTGAACCAAGTGAGAGAATTGAGATATAAATACTACA
1 AGCAAACCCAAATCAATGTGGAAAAAAGCTGAACCAAGTGAGAGAATTAAAATATAAATACTACA
*
21784112 GAT
66 GAG
21784115 AGCAAA
1 AGCAAA
21784121 TACTAGCTTG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 51 0.74
67 12 0.17
68 6 0.09
ACGTcount: A:0.51, C:0.14, G:0.18, T:0.16
Consensus pattern (68 bp):
AGCAAACCCAAATCAATGTGGAAAAAAGCTGAACCAAGTGAGAGAATTAAAATATAAATACTACA
GAG
Found at i:21798838 original size:23 final size:23
Alignment explanation
Indices: 21798801--21798849 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
21798791 TTCTCATGTT
*
21798801 GGTTTGGGAACGGAGTTTGAAGG
1 GGTTTGGAAACGGAGTTTGAAGG
*
21798824 GGTTTGGAAATGGAGTTTGAAGG
1 GGTTTGGAAACGGAGTTTGAAGG
21798847 GGT
1 GGT
21798850 AACTACACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.02, G:0.47, T:0.29
Consensus pattern (23 bp):
GGTTTGGAAACGGAGTTTGAAGG
Found at i:21803092 original size:19 final size:19
Alignment explanation
Indices: 21803054--21803095 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
21803044 CATCGTATTA
* **
21803054 TTTTTATGACTTTTGTAGT
1 TTTTTATAACTTTTAAAGT
21803073 TTTTTATAACTTTTAAAGT
1 TTTTTATAACTTTTAAAGT
21803092 TTTT
1 TTTT
21803096 AGGTGGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (19 bp):
TTTTTATAACTTTTAAAGT
Found at i:21808524 original size:22 final size:22
Alignment explanation
Indices: 21808496--21808540 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
21808486 GGAGTTGGAA
21808496 GTGATTGTCATCTTATATTACT
1 GTGATTGTCATCTTATATTACT
*
21808518 GTGATTGTCATCTTATGTTACT
1 GTGATTGTCATCTTATATTACT
21808540 G
1 G
21808541 GCTTCAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.13, G:0.18, T:0.49
Consensus pattern (22 bp):
GTGATTGTCATCTTATATTACT
Found at i:21808662 original size:21 final size:21
Alignment explanation
Indices: 21808636--21808677 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21808626 TGTCAGACAC
21808636 AGGTATTCTAAGAAAAATGAA
1 AGGTATTCTAAGAAAAATGAA
* *
21808657 AGGTATTTTGAGAAAAATGAA
1 AGGTATTCTAAGAAAAATGAA
21808678 GAGTAGAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.21, T:0.26
Consensus pattern (21 bp):
AGGTATTCTAAGAAAAATGAA
Found at i:21811843 original size:2 final size:2
Alignment explanation
Indices: 21811836--21811867 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
21811826 TAGAAAAGAA
*
21811836 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21811868 GGGGACCCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21815176 original size:28 final size:28
Alignment explanation
Indices: 21815145--21815199 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
21815135 TTTTATTTAT
* *
21815145 ACAATTATTTTTTTAAAATTAATACTTA
1 ACAAATATTTATTTAAAATTAATACTTA
* *
21815173 ACAAATCTTTATTTAAATTTAATACTT
1 ACAAATATTTATTTAAAATTAATACTT
21815200 GTAATTCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (28 bp):
ACAAATATTTATTTAAAATTAATACTTA
Found at i:21815438 original size:11 final size:11
Alignment explanation
Indices: 21815424--21815454 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
21815414 ATACATGAAT
21815424 ATAATATAAAA
1 ATAATATAAAA
*
21815435 ATAATATTAAA
1 ATAATATAAAA
21815446 ATAATATAA
1 ATAATATAA
21815455 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:21816347 original size:23 final size:23
Alignment explanation
Indices: 21816311--21816373 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
21816301 TTCAATTTAC
21816311 ATATATATAATAAAAATAAAA-TT
1 ATATATA-AATAAAAATAAAAGTT
21816334 ATATATAAATTAAAAATAAAAGTT
1 ATATATAAA-TAAAAATAAAAGTT
21816358 ATATA-AAAGTAAAAAT
1 ATATATAAA-TAAAAAT
21816374 TAGTTTAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
22 2 0.05
23 28 0.76
24 7 0.19
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (23 bp):
ATATATAAATAAAAATAAAAGTT
Found at i:21818702 original size:27 final size:28
Alignment explanation
Indices: 21818670--21818729 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
21818660 AAATATAATG
*
21818670 ATATTATTTAAT-TTAATCTTATT-TATA
1 ATATTATTTAATCTT-ATCTTATTAGATA
*
21818697 ATATTATTTTATCTTATCTTATTAGATA
1 ATATTATTTAATCTTATCTTATTAGATA
21818725 ATATT
1 ATATT
21818730 TGGTATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (28 bp):
ATATTATTTAATCTTATCTTATTAGATA
Found at i:21822504 original size:17 final size:17
Alignment explanation
Indices: 21822479--21822514 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
21822469 AAGAACTTGG
21822479 AAAAAGAAAAGCAA-TA
1 AAAAAGAAAAGCAACTA
21822495 AAAAATGAAAAGCAACTA
1 AAAAA-GAAAAGCAACTA
21822513 AA
1 AA
21822515 GAACATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 9 0.50
18 4 0.22
ACGTcount: A:0.72, C:0.08, G:0.11, T:0.08
Consensus pattern (17 bp):
AAAAAGAAAAGCAACTA
Found at i:21822729 original size:21 final size:20
Alignment explanation
Indices: 21822695--21822734 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21822685 GGGAAAGGGG
*
21822695 TTTTCTTTCCTTTTTCTTCTT
1 TTTTCTTT-CATTTTCTTCTT
*
21822716 TTTTCTTTTATTTTCTTCT
1 TTTTCTTTCATTTTCTTCT
21822735 CATCTTGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTCATTTTCTTCTT
Found at i:21827312 original size:19 final size:17
Alignment explanation
Indices: 21827287--21827325 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
21827277 ATCAAATTAT
21827287 TATTTTTATTAAATTTTATA
1 TATTTTTA--AAATTTT-TA
21827307 TATTTTTAAAATTTTTA
1 TATTTTTAAAATTTTTA
21827324 TA
1 TA
21827326 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 7 0.37
