Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003818.1 Hibiscus syriacus cultivar Beakdansim tig00008184_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: 98264
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:8025 original size:2 final size:2
Alignment explanation
Indices: 8018--8054 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8008 GGGAAACAAT
8018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8055 GAAAAATCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10842 original size:20 final size:21
Alignment explanation
Indices: 10803--10842 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10793 TATCGGGTAA
10803 TACCTAAAATGTTATTTTTTC
1 TACCTAAAATGTTATTTTTTC
10824 TACCTAAAATGTT-TTTTTT
1 TACCTAAAATGTTATTTTTT
10843 AACGAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (21 bp):
TACCTAAAATGTTATTTTTTC
Found at i:14191 original size:9 final size:9
Alignment explanation
Indices: 14173--14207 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
14163 CTCCTCACTG
*
14173 TCATCATCA
1 TCATCGTCA
14182 TCATCGTCA
1 TCATCGTCA
14191 TCATCGTCA
1 TCATCGTCA
*
14200 TCGTCGTC
1 TCATCGTC
14208 CTGAGCAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.20, C:0.34, G:0.11, T:0.34
Consensus pattern (9 bp):
TCATCGTCA
Found at i:16194 original size:111 final size:111
Alignment explanation
Indices: 16059--16391 Score: 603
Period size: 111 Copynumber: 3.0 Consensus size: 111
16049 ATTACAAAAA
* *
16059 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACAAAAAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
16124 AATTAAAACGTTAAAATGTTACCGTATCGGCAAAGTGTGGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
*
16170 TTAATTCTTAATATAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
16235 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
*
16281 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
16346 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
16392 ATGATTTTCA
Statistics
Matches: 213, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 213 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:16565 original size:20 final size:19
Alignment explanation
Indices: 16537--16577 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
16527 TTAAAAAGAG
*
16537 AGAGTATTTGAGAGAAATTT
1 AGAGAATTTGAGAG-AATTT
*
16557 AGAGAATTTGATAGAATTT
1 AGAGAATTTGAGAGAATTT
16576 AG
1 AG
16578 TGTGATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (19 bp):
AGAGAATTTGAGAGAATTT
Found at i:16750 original size:50 final size:50
Alignment explanation
Indices: 16696--16800 Score: 122
Period size: 50 Copynumber: 2.1 Consensus size: 50
16686 AGATACCTAG
* * * * *
16696 GTATAGAGC-GGATCAGGGAACATGCTATACCCACGTGACGCTAAATTACC
1 GTATAGAGCGGGA-CAGGAAACACGCTATACCCACGTGACGCCAAATCAAC
** *
16746 GTATATCGCGGGACAGGAAACGCGCTATACCCACGTGACGCCAAATCAAC
1 GTATAGAGCGGGACAGGAAACACGCTATACCCACGTGACGCCAAATCAAC
16796 GTATA
1 GTATA
16801 ACACAGGAGG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 43 0.93
51 3 0.07
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (50 bp):
GTATAGAGCGGGACAGGAAACACGCTATACCCACGTGACGCCAAATCAAC
Found at i:21850 original size:80 final size:80
Alignment explanation
Indices: 21757--21916 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
21747 AATTGCTCAA
21757 CTATGTTCTATTTTTTCCAGATAGATAAGGATGTTTTCAATGAGATTGTTTTCCAGTTTCTTACC
1 CTATGTTCTATTTTTTCCAGATAGATAAGGATGTTTTCAATGAGATTGTTTTCCAGTTTCTTACC
21822 CATGGCTTTTTATGC
66 CATGGCTTTTTATGC
*
21837 CTATGTTCTATTTTTTCCAGATAGATGAGGATGTTTTCAATGAGATTGTTTTCCAGTTTCTTACC
1 CTATGTTCTATTTTTTCCAGATAGATAAGGATGTTTTCAATGAGATTGTTTTCCAGTTTCTTACC
21902 CATGGCTTTTTATGC
66 CATGGCTTTTTATGC
21917 TGGTGTCAAT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.46
Consensus pattern (80 bp):
CTATGTTCTATTTTTTCCAGATAGATAAGGATGTTTTCAATGAGATTGTTTTCCAGTTTCTTACC
CATGGCTTTTTATGC
Found at i:27539 original size:4 final size:4
Alignment explanation
Indices: 27530--27629 Score: 72
Period size: 4 Copynumber: 27.0 Consensus size: 4
27520 ATAATTATTT
* * * *
27530 TATA TATA TATA TATA TA-A TAT- TA-A TAAA TTTA -ATT TAAA T-TA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * *
27573 -ATA TATA TATA TATA TATA TATA TATA -ATA TTTA TATA TTTA -ATT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
27618 TAAA TATA TATA
1 TATA TATA TATA
27630 CCTGGCCCGA
Statistics
Matches: 73, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
3 15 0.21
4 58 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:27541 original size:6 final size:6
Alignment explanation
Indices: 27530--27629 Score: 72
Period size: 6 Copynumber: 18.0 Consensus size: 6
27520 ATAATTATTT
* * * *
27530 TATATA TATATA TATATA -ATAT- TA-ATA AATTTA -ATTTA AAT-TA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * *
27573 -ATATA TATATA TATATA TATATA TATA-A TATTTA TATATT TA-ATT
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
27618 TAAATA TATATA
1 TATATA TATATA
27630 CCTGGCCCGA
Statistics
Matches: 79, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
4 4 0.05
5 24 0.30
6 51 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATA
Found at i:27599 original size:52 final size:50
Alignment explanation
Indices: 27530--27629 Score: 164
Period size: 52 Copynumber: 2.0 Consensus size: 50
27520 ATAATTATTT
27530 TATATATATATATATATAATATTAATAAATTTAATTTAAATTAATATATATA
1 TATATATATATATATATAATATTAATAAATTTAATTTAAA-T-ATATATATA
* *
27582 TATATATATATATATATAATATTTATATATTTAATTTAAATATATATA
1 TATATATATATATATATAATATTAATAAATTTAATTTAAATATATATA
27630 CCTGGCCCGA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 7 0.15
51 1 0.02
52 38 0.83
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (50 bp):
TATATATATATATATATAATATTAATAAATTTAATTTAAATATATATATA
Found at i:28144 original size:21 final size:21
Alignment explanation
Indices: 28118--28166 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
28108 ATTTGTTTTA
28118 TTTATTTCTTTTGTTT-TTGT-T
1 TTTATTT-TTTT-TTTATTGTAT
28139 TTTATTTTTTTTTTATTGTAT
1 TTTATTTTTTTTTTATTGTAT
28160 TTTATTT
1 TTTATTT
28167 ATTCTTCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.12
