Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003269.1 Hibiscus syriacus cultivar Beakdansim tig00006871_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 54372
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:4264 original size:21 final size:21
Alignment explanation
Indices: 4227--4309 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
4217 TTTTGGTGCA
*
4227 GAGGGAATCGA-TCCCCCCAT
1 GAGGGAACCGATTCCCCCCAT
**
4247 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCAT
*
4268 GAAGGGGAACCGATTCCCCCCAC
1 G-A-GGGAACCGATTCCCCCCAT
* * *
4291 AAGGGAATCGATACCCCCC
1 GAGGGAACCGATTCCCCCC
4310 TGGGGTTCTG
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 10 0.20
21 23 0.45
22 2 0.04
23 16 0.31
ACGTcount: A:0.25, C:0.36, G:0.24, T:0.14
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCAT
Found at i:8522 original size:33 final size:33
Alignment explanation
Indices: 8485--8550 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
8475 CATCTTAATA
*
8485 TCACCCCTTAACACCACAACTTCTTTCACCACT
1 TCACCCCTCAACACCACAACTTCTTTCACCACT
* *
8518 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCACAACTTCTTTCACCACT
8551 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCACAACTTCTTTCACCACT
Found at i:8609 original size:21 final size:21
Alignment explanation
Indices: 8584--8627 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8574 CCCCTTATGC
*
8584 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAATGTATCTTCGACT
* *
8605 CTCTCAAATTTCTCTTCGACT
1 CTCTCAAATGTATCTTCGACT
8626 CT
1 CT
8628 TGATTGTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.32, G:0.09, T:0.41
Consensus pattern (21 bp):
CTCTCAAATGTATCTTCGACT
Found at i:10691 original size:24 final size:24
Alignment explanation
Indices: 10654--10706 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
10644 CCGTTCTATC
10654 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
10678 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
10702 TATTT
1 TATTT
10707 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:10868 original size:17 final size:19
Alignment explanation
Indices: 10846--10888 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
10836 ATATATCCGG
10846 TATCATTTT-A-CCGGTTT
1 TATCATTTTGAGCCGGTTT
10863 TATCATTTTGATGCCGGTTT
1 TATCATTTTGA-GCCGGTTT
10883 TATCAT
1 TATCAT
10889 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (19 bp):
TATCATTTTGAGCCGGTTT
Found at i:11059 original size:20 final size:20
Alignment explanation
Indices: 11032--11078 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
11022 TCCGGTAACG
11032 TTTTACCGGATTTATCAT-T
1 TTTTACCGGATTTATCATAT
*
11051 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGATTTATCATAT
11072 TTTTACC
1 TTTTACC
11079 TGGTATATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (20 bp):
TTTTACCGGATTTATCATAT
Found at i:11122 original size:181 final size:182
Alignment explanation
Indices: 10818--11290 Score: 716
Period size: 181 Copynumber: 2.6 Consensus size: 182
10808 CGTACTTACG
* * *
10818 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATGCCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
10883 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
*
10948 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
10999 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGATTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
11064 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
11129 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * *
11181 AAAGTATCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCT-ATACCGATT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
11245 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
11291 AATTTGGATC
Statistics
Matches: 264, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
181 165 0.62
182 98 0.37
183 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:11760 original size:230 final size:229
Alignment explanation
Indices: 11357--11853 Score: 904
Period size: 230 Copynumber: 2.2 Consensus size: 229
11347 ACCTACTTTT
11357 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
*
11422 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
66 ATTTTTTGTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
11487 AAAATTATTTAATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
131 AAAATTATTTAATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
* *
11552 CCAAATATAATAATAAATATGTTTTCCACAGTGAA
196 CCAAAGATAATAATAAATATATTTT-CACAGTGAA
* * *
11587 ATAAGTACGTACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATTTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
11652 ATTTTTTGTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
66 ATTTTTTGTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
*
11717 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
131 AAAATTATTTAATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
*
11782 CCAAAGATAATAATAAATATATTTTTACAGTGAA
196 CCAAAGATAATAATAAATATATTTTCACAGTGAA
*
11816 ATAAGTATGGACACTTTTATAAAAATGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTT
11854 ACAATATAAT
Statistics
Matches: 256, Mismatches: 11, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
229 43 0.17
230 213 0.83
