Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold43
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: 2559314
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 13088 characters in sequence are not A, C, G, or T
File 7 of 19
Found at i:853642 original size:20 final size:20
Alignment explanation
Indices: 853612--853668 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
853602 ATATATTTTT
*
853612 ATTAATTATTTATTATATTAA
1 ATTATTTATTTA-TATATTAA
853633 A-TATTTATTTA-ATATTAAA
1 ATTATTTATTTATATATT-AA
853652 ATTATTTATTTA-ATATT
1 ATTATTTATTTATATATT
853669 TAAAAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 5 0.15
19 3 0.09
20 24 0.73
21 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATTTATTTATATATTAA
Found at i:853679 original size:21 final size:20
Alignment explanation
Indices: 853635--853680 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
853625 TATATTAAAT
**
853635 ATTTATTTAATATTAAAATT
1 ATTTATTTAATATTAAAAAA
853655 ATTTATTTAATATTTAAAAAA
1 ATTTATTTAATA-TTAAAAAA
853676 ATTTA
1 ATTTA
853681 GTATAATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTATTTAATATTAAAAAA
Found at i:854525 original size:29 final size:29
Alignment explanation
Indices: 854493--854550 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
854483 TCCTATAATT
*
854493 TTGTTATTGACAGCTATCCCTCTAATCAC
1 TTGTTATTGACAACTATCCCTCTAATCAC
*
854522 TTGTTATTGACAACTATCTCTCTAATCAC
1 TTGTTATTGACAACTATCCCTCTAATCAC
854551 GTTAACACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (29 bp):
TTGTTATTGACAACTATCCCTCTAATCAC
Found at i:855388 original size:22 final size:22
Alignment explanation
Indices: 855347--855388 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
855337 GATAAGAGAT
**
855347 CAAGTATATATTTTCGTTAGGA
1 CAAGTATATACCTTCGTTAGGA
*
855369 CAAGTATATACCTTCTTTAG
1 CAAGTATATACCTTCGTTAG
855389 ATCTTGCAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (22 bp):
CAAGTATATACCTTCGTTAGGA
Found at i:859155 original size:29 final size:29
Alignment explanation
Indices: 859123--859180 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
859113 TCCTATAATT
859123 TTGTTATTGACAGCTATCCCTCTAATCAC
1 TTGTTATTGACAGCTATCCCTCTAATCAC
*
859152 TTGTTATTGACAGCTATCTCTCTAATCAC
1 TTGTTATTGACAGCTATCCCTCTAATCAC
859181 GTTAACACGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (29 bp):
TTGTTATTGACAGCTATCCCTCTAATCAC
Found at i:861794 original size:33 final size:33
Alignment explanation
Indices: 861757--861819 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
861747 AAAATAAGAC
*
861757 CATCTTATTTGGCAATTACAGGGGTTAAGAGGA
1 CATCTTATTTGGCAATCACAGGGGTTAAGAGGA
861790 CATCTTATTTGGCAATCACAGGGGTTAAGA
1 CATCTTATTTGGCAATCACAGGGGTTAAGA
861820 AGAGCAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (33 bp):
CATCTTATTTGGCAATCACAGGGGTTAAGAGGA
Found at i:863276 original size:13 final size:13
Alignment explanation
Indices: 863258--863282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
863248 TTAAGTAATT
863258 AATATAAATATTA
1 AATATAAATATTA
863271 AATATAAATATT
1 AATATAAATATT
863283 TTAAAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATATAAATATTA
Found at i:863696 original size:48 final size:47
Alignment explanation
Indices: 863542--863735 Score: 132
Period size: 48 Copynumber: 4.1 Consensus size: 47
863532 ATGAGATGAT
* * *
863542 TTTATTTATACAAAAGTTACT-AATTATTTGT-T-AGAATA-TTTATAAT
1 TTTATTTACACAAAAATTA-TAAATTATTT-TATGAGAA-AGTTTATAAA
* * * *
863588 TTTATTTATATAAAAATTACAAA-TAATTTATGAGAAAGTTTAT-AA
1 TTTATTTACACAAAAATTATAAATTATTTTATGAGAAAGTTTATAAA
* * *
863633 TTTTTTTCACGCAAAAATTATAAATTATTTTATGAAGAGAGTTTATAAA
1 TTTATTT-ACACAAAAATTATAAATTATTTTATG-AGAAAGTTTATAAA
* * * * * *
863682 TTTATCTTA-ACAAAAATTATAAGTTATATTCTGAAAAAAATTTATAAT
1 TTTAT-TTACACAAAAATTATAAATTATTTTATG-AGAAAGTTTATAAA
863730 TTTATT
1 TTTATT
863736 CGTATAAAAA
Statistics
Matches: 118, Mismatches: 21, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
44 1 0.01
45 13 0.11
46 40 0.34
47 9 0.08
48 46 0.39
49 7 0.06
50 2 0.02
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (47 bp):