20 8 0.31
21 15 0.58
ACGTcount: A:0.10, C:0.02, G:0.06, T:0.82
Consensus pattern (21 bp):
TTTATTTTTTTTTTATTGTAT
Found at i:28595 original size:16 final size:17
Alignment explanation
Indices: 28560--28597 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
28550 ATTTATTTTA
*
28560 TTATTAAATACTATATT
1 TTATTAAATACTACATT
*
28577 TTATTATATA-TACATT
1 TTATTAAATACTACATT
28593 TTATT
1 TTATT
28598 TTTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATTAAATACTACATT
Found at i:28699 original size:17 final size:16
Alignment explanation
Indices: 28679--28744 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 16
28669 TATTTTCCCC
28679 TTATTTTATTTTTTATT
1 TTATTTTATTTTTTA-T
*
28696 TTATTCTATTTTTTAT
1 TTATTTTATTTTTTAT
28712 TTATTTTACTCTTTTTTAT
1 TTATTTTA---TTTTTTAT
*
28731 TTATTGT-TTTTTTA
1 TTATTTTATTTTTTA
28745 GATTAGTCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
15 7 0.16
16 8 0.19
17 14 0.33
19 14 0.33
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (16 bp):
TTATTTTATTTTTTAT
Found at i:28716 original size:11 final size:11
Alignment explanation
Indices: 28682--28795 Score: 58
Period size: 11 Copynumber: 10.1 Consensus size: 11
28672 TTTCCCCTTA
*
28682 TTTTATTTTTT
1 TTTTATTTATT
28693 ATTTTATTCTATT
1 -TTTTATT-TATT
28706 TTTTATTTATT
1 TTTTATTTATT
* *
28717 TTACTCTTT-TT
1 TT-TTATTTATT
28728 TATTTATTGT-TT
1 T-TTTATT-TATT
* *
28740 TTTTAGATTAGTC
1 TTTTA-TTTA-TT
28753 TTTTA-TTATT
1 TTTTATTTATT
*
28763 TTTT-TATTATG
1 TTTTAT-TTATT
28774 TTTTATTTATT
1 TTTTATTTATT
*
28785 TATTA-TTATT
1 TTTTATTTATT
28795 T
1 T
28796 GACTTCTATT
Statistics
Matches: 81, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
10 11 0.14
11 36 0.44
12 25 0.31
13 9 0.11
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:28726 original size:19 final size:18
Alignment explanation
Indices: 28685--28735 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
28675 CCCCTTATTT
*
28685 TATTTTTTATTT-TATTC
1 TATTTTTTATTTATTTTC
28702 TATTTTTTATTTATTTTAC
1 TATTTTTTATTTATTTT-C
*
28721 TCTTTTTTATTTATT
1 TATTTTTTATTTATT
28736 GTTTTTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.40
18 3 0.10
19 15 0.50
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTTTTATTTATTTTC
Found at i:28777 original size:21 final size:22
Alignment explanation
Indices: 28730--28794 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 22
28720 CTCTTTTTTA
*
28730 TTTATTGTTTTTTTAGATTAGTCT
1 TTTATTATTTTTTT--ATTAGTCT
*
28754 TTTATTATTTTTTTATTA-TGT
1 TTTATTATTTTTTTATTAGTCT
28775 TTTATTTATTTATTATTATT
1 TTTA-TTATTT-TT-TTATT
28795 TGACTTCTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.17
22 10 0.28
23 2 0.06
24 18 0.50
ACGTcount: A:0.20, C:0.02, G:0.06, T:0.72
Consensus pattern (22 bp):
TTTATTATTTTTTTATTAGTCT
Found at i:28952 original size:15 final size:15
Alignment explanation
Indices: 28932--28967 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
28922 CAATTGACCC
* *
28932 TTTATTTTCTTTGTT
1 TTTATTTTATTTCTT
28947 TTTATTTTATTTCTT
1 TTTATTTTATTTCTT
28962 TTTATT
1 TTTATT
28968 CATCAGCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTATTTTATTTCTT
Found at i:35764 original size:17 final size:18
Alignment explanation
Indices: 35727--35765 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
35717 TAATTTTCTA
35727 TATACATTATTATTTTAT
1 TATACATTATTATTTTAT
35745 TATACA-TA-TATTTATAT
1 TATACATTATTATTT-TAT
35762 TATA
1 TATA
35766 TATCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 5 0.25
17 9 0.45
18 6 0.30
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (18 bp):
TATACATTATTATTTTAT
Found at i:36836 original size:22 final size:23
Alignment explanation
Indices: 36800--36873 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 23
36790 ACCTAATTCA
*
36800 TTTTTTACTTAATTATTTTTATT
1 TTTTTTACTTAATTATTATTATT
*
36823 TTTTTTCCTT-ATTATTATTATT
1 TTTTTTACTTAATTATTATTATT
36845 ATTATTATTA-TTACTATTATTATTATT
1 -TT-TT-TTACTTA--ATTATTATTATT
36872 TT
1 TT
36874 ATTATTTTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
22 11 0.26
23 11 0.26
24 4 0.10
25 2 0.05
26 2 0.05
27 12 0.29
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTTTACTTAATTATTATTATT
Found at i:36837 original size:3 final size:3
Alignment explanation
Indices: 36831--36879 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
36821 TTTTTTTTCC
*
36831 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36878 TT
1 TT
36880 TTCTTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36914 original size:12 final size:12
Alignment explanation
Indices: 36895--36924 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36885 TTTTTCTCTC
36895 TCATTTATTTAT
1 TCATTTATTTAT
*
36907 TTATTTATTTAT
1 TCATTTATTTAT
36919 TCATTT
1 TCATTT
36925 TCATTTTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
TCATTTATTTAT
Found at i:37429 original size:16 final size:17
Alignment explanation
Indices: 37395--37433 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
37385 TCCTTTTTTA
*
37395 TTTATTAAATACTATAT
1 TTTATTAAATACTACAT
*
37412 TTTATTATATAC-ACAT
1 TTTATTAAATACTACAT
37428 TTTATT
1 TTTATT
37434 TTTTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATTAAATACTACAT
Found at i:37481 original size:21 final size:21
Alignment explanation
Indices: 37426--37481 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
37416 TTATATACAC
*
37426 ATTTTATTTTTTATATTTTTT
1 ATTTTATTTTTTTTATTTTTT
* *
37447 ATTTTATTCTTTTTGTTTTCTT
1 ATTTTATTTTTTTTATTTT-TT
37469 -TTTTATTTTTTTT
1 ATTTTATTTTTTTT
37482 CTGTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (21 bp):
ATTTTATTTTTTTTATTTTTT
Found at i:37491 original size:21 final size:20
Alignment explanation
Indices: 37427--37491 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
37417 TATATACACA
*
37427 TTTTATTTTTTATATTTTTT
1 TTTTATTTTTTTTATTTTTT
* *
37447 ATTTTATTCTTTTTGTTTTCTT
1 -TTTTATTTTTTTTATTTT-TT
* *
37469 TTTTATTTTTTTTCTGTTTT
1 TTTTATTTTTTTTATTTTTT
37489 TTT
1 TTT
37492 AAATATTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 5 0.14
21 30 0.81
22 2 0.05
ACGTcount: A:0.09, C:0.05, G:0.03, T:0.83