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.45
Consensus pattern (229 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTTTTTGTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
AAAATTATTTAATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
CCAAAGATAATAATAAATATATTTTCACAGTGAA
Found at i:12899 original size:23 final size:23
Alignment explanation
Indices: 12871--12918 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
12861 ATCAAGTACA
* *
12871 ATAATATATTAAGTAGCGCTTAT
1 ATAATATAATAAGCAGCGCTTAT
*
12894 ATAATATAATAGGCAGCGCTTAT
1 ATAATATAATAAGCAGCGCTTAT
12917 AT
1 AT
12919 TAACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (23 bp):
ATAATATAATAAGCAGCGCTTAT
Found at i:13701 original size:180 final size:181
Alignment explanation
Indices: 13302--13755 Score: 750
Period size: 180 Copynumber: 2.5 Consensus size: 181
13292 ACTTTTTTAC
13302 TACCGGTTTTGTCATTTCGAGACTGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGAC-GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * *
13367 TACATTTTTATAAAGTATCGACACTTTATTGGTGCTATAACTTCTTTTCTTTTAAATTTCAAAAG
65 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAG
* * *
13432 TGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTT
130 TGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGATAACTCTT
* * * *
13484 TACCAGTTTTGTCATTTCGATACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGA-CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * *
13549 TACATTTTTATAAAATATCGATACTTTATTAGCGC-ATAACTTCTTCTCTTTTAAA-TTCCAAAG
65 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAG
13612 TGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGATAACTCTT
130 TGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGATAACTCTT
13664 TACCGGTTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGA-CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
13729 TACATTTTTATAAAGTATCGACACTTT
65 TACATTTTTATAAAGTATCGACACTTT
13756 CAATATATCC
Statistics
Matches: 251, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
180 141 0.56
181 19 0.08
182 90 0.36
183 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (181 bp):
TACCGGTTTTGTCATTTCGAGACGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
ACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAGT
GTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGATAACTCTT
Found at i:14053 original size:20 final size:20
Alignment explanation
Indices: 14030--14067 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14020 GATACATTTT
14030 ATAAAGTATCGACACTTTCA
1 ATAAAGTATCGACACTTTCA
14050 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
14068 ATTATCGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATAAAGTATCGACACTTTCA
Found at i:14126 original size:201 final size:202
Alignment explanation
Indices: 13849--14254 Score: 769
Period size: 201 Copynumber: 2.0 Consensus size: 202
13839 AAACATTTTT
13849 ATAAAGTATCGACACTTTATTATCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAC
1 ATAAAGTATCGACACTTTATTATCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAC
*
13914 TTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGA
66 TTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGA
*
13979 CAGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTATAAAGTATCGAC
131 CAGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATAGATACATTTTTATAAAGTATCGAC
14043 ACTTTCA
196 ACTTTCA
14050 ATAAAGTATCGACACTTTATTATCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAC
1 ATAAAGTATCGACACTTTATTATCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAC
*
14115 TTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACCGGTTTTGTCATTTCGAGA
66 TTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGA
*
14180 CCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATAGATACATTTTTATAAAGTATCGAC
131 CAGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATAGATACATTTTTATAAAGTATCGAC
14245 ACTTTCA
196 ACTTTCA
14252 ATA
1 ATA
14255 TATCCGGTGG
Statistics
Matches: 200, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
201 173 0.87
202 27 0.14
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (202 bp):
ATAAAGTATCGACACTTTATTATCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAC
TTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGA
CAGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATAGATACATTTTTATAAAGTATCGAC
ACTTTCA
Found at i:14317 original size:112 final size:111
Alignment explanation
Indices: 14120--14472 Score: 566
Period size: 112 Copynumber: 3.2 Consensus size: 111
14110 GATACTTATA
* * * * **
14120 ATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGA-CGGT
14185 TTTGTCATATTTTTACCTGTTATATTGTTATGGATAGATACATTTTT
65 TTTGTCATATTTTTACCTGTTATATTGTTATGGATAGATACATTTTT
*
14232 ATAAAGTATCGACACTTTCAATATATCCGGTGGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGAC-GGT
14297 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCA-ATACATTTTT
65 TTTGTCATATTTTTACCTGTTATATTGTTATGGAT-AGATACATTTTT
*
14344 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGAGCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGA-CGGT
* *
14409 TTTGTCAT-TTTTTACATGTTATATTGTTATGGATCGATACATTTTT
65 TTTGTCATATTTTTACCTGTTATATTGTTATGGATAGATACATTTTT
14455 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