TTTATTTACACAAAAATTATAAATTATTTTATGAGAAAGTTTATAAA
Found at i:863735 original size:24 final size:25
Alignment explanation
Indices: 863674--863736 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
863664 ATGAAGAGAG
* *
863674 TTTATAAATTTA-TCTTAACAAAAA
1 TTTATAATTTTATTCTGAACAAAAA
*
863698 -TTATAAGTTATATTCTGAA-AAAAA
1 TTTATAA-TTTTATTCTGAACAAAAA
863722 TTTATAATTTTATTC
1 TTTATAATTTTATTC
863737 GTATAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
23 6 0.19
24 15 0.47
25 11 0.34
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46
Consensus pattern (25 bp):
TTTATAATTTTATTCTGAACAAAAA
Found at i:863745 original size:48 final size:47
Alignment explanation
Indices: 863540--863748 Score: 156
Period size: 46 Copynumber: 4.4 Consensus size: 47
863530 TTATGAGATG
* * * * *
863540 ATTTTATTTATACAAAAGTTACT-AATTATTTGT-TAGAATATTTATA
1 ATTTTATTCATACAAAAATTA-TAAATTATTTATGAAGAAAATTTATA
* * * * *
863586 ATTTTATTTATATAAAAATTACAAATAATTTATG-AGAAAGTTTATA
1 ATTTTATTCATACAAAAATTATAAATTATTTATGAAGAAAATTTATA
* ** * *
863632 ATTTTTTTCACGCAAAAATTATAAATTATTTTATGAAGAGAGTTTATA
1 ATTTTATTCATACAAAAATTATAAATTA-TTTATGAAGAAAATTTATA
* * * * *
863680 AATTTA-TCTTAACAAAAATTATAAGTTATATTCTGAAAAAAATTTATA
1 ATTTTATTCAT-ACAAAAATTATAAATTAT-TTATGAAGAAAATTTATA
* *
863728 ATTTTATTCGTATAAAAATTA
1 ATTTTATTCATACAAAAATTA
863749 CGAGTTGTAT
Statistics
Matches: 128, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
46 58 0.45
47 9 0.07
48 58 0.45
49 3 0.02
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (47 bp):
ATTTTATTCATACAAAAATTATAAATTATTTATGAAGAAAATTTATA
Found at i:865921 original size:16 final size:17
Alignment explanation
Indices: 865886--865925 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
865876 ATTGAGTAAG
865886 TCAAATTTGATATCGAAT
1 TCAAA-TTGATATCGAAT
*
865904 TCAAATTGA-ATTGAAT
1 TCAAATTGATATCGAAT
865920 TCAAAT
1 TCAAAT
865926 AATATGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
17 4 0.19
18 5 0.24
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (17 bp):
TCAAATTGATATCGAAT
Found at i:866124 original size:20 final size:20
Alignment explanation
Indices: 866095--866133 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
866085 ATAAATAAAT
866095 ATATAGATATAAAATTTAAG
1 ATATAGATATAAAATTTAAG
* *
866115 ATATATATATAATATTTAA
1 ATATAGATATAAAATTTAA
866134 AATGAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
ATATAGATATAAAATTTAAG
Found at i:867906 original size:17 final size:16
Alignment explanation
Indices: 867874--867909 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
867864 TATAAATATA
867874 ATATAAATTATTAAAT
1 ATATAAATTATTAAAT
*
867890 ATATAAATATTTTAAAT
1 ATATAAAT-TATTAAAT
867907 ATA
1 ATA
867910 ATTATAGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATAAATTATTAAAT
Found at i:871456 original size:14 final size:14
Alignment explanation
Indices: 871439--871468 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
871429 ATTTAAAATT
871439 TATATTTATTTTAA
1 TATATTTATTTTAA
871453 TATATTTATTTTAA
1 TATATTTATTTTAA
871467 TA
1 TA
871469 AATATATTAA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATATTTATTTTAA
Found at i:874295 original size:6 final size:6
Alignment explanation
Indices: 874286--874318 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
874276 TTAAAATAAA
*
874286 ATTTAA ATTT-G ATTTAG ATTTAG ATTTAG ATTT
1 ATTTAG ATTTAG ATTTAG ATTTAG ATTTAG ATTT
874319 TTATTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (6 bp):
ATTTAG
Found at i:875705 original size:16 final size:14
Alignment explanation
Indices: 875666--875732 Score: 54
Period size: 14 Copynumber: 5.0 Consensus size: 14
875656 AATTATTAAA
*
875666 TATATT-AATATTT
1 TATATTAAATATAT
* *
875679 TAAAATAAATATAAT
1 TATATTAAATAT-AT
875694 ATATATTAAATATAT
1 -TATATTAAATATAT
875709 TATATT-AAT-T-T
1 TATATTAAATATAT
875720 TAT-TTAAATATAT
1 TATATTAAATATAT
875733 CGTATTTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
10 2 0.05
11 7 0.16
12 2 0.05
13 8 0.19
14 11 0.26
15 3 0.07
16 10 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TATATTAAATATAT