Consensus pattern (20 bp):
TTTTATTTTTTTTATTTTTT
Found at i:37491 original size:26 final size:25
Alignment explanation
Indices: 37432--37492 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
37422 ACACATTTTA
*
37432 TTTTTTATATTTTTTATTTTATTCTT
1 TTTTTT-TATTTTTTATTTTATTCTG
* *
37458 TTTGTTTTCTTTTTTATTTTTTTTCTG
1 TTT-TTTTATTTTTTA-TTTTATTCTG
37485 TTTTTTTA
1 TTTTTTTA
37493 AATATTATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.82
Consensus pattern (25 bp):
TTTTTTTATTTTTTATTTTATTCTG
Found at i:37553 original size:15 final size:14
Alignment explanation
Indices: 37530--37655 Score: 68
Period size: 15 Copynumber: 8.6 Consensus size: 14
37520 TTCCCTTATT
37530 TTTTATTTTATTCTA
1 TTTTATTTTATT-TA
*
37545 TTTTGTTTTATTTA
1 TTTTATTTTATTTA
37559 TTTTACTCTTT-TTT-
1 TTTTA-T-TTTATTTA
37573 TCTTTATTGTGT-TTTA
1 T-TTTATT-T-TATTTA
37589 TTTTATTATTATTT-
1 TTTTATT-TTATTTA
*
37603 TTTAGATTAGTCT-TTTA
1 TTT-TATT--T-TATTTA
37620 TTATT-TTTTA-TTA
1 TT-TTATTTTATTTA
37633 TTTTATTTTATTTA
1 TTTTATTTTATTTA
37647 TTATTATTT
1 TT-TTATTT
37656 GGCTTCTATT
Statistics
Matches: 89, Mismatches: 6, Indels: 32
0.70 0.05 0.25
Matches are distributed among these distances:
12 2 0.02
13 12 0.13
14 19 0.21
15 42 0.47
16 10 0.11
17 3 0.03
18 1 0.01
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:37556 original size:10 final size:10
Alignment explanation
Indices: 37530--37655 Score: 61
Period size: 10 Copynumber: 12.8 Consensus size: 10
37520 TTCCCTTATT
37530 TTTTATTTTA
1 TTTTATTTTA
* *
37540 TTCTATTTTG
1 TTTTATTTTA
37550 TTTTA-TTTA
1 TTTTATTTTA
37559 TTTTACTCTTT-
1 TTTTA-T-TTTA
*
37570 TTTT-CTTTA
1 TTTTATTTTA
* *
37579 TTGTGTTTTA
1 TTTTATTTTA
37589 TTTTATTATTA
1 TTTTATT-TTA
**
37600 TTTT-TTAGA
1 TTTTATTTTA
* *
37609 TTAGTCTTTTA
1 TT-TTATTTTA
37620 --TTATTTT-
1 TTTTATTTTA
37627 TTATTATTTTA
1 TT-TTATTTTA
37638 TTTTA-TTTA
1 TTTTATTTTA
37647 TTATTATTT
1 TT-TTATTT
37656 GGCTTCTATT
Statistics
Matches: 86, Mismatches: 16, Indels: 27
0.67 0.12 0.21
Matches are distributed among these distances:
8 8 0.09
9 20 0.23
10 37 0.43
11 18 0.21
12 3 0.03
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:37558 original size:24 final size:25
Alignment explanation
Indices: 37531--37595 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
37521 TCCCTTATTT
37531 TTTATTTTATTCTATTTTGT-TTTA
1 TTTATTTTATTCTATTTTGTCTTTA
* *
37555 TTTATTTTACTCT-TTTTTTCTTTA
1 TTTATTTTATTCTATTTTGTCTTTA
* *
37579 TTGTGTTTTATTTTATT
1 TT-TATTTTATTCTATT
37596 ATTATTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 5 0.15
24 18 0.55
25 8 0.24
26 2 0.06
ACGTcount: A:0.14, C:0.06, G:0.05, T:0.75
Consensus pattern (25 bp):
TTTATTTTATTCTATTTTGTCTTTA
Found at i:37573 original size:20 final size:18
Alignment explanation
Indices: 37528--37595 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 18
37518 TTTTCCCTTA
37528 TTTTTTATTTTATTCTATT
1 TTTTTTA-TTTATTCTATT
*
37547 TTGTTTTATTTATTTTACTCT
1 TT-TTTTATTTATTCTA-T-T
* * *
37568 TTTTTTCTTTATTGTGTT
1 TTTTTTATTTATTCTATT
37586 TTATTTTATT
1 TT-TTTTATT
37596 ATTATTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
18 3 0.08
19 17 0.43
20 17 0.43
21 3 0.08
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTTTTATTTATTCTATT
Found at i:37641 original size:23 final size:23
Alignment explanation
Indices: 37586--37644 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
37576 TTATTGTGTT
37586 TTATTTTA--TTATTATTTTTTA
1 TTATTTTATTTTATTATTTTTTA
* * *
37607 -GATTAGTCTTTTATTATTTTTTA
1 TTATT-TTATTTTATTATTTTTTA
37630 TTATTTTATTTTATT
1 TTATTTTATTTTATT
37645 TATTATTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
23 21 0.75
24 3 0.11
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (23 bp):
TTATTTTATTTTATTATTTTTTA
Found at i:41447 original size:21 final size:21
Alignment explanation
Indices: 41423--41499 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
41413 AAAGGTTAAG
41423 ACCTTTCGATGAAAAGACTTA
1 ACCTTTCGATGAAAAGACTTA
* * *
41444 ACCTTTTGATTAAAAGACTTC
1 ACCTTTCGATGAAAAGACTTA
* * * *
41465 TCCTTTTGATGAAATGGCTTA
1 ACCTTTCGATGAAAAGACTTA
41486 ACCTTTTC-ATGAAA
1 ACC-TTTCGATGAAA
41500 GGATTTAATC
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
21 42 0.93
22 3 0.07
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (21 bp):
ACCTTTCGATGAAAAGACTTA
Found at i:42141 original size:32 final size:32
Alignment explanation
Indices: 42098--42159 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
42088 TTTAAATAGG
42098 TTTTAGTATTTTA-ATTAAGTTTTAGGATATTAT
1 TTTTAGTATTTTATATT-AGTTTTAGG-TATTAT
*
42131 TTTTA-TATTTTATATTTGTTTTAGGTATT
1 TTTTAGTATTTTATATTAGTTTTAGGTATT
42160 TTAGTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (32 bp):
TTTTAGTATTTTATATTAGTTTTAGGTATTAT
Found at i:42219 original size:66 final size:65
Alignment explanation
Indices: 42135--42263 Score: 188
Period size: 66 Copynumber: 2.0 Consensus size: 65
42125 TATTATTTTT
* *
42135 ATATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTT-TGTATTTTAATTAGGATTTAG
1 ATATTATATATTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTATTTTAATTAGGATTTAG
42199 A
65 A
* * *
42200 ATATTATATTATTTTTTTTAGGTATTTTAGTTTAGATAGTTTTAAGTGTTTTAATTAGGATTTA
1 ATATTATA-TATTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTAGGATTTA
42264 AGATGTTTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
65 12 0.21
66 45 0.79
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (65 bp):
ATATTATATATTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTAGGATTTAGA
Found at i:42244 original size:76 final size:76
Alignment explanation
Indices: 42079--42229 Score: 187
Period size: 76 Copynumber: 2.0 Consensus size: 76
42069 TTTTATCTTT
* * * *
42079 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTTTATATTTTAT
1 GTATTATAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTAGAATATTATTATTATATTTTAT
** *
42144 ATTTGTTTTAG
66 AGGTATTTTAG
* * * * *
42155 GTATTTTAGTTTAAATAGGTTTTTGTATTTTAATTAGGATTTAGAATATTA-TATTATTTTTTTT
1 GTATTATAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTAGAATATTATTATTATATTTTAT
42219 AGGTATTTTAG
66 AGGTATTTTAG