14473 ATTATCGCTA
Statistics
Matches: 226, Mismatches: 11, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
111 54 0.24
112 170 0.75
113 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.44
Consensus pattern (111 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACGGTT
TTGTCATATTTTTACCTGTTATATTGTTATGGATAGATACATTTTT
Found at i:14706 original size:111 final size:113
Alignment explanation
Indices: 14524--14765 Score: 328
Period size: 111 Copynumber: 2.2 Consensus size: 113
14514 GATACTTATA
* * *
14524 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACAGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACAGGTTTTGTCATTTTGAGACAGAT
* *
14589 TTTGTCATATTTT-TACCTGTTATATTGTTATGGATCGATACA-TTTT
66 TTTGTCATATTTTGTACCTATTATATTGTTATAGATCGATACATTTTT
* * * *
14635 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTAT-ATACCGA
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACAGGTTTTGTCATTT-TGAGACAGA
* * *
14699 TTTTGTCATTTTTTGTACCTATTATATTGTTATATATCGATATATTTTT
65 TTTTGTCATATTTTGTACCTATTATATTGTTATAGATCGATACATTTTT
* *
14748 ATAAAGTGTAGACACTTT
1 ATAAAGTATCGACACTTT
14766 ATTGGTGCTA
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
111 68 0.60
112 26 0.23
113 20 0.18
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (113 bp):
ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACAGGTTTTGTCATTTTGAGACAGAT
TTTGTCATATTTTGTACCTATTATATTGTTATAGATCGATACATTTTT
Found at i:14887 original size:606 final size:594
Alignment explanation
Indices: 13599--15059 Score: 1863
Period size: 606 Copynumber: 2.4 Consensus size: 594
13589 TTCTTCTCTT
* * * ** *
13599 TTAAATTCCAAAGTG-TCGATAC-TTATAATAAAGTATCGACACTTTCAACATATCCGATAACTC
1 TTAAATTCAAAAG-GATAGATACATTATAATAAAGTATCGACACTTTCAACATATCCGGTGCCGC
13662 TTTACCGGTTTTGTCATTTCGAGA-TCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGAT
65 TTTACC-GTTTTGTCATTT--AGACT-GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGAT
13726 CGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCAT
126 CGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCAT
* * *
13791 TTATAGACCGGTTTTGTCATTTTTTACCTATTATATTGTTATGGATCGAAACATTTTTATAAAGT
191 TTATAGACCGGTTTTGTCATTTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGT
13856 ATCGACACTTTATTATCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAAT
256 ATCGACACTTTATTATCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAAT
13921 AAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACAGGTTT
321 AAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACAGGTTT
13986 TGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTCAA
386 TGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTCAA
* * * *
14051 TAAAGTATCGACACTTTATTATCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACT
451 T-AAGTAT--ACAC--TAGTAGCGCTATAACTTCTTCTCATTTAAATACCAAAAGTGTCGATA-T
* * * *** * * *
14116 TATAATAAAGTATCGACACTTTCAACATATCTGGTAGCTCTTTACCGGTTTTGTCATTTCGAGAC
510 TATAATAAACTATCGACACTTTCAACATATCTGATAGATCTTTAAAAGTGTAGACATTT---GAC
** *
14181 CGGTTTTGTCATATTTTTACCTG
572 CGGTGCTATCATATTTTTACCTG
* *** * * * * *
14204 TTATATTGTTATGGATAGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTGGCGCT
1 TTAAATTCAAAAGGATAGATACATTATAATAAAGTATCGACACTTTCAACATATCCGGTGCCGCT
*
14269 TTACCTGTTTTGTCATTTATAGACTGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCA
66 TTACC-GTTTTGTCA-TT-TAGACTGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCG
*
14334 ATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTATTTTGTCATTT
128 ATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTT
*
14399 ATAGAGCGGTTTTGTCATTTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
193 ATAGACCGGTTTTGTCATTTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
14464 CGACACTTTATTATCGCTATAACTTCTTCTC-TTTAAATTCCAAAAGTGTCGATACTTATAATAA
258 CGACACTTTATTATCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAA
14528 AGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACAGGTTTTG
323 AGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACAGGTTTTG
14593 TCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTCAAT-
388 TCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTCAATA
* * * * * * *** * **
14657 A-TAT-C-C-GGTAGCGCT-TTACATGTTTTGTCATTTATATACCGATTTTGTC-AT-TTTTTGT
453 AGTATACACTAGTAGCGCTATAAC-T-TCTTCTCATTTAAATACCAAAAGTGTCGATATTATAAT
* * * * * * * **
14715 -ACCTAT-TATA-TTGT-TATATATC-GATATATTTTTATAAAGTGTAGACACTTT-ATTGGTGC
516 AAACTATCGACACTT-TCAACATATCTGATAGATCTTTA-AAAGTGTAGACA-TTTGACCGGTGC
* *
14774 TAT-A-ACTTCTTT-TCTT
578 TATCATA-TT-TTTACCTG
*
14790 TTAAATTCCAAAAGTG-TCGATAC-TTATAATAAAGTATCGACACTTTCAACATATCCGGTAG-C
1 TTAAATT-CAAAAG-GATAGATACATTATAATAAAGTATCGACACTTTCAACATATCCGGT-GCC
* * *
14852 TCTTTACCAGTTTTTTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGA
63 GCTTTACC-GTTTTGTCATTT--AGACTGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGA
* *
14917 TCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGATAGCACTTTACCTGTTTTGTCA
125 TCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCA
*
14982 TTTATAGATCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAA
190 TTTATAGACCGGTTTTGTCAT-TTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAA
*
15047 GTATCAACACTTT
254 GTATCGACACTTT
15060 CAATATATTA