Found at i:875738 original size:24 final size:24
Alignment explanation
Indices: 875667--875747 Score: 66
Period size: 24 Copynumber: 3.6 Consensus size: 24
875657 ATTATTAAAT
*
875667 ATATTAA-TAT-TTTAAA-ATA-A
1 ATATTAATTATATTTAAATATATC
*
875687 ATA-TAA-TATATATTAAATATATT
1 ATATTAATTATAT-TTAAATATATC
*
875710 ATATTAATTTTATTTAAATATATC
1 ATATTAATTATATTTAAATATATC
* *
875734 GTATTTATTATATT
1 ATATTAATTATATT
875748 ATTTTTATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
19 6 0.12
20 4 0.08
21 5 0.10
22 3 0.06
23 3 0.06
24 24 0.49
25 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (24 bp):
ATATTAATTATATTTAAATATATC
Found at i:876809 original size:17 final size:19
Alignment explanation
Indices: 876782--876819 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
876772 TATGTTTCAT
876782 AAAATTAAATTATT-AATA
1 AAAATTAAATTATTAAATA
*
876800 AAAATT-AATTTTTAAATA
1 AAAATTAAATTATTAAATA
876818 AA
1 AA
876820 TTATTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATTAAATTATTAAATA
Found at i:877366 original size:19 final size:19
Alignment explanation
Indices: 877318--877368 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
877308 TTATAATTAA
*
877318 ATTTAAATTAAAAATATATT
1 ATTTCAATT-AAAATATATT
*
877338 ATTTTAATTAAAA-ATATT
1 ATTTCAATTAAAATATATT
877356 ATTTCAGATTAAA
1 ATTTCA-ATTAAA
877369 TTAATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 10 0.36
19 10 0.36
20 8 0.29
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTCAATTAAAATATATT
Found at i:879078 original size:11 final size:11
Alignment explanation
Indices: 879062--879100 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
879052 TACTGTTGAT
*
879062 ATATTTATAAC
1 ATATTTATATC
*
879073 ATATTTATATT
1 ATATTTATATC
*
879084 ATTTTTATATC
1 ATATTTATATC
879095 ATATTT
1 ATATTT
879101 GAGTTTAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTTATATC
Found at i:879207 original size:17 final size:18
Alignment explanation
Indices: 879156--879251 Score: 67
Period size: 18 Copynumber: 5.3 Consensus size: 18
879146 ATTTATTTTG
* *
879156 TATAAATTTTAATATATT
1 TATATATTTTATTATATT
* *
879174 T-TTTATTCGTATTATATT
1 TATATATT-TTATTATATT
879192 TATATATTTT-TTATATTT
1 TATATATTTTATTATA-TT
879210 TATTATATTTTAATTAT-TT
1 TA-TATATTTT-ATTATATT
*
879229 T-TATATTATATT-TATGT
1 TATATATTTTATTATAT-T
879246 TATATA
1 TATATA
879252 ATTATGTTGT
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
15 1 0.02
16 4 0.06
17 18 0.29
18 19 0.31
19 16 0.26
21 4 0.06
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (18 bp):
TATATATTTTATTATATT
Found at i:879213 original size:27 final size:27
Alignment explanation
Indices: 879167--879251 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
879157 ATAAATTTTA
**
879167 ATATATTTTTTAT-TCGTATTATATTT
1 ATATATTTTTTATATTATATTATATTT
*
879193 ATATATTTTTTATATTTTATTATATTT
1 ATATATTTTTTATATTATATTATATTT
879220 -TA-ATTATTTTTATATTATATT-TATGTT
1 ATATA-T-TTTTTATATTATATTATAT-TT
879247 ATATA
1 ATATA
879252 ATTATGTTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
25 1 0.02
26 19 0.38
27 27 0.54
28 2 0.04
29 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (27 bp):
ATATATTTTTTATATTATATTATATTT
Found at i:879250 original size:11 final size:10
Alignment explanation
Indices: 879161--879241 Score: 73
Period size: 9 Copynumber: 8.4 Consensus size: 10
879151 TTTTGTATAA
*
879161 ATTTTAATAT
1 ATTTTATTAT
879171 ATTTT-TTAT
1 ATTTTATTAT
**
879180 -TCGTATTAT
1 ATTTTATTAT
879189 A-TTTA-TAT
1 ATTTTATTAT
879197 ATTTT-TTAT
1 ATTTTATTAT
879206 ATTTTATTAT
1 ATTTTATTAT
879216 ATTTTAATTAT
1 ATTTT-ATTAT
*
879227 TTTTATATTAT
1 ATTT-TATTAT
879238 ATTT
1 ATTT
879242 ATGTTATATA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
8 6 0.11
9 20 0.35
10 14 0.25
11 16 0.28
12 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (10 bp):
ATTTTATTAT
Found at i:879596 original size:16 final size:15
Alignment explanation
Indices: 879572--879601 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
879562 TAATTATCAA
879572 TTAATTTAAATTTAT