20 8 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTTAAAATTTTTA
Found at i:21827356 original size:12 final size:12
Alignment explanation
Indices: 21827339--21827387 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
21827329 TAAAAATAAC
21827339 AAATTTATATTA
1 AAATTTATATTA
21827351 AAATTTAT-TT-
1 AAATTTATATTA
21827361 -AA-TTATATTAA
1 AAATTTATATT-A
*
21827372 AAACTTATATTA
1 AAATTTATATTA
21827384 AAAT
1 AAAT
21827388 AATATATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
8 4 0.13
9 4 0.13
11 2 0.06
12 14 0.45
13 7 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATTTATATTA
Found at i:21827897 original size:2 final size:2
Alignment explanation
Indices: 21827892--21827920 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21827882 AGAGTGTGTC
21827892 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21827921 TCTTTGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21845637 original size:2 final size:2
Alignment explanation
Indices: 21845630--21845663 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
21845620 CGCTCCCTCC
21845630 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
21845664 TTTTCCTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:21846252 original size:13 final size:13
Alignment explanation
Indices: 21846234--21846277 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
21846224 TACGATAATT
21846234 AATAAAATATAAA
1 AATAAAATATAAA
21846247 AATAAAATA-AATA
1 AATAAAATATAA-A
*
21846260 AATAATATATAAA
1 AATAAAATATAAA
21846273 TAATA
1 -AATA
21846278 TTATTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 2 0.07
13 19 0.70
14 6 0.22
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AATAAAATATAAA
Found at i:21846312 original size:22 final size:20
Alignment explanation
Indices: 21846271--21846317 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
21846261 ATAATATATA
*
21846271 AATAATATTATTTAAAATTT
1 AATAATATTATATAAAATTT
21846291 AATAATTATTATATATAAATTT
1 AATAA-TATTATATA-AAATTT
21846313 AATAA
1 AATAA
21846318 AATTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 5 0.21
21 8 0.33
22 11 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATAATATTATATAAAATTT
Found at i:21847275 original size:30 final size:29
Alignment explanation
Indices: 21847228--21847302 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
21847218 TTTAATTTTT
*
21847228 AAAAATTTAAACCTTATAGTATTATTTAA
1 AAAAATTTAAACCTTATAATATTATTTAA
* * **
21847257 AAAAATTTTAATCTTTATAATATTATTTTTT
1 AAAAA-TTTAAACCTTATAATATTA-TTTAA
*
21847288 AAAAATTTAATCCTT
1 AAAAATTTAAACCTT
21847303 GTATATTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 5 0.13
30 25 0.66
31 8 0.21
ACGTcount: A:0.44, C:0.07, G:0.01, T:0.48
Consensus pattern (29 bp):
AAAAATTTAAACCTTATAATATTATTTAA
Found at i:21848488 original size:33 final size:32
Alignment explanation
Indices: 21848410--21848490 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 32
21848400 GTTTATAAAA
* * * *
21848410 TAAAAAT-AATAATTTTATGTTAAAATCTATT
1 TAAAAATAAAAAATTTTATATGAAAATATATT
* *
21848441 TAAATATATTAAAATTTTATATGAAAATAATATT
1 TAAAAATA-AAAAATTTTATATGAAAAT-ATATT
21848475 TAAAAATAAAAAATTT
1 TAAAAATAAAAAATTT
21848491 AAAATTTAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
31 6 0.15
33 22 0.56
34 11 0.28
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (32 bp):
TAAAAATAAAAAATTTTATATGAAAATATATT
Found at i:21853789 original size:1 final size:1
Alignment explanation
Indices: 21853783--21853809 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
21853773 CACTTCCTTG
21853783 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
21853810 GAGGCAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21859116 original size:165 final size:165
Alignment explanation
Indices: 21858842--21859170 Score: 550
Period size: 165 Copynumber: 2.0 Consensus size: 165
21858832 ACAAAAGTAA
*
21858842 CGGCATGGATTCCTCTTGAATTGTACCATTCCACATATCTCTTTAAATGCTTGGTTTTAGCCCCA
1 CGGCATGGATTCCTCTTGAATTGTACCATTCCACATATCTCTTTAAATGCTTGGTTTGAGCCCCA
* * * *
21858907 AGCCATCCCAAAAGAACTACGGTTATGGCTTTGTCTTTGCTTCCAAAAGCCTCAGCTTTTCCACA
66 AGCCATCCCAAAAGAACCACGGTTATGACTTTGTCTTCGCTTCCAAAAGCCTCAGCTTTCCCACA
*
21858972 TCGATCGGCAACAATCTCCGGCGCTTTGTTCCAAG
131 TCGATCGGCAACAATCTCCGGCGCTTTGCTCCAAG
* *
21859007 CGGCATGGATTCCTCTTGAATTGTACCATTCCCCATATCTCTTTGAATGCTTGGTTTGAGCCCCA
1 CGGCATGGATTCCTCTTGAATTGTACCATTCCACATATCTCTTTAAATGCTTGGTTTGAGCCCCA
*
21859072 AGCCATCCCAAAAGAACCACGGTTATGACTTTGTCTTCGCTTCCAAAAGCCTCAGCTTTCCCACC
66 AGCCATCCCAAAAGAACCACGGTTATGACTTTGTCTTCGCTTCCAAAAGCCTCAGCTTTCCCACA
* **
21859137 TCTATCGTTAACAATCTCCGGCGCTTTGCTCCAA
131 TCGATCGGCAACAATCTCCGGCGCTTTGCTCCAA
21859171 TCTAAAACCG
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
165 152 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.31
Consensus pattern (165 bp):
CGGCATGGATTCCTCTTGAATTGTACCATTCCACATATCTCTTTAAATGCTTGGTTTGAGCCCCA
AGCCATCCCAAAAGAACCACGGTTATGACTTTGTCTTCGCTTCCAAAAGCCTCAGCTTTCCCACA
TCGATCGGCAACAATCTCCGGCGCTTTGCTCCAAG
Found at i:21860182 original size:14 final size:13
Alignment explanation
Indices: 21860157--21860199 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
21860147 TTCAAACTCG
21860157 ATTTTAAATTTAA
1 ATTTTAAATTTAA
21860170 ATTTTATAATTTAA
1 ATTTTA-AATTTAA
* *
21860184 TTTTTAAAATTAA
1 ATTTTAAATTTAA
21860197 ATT
1 ATT
21860200 CGATTGGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTTAAATTTAA
Found at i:21860376 original size:18 final size:19
Alignment explanation
