Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold401
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: 1910012
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 6 of 13
Found at i:781885 original size:2 final size:2
Alignment explanation
Indices: 781873--781902 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
781863 GCTTAATGTT
*
781873 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
781903 GGAATAAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:782911 original size:16 final size:16
Alignment explanation
Indices: 782887--782918 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
782877 ATTAAAAATT
*
782887 TTTATTTTAATTTAAA
1 TTTAATTTAATTTAAA
782903 TTTAATTTAATTTAAA
1 TTTAATTTAATTTAAA
782919 ATATGGATAG
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTAATTTAATTTAAA
Found at i:789218 original size:23 final size:24
Alignment explanation
Indices: 789192--789237 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
789182 TTGATTATAT
789192 TTTAATAAGTA-AAAATAT-TTAAA
1 TTTAATAA-TATAAAATATATTAAA
*
789215 TTTAATTATATAAAATATATTAA
1 TTTAATAATATAAAATATATTAA
789238 TATTAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 14 0.70
24 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTTAATAATATAAAATATATTAAA
Found at i:790279 original size:6 final size:6
Alignment explanation
Indices: 790248--790307 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
790238 TGGGATGAAG
*
790248 AATTTA AATATTA AATTT- AA-TT- AATTTA AATTTA AA-AT- AATTTA
1 AATTTA AAT-TTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
790292 AATTCA AATTTA AATT
1 AATTTA AATTTA AATT
790308 ATCTTAATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
4 6 0.13
5 6 0.13
6 27 0.60
7 6 0.13
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (6 bp):
AATTTA
Found at i:790290 original size:16 final size:15
Alignment explanation
Indices: 790248--790300 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 15
790238 TGGGATGAAG
790248 AATTTAAAT-A-TTA
1 AATTTAAATAATTTA
*
790261 AATTTAATTAATTTA
1 AATTTAAATAATTTA
790276 AATTTAAAATAATTTA
1 AATTT-AAATAATTTA
*
790292 AATTCAAAT
1 AATTTAAAT
790301 TTAAATTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.24
14 1 0.03
15 12 0.35
16 13 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTAAATAATTTA
Found at i:790295 original size:22 final size:21
Alignment explanation
Indices: 790248--790306 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
790238 TGGGATGAAG
*
790248 AATTTAAATATTAAATTTAATT
1 AATTTAAAT-TTAAATATAATT
790270 AATTTAAATTTAAA-ATAATTT
1 AATTTAAATTTAAATATAA-TT
*
790291 AAATTCAAATTTAAAT
1 -AATTTAAATTTAAAT
790307 TATCTTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 3 0.09
21 7 0.22
22 22 0.69
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTTAAATTTAAATATAATT
Found at i:790306 original size:21 final size:22
Alignment explanation
Indices: 790268--790320 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
790258 TTAAATTTAA
*
790268 TTAATTTAAATTTAAAATAAT-
1 TTAATTCAAATTTAAAATAATC
*
790289 TTAAATTCAAATTT-AAATTATC
1 TT-AATTCAAATTTAAAATAATC
790311 TTAATTCAAA
1 TTAATTCAAA
790321 ACCAAACTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAATTCAAATTTAAAATAATC
Found at i:790519 original size:13 final size:13
Alignment explanation
Indices: 790501--790567 Score: 54
Period size: 12 Copynumber: 5.3 Consensus size: 13
790491 TATTTGTGAA
790501 TTAAATTATTTAT
1 TTAAATTATTTAT
*
790514 TTAAATTATAT-T
1 TTAAATTATTTAT
790526 TTAAATATAATATT-T
1 TTAAAT-T-AT-TTAT
*
790541 TTAAA-T-TTAAT
1 TTAAATTATTTAT
790552 TTAAATTA-TTAT
1 TTAAATTATTTAT
790564 TTAA
1 TTAA
790568 TAATTCAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
10 1 0.02
11 7 0.16
12 15 0.34
13 12 0.27
14 2 0.05
15 7 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTAAATTATTTAT
Found at i:790534 original size:11 final size:12
Alignment explanation
Indices: 790501--790565 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 12
790491 TATTTGTGAA
*
790501 TTAAATTATTTAT
1 TTAAATTATAT-T
790514 TTAAATTATATT
1 TTAAATTATATT
790526 TTAAATATAATATTT
1 TTAAAT-T-ATA-TT
*
790541 TTAAATT-TAAT
1 TTAAATTATATT
790552 TTAAATTATTATT
1 TTAAATTA-TATT
790565 T
1 T
790566 AATAATTCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
11 8 0.18
12 9 0.20
13 15 0.34
14 4 0.09
15 8 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTAAATTATATT
Found at i:790572 original size:25 final size:25
Alignment explanation
Indices: 790501--790572 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
790491 TATTTGTGAA
*
790501 TTAAATTATTTATTTA-AATTATATT
1 TTAAATTA-TTATTTATAATTATAAT
* *
790526 TTAAATATAATATTTTTAAATT-TAAT
1 TTAAAT-TATTATTTAT-AATTATAAT
790552 TTAAATTATTATTTAATAATT
1 TTAAATTATTATTT-ATAATT
790573 CAAATATTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
25 22 0.58
26 12 0.32
27 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAAATTATTATTTATAATTATAAT
Found at i:800702 original size:20 final size:21
Alignment explanation
Indices: 800658--800702 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
800648 GCATTGGCTG
* *
800658 AATTTAAATGAATTTTTTTTT
1 AATTTAAATGAATTATTTATT
*
800679 AATTTAAAT-TATTATTTATT
1 AATTTAAATGAATTATTTATT
800699 AATT
1 AATT
800703 AAAAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
AATTTAAATGAATTATTTATT
Found at i:800733 original size:27 final size:28
Alignment explanation
Indices: 800681--800733 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
800671 TTTTTTTTAA
* *
800681 TTTAAATTATTATTTATTAATTAAAAAT
1 TTTAAATTATAATTTATTAATAAAAAAT
800709 TTTAAATTA-AATTTAATT-ATAAAAA
1 TTTAAATTATAATTT-ATTAATAAAAA
800734 TATAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TTTAAATTATAATTTATTAATAAAAAAT
Found at i:800999 original size:28 final size:28
Alignment explanation
Indices: 800963--801031 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
800953 TTTTTATTTG
* *
800963 ATTTGTAAAATTAAATTTTACATAAAAT
1 ATTTATAAAATTAAATTTAACATAAAAT
* * *
800991 TTTTATAAATTTAAATTTAATATAAAAT
1 ATTTATAAAATTAAATTTAACATAAAAT
*
801019 ATTTA-AATATTAA
1 ATTTATAAAATTAA
801032 TATAAAATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 6 0.18
28 27 0.82
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
ATTTATAAAATTAAATTTAACATAAAAT
Found at i:801024 original size:20 final size:21
Alignment explanation
Indices: 800999--801039 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
800989 ATTTTTATAA
800999 ATTTAAAT-TTAATATAAAAT
1 ATTTAAATATTAATATAAAAT
801019 ATTTAAATATTAATATAAAAT
1 ATTTAAATATTAATATAAAAT
801040 TAATATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTAAATATTAATATAAAAT
Found at i:801052 original size:19 final size:17
Alignment explanation
Indices: 800994--801052 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 17
800984 ATAAAATTTT
*
800994 TATAAATTTAAATTTAA
1 TATAAAATTAAATTTAA
801011 TATAAAATATTTAAATATTAA
1 TAT-AAA-A-TTAAAT-TTAA
801032 TATAAAATTAATATGTTAA
1 TATAAAATTAA-AT-TTAA
801051 TA
1 TA
801053 ATATAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 3 0.09
18 7 0.20
19 9 0.26
20 9 0.26
21 7 0.20
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TATAAAATTAAATTTAA