1 TTAATTTAAATTTAT
879587 TTAATATTAAATTTA
1 TTAAT-TTAAATTTA
879602 ATATTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTAATTTAAATTTAT
Found at i:880310 original size:22 final size:24
Alignment explanation
Indices: 880285--880334 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
880275 TTAAAAATAA
*
880285 ATATAATATATA-TT-AATATATT
1 ATATAATATATATTTAAATATATC
* *
880307 ATATTATTTATATTTAAATATATC
1 ATATAATATATATTTAAATATATC
880331 ATAT
1 ATAT
880335 TTATTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 10 0.43
23 2 0.09
24 11 0.48
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATAATATATATTTAAATATATC
Found at i:880318 original size:24 final size:24
Alignment explanation
Indices: 880291--880369 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
880281 ATAAATATAA
880291 TATATATTAATATATTATATTATT
1 TATATATTAATATATTATATTATT
*
880315 TATAT-TTAAATATATCATATT-TAT
1 TATATATT-AATATATTATATTAT-T
**
880339 TATATTATTTTTATATT-TATTAAATT
1 TATA-TATTAATATATTATATT--ATT
880365 TATAT
1 TATAT
880370 TGCGATTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
23 3 0.07
24 26 0.59
25 7 0.16
26 7 0.16
27 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (24 bp):
TATATATTAATATATTATATTATT
Found at i:881406 original size:18 final size:18
Alignment explanation
Indices: 881373--881411 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
881363 TATGTTTGGT
881373 AAAATTAAATTATTAATAC
1 AAAATTAAATTATTAA-AC
*
881392 AAAATT-AATTTTTAAAC
1 AAAATTAAATTATTAAAC
881409 AAA
1 AAA
881412 TTATTCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 8 0.42
19 6 0.32
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTAAATTATTAAAC
Found at i:881943 original size:21 final size:19
Alignment explanation
Indices: 881919--881961 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
881909 TATAATTAAA
881919 TTAAAATAAAATTATATTATT
1 TTAAAATAAAA--ATATTATT
*
881940 TT-AATTAAAAATATTATT
1 TTAAAATAAAAATATTATT
881958 TTAA
1 TTAA
881962 GTCGAGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 10 0.50
19 1 0.05
20 7 0.35
21 2 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAATAAAAATATTATT
Found at i:882059 original size:19 final size:21
Alignment explanation
Indices: 882023--882061 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
882013 AACCGAACAA
882023 ATTATATTTATATAAAAATAT
1 ATTATATTTATATAAAAATAT
*
882044 ATTAT-TTTA-ATTAAAATA
1 ATTATATTTATATAAAAATA
882062 CCATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTATATTTATATAAAAATAT
Found at i:882550 original size:6 final size:6
Alignment explanation
Indices: 882541--882578 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
882531 TAAATTTAAT
*
882541 TAAACA TAAATA TAAA-A TAAATA T-AATA TAAATA TAAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAA
882579 AATTATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (6 bp):
TAAATA
Found at i:882562 original size:11 final size:11
Alignment explanation
Indices: 882541--882579 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
882531 TAAATTTAAT
882541 TAAACATAAATA
1 TAAA-ATAAATA
882553 TAAAATAAATA
1 TAAAATAAATA
*
882564 TAATATAAATA
1 TAAAATAAATA
882575 TAAAA
1 TAAAA
882580 ATTATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 21 0.84
12 4 0.16
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAAATAAATA
Found at i:883476 original size:3 final size:3
Alignment explanation
Indices: 883468--883505 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
883458 AGTTGCATAA
883468 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
883506 ACAAAAACAA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:883815 original size:11 final size:11
Alignment explanation
Indices: 883799--883883 Score: 60
Period size: 11 Copynumber: 8.4 Consensus size: 11
883789 TTTAATTTTT
883799 TATTTATATTA
1 TATTTATATTA
883810 TATTTATA-T-
1 TATTTATATTA
883819 TATTT-T-TTA
1 TATTTATATTA
*
883828 TA-TCATATTA
1 TATTTATATTA
*
883838 TTTTTA-ATTA
1 TATTTATATTA
* *
883848 TTTTTATATCA
1 TATTTATATTA
*
883859 TATATATA-TA
1 TATTTATATTA
883869 T-TTTATAATTA