Indices: 21860353--21860421 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
21860343 ATTAAAATAA
*
21860353 TAAAAATATT-AATATATT
1 TAAAAATATTGAATAAATT
* *
21860371 TAAAAATTTTGATTAAATT
1 TAAAAATATTGAATAAATT
* *
21860390 TAAAAATTACTTCAATAAAATA
1 TAAAAA-TA-TTGAAT-AAATT
21860412 TAAAAATATT
1 TAAAAATATT
21860422 TAAATTCGAC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
18 9 0.22
19 12 0.30
20 3 0.08
21 6 0.15
22 10 0.25
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (19 bp):
TAAAAATATTGAATAAATT
Found at i:21865127 original size:17 final size:18
Alignment explanation
Indices: 21865072--21865176 Score: 58
Period size: 17 Copynumber: 5.7 Consensus size: 18
21865062 TGTAATTAAT
*
21865072 TTAATAATTTTAAT-TTAA
1 TTAAT-ATTTTAATATAAA
*
21865090 TATAATATTTATAA-A-ATA
1 T-TAATATTT-TAATATAAA
21865108 TTAAT-TTTTAATATAAA
1 TTAATATTTTAATATAAA
*
21865125 TTATATCTTTTTTATATATAAA
1 TTA-A--TATTTTA-ATATAAA
* *
21865147 TATAATATTTTTAT-TAAG
1 T-TAATATTTTAATATAAA
21865165 TTAATATTTTAA
1 TTAATATTTTAA
21865177 AGTAAAGCAT
Statistics
Matches: 69, Mismatches: 7, Indels: 23
0.70 0.07 0.23
Matches are distributed among these distances:
15 3 0.04
16 4 0.06
17 19 0.28
18 12 0.17
19 9 0.13
20 6 0.09
21 5 0.07
22 9 0.13
23 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (18 bp):
TTAATATTTTAATATAAA
Found at i:21865130 original size:22 final size:21
Alignment explanation
Indices: 21865099--21865160 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
21865089 ATATAATATT
21865099 TATAAA-ATATTAATTTTTA-A
1 TATAAATATATT-ATTTTTATA
21865119 TATAAATTATATCT-TTTTTATA
1 TATAAA-TATAT-TATTTTTATA
*
21865141 TATAAATATAATATTTTTAT
1 TATAAATATATTATTTTTAT
21865161 TAAGTTAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
20 7 0.19
21 17 0.47
22 11 0.31
23 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TATAAATATATTATTTTTATA
Found at i:21867526 original size:7 final size:7
Alignment explanation
Indices: 21867501--21867543 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
21867491 TTCTTTTTAC
21867501 ATAAA-A
1 ATAAATA
21867507 ATAAATAA
1 ATAAAT-A
21867515 ATAAATA
1 ATAAATA
21867522 ATAAATA
1 ATAAATA
21867529 ATAAAATA
1 AT-AAATA
*
21867537 ACAAATA
1 ATAAATA
21867544 CTTTAATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
6 5 0.15
7 15 0.45
8 13 0.39
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (7 bp):
ATAAATA
Found at i:21867526 original size:15 final size:15
Alignment explanation
Indices: 21867501--21867543 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
21867491 TTCTTTTTAC
21867501 ATAAA-AATAAATAA
1 ATAAATAATAAATAA
21867515 ATAAATAATAAAT-A
1 ATAAATAATAAATAA
*
21867529 ATAAAATAACAAATA
1 AT-AAATAATAAATA
21867544 CTTTAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (15 bp):
ATAAATAATAAATAA
Found at i:21877353 original size:21 final size:21
Alignment explanation
Indices: 21877327--21877368 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21877317 ATGATGTCCA
* *
21877327 TAATGGTGAATTTGGAAGCAG
1 TAATGGGGAAGTTGGAAGCAG
21877348 TAATGGGGAAGTTGGAAGCAG
1 TAATGGGGAAGTTGGAAGCAG
21877369 CCAAATGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.38, T:0.24
Consensus pattern (21 bp):
TAATGGGGAAGTTGGAAGCAG
Found at i:21879399 original size:3 final size:3
Alignment explanation
Indices: 21879391--21879419 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21879381 GAAGATTCAC
21879391 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
21879420 ATGAGTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21883932 original size:26 final size:26
Alignment explanation
Indices: 21883876--21883928 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
21883866 TGTTATATTT
**
21883876 ATATTTAGATTATTTGTGTTATTTAA
1 ATATTTAGATTATTTGTGTTATCAAA
* *
21883902 ATATTTATATTATTTTTG-TATCAAA
1 ATATTTAGATTATTTGTGTTATCAAA
21883927 AT
1 AT
21883929 TATTAAATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.57
Consensus pattern (26 bp):
ATATTTAGATTATTTGTGTTATCAAA
Found at i:21885693 original size:15 final size:15
Alignment explanation
Indices: 21885673--21885704 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
21885663 TGTGTGGGTG
21885673 TTGTTTTTGGTTAAA
1 TTGTTTTTGGTTAAA
21885688 TTGTTTTTGGTTAAA
1 TTGTTTTTGGTTAAA
21885703 TT
1 TT
21885705 TAGTAAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (15 bp):
TTGTTTTTGGTTAAA
Found at i:21885943 original size:14 final size:14
Alignment explanation
Indices: 21885924--21885955 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
21885914 ATTGTGTTTG
21885924 GAGTAGGTCATTTT
1 GAGTAGGTCATTTT
21885938 GAGTAGGTCATTTT
1 GAGTAGGTCATTTT
21885952 GAGT
1 GAGT
21885956 TGGGTCGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.41
Consensus pattern (14 bp):
GAGTAGGTCATTTT
Found at i:21886300 original size:141 final size:140
Alignment explanation
Indices: 21886046--21886326 Score: 472
Period size: 141 Copynumber: 2.0 Consensus size: 140
21886036 TTGTTTTTTT
*
21886046 CCAACAAGTGATATCAGAGCGAAGTTCGAGGTTTAAGGTTCGTGGCCCAAAAGATCGTGAAGCAG
1 CCAACAAGTGATATCAGAACGAAGTTCGAGGTTTAAGGTTCGTGGCCCAAAAGATCGTGAAGCAG
*
21886111 TATTTAAAGATGTCTGAAGAAGGTATGGCTGGTATGCCTATGCTTAAGTTTGAGATTTCGTTATT
66 TATTTAAAGATGTCTGAAGAAGGTATGGCTGGTATGCCTATGCCTAAGTTTGAGATTTCGTTATT
*
21886176 TGATGAAAAG
131 TGATAAAAAG
* * * *
21886186 CCAACAAGTGGTATCAGAACGAAGTTCGAGGTTTAAGGTTCGTGGGCTCAAGAGATTGTGAAGCA
1 CCAACAAGTGATATCAGAACGAAGTTCGAGGTTTAAGGTTCGT-GGCCCAAAAGATCGTGAAGCA
* *
21886251 GTGTTTAAAGATGTCTGAAGAAGGTATGGTTGGTATGCCTATGCCTAAGTTTGAGATTTCGTTAT