Found at i:802026 original size:25 final size:25
Alignment explanation
Indices: 801977--802032 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
801967 TTATTAAAAA
801977 AATTTAAAATAAATATAAATAATTT
1 AATTTAAAATAAATATAAATAATTT
* * *
802002 TATTTTAAAT-AATATAATATTATTT
1 AATTTAAAATAAATATAA-ATAATTT
802027 AATTTA
1 AATTTA
802033 CTGATGAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AATTTAAAATAAATATAAATAATTT
Found at i:804826 original size:30 final size:31
Alignment explanation
Indices: 804782--804853 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 31
804772 TTAATATTTT
804782 TTATATATCT-AAATATTAATT-TAATAAAAAA
1 TTATATAT-TAAAATA-TAATTATAATAAAAAA
*
804813 TTA-ATATTAAAATATAGTTGATAATAAAAAA
1 TTATATATTAAAATATAATT-ATAATAAAAAA
804844 TTATATATTA
1 TTATATATTA
804854 GACTTAATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 5 0.14
30 9 0.25
31 16 0.44
32 6 0.17
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (31 bp):
TTATATATTAAAATATAATTATAATAAAAAA
Found at i:804982 original size:19 final size:20
Alignment explanation
Indices: 804937--804987 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
804927 TAAAATATAT
*
804937 AATT-ATTTTTTATTAATTC
1 AATTAATTTTTTATTAATTA
804956 AATCTAATTTTTTA-TAATTA
1 AAT-TAATTTTTTATTAATTA
804976 AATTAATTTTTT
1 AATTAATTTTTT
804988 GACTAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 12 0.41
20 9 0.31
21 8 0.28
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
AATTAATTTTTTATTAATTA
Found at i:805395 original size:12 final size:12
Alignment explanation
Indices: 805380--805404 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
805370 AATTAATAAA
805380 AAATATTTTTAT
1 AAATATTTTTAT
805392 AAATATTTTTAT
1 AAATATTTTTAT
805404 A
1 A
805405 TTTTTATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAATATTTTTAT
Found at i:805422 original size:20 final size:20
Alignment explanation
Indices: 805382--805422 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
805372 TTAATAAAAA
**
805382 ATATTTTTATAAATATTTTT
1 ATATTTTTATAAATAAATTT
*
805402 ATATTTTTATAATTAAATTT
1 ATATTTTTATAAATAAATTT
805422 A
1 A
805423 AATAAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTTTTATAAATAAATTT
Found at i:805468 original size:21 final size:22
Alignment explanation
Indices: 805411--805476 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 22
805401 TATATTTTTA
805411 TAATTAAATTTAAATAAAAATAT
1 TAATT-AATTTAAATAAAAATAT
** *
805434 TTTTTAATTATTAAATAATAAT-T
1 TAATTAA-T-TTAAATAAAAATAT
805457 TAATTAATTTAAATATAAAA
1 TAATTAATTTAAATA-AAAA
805477 AAATTATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
21 7 0.21
22 6 0.18
23 10 0.29
24 11 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATTAATTTAAATAAAAATAT
Found at i:805988 original size:26 final size:27
Alignment explanation
Indices: 805958--806016 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
805948 TTATAAAAAT
* *
805958 AAATAAAAATAATTTTATTT-TTCATA
1 AAATAAAAATAATTTAATTTATTAATA
805984 AAAT-AAAATAATTTAATTTATTAATA
1 AAATAAAAATAATTTAATTTATTAATA
*
806010 ATATAAA
1 AAATAAA
806017 TTTTAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 14 0.50
26 12 0.43
27 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATAAAAATAATTTAATTTATTAATA
Found at i:809353 original size:2 final size:2
Alignment explanation
Indices: 809346--809391 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
809336 ATGAGGTAAT
809346 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
809388 TC TC
1 TC TC
809392 AAGCCCCCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:814081 original size:25 final size:26
Alignment explanation
Indices: 814038--814091 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
814028 ATTTTTAAAC
*** *
814038 ATTTTTAAATAATGGTAATA-AATTT
1 ATTTTTAAATAAAAATAATATAATAT
814063 ATTTTTAAATAAAAATAATATAATAT
1 ATTTTTAAATAAAAATAATATAATAT
814089 ATT
1 ATT
814092 AATATCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (26 bp):
ATTTTTAAATAAAAATAATATAATAT
Found at i:814095 original size:22 final size:24
Alignment explanation
Indices: 814070--814118 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
814060 TTTATTTTTA
814070 AATA-AAAA-TAATATA-ATATATT
1 AATACAAAATTAATATATATA-ATT
814092 AATATCAAAATTAATATATATAATT
1 AATA-CAAAATTAATATATATAATT
814117 AA
1 AA
814119 ATTAAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 4 0.17
24 4 0.17
25 12 0.52
26 3 0.13
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AATACAAAATTAATATATATAATT
Found at i:816896 original size:15 final size:13
Alignment explanation
Indices: 816876--816910 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
816866 ATACAAAAAG
816876 AAATTTAAAATGTT
1 AAATTTAAAAT-TT
816890 AAAATTTAAAATTT
1 -AAATTTAAAATTT
816904 AAATTTA
1 AAATTTA
816911 TTAGATATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 2 0.10
15 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:816909 original size:6 final size:7
Alignment explanation
Indices: 816876--816910 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
816866 ATACAAAAAG
816876 AAATTTA
1 AAATTTA
816883 AAATGTTA
1 AAAT-TTA
816891 AAATTTA
1 AAATTTA
816898 AAATTT-
1 AAATTTA
816904 AAATTTA
1 AAATTTA
816911 TTAGATATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (7 bp):
AAATTTA
Found at i:819363 original size:16 final size:16
Alignment explanation
Indices: 819342--819375 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
819332 TGTTTAATTA
819342 ATAATTATATTATAAT
1 ATAATTATATTATAAT
* *
819358 ATAATTATTTTATTAT
1 ATAATTATATTATAAT
819374 AT
1 AT
819376 TTTATAGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATAATTATATTATAAT
Found at i:819371 original size:19 final size:18
Alignment explanation
Indices: 819336--819374 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
819326 CTTCTATGTT
819336 TAATTAATAATTATATTA
1 TAATTAATAATTATATTA
* *
819354 TAATATAATTATTTTATTA
1 TAAT-TAATAATTATATTA
819373 TA
1 TA
819375 TTTTATAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTAATAATTATATTA
Found at i:819625 original size:2 final size:2
Alignment explanation
Indices: 819618--819642 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
819608 TAAATATGAA
819618 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
819643 CAAATGTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:820680 original size:32 final size:34
Alignment explanation
Indices: 820628--820709 Score: 107
Period size: 32 Copynumber: 2.5 Consensus size: 34
820618 AAAAATATGT
* *
820628 ATTTATTT-TTGTATTATTTTTT-T-ATTTAAAA
1 ATTTATTTATTTTATTATTTTTTATGAATTAAAA
820659 ATTTATTTATTTTATTATTTTTTATGAATTAAAA
1 ATTTATTTATTTTATTATTTTTTATGAATTAAAA
*
820693 ATTATATTTATATTATT
1 ATT-TATTTATTTTATT
820710 TTTATCATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
31 8 0.18
32 13 0.30
33 1 0.02
34 10 0.23
35 12 0.27
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (34 bp):
ATTTATTTATTTTATTATTTTTTATGAATTAAAA
Found at i:820713 original size:31 final size:31
Alignment explanation
Indices: 820630--820714 Score: 84
Period size: 34 Copynumber: 2.7 Consensus size: 31
820620 AAATATGTAT
* * * *