1 TATTTAT-ATTA
883880 TATT
1 TATT
883884 ATGTAAAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 17
0.70 0.10 0.21
Matches are distributed among these distances:
8 3 0.05
9 12 0.21
10 18 0.32
11 22 0.39
12 2 0.04
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTATATTA
Found at i:883847 original size:27 final size:28
Alignment explanation
Indices: 883793--883867 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
883783 ATAAATTTTA
*
883793 ATTTTTTAT-TTATATTATATTTATATT
1 ATTTTTTATATCATATTATATTTATATT
*
883820 ATTTTTTATATCATATTATTTTTA-ATT
1 ATTTTTTATATCATATTATATTTATATT
883847 A-TTTTTATATCATATATATAT
1 ATTTTTTATATCATAT-TATAT
883868 ATTTTATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 14 0.33
27 17 0.40
28 12 0.28
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (28 bp):
ATTTTTTATATCATATTATATTTATATT
Found at i:883874 original size:26 final size:25
Alignment explanation
Indices: 883793--883872 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 25
883783 ATAAATTTTA
*
883793 ATTTTTTATTTATAT--TATATTTAT
1 ATTTTTT-TTTATATCATATATATAT
* * *
883817 ATTATTTTTTATATCATATTATTTTT
1 ATTTTTTTTTATATCATA-TATATAT
* *
883843 AATTATTTTTATATCATATATATAT
1 ATTTTTTTTTATATCATATATATAT
883868 ATTTT
1 ATTTT
883873 ATAATTATAT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
23 7 0.16
24 6 0.14
25 10 0.23
26 21 0.48
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (25 bp):
ATTTTTTTTTATATCATATATATAT
Found at i:884215 original size:26 final size:27
Alignment explanation
Indices: 884152--884216 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
884142 TTTAAAATTT
*
884152 AAATCTTTAATT-TTAAATTAATATTAA
1 AAAT-TTTAATTATTAAATTAATATAAA
*
884179 AAATTAT-ATTATTAAATTAA-ATAAA
1 AAATTTTAATTATTAAATTAATATAAA
884204 AAATTTTAATTAT
1 AAATTTTAATTAT
884217 CAATTATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 13 0.39
26 16 0.48
27 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
AAATTTTAATTATTAAATTAATATAAA
Found at i:884221 original size:25 final size:26
Alignment explanation
Indices: 884152--884222 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 26
884142 TTTAAAATTT
* *
884152 AAATCTTTAATTTTAAATTAATATTAA
1 AAAT-TTTAATTATAAATTAATATAAA
*
884179 AAATTAT-ATTATTAAATTAA-ATAAA
1 AAATTTTAATTA-TAAATTAATATAAA
*
884204 AAATTTTAATTATCAATTA
1 AAATTTTAATTATAAATTA
884223 TATTTAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
25 19 0.51
26 14 0.38
27 4 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (26 bp):
AAATTTTAATTATAAATTAATATAAA
Found at i:884249 original size:12 final size:14
Alignment explanation
Indices: 884233--884265 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
884223 TATTTAAATT
884233 TATTTAATAC-TAA
1 TATTTAATACTTAA
884246 -ATTTAATACTTAA
1 TATTTAATACTTAA
884259 TATTTAA
1 TATTTAA
884266 AAATTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.50
13 3 0.17
14 6 0.33
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTTAATACTTAA
Found at i:884297 original size:9 final size:9
Alignment explanation
Indices: 884273--884312 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
884263 TAAAAATTTC
884273 AAATTAA-T
1 AAATTAATT
884281 AAATTTAATT
1 AAA-TTAATT
884291 AAATTAATT
1 AAATTAATT
*
884300 AAATCAATT
1 AAATTAATT
884309 AAAT
1 AAAT
884313 AAAAATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 3 0.10
9 22 0.76
10 4 0.14
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (9 bp):
AAATTAATT
Found at i:887297 original size:15 final size:15
Alignment explanation
Indices: 887277--887312 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
887267 ACATTTAAAC
887277 ATGTATTAAACATAG
1 ATGTATTAAACATAG
887292 ATGTATTAAACATAG
1 ATGTATTAAACATAG
887307 ATGTAT
1 ATGTAT
887313 GATATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (15 bp):
ATGTATTAAACATAG
Found at i:891667 original size:2 final size:2
Alignment explanation
Indices: 891660--891701 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
891650 TCACATCAAA
* *
891660 AT AT AT AT A- AT AA AA AT -T 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