42230 TTTAGATAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
75 18 0.28
76 47 0.72
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (76 bp):
GTATTATAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTAGAATATTATTATTATATTTTAT
AGGTATTTTAG
Found at i:42900 original size:18 final size:18
Alignment explanation
Indices: 42854--42904 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
42844 AATCTCTTAA
42854 ATTTGTTTATTTAATTATT
1 ATTT-TTTATTTAATTATT
* *
42873 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTTAATTATT
42892 ATTTTTTATTTAA
1 ATTTTTTATTTAA
42905 AAAAACTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.36
19 17 0.61
20 1 0.04
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.71
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:45921 original size:19 final size:19
Alignment explanation
Indices: 45877--45928 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
45867 GAGGCAACTC
* *
45877 ATTTCATTTTATTTTCATTT
1 ATTTTATTTTA-TTCCATTT
45897 -TATTTATTTTATTCCATTT
1 AT-TTTATTTTATTCCATTT
45916 ATTTTATTTTATT
1 ATTTTATTTTATT
45929 TTATCAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTTATTTTATTCCATTT
Found at i:45929 original size:14 final size:14
Alignment explanation
Indices: 45884--45929 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
45874 CTCATTTCAT
45884 TTTATTTTCATTTTA
1 TTTATTTT-ATTTTA
**
45899 TTTATTTTATTCCA
1 TTTATTTTATTTTA
45913 TTTATTTTATTTTA
1 TTTATTTTATTTTA
45927 TTT
1 TTT
45930 TATCAGATGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
14 19 0.70
15 8 0.30
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:45951 original size:5 final size:5
Alignment explanation
Indices: 45877--45932 Score: 62
Period size: 5 Copynumber: 11.4 Consensus size: 5
45867 GAGGCAACTC
* **
45877 ATTTC ATTTT ATTTT CATTTT A-TTT ATTTT ATTCC A-TTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
45926 ATTTT AT
1 ATTTT AT
45933 CAGATGCTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
4 6 0.14
5 32 0.74
6 5 0.12
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (5 bp):
ATTTT
Found at i:47913 original size:24 final size:24
Alignment explanation
Indices: 47883--47990 Score: 85
Period size: 24 Copynumber: 4.3 Consensus size: 24
47873 TTTTATCTTT
47883 GTATTTTAGTTTAAATAGGTTTTA
1 GTATTTTAGTTTAAATAGGTTTTA
* *
47907 GTATTTTAG-TTAATTTTTAGGATATTA
1 GTATTTTAGTTTAA---ATAGG-TTTTA
* * * **
47934 -TTTTTATATTTTATATTTGTTTTA
1 GTATTT-TAGTTTAAATAGGTTTTA
47958 GGTATTTTAGTTTAAATAGGTTTTA
1 -GTATTTTAGTTTAAATAGGTTTTA
47983 GTATTTTA
1 GTATTTTA
47991 ATTAGGATTT
Statistics
Matches: 62, Mismatches: 14, Indels: 16
0.67 0.15 0.17
Matches are distributed among these distances:
23 4 0.06
24 21 0.34
25 16 0.26
26 12 0.19
27 6 0.10
28 3 0.05
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (24 bp):
GTATTTTAGTTTAAATAGGTTTTA
Found at i:47930 original size:75 final size:76
Alignment explanation
Indices: 47847--47990 Score: 204
Period size: 76 Copynumber: 1.9 Consensus size: 76
47837 TAAACTCAAG
*
47847 TTTAGGATAATA-TTTTAAACATTATATTT-TATCTT-TGTATTTTAGTTTAAATAGGTTTTAGT
1 TTTAGGATAATATTTTTAAACATTATATTTGT-T-TTAGGTATTTTAGTTTAAATAGGTTTTAGT
47909 ATTTTAGTTAATT
64 ATTTTAGTTAATT
* * **
47922 TTTAGGATATTATTTTTATATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
1 TTTAGGATAATATTTTTAAACATTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
47987 TTTA
66 TTTA
47991 ATTAGGATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
75 13 0.21
76 47 0.77
77 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.12, T:0.58
Consensus pattern (76 bp):
TTTAGGATAATATTTTTAAACATTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
TTTAGTTAATT
Found at i:48684 original size:19 final size:18
Alignment explanation
Indices: 48655--48703 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
48645 AATCTCTTTA
48655 ATTTGTTTATTTAATTATT
1 ATTT-TTTATTTAATTATT
* *
48674 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTTAATTATT
48693 ATTTTTTATTT
1 ATTTTTTATTT
48704 TTAAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:48776 original size:16 final size:18
Alignment explanation
Indices: 48734--48779 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
48724 AAATCCCCTT
48734 TTATATTTATTACTATTCA
1 TTATA-TTATTACTATTCA
*
48753 TATTTATTATTA-TATT-A
1 T-TATATTATTACTATTCA
48770 TTATATTATT
1 TTATATTATT
48780 TTTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 8 0.33
17 2 0.08
18 4 0.17
19 7 0.29
20 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATATTATTACTATTCA
Found at i:52299 original size:22 final size:22
Alignment explanation
Indices: 52249--52301 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
52239 ATAAAAAGAT
52249 TTAACC-TTTTGATTGAATGAC
1 TTAACCTTTTTGATTGAATGAC
** *
52270 TTCTCCTTTTTGA-TGAAATGGC
1 TTAACCTTTTTGATTG-AATGAC
52292 TTAACCTTTT
1 TTAACCTTTT
52302 CATGAAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (22 bp):
TTAACCTTTTTGATTGAATGAC
Found at i:52301 original size:21 final size:21
Alignment explanation
Indices: 52249--52328 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
52239 ATAAAAAGAT
52249 TTAACCTTTTGATTG-AATGAC
1 TTAACCTTTTGA-TGAAATGAC
** *
52270 TTCTCCTTTTTGATGAAATGGC
1 TTAACC-TTTTGATGAAATGAC
* * *
52292 TTAACCTTTTCATGAAAAGAT
1 TTAACCTTTTGATGAAATGAC
* *
52313 TTAATCTTTTTATGAA
1 TTAACCTTTTGATGAA
52329 GAGAATTGTT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 31 0.67
22 15 0.33
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (21 bp):
TTAACCTTTTGATGAAATGAC
Found at i:65523 original size:20 final size:20
Alignment explanation
Indices: 65498--65544 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
65488 AACGCGATTT
65498 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
*
65518 T-TAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
65537 TGAAAAAT
1 TGAAAAAT
65545 CCAAAATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:65935 original size:20 final size:20
Alignment explanation
Indices: 65910--66146 Score: 126
Period size: 20 Copynumber: 11.7 Consensus size: 20
65900 AAATTTGGAA
*