820630 TTATTTTTGTATTATTTTT-TTATTTAAAAA
1 TTATATTTATATTATTTTTATGAATTAAAAA
820660 TT-TATTTATTTTATTATTTTTTATGAATTAAAAA
1 TTATATTTA---TATTA-TTTTTATGAATTAAAAA
820694 TTATATTTATATTATTTTTAT
1 TTATATTTATATTATTTTTAT
820715 CATATTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
29 4 0.09
30 2 0.04
31 7 0.16
32 10 0.22
33 5 0.11
34 11 0.24
35 6 0.13
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (31 bp):
TTATATTTATATTATTTTTATGAATTAAAAA
Found at i:821220 original size:15 final size:15
Alignment explanation
Indices: 821197--821253 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
821187 ATTTAATAAA
*
821197 AATATTTTTTATTTT
1 AATAATTTTTATTTT
821212 AATAATTTTTATTTT
1 AATAATTTTTATTTT
* *
821227 AATTATGTTT-TTTT
1 AATAATTTTTATTTT
*
821241 AAAAATATTTTAT
1 AATAAT-TTTTAT
821254 AATGATTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 8 0.24
15 25 0.74
16 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
AATAATTTTTATTTT
Found at i:824751 original size:2 final size:2
Alignment explanation
Indices: 824738--824770 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
824728 TTAACCTGAG
*
824738 AT AT AT AG AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
824771 TTTAGCTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:825072 original size:26 final size:26
Alignment explanation
Indices: 825009--825079 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
824999 TGTATAATTA
*
825009 ATATTTT-TATTTAAA-TAATAATAT
1 ATATTTTATATTTAAATTAATAACAT
* * *
825033 AAATTATATCTTTAAATTAATAACAT
1 ATATTTTATATTTAAATTAATAACAT
* *
825059 TTATTTTATATTTAATTTAAT
1 ATATTTTATATTTAAATTAAT
825080 TTAAATTAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
24 5 0.14
25 7 0.19
26 24 0.67
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (26 bp):
ATATTTTATATTTAAATTAATAACAT
Found at i:825605 original size:19 final size:19
Alignment explanation
Indices: 825573--825610 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
825563 ATAAATTTTT
825573 TAAATTTAATTATAAAATA
1 TAAATTTAATTATAAAATA
825592 TAAATATTAA-TATAAAATA
1 TAAAT-TTAATTATAAAATA
825611 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAATTTAATTATAAAATA
Found at i:826396 original size:2 final size:2
Alignment explanation
Indices: 826389--826414 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
826379 AGTATATGTG
826389 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
826415 AGTTTTAATT
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:828111 original size:3 final size:3
Alignment explanation
Indices: 828103--828154 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
828093 CAAAGCAAAC
828103 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
828152 AAT
1 AAT
828155 CGTAGTTGGT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:833292 original size:129 final size:130
Alignment explanation
Indices: 833156--833418 Score: 510
Period size: 130 Copynumber: 2.0 Consensus size: 130
833146 TTAAATAATA
833156 ATTTAAAATTAATTAGTTAAAATTTATAAAAAATTTATTCAAAACTG-TTCGCACTCGGACCGAT
1 ATTTAAAATTAATTAGTTAAAATTTATAAAAAATTTATTCAAAACTGTTTCGCACTCGGACCGAT
833220 CTAAGACATGAGTTCAATATTGAATATGGTGAATAATTTTTATTTATGCATCTAATTATAATTTT
66 CTAAGACATGAGTTCAATATTGAATATGGTGAATAATTTTTATTTATGCATCTAATTATAATTTT
833285 ATTTAAAATTAATTAGTTAAAATTTATAAAAAATTTATTCAAAACTGTTTCGCACTCGGACCGAT
1 ATTTAAAATTAATTAGTTAAAATTTATAAAAAATTTATTCAAAACTGTTTCGCACTCGGACCGAT
*
833350 CTAAGACATGAGTTCAATATTGAATATGGTGAATAATTTTTATTTATGTATCTAATTATAATTTT
66 CTAAGACATGAGTTCAATATTGAATATGGTGAATAATTTTTATTTATGCATCTAATTATAATTTT
833415 ATTT
1 ATTT
833419 CATTTATTTT
Statistics
Matches: 132, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
129 47 0.36
130 85 0.64
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (130 bp):
ATTTAAAATTAATTAGTTAAAATTTATAAAAAATTTATTCAAAACTGTTTCGCACTCGGACCGAT
CTAAGACATGAGTTCAATATTGAATATGGTGAATAATTTTTATTTATGCATCTAATTATAATTTT
Found at i:836947 original size:13 final size:13
Alignment explanation
Indices: 836905--836954 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 13
836895 TAATGAATGA
836905 AATATTTTAATTTTT
1 AATATTTTAA--TTT
836920 AA-ATTATTAAATTT
1 AATATT-TT-AATTT
836934 AATATTTTAATTT
1 AATATTTTAATTT
836947 AATATTTT
1 AATATTTT
836955 TTAAATTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 13 0.41
14 10 0.31
15 7 0.22
16 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AATATTTTAATTT
Found at i:838736 original size:2 final size:2
Alignment explanation
Indices: 838729--838765 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
838719 TCAATTTTAA
838729 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
838766 CCTATTATAT
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:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:841635 original size:22 final size:22
Alignment explanation
Indices: 841610--841693 Score: 55
Period size: 21 Copynumber: 3.7 Consensus size: 22
841600 ATTACACGTT
841610 TAATATAAAATTTAAATTTTAA
1 TAATATAAAATTTAAATTTTAA
* ** *
841632 TAAT-TATAATCAAAAATTTAA
1 TAATATAAAATTTAAATTTTAA
* * *
841653 AAATATATAATTAATAAATTAT-A
1 TAATATAAAATT--TAAATTTTAA
841676 TAATATTAAAATATTAAA
1 TAATA-TAAAAT-TTAAA
841694 AATTAAATTT
Statistics
Matches: 46, Mismatches: 11, Indels: 9
0.70 0.17 0.14
Matches are distributed among these distances:
21 16 0.35
22 10 0.22
23 9 0.20
24 10 0.22
25 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATATAAAATTTAAATTTTAA
Found at i:843122 original size:16 final size:16
Alignment explanation
Indices: 843101--843131 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
843091 ATTGTTTGGA
*
843101 TCATTTCGGATTCGAG
1 TCATTTCGAATTCGAG
843117 TCATTTCGAATTCGA
1 TCATTTCGAATTCGA
843132 ATTATTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (16 bp):
TCATTTCGAATTCGAG
Found at i:843138 original size:16 final size:16
Alignment explanation
Indices: 843100--843138 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
843090 AATTGTTTGG
*
843100 ATCATTTCGGATTCGA
1 ATCATTTCGAATTCGA
*
843116 GTCATTTCGAATTCGA
1 ATCATTTCGAATTCGA
*
843132 ATTATTT
1 ATCATTT
843139 TTAAGTTTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (16 bp):
ATCATTTCGAATTCGA
Found at i:843263 original size:27 final size:25
Alignment explanation
Indices: 843206--843256 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
843196 CAAATTTAAG
*
843206 TTTAAATTAATTAATTAATTTTTTATA
1 TTTAAATTAA--AATTAATATTTTATA
843233 TTTAAATTAAAATTAATGATTTTA
1 TTTAAATTAAAATTAAT-ATTTTA
843257 CTTTTTACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 5 0.23
27 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TTTAAATTAAAATTAATATTTTATA
Found at i:843698 original size:24 final size:24
Alignment explanation
Indices: 843671--843725 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
843661 AATAGTAAAA
*
843671 TATAATAATTTTTTAATTTAATAT
1 TATAATAAATTTTTAATTTAATAT
843695 TATAATAAATTTTTAATTTAATAT
1 TATAATAAATTTTTAATTTAATAT
843719 TATAATA
1 TATAATA
843726 TTTAATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TATAATAAATTTTTAATTTAATAT
Found at i:843994 original size:26 final size:26
Alignment explanation
Indices: 843965--844020 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