65 GTATTTAAAGATGTCTGAAGAAGGTATGGCTGGTATGCCTATGCCTAAGTTTGAGATTTCGTTAT
21886316 TTGATAAAAAG
130 TTGATAAAAAG
21886327 AGTAATTTTA
Statistics
Matches: 131, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
140 41 0.31
141 90 0.69
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (140 bp):
CCAACAAGTGATATCAGAACGAAGTTCGAGGTTTAAGGTTCGTGGCCCAAAAGATCGTGAAGCAG
TATTTAAAGATGTCTGAAGAAGGTATGGCTGGTATGCCTATGCCTAAGTTTGAGATTTCGTTATT
TGATAAAAAG
Found at i:21888102 original size:24 final size:24
Alignment explanation
Indices: 21888075--21888124 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
21888065 GTTTTAATTT
21888075 AATAATCTCAGAGAGTTAAACGCC
1 AATAATCTCAGAGAGTTAAACGCC
21888099 AATAATCTCAGAGAGTTAAACGCC
1 AATAATCTCAGAGAGTTAAACGCC
21888123 AA
1 AA
21888125 GAGAATAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (24 bp):
AATAATCTCAGAGAGTTAAACGCC
Found at i:21899223 original size:24 final size:26
Alignment explanation
Indices: 21899196--21899246 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
21899186 TAACATAAAA
21899196 TTAAAA-TATAAAAATAATT-TATAT
1 TTAAAATTATAAAAATAATTATATAT
* *
21899220 TTAAAATTATAATAATTATTATATAT
1 TTAAAATTATAAAAATAATTATATAT
21899246 T
1 T
21899247 AATTTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 11 0.48
26 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TTAAAATTATAAAAATAATTATATAT
Found at i:21899343 original size:32 final size:32
Alignment explanation
Indices: 21899307--21899369 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
21899297 TATGACATGT
* *
21899307 AATTTTTATATAAAATATAATATAAATACATA
1 AATTTTAATATAAAACATAATATAAATACATA
***
21899339 AATTTTAATATTTTACATAATATAAATACAT
1 AATTTTAATATAAAACATAATATAAATACAT
21899370 GAATCATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (32 bp):
AATTTTAATATAAAACATAATATAAATACATA
Found at i:21911651 original size:11 final size:11
Alignment explanation
Indices: 21911635--21911676 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
21911625 ATATGATACG
21911635 ATAATATAAAA
1 ATAATATAAAA
21911646 ATAATATAAATA
1 ATAATATAAA-A
*
21911658 AAAGATATAAAA
1 ATA-ATATAAAA
21911670 ATAATAT
1 ATAATAT
21911677 GATTTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.52
12 6 0.22
13 7 0.26
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:21913858 original size:2 final size:2
Alignment explanation
Indices: 21913853--21913888 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
21913843 CTCCATCTTT
21913853 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21913889 GTTGTGTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21914309 original size:2 final size:2
Alignment explanation
Indices: 21914302--21914333 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21914292 ATCTTCAATA
21914302 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
21914334 CATCTTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:21917772 original size:22 final size:23
Alignment explanation
Indices: 21917747--21917801 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 23
21917737 AAATAATTAT
21917747 TATATATATAAATTTAT-TTAAA
1 TATATATATAAATTTATATTAAA
*
21917769 TATAT-TA-AAATTTTTATTAAA
1 TATATATATAAATTTATATTAAA
21917790 -ATAATATATAAA
1 TAT-ATATATAAA
21917802 AAATAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 9 0.32
21 9 0.32
22 7 0.25
23 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATATATATAAATTTATATTAAA
Found at i:21917773 original size:20 final size:21
Alignment explanation
Indices: 21917748--21917801 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
21917738 AATAATTATT
*
21917748 ATATATATAAA-TTTATTTAA
1 ATATATATAAATTTTATTAAA
21917768 ATATAT-TAAAATTTTTATTAAA
1 ATATATAT-AAA-TTTTATTAAA
21917790 ATAATATATAAA
1 AT-ATATATAAA
21917802 AAATAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 9 0.32
22 10 0.36
23 7 0.25
24 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATATATAAATTTTATTAAA
Found at i:21917876 original size:28 final size:27
Alignment explanation
Indices: 21917806--21917879 Score: 76
Period size: 33 Copynumber: 2.5 Consensus size: 27
21917796 TATAAAAAAT
*
21917806 AAATTTTAAAAATTGATGAATCGAATC
1 AAATTTTAAAAATTAATGAATCGAATC
*
21917833 AAATCGATTTAAAAAAATTAATTTAATCGAATC
1 AAAT---TTT--AAAAATTAA-TGAATCGAATC
21917866 AAATTTTAAAAATT
1 AAATTTTAAAAATT
21917880 TATAATATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
27 4 0.10
28 7 0.18
30 6 0.15
32 8 0.21
33 14 0.36
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (27 bp):
AAATTTTAAAAATTAATGAATCGAATC
Found at i:21918547 original size:16 final size:18
Alignment explanation
Indices: 21918533--21918570 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21918523 GCTTCTTTTT
21918533 TTTTTTTTATCTTTTATG
1 TTTTTTTTATCTTTTATG
*
21918551 TTTTTTTT-TGTTTT-TG
1 TTTTTTTTATCTTTTATG
21918567 TTTT
1 TTTT
21918571 AATCTTTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 5 0.26
18 8 0.42
ACGTcount: A:0.05, C:0.03, G:0.08, T:0.84
Consensus pattern (18 bp):
TTTTTTTTATCTTTTATG
Found at i:21927902 original size:122 final size:122
Alignment explanation
Indices: 21927683--21927910 Score: 318
Period size: 122 Copynumber: 1.9 Consensus size: 122
21927673 GGAAGAATCA
* * ** *
21927683 TGAATCTCACATCGAACATAATAGGAAGGTCATTGGGATATAAAAAAGCTCACACTATCTCTGTC
1 TGAATCTCACATCGAACATAATAGAAAGGTCACTGAAATATAAAAAAGCTCACAATATCTCTGTC
*
21927748 TTGTGAGACATCTTTTGTAGAATAAAACCTTGA-AGTCAAAAAGTAAGAAATAAGTTT
66 TTGTGAGACATCTTTTGTAAAATAAAACCTTGAGA-TCAAAAAGTAAGAAATAAGTTT