65910 AATCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* *
65930 AATCGCGTTGCGATTTTGT-AT
1 AATCGCGTTGCGA--TAGTCAG
* *
65951 TATCGTGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
65971 AATCGCGTTGCGATTATGT-AT
1 AATCGCGTTGCGA-TA-GTCAG
* *
65992 TATCGTGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
* * *
66012 AATCGTGTTGCGAT-TTACAT
1 AATCGCGTTGCGATAGT-CAG
* * ** *
66032 ATTCGCATTGCGATTTTCTAA
1 AATCGCGTTGCGATAGTC-AG
** *
66053 AATCGCAATGCGATAGTCAA
1 AATCGCGTTGCGATAGTCAG
*
66073 AATCGCGTTGCGA-A-TCTGG
1 AATCGCGTTGCGATAGTC-AG
* ** *
66092 AAACTGATTTGCGATACTC-G
1 AATC-GCGTTGCGATAGTCAG
*
66112 AGATTGCGTTGCGATAGTCAG
1 A-ATCGCGTTGCGATAGTCAG
66133 AATCGCGTTGCGAT
1 AATCGCGTTGCGAT
66147 TTACATATTC
Statistics
Matches: 165, Mismatches: 37, Indels: 30
0.71 0.16 0.13
Matches are distributed among these distances:
18 2 0.01
19 10 0.06
20 99 0.60
21 47 0.28
22 7 0.04
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:65960 original size:21 final size:21
Alignment explanation
Indices: 65931--66005 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
65921 GATAGTCAGA
65931 ATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATTTTGTATT
* * **
65952 ATCGTGTTGCGA--TAGTCAGA
1 ATCGCGTTGCGATTTTGT-ATT
*
65972 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTTTGTATT
*
65993 ATCGTGTTGCGAT
1 ATCGCGTTGCGAT
66006 AGTCAGAATC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
19 3 0.07
20 12 0.29
21 24 0.59
22 2 0.05
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.40
Consensus pattern (21 bp):
ATCGCGTTGCGATTTTGTATT
Found at i:65974 original size:41 final size:41
Alignment explanation
Indices: 65917--66027 Score: 204
Period size: 41 Copynumber: 2.7 Consensus size: 41
65907 GAAAATCGCA
65917 TTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGTG
1 TTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGTG
*
65958 TTGCGATAGTCAGAATCGCGTTGCGATTATGTATTATCGTG
1 TTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGTG
*
65999 TTGCGATAGTCAGAATCGTGTTGCGATTT
1 TTGCGATAGTCAGAATCGCGTTGCGATTT
66028 ACATATTCGC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (41 bp):
TTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGTG
Found at i:66043 original size:61 final size:60
Alignment explanation
Indices: 65973--66167 Score: 155
Period size: 61 Copynumber: 3.2 Consensus size: 60
65963 ATAGTCAGAA
* * * *
65973 TCGCGTTGCGATTATGTATTATCGTGTTGCGATAGTCAGAATCGTGTTGCGATTTACATAT
1 TCGCATTGCGATTATGTA-AATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTACATAT
* * ** * * ** * *
66034 TCGCATTGCGATTTTCTAAAATCGCAATGCGATAGTCAAAATCGCGTTGCGAATCTGGAAAC
1 TCGCATTGCGATTATGT-AAATCGCGTTGCGATAGTCAGAATCGCGTTGCG-ATTTACATAT
* *
66096 T-G-ATTTGCGA-TACTCG-AGATTGCGTTGCGATAGTCAGAATCGCGTTGCGATTTACATAT
1 TCGCA-TTGCGATTA-T-GTAAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTACATAT
*
66155 TCTCATTGCGATT
1 TCGCATTGCGATT
66168 TTCTAAAATC
Statistics
Matches: 99, Mismatches: 27, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
59 6 0.06
60 36 0.36
61 50 0.51
62 7 0.07
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (60 bp):
TCGCATTGCGATTATGTAAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTACATAT
Found at i:66205 original size:142 final size:140
Alignment explanation
Indices: 66051--66309 Score: 376
Period size: 142 Copynumber: 1.8 Consensus size: 140
66041 GCGATTTTCT
**
66051 AAAATCGCAATGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTCGAGAT
1 AAAATCGCAATGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGAAATACTCGAGAT
* * *
66116 TGCGTTGCGATAGTCAGA-ATCGCGTTGCGATTTACATATTCTCATTGCGATTTTCTAAAATCGC
66 CGCGTTGCGAT--TCAGAGATCGCGTTGCGATTTACAGA-TCGCATTGCGATTTTCTAAAATCGC
66180 AACGCGTATTTGG
128 AACGCGTATTTGG
* * * *
66193 AAAATCGTAATGCGATAGTCAAAATCGCGTTGCGGATCTGGAAACTGATTTGAAATATTGGAGAT
1 AAAATCGCAATGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGAAATACTCGAGAT
* * *
66258 CGCGTTGCGATTTAGAGATCGTGTTGCGATTTAGAGATCGCATTGCGATTTT
66 CGCGTTGCGATTCAGAGATCGCGTTGCGATTTACAGATCGCATTGCGATTTT
66310 GTTGGTCATT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
140 18 0.17
141 17 0.16
142 69 0.66
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (140 bp):
AAAATCGCAATGCGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGAAATACTCGAGAT
CGCGTTGCGATTCAGAGATCGCGTTGCGATTTACAGATCGCATTGCGATTTTCTAAAATCGCAAC
GCGTATTTGG
Found at i:66277 original size:19 final size:19
Alignment explanation
Indices: 66253--66308 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
66243 TGAAATATTG
66253 GAGATCGCGTTGCGATTTA
1 GAGATCGCGTTGCGATTTA
*
66272 GAGATCGTGTTGCGATTTA
1 GAGATCGCGTTGCGATTTA
*
66291 GAGATCGCATTGCGATTT
1 GAGATCGCGTTGCGATTT
66309 TGTTGGTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.34
Consensus pattern (19 bp):
GAGATCGCGTTGCGATTTA
Found at i:67552 original size:35 final size:34
Alignment explanation
Indices: 67503--67615 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 34
67493 AAAAAAGACA
* *
67503 GAAATTGAAGTATTTTAGAATTTGGGTTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTGGG-TTTAGAAT
* *
67538 GTAATTGAATTATTTTGGAATTTAGAGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTT-GGGTTTAGAAT
*
67573 GAAATTGAATTACTTTGGAATTTGTGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTG-GGTTTAGAAT
67608 GAAATTGA
1 GAAATTGA
67616 GGATTGTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
34 1 0.01
35 66 0.96
36 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.42
Consensus pattern (34 bp):
GAAATTGAATTATTTTGGAATTTGGGTTTAGAAT
Found at i:69268 original size:19 final size:19
Alignment explanation
Indices: 69192--69282 Score: 76
Period size: 19 Copynumber: 4.4 Consensus size: 19
69182 AACGCGATTT
69192 TGAAAAATATGTTGCGATAG
1 TGAAAAAT-TGTTGCGATAG
* *
69212 T-TAAAATGTGTTGCGAGAG
1 TGAAAAAT-TGTTGCGATAG
*
69231 TTTGAAAAACGTGTTGTTGTGATAG
1 --TGAAAAA----TTGTTGCGATAG
69256 TGAAAAATTGTTGCGATAG
1 TGAAAAATTGTTGCGATAG
69275 TGAAAAAT
1 TGAAAAAT
69283 CCAAAATAAG
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
19 34 0.60
20 1 0.02
21 1 0.02
22 4 0.07
23 7 0.12
25 9 0.16