843955 TTTATCTATA
843965 TAAATAAA-AGAAAATATAATATAATT
1 TAAATAAATA-AAAATATAATATAATT
* * *
843991 TAAATAAATAAAATTTTAATTTAATT
1 TAAATAAATAAAAATATAATATAATT
844017 TAAA
1 TAAA
844021 ATTTAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
TAAATAAATAAAAATATAATATAATT
Found at i:844008 original size:16 final size:16
Alignment explanation
Indices: 843976--844026 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
843966 AAATAAAAGA
*
843976 AAATATAATATAATTT
1 AAATATAATAAAATTT
843992 AAATA-AATAAAATTT
1 AAATATAATAAAATTT
* *
844007 TAATTTAATTTAAAATTT
1 AAATATAA--TAAAATTT
844025 AA
1 AA
844027 TAAATTAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
16 7 0.25
18 9 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATATAATAAAATTT
Found at i:844114 original size:30 final size:30
Alignment explanation
Indices: 844078--844158 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
844068 GACATACACA
844078 TTTAAAATAATTAAATTAAATTCAAAAT-AT
1 TTTAAAATAATTAAATTAAATT-AAAATAAT
* *
844108 TTTAAAAT-TTTAAACTAAAATTAAAATAAAT
1 TTTAAAATAATTAAA-TTAAATTAAAAT-AAT
*
844139 TTTAAATTAATTAAATTAAA
1 TTTAAAATAATTAAATTAAA
844159 AAATTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 10 0.24
30 14 0.33
31 13 0.31
32 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTAAAATAATTAAATTAAATTAAAATAAT
Found at i:844186 original size:16 final size:18
Alignment explanation
Indices: 844157--844193 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
844147 AATTAAATTA
844157 AAAAATTAAAATTAA-CT
1 AAAAATTAAAATTAATCT
*
844174 AAAAATT-ATATTAATCT
1 AAAAATTAAAATTAATCT
844191 AAA
1 AAA
844194 CTCAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATTAAAATTAATCT
Found at i:846712 original size:27 final size:28
Alignment explanation
Indices: 846681--846762 Score: 69
Period size: 27 Copynumber: 2.9 Consensus size: 28
846671 GTTTTAGGTA
846681 TAAAATAAAAAATTAATATAAATATA-T
1 TAAAATAAAAAATTAATATAAATATATT
** * * * *
846708 TAAAATTTATATTTATTTTAAATATAATT
1 TAAAATAAAAAATTAATATAAATAT-ATT
*
846737 TAATATATAAAAA-TAATATAAATATA
1 TAAAATA-AAAAATTAATATAAATATA
846763 CTTATTGTTA
Statistics
Matches: 39, Mismatches: 13, Indels: 5
0.68 0.23 0.09
Matches are distributed among these distances:
27 19 0.49
28 2 0.05
29 16 0.41
30 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
TAAAATAAAAAATTAATATAAATATATT
Found at i:847003 original size:4 final size:4
Alignment explanation
Indices: 846994--847024 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
846984 AAATGTTATG
846994 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
847025 GCAGCTCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:847549 original size:2 final size:2
Alignment explanation
Indices: 847542--847579 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
847532 AATTGCTCCA
* *
847542 AT AT AT AT AT GT AT AT AT AT AT AT AT GT 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
847580 TTACGAGGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:847563 original size:16 final size:16
Alignment explanation
Indices: 847542--847579 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
847532 AATTGCTCCA
847542 ATATATATATGTATAT
1 ATATATATATGTATAT
847558 ATATATATATGTATAT
1 ATATATATATGTATAT
847574 ATATAT
1 ATATAT
847580 TTACGAGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
ATATATATATGTATAT
Found at i:848066 original size:15 final size:14
Alignment explanation
Indices: 848046--848080 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
848036 AAAACATTGG
848046 TAAAAAAATTTATAT
1 TAAAAAAA-TTATAT
*
848061 TAAAAAAATTATTT
1 TAAAAAAATTATAT
848075 TAAAAA
1 TAAAAA
848081 TAAAAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAAAAATTATAT
Found at i:848881 original size:21 final size:21
Alignment explanation
Indices: 848852--848904 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
848842 GGTTCGATAT
*
848852 TTTAATTTTATTATTATAATA
1 TTTATTTTTATTATTATAATA
* *
848873 TTTATTTTTTTTATTTTAATA
1 TTTATTTTTATTATTATAATA
*
848894 ATTATTTTTAT
1 TTTATTTTTAT
848905 CTTTATCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTATTTTTATTATTATAATA
Found at i:849429 original size:2 final size:2
Alignment explanation
Indices: 849416--849464 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
849406 TGCAAACTAC
* * *
849416 AT AT AT AC AT AT AT AT AT AT AT AC AT AC 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
849458 AT AT AT A
1 AT AT AT A
849465 AATCATGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:851154 original size:17 final size:17
Alignment explanation
Indices: 851132--851178 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
851122 TACATAATTT
851132 ATATTT-ATTTAATCTAA
1 ATATTTAATTT-ATCTAA
*
851149 ATATTTAATTTATCTATC
1 ATATTTAATTTATCTA-A
851167 ATATATTAATTT
1 ATAT-TTAATTT
851179 TATTAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 11 0.42
18 8 0.31
19 7 0.27
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATTTAATTTATCTAA
Found at i:851600 original size:10 final size:10
Alignment explanation
Indices: 851585--851647 Score: 55
Period size: 9 Copynumber: 6.7 Consensus size: 10
851575 ACATTAATTA
851585 TATAAAAAAT
1 TATAAAAAAT
851595 TAT-AAAAA-
1 TATAAAAAAT
* *
851603 TATATAAAAC
1 TATAAAAAAT
*
851613 TAT-TAAAA-
1 TATAAAAAAT
851621 TATAAAAAAT
1 TATAAAAAAT
851631 TAT-AAAAAT
1 TATAAAAAAT
851640 ATATAAAA
1 -TATAAAA
851648 TAAATTTAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
8 6 0.13
9 24 0.53
10 12 0.27
11 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
TATAAAAAAT
Found at i:851605 original size:18 final size:18
Alignment explanation
Indices: 851584--851648 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
851574 AACATTAATT
851584 ATATAAAAAATTATAAAA
1 ATATAAAAAATTATAAAA
* * *
851602 ATATATAAAACTATTAAA
1 ATATAAAAAATTATAAAA
851620 ATATAAAAAATTATAAAA
1 ATATAAAAAATTATAAAA
*
851638 ATATATAAAAT
1 ATATAAAAAAT
851649 AAATTTAACT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATAAAAAATTATAAAA
Found at i:851624 original size:36 final size:36
Alignment explanation
Indices: 851571--851647 Score: 129
Period size: 36 Copynumber: 2.1 Consensus size: 36
851561 ATTGATTTAT
*
851571 TAAAACATTAATTATATAAAAAATTATAAAAATATA
1 TAAAACATTAATAATATAAAAAATTATAAAAATATA
851607 TAAAACTATTAA-AATATAAAAAATTATAAAAATATA
1 TAAAAC-ATTAATAATATAAAAAATTATAAAAATATA
851643 TAAAA
1 TAAAA
851648 TAAATTTAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 34 0.87
37 5 0.13
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (36 bp):
TAAAACATTAATAATATAAAAAATTATAAAAATATA
Found at i:858592 original size:240 final size:237
Alignment explanation
Indices: 858167--858642 Score: 670
Period size: 240 Copynumber: 2.0 Consensus size: 237
858157 GTACGGCAAA
* *** *
858167 AGAATGTCTGAAATTACATTTGGATGGTTTATTGTCACAACAATGGACAAAAGATGTAAAAGGCT
1 AGAACGTCTGAAATTACATTTGGACAATTTATTGCCACAACAATGGACAAAAGATGTAAAAGGCT
* **
858232 AGTCTACCATATAGACTTTCTCTGCATGTTAGTAATCTTAATATTAGAAACCATAGAAACAGACT
66 AGTATACCATATAGACTTTCTCCCCATGTTAGTAATCTTAATATTAGAAACCATAGAAACAGACT
* * *
858297 TTCGCACAAACAAGTACTTCCATACCTCAAAGCATCCTAGCTCAGAAATTTTTTT-AGAATGAGC