* *
21927805 TGAATCTCACATCGAACATAATA-AAAGGGTCACTGAAATAT-AAAAAGATTTACAATATCTCTG
1 TGAATCTCACATCGAACATAATAGAAA-GGTCACTGAAATATAAAAAAG-CTCACAATATCTCTG
* *
21927868 TCTTGTGAGATATCTTTTGTAAAATAAAATCTTGAGATCAAAA
64 TCTTGTGAGACATCTTTTGTAAAATAAAACCTTGAGATCAAAA
21927911 CAGATAATAT
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
121 8 0.09
122 84 0.90
123 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (122 bp):
TGAATCTCACATCGAACATAATAGAAAGGTCACTGAAATATAAAAAAGCTCACAATATCTCTGTC
TTGTGAGACATCTTTTGTAAAATAAAACCTTGAGATCAAAAAGTAAGAAATAAGTTT
Found at i:21929007 original size:26 final size:27
Alignment explanation
Indices: 21928949--21929021 Score: 69
Period size: 30 Copynumber: 2.6 Consensus size: 27
21928939 TTTTATTTTA
*
21928949 TTAAATACATATATAATTATTATTATAATT
1 TTAAAT-CATAT-TATTTA-TATTATAATT
*
21928979 TTAAATCATTATTTTTTATATTAT-A-T
1 TTAAATCA-TATTATTTATATTATAATT
*
21929005 TTATATCATATTATTTA
1 TTAAATCATATTATTTA
21929022 GGTATTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 8 0.21
26 8 0.21
27 1 0.03
28 6 0.16
29 6 0.16
30 9 0.24
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TTAAATCATATTATTTATATTATAATT
Found at i:21929755 original size:41 final size:41
Alignment explanation
Indices: 21929698--21929781 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
21929688 TTTGTATTTC
21929698 TCCAGATCTCTTCCATATAGTTCTCCCAAGTCCCAGGTTTA
1 TCCAGATCTCTTCCATATAGTTCTCCCAAGTCCCAGGTTTA
*
21929739 TCCAGATCTCTTCCATATAGTTCTTCCAAGTCCCAGGTTTA
1 TCCAGATCTCTTCCATATAGTTCTCCCAAGTCCCAGGTTTA
21929780 TC
1 TC
21929782 TTACATACTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (41 bp):
TCCAGATCTCTTCCATATAGTTCTCCCAAGTCCCAGGTTTA
Found at i:21933399 original size:2 final size:2
Alignment explanation
Indices: 21933392--21933430 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
21933382 GCTACTCTGA
21933392 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21933431 AAGTTGGTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21938183 original size:15 final size:15
Alignment explanation
Indices: 21938163--21938192 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21938153 GAATAGTTTG
21938163 GCTTCTTTGATTCCA
1 GCTTCTTTGATTCCA
21938178 GCTTCTTTGATTCCA
1 GCTTCTTTGATTCCA
21938193 AGATATGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.13, T:0.47
Consensus pattern (15 bp):
GCTTCTTTGATTCCA
Found at i:21941243 original size:30 final size:30
Alignment explanation
Indices: 21941208--21941270 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
21941198 CGTTCTACAA
21941208 TTCTTTTGTAATACATATGATGATATTAAG
1 TTCTTTTGTAATACATATGATGATATTAAG
21941238 TTCTTTTGTAATACATATGATGATATTAAG
1 TTCTTTTGTAATACATATGATGATATTAAG
21941268 TTC
1 TTC
21941271 ATTACGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.48
Consensus pattern (30 bp):
TTCTTTTGTAATACATATGATGATATTAAG
Found at i:21941757 original size:2 final size:2
Alignment explanation
Indices: 21941752--21941780 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21941742 GCTCTCTCTT
21941752 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
21941781 TACATGCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:21945498 original size:15 final size:15
Alignment explanation
Indices: 21945478--21945507 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21945468 GAATAGTTTG
21945478 GCTTCTTTGATTCCA
1 GCTTCTTTGATTCCA
21945493 GCTTCTTTGATTCCA
1 GCTTCTTTGATTCCA
21945508 AGATATGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.13, T:0.47
Consensus pattern (15 bp):
GCTTCTTTGATTCCA
Found at i:21950500 original size:34 final size:31
Alignment explanation
Indices: 21950462--21950523 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 31
21950452 GATTAATTTT
*
21950462 ATTGAAATTAAAAATAATAATAAAAATAATTGTA
1 ATTGAAA-AAAAAATAATAA-AAAAA-AATTGTA
*
21950496 ATTGAAAAAAAAATTATAAAAAAAAATT
1 ATTGAAAAAAAAATAATAAAAAAAAATT
21950524 TATATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 4 0.15
32 5 0.19
33 10 0.38
34 7 0.27
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (31 bp):
ATTGAAAAAAAAATAATAAAAAAAAATTGTA
Found at i:21953988 original size:15 final size:15
Alignment explanation
Indices: 21953968--21954001 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21953958 GATAAATCTC
21953968 AAATAAT-ATGAAAAA
1 AAATAATAAT-AAAAA
21953983 AAATAATAATAAAAA
1 AAATAATAATAAAAA
21953998 AAAT
1 AAAT
21954002 CACTGGAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAATAATAATAAAAA
Found at i:21955074 original size:2 final size:2
Alignment explanation
Indices: 21955069--21955105 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
21955059 TGTGTGTGTA
*
21955069 AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
21955106 TTTGTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21956986 original size:18 final size:18
Alignment explanation
Indices: 21956965--21957024 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
21956955 ACATAACAAA
21956965 ATAATATATTCATATAAT
1 ATAATATATTCATATAAT
* *
21956983 ATAAAATATT-A-AAAAT
1 ATAATATATTCATATAAT
*
21956999 -TTATATATTCATATAAT
1 ATAATATATTCATATAAT
*
21957016 ATTATATAT
1 ATAATATAT
21957025 AAAAATTACG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 7 0.21
16 5 0.15
17 5 0.15
18 17 0.50
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATATATTCATATAAT
Found at i:21957005 original size:33 final size:32
Alignment explanation
Indices: 21956968--21957031 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