26 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.33
Consensus pattern (19 bp):
TGAAAAATTGTTGCGATAG
Found at i:69525 original size:6 final size:6
Alignment explanation
Indices: 69514--69538 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
69504 CCGTCCCGTC
69514 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
69539 AATACGTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:69704 original size:20 final size:20
Alignment explanation
Indices: 69679--69811 Score: 67
Period size: 20 Copynumber: 6.7 Consensus size: 20
69669 ATTTTGTATT
69679 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
* *
69699 ATCGCGTTGCGAT-CTACATA
1 ATCGCGTTGCGATAGT-CAGA
* * * * *
69719 TTCGCATTACGATAGTTAAA
1 ATCGCGTTGCGATAGTCAGA
*
69739 ATCGCGTTGCGA-A-TCTGGA
1 ATCGCGTTGCGATAGTC-AGA
* ** * *
69758 AACTGATTTGCGATACT-GGA
1 ATC-GCGTTGCGATAGTCAGA
*
69778 GATCGAGTTGCGATAGTCAGA
1 -ATCGCGTTGCGATAGTCAGA
*
69799 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
69812 TTTCCAAAAT
Statistics
Matches: 82, Mismatches: 23, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
18 1 0.01
19 5 0.06
20 69 0.84
21 6 0.07
22 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:69847 original size:21 final size:21
Alignment explanation
Indices: 69822--69862 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
69812 TTTCCAAAAT
69822 TTTGGAAAATCGCAATGCGAA
1 TTTGGAAAATCGCAATGCGAA
69843 TTTGGAAAATCGCAATGCGA
1 TTTGGAAAATCGCAATGCGA
69863 TAGTCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (21 bp):
TTTGGAAAATCGCAATGCGAA
Found at i:69932 original size:19 final size:19
Alignment explanation
Indices: 69897--69944 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
69887 GGAAACTGAT
* *
69897 TTGCGATATTGGAGATCGCG
1 TTGCGAT-TTAGAGATCGCA
69917 TTGCGATTTAGAGATCGCA
1 TTGCGATTTAGAGATCGCA
69936 TTGCGATTT
1 TTGCGATTT
69945 TGTTGGTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (19 bp):
TTGCGATTTAGAGATCGCA
Found at i:70621 original size:24 final size:24
Alignment explanation
Indices: 70591--70647 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 24
70581 ATATTTTATA
70591 TATATTAACTT-TTAAAAATATTTT
1 TATATTAACTTATTAAAAATA-TTT
*
70615 TATATTAACTTATTAAATATATTT
1 TATATTAACTTATTAAAAATATTT
70639 TATAATTAA
1 TAT-ATTAA
70648 TTTAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
TATATTAACTTATTAAAAATATTT
Found at i:70711 original size:33 final size:33
Alignment explanation
Indices: 70673--70761 Score: 96
Period size: 31 Copynumber: 2.8 Consensus size: 33
70663 ATTTAATTTA
70673 AAAATATATATTTTATTCTTAG-TTAAACTTTT
1 AAAATATATATTTTATTCTTAGTTTAAACTTTT
* * *
70705 AAAA-ATATATTTTATTATT-GTTTTAGCTTTT
1 AAAATATATATTTTATTCTTAGTTTAAACTTTT
* *
70736 GAAAGTATATATTTTA-TCTTAATTTA
1 -AAAATATATATTTTATTCTTAGTTTA
70762 TTAAATTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
30 1 0.02
31 22 0.48
32 10 0.22
33 13 0.28
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (33 bp):
AAAATATATATTTTATTCTTAGTTTAAACTTTT
Found at i:70961 original size:31 final size:31
Alignment explanation
Indices: 70899--70967 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
70889 TTAATCTATG
*
70899 GTGACCACATCTTAATTAAACAAAAATGAAA
1 GTGACCACATCTTAATTAAACAAAAACGAAA
* * *
70930 GTGACCAC-TCCTTAGTTAAATAAAAGCGAAA
1 GTGACCACAT-CTTAATTAAACAAAAACGAAA
*
70961 GTTACCA
1 GTGACCA
70968 TATATTATGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (31 bp):
GTGACCACATCTTAATTAAACAAAAACGAAA
Found at i:78800 original size:21 final size:21
Alignment explanation
Indices: 78771--78823 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
78761 ATTCTGACTA
78771 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
78792 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
78813 TCGCAATGCGA
1 TCGCATTGCGA
78824 ATACATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:78838 original size:20 final size:20
Alignment explanation
Indices: 78813--78885 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
78803 TTTTCCTAAT
78813 TCGCAATGCGAATACATAAA
1 TCGCAATGCGAATACATAAA
*
78833 TCGCAATGCGAATACATACA
1 TCGCAATGCGAATACATAAA
**
78853 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACATAAA
*
78873 TCGCAACGCGAAT
1 TCGCAATGCGAAT
78886 CTGACTATCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACATAAA
Found at i:78900 original size:40 final size:40
Alignment explanation
Indices: 78816--78903 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
78806 TCCTAATTCG
* *
78816 CAATGCGAATACATAAATCGCAATGCGAATACATACATCG
1 CAATGCGAATACATAAATCGCAACGCGAATACATACATCA
**
78856 CAATGCGAATATGTAAATCGCAACGCGAAT-C-TGACTATCA
1 CAATGCGAATACATAAATCGCAACGCGAATACAT-AC-ATCA
78896 CAATGCGA
1 CAATGCGA
78904 TTTACATAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.02
39 3 0.07
40 38 0.90
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (40 bp):
CAATGCGAATACATAAATCGCAACGCGAATACATACATCA
Found at i:79109 original size:22 final size:22
Alignment explanation
Indices: 79084--79137 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
79074 GGTGACATCC
79084 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
79106 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
*
79128 GTCTCCATCT
1 GTCCCCATCT
79138 TCAGCGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.41, G:0.13, T:0.24
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:79149 original size:22 final size:22
Alignment explanation
Indices: 79084--79149 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
79074 GGTGACATCC
*
79084 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCAGACGAAATCA
* *
79106 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCAGACGAAATCA
*
79128 GTCTCCATCTTCAG-CGAAATCA
1 GTCCCCATC-TCAGACGAAATCA
79150 TTCACGGTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 36 0.92
23 3 0.08
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCAGACGAAATCA
Found at i:79541 original size:20 final size:20
Alignment explanation
Indices: 79516--79637 Score: 98
Period size: 20 Copynumber: 6.5 Consensus size: 20
79506 TGCGATTCTT
*
79516 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAATTTC
*
79536 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAATTTC
* *
79556 GTGTTGCGAT-TTC-ATTTC
1 GCGTTGCGATAGTCAATTTC
79574 GCGTTGCGAT--TC---TT-
1 GCGTTGCGATAGTCAATTTC
*
79588 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAATTTC
* ** *
79608 GTGTTGCGATTTTCATTTTC
1 GCGTTGCGATAGTCAATTTC
*
79628 GTGTTGCGAT
1 GCGTTGCGAT
79638 TTTAAGTTTA
Statistics
Matches: 87, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
14 10 0.11
15 2 0.02
16 2 0.02
17 2 0.02
18 13 0.15
19 4 0.05
20 54 0.62
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.43
Consensus pattern (20 bp):
GCGTTGCGATAGTCAATTTC
Found at i:79585 original size:72 final size:72
Alignment explanation
Indices: 79486--79639 Score: 245
Period size: 72 Copynumber: 2.1 Consensus size: 72
79476 GATTCTGTCA
*
79486 TTGCGATTTTCATTTCGTGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCA
1 TTGCGA-TTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCA
79551 TTTTCGTG
65 TTTTCGTG
** * **
79559 TTGCGATTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCAT
1 TTGCGATTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAT
79624 TTTCGTG
66 TTTCGTG
79631 TTGCGATTT
1 TTGCGATTT
79640 TAAGTTTAAG
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 69 0.92
73 6 0.08
ACGTcount: A:0.13, C:0.18, G:0.24, T:0.45
Consensus pattern (72 bp):
TTGCGATTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAT
TTTCGTG
Found at i:79602 original size:52 final size:54
Alignment explanation
Indices: 79536--79638 Score: 183
Period size: 52 Copynumber: 1.9 Consensus size: 54
79526 AGTCAAATTC
79536 GCGTTGCGATAGTCATTTTCGTGTTGCGA-TTTCA-TTTCGCGTTGCGATTCTT
1 GCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGCGTTGCGATTCTT
*
79588 GCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGTTGCGATT
1 GCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGCGTTGCGATT
79639 TTAAGTTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 29 0.60
53 5 0.10
54 14 0.29
ACGTcount: A:0.12, C:0.17, G:0.25, T:0.46
Consensus pattern (54 bp):
GCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGCGTTGCGATTCTT
Found at i:81557 original size:20 final size:20
Alignment explanation
Indices: 81532--81709 Score: 141
Period size: 20 Copynumber: 9.5 Consensus size: 20
81522 AGAATAGTTT
81532 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
81552 ACTATCGCAACGTGAAAATG
1 ACTATCGCAATGCGAAAATG
*
81572 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
81588 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
** *
81605 AAAATCACAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
81621 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
81639 ACTATTGCAATGCGAAAAATG
1 ACTATCGCAATGCG-AAAATG
81660 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
81680 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
*
81700 ACTATGGCAA
1 ACTATCGCAA
81710 CGAAAGAATC
Statistics
Matches: 130, Mismatches: 13, Indels: 30
0.75 0.08 0.17
Matches are distributed among these distances:
14 13 0.10
16 10 0.08
17 8 0.06
18 4 0.03
19 6 0.05
20 70 0.54
21 19 0.15
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:81781 original size:20 final size:20
Alignment explanation
Indices: 81756--81842 Score: 111
Period size: 20 Copynumber: 4.3 Consensus size: 20
81746 GATTCTCTCG
81756 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
81776 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** * *
81796 TTGCGATAGTCATTTTCACG
1 TTGCGATAGTCAAATTCGCA
** *
81816 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
81836 TTGCGAT
1 TTGCGAT
81843 TTTAAGTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:81853 original size:40 final size:40
Alignment explanation
Indices: 81776--81853 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
81766 CAAATTCGCA
* *
81776 TTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCACG
1 TTGCGATAGTCAAATTCGCATTGCGATAGTAAGTTTCACG
** * **
81816 TTGCGATAGTCATTTTCGCGTTGCGATTTTAAGTTTCA
1 TTGCGATAGTCAAATTCGCATTGCGATAGTAAGTTTCA
81854 GATTCTATTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (40 bp):
TTGCGATAGTCAAATTCGCATTGCGATAGTAAGTTTCACG
Found at i:83744 original size:14 final size:14
Alignment explanation
Indices: 83712--83746 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
83702 GATTGTTTAA
83712 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
83726 ATGATTTGTAAATG
1 TTGATTTGTAAAAG
83740 TTGATTT
1 TTGATTT
83747 TTTTAATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:83893 original size:14 final size:14
Alignment explanation
Indices: 83874--83927 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
83864 GGAAATGACT
83874 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
83888 ATCGCAATGCGAAATTGAA
1 ATCGCAA--CGAGA--G-A
83907 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
83921 ATCGCAA
1 ATCGCAA
83928 TGTGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 15 0.45
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:83911 original size:33 final size:34
Alignment explanation
Indices: 83854--83949 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
83844 AAAACAGAAT
* * **
83854 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
*
83888 ATCGCAATGCGAAATTG-AAATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
*
83921 ATCGCAATGTGAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAAATGAAAATCGCAACG
83950 CGAAACTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 29 0.54
34 25 0.46
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.15
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
Found at i:84046 original size:33 final size:33
Alignment explanation
Indices: 83985--84048 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
83975 TCATTTTTGC
* * **
83985 ATTGTGATTCTCTCATTTCGATTTTCATTTCGT
1 ATTGCGATTCTCTCATTGCGATAGTCATTTCGT
*
84018 ATTGCGATTCTCTCGTTGCGATAGTCATTTC
1 ATTGCGATTCTCTCATTGCGATAGTCATTTC
84049 CGCGTTGCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (33 bp):
ATTGCGATTCTCTCATTGCGATAGTCATTTCGT
Found at i:84056 original size:20 final size:20
Alignment explanation