131 TTCGCACAAACAAGTACTTCCATACCTCAAAGCATCCTAGCACAGAAATTTTTTTAAGAAAGAAC
* *
858361 CCAAAAGGACCTTCTCTTCTCTATTCCCACTAATCCTCCAAG
196 CCAAAAGAACCTTCTCTCCTCTATTCCCACTAATCCTCCAAG
*
858403 AGAACGTCTGAAATTACATTTGGACAATTTATTGCCTCAACAATGGACAAAAGAAGCATGTAAAA
1 AGAACGTCTGAAATTACATTTGGACAATTTATTGCCACAACAATGGAC--AA-AAG-ATGTAAAA
*
858468 GGCTAGTATACTATATAGACTTTCTCCCCATGTTAGTAATCTTAATATTAGAAACCATAGAAACA
62 GGCTAGTATACCATATAGACTTTCTCCCCATGTTAGTAATCTTAATATTAGAAACCATAGAAACA
* * * * *
858533 GACTTTGGCAGAAACAATTACTTCCATACTTCAAA-CATTC-AGCACAGAATATATTTTTTAAGA
127 GACTTTCGCACAAACAAGTACTTCCATACCTCAAAGCATCCTAGCACAGAA-AT-TTTTTTAAGA
* * *
858596 AAGAACCCCAAAGAACCTTCTCTCCTCTATTCTCGCTAATCCTCCAA
190 AAGAACCCAAAAGAACCTTCTCTCCTCTATTCCCACTAATCCTCCAA
858643 TCTTTCACGG
Statistics
Matches: 210, Mismatches: 23, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
236 42 0.20
238 10 0.05
239 9 0.04
240 106 0.50
241 43 0.20
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (237 bp):
AGAACGTCTGAAATTACATTTGGACAATTTATTGCCACAACAATGGACAAAAGATGTAAAAGGCT
AGTATACCATATAGACTTTCTCCCCATGTTAGTAATCTTAATATTAGAAACCATAGAAACAGACT
TTCGCACAAACAAGTACTTCCATACCTCAAAGCATCCTAGCACAGAAATTTTTTTAAGAAAGAAC
CCAAAAGAACCTTCTCTCCTCTATTCCCACTAATCCTCCAAG
Found at i:862048 original size:23 final size:25
Alignment explanation
Indices: 862001--862048 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
861991 TTTTTATATT
862001 AATATTTATAATTATATTTAAATAAA
1 AATATTTATAATTATA-TTAAATAAA
*
862027 AATATTT-TTATTATA-TAAATAA
1 AATATTTATAATTATATTAAATAA
862049 TAATTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
25 7 0.33
26 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AATATTTATAATTATATTAAATAAA
Found at i:863208 original size:29 final size:32
Alignment explanation
Indices: 863140--863208 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
863130 TAATTAAATT
* *
863140 AAAATATTTAAATAATTAATAATAATGTTTGA
1 AAAATATTTAAATAAGTAATAATAATGTGTGA
*
863172 AAATATATTTAAA-AAGTAATTAT-ATGTGT-A
1 AAA-ATATTTAAATAAGTAATAATAATGTGTGA
863202 AAAATAT
1 AAAATAT
863209 GTTGCTAGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 4 0.12
30 4 0.12
31 5 0.15
32 11 0.33
33 9 0.27
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (32 bp):
AAAATATTTAAATAAGTAATAATAATGTGTGA
Found at i:863509 original size:18 final size:19
Alignment explanation
Indices: 863467--863509 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
863457 TTAAACTTTA
863467 ATTTAAATTTGATTTGATT
1 ATTTAAATTTGATTTGATT
* *
863486 -TGTAAATTT-ATTTTATT
1 ATTTAAATTTGATTTGATT
863503 ATTTAAA
1 ATTTAAA
863510 AAATTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
ATTTAAATTTGATTTGATT
Found at i:863560 original size:16 final size:16
Alignment explanation
Indices: 863540--863579 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
863530 ATTAATATTT
* *
863540 ATATATTTTTATATAA
1 ATATATTTTAATAAAA
*
863556 TTATATTTTAATAAAA
1 ATATATTTTAATAAAA
863572 ATATATTT
1 ATATATTT
863580 ATATTAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATATTTTAATAAAA
Found at i:863591 original size:21 final size:22
Alignment explanation
Indices: 863550--863609 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
863540 ATATATTTTT
* *
863550 ATATAATTATATTTTAATAAA-A
1 ATATATTTATA-TTAAATAAATA
863572 ATATATTTATATTAAATAAATA
1 ATATATTTATATTAAATAAATA
* *
863594 ATA-ATTCATATCAAAT
1 ATATATTTATATTAAAT
863610 CAACTTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATATTTATATTAAATAAATA
Found at i:864139 original size:11 final size:11
Alignment explanation
Indices: 864125--864160 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
864115 AAAAAAAATT
864125 TATATTTAATA
1 TATATTTAATA
*
864136 TATATTTTATA
1 TATATTTAATA
864147 TATATTTAACTA
1 TATATTTAA-TA
864159 TA
1 TA
864161 AATATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATTTAATA
Found at i:865651 original size:14 final size:14
Alignment explanation
Indices: 865632--865661 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
865622 TCCCATGTGA
865632 TAGTGATTTTGAAT
1 TAGTGATTTTGAAT
865646 TAGTGATTTTGAAT
1 TAGTGATTTTGAAT
865660 TA
1 TA
865662 TCGAAAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (14 bp):
TAGTGATTTTGAAT
Found at i:867370 original size:3 final size:3
Alignment explanation
Indices: 867362--867399 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
867352 CGTGTTTTCT
867362 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
867400 TATTAATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:867561 original size:14 final size:15
Alignment explanation
Indices: 867537--867566 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
867527 AAAATTTTAA
867537 TTATTTGAATTTATT
1 TTATTTGAATTTATT
867552 TTATTT-AATTTATT
1 TTATTTGAATTTATT
867566 T
1 T
867567 AATAAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTATTTGAATTTATT
Found at i:870411 original size:17 final size:17
Alignment explanation
Indices: 870368--870413 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
870358 TATAATTTTT
870368 TTATATTAAAAAGTATA
1 TTATATTAAAAAGTATA
*
870385 TTATAATAAAAA-TAT-
1 TTATATTAAAAAGTATA
870400 TTGAATATTAAAAA
1 TT--ATATTAAAAA
870414 CAGGTGTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 2 0.08
16 3 0.12
17 20 0.80
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (17 bp):
TTATATTAAAAAGTATA
Found at i:877520 original size:19 final size:19
Alignment explanation
Indices: 877496--877534 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
877486 GTCGGCTAGA
877496 TCAGTTACCTTTGTTTGGT
1 TCAGTTACCTTTGTTTGGT
877515 TCAGTTACCTTTGTTTGGT
1 TCAGTTACCTTTGTTTGGT
877534 T
1 T
877535 TAATACTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.21, T:0.54
Consensus pattern (19 bp):
TCAGTTACCTTTGTTTGGT
Found at i:878229 original size:15 final size:16
Alignment explanation
Indices: 878209--878239 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
878199 ATCAATCTAA
878209 AATATTTTT-TATATT
1 AATATTTTTATATATT
878224 AATATTTTTATATATT
1 AATATTTTTATATATT
878240 TTTTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATATTTTTATATATT
Found at i:882931 original size:10 final size:9
Alignment explanation
Indices: 882906--882930 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
882896 GTTTCTCTGG
882906 TTTTTTTCT
1 TTTTTTTCT
882915 TTTTTTTCT
1 TTTTTTTCT
882924 TTTTTTT
1 TTTTTTT
882931 TTCTTCTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:886159 original size:26 final size:28
Alignment explanation
Indices: 886125--886181 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
886115 ATTATTAAAA
*
886125 TTTAGAAAATATATATT-TTA-TCATTTT
1 TTTAGAAAAAAT-TATTATTATTCATTTT
*
886152 TTTA-AAAAAATTATTATTATTTATTTT
1 TTTAGAAAAAATTATTATTATTCATTTT
886179 TTT
1 TTT
886182 TCCACTCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
26 9 0.35
27 13 0.50
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTAGAAAAAATTATTATTATTCATTTT
Found at i:888371 original size:3 final size:3
Alignment explanation
Indices: 888363--888400 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
888353 ATATATAAAT
888363 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