21956958 TAACAAAATA
21956968 ATATATTCATATAATATAAAATATTAAAAATTT
1 ATATATTCATATAATATAAAATA-TAAAAATTT
* *
21957001 ATATATTCATATAATATTATATATAAAAATT
1 ATATATTCATATAATATAAAATATAAAAATT
21957032 ACGTATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 8 0.28
33 21 0.72
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (32 bp):
ATATATTCATATAATATAAAATATAAAAATTT
Found at i:21968906 original size:31 final size:29
Alignment explanation
Indices: 21968871--21968930 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 29
21968861 TATATTGTCA
21968871 ATGAATC-AGATAATAATAACTCATTAATAAG
1 ATGAATCTA-ATAATAAT-A-TCATTAATAAG
21968902 ATGAATCTAATAATAATATCATTAATAAG
1 ATGAATCTAATAATAATATCATTAATAAG
21968931 TAAATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 11 0.39
30 1 0.04
31 15 0.54
32 1 0.04
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (29 bp):
ATGAATCTAATAATAATATCATTAATAAG
Found at i:21969074 original size:3 final size:3
Alignment explanation
Indices: 21969066--21969096 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
21969056 ATATAAATTC
21969066 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21969097 TTTTTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:21972150 original size:1 final size:1
Alignment explanation
Indices: 21972144--21972169 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
21972134 CTCTTTACAG
21972144 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
21972170 GAGCATTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:21973156 original size:2 final size:2
Alignment explanation
Indices: 21973149--21973187 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
21973139 AAAATATCTA
21973149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21973188 TTTAAATCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:21985004 original size:3 final size:3
Alignment explanation
Indices: 21984996--21985027 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
21984986 ATATAAATTC
21984996 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
21985028 AAGAAGTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21998580 original size:14 final size:14
Alignment explanation
Indices: 21998563--21998602 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
21998553 TTAGTCAAAT
21998563 TTATTTAATTAAAA
1 TTATTTAATTAAAA
* *
21998577 TTATTAAATAAAAA
1 TTATTTAATTAAAA
21998591 TATATTTAATTA
1 T-TATTTAATTA
21998603 TTAAATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTATTTAATTAAAA
Found at i:22000298 original size:2 final size:2
Alignment explanation
Indices: 22000291--22000326 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
22000281 ACTATTATTA
* *
22000291 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22000327 CAACCTTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:22002012 original size:2 final size:2
Alignment explanation
Indices: 22002005--22002033 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22001995 AAGAGTCACA
22002005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22002034 AGATCTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22012925 original size:11 final size:11
Alignment explanation
Indices: 22012909--22012947 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
22012899 AAATATGATG
22012909 ATATAAAAATA
1 ATATAAAAATA
*
22012920 ATATAAATAAAAA
1 ATAT-AA-AAATA
22012933 ATATAAAAATA
1 ATATAAAAATA
22012944 ATAT
1 ATAT
22012948 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 12 0.50
12 4 0.17
13 8 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:22014841 original size:72 final size:72
Alignment explanation
Indices: 22014751--22014889 Score: 269
Period size: 72 Copynumber: 1.9 Consensus size: 72
22014741 AAAAAATCGG
*
22014751 ATTAAACTGTTTTTATTAACTTTTATATATTTTTTAAATTTTTATATAATAAAAATAATATTTTA
1 ATTAAACTGTTTTTATTAACTTTTATATATTTTTAAAATTTTTATATAATAAAAATAATATTTTA
22014816 TAGCCGA
66 TAGCCGA
22014823 ATTAAACTGTTTTTATTAACTTTTATATATTTTTAAAATTTTTATATAATAAAAATAATATTTTA
1 ATTAAACTGTTTTTATTAACTTTTATATATTTTTAAAATTTTTATATAATAAAAATAATATTTTA
22014888 TA
66 TA
22014890 TCAAACTCTA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (72 bp):
ATTAAACTGTTTTTATTAACTTTTATATATTTTTAAAATTTTTATATAATAAAAATAATATTTTA
TAGCCGA
Found at i:22015647 original size:21 final size:21
Alignment explanation
Indices: 22015623--22015662 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22015613 ATAACTTTTA
22015623 ATATAATTTTAATAATTTTGG
1 ATATAATTTTAATAATTTTGG
*
22015644 ATATAATTTTGATAATTTT
1 ATATAATTTTAATAATTTT
22015663 CTTATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (21 bp):
ATATAATTTTAATAATTTTGG
Found at i:22018948 original size:36 final size:36
Alignment explanation
Indices: 22018902--22018970 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
22018892 ATATTTTTTA
*
22018902 TGAGACAAAATGTG-AAATTTTTAAATTAAAATATTG
1 TGAGACAAAATATGAAAATTTTT-AATTAAAATATTG
* *
22018938 TGAGATAAAATATGAAAATTTTTTATTAAAATA
1 TGAGACAAAATATGAAAATTTTTAATTAAAATA
22018971 AATAATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 21 0.72
37 8 0.28
ACGTcount: A:0.49, C:0.01, G:0.12, T:0.38
Consensus pattern (36 bp):
TGAGACAAAATATGAAAATTTTTAATTAAAATATTG
Found at i:22028060 original size:24 final size:23
Alignment explanation
Indices: 22028032--22028116 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 23
22028022 ATAACAAGTG
22028032 ACATGTAAATTACGA-AAATAAATT
1 ACATGTAAATTA--ATAAATAAATT
* *
22028056 ACATGTTAAATGAATAAATAATTT