Statistics
Matches: 760, Mismatches: 78, Indels: 54
0.85 0.09 0.06
Matches are distributed among these distances:
584 1 0.00
585 3 0.00
586 182 0.24
587 73 0.10
588 1 0.00
589 8 0.01
590 14 0.02
591 6 0.01
592 4 0.01
593 4 0.01
594 3 0.00
595 9 0.01
596 18 0.02
598 1 0.00
599 1 0.00
602 3 0.00
603 1 0.00
604 1 0.00
605 176 0.23
606 247 0.32
607 3 0.00
608 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.43
Consensus pattern (594 bp):
TTAAATTCAAAAGGATAGATACATTATAATAAAGTATCGACACTTTCAACATATCCGGTGCCGCT
TTACCGTTTTGTCATTTAGACTGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATA
CATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATA
GACCGGTTTTGTCATTTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
CACTTTATTATCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGT
ATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACAGGTTTTGTCA
TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTCAATAAGT
ATACACTAGTAGCGCTATAACTTCTTCTCATTTAAATACCAAAAGTGTCGATATTATAATAAACT
ATCGACACTTTCAACATATCTGATAGATCTTTAAAAGTGTAGACATTTGACCGGTGCTATCATAT
TTTTACCTG
Found at i:15016 original size:112 final size:111
Alignment explanation
Indices: 14818--15171 Score: 528
Period size: 112 Copynumber: 3.2 Consensus size: 111
14808 GATACTTATA
* * * * **
14818 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCAGTTTTTTCATTTCGAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCC-GTAGCACTTTACCTGTTTTGTCATTTATAGACCGGT
14883 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
65 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
*
14930 ATAAAGTATCGACACTTTCAATATATCCGATAGCACTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCG-TAGCACTTTACCTGTTTTGTCATTTATAGACCGGT
*
14995 TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTT
65 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* ** * *
15042 ATAAAGTATCAACACTTTCAATATATTATGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATA-TCCGTAGCACTTTACCTGTTTTGTCATTTATAGACCGGT
* * * *
15107 TTTATCATTTTTTTACCTGTTATATTGTTATGGATCGATATAATTTT
65 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
15154 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
15172 ATTAGCGCTA
Statistics
Matches: 220, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
111 1 0.00
112 217 0.99
113 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (111 bp):
ATAAAGTATCGACACTTTCAATATATCCGTAGCACTTTACCTGTTTTGTCATTTATAGACCGGTT
TTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:15027 original size:406 final size:403
Alignment explanation
Indices: 14524--15465 Score: 1501
Period size: 406 Copynumber: 2.3 Consensus size: 403
14514 GATACTTATA
* * *
14524 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTT-TGAGACAGG
1 ATAAAGTATCGACACTTTCAATATATCC-GTAGCACTTTACCTGTTTTGTCATTTAT-AGAC-GG
14588 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTATAAAGTATCGACACTT
63 TTTTGTCATATTTTTA-CTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
* * *
14652 TCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATATACCGATTTTGTCATTTTTTGTAC
127 TCAATATATCAGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGATTTTATCATTTTTT-TAC
* * * * *
14717 CTATTATATTGTTATATATCGATATATTTTTATAAAGTGTAGACACTTTATTGGTGCTATAACTT
191 CTATTATATTGTTATAGATCGATATAATTTTATAAAGTATAGACACTTTATTAGCGCTATAACTT
*
14782 CTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCG
256 CTTTTCCTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCG
* *
14847 GTAGCTCTTTACCAGTTTTTTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTT
321 GTAGCTCTTTACCAGTTTTATCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTT
14912 ATGGATCGATACATTTTT
386 ATGGATCGATACATTTTT
14930 ATAAAGTATCGACACTTTCAATATATCCGATAGCACTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCG-TAGCACTTTACCTGTTTTGTCATTTATAGA-CGGT
*
14995 TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACTTT
64 TTTGTCATATTTTTAC-TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
* * *
15060 CAATATATTATGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGTTTTATCATTTTTTTACCT
128 CAATATATCAGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGATTTTATCATTTTTTTACCT
* * *
15125 GTTATATTGTTATGGATCGATATAATTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCT
193 ATTATATTGTTATAGATCGATATAATTTTATAAAGTATAGACACTTTATTAGCGCTATAACTTCT
* *
15190 TTTCCTTTAAGTTCTAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGT
258 TTTCCTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGT
* *
15255 AGCTCTTTACCGGTTTTATCATTTTGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTAT
323 AGCTCTTTACCAGTTTTATCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTAT
15320 GGATCGATACATTTTT
388 GGATCGATACATTTTT
* * * *
15336 ATAAAGTATCGACATTTTCAATATATCCTGTAGCGCTTTACCTGTTTTGTCATTTATGGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCC-GTAGCACTTTACCTGTTTTGTCATTTATAGA-CGGT
*
15401 TTTGTCATTTTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
64 TTTGTCATATTTTTA-CTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
15466 ATTGGCGCTA
Statistics
Matches: 497, Mismatches: 32, Indels: 14
0.92 0.06 0.03
Matches are distributed among these distances:
405 2 0.00
406 416 0.84
407 79 0.16
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (403 bp):