888401 GTTTTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:895543 original size:14 final size:14
Alignment explanation
Indices: 895524--895550 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
895514 TTAATTATCA
895524 ATATATAAAAAATT
1 ATATATAAAAAATT
895538 ATATATAAAAAAT
1 ATATATAAAAAAT
895551 AACATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATATAAAAAATT
Found at i:895597 original size:14 final size:14
Alignment explanation
Indices: 895526--895599 Score: 52
Period size: 14 Copynumber: 5.5 Consensus size: 14
895516 AATTATCAAT
895526 ATATAAAAAAT-TA
1 ATATAAAAAATATA
895539 TATATAAAAAATA-A
1 -ATATAAAAAATATA
895553 CATA-AAAATAATATA
1 -ATATAAAA-AATATA
* * *
895568 ATAT--CATACA-A
1 ATATAAAAAATATA
895579 ATATAAAAAATATA
1 ATATAAAAAATATA
895593 ATATAAA
1 ATATAAA
895600 TTTATAAACA
Statistics
Matches: 46, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
11 5 0.11
12 2 0.04
13 8 0.17
14 30 0.65
15 1 0.02
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (14 bp):
ATATAAAAAATATA
Found at i:895627 original size:9 final size:8
Alignment explanation
Indices: 895593--895828 Score: 59
Period size: 8 Copynumber: 29.2 Consensus size: 8
895583 AAAAAATATA
895593 ATATAAAT
1 ATATAAAT
* *
895601 TTATAAAC
1 ATATAAAT
*
895609 ATAAAAAT
1 ATATAAAT
895617 ATCATAAAT
1 AT-ATAAAT
895626 ATATAAAT
1 ATATAAAT
895634 ATGATATCAAT
1 AT-ATA--AAT
*
895645 A-AAAAAT
1 ATATAAAT
895652 AATATGAAA-
1 -ATAT-AAAT
* *
895661 ATTTATAT
1 ATATAAAT
*
895669 ATATACAT
1 ATATAAAT
*
895677 -CAT-AAT
1 ATATAAAT
*
895683 ATAAAAAT
1 ATATAAAT
* *
895691 TTATAAAC
1 ATATAAAT
895699 ATCATAAATT
1 AT-ATAAA-T
*
895709 AATTATCAAT
1 -A-TATAAAT
895719 ATATAAA-
1 ATATAAAT
**
895726 A-ATTTAT
1 ATATAAAT
895733 ATATAAA-
1 ATATAAAT
*
895740 AAATAACAT
1 ATATAA-AT
895749 A-A-AAAT
1 ATATAAAT
*
895755 AACATAATAT
1 -ATATAA-AT
895765 CATATAAAT
1 -ATATAAAT
895774 ATA-AAA-
1 ATATAAAT
895780 A-AT--AT
1 ATATAAAT
895785 CATATAAAT
1 -ATATAAAT
* *
895794 TTATAAAC
1 ATATAAAT
*
895802 ATAAAAAT
1 ATATAAAT
895810 ATTATAAAT
1 A-TATAAAT
895819 ATATAAAT
1 ATATAAAT
895827 AT
1 AT
895829 GATATTAATA
Statistics
Matches: 163, Mismatches: 36, Indels: 58
0.63 0.14 0.23
Matches are distributed among these distances:
4 1 0.01
5 1 0.01
6 9 0.06
7 23 0.14
8 75 0.46
9 33 0.20
10 11 0.07
11 9 0.06
12 1 0.01
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.34
Consensus pattern (8 bp):
ATATAAAT
Found at i:895653 original size:22 final size:21
Alignment explanation
Indices: 895615--895658 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
895605 AAACATAAAA
*
895615 ATATCATAAATATATAAATATG
1 ATATCATAAATAAAT-AATATG
895637 ATATCAATAAA-AAATAATATG
1 ATATC-ATAAATAAATAATATG
895658 A
1 A
895659 AAATTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 8 0.40
23 5 0.25
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (21 bp):
ATATCATAAATAAATAATATG
Found at i:895776 original size:53 final size:53
Alignment explanation
Indices: 895719--895828 Score: 127
Period size: 53 Copynumber: 2.1 Consensus size: 53
895709 AATTATCAAT
*
895719 ATATAAAAATTTAT-ATATAAA-AAAT-AACATAAAAATAACATAATATCATATAA
1 ATATAAAAA-ATATCATATAAATAAATAAACATAAAAATAACATAA-AT-ATATAA
** **
895772 ATATAAAAAATATCATATAAATTTATAAACATAAAAATATTATAAATATATAA
1 ATATAAAAAATATCATATAAATAAATAAACATAAAAATAACATAAATATATAA
895825 ATAT
1 ATAT
895829 GATATTAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
52 3 0.06
53 26 0.53
54 4 0.08
55 16 0.33
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (53 bp):
ATATAAAAAATATCATATAAATAAATAAACATAAAAATAACATAAATATATAA
Found at i:895816 original size:17 final size:17
Alignment explanation
Indices: 895785--895828 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
895775 TAAAAAATAT
895785 CATATAAAT-TTATAAA
1 CATATAAATATTATAAA
*
895801 CATAAAAATATTATAAA
1 CATATAAATATTATAAA
*
895818 TATATAAATAT
1 CATATAAATAT
895829 GATATTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (17 bp):
CATATAAATATTATAAA
Found at i:895823 original size:25 final size:25
Alignment explanation
Indices: 895744--895825 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 25
895734 TATAAAAAAT
**
895744 AACATAAAAATAACATAATATCATATA
1 AACATAAAAATATTATAA-AT-ATATA
* *
895771 AATATAAAAAATATCATATAAATTTATA
1 AACAT-AAAAATAT--TATAAATATATA
895799 AACATAAAAATATTATAAATATATA
1 AACATAAAAATATTATAAATATATA
895824 AA
1 AA
895826 TATGATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
25 13 0.28
27 12 0.26
28 15 0.33
29 2 0.04
30 4 0.09
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.30
Consensus pattern (25 bp):
AACATAAAAATATTATAAATATATA
Found at i:895828 original size:64 final size:63
Alignment explanation
Indices: 895558--895854 Score: 234
Period size: 64 Copynumber: 4.7 Consensus size: 63
895548 AATAACATAA
*
895558 AAATA-ATATAATATCATACAAATATAAAAAATATAATATAAATTTATAAACATAAAAATATCAT
1 AAATATATA-AATATCATATAAATATAAAAAATAT-ATATAAATTTATAAACATAAAAATATCAT
* * * *
895622 AAATATATAAATATGATAT-CA-ATAAAAAATA-ATATGAAAATTTATATATATACATCATAATA
1 AAATATATAAATATCATATAAATATAAAAAATATATAT--AAA-TT-TATA-A-ACATAAAAATA
*
895684 T-AA
60 TCAT
* * * * ** * * * *
895687 AAATTTATAAACATCATA-AATTAATTATCAATATATAAAAATTTATATATA-AAAAATAACAT
1 AAATATATAAATATCATATAAAT-ATAAAAAATATATATAAATTTATAAACATAAAAATATCAT
* * *
895749 AAAAATAACATAATATCATATAAATATAAAAAATATCATATAAATTTATAAACATAAAAATATTA
1 AAATAT-ATA-AATATCATATAAATATAAAAAATAT-ATATAAATTTATAAACATAAAAATATCA
895814 T
63 T
* *
895815 AAATATATAAATATGATATTAATA-AAAAAATA-ATATAAAT
1 AAATATATAAATATCATATAAATATAAAAAATATATATAAAT
895855 AAAAAATAAT
Statistics
Matches: 178, Mismatches: 38, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
60 4 0.02
61 13 0.07
62 20 0.11
63 13 0.07
64 50 0.28
65 41 0.23
66 27 0.15
67 7 0.04
68 3 0.02
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (63 bp):
AAATATATAAATATCATATAAATATAAAAAATATATATAAATTTATAAACATAAAAATATCAT
Found at i:895855 original size:17 final size:17
Alignment explanation
Indices: 895804--895864 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
895794 TTATAAACAT
*
895804 AAAAATATTATAAATATA
1 AAAAATAATATAAATA-A
* * *
895822 TAAATATGATATTAATAA
1 -AAAAATAATATAAATAA
895840 AAAAATAATATAAAT-A
1 AAAAATAATATAAATAA
895856 AAAAATAAT
1 AAAAATAAT
895865 TTATTTTTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
16 10 0.29
17 12 0.34
18 1 0.03
19 12 0.34
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAAATAATATAAATAA
Found at i:896724 original size:19 final size:19
Alignment explanation
Indices: 896700--896748 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
896690 ATTTAATATT
896700 AATTTTTATATTAATCATA
1 AATTTTTATATTAATCATA
896719 AATTTTTA-ATT--TCATA
1 AATTTTTATATTAATCATA
* *
896735 AAATTATATATTAA
1 AATTTTTATATTAA
896749 AATTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 11 0.44
17 3 0.12
18 3 0.12
19 8 0.32
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTTTATATTAATCATA
Found at i:897010 original size:12 final size:12
Alignment explanation
Indices: 896990--897021 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
896980 AAAAATTTAT
*
896990 AATTTATATAAA
1 AATTAATATAAA
897002 AATTAATATAAA
1 AATTAATATAAA
897014 AATTAATA
1 AATTAATA