1 ACATG-TAAATTAATAAATAAATT
*
22028080 ACATGTGAAATTATTAAATAAATAT
1 ACATGT-AAATTAATAAATAAAT-T
**
22028105 ACAAATAAATTA
1 ACATGTAAATTA
22028117 TACGTTAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
23 2 0.04
24 37 0.74
25 11 0.22
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (23 bp):
ACATGTAAATTAATAAATAAATT
Found at i:22028307 original size:174 final size:173
Alignment explanation
Indices: 22027984--22028310 Score: 503
Period size: 174 Copynumber: 1.9 Consensus size: 173
22027974 TCTTTTAATA
* *
22027984 TATTTCTCTTAGTTATATTATTAGTTAATATCATGTGAATAACAAGTGACATGTAAATTACGAAA
1 TATTTCTCTTAGTTATATTATTAGTTAATATCATGTGAAAAACAAATGACATGTAAATTACGAAA
* * ** *
22028049 ATAAATTACATGTTAAATGAATAAATAATTTACATGTGAAATTATTAAATAAATATACAAATAAA
66 ACAAATAACATGTTAAATGAATAAATAATTTACATGTGAAACCATTAAATAAATAAACAAATAAA
*
22028114 TTATACGTTAAATAAATAAAAAATACATCTTAGTTAATATCATG
131 -TACACGTTAAATAAATAAAAAATACATCTTAGTTAATATCATG
* *
22028158 TATTTCTCTTAGTTATATTATTAGTTAATATCATGTGAAAAACAAATGACATGTAATTTATGAAA
1 TATTTCTCTTAGTTATATTATTAGTTAATATCATGTGAAAAACAAATGACATGTAAATTACGAAA
* *
22028223 ACAAATAACATGTTAAATGAATAAATAATTTACATGTTAAACCATTAAATAAATAAATAAATAAA
66 ACAAATAACATGTTAAATGAATAAATAATTTACATGTGAAACCATTAAATAAATAAACAAATAAA
* *
22028288 -ACATGTTAAATAAAAATAAAAAT
131 TACACGTTAAATAAATA-AAAAAT
22028311 GATATAAACT
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
172 13 0.09
173 6 0.04
174 119 0.86
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.35
Consensus pattern (173 bp):
TATTTCTCTTAGTTATATTATTAGTTAATATCATGTGAAAAACAAATGACATGTAAATTACGAAA
ACAAATAACATGTTAAATGAATAAATAATTTACATGTGAAACCATTAAATAAATAAACAAATAAA
TACACGTTAAATAAATAAAAAATACATCTTAGTTAATATCATG
Found at i:22032047 original size:22 final size:22
Alignment explanation
Indices: 22032019--22032062 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22032009 TTAAAAAATT
*
22032019 ATCAAATTAAATT-AAATATAAA
1 ATCAAATCAAATTCAAA-ATAAA
22032041 ATCAAATCAAATTCAAAATAAA
1 ATCAAATCAAATTCAAAATAAA
22032063 TAAAATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (22 bp):
ATCAAATCAAATTCAAAATAAA
Found at i:22033934 original size:12 final size:12
Alignment explanation
Indices: 22033917--22033941 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22033907 ATAATATGTA
22033917 AAAAAATTATTT
1 AAAAAATTATTT
22033929 AAAAAATTATTT
1 AAAAAATTATTT
22033941 A
1 A
22033942 TAATTCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAAAATTATTT
Found at i:22034098 original size:20 final size:21
Alignment explanation
Indices: 22034070--22034111 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22034060 TAATAAGATC
22034070 TTTTAATTTA-TCAATTTTAA
1 TTTTAATTTACTCAATTTTAA
* *
22034090 TTTTTATTTACTCATTTTTAA
1 TTTTAATTTACTCAATTTTAA
22034111 T
1 T
22034112 AAAAAACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAATTTACTCAATTTTAA
Found at i:22045349 original size:2 final size:2
Alignment explanation
Indices: 22045342--22045367 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22045332 TTGTAGAAAT
22045342 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
22045368 CTAGGCTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22050427 original size:2 final size:2
Alignment explanation
Indices: 22050420--22050447 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22050410 GAAGTCAAAT
22050420 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22050448 ATACAAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22054019 original size:47 final size:48
Alignment explanation
Indices: 22053934--22054024 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
22053924 TAATCAAGCC
* * *
22053934 AAATCATGGGTCAATCATTAAAAATCATCATAAATCATCTTTATATAT
1 AAATCATAGATCAATCATTAAAAATCATCATAAATCATCATTATATAT
*
22053982 AAATCATAGATCAATC-TTTAAAATCATCATAAATCATCATTAT
1 AAATCATAGATCAATCATTAAAAATCATCATAAATCATCATTAT
22054025 CATTAGTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 25 0.64
48 14 0.36
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.35
Consensus pattern (48 bp):
AAATCATAGATCAATCATTAAAAATCATCATAAATCATCATTATATAT
Found at i:22058826 original size:24 final size:23
Alignment explanation
Indices: 22058777--22058826 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
22058767 CATTAGTAAA
*
22058777 ATTTTAAATTATATAAATTTCGT
1 ATTTTAAATTATATAAATTTCAT
*
22058800 ATTTTATAATTTTA-AAATATTCAT
1 ATTTTA-AATTATATAAAT-TTCAT
22058824 ATT
1 ATT
22058827 ATATTATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTTTAAATTATATAAATTTCAT
Found at i:22058961 original size:5 final size:5
Alignment explanation
Indices: 22058953--22058987 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
22058943 CATATCATAT
22058953 TTATA TTATA -T-TA TTATA TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TT
22058988 TTAAATTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 2 0.07
5 24 0.86
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:22058969 original size:13 final size:13
Alignment explanation
Indices: 22058953--22058979 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22058943 CATATCATAT
22058953 TTATATTATATTA
1 TTATATTATATTA
22058966 TTATATTATATTA
1 TTATATTATATTA
22058979 T
1 T
22058980 ATTATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATTATATTA
Found at i:22060644 original size:31 final size:31
Alignment explanation
Indices: 22060609--22060669 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
22060599 AAATTAACAC
22060609 TACATAAAGTAGCAATATACATATTAATTTT
1 TACATAAAGTAGCAATATACATATTAATTTT