ATAAAGTATCGACACTTTCAATATATCCGTAGCACTTTACCTGTTTTGTCATTTATAGACGGTTT
TGTCATATTTTTACTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAA
TATATCAGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGATTTTATCATTTTTTTACCTATT
ATATTGTTATAGATCGATATAATTTTATAAAGTATAGACACTTTATTAGCGCTATAACTTCTTTT
CCTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGC
TCTTTACCAGTTTTATCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGA
TCGATACATTTTT
Found at i:15034 original size:294 final size:292
Alignment explanation
Indices: 14232--15059 Score: 1320
Period size: 294 Copynumber: 2.8 Consensus size: 292
14222 ATACATTTTT
* * * * * *
14232 ATAAAGTATCGACACTTTCAATATATCCGGTGGCGCTTTACCTGTTTTGTCATTTATAGACTGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTCATTTAGAGACAGGT
*
14297 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
* *
14362 CAATATATCCGGTAGCGCTTTACCTATTTTGTCATTTATAGAGCGGTTTTGTCATTTTTTACATG
131 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACATG
*
14427 TTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTATCGCTATAACTTCTT
196 TTATATTGTTATGGATCGATACATTTTTATAAAGTATAGACACTTTATTATCGCTATAACTTCTT
14492 CTCTTTAAATTCCAAAAGTGTCGATACTTATA
261 CTCTTTAAATTCCAAAAGTGTCGATACTTATA
* *
14524 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTTGAGACAGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTCATTTAGAGACAGGT
14589 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTATAAAGTATCGACACTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
* * * *
14653 CAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATATACCGATTTTGTCATTTTTTGTACC
131 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCA-TTTTT-TACA
* ** * * *
14718 TATTATATTGTTATATATCGATATATTTTTATAAAGTGTAGACACTTTATTGGT-GCTATAACTT
194 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATAGACACTTTATT-ATCGCTATAACTT
*
14782 CTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATA
258 CTTCTC-TTTAAATTCCAAAAGTGTCGATACTTATA
* * *
14818 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCAGTTTTTTCATTTCGAGACCGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTCATTTAGAGACAGGT
14883 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
* * *
14948 CAATATATCCGATAGCACTTTACCTGTTTTGTCATTTATAGATCGGTTTTGTCATATTTTTACAT
131 CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCAT-TTTTTACAT
15013 GTTATATTGTTATGGATCGATACATTTTTATAAAGTATCA-ACACTTT
195 GTTATATTGTTATGGATCGATACATTTTTATAAAGTAT-AGACACTTT
15060 CAATATATTA
Statistics
Matches: 491, Mismatches: 38, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
291 71 0.14
292 104 0.21
293 63 0.13
294 178 0.36
295 75 0.15
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.44
Consensus pattern (292 bp):
ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCAGTTTTGTCATTTAGAGACAGGT
TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
CAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACATG
TTATATTGTTATGGATCGATACATTTTTATAAAGTATAGACACTTTATTATCGCTATAACTTCTT
CTCTTTAAATTCCAAAAGTGTCGATACTTATA
Found at i:15252 original size:294 final size:294
Alignment explanation
Indices: 14930--15935 Score: 1690
Period size: 294 Copynumber: 3.4 Consensus size: 294
14920 ATACATTTTT
* * * * **
14930 ATAAAGTATCGACACTTTCAATATATCCGATAGCACTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGATCGGT
* *
14995 TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
** * * *
15060 CAATATATTATGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGTTTTATCATTTTTTTACCT
131 CAATATATCCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTATCT
* * *
15125 GTTATATTGTTATGGATCGATATAATTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCT
196 GTTATATTGTTATGGATCGATACAATTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCA
* *
15190 TTTCCT-TTAAGTTCTAAAAGTGTCGATACTTATA
261 TTT-CTGTTAAATTCCAAAAGTGTCGATACTTATA
* * * *
15224 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTATCATTTTGAGACCGAT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGATCGGT
*
15289 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACATTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
* *
15354 CAATATATCCTGTAGCGCTTTACCTGTTTTGTCATTTATGGACCGATTTTGTCATTTTTTTATCT
131 CAATATATCCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTATCT
* *
15419 GTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAATTTCA
196 GTTATATTGTTATGGATCGATACAATTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCA
15484 TTTCTGTTAAATTCCAAAAGTGTCGATACTTATA
261 TTTCTGTTAAATTCCAAAAGTGTCGATACTTATA
* *
15518 ATAAAGTATTGACACTTTTAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGATCGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGATCGGT
15583 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
*
15648 CAATATATCCTGTAGTGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTATCT
131 CAATATATCCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTATCT
15713 GTTATATTGTTATGGATCGATACAATTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCA
196 GTTATATTGTTATGGATCGATACAATTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCA
15778 TTTCTGTTAAATTCCAAAAGTGTCGATACTTATA
261 TTTCTGTTAAATTCCAAAAGTGTCGATACTTATA
* * * *
15812 AGAAAGTATTGACACTTTCAACATATACGGTAGCTCTTTACCGGTTTTGTCATTTCGAGATTGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGATCGGT
15877 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
15936 TACATTATTA
Statistics
Matches: 669, Mismatches: 42, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
293 2 0.00
294 667 1.00
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (294 bp):
ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGATCGGT
TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
CAATATATCCTGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTATCT
GTTATATTGTTATGGATCGATACAATTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCA
TTTCTGTTAAATTCCAAAAGTGTCGATACTTATA
Found at i:15421 original size:112 final size:112
Alignment explanation
Indices: 15224--15465 Score: 396
Period size: 112 Copynumber: 2.2 Consensus size: 112
15214 GATACTTATA
*
15224 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTATCATTTTGAGACCGAT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTATCATTTTGAGACCGAT
15289 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * * * *
15336 ATAAAGTATCGACATTTTCAATATATCCTGTAGCGCTTTACCTGTTTTGTCATTTATG-GACCGA
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTATCATTT-TGAGACCGA
* *
15400 TTTTGTCATTTTTTTATCTGTTATATTGTTATGGATCGATACATTTTT
65 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
15448 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
15466 ATTGGCGCTA
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
112 118 0.98
113 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTATCATTTTGAGACCGAT
TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:15684 original size:112 final size:112
Alignment explanation
Indices: 15518--15759 Score: 369
Period size: 112 Copynumber: 2.2 Consensus size: 112
15508 GATACTTATA
* * * *
15518 ATAAAGTATTGACACTTTTAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGATCGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTAGAGACCGGT
*
15583 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAATTTT
* * * *
15630 ATAAAGTATCGACACTTTCAATATATCCTGTAG-TGCTTTACCTGTTTTGTCATTTATAGACCGG
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCT-CTTTACCGGTTTTGTCATTTAGAGACCGG
* *
15694 TTTTGTCATTTTTTTATCTGTTATATTGTTATGGATCGATACAATTTT
65 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAATTTT
15742 ATAAAGTATCGACACTTT
1 ATAAAGTATCGACACTTT
15760 ATTGGCGCTA
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
111 1 0.01
112 117 0.99
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTAGAGACCGGT
TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAATTTT
Found at i:16066 original size:184 final size:182
Alignment explanation
Indices: 15630--16122 Score: 722
Period size: 182 Copynumber: 2.7 Consensus size: 182
15620 ATACATTTTT
* * **
15630 ATAAAGTATCGACACTTTCAATATATCCTGTAG-TGCTTTACCT-GTTTTGTCATTTATAGACCG
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCT-CTTTA-CTGGTTTTGTCATTTCGAGACCG
* * * *
15693 GTTTTGTCATTTTTTTATCTGTTATATTGTTATGGATCGATACAATTTTATAAAGTATCGACACT
64 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACA
*
15758 TTATTGGCGCTATAACTTCATTTCTGTTAAATTCCAAAAGTGTCGATACTTATA
129 TTATTAGCGCTATAACTTCATTTCTGTTAAATTCCAAAAGTGTCGATACTTATA
* * * * **
15812 AGAAAGTATTGACACTTTCAACATATACGGTAGCTCTTTACCGGTTTTGTCATTTCGAGATTGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACTGGTTTTGTCATTTCGAGACCGGT
*
15877 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGATACATT
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACATT
* *
15942 ATTAGCGCTATAACTTC-TTCTCTTTTAAATTCCAAAAAAGTTTCGATACTTATA
131 ATTAGCGCTATAACTTCATT-TCTGTTAAATTCC--AAAAGTGTCGATACTTATA
* *
15996 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTATTGGTTTTGTCATTTCGAGACCGAT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACTGGTTTTGTCATTTCGAGACCGGT
* *
16061 TTTGTCATATTTTTACCTATTATATTGTTATGGATCGATAAATTTTTATAAAGTATCGACAC
66 TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAC
16123 TTTCAATATA
Statistics
Matches: 277, Mismatches: 29, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
181 3 0.01
182 139 0.50
183 1 0.00
184 134 0.48
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (182 bp):
ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACTGGTTTTGTCATTTCGAGACCGGT
TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACATT
ATTAGCGCTATAACTTCATTTCTGTTAAATTCCAAAAGTGTCGATACTTATA
Found at i:16136 original size:112 final size:112
Alignment explanation
Indices: 15996--16458 Score: 739
Period size: 112 Copynumber: 4.1 Consensus size: 112
15986 GATACTTATA
* * * ** *
15996 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTA-TTGGTTTTGTCATTTCGAGACCGA
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCT-GTTTTGTCATTTATAGACCGG
* * * *
16060 TTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATAAATTTTT
65 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
16108 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * *
16173 TTTGTCATTTTGTTACTTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
** *
16220 ATAAAGTATCGACACTTTCAATATATCTAGTAGCTCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
16285 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
16332 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
16397 TTTGTCATTTTTTTACATGTTATATTATTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