897022 ATTTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTAATATAAA
Found at i:900638 original size:28 final size:28
Alignment explanation
Indices: 900579--900650 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
900569 TATAAATTAT
**
900579 TATTTAATTAATAAAAATAATTTTATTTA
1 TATTTAATT-ATAAAAATAATTTTATAAA
900608 TATTTAATTATAAAAAT-ATTTTAATAAA
1 TATTTAATTATAAAAATAATTTT-ATAAA
* *
900636 TATTAAATAATAAAA
1 TATTTAATTATAAAA
900651 TGAAAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 5 0.13
28 24 0.63
29 9 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
TATTTAATTATAAAAATAATTTTATAAA
Found at i:900830 original size:1 final size:1
Alignment explanation
Indices: 900820--900852 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
900810 TTTGGTAGAC
*
900820 TTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
900853 ATCTTTGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:901505 original size:10 final size:10
Alignment explanation
Indices: 901490--901531 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
901480 ATTAAATTAA
901490 TTTTATATAT
1 TTTTATATAT
901500 TTTTATA-AT
1 TTTTATATAT
901509 TTTTATATGAT
1 TTTTATAT-AT
* *
901520 TTATATTTAT
1 TTTTATATAT
901530 TT
1 TT
901532 AATTCAACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 9 0.32
10 11 0.39
11 8 0.29
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTATATAT
Found at i:901522 original size:18 final size:18
Alignment explanation
Indices: 901487--901524 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
901477 AAAATTAAAT
*
901487 TAATTTTATATATTTTTA
1 TAATTTTATATATATTTA
901505 TAATTTT-TATATGATTTA
1 TAATTTTATATAT-ATTTA
901523 TA
1 TA
901525 TTTATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
TAATTTTATATATATTTA
Found at i:902497 original size:3 final size:3
Alignment explanation
Indices: 902489--902538 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
902479 CTTTCATTAA
902489 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
902537 AA
1 AA
902539 AAGAATTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:903881 original size:2 final size:2
Alignment explanation
Indices: 903874--903905 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
903864 TCAAGTTTTG
903874 AT 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 AT
903906 GTACCTTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:904371 original size:2 final size:2
Alignment explanation
Indices: 904366--904391 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
904356 TATACTCATG
904366 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
904392 GTGTGTGTGG
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:905106 original size:14 final size:14
Alignment explanation
Indices: 905089--905117 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
905079 ATAAGTCAAA
905089 TTTTT-ATTTTTAT
1 TTTTTAATTTTTAT
905102 TTTTTAATTTTTAT
1 TTTTTAATTTTTAT
905116 TT
1 TT
905118 AAATTTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTAATTTTTAT
Found at i:913293 original size:2 final size:2
Alignment explanation
Indices: 913286--913328 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
913276 TCTAAAGATA
913286 AT AT AT AT AT AT 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 AT AT AT AT AT AT
913328 A
1 A
913329 CACACACACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:913989 original size:17 final size:17
Alignment explanation
Indices: 913969--914002 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
913959 AAATATTTTA
*
913969 ATTTTAATTAATTATAT
1 ATTTTAATTAAATATAT
*
913986 ATTTTTATTAAATATAT
1 ATTTTAATTAAATATAT
914003 CAAATAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:914170 original size:17 final size:18
Alignment explanation
Indices: 914148--914185 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
914138 ATATCACAAA
*
914148 TTAAATTTATAT-AAATT
1 TTAAATTAATATAAAATT
*
914165 TTAAATTAATTTAAAATT
1 TTAAATTAATATAAAATT
914183 TTA
1 TTA
914186 TGTATATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAATTAATATAAAATT
Found at i:915095 original size:21 final size:22
Alignment explanation
Indices: 915062--915103 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
915052 ATTATTTTTA
*
915062 AAAAATTATA-TTTAATAATTT
1 AAAAATTAAATTTTAATAATTT
*
915083 AAAATTTAAATTTTAATAATT
1 AAAAATTAAATTTTAATAATT
915104 ACAATCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAAAATTAAATTTTAATAATTT
Found at i:915419 original size:88 final size:87
Alignment explanation
Indices: 915318--915500 Score: 201
Period size: 88 Copynumber: 2.1 Consensus size: 87
915308 AGTATTTTTC
* * * * *
915318 AATAAATTTAAAGTTTGAATATCAA-TTCTTATAATTTCTTCCCCTTTATATTTCTACTCTAAAA
1 AATAAATTTAAAGTTCGAATATCAACTT-TTACAACTTCTT-CCCTTT-TATCTCCACTCTAAAA
*
915382 CTTTGTTTAT-ACAAAAAAAATAAT
63 CTTTGTTTATAACAAAAAAAAAAAT
* * * * * *
915406 AATAAGTTTAAAGTTCGAATTTCAACTTTTACGACTTCTTCCCTTTTATCTCCATTCTAACATTT
1 AATAAATTTAAAGTTCGAATATCAACTTTTACAACTTCTTCCCTTTTATCTCCACTCTAAAACTT
*
915471 TGTTTATAAGAAAAAAAAAAAT
66 TGTTTATAACAAAAAAAAAAAT
915493 AA-AAATTT
1 AATAAATTT
915501 TAAATTTTAA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
86 26 0.33
87 20 0.25
88 31 0.39
89 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (87 bp):
AATAAATTTAAAGTTCGAATATCAACTTTTACAACTTCTTCCCTTTTATCTCCACTCTAAAACTT
TGTTTATAACAAAAAAAAAAAT
Found at i:915505 original size:7 final size:7
Alignment explanation
Indices: 915495--915519 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
915485 AAAAAAATAA
915495 AAATTTT
1 AAATTTT
915502 AAATTTT
1 AAATTTT
915509 AAATTTT
1 AAATTTT
915516 AAAT
1 AAAT
915520 CCCAACTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AAATTTT
Found at i:916234 original size:12 final size:12
Alignment explanation
Indices: 916217--916249 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
916207 TATGAATAAA
916217 ATTTTTTTAAGT
1 ATTTTTTTAAGT
*
916229 ATTTTTTT-ATT
1 ATTTTTTTAAGT
916240 ATTTTTTTAA
1 ATTTTTTTAA
916250 TAACTATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (12 bp):
ATTTTTTTAAGT
Found at i:916435 original size:2 final size:2
Alignment explanation
Indices: 916371--916425 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
916361 ACTGAAAATA
* *
916371 AT AT AT AT TT AT AT AT AT AT AT AT AT AC 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
*
916413 AT AT AT AA AT AT A
1 AT AT AT AT AT AT A
916426 AAAGATATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:916686 original size:24 final size:23
Alignment explanation
Indices: 916659--916712 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
916649 AAATGACTTG
916659 ATTTATTTGAAATGTTAA-AAAAAA
1 ATTTATTTG-AATG-TAAGAAAAAA
* * *
916683 ATTTTTTTGCATGTAAGAAAAAG
1 ATTTATTTGAATGTAAGAAAAAA
916706 ATTTATT
1 ATTTATT
916713 ATGACTTAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 3 0.12
23 14 0.56
24 8 0.32
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (23 bp):
ATTTATTTGAATGTAAGAAAAAA
Found at i:917111 original size:21 final size:20
Alignment explanation
Indices: 917071--917111 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
917061 ACTTTAATAT
**
917071 TTATAATTTTTTATTTTAAA