891700 AT
1 AT
891702 GAATTCTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:892329 original size:15 final size:16
Alignment explanation
Indices: 892311--892348 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
892301 AATATAGATA
*
892311 TATTTTATTTTTTAT-
1 TATTTAATTTTTTATG
*
892326 TATTAAATTTTTTATG
1 TATTTAATTTTTTATG
892342 TATTTAA
1 TATTTAA
892349 AAAGATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TATTTAATTTTTTATG
Found at i:893642 original size:11 final size:11
Alignment explanation
Indices: 893615--893648 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
893605 AAATTTTTAT
893615 AAATTTAAAT-
1 AAATTTAAATA
*
893625 TAATTTAAATA
1 AAATTTAAATA
893636 AAATTTAAATA
1 AAATTTAAATA
893647 AA
1 AA
893649 TATATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATTTAAATA
Found at i:893649 original size:10 final size:10
Alignment explanation
Indices: 893613--893649 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
893603 TTAAATTTTT
893613 ATAAATTTAA
1 ATAAATTTAA
*
893623 ATTAATTTAA
1 ATAAATTTAA
893633 ATAAAATTTAA
1 AT-AAATTTAA
893644 ATAAAT
1 ATAAAT
893650 ATATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATAAATTTAA
Found at i:894981 original size:30 final size:31
Alignment explanation
Indices: 894954--895039 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 31
894944 TTTTTTATCG
894954 TATT-ATAA-TTATAATTA-AATTATTTTATA
1 TATTAATAATTTAT-ATTATAATTATTTTATA
*
894983 TATTAATAATTTATATTATATTTATTTTAATA
1 TATTAATAATTTATATTATAATTATTTT-ATA
*
895015 TATTTAT-ATATTAT-TTATATATTAT
1 TATTAATAAT-TTATATTATA-ATTAT
895040 ATCATATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 4 0.08
30 8 0.17
31 19 0.40
32 17 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (31 bp):
TATTAATAATTTATATTATAATTATTTTATA
Found at i:895018 original size:19 final size:19
Alignment explanation
Indices: 894972--895054 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
894962 TTATAATTAA
894972 ATTATTTTATATATTA-AT
1 ATTATTTTATATATTATAT
894990 A--A--TT-TATATTATAT
1 ATTATTTTATATATTATAT
895004 -TTATTTTAATATATTTATAT
1 ATTATTTT-ATATA-TTATAT
895024 ATTA-TTTATATATTATAT
1 ATTATTTTATATATTATAT
895042 CA-TATTTTATATA
1 -ATTATTTTATATA
895055 ATATTTATAT
Statistics
Matches: 54, Mismatches: 0, Indels: 21
0.72 0.00 0.28
Matches are distributed among these distances:
13 7 0.13
14 4 0.07
15 1 0.02
16 1 0.02
17 2 0.04
18 9 0.17
19 18 0.33
20 9 0.17
21 3 0.06
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTATTTTATATATTATAT
Found at i:895031 original size:11 final size:11
Alignment explanation
Indices: 894972--895064 Score: 62
Period size: 11 Copynumber: 9.0 Consensus size: 11
894962 TTATAATTAA
894972 ATTATTT-TAT
1 ATTATTTATAT
*
894982 A-TATTAATA-
1 ATTATTTATAT
894991 ATTTATATTATAT
1 A-TTAT-TTATAT
895004 -TTATTT-TA-
1 ATTATTTATAT
895012 ATATATTTATAT
1 AT-TATTTATAT
895024 ATTATTTATAT
1 ATTATTTATAT
895035 ATTA--TATCAT
1 ATTATTTAT-AT
895045 A-T-TTTATAT
1 ATTATTTATAT
*
895054 AATATTTATAT
1 ATTATTTATAT
895065 CATATGACCA
Statistics
Matches: 67, Mismatches: 2, Indels: 27
0.70 0.02 0.28
Matches are distributed among these distances:
9 15 0.22
10 17 0.25
11 29 0.43
12 6 0.09
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTATTTATAT
Found at i:895051 original size:12 final size:12
Alignment explanation
Indices: 895031--895069 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
895021 TATATTATTT
*
895031 ATATATTATATC
1 ATATTTTATATC
*
895043 ATATTTTATATA
1 ATATTTTATATC
895055 ATA-TTTATATC
1 ATATTTTATATC
895066 ATAT
1 ATAT
895070 GACCAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (12 bp):
ATATTTTATATC
Found at i:895053 original size:30 final size:27
Alignment explanation
Indices: 894972--895064 Score: 104
Period size: 30 Copynumber: 3.4 Consensus size: 27
894962 TTATAATTAA
894972 ATTATTTTATATATTAATA-ATTTATAT
1 ATTA-TTTATATATTAATATATTTATAT
894999 -TATATTTAT-T-TTAATATATTTATAT
1 AT-TATTTATATATTAATATATTTATAT
895024 ATTATTTATATATTATATCATATTTTATAT
1 ATTATTTATATATTA-AT-ATA-TTTATAT
*
895054 AATATTTATAT
1 ATTATTTATAT
895065 CATATGACCA
Statistics
Matches: 57, Mismatches: 1, Indels: 13
0.80 0.01 0.18
Matches are distributed among these distances:
24 6 0.11
25 16 0.28
26 8 0.14
27 5 0.09
28 2 0.04
29 3 0.05
30 17 0.30
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (27 bp):
ATTATTTATATATTAATATATTTATAT
Found at i:895057 original size:43 final size:40
Alignment explanation
Indices: 894977--895058 Score: 94
Period size: 43 Copynumber: 2.0 Consensus size: 40
894967 ATTAAATTAT
* *
894977 TTTATATATTAATAATTTATATTATATTTATTTTAATATA
1 TTTATATATTAATAATTTATATCATATTTATTATAATATA
*
895017 TTTATATATTATTTATATATTATATCATATTT-TATATAATAT
1 TTTATATATTA-ATA-AT-TTATATCATATTTAT-TATAATAT
895059 TTATATCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
40 11 0.31
41 2 0.06
42 3 0.09
43 19 0.54
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (40 bp):
TTTATATATTAATAATTTATATCATATTTATTATAATATA
Found at i:895452 original size:22 final size:21
Alignment explanation
Indices: 895427--895483 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
895417 TATTGATAAT
* *
895427 TAATTTTTTTTAAGTTTATGTC
1 TAATTTTTTTTAAATTAAT-TC
** *
895449 TAATTACTTTTAAATTAATTT
1 TAATTTTTTTTAAATTAATTC
895470 TAA-TTTTTTTAAAT
1 TAATTTTTTTTAAAT
895484 ATAAAATTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 9 0.32
21 4 0.14
22 15 0.54
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
TAATTTTTTTTAAATTAATTC
Found at i:896726 original size:21 final size:23
Alignment explanation
Indices: 896701--896757 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
896691 AATATATTTT
*
896701 TATTTAAATTTAAT-TATAA-AA
1 TATTTAAATTTAATGTAAAATAA
*
896722 TATTTAAATATTGATGTAAAATAA
1 TATTTAAAT-TTAATGTAAAATAA
896746 TATTTAATATTT
1 TATTTAA-ATTT
896758 TTAAATAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 9 0.30
22 4 0.13
23 4 0.13
24 11 0.37
25 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
TATTTAAATTTAATGTAAAATAA
Found at i:897526 original size:18 final size:17
Alignment explanation
Indices: 897502--897553 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 17
897492 ATTACGGTAT
897502 TTTATATTTATATAAAA
1 TTTATATTTATATAAAA
897519 TTTGATATATT-TAT--AA
1 TTT-ATAT-TTATATAAAA
897535 TTTATA-TTATAT-AAA
1 TTTATATTTATATAAAA
897550 TTTA
1 TTTA
897554 AAATATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.10
15 9 0.29
16 5 0.16
17 3 0.10
18 7 0.23
19 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTATATTTATATAAAA
Found at i:897548 original size:32 final size:32
Alignment explanation
Indices: 897502--897609 Score: 96
Period size: 31 Copynumber: 3.4 Consensus size: 32
897492 ATTACGGTAT
* *
897502 TTTATATTTATATAAAATTTGATATATTTATA-A
1 TTTATA-TTATAT-AAATTTAAAATATTTATATA
897535 TTTATATTATATAAATTTAAAATATTTATATA
1 TTTATATTATATAAATTTAAAATATTTATATA
** ** **
897567 TTCGTATTATATTTATATTATTAT-TTTATAT-
1 TTTATATTATATAAAT-TTAAAATATTTATATA
897598 TTTATATTATAT
1 TTTATATTATAT
897610 TTTAATTATT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
31 26 0.41
32 26 0.41
33 11 0.17
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (32 bp):
TTTATATTATATAAATTTAAAATATTTATATA
Found at i:897578 original size:19 final size:18
Alignment explanation
Indices: 897502--897610 Score: 71
Period size: 19 Copynumber: 5.8 Consensus size: 18
897492 ATTACGGTAT
* *
897502 TTTATAT-TTATATAAAA
1 TTTATATATTATATTATA
897519 TTTGATATATTTATAATTTATA
1 TTT-ATATA-TTAT-A-TTATA
* **
897541 TTATATAAATT-TAAAATA
1 TT-TATATATTATATTATA
*
897559 TTTATATATTCGTATTATA
1 TTTATATATT-ATATTATA
*
897578 TTTATATTATTATTTTATA
1 TTTATA-TATTATATTATA
897597 TTT-TATATTATATT
1 TTTATATATTATATT
897611 TTAATTATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
17 18 0.25
18 11 0.15
19 21 0.29
20 9 0.12
21 3 0.04
22 9 0.12
23 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTATATATTATATTATA
Found at i:897602 original size:12 final size:12
Alignment explanation
Indices: 897573--897613 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
897563 TATATTCGTA
897573 TTATATTTATATT
1 TTAT-TTTATATT
897586 ATTATTTTATATT
1 -TTATTTTATATT
*
897599 TTATATTATATT
1 TTATTTTATATT
897611 TTA
1 TTA
897614 ATTATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 14 0.54
13 8 0.31
14 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTTATATT
Found at i:897610 original size:31 final size:28
Alignment explanation
Indices: 897526--897634 Score: 87
Period size: 31 Copynumber: 3.6 Consensus size: 28
897516 AAATTTGATA
* *
897526 TATTTATA-ATTTATATTATATAAATTTAAAA
1 TATTTATATATTTTTATTATAT---TTT-AAT
**
897557 TATTTATATATTCGTATTATATTTATATTAT
1 TATTTATATATTTTTATTATATTT-TA--AT
897588 TATTT-TATATTTTATATTATATTTTAAT
1 TATTTATATATTTT-TATTATATTTTAAT
897616 TATTTAATATATTTTTATT
1 TATTT-ATATATTTTTATT
897635 GAATAATCAT
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
28 7 0.11
29 7 0.11
30 17 0.26
31 24 0.36
32 11 0.17
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (28 bp):
TATTTATATATTTTTATTATATTTTAAT
Found at i:897611 original size:19 final size:19
Alignment explanation
Indices: 897573--897634 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
897563 TATATTCGTA
897573 TTATA-TTTATATTATTATT
1 TTATATTTTATATTA-TATT
897592 TTATATTTTATATTATATT
1 TTATATTTTATATTATATT
*
897611 TTA-ATTATT-TAATATATT
1 TTATATT-TTATATTATATT
897629 TT-TATT
1 TTATATT
897635 GAATAATCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 16 0.41
19 14 0.36
20 9 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATTTTATATTATATT
Found at i:897621 original size:20 final size:18
Alignment explanation
Indices: 897573--897634 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 18
897563 TATATTCGTA
897573 TTATATTTATATTATTATT
1 TTATATTTATATTA-TATT
897592 TTATATTTTATATTATATT
1 TTATA-TTTATATTATATT
897611 TTAATTATTTA-A-TATATT
1 TT-A-TATTTATATTATATT
897629 TT-TATT
1 TTATATT
897635 GAATAATCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.10
18 8 0.20
19 12 0.30
20 14 0.35
21 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATATTTATATTATATT
Found at i:898769 original size:2 final size:2
Alignment explanation
Indices: 898752--898798 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
898742 TTTGCCTATC
* *
898752 AT AT AA AT AA 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
898794 AT AT A
1 AT AT A
898799 ATTAAGCCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:899553 original size:52 final size:53
Alignment explanation
Indices: 899469--899573 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 53
899459 AACATATAAT
* ** * **
899469 ATAAAACTTATGTTCATGTTCTTGTTGAAATATCAAACCCAATAGTTAAACAA
1 ATAAAACTTAAGTTCATGTTCTCATTGAAATATCAAACCAAATAACTAAACAA
* *
899522 ATAAAAC-TAAGTTCTTGTTCTCATTGGAATATCAAACCAAATAACTAAACAA
1 ATAAAACTTAAGTTCATGTTCTCATTGAAATATCAAACCAAATAACTAAACAA
899574 TATACAATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
52 37 0.84
53 7 0.16
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (53 bp):
ATAAAACTTAAGTTCATGTTCTCATTGAAATATCAAACCAAATAACTAAACAA
Found at i:900271 original size:2 final size:2
Alignment explanation
Indices: 900264--900295 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
900254 TTTGTGATCA
900264 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
900296 TCATTATATT
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:902691 original size:2 final size:2
Alignment explanation
Indices: 902684--902729 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
902674 AGAAGCAATG
902684 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
902726 AT AT
1 AT AT
902730 GCACACAGCT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:903856 original size:25 final size:27
Alignment explanation
Indices: 903822--903872 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
903812 ATAATTTTAG
*
903822 TTTGAATTTAAA-AAATTTTATTAAAT
1 TTTGAATTTAAATAAATTTGATTAAAT
*
903848 TTTG-ATTTAAATTAATTTGATTAAA
1 TTTGAATTTAAATAAATTTGATTAAA
903873 AAATTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (27 bp):
TTTGAATTTAAATAAATTTGATTAAAT
Found at i:903915 original size:16 final size:16
Alignment explanation
Indices: 903894