Indices: 84031--84119 Score: 135
Period size: 20 Copynumber: 4.5 Consensus size: 20
84021 GCGATTCTCT
84031 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
84051 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
84071 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
84091 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
*
84111 TGTTGCGAT
1 CGTTGCGAT
84120 TTCCGCATTG
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:84086 original size:40 final size:40
Alignment explanation
Indices: 84031--84119 Score: 151
Period size: 40 Copynumber: 2.2 Consensus size: 40
84021 GCGATTCTCT
*
84031 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCG
*
84071 CGTTGCGATAGTCATTTCCGTGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCG
*
84111 TGTTGCGAT
1 CGTTGCGAT
84120 TTCCGCATTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (40 bp):
CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCG
Found at i:86537 original size:24 final size:24
Alignment explanation
Indices: 86510--86563 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
86500 CTGAAAAATC
* *
86510 ATCAAAATCTGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
86534 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
86558 ATCAAA
1 ATCAAA
86564 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:87428 original size:20 final size:20
Alignment explanation
Indices: 87403--87510 Score: 162
Period size: 20 Copynumber: 5.4 Consensus size: 20
87393 GAAATTCAGT
87403 ATTGCGATAGTCAGAATCGC
1 ATTGCGATAGTCAGAATCGC
87423 ATTGCGATAGTCAGAATCGC
1 ATTGCGATAGTCAGAATCGC
* *
87443 GTTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCGC
* *
87463 GTTGCGATAGTCATAATCGC
1 ATTGCGATAGTCAGAATCGC
*
87483 ATTGCGATAGTCAGATTCGC
1 ATTGCGATAGTCAGAATCGC
*
87503 GTTGCGAT
1 ATTGCGAT
87511 TTACATATTC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (20 bp):
ATTGCGATAGTCAGAATCGC
Found at i:87520 original size:20 final size:20
Alignment explanation
Indices: 87497--87609 Score: 163
Period size: 20 Copynumber: 5.7 Consensus size: 20
87487 CGATAGTCAG
* *
87497 ATTCGCGTTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
*
87517 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
87537 ATTCGCATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
87557 ATTCGCATTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
* *
87577 ATTCACGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
87597 ATTCGCATTGCGA
1 ATTCGCATTGCGA
87610 ATTAGGAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:87526 original size:60 final size:60
Alignment explanation
Indices: 87404--87590 Score: 193
Period size: 60 Copynumber: 3.1 Consensus size: 60
87394 AAATTCAGTA
* * * * * *
87404 TTGCGATAGTCAGAATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGT-CAGAATCTCG
1 TTGCGATAGTCATAATCGCATTGCGATAGTCAGATTCGCGTTGCGAT-TTACATATTCACG
*
87464 TTGCGATAGTCATAATCGCATTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCGCG
1 TTGCGATAGTCATAATCGCATTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCACG
* * * * * *
87524 TTGCGAT-TTACGTATTCGCATTACGAT--TTACGTATTCGCATTGCGATTTACATATTCACG
1 TTGCGATAGT-CATAATCGCATTGCGATAGTCA-G-ATTCGCGTTGCGATTTACATATTCACG
87584 TTGCGAT
1 TTGCGAT
87591 TTACGTATTC
Statistics
Matches: 110, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
58 2 0.02
59 3 0.03
60 105 0.95
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (60 bp):
TTGCGATAGTCATAATCGCATTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCACG
Found at i:87528 original size:40 final size:40
Alignment explanation
Indices: 87403--87609 Score: 163
Period size: 40 Copynumber: 5.2 Consensus size: 40
87393 GAAATTCAGT
* * * * *
87403 ATTGCGATAGTCAGAATCGCATTGCGATAGT-CAGAATCGC
1 ATTGCGATAGTCAGATTCGCGTTGCGAT-TTACATATTCGC
* * * * *
87443 GTTGCGATAGTCAGAATCTCGTTGCGATAGT-CATAATCGC
1 ATTGCGATAGTCAGATTCGCGTTGCGAT-TTACATATTCGC
87483 ATTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCGC
1 ATTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCGC
* * * * *
87523 GTTGCGAT--TTACGTATTCGCATTACGATTTACGTATTCGC
1 ATTGCGATAGTCA-G-ATTCGCGTTGCGATTTACATATTCGC
* * * *
87563 ATTGCGAT-TTACATATTCACGTTGCGATTTACGTATTCGC
1 ATTGCGATAGT-CAGATTCGCGTTGCGATTTACATATTCGC
87603 ATTGCGA
1 ATTGCGA
87610 ATTAGGAAAA
Statistics
Matches: 142, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 136 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (40 bp):
ATTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCGC
Found at i:87630 original size:21 final size:21
Alignment explanation
Indices: 87606--87651 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
87596 TATTCGCATT
87606 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
87627 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
87648 GCGA
1 GCGA
87652 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:96759 original size:41 final size:42
Alignment explanation
Indices: 96714--96815 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 42
96704 AGGTTGGGAT
* *
96714 ATTTTGAAGGTCCATTTCA-ACAAGAAATAGA-ATGTTGGGGC
1 ATTTTGAAGGTCCATTTCAGACAAAAAAT-GATATGTGGGGGC
*
96755 ATTTTGAAGGCCCATTTCAGACAAAAAATGATTCATGTGGGGGC
1 ATTTTGAAGGTCCATTTCAGACAAAAAATGA-T-ATGTGGGGGC
* *
96799 ATTTTGAAAGTTCATTT
1 ATTTTGAAGGTCCATTT
96816 TGAAGGCTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
41 20 0.39
42 8 0.16
44 23 0.45
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (42 bp):
ATTTTGAAGGTCCATTTCAGACAAAAAATGATATGTGGGGGC
Found at i:96805 original size:44 final size:41
Alignment explanation
Indices: 96714--96806 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 41
96704 AGGTTGGGAT
* * *
96714 ATTTTGAAGGTCCATTTCAACAAGAAATAGAATGTTGGGGC
1 ATTTTGAAGGCCCATTTCAACAAAAAATAGAATGTGGGGGC
96755 ATTTTGAAGGCCCATTTCAGACAAAAAAT-GATTCATGTGGGGGC
1 ATTTTGAAGGCCCATTTCA-ACAAAAAATAGA---ATGTGGGGGC
96799 ATTTTGAA
1 ATTTTGAA
96807 AGTTCATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
41 20 0.44
42 8 0.18
44 17 0.38
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (41 bp):
ATTTTGAAGGCCCATTTCAACAAAAAATAGAATGTGGGGGC
Done.