16444 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
16459 AAACCGAAAA
Statistics
Matches: 327, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
112 326 1.00
113 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
Found at i:18216 original size:17 final size:16
Alignment explanation
Indices: 18194--18227 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
18184 TCGTTAAGAA
18194 TTCGAGTCGAGCTCGAG
1 TTCGAGTCGAG-TCGAG
*
18211 TTCGAGTCTAGTCGAG
1 TTCGAGTCGAGTCGAG
18227 T
1 T
18228 CCATTCGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (16 bp):
TTCGAGTCGAGTCGAG
Found at i:20011 original size:20 final size:20
Alignment explanation
Indices: 19986--20037 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
19976 TTTTTAGCTC
*
19986 AAAGGATCGATCCCTTAGCA
1 AAAGGATCGATCCATTAGCA
* * **
20006 AAAGGATAGATCCATTTGTT
1 AAAGGATCGATCCATTAGCA
20026 AAAGGATCGATC
1 AAAGGATCGATC
20038 ACTTGGATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (20 bp):
AAAGGATCGATCCATTAGCA
Found at i:21482 original size:44 final size:44
Alignment explanation
Indices: 21434--21610 Score: 273
Period size: 44 Copynumber: 4.0 Consensus size: 44
21424 TGTTACCGAA
* *
21434 ATAAATGAAAATGCATAATGGTGCATTATTGGCAAAAATGTACC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTACC
* * * *
21478 ATAAATGAAAATACATAATGGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTACC
* *
21522 ATAAATGAAAATGCATAACGGTGCATTATTGGTAAAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTACC
*
21566 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTACC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTACC
21610 A
1 A
21611 CTCATGGTAT
Statistics
Matches: 122, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 122 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTACC
Found at i:28435 original size:44 final size:44
Alignment explanation
Indices: 28386--28737 Score: 447
Period size: 44 Copynumber: 8.0 Consensus size: 44
28376 TGTTACCGAA
* * *
28386 ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAAGGTACA
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * *
28430 ATAAATGAAAATGCATAAAGGTGCATTACTAGG-ACAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTA-TTGGCAGAAAGGTGCC
** * *
28474 ATAAATGAAAATGCATAACAATGCATTATTGGCATAAAGGTTCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
28518 ATAAATGAAAATGCATAACGGTGTATTATTTGTAG-AAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
** * *
28561 ATAAATGAAAATGTTTAACGATGCATTATTGGCAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
28605 ATAAATAAAAATGCATAGCGGTGTATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
28649 ATAAATAAAAATGCATAACGGTGTATTATTGGCATAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
28693 ATAAATGAAAATGCATAACGGTGCATTATTAGCATAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
28737 A
1 A
28738 CTCATGGTAT
Statistics
Matches: 265, Mismatches: 40, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
43 39 0.15
44 223 0.84
45 3 0.01
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:28679 original size:175 final size:175
Alignment explanation
Indices: 28386--28722 Score: 482
Period size: 175 Copynumber: 1.9 Consensus size: 175
28376 TGTTACCGAA
*
28386 ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAAGGTACAATAAATGAAAATGCATAAAGG
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAAGGTACAATAAATAAAAATGCATAAAGG
* * *
28451 TGCATTACTAGGACAAATGTGCCATAAATGAAAATGCATAACAATGCATTATTGGCATAAAGGTT
66 TGCATTACTAGGACAAAGGTGCCATAAATAAAAATGCATAACAATGCATTATTGGCATAAAGGTG
*
28516 CCATAAATGAAAATGCATAACGGTGTATTATTTGTAGAAGGTGCC
131 CCATAAATGAAAATGCATAACGGTGCATTATTTGTAGAAGGTGCC
** * **
28561 ATAAATGAAAATGTTTAAC-GATGCATTATTGGCAGAAAGGTGTC-ATAAATAAAAATGCATAGC
1 ATAAATGAAAATGCATAACAG-TGCATTATTGGCAGAAAGGT-ACAATAAATAAAAATGCATAAA
* * * ** *
28624 GGTGTATTA-TTGGCAGAAAGGTGCCATAAATAAAAATGCATAACGGTGTATTATTGGCATAAAG
64 GGTGCATTACTAGG-ACAAAGGTGCCATAAATAAAAATGCATAACAATGCATTATTGGCATAAAG
28688 GTGCCATAAATGAAAATGCATAACGGTGCATTATT
128 GTGCCATAAATGAAAATGCATAACGGTGCATTATT
28723 AGCATAAAGG
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
174 4 0.03
175 138 0.97
176 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (175 bp):
ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAAGGTACAATAAATAAAAATGCATAAAGG
TGCATTACTAGGACAAAGGTGCCATAAATAAAAATGCATAACAATGCATTATTGGCATAAAGGTG
CCATAAATGAAAATGCATAACGGTGCATTATTTGTAGAAGGTGCC
Found at i:31446 original size:15 final size:16
Alignment explanation
Indices: 31414--31453 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
31404 TGGAGCTTTC
31414 AAATTTTGAAAAATTA
1 AAATTTTGAAAAATTA
31430 AAATTTTGAAAAA-TA
1 AAATTTTGAAAAATTA
*
31445 AATTTTTGA
1 AAATTTTGA
31454 TTTGAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (16 bp):
AAATTTTGAAAAATTA
Found at i:32359 original size:29 final size:29
Alignment explanation
Indices: 32312--32367 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
32302 TAAAAATGCA
* * *
32312 ATTTTCTAGATAAACGATCGATCCCTTGC
1 ATTTTATAGAAAAACGATCAATCCCTTGC
*
32341 ATTTTATAGAAAAATGATCAATCCCTT
1 ATTTTATAGAAAAACGATCAATCCCTT
32368 TGTAAGAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (29 bp):
ATTTTATAGAAAAACGATCAATCCCTTGC
Found at i:32397 original size:21 final size:21