*
22060640 TACATAAAGTAGCAGTATACATATTAATTT
1 TACATAAAGTAGCAATATACATATTAATTT
22060670 AGTATTACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (31 bp):
TACATAAAGTAGCAATATACATATTAATTTT
Found at i:22066441 original size:18 final size:19
Alignment explanation
Indices: 22066415--22066454 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
22066405 AAAAAAAACC
*
22066415 AAATTTACC-ACATAATTG
1 AAATATACCAACATAATTG
22066433 AAATATACCAAACATAATTG
1 AAATATACC-AACATAATTG
22066453 AA
1 AA
22066455 TTAAACCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.28
Consensus pattern (19 bp):
AAATATACCAACATAATTG
Found at i:22066462 original size:20 final size:20
Alignment explanation
Indices: 22066424--22066462 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22066414 CAAATTTACC
*
22066424 ACATAATTGAAATATACCAA
1 ACATAATTGAAATAAACCAA
*
22066444 ACATAATTGAATTAAACCA
1 ACATAATTGAAATAAACCA
22066463 TTAATTCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.26
Consensus pattern (20 bp):
ACATAATTGAAATAAACCAA
Found at i:22069287 original size:58 final size:58
Alignment explanation
Indices: 22069194--22069304 Score: 204
Period size: 58 Copynumber: 1.9 Consensus size: 58
22069184 CATTATTAAA
*
22069194 CTTAACAAACGATCACAAACAATATTTCATGATTCATTAATTAAATGAACATAGTGAG
1 CTTAACAAACGATCACAAACAATATTTCATAATTCATTAATTAAATGAACATAGTGAG
*
22069252 CTTAACAAACGATCACAAACAATATTTCATAATTCATTAATTACATGAACATA
1 CTTAACAAACGATCACAAACAATATTTCATAATTCATTAATTAAATGAACATA
22069305 TCAAAGTTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (58 bp):
CTTAACAAACGATCACAAACAATATTTCATAATTCATTAATTAAATGAACATAGTGAG
Found at i:22078238 original size:43 final size:43
Alignment explanation
Indices: 22078190--22078280 Score: 146
Period size: 43 Copynumber: 2.1 Consensus size: 43
22078180 AGGATCCTTT
*
22078190 AAATAAATGGAAGTGAACAAAGAATTAACACAAAATAAAAGTG
1 AAATAAATGGAAGCGAACAAAGAATTAACACAAAATAAAAGTG
* * *
22078233 AAATAAATGGAAGCGAAGAAAGAATTAACACAAAGTACAAGTG
1 AAATAAATGGAAGCGAACAAAGAATTAACACAAAATAAAAGTG
22078276 AAATA
1 AAATA
22078281 TAAGAGTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (43 bp):
AAATAAATGGAAGCGAACAAAGAATTAACACAAAATAAAAGTG
Found at i:22081863 original size:8 final size:8
Alignment explanation
Indices: 22081846--22081876 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
22081836 ACACTACAAT
22081846 AAAAAA-A
1 AAAAAACA
22081853 AAAAAACA
1 AAAAAACA
22081861 AAAAAACA
1 AAAAAACA
22081869 AAAAAACA
1 AAAAAACA
22081877 TGGGCTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:22081866 original size:17 final size:18
Alignment explanation
Indices: 22081841--22081874 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22081831 TTTTCACACT
*
22081841 ACAATAAAA-AAAAAAAA
1 ACAAAAAAACAAAAAAAA
22081858 ACAAAAAAACAAAAAAA
1 ACAAAAAAACAAAAAAA
22081875 CATGGGCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (18 bp):
ACAAAAAAACAAAAAAAA
Found at i:22084606 original size:15 final size:17
Alignment explanation
Indices: 22084586--22084618 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
22084576 ATACTTGAAT
22084586 TTAAATTT-TA-TTATA
1 TTAAATTTATAGTTATA
22084601 TTAAATTTATAGTTATA
1 TTAAATTTATAGTTATA
22084618 T
1 T
22084619 AATTATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTAAATTTATAGTTATA
Found at i:22095528 original size:20 final size:20
Alignment explanation
Indices: 22095503--22095545 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
22095493 CAAGAGGTAG
22095503 CCTATTAAACATCTAGGGGT
1 CCTATTAAACATCTAGGGGT
22095523 CCTATTAAACATCTAGGGGT
1 CCTATTAAACATCTAGGGGT
22095543 CCT
1 CCT
22095546 CTGCTACACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (20 bp):
CCTATTAAACATCTAGGGGT
Found at i:22105125 original size:23 final size:23
Alignment explanation
Indices: 22105095--22105142 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
22105085 TCCATCAGAT
22105095 AGTATATTCTTCTGATTATTATA
1 AGTATATTCTTCTGATTATTATA
22105118 AGTATATTCTTCTGATTATTATA
1 AGTATATTCTTCTGATTATTATA
22105141 AG
1 AG
22105143 GCTAAAGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.50
Consensus pattern (23 bp):
AGTATATTCTTCTGATTATTATA
Found at i:22125240 original size:45 final size:45
Alignment explanation
Indices: 22125178--22125267 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
22125168 TTTTGCAATA
*
22125178 AAAATAATGCACATAAATATACAAGTAAACAAGAGAAATGAACAT
1 AAAATAATGCACATAAATATACAAGTAAACAAGAAAAATGAACAT
22125223 AAAATAATGCACATAAATATACAAGTAAACAAGAAAAATGAACAT
1 AAAATAATGCACATAAATATACAAGTAAACAAGAAAAATGAACAT
22125268 TGATTATCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.61, C:0.11, G:0.10, T:0.18
Consensus pattern (45 bp):
AAAATAATGCACATAAATATACAAGTAAACAAGAAAAATGAACAT
Found at i:22125399 original size:32 final size:32
Alignment explanation
Indices: 22125357--22125418 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
22125347 CATCTCTTTT
22125357 CATTGCTCAACTCTTTGACAACATGAAAAACC
1 CATTGCTCAACTCTTTGACAACATGAAAAACC
*
22125389 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGCTCAACTCTTTGACAACATGAAAAA
22125419 AACCAAAAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (32 bp):
CATTGCTCAACTCTTTGACAACATGAAAAACC
Found at i:22132819 original size:3 final size:3
Alignment explanation
Indices: 22132811--22132856 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
22132801 ATATACATTA
22132811 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
22132857 CATTTCAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Done.