1 TTATAATTTTTTATAATAAA
917091 TTATAATTTTTTTATAATAAA
1 TTATAA-TTTTTTATAATAAA
917112 AAATATCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTATAATTTTTTATAATAAA
Found at i:918341 original size:18 final size:19
Alignment explanation
Indices: 918304--918343 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
918294 TTAAATTAAA
*
918304 TTTTAATATTTATAATTTT
1 TTTTAATATTGATAATTTT
*
918323 TTTTATTATTGATAATTTT
1 TTTTAATATTGATAATTTT
918342 TT
1 TT
918344 GAGATGCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTAATATTGATAATTTT
Found at i:919375 original size:17 final size:17
Alignment explanation
Indices: 919349--919381 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
919339 AGTCCAAATC
919349 ATTTTTTTAAT-TAAAA
1 ATTTTTTTAATATAAAA
919365 ATTTATTTTAATATAAA
1 ATTT-TTTTAATATAAA
919382 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTTTTAATATAAAA
Found at i:919422 original size:29 final size:30
Alignment explanation
Indices: 919357--919432 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
919347 TCATTTTTTT
919357 AATTAAAAATTTATTTTAATATAAATTAAA
1 AATTAAAAATTTATTTTAATATAAATTAAA
*
919387 AAATAAAAATTTATTTTAATAT-AA-TAAA
1 AATTAAAAATTTATTTTAATATAAATTAAA
*
919415 AATTTAAAATTTTATTTT
1 AA-TTAAAAATTTATTTT
919433 TAAAAAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 6 0.14
29 15 0.36
30 21 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
AATTAAAAATTTATTTTAATATAAATTAAA
Found at i:919443 original size:30 final size:29
Alignment explanation
Indices: 919359--919444 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
919349 ATTTTTTTAA
*
919359 TTAAAAATTTATTTTAATATAAATTAAAAA-
1 TTAAAAATTTATTTTAA-A-AAAATAAAAAT
* * *
919389 ATAAAAATTTATTTTAATATAATAAAAAT
1 TTAAAAATTTATTTTAAAAAAATAAAAAT
*
919418 TTAAAATTTTATTTTTAAAAAAATAAA
1 TTAAAAATTTA-TTTTAAAAAAATAAA
919445 TTTAAATATT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
28 8 0.17
29 9 0.20
30 29 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TTAAAAATTTATTTTAAAAAAATAAAAAT
Found at i:919681 original size:22 final size:22
Alignment explanation
Indices: 919649--919700 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
919639 AGTTTTAAAA
* *
919649 AAATT-AA-AAATTTTATTTAT
1 AAATTAAATAAATTATATTAAT
919669 AAATTAAATAAATTATATTAAT
1 AAATTAAATAAATTATATTAAT
919691 -AATATAAATA
1 AAAT-TAAATA
919701 TTTATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.19
21 5 0.19
22 17 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTAAATAAATTATATTAAT
Found at i:919709 original size:16 final size:18
Alignment explanation
Indices: 919671--919711 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
919661 TTATTTATAA
919671 ATTAA-ATAAATTATATT
1 ATTAATATAAATTATATT
*
919688 AATAATATAAA-TAT-TT
1 ATTAATATAAATTATATT
919704 ATTAATAT
1 ATTAATAT
919712 TTAAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 9 0.43
17 7 0.33
18 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAATATAAATTATATT
Found at i:919855 original size:15 final size:16
Alignment explanation
Indices: 919835--919864 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
919825 AATAAAACCA
919835 TTAAAA-TTTATATTC
1 TTAAAATTTTATATTC
919850 TTAAAATTTTATATT
1 TTAAAATTTTATATT
919865 TAAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAAAATTTTATATTC
Found at i:925452 original size:24 final size:24
Alignment explanation
Indices: 925404--925468 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
925394 TTTGAAAGAA
*
925404 AAAATATTT-AATAAATATAATAT
1 AAAATATTTAAATAAATATAAAAT
*
925427 AATATATTTAAATAAA-ATTAAAAT
1 AAAATATTTAAATAAATA-TAAAAT
925451 AAAAT-TTTAAA-AAATATA
1 AAAATATTTAAATAAATATA
925469 TTTTATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
22 5 0.14
23 16 0.44
24 15 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATATTTAAATAAATATAAAAT
Found at i:927172 original size:17 final size:20
Alignment explanation
Indices: 927141--927191 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 20
927131 TTTATTTTAT
*
927141 TATTTATTATATTATTAA-AA
1 TATTTA-TATTTTATTAATAA
927161 TA-TTAT-TTTTA-TAATAA
1 TATTTATATTTTATTAATAA
927178 TATTTATATTTTAT
1 TATTTATATTTTAT
927192 AATTAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
16 3 0.12
17 8 0.31
18 5 0.19
19 8 0.31
20 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTATATTTTATTAATAA
Found at i:927191 original size:19 final size:19
Alignment explanation
Indices: 927141--927194 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
927131 TTTATTTTAT
*
927141 TATTTATTATATTATTAA-AA
1 TATTTA-TATTTTA-TAATAA
927161 TA-TTAT-TTTTATAATAA
1 TATTTATATTTTATAATAA
927178 TATTTATATTTTATAAT
1 TATTTATATTTTATAAT
927195 TAAATATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 3 0.10
17 8 0.27
18 5 0.17
19 12 0.40
20 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTATATTTTATAATAA
Found at i:927213 original size:22 final size:22
Alignment explanation
Indices: 927185--927256 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 22
927175 TAATATTTAT
927185 ATTTTATAATTAAATATAAATA
1 ATTTTATAATTAAATATAAATA
* *
927207 ATTTTATTATTAAATAATAATTTTA
1 ATTTTATAATTAAAT-ATAA--ATA
927232 A-TTTATATATTAAA-ATAAATA
1 ATTTTATA-ATTAAATATAAATA
927253 ATTT
1 ATTT
927257 GATTTTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 3 0.07
22 16 0.39
23 8 0.20
24 5 0.12
25 9 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTTATAATTAAATATAAATA
Found at i:927237 original size:46 final size:46
Alignment explanation
Indices: 927163--927266 Score: 140
Period size: 46 Copynumber: 2.2 Consensus size: 46
927153 TATTAAAATA
*
927163 TTATTTTTATAATAATATTTATATTTTATA-ATTAAATATAAATAATT
1 TTATTTTTA-AATAATATTTATAATTTATATATTAAA-ATAAATAATT
*
927210 TTATTATTAAATAATAATTT-TAATTTATATATTAAAATAAATAATT
1 TTATTTTTAAATAAT-ATTTATAATTTATATATTAAAATAAATAATT
*
927256 TGATTTTTAAA
1 TTATTTTTAAA
927267 CAGCACCTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
46 33 0.65
47 18 0.35
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (46 bp):
TTATTTTTAAATAATATTTATAATTTATATATTAAAATAAATAATT
Found at i:927261 original size:26 final size:25
Alignment explanation
Indices: 927187--927261 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 25
927177 ATATTTATAT
927187 TTTATA-ATTAAATATAAATAA--T-
1 TTTATATATTAAA-ATAAATAATTTA
927209 TTTAT-TATT-AAAT-AATAATTTTAA
1 TTTATATATTAAAATAAATAA-TTT-A
927233 TTTATATATTAAAATAAATAATTTGA
1 TTTATATATTAAAATAAATAATTT-A
927259 TTT
1 TTT
927262 TTAAACAGCA
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
19 5 0.12
20 2 0.05
21 2 0.05
22 9 0.21
24 5 0.12
25 4 0.09
26 11 0.26
27 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (25 bp):
TTTATATATTAAAATAAATAATTTA
Found at i:927799 original size:21 final size:23
Alignment explanation
Indices: 927773--927818 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
927763 CATAACGAAT
927773 ATAATT-ATATTA-TAAAAT-TTA
1 ATAATTAAT-TTATTAAAATATTA
927794 ATAATTAATTTATTAAAATATTA
1 ATAATTAATTTATTAAAATATTA
927817 AT
1 AT
927819 CATATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 9 0.41
22 8 0.36
23 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAATTAATTTATTAAAATATTA
Done.