Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold62
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: 1680050
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.33
Warning! 56500 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:774134 original size:25 final size:26
Alignment explanation
Indices: 774106--774168 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
774096 AAAATAATAC
774106 AAAAAAGAAAAA-AAA-AAGCAATCGA
1 AAAAAAGAAAAAGAAAGAAGCAATC-A
*
774131 AAAACAGATAAAAGAAAGAAGCAATCA
1 AAAAAAGA-AAAAGAAAGAAGCAATCA
*
774158 AAAAAATAAAA
1 AAAAAAGAAAA
774169 TCAAATACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 7 0.22
26 7 0.22
27 10 0.31
28 8 0.25
ACGTcount: A:0.75, C:0.08, G:0.11, T:0.06
Consensus pattern (26 bp):
AAAAAAGAAAAAGAAAGAAGCAATCA
Found at i:774548 original size:21 final size:21
Alignment explanation
Indices: 774524--774571 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
774514 TTACTGTCTT
774524 TTTTATATATTTTTATTT-TTA
1 TTTTATATA-TTTTATTTATTA
*
774545 TTTTA-GTATTTTATTTACTTA
1 TTTTATATATTTTATTTA-TTA
774566 TTTTAT
1 TTTTAT
774572 TTAAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 8 0.35
20 2 0.09
21 13 0.57
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTATATATTTTATTTATTA
Found at i:774770 original size:76 final size:75
Alignment explanation
Indices: 774699--774859 Score: 204
Period size: 76 Copynumber: 2.2 Consensus size: 75
774689 ATTTATGCCC
* * **
774699 TTAATT-TTATTTTAATTCCAATTTTAT-CCTTTA-TTTA-TTTAATTTGAATTTTTCATTATTA
1 TTAATTATTATTTTAATTACAA-TTTATCCCTTAATTTTATTTTAATTCCAATTTTTCATTATTA
774760 TTATTATTTAT
65 TTATTATTTAT
* **
774771 TTAATTATTGTTTTTTTTACAATTTATGCCCTTAATTTTATTTTAATTCCAATTTTTCATTATTA
1 TTAATTATTATTTTAATTACAATTTAT-CCCTTAATTTTATTTTAATTCCAATTTTTCATTATTA
*
774836 TTATTATTTCT
65 TTATTATTTAT
774847 TTAATTATTATTT
1 TTAATTATTATTT
774860 CTTTGCCCTT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
72 11 0.15
73 11 0.15
74 5 0.07
75 4 0.05
76 44 0.59
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (75 bp):
TTAATTATTATTTTAATTACAATTTATCCCTTAATTTTATTTTAATTCCAATTTTTCATTATTAT
TATTATTTAT
Found at i:774855 original size:15 final size:15
Alignment explanation
Indices: 774835--774863 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
774825 TTTCATTATT
774835 ATTATTATTTCTTTA
1 ATTATTATTTCTTTA
774850 ATTATTATTTCTTT
1 ATTATTATTTCTTT
774864 GCCCTTGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTATTATTTCTTTA
Found at i:774926 original size:3 final size:3
Alignment explanation
Indices: 774918--774961 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
774908 ACATTATTCT
774918 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
774962 CATGTTAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:779341 original size:8 final size:7
Alignment explanation
Indices: 779319--779351 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
779309 AAGTTAAACA
779319 TAATATTT
1 TAAT-TTT
779327 TAATTTT
1 TAATTTT
779334 TAATTTT
1 TAATTTT
779341 TAATTTT
1 TAATTTT
779348 TAAT
1 TAAT
779352 GAAATGAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TAATTTT
Found at i:780223 original size:3 final size:3
Alignment explanation
Indices: 780215--780240 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
780205 AAATTAGTTA
780215 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
780241 GGNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:786573 original size:10 final size:11
Alignment explanation
Indices: 786557--786605 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
786547 AGGCAACATT
*
786557 TTTTTTTGCGG
1 TTTTTTTGCGC
786568 TTTTTTTGCGC
1 TTTTTTTGCGC
**
786579 --TTTTTGCTT
1 TTTTTTTGCGC
786588 TTTTTTTGCGC
1 TTTTTTTGCGC
786599 TTTTTTT
1 TTTTTTT
786606 TAAAGAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
9 7 0.23
11 24 0.77
ACGTcount: A:0.00, C:0.12, G:0.16, T:0.71
Consensus pattern (11 bp):
TTTTTTTGCGC
Found at i:786584 original size:20 final size:20
Alignment explanation
Indices: 786559--786603 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
786549 GCAACATTTT
786559 TTTTTGCGGTTTTTTTGCGC
1 TTTTTGCGGTTTTTTTGCGC
**
786579 TTTTTGCTTTTTTTTTGCGC
1 TTTTTGCGGTTTTTTTGCGC
786599 TTTTT
1 TTTTT
786604 TTTAAAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.18, T:0.69
Consensus pattern (20 bp):
TTTTTGCGGTTTTTTTGCGC
Found at i:790767 original size:2 final size:2
Alignment explanation
Indices: 790760--790785 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
790750 TTTGGGGTTT
790760 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
790786 CCAGCTCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:792487 original size:16 final size:17
Alignment explanation
Indices: 792461--792492 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
792451 AAATATACCA
792461 AAAAAACAAAAACCTGC
1 AAAAAACAAAAACCTGC
792478 AAAAAA-AAAAACCTG
1 AAAAAACAAAAACCTG
792493 TGGCTGCAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.69, C:0.19, G:0.06, T:0.06
Consensus pattern (17 bp):
AAAAAACAAAAACCTGC
Found at i:793518 original size:16 final size:17
Alignment explanation
Indices: 793497--793528 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
793487 GGTGCCGCCA
793497 CAGGTTTTT-TTTTTTG
1 CAGGTTTTTGTTTTTTG
793513 CAGGTTTTTGTTTTTT
1 CAGGTTTTTGTTTTTT
793529 TTACATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.06, C:0.06, G:0.19, T:0.69
Consensus pattern (17 bp):
CAGGTTTTTGTTTTTTG
Found at i:795894 original size:28 final size:28
Alignment explanation
Indices: 795862--795919 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
795852 CATTTCATGC
*
795862 AATTTGGTCCCTAAACCTAAAACAGGTA
1 AATTTAGTCCCTAAACCTAAAACAGGTA
* *
795890 AATTTAGTCCCTGAACCTAAAATAGGTA
1 AATTTAGTCCCTAAACCTAAAACAGGTA
795918 AA
1 AA
795920 CAAATTTACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (28 bp):
AATTTAGTCCCTAAACCTAAAACAGGTA
Found at i:798517 original size:12 final size:12
Alignment explanation
Indices: 798500--798526 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
798490 CATGTAAATT
798500 TCCTCATGCAAG
1 TCCTCATGCAAG
798512 TCCTCATGCAAG
1 TCCTCATGCAAG
798524 TCC
1 TCC
798527 CCATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (12 bp):
TCCTCATGCAAG
Found at i:800154 original size:5 final size:5
Alignment explanation
Indices: 800144--800171 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
800134 TCTTAGATTT
800144 TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTA
800172 AATAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:801218 original size:23 final size:22
Alignment explanation
Indices: 801187--801272 Score: 79
Period size: 21 Copynumber: 4.0 Consensus size: 22
801177 GCTTTGCCTA
*
801187 TCAGTCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
*
801209 CTCAGGCACTTTATGTGTCATA-
1 -TCAGGCACTTTATGTGTCGTAT
* * **
801231 TCAGCCACCTCGTGTGTCGT-T
1 TCAGGCACTTTATGTGTCGTAT
*
801252 TCAGGCA-TTTATGTGTTGTAT
1 TCAGGCACTTTATGTGTCGTAT
801273 ACAGATTAGG
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
20 8 0.16
21 22 0.45
23 19 0.39
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTAT
Found at i:806183 original size:19 final size:20
Alignment explanation
Indices: 806159--806213 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
806149 TTCTCATATG
806159 ATATCAAAATTTATAATG-A
1 ATATCAAAATTTATAATGTA
* *
806178 ATATCAATATTTCTAA-GTA
1 ATATCAAAATTTATAATGTA
* *
806197 ATACCAAAATTTTTAAT
1 ATATCAAAATTTATAAT
806214 AGATACAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 1 0.03
19 28 0.97
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (20 bp):
ATATCAAAATTTATAATGTA
Found at i:806219 original size:19 final size:19
Alignment explanation
Indices: 806158--806223 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
806148 CTTCTCATAT
806158 GATATCAAAATTTATAAT-
1 GATATCAAAATTTATAATA
* *
806176 GAATATCAATATTTCTAAGTA
1 G-ATATCAAAATTTATAA-TA
* *