Alignment explanation
Indices: 32353--32410 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
32343 TTTATAGAAA
*
32353 AATGATCAATCCCTTTGTAAG
1 AATGATCGATCCCTTTGTAAG
* **
32374 AATGATCGATCCCTTTTTGTG
1 AATGATCGATCCCTTTGTAAG
*
32395 AATTATCGATCCCTTT
1 AATGATCGATCCCTTT
32411 AGGCCAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (21 bp):
AATGATCGATCCCTTTGTAAG
Found at i:36260 original size:21 final size:23
Alignment explanation
Indices: 36230--36289 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
36220 AAAACCCCAG
* *
36230 GGGGGTATCGATTCCC-CT-ACA
1 GGGGGAATCGATTCCCACTCAAA
*
36251 GGGGGAATCGATTCCCATTCAAA
1 GGGGGAATCGATTCCCACTCAAA
*
36274 GGGGGAATCGGTTCCC
1 GGGGGAATCGATTCCC
36290 TTATGGGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 15 0.45
22 1 0.03
23 17 0.52
ACGTcount: A:0.22, C:0.25, G:0.32, T:0.22
Consensus pattern (23 bp):
GGGGGAATCGATTCCCACTCAAA
Found at i:38923 original size:89 final size:90
Alignment explanation
Indices: 38771--38951 Score: 346
Period size: 89 Copynumber: 2.0 Consensus size: 90
38761 GCTGAAAAAT
38771 TATGGCTAATACCATTAGAATTACAAAAACTCATTAAATACAAGATTTTCAAATTCAGTGCCATG
1 TATGGCTAATACCATTAGAATTACAAAAACTCATTAAATACAAGATTTTCAAATTCAGTGCCATG
38836 ATCACTTCTAACACTAGTGATAGAG
66 ATCACTTCTAACACTAGTGATAGAG
*
38861 TATGGCTAATACCATTAGAATTAC-AAAACTCATTAAATCCAAGATTTTCAAATTCAGTGCCATG
1 TATGGCTAATACCATTAGAATTACAAAAACTCATTAAATACAAGATTTTCAAATTCAGTGCCATG
38925 ATCACTTCTAACACTAGTGATAGAG
66 ATCACTTCTAACACTAGTGATAGAG
38950 TA
1 TA
38952 ACCTTTTTCG
Statistics
Matches: 90, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 66 0.73
90 24 0.27
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (90 bp):
TATGGCTAATACCATTAGAATTACAAAAACTCATTAAATACAAGATTTTCAAATTCAGTGCCATG
ATCACTTCTAACACTAGTGATAGAG
Found at i:43835 original size:23 final size:22
Alignment explanation
Indices: 43743--43843 Score: 59
Period size: 23 Copynumber: 4.5 Consensus size: 22
43733 TTTGCAATAT
43743 TTGGATATTTG-ACTTTGGATGT-
1 TTGGATATTTGAACTTT--ATGTA
43765 TTGG-TATTATGAAC-TTATGTTTA
1 TTGGATATT-TGAACTTTATG--TA
* * *
43788 TTTGATATTTGATGAGTTT-TATA
1 TTGGATATTTGA--ACTTTATGTA
43811 TTGGATATTTGAACTTATATGTA
1 TTGGATATTTGAACTT-TATGTA
*
43834 TTTGATATTT
1 TTGGATATTT
43844 TGGGAATATT
Statistics
Matches: 61, Mismatches: 7, Indels: 21
0.69 0.08 0.24
Matches are distributed among these distances:
20 3 0.05
21 7 0.11
22 10 0.16
23 33 0.54
24 4 0.07
25 2 0.03
26 2 0.03
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (22 bp):
TTGGATATTTGAACTTTATGTA
Found at i:44407 original size:21 final size:21
Alignment explanation
Indices: 44336--44401 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
44326 ATATGTTTGG
* *
44336 GATTGGTCCCTTCACCAAAAG
1 GATTGATCCCTTCACCAAAAT
**
44357 GATTGATCCCTTCAGGAAAAT
1 GATTGATCCCTTCACCAAAAT
44378 GATTGATCCCTTCACCAAAAT
1 GATTGATCCCTTCACCAAAAT
44399 GAT
1 GAT
44402 CAATCCTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (21 bp):
GATTGATCCCTTCACCAAAAT
Found at i:48117 original size:20 final size:20
Alignment explanation
Indices: 48078--48117 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48068 ACCAAAAATC
* *
48078 CTCTCAAATACTTTCTACTT
1 CTCTCAAATACTCTCAACTT
*
48098 CTCTCAAATCCTCTCAACTT
1 CTCTCAAATACTCTCAACTT
48118 AAGGTATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (20 bp):
CTCTCAAATACTCTCAACTT
Found at i:48148 original size:16 final size:16
Alignment explanation
Indices: 48127--48176 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
48117 TAAGGTATAT
48127 TTTATTATATTTAATA
1 TTTATTATATTTAATA
48143 TTTATTAGTATTT--TA
1 TTTATTA-TATTTAATA
48158 TTTAATTAT-TTTAATA
1 TTT-ATTATATTTAATA
48174 TTT
1 TTT
48177 TATTTAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.10
15 6 0.20
16 16 0.53
17 5 0.17
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTATTATATTTAATA
Found at i:48177 original size:21 final size:21
Alignment explanation
Indices: 48129--48190 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
48119 AGGTATATTT
* *
48129 TATTATATTTAA-TATTTATTAG
1 TATTTTATTTAATTA-TT-TTAA
48151 TATTTTATTTAATTATTTTAA
1 TATTTTATTTAATTATTTTAA
48172 TATTTTATTTAATT-TTTTA
1 TATTTTATTTAATTATTTTA
48191 CAGTTATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.14
21 17 0.46
22 13 0.35
23 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TATTTTATTTAATTATTTTAA
Found at i:48184 original size:12 final size:12
Alignment explanation
Indices: 48129--48190 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 12
48119 AGGTATATTT
*
48129 TATTATATTTAA
1 TATTTTATTTAA
*
48141 TA-TTTA-TTAG
1 TATTTTATTTAA
48151 TATTTTATTT-A
1 TATTTTATTTAA
*
48162 -ATTAT-TTTAA
1 TATTTTATTTAA
48172 TATTTTATTTAA
1 TATTTTATTTAA
*
48184 TTTTTTA
1 TATTTTA
48191 CAGTTATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
9 3 0.08
10 10 0.26
11 11 0.28
12 15 0.38
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (12 bp):
TATTTTATTTAA
Found at i:53837 original size:14 final size:14
Alignment explanation
Indices: 53820--53847 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
53810 GTATCTAATG
53820 AGATAAATTATATC
1 AGATAAATTATATC
53834 AGATAAATTATATC
1 AGATAAATTATATC
53848 GTTGCTCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
AGATAAATTATATC
Done.