806197 -ATACCAAAATTTTTAATA
1 GATATCAAAATTTATAATA
806215 GATA-CAAAA
1 GATATCAAAA
806224 AAGAAAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
18 8 0.21
19 30 0.77
20 1 0.03
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (19 bp):
GATATCAAAATTTATAATA
Found at i:806381 original size:11 final size:11
Alignment explanation
Indices: 806355--806391 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
806345 AAAAAGTTGG
806355 AAAAA-TTATT
1 AAAAATTTATT
806365 -AAAATTTATT
1 AAAAATTTATT
*
806375 AAAAATTTACT
1 AAAAATTTATT
806386 AAAAAT
1 AAAAAT
806392 GATTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
9 4 0.17
10 5 0.21
11 15 0.62
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATTTATT
Found at i:806442 original size:30 final size:29
Alignment explanation
Indices: 806397--806453 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
806387 AAAATGATTT
* * *
806397 TTTTTAAAATGTAAAAGTTATTAAAAAAA
1 TTTTAAAAATGTAAAAATGATTAAAAAAA
806426 TTTTAAAAATTGTAAAAATGATTAAAAA
1 TTTTAAAAA-TGTAAAAATGATTAAAAA
806454 GTATTTTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (29 bp):
TTTTAAAAATGTAAAAATGATTAAAAAAA
Found at i:806588 original size:21 final size:21
Alignment explanation
Indices: 806537--806595 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 21
806527 GTAAAAAATT
* *
806537 ATATATTTTTTATAACTTTT-A
1 ATATA-TTTTTACAATTTTTAA
806558 ATA-A-TTTTACAATTTTTAA
1 ATATATTTTTACAATTTTTAA
806577 ATATATTTTTAC-ATTTTTA
1 ATATATTTTTACAATTTTTA
806596 TACTTTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 11 0.33
19 4 0.12
20 9 0.27
21 9 0.27
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATATTTTTACAATTTTTAA
Found at i:806648 original size:16 final size:17
Alignment explanation
Indices: 806619--806651 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
806609 ACTTTTTTAA
*
806619 ATAATTTAAGAATATAT
1 ATAATTTAAAAATATAT
806636 ATAA-TTAAAAATATAT
1 ATAATTTAAAAATATAT
806652 TTAAAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATAATTTAAAAATATAT
Found at i:806840 original size:17 final size:17
Alignment explanation
Indices: 806811--806858 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
806801 TGAGAACACT
*
806811 TTTTTAATATTTTAACAA
1 TTTTTAAT-TTTTAAAAA
806829 TTTTTAATTTTTAAAAA
1 TTTTTAATTTTTAAAAA
**
806846 TTTACAATTTTTA
1 TTTTTAATTTTTA
806859 GTGTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTAATTTTTAAAAA
Found at i:808672 original size:17 final size:17
Alignment explanation
Indices: 808638--808682 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
808628 TGTTAGCAAA
808638 TAATATTTTTATACTTT
1 TAATATTTTTATACTTT
*
808655 TAATAATTTTTAT-TTTT
1 TAAT-ATTTTTATACTTT
*
808672 TGATATTTTTA
1 TAATATTTTTA
808683 AATTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 10 0.40
18 8 0.32
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TAATATTTTTATACTTT
Found at i:809146 original size:19 final size:18
Alignment explanation
Indices: 809114--809161 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
809104 AACCTAATAA
809114 AATATTTTTT-TAATTTT
1 AATATTTTTTATAATTTT
*
809131 TATATTTTTTAATAATTTT
1 AATATTTTTT-ATAATTTT
*
809150 AATAATTTTTAT
1 AATATTTTTTAT
809162 TTTTTTGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 9 0.35
18 2 0.08
19 15 0.58
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
AATATTTTTTATAATTTT
Found at i:809484 original size:26 final size:26
Alignment explanation
Indices: 809444--809494 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
809434 CCCACTTTGA
*
809444 ATTTTTTTAATA-TTTTAATAATTTTT
1 ATTTTTTTAACATTTTTAA-AATTTTT
*
809470 ATTTTTTTGACATTTTTAAAATTTT
1 ATTTTTTTAACATTTTTAAAATTTT
809495 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (26 bp):
ATTTTTTTAACATTTTTAAAATTTTT
Found at i:809514 original size:310 final size:311
Alignment explanation
Indices: 809135--809755 Score: 1235
Period size: 310 Copynumber: 2.0 Consensus size: 311
809125 AATTTTTATA
809135 TTTTTTAATAATTTTAATAATTTTTATTTTTTTGACATTTTTAAAATTTTAAAAAATTAATTAAA
1 TTTTTTAATAATTTTAATAATTTTTATTTTTTTGACATTTTTAAAATTTTAAAAAATTAATTAAA
809200 TACTATCATGATGTCTATATGGTAATCCACATGTATATCACATCAGTAAAGTTAATATACATTAA
66 TACTATCATGATGTCTATATGGTAATCCACATGTATATCACATCAGTAAAGTTAATATACATTAA
809265 TTTTTCCATCTATTTTTGGATGACTTGACAAACATCGTAAGTTTAAGGATTAAAAGAGACGAAAA
131 TTTTTCCATCTATTTTTGGATGACTTGACAAACATCGTAAGTTTAAGGATTAAAAGAGACGAAAA
809330 ATTAAATGAAAGACTAAAATAACCTTTTCTATAAAATTGAATGACCAAAAAAATTATTGTCCTTA
196 ATTAAATGAAAGACTAAAATAACCTTTTCTATAAAATTGAATGACCAAAAAAATTATTGTCCTTA
809395 AGAAAATTTTATCTTGAAGAAAATCTAACTCTAGCTTCACCCACTTTGAAT
261 AGAAAATTTTATCTTGAAGAAAATCTAACTCTAGCTTCACCCACTTTGAAT
809446 TTTTTTAAT-ATTTTAATAATTTTTATTTTTTTGACATTTTTAAAATTTTAAAAAATTAATTAAA
1 TTTTTTAATAATTTTAATAATTTTTATTTTTTTGACATTTTTAAAATTTTAAAAAATTAATTAAA
809510 TACTATCATGATGTCTATATGGTAATCCACATGTATATCACATCAGTAAAGTTAATATACATTAA
66 TACTATCATGATGTCTATATGGTAATCCACATGTATATCACATCAGTAAAGTTAATATACATTAA
809575 TTTTTCCATCTATTTTTGGATGACTTGACAAACATCGTAAGTTTAAGGATTAAAAGAGACGAAAA
131 TTTTTCCATCTATTTTTGGATGACTTGACAAACATCGTAAGTTTAAGGATTAAAAGAGACGAAAA
809640 ATTAAATGAAAGACTAAAATAACCTTTTCTATAAAATTGAATGACCAAAAAAATTATTGTCCTTA
196 ATTAAATGAAAGACTAAAATAACCTTTTCTATAAAATTGAATGACCAAAAAAATTATTGTCCTTA
809705 AGAAAATTTTATCTTGAAGAAAATCTAACTCTAGCTTCACCCACTTTGAAT
261 AGAAAATTTTATCTTGAAGAAAATCTAACTCTAGCTTCACCCACTTTGAAT
809756 ATTACATTTT
Statistics
Matches: 310, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
310 301 0.97
311 9 0.03
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (311 bp):
TTTTTTAATAATTTTAATAATTTTTATTTTTTTGACATTTTTAAAATTTTAAAAAATTAATTAAA
TACTATCATGATGTCTATATGGTAATCCACATGTATATCACATCAGTAAAGTTAATATACATTAA
TTTTTCCATCTATTTTTGGATGACTTGACAAACATCGTAAGTTTAAGGATTAAAAGAGACGAAAA
ATTAAATGAAAGACTAAAATAACCTTTTCTATAAAATTGAATGACCAAAAAAATTATTGTCCTTA
AGAAAATTTTATCTTGAAGAAAATCTAACTCTAGCTTCACCCACTTTGAAT
Found at i:811117 original size:24 final size:24
Alignment explanation
Indices: 811081--811139 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
811071 TATTTTTTTA
811081 TTTT-TTTATTTTTAAAATATTAT
1 TTTTATTTATTTTTAAAATATTAT
*
811104 TTTTATTTATTTTTAAAATATTTT
1 TTTTATTTATTTTTAAAATATTAT
811128 TTTGTATTTATT
1 TTT-TATTTATT
811140 AAAAATCGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 4 0.12
24 21 0.64
25 8 0.24
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTTATTTATTTTTAAAATATTAT
Found at i:811129 original size:13 final size:14
Alignment explanation
Indices: 811086--811130 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
811076 TTTTATTTTT
811086 TTATTTTTAAAATA
1 TTATTTTTAAAATA
811100 TTATTTTT---AT-
1 TTATTTTTAAAATA
811110 TTATTTTTAAAATA
1 TTATTTTTAAAATA
811124 TT-TTTTT
1 TTATTTTT
811131 GTATTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
10 8 0.30
11 2 0.07
13 7 0.26
14 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTTTAAAATA
Found at i:814161 original size:24 final size:24
Alignment explanation
Indices: 814134--814187 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
814124 AATAAAAGTC
* *
814134 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
814158 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
814182 AAATAT
1 AAATAT
814188 TCTAGAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:814973 original size:23 final size:23
Alignment explanation
Indices: 814939--814987 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
814929 TTTTAAATTA
*
814939 AAAAATATTTTTAT-AATTTTCTT
1 AAAAATAATTTTATGAATTTT-TT
*
814962 AAAAATAATTTTTTGAATTTTTT
1 AAAAATAATTTTATGAATTTTTT
814985 AAA
1 AAA
814988 TTTTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
AAAAATAATTTTATGAATTTTTT
Found at i:816827 original size:2 final size:2
Alignment explanation
Indices: 816815--816850 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
816805 TTCTCCAGTG
816815 TA TA T- 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
816851 TCTATCTGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:831847 original size:23 final size:24
Alignment explanation
Indices: 831820--831864 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
831810 GAAAAATATT
831820 AAATAT-ATA-TTTTATTATTTTTA
1 AAATATAATAGTTTT-TTATTTTTA
831843 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
831865 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:831975 original size:9 final size:9
Alignment explanation
Indices: 831961--831988 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
831951 TTTTGTTACA
831961 ACAATTAAT
1 ACAATTAAT
831970 ACAATTAAT
1 ACAATTAAT
831979 ACAATTAAT
1 ACAATTAAT
831988 A
1 A
831989 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:834035 original size:2 final size:2
Alignment explanation
Indices: 834018--834063 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
834008 ATATTACATA
*
834018 AT AT AT AA AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
834059 AT AT A
1 AT AT A
834064 CATAGGTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:837044 original size:5 final size:6
Alignment explanation
Indices: 837027--837051 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
837017 AGCGCCGGTC
837027 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
837052 TCAAGCTTCG
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:841601 original size:69 final size:67
Alignment explanation
Indices: 841524--841684 Score: 297
Period size: 69 Copynumber: 2.4 Consensus size: 67
841514 TTAAATTTGA
841524 TTTT-TATAATATAAAAATAAATATTATTTTATTTTATTTATAATTTTTATTTTTACTTTTTTTA
1 TTTTGTATAATATAAAAATAAATATTATTTTATTTTATTTATAATTTTTATTTTTA--TTTTTTA
841588 TAGT
64 TAGT
841592 TTTTGTATAATATAAAAATAAATATTATTTTATTTTATTTATAATTTTTATTTTTATTTTTTATA
1 TTTTGTATAATATAAAAATAAATATTATTTTATTTTATTTATAATTTTTATTTTTATTTTTTATA
841657 GT
66 GT
841659 TTTTGTATAATATAAAAATAAATATT
1 TTTTGTATAATATAAAAATAAATATT
841685 TTATACGTAA
Statistics
Matches: 92, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
67 37 0.40
68 4 0.04
69 51 0.55
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (67 bp):
TTTTGTATAATATAAAAATAAATATTATTTTATTTTATTTATAATTTTTATTTTTATTTTTTATA
GT
Found at i:841662 original size:22 final size:24
Alignment explanation
Indices: 841550--841651 Score: 77
Period size: 23 Copynumber: 4.4 Consensus size: 24
841540 ATAAATATTA
841550 TTTTATTTTATTTATAATTTTTAT
1 TTTTATTTTATTTATAATTTTTAT
*
841574 TTTTACTTTT-TTTAT-AGTTTT-T
1 TTTTA-TTTTATTTATAATTTTTAT
* * * * *** * *
841596 GTATAATATAAAAATAAATATTA-
1 TTTTATTTTATTTATAATTTTTAT
841619 TTTTATTTTATTTATAATTTTTAT
1 TTTTATTTTATTTATAATTTTTAT
841643 TTTTATTTT
1 TTTTATTTT
841652 TTATAGTTTT
Statistics
Matches: 54, Mismatches: 19, Indels: 10
0.65 0.23 0.12
Matches are distributed among these distances:
21 2 0.04
22 6 0.11
23 23 0.43
24 19 0.35
25 4 0.07
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTATTTTATTTATAATTTTTAT
Found at i:843775 original size:20 final size:21
Alignment explanation
Indices: 843735--843773 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
843725 TTTGACATGT
843735 AATTTTTGTTTATAAATTTTG
1 AATTTTTGTTTATAAATTTTG
843756 AATTTTT-TTTA-AAATTTT
1 AATTTTTGTTTATAAATTTT
843774 TGTTACATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
AATTTTTGTTTATAAATTTTG
Found at i:865027 original size:75 final size:76
Alignment explanation
Indices: 864931--865082 Score: 288
Period size: 75 Copynumber: 2.0 Consensus size: 76
864921 ATGAAAAAAT
*
864931 TCTATCAAATCATTTTTAATATTTATTATAAAATATATTTAAAAAAAATTAAGTTAATGAAAATA
1 TCTATCAAATCATTTTTAATATTTATTATAAAATATAATTAAAAAAAATTAAGTTAATGAAAATA
864996 TTAAGTTTCAG
66 TTAAGTTTCAG
865007 TCTATCAAATC-TTTTTAATATTTATTATAAAATATAATTAAAAAAAATTAAGTTAATGAAAATA
1 TCTATCAAATCATTTTTAATATTTATTATAAAATATAATTAAAAAAAATTAAGTTAATGAAAATA
865071 TTAAGTTTCAG
66 TTAAGTTTCAG
865082 T
1 T
865083 GAATTGATTT
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 64 0.85
76 11 0.15
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (76 bp):
TCTATCAAATCATTTTTAATATTTATTATAAAATATAATTAAAAAAAATTAAGTTAATGAAAATA
TTAAGTTTCAG
Found at i:874779 original size:194 final size:193
Alignment explanation
Indices: 874450--874837 Score: 740
Period size: 194 Copynumber: 2.0 Consensus size: 193
874440 AAATGGTGGC
*
874450 ATTTTATGGCCTTCGCAAAACCTTAACGCTCTAGCAAAACACCTCATGTGCCTAAATATCTTATA
1 ATTTTATGGCCTTCGCAAAACCTTAACGCTCTAGCAAAACACCTCATGTACCTAAATATCTTATA
874515 TGGTCTTGACTTAGAATAGAATATTTGCTCTTGTTTATAAGCTGCTGGTTCTATATAATGCAGGA
66 TGGTCTTGACTTAGAATAGAATATTTGCTCTTGTTTATAAGCTGCTGGTTCTATATAATGCAGGA
874580 GAATAGAAAACAATAATTCATCCGGAGATTTGATGTCACTAATCAACTGTATTAGTCTTTACCA
131 GAATAGAAAACAATAATTCATCCGGAGATTTGATGTCACTAATCAACTGTATTAGTC-TTACCA
*
874644 ATTTTATGGCCTTCGCAAAACCTTAACGCTCTAGCAAAACATCTCATGTACCTAAATATCTTATA
1 ATTTTATGGCCTTCGCAAAACCTTAACGCTCTAGCAAAACACCTCATGTACCTAAATATCTTATA
874709 TGGTCTTGACTTAGAATAGAATATTTGCTCTTGTTTATAAGCTGCTGGTTCTATATAATGCAGGA
66 TGGTCTTGACTTAGAATAGAATATTTGCTCTTGTTTATAAGCTGCTGGTTCTATATAATGCAGGA
*
874774 GAATAGAAAACAATAATTTATCCGGAGATTTGATGTCACTAATCAACTGTATTAGTCTTACCA
131 GAATAGAAAACAATAATTCATCCGGAGATTTGATGTCACTAATCAACTGTATTAGTCTTACCA
874837 A
1 A
874838 CTTGTGAGTT
Statistics
Matches: 191, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
193 7 0.04
194 184 0.96
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (193 bp):
ATTTTATGGCCTTCGCAAAACCTTAACGCTCTAGCAAAACACCTCATGTACCTAAATATCTTATA
TGGTCTTGACTTAGAATAGAATATTTGCTCTTGTTTATAAGCTGCTGGTTCTATATAATGCAGGA
GAATAGAAAACAATAATTCATCCGGAGATTTGATGTCACTAATCAACTGTATTAGTCTTACCA
Found at i:881274 original size:27 final size:27
Alignment explanation
Indices: 881236--881337 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 27
881226 TAATAAACAT
881236 TAAAAAATTATTTTAAAAATAAAAAAA
1 TAAAAAATTATTTTAAAAATAAAAAAA
**** *
881263 TAAAAGAA-TATTTTATTTTTTTAATAAACA
1 TAAAA-AATTATTTTA--AAAATAA-AAAAA
881293 TAAAAAATTATTTTAAAAATAAAAAAA
1 TAAAAAATTATTTTAAAAATAAAAAAA
881320 TAAAAGAA-TATTTTAAAA
1 TAAAA-AATTATTTTAAAA
881338 GTATTTAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
27 31 0.53
28 7 0.12
29 5 0.08
30 16 0.27
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (27 bp):
TAAAAAATTATTTTAAAAATAAAAAAA
Found at i:881306 original size:57 final size:58
Alignment explanation
Indices: 881222--881334 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 58
881212 GCCCGGCCCA
881222 TTTTTAATAAACATTAAAAAATTATTTTAAAAATAAAAAAATAAAAGAATATTTTATT
1 TTTTTAATAAACATTAAAAAATTATTTTAAAAATAAAAAAATAAAAGAATATTTTATT
881280 TTTTTAATAAACA-TAAAAAATTATTTTAAAAATAAAAAAATAAAAGAATATTTTA
1 TTTTTAATAAACATTAAAAAATTATTTTAAAAATAAAAAAATAAAAGAATATTTTA
881335 AAAGTATTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 42 0.76
58 13 0.24
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (58 bp):
TTTTTAATAAACATTAAAAAATTATTTTAAAAATAAAAAAATAAAAGAATATTTTATT
Found at i:881354 original size:57 final size:55
Alignment explanation
Indices: 881229--881355 Score: 173
Period size: 57 Copynumber: 2.2 Consensus size: 55
881219 CCATTTTTAA
* ** *
881229 TAAACATTAAAAAATTATTTTAAAAATAAAAAAATAAAAGAATATTTTATTTTTT
1 TAAAAATTAAAAAATTATTTTAAAAATAAAAAAATAAAAGAATATTTTAAGTATT
*
881284 TAATAAACATAAAAAATTATTTTAAAAATAAAAAAATAAAAGAATATTTTAAAAGTATT
1 TAA-AAA-TTAAAAAATTATTTTAAAAATAAAAAAATAAAAGAATATTTT--AAGTATT
881343 TAAAAATTAAAAA
1 TAAAAATTAAAAA
881356 TTAAAAAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
55 3 0.05
56 2 0.03
57 47 0.76
58 3 0.05
59 7 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (55 bp):
TAAAAATTAAAAAATTATTTTAAAAATAAAAAAATAAAAGAATATTTTAAGTATT
Found at i:881361 original size:6 final size:7
Alignment explanation
Indices: 881342--881376 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
881332 TTAAAAGTAT
881342 TTAAAAA
1 TTAAAAA
881349 TTAAAAA
1 TTAAAAA
881356 TTAAAAA
1 TTAAAAA
*
881363 ATAAAAA
1 TTAAAAA
881370 -TAAAAA
1 TTAAAAA
881376 T
1 T
881377 ATATAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
TTAAAAA
Found at i:883345 original size:25 final size:25
Alignment explanation
Indices: 883316--883367 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
883306 AAAATCGGTA
*
883316 AGACATTTTCCATT-TTTCTCTAAGC
1 AGACATTTTCCATTCTCT-TCTAAGC
883341 AGACATTTTCCATTCTCTTCTAAGC
1 AGACATTTTCCATTCTCTTCTAAGC
883366 AG
1 AG
883368 TAGACATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 23 0.92
26 2 0.08
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (25 bp):
AGACATTTTCCATTCTCTTCTAAGC
Found at i:885634 original size:14 final size:14
Alignment explanation
Indices: 885615--885642 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
885605 ACAATTTATT
885615 AATATATATTAATA
1 AATATATATTAATA
885629 AATATATATTAATA
1 AATATATATTAATA
885643 TATGTAAAAA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATATATTAATA
Found at i:886991 original size:3 final size:3
Alignment explanation
Indices: 886979--887021 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
886969 TCTTTTTCGT
886979 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
887022 TCAAATAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:895376 original size:19 final size:18
Alignment explanation
Indices: 895353--895400 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
895343 AAAAAATATA
895353 TTAAAAATTTAATAAAAT
1 TTAAAAATTTAATAAAAT
*
895371 TCTAAAAA-TCATATAAAAT
1 T-TAAAAATTTA-ATAAAAT
895390 TT-AAAATTTAA
1 TTAAAAATTTAA
895401 ATTCCAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
17 5 0.20
18 6 0.24
19 14 0.56
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAAAATTTAATAAAAT
Found at i:895460 original size:75 final size:76
Alignment explanation
Indices: 895361--895511 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 76
895351 TATTAAAAAT
895361 TTAATAAAATTCTAAAAATCATATAAAATTTAAAATTTAAATTCCAAAACGATAAATTTAAGGCC
1 TTAATAAAATTCTAAAAATCATATAAAATTTAAAATTTAAATTCCAAAACGATAAATTTAAGGCC
895426 TTAAACAAACA
66 TTAAACAAACA
895437 TTAATAAAA-TCTAAAAATCATATAAAATTTAAAATTTAAATTCCAAAACGATAAATTTAAGGCC
1 TTAATAAAATTCTAAAAATCATATAAAATTTAAAATTTAAATTCCAAAACGATAAATTTAAGGCC
895501 TTAAACAAACA
66 TTAAACAAACA
895512 AATTATCAAA
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 66 0.88
76 9 0.12
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (76 bp):
TTAATAAAATTCTAAAAATCATATAAAATTTAAAATTTAAATTCCAAAACGATAAATTTAAGGCC
TTAAACAAACA
Found at i:899022 original size:74 final size:75
Alignment explanation
Indices: 898924--899074 Score: 295
Period size: 74 Copynumber: 2.0 Consensus size: 75
898914 ATAAAAATAA
898924 AAATATATAAACTAAATTTTAAATTTTCAAAAAAATACAAAACTTATAACGTATTTTAACCTTAA
1 AAATATATAAACTAAATTTTAAATTTTCAAAAAAATACAAAACTTATAACGTATTTTAACCTTAA
898989 TATTAATATT
66 TATTAATATT
898999 AAATATATAAAC-AAATTTTAAATTTTCAAAAAAATACAAAACTTATAACGTATTTTAACCTTAA
1 AAATATATAAACTAAATTTTAAATTTTCAAAAAAATACAAAACTTATAACGTATTTTAACCTTAA
899063 TATTAATATT
66 TATTAATATT
899073 AA
1 AA
899075 CATTTATTTC
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 64 0.84
75 12 0.16
ACGTcount: A:0.52, C:0.09, G:0.01, T:0.38
Consensus pattern (75 bp):
AAATATATAAACTAAATTTTAAATTTTCAAAAAAATACAAAACTTATAACGTATTTTAACCTTAA
TATTAATATT
Found at i:899054 original size:37 final size:37
Alignment explanation
Indices: 898939--899056 Score: 116
Period size: 37 Copynumber: 3.2 Consensus size: 37
898929 TATAAACTAA
898939 ATTTTAAATTTTCAAAAAAATACAAAACTTATAACGT
1 ATTTTAAATTTTCAAAAAAATACAAAACTTATAACGT
** ** ** **
898976 ATTTT-AACCTT-AATATTAATATTAAA-TATATAAACAA
1 ATTTTAAATTTTCAA-AAAAATACAAAACT-TAT-AACGT
899013 ATTTTAAATTTTCAAAAAAATACAAAACTTATAACGT
1 ATTTTAAATTTTCAAAAAAATACAAAACTTATAACGT
899050 ATTTTAA
1 ATTTTAA
899057 CCTTAATATT
Statistics
Matches: 59, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
35 3 0.05
36 15 0.25
37 23 0.39
38 15 0.25
39 3 0.05
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (37 bp):
ATTTTAAATTTTCAAAAAAATACAAAACTTATAACGT
Found at i:899268 original size:31 final size:32
Alignment explanation
Indices: 899209--899268 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
899199 TTTCATTTAC
*
899209 TTTTAAAATTCAATAAAAATATATAAACTAAA
1 TTTTAAAATTCAATAAAAATACATAAACTAAA
*
899241 TTTTAAATTTTCAA-AAAAATACA-AAACT
1 TTTTAAA-ATTCAATAAAAATACATAAACT
899269 TATAACGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 5 0.20
32 15 0.60
33 5 0.20
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTTAAAATTCAATAAAAATACATAAACTAAA
Found at i:899406 original size:227 final size:226
Alignment explanation
Indices: 898999--899423 Score: 841
Period size: 227 Copynumber: 1.9 Consensus size: 226
898989 TATTAATATT
898999 AAATATATAAACAAATTTTAAATTTTCAAAAAAATACAAAACTTATAACGTATTTTAACCTTAAT
1 AAATATATAAACAAATTTTAAATTTTCAAAAAAATACAAAACTTATAACGTATTTTAACCTTAAT
899064 ATTAATATTAACATTTATTTCAACACAATGTTTGCCATTCCAATAGGAAATTTTAGGGCTATAAT
66 ATTAATATTAACATTTATTTCAACACAATGTTTGCCATTCCAATAGGAAATTTTAGGGCTATAAT
899129 TTTCACTGCATAAATTCAGATAACTTAATGTACAACTTTAAAAAATTAAATTTTTTATTTAAAAA
131 TTTCACTGCATAAATTCAGATAACTTAATGTACAACTTTAAAAAATTAAATTTTTTATTTAAAAA
899194 TTACTTTTCATTTACTTTTAAAATTCAATAA
196 TTACTTTTCATTTACTTTTAAAATTCAATAA
899225 AAATATATAAACTAAATTTTAAATTTTCAAAAAAATACAAAACTTATAACGTATTTTAACCTTAA
1 AAATATATAAAC-AAATTTTAAATTTTCAAAAAAATACAAAACTTATAACGTATTTTAACCTTAA
899290 TATTAATATTAACATTTATTTCAACACAATGTTTGCCATTCCAATAGGAAATTTTAGGGCTATAA
65 TATTAATATTAACATTTATTTCAACACAATGTTTGCCATTCCAATAGGAAATTTTAGGGCTATAA
899355 TTTTCACTGCATAAATTCAGATAACTTAATGTACAACTTTAAAAAATTAAATTTTTTATTTAAAA
130 TTTTCACTGCATAAATTCAGATAACTTAATGTACAACTTTAAAAAATTAAATTTTTTATTTAAAA
899420 ATTA
195 ATTA
899424 TATTATTAGT
Statistics
Matches: 198, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
226 12 0.06
227 186 0.94
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (226 bp):
AAATATATAAACAAATTTTAAATTTTCAAAAAAATACAAAACTTATAACGTATTTTAACCTTAAT
ATTAATATTAACATTTATTTCAACACAATGTTTGCCATTCCAATAGGAAATTTTAGGGCTATAAT
TTTCACTGCATAAATTCAGATAACTTAATGTACAACTTTAAAAAATTAAATTTTTTATTTAAAAA
TTACTTTTCATTTACTTTTAAAATTCAATAA
Found at i:904443 original size:31 final size:32
Alignment explanation
Indices: 904402--904472 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
904392 TTAATATGAC
*
904402 ATTTGATACTTGAA-TATGACA-CTTTTACCTA
1 ATTTGGTACTTGAACT-TGACATCTTTTACCTA
* * *
904433 ATTTGGTACTTGAACTTGACATTTTTTTCTTA
1 ATTTGGTACTTGAACTTGACATCTTTTACCTA
904465 ATTTGGTA
1 ATTTGGTA
904473 TGTAATCTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 18 0.53
32 16 0.47
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.48
Consensus pattern (32 bp):
ATTTGGTACTTGAACTTGACATCTTTTACCTA
Found at i:904483 original size:32 final size:30
Alignment explanation
Indices: 904431--904509 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 30
904421 CACTTTTACC
* *
904431 TAATTTGGTACTTGAA-CTTGACATTTTTTTCT
1 TAATTTGGTA-TT-AATCTTGAC-TTATTTTCA
904463 TAATTTGGTATGTAATCTTGACTTATTTTCA
1 TAATTTGGTAT-TAATCTTGACTTATTTTCA
*
904494 CAATTTGGTATCTAAT
1 TAATTTGGTAT-TAAT
904510 TTTCTTTTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 24 0.59
32 17 0.41
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (30 bp):
TAATTTGGTATTAATCTTGACTTATTTTCA
Found at i:906762 original size:18 final size:18
Alignment explanation
Indices: 906724--906764 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
906714 TTTAATCTTG
906724 TAAA-AATTAATATAATA
1 TAAATAATTAATATAATA
906741 TAAATAATT-ATATAATA
1 TAAATAATTAATATAATA
906758 CTAAATA
1 -TAAATA
906765 CTAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAATAATTAATATAATA
Found at i:907113 original size:23 final size:25
Alignment explanation
Indices: 907086--907133 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
907076 ACCTAATGAC
* *
907086 TAAATTT-AACTTAA-AAATATATA
1 TAAATTTCAAATTAACAAAAATATA
907109 TAAATTTCAAATTAACAAAAATATA
1 TAAATTTCAAATTAACAAAAATATA
907134 AACGTACGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 6 0.29
25 8 0.38
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAATTTCAAATTAACAAAAATATA
Found at i:921267 original size:19 final size:17
Alignment explanation
Indices: 921243--921277 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
921233 ATTTGTGATA
921243 ATTTAAAATATAGATATAT
1 ATTTAAAA-ATA-ATATAT
921262 ATTTAAAAATAATATA
1 ATTTAAAAATAATATA
921278 CAATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
ATTTAAAAATAATATAT
Found at i:924141 original size:17 final size:17
Alignment explanation
Indices: 924101--924154 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
924091 TATATTTATT
924101 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
* *
924118 -CTTT--TTTT-AAATT
1 TTTTTAATTTTAAAATA
924131 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
924148 TTTTTAA
1 TTTTTAA
924155 AATACTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
16 7 0.24
17 11 0.38
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTAATTTTAAAATA
Found at i:924164 original size:31 final size:30
Alignment explanation
Indices: 924098--924176 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
924088 AAATATATTT
**
924098 ATTTTTTTAATTTTAAAATACTTTTTTTAA
1 ATTTTTTTAATTTTAAAATACTTTTTAAAA
924128 ATTTTTTTAATTTTAAAATA-TTTTTAAAA
1 ATTTTTTTAATTTTAAAATACTTTTTAAAA
*
924157 TACTTTTTTAATTTTTAAAA
1 -ATTTTTTTAA-TTTTAAAA
924177 ATAATATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 7 0.16
30 29 0.66
31 8 0.18
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTTTTTTAATTTTAAAATACTTTTTAAAA
Found at i:924186 original size:21 final size:20
Alignment explanation
Indices: 924147--924186 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
924137 ATTTTAAAAT
* *
924147 ATTTTTAAAATACTTTTTTA
1 ATTTTTAAAATAATATTTTA
924167 ATTTTTAAAAATAATATTTT
1 ATTTTT-AAAATAATATTTT
924187 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTTAAAATAATATTTTA
Found at i:926415 original size:20 final size:20
Alignment explanation
Indices: 926390--926431 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
926380 AATTGAACCA
926390 ATGGGTCCTCAAAATCTATC
1 ATGGGTCCTCAAAATCTATC
926410 ATGGGTCCTCAAAATCTATC
1 ATGGGTCCTCAAAATCTATC
926430 AT
1 AT
926432 CTATGATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (20 bp):
ATGGGTCCTCAAAATCTATC
Found at i:935100 original size:24 final size:24
Alignment explanation
Indices: 935073--935123 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
935063 CAAAGTCAAG
**
935073 TATATTATGCTAATAAATGTTAAA
1 TATATTATGCTAATAAATACTAAA
* *
935097 TATATTATTCTCATAAATACTAAA
1 TATATTATGCTAATAAATACTAAA
935121 TAT
1 TAT
935124 TCTAGAAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (24 bp):
TATATTATGCTAATAAATACTAAA
Found at i:936280 original size:82 final size:83
Alignment explanation
Indices: 936168--936332 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 83
936158 TATAAAATCT
936168 TAATTTTAATTCTAAAATTTTATAATTTTATCTCTAACCCCTTAAATAAAATCCTTAACTTTACC
1 TAATTTTAATTCTAAAATTTTATAATTTTATCTCTAACCCCTTAAATAAAATCCTTAACTTTACC
936233 CCTATCCAATTATGTAGC
66 CCTATCCAATTATGTAGC
936251 TAATTTTAA-TCTAAAATTTTATAATTTTATCTCTAACCCCTTAAATAAAATCCTTAACTTTACC
1 TAATTTTAATTCTAAAATTTTATAATTTTATCTCTAACCCCTTAAATAAAATCCTTAACTTTACC
936315 CCTATCCAATTATGTAGC
66 CCTATCCAATTATGTAGC
936333 CTTAATGTAT
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 73 0.89
83 9 0.11
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (83 bp):
TAATTTTAATTCTAAAATTTTATAATTTTATCTCTAACCCCTTAAATAAAATCCTTAACTTTACC
CCTATCCAATTATGTAGC
Found at i:940552 original size:20 final size:20
Alignment explanation
Indices: 940527--940584 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
940517 ATCAAATCGA
940527 TTAAATTATAAATATTTTAT
1 TTAAATTATAAATATTTTAT
**
940547 TTAAATTAT-AA-A-TCGA-
1 TTAAATTATAAATATTTTAT
940563 TTAAATTATAAATATTTTAT
1 TTAAATTATAAATATTTTAT
940583 TT
1 TT
940585 CATCAGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 9 0.30
17 4 0.13
18 2 0.07
19 4 0.13
20 11 0.37
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TTAAATTATAAATATTTTAT
Found at i:940567 original size:36 final size:37
Alignment explanation
Indices: 940515--940584 Score: 133
Period size: 36 Copynumber: 1.9 Consensus size: 37
940505 ATTAGATGAG
940515 TTATCAAATCGATTAAATTATAAATATTTTATTTAAA
1 TTATCAAATCGATTAAATTATAAATATTTTATTTAAA
940552 TTAT-AAATCGATTAAATTATAAATATTTTATTT
1 TTATCAAATCGATTAAATTATAAATATTTTATTT
940585 CATCAGTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 29 0.88
37 4 0.12
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (37 bp):
TTATCAAATCGATTAAATTATAAATATTTTATTTAAA
Found at i:940575 original size:16 final size:17
Alignment explanation
Indices: 940515--940574 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
940505 ATTAGATGAG
*
940515 TTATCAAATCGATTAAA
1 TTATAAAATCGATTAAA
**
940532 TTATAAATATTTTATTTAAA
1 TTATAAA-A-TCGA-TTAAA
940552 TTAT-AAATCGATTAAA
1 TTATAAAATCGATTAAA
940568 TTATAAA
1 TTATAAA
940575 TATTTTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 9 0.26
17 10 0.29
18 2 0.06
19 4 0.12
20 9 0.26
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (17 bp):
TTATAAAATCGATTAAA
Found at i:941368 original size:13 final size:14
Alignment explanation
Indices: 941342--941370 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
941332 ATCAAAACTC
941342 TTAAGAAGTTATAT
1 TTAAGAAGTTATAT
941356 TTAAGAA-TTATAT
1 TTAAGAAGTTATAT
941369 TT
1 TT
941371 TGACTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (14 bp):
TTAAGAAGTTATAT
Found at i:943167 original size:3 final size:3
Alignment explanation
Indices: 943159--943184 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
943149 GAAAACTTAC
943159 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
943185 GTCTAAGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:945031 original size:34 final size:35
Alignment explanation
Indices: 944972--945038 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
944962 CAAACACCAG
*
944972 AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAACCATTTTACAGAAAAGT
* * *
945007 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAACCATTTTACAGAAAA
945039 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAACCATTTTACAGAAAAGT
Found at i:950118 original size:104 final size:106
Alignment explanation
Indices: 950010--950453 Score: 612
Period size: 104 Copynumber: 4.2 Consensus size: 106
950000 CGAAAAAGAA
* *
950010 AAAAAAAGAAAAAAAATTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTAAACAGT-AAATTT
1 AAAAAAATAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAACAGTAAAATTT
*
950074 TTTTCCTTTTTTTTCGTGTCAGAGTCAGATATAAAAATAC-
66 TTTTCCTTTTTTTTCGTGTCAGAATCAGATATAAAAATACG
* *
950114 AAAAAAATTTAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTG
1 AAAAAAA--T--AAAAAAAA--TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAACAGTA
* *
950179 AATTTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAAATACG
60 AAATTTTTTTCCTTTTTTTTCGTGTCAGAATCAGATATAAAAATACG
*
950226 AAAAAAATAAAAAAAA-TT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAATTT
1 AAAAAAATAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAACAGTAAAA-TT
* * *
950289 TTTTTCTTTTTTTTTCGTGTAAGAATCAAATATAAAAATACG
65 TTTTTCCTTTTTTTTCGTGTCAGAATCAGATATAAAAATACG
* * * **
950331 AAAAAAATAAAAAAATTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTACACAGTAAAA-AA
1 AAAAAAATAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAACAGTAAAATTT
***
950395 AAAT-CTTTTTTTTCGTGTCAGAATCAGATATAAAAATACG
66 TTTTCCTTTTTTTTCGTGTCAGAATCAGATATAAAAATACG
950435 AAAAAAATAAAAAAAATTT
1 AAAAAAATAAAAAAAATTT
950454 TATAGGACTT
Statistics
Matches: 306, Mismatches: 23, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
104 98 0.32
105 60 0.20
106 2 0.01
107 39 0.13
108 16 0.05
110 41 0.13
111 43 0.14
112 7 0.02
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (106 bp):
AAAAAAATAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAACAGTAAAATTT
TTTTCCTTTTTTTTCGTGTCAGAATCAGATATAAAAATACG
Found at i:950721 original size:100 final size:101
Alignment explanation
Indices: 950608--950882 Score: 372
Period size: 112 Copynumber: 2.6 Consensus size: 101
950598 TCTGACACGA
*
950608 AAAAAAAATTTACTGTTCACTGGGTGCCGGCCATTGATAGGCCAACACCCAAATTTTTTTTTTTT
1 AAAAAAAATTTACTGTTCACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAATTTTTTTTTTTT
*
950673 CCTA-TTTTATATCTGATTCTGACACGAAAAAAAAG
66 CCTATTTTTATATCTGACTCTGACACGAAAAAAAAG
*
950708 AAAAAAAATTTACTGTTCACTGGGTGCCGGCCACTGATAGGCCAGCACCCAAAAAAAATTTTTTT
1 AAAAAAAATTTACTGTTCACTGGGTGCCGGCCATTGATAGGCCAGCACCC-----AAA---TTTT
*
950773 AAATTTTTTTTCGTATTTTTATATCTGACTCTGACACGAAAAAAAAG
58 ---TTTTTTTTCCTATTTTTATATCTGACTCTGACACGAAAAAAAAG
* * * *
950820 AAAAAAAATTTACTGTTTACTGGGTGCCGGCCATTAACAGGCCAGCACCCAAATTGTTTTTTT
1 AAAAAAAATTTACTGTTCACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAATTTTTTTTTT
950883 CTTTTTCGTA
Statistics
Matches: 154, Mismatches: 9, Indels: 23
0.83 0.05 0.12
Matches are distributed among these distances:
100 48 0.31
101 6 0.04
104 3 0.02
105 3 0.02
107 3 0.02
108 4 0.03
111 11 0.07
112 76 0.49
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (101 bp):
AAAAAAAATTTACTGTTCACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAATTTTTTTTTTTT
CCTATTTTTATATCTGACTCTGACACGAAAAAAAAG
Found at i:954191 original size:20 final size:20
Alignment explanation
Indices: 954148--954191 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
954138 ACTTAATAAT
* *
954148 AAAATGTTCATAACATTATA
1 AAAATGTTCATAAAATTAAA
954168 AAAATAGTT-ATAAAATTAAA
1 AAAAT-GTTCATAAAATTAAA
954188 AAAA
1 AAAA
954192 AATAGCAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAATGTTCATAAAATTAAA
Found at i:963159 original size:16 final size:16
Alignment explanation
Indices: 963138--963176 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
963128 TGGTCATAGC
963138 TTTCATCTAT-TTACTT
1 TTTCAT-TATATTACTT
*
963154 TTTCATTATATTTCTT
1 TTTCATTATATTACTT
963170 TTTCATT
1 TTTCATT
963177 TCTTCAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTCATTATATTACTT
Found at i:970779 original size:13 final size:13
Alignment explanation
Indices: 970761--970788 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
970751 TTTGGTTTCC
970761 ATACTTAAGCTTG
1 ATACTTAAGCTTG
970774 ATACTTAAGCTTG
1 ATACTTAAGCTTG
970787 AT
1 AT
970789 TTGTTAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATACTTAAGCTTG
Found at i:974698 original size:23 final size:23
Alignment explanation
Indices: 974670--974714 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
974660 TTATTTCAAT
* *
974670 TTTTGGTCAGTTTGGATGATTAA
1 TTTTGGTCACTTTGGATAATTAA
974693 TTTTGGTCACTTTGGATAATTA
1 TTTTGGTCACTTTGGATAATTA
974715 TGGTTTGGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.49
Consensus pattern (23 bp):
TTTTGGTCACTTTGGATAATTAA
Found at i:976791 original size:4 final size:4
Alignment explanation
Indices: 976782--976815 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
976772 GCAGCATGCC
976782 GGAG GGAG GGAG GGAG GGAG GGAG AGGAG GGAG G
1 GGAG GGAG GGAG GGAG GGAG GGAG -GGAG GGAG G
976816 TGTGGAGGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (4 bp):
GGAG
Found at i:980721 original size:29 final size:29
Alignment explanation
Indices: 980688--980756 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
980678 TGTTTTTTTT
980688 AAATTTTAAAAATATTAAAAAAA-TCATAA
1 AAATTTTAAAAA-ATTAAAAAAAGTCATAA
* * *
980717 AAATTATAAACAACTTAAAAAAAGTTATAA
1 AAATTTTAAA-AAATTAAAAAAAGTCATAA
980747 AAA-TTTAAAA
1 AAATTTTAAAA
980757 TTATAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 1 0.03
29 23 0.68
30 10 0.29
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (29 bp):
AAATTTTAAAAAATTAAAAAAAGTCATAA
Found at i:980739 original size:21 final size:20
Alignment explanation
Indices: 980715--980756 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
980705 AAAAAATCAT
980715 AAAAATTATAAACAACTTAAA
1 AAAAATTATAAA-AACTTAAA
* *
980736 AAAAGTTATAAAAATTTAAA
1 AAAAATTATAAAAACTTAAA
980756 A
1 A
980757 TTATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAATTATAAAAACTTAAA
Found at i:985392 original size:19 final size:19
Alignment explanation
Indices: 985355--985394 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
985345 ATAAGTAACT
*
985355 AAATATTTAAAATTCATAA
1 AAATATTTAAAAGTCATAA
985374 AAATATTTAAAAAGT-ATAA
1 AAATATTT-AAAAGTCATAA
985393 AA
1 AA
985395 GGAATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATATTTAAAAGTCATAA
Found at i:988920 original size:18 final size:18
Alignment explanation
Indices: 988886--988921 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
988876 ATCTATTTTA
*
988886 GATATGATATCGGAAATT
1 GATATGATATCGAAAATT
*
988904 GATATGATATTGAAAATT
1 GATATGATATCGAAAATT
988922 AAAAGAGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.36
Consensus pattern (18 bp):
GATATGATATCGAAAATT
Found at i:988937 original size:59 final size:58
Alignment explanation
Indices: 988845--988959 Score: 187
Period size: 59 Copynumber: 2.0 Consensus size: 58
988835 ATTCATTTTA
* *
988845 GATATTATATTGAAAATTAAAAGATCTAAATATCTATTTTAGATATGATATCGGAAATT
1 GATATGATATTGAAAATTAAAAGATCTAAATATCCATTTTAGATATGATAT-GGAAATT
988904 GATATGATATTGAAAATTAAAAGAGT-TAAATATCCATTTTAGATATGATATGGAAA
1 GATATGATATTGAAAATTAAAAGA-TCTAAATATCCATTTTAGATATGATATGGAAA
988960 CTAAAATATG
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
58 5 0.09
59 47 0.89
60 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.37
Consensus pattern (58 bp):
GATATGATATTGAAAATTAAAAGATCTAAATATCCATTTTAGATATGATATGGAAATT
Found at i:995175 original size:36 final size:37
Alignment explanation
Indices: 995135--995230 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
995125 GTCTCCAAAT
*
995135 TCACATTTCAATTCAATTTCACTTTTTCATTTTCAA-
1 TCACATTTCAATTCAATTTCACTTTTCCATTTTCAAG
* * *
995171 TCACAATCCAATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACATTTCAATTC-AATTTCACTTTTCCATTTTCAAG
*
995209 TCA-ATATTCATTTCAATTTCAC
1 TCACAT-TTCAATTCAATTTCAC
995231 ACATATATTC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
36 12 0.24
37 28 0.57
38 9 0.18
ACGTcount: A:0.31, C:0.24, G:0.01, T:0.44
Consensus pattern (37 bp):
TCACATTTCAATTCAATTTCACTTTTCCATTTTCAAG
Found at i:1000275 original size:6 final size:7
Alignment explanation
Indices: 1000253--1000278 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1000243 GTATTATTTA
1000253 TTTAATT
1 TTTAATT
1000260 TTTAATT
1 TTTAATT
1000267 TTTAATT
1 TTTAATT
1000274 TTTAA
1 TTTAA
1000279 ATACGATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTAATT
Found at i:1000612 original size:31 final size:31
Alignment explanation
Indices: 1000567--1000641 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
1000557 ATTTATTTAA
* *
1000567 ATGTGTATAATTGAATCATAATCAAAATTTC
1 ATGTGTACAATTGAACCATAATCAAAATTTC
* * *
1000598 ATGTGTACACTTGAACCATGATCAAAGTTTC
1 ATGTGTACAATTGAACCATAATCAAAATTTC
*
1000629 ATGTGTATAATTG
1 ATGTGTACAATTG
1000642 TATAAAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (31 bp):
ATGTGTACAATTGAACCATAATCAAAATTTC
Found at i:1001905 original size:18 final size:19
Alignment explanation
Indices: 1001866--1001905 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1001856 AAGGTATAAT
* *
1001866 ATTAAATTTTTAAAATTTA
1 ATTAAAATTTTAAAAGTTA
1001885 ATTAAAATTTT-AAAGTTA
1 ATTAAAATTTTAAAAGTTA
1001903 ATT
1 ATT
1001906 TGGATAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
ATTAAAATTTTAAAAGTTA
Found at i:1005799 original size:29 final size:30
Alignment explanation
Indices: 1005760--1005816 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
1005750 TGTTTTAACG
1005760 TGTAATATTATATA-TAAATTTTAATATTA
1 TGTAATATTATATATTAAATTTTAATATTA
* *
1005789 TGTAATTTTATATATTAAATTTTGATAT
1 TGTAATATTATATATTAAATTTTAATAT
1005817 AATTCAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.54
Consensus pattern (30 bp):
TGTAATATTATATATTAAATTTTAATATTA
Found at i:1005826 original size:30 final size:29
Alignment explanation
Indices: 1005760--1005827 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
1005750 TGTTTTAACG
* *
1005760 TGTAATATTATATATAAATTTTAATATTA
1 TGTAATTTTATATATAAATTTTAATATAA
*
1005789 TGTAATTTTATATATTAAATTTTGATATAA
1 TGTAATTTTATATA-TAAATTTTAATATAA
1005819 T-TCAATTTT
1 TGT-AATTTT
1005828 CGTAATTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 14 0.41
30 20 0.59
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (29 bp):
TGTAATTTTATATATAAATTTTAATATAA
Found at i:1005827 original size:16 final size:14
Alignment explanation
Indices: 1005767--1005827 Score: 54
Period size: 16 Copynumber: 4.1 Consensus size: 14
1005757 ACGTGTAATA
1005767 TTATATA-TAAATT
1 TTATATATTAAATT
1005780 TTA-ATATTATGTAATT
1 TTATATATTA---AATT
1005796 TTATATATTAAATT
1 TTATATATTAAATT
*
1005810 TTGATATAATTCAATT
1 TT-ATAT-ATTAAATT
1005826 TT
1 TT
1005828 CGTAATTATC
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
12 3 0.08
13 5 0.12
14 6 0.15
15 4 0.10
16 16 0.40
17 6 0.15
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATATATTAAATT
Found at i:1013659 original size:31 final size:28
Alignment explanation
Indices: 1013614--1013670 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 28
1013604 AATTTGGCTT
1013614 TTATTTGAGCATTTTCGAAAAGGCTTAGCCC
1 TTATTTGAGCATTTT-G-AAAGG-TTAGCCC
1013645 TTATTTGA-CTATTTTGAAAGGTTAGC
1 TTATTTGAGC-ATTTTGAAAGGTTAGC
1013671 TGTCCAAGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 5 0.20
29 5 0.20
30 2 0.08
31 13 0.52
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (28 bp):
TTATTTGAGCATTTTGAAAGGTTAGCCC
Found at i:1014507 original size:20 final size:19
Alignment explanation
Indices: 1014480--1014517 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1014470 GTTATATTAA
*
1014480 AATAATATTATATATATGT
1 AATAATATCATATATATGT
1014499 AATACATATCATATATATG
1 AATA-ATATCATATATATG
1014518 GGTTAGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (19 bp):
AATAATATCATATATATGT
Found at i:1021411 original size:20 final size:20
Alignment explanation
Indices: 1021374--1021418 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
1021364 ACCTCCTCTC
**
1021374 AAAAATACCATTTTC-TTTT
1 AAAAATACCATTACCTTTTT
1021393 AAAAACTACCATTACCTTTTT
1 AAAAA-TACCATTACCTTTTT
1021414 AAAAA
1 AAAAA
1021419 AATTATCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 9 0.41
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATACCATTACCTTTTT
Found at i:1022332 original size:7 final size:7
Alignment explanation
Indices: 1022320--1022352 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
1022310 AAAATTTCAA
1022320 TTTTGCT
1 TTTTGCT
1022327 TTTTGCT
1 TTTTGCT
1022334 TTTTGCT
1 TTTTGCT
1022341 TTTTGCT
1 TTTTGCT
1022348 TTTTG
1 TTTTG
1022353 GTCCACCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.73
Consensus pattern (7 bp):
TTTTGCT
Found at i:1023109 original size:29 final size:29
Alignment explanation
Indices: 1023055--1023110 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
1023045 ATATGATCAG
* *
1023055 TAAAATTTAAGGATATAATTAGAATATTT
1 TAAAATTTAAGGACATAATTAAAATATTT
*
1023084 TAAAATTTAAGGACCA-ATTTAAAATAT
1 TAAAATTTAAGGA-CATAATTAAAATAT
1023111 GAAACATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 22 0.96
30 1 0.04
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.38
Consensus pattern (29 bp):
TAAAATTTAAGGACATAATTAAAATATTT
Found at i:1035856 original size:19 final size:19
Alignment explanation
Indices: 1035799--1035857 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
1035789 TTTTGGTACG
1035799 ATAATTTTTTTACGAATTT
1 ATAATTTTTTTACGAATTT
*
1035818 AT-ATTTTTTTAC-ATTTTTT
1 ATAATTTTTTTACGA--ATTT
* *
1035837 ATAATTTTCTTACGACTTT
1 ATAATTTTTTTACGAATTT
1035856 AT
1 AT
1035858 GAAATTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 1 0.03
18 10 0.30
19 12 0.36
20 9 0.27
21 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.61
Consensus pattern (19 bp):
ATAATTTTTTTACGAATTT
Found at i:1035923 original size:20 final size:19
Alignment explanation
Indices: 1035899--1035949 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
1035889 ATTTTGTTTG
1035899 ATTTTTATAAAATTTTACC
1 ATTTTTATAAAATTTTACC
*** *
1035918 ATTTTTTATATTTTTTTACG
1 A-TTTTTATAAAATTTTACC
1035938 ATTTTTATAAAA
1 ATTTTTATAAAA
1035950 AAATAGTTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTTTTATAAAATTTTACC
Found at i:1036006 original size:23 final size:27
Alignment explanation
Indices: 1035956--1036010 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 27
1035946 AAAAAAATAG
1035956 TTTTTAATAAATTTTAAGTATTTTTAT
1 TTTTTAATAAATTTTAAGTATTTTTAT
1035983 TTTTTAATAAA-TTT-A-T-TTTTTAT
1 TTTTTAATAAATTTTAAGTATTTTTAT
1036006 TTTTT
1 TTTTT
1036011 TTGCCACATG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 12 0.43
24 1 0.04
25 1 0.04
26 3 0.11
27 11 0.39
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTTAATAAATTTTAAGTATTTTTAT
Found at i:1036654 original size:19 final size:17
Alignment explanation
Indices: 1036617--1036655 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1036607 ATTTTTTTAC
*
1036617 TTTTTATTTTTTGAATA
1 TTTTTATTTTTTAAATA
1036634 TTTTTATATTTTTAAATTA
1 TTTTTAT-TTTTTAAA-TA
1036653 TTT
1 TTT
1036656 GTTGATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 7 0.37
19 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTTATTTTTTAAATA
Found at i:1046524 original size:15 final size:15
Alignment explanation
Indices: 1046504--1046535 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1046494 CTGTAATTTT
1046504 CTCCTAATACATATA
1 CTCCTAATACATATA
1046519 CTCCTAATACATATA
1 CTCCTAATACATATA
1046534 CT
1 CT
1046536 TTTTTCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (15 bp):
CTCCTAATACATATA
Found at i:1061229 original size:21 final size:21
Alignment explanation
Indices: 1061205--1061246 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1061195 CAATAATATT
*
1061205 TTAATCAG-TTTAAGAATTTAA
1 TTAAACAGTTTTAA-AATTTAA
*
1061226 TTAAACTGTTTTAAAATTTAA
1 TTAAACAGTTTTAAAATTTAA
1061247 GGATGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
TTAAACAGTTTTAAAATTTAA
Found at i:1062457 original size:26 final size:25
Alignment explanation
Indices: 1062427--1062485 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
1062417 TATTCGATTG
*
1062427 ATTTAAAGTAAATAAATTA-TTAAAAA
1 ATTTAAACT-AAT-AATTATTTAAAAA
1062453 ATTTAAAACTAATAATTATTTAAAAA
1 ATTT-AAACTAATAATTATTTAAAAA
*
1062479 ATATAAA
1 ATTTAAA
1062486 TTTTTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 8 0.28
26 17 0.59
27 4 0.14
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (25 bp):
ATTTAAACTAATAATTATTTAAAAA
Found at i:1072185 original size:18 final size:19
Alignment explanation
Indices: 1072153--1072188 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1072143 GACAAAAAGA
*
1072153 AAATGAGGACGAGCAAAAC
1 AAATGAGGACAAGCAAAAC
1072172 AAAT-AGGACAAGCAAAA
1 AAATGAGGACAAGCAAAA
1072189 GTCTCATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.58, C:0.14, G:0.22, T:0.06
Consensus pattern (19 bp):
AAATGAGGACAAGCAAAAC
Found at i:1076415 original size:4 final size:4
Alignment explanation
Indices: 1076406--1076447 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
1076396 GCAGGAAGGT
1076406 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1076448 GTATATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:1079676 original size:37 final size:38
Alignment explanation
Indices: 1079618--1079702 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 38
1079608 TAAAAAATAT
* *
1079618 TTATATTAAAAAATACCATAAATAAAATAAATGCTTTA
1 TTATATTAAAAAACACAATAAATAAAATAAATGCTTTA
* *
1079656 TTATATTAAAAAACA-AATAAATATAATAAATGTTTTA
1 TTATATTAAAAAACACAATAAATAAAATAAATGCTTTA
*
1079693 TTGTATTAAA
1 TTATATTAAA
1079703 TATAATTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 28 0.67
38 14 0.33
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (38 bp):
TTATATTAAAAAACACAATAAATAAAATAAATGCTTTA
Found at i:1083256 original size:114 final size:115
Alignment explanation
Indices: 1083123--1083352 Score: 453
Period size: 114 Copynumber: 2.0 Consensus size: 115
1083113 TTTTTTTTAT
1083123 ATATATTTAGAATTTAATTTCTTATTTTATTTTTAAAATTTTAATTTATGTATAATATTTGAAAA
1 ATATATTTAGAATTTAATTTCTTATTTTATTTTTAAAATTTTAATTTATGTATAATATTTGAAAA
1083188 TTAAAAACATTCATTCGAAAGTCATGTAATAAAAAAATAGCATTATAATA
66 TTAAAAACATTCATTCGAAAGTCATGTAATAAAAAAATAGCATTATAATA
1083238 ATATATTTAG-ATTTAATTTCTTATTTTATTTTTAAAATTTTAATTTATGTATAATATTTGAAAA
1 ATATATTTAGAATTTAATTTCTTATTTTATTTTTAAAATTTTAATTTATGTATAATATTTGAAAA
1083302 TTAAAAACATTCATTCGAAAGTCATGTAATAAAAAAATAGCATTATAATA
66 TTAAAAACATTCATTCGAAAGTCATGTAATAAAAAAATAGCATTATAATA
1083352 A
1 A
1083353 ACCTAAATTT
Statistics
Matches: 115, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 105 0.91
115 10 0.09
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (115 bp):
ATATATTTAGAATTTAATTTCTTATTTTATTTTTAAAATTTTAATTTATGTATAATATTTGAAAA
TTAAAAACATTCATTCGAAAGTCATGTAATAAAAAAATAGCATTATAATA
Found at i:1089064 original size:16 final size:16
Alignment explanation
Indices: 1089043--1089074 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1089033 AATAAATAAT
*
1089043 ATCAAAATCAATTATA
1 ATCAAAATCAAGTATA
1089059 ATCAAAATCAAGTATA
1 ATCAAAATCAAGTATA
1089075 GTGAAGTACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.28
Consensus pattern (16 bp):
ATCAAAATCAAGTATA
Found at i:1091065 original size:2 final size:2
Alignment explanation
Indices: 1091060--1091089 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1091050 CGCTTTTTTC
1091060 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1091090 TGCTATCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1103968 original size:31 final size:31
Alignment explanation
Indices: 1103933--1103996 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
1103923 TTACAAAATG
* *
1103933 GTCACTAAGTTATTCTAAAATTCTCATTTAA
1 GTCACTAAATTATTCGAAAATTCTCATTTAA
* * *
1103964 GTCACTAAATTATTCGAAAGTTTTTATTTAA
1 GTCACTAAATTATTCGAAAATTCTCATTTAA
1103995 GT
1 GT
1103997 TATTAGATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (31 bp):
GTCACTAAATTATTCGAAAATTCTCATTTAA
Found at i:1106126 original size:2 final size:2
Alignment explanation
Indices: 1106119--1106144 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1106109 TCAAGTTCCA
1106119 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1106145 GCAACAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1108809 original size:3 final size:3
Alignment explanation
Indices: 1108801--1108832 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1108791 ACTTATGCAT
1108801 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1108833 CCAGTTTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1115740 original size:16 final size:16
Alignment explanation
Indices: 1115698--1115742 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
1115688 TTTAGGTTAG
* *
1115698 ATCATTTCGAATTCTA
1 ATCACTTCGAGTTCTA
1115714 ATCACTTCGAGTTCTA
1 ATCACTTCGAGTTCTA
1115730 ATCACTTCGAGTT
1 ATCACTTCGAGTT
1115743 AGGACGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (16 bp):
ATCACTTCGAGTTCTA
Found at i:1120723 original size:90 final size:91
Alignment explanation
Indices: 1120593--1120775 Score: 359
Period size: 90 Copynumber: 2.0 Consensus size: 91
1120583 ATAAATTTAA
1120593 AAAATATAATACATTAAATACACCAAAAATATTAAAGTAAATGTTTCTCAACAAATTGAAAATAA
1 AAAATATAATACATTAAATACACCAAAAATATTAAAGTAAATGTTTCTCAACAAATTGAAAATAA
1120658 AATTTTAAAATACTTTATACTTAAAT
66 AATTTTAAAATACTTTATACTTAAAT
1120684 AAAATATAAT-CATTAAATACACCAAAAATATTAAAGTAAATGTTTCTCAACAAATTGAAAATAA
1 AAAATATAATACATTAAATACACCAAAAATATTAAAGTAAATGTTTCTCAACAAATTGAAAATAA
1120748 AATTTTAAAATACTTTATACTTAAAT
66 AATTTTAAAATACTTTATACTTAAAT
1120774 AA
1 AA
1120776 CACTAAGATA
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 82 0.89
91 10 0.11
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (91 bp):
AAAATATAATACATTAAATACACCAAAAATATTAAAGTAAATGTTTCTCAACAAATTGAAAATAA
AATTTTAAAATACTTTATACTTAAAT
Found at i:1150231 original size:73 final size:71
Alignment explanation
Indices: 1150092--1150243 Score: 178
Period size: 73 Copynumber: 2.1 Consensus size: 71
1150082 CCAGAATGCC
* *
1150092 GCACGCGCGCATATCCCAATTCGGTGCCAATTTTAACTTTCCGCCAATTGCATTACACCAATCGT
1 GCACGCGCGCATATCCCAATTCGGTGCCAATATTAACTTTCCGCCAATTGCATTACACCAAGCGT
*
1150157 GAAGTC
66 GAAGTA
* * * * * * ** *
1150163 TCACGCGCGCATCTCCCGAATTTTGGTGCCAATATTATCTTTCCTCTAATTGCATTATGCCACGC
1 GCACGCGCGCATATCCC-AA-TTCGGTGCCAATATTAACTTTCCGCCAATTGCATTACACCAAGC
1150228 GTGAAGTA
64 GTGAAGTA
1150236 GCACGCGC
1 GCACGCGC
1150244 AATGGTTAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
71 15 0.23
72 2 0.03
73 49 0.74
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (71 bp):
GCACGCGCGCATATCCCAATTCGGTGCCAATATTAACTTTCCGCCAATTGCATTACACCAAGCGT
GAAGTA
Found at i:1155322 original size:24 final size:24
Alignment explanation
Indices: 1155267--1155325 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
1155257 AAAGACAGTC
* *
1155267 ACAGCTGCAGCCACAGTCACATCT
1 ACAGCAGCAGCCACAGCCACATCT
* * * *
1155291 TCAACAGCAGCCTCAGCCACCTCT
1 ACAGCAGCAGCCACAGCCACATCT
1155315 ACAGCAGCAGC
1 ACAGCAGCAGC
1155326 AGCAGCAGCA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.41, G:0.17, T:0.14
Consensus pattern (24 bp):
ACAGCAGCAGCCACAGCCACATCT
Found at i:1159616 original size:24 final size:24
Alignment explanation
Indices: 1159567--1159616 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
1159557 CCAATTTTTC
*
1159567 TTAAAAAAGAAAAAGTTATATGCT
1 TTAAAAAAGAAAAAGTTATATCCT
1159591 TTAATAAAAG-AAAAGATTATA-CCT
1 TTAA-AAAAGAAAAAG-TTATATCCT
1159615 TT
1 TT
1159617 GAGTGGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (24 bp):
TTAAAAAAGAAAAAGTTATATCCT
Found at i:1160663 original size:29 final size:31
Alignment explanation
Indices: 1160630--1160741 Score: 122
Period size: 31 Copynumber: 3.7 Consensus size: 31
1160620 ACTCTTTTTT
* *
1160630 TTAAACAAAAACTTT-AACA-A-TCCAATACC
1 TTAAATAAAAACTTTCAA-ATAGTCCAATAAC
*
1160659 TTAAATAAAAACTTTCAAATAGTTCAATAAC
1 TTAAATAAAAACTTTCAAATAGTCCAATAAC
**
1160690 TTAAATAAAAACTTTCAAATAGTTTAATAAC
1 TTAAATAAAAACTTTCAAATAGTCCAATAAC
* * *
1160721 TTAAGTGAAAACTTTCGAATA
1 TTAAATAAAAACTTTCAAATA
1160742 ATTCAATGAT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
29 15 0.21
30 3 0.04
31 55 0.75
ACGTcount: A:0.50, C:0.14, G:0.04, T:0.31
Consensus pattern (31 bp):
TTAAATAAAAACTTTCAAATAGTCCAATAAC
Found at i:1160693 original size:31 final size:31
Alignment explanation
Indices: 1160652--1160748 Score: 140
Period size: 31 Copynumber: 3.1 Consensus size: 31
1160642 TTTAACAATC
*
1160652 CAATACCTTAAATAAAAACTTTCAAATAGTT
1 CAATAACTTAAATAAAAACTTTCAAATAGTT
1160683 CAATAACTTAAATAAAAACTTTCAAATAGTT
1 CAATAACTTAAATAAAAACTTTCAAATAGTT
* * * * *
1160714 TAATAACTTAAGTGAAAACTTTCGAATAATT
1 CAATAACTTAAATAAAAACTTTCAAATAGTT
1160745 CAAT
1 CAAT
1160749 GATCATTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.33
Consensus pattern (31 bp):
CAATAACTTAAATAAAAACTTTCAAATAGTT
Found at i:1164761 original size:44 final size:44
Alignment explanation
Indices: 1164711--1164796 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
1164701 TTTGACTCGG
1164711 TTTTATGAGATCGAGATCTCGATACCTTATTTTTACCCAATTGT
1 TTTTATGAGATCGAGATCTCGATACCTTATTTTTACCCAATTGT
1164755 TTTTATGAGATCGAGATCTCGATACCTTATTTTTACCCAATT
1 TTTTATGAGATCGAGATCTCGATACCTTATTTTTACCCAATT
1164797 TCTTCAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (44 bp):
TTTTATGAGATCGAGATCTCGATACCTTATTTTTACCCAATTGT
Found at i:1174078 original size:20 final size:21
Alignment explanation
Indices: 1174036--1174080 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
1174026 CCATAATTTT
**
1174036 AATTAAGTTAATTTGTATTAA
1 AATTAAGTTAATTTGTAAAAA
*
1174057 AATTAA-TTAATTTTTAAAAA
1 AATTAAGTTAATTTGTAAAAA
1174077 AATT
1 AATT
1174081 GAAATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
AATTAAGTTAATTTGTAAAAA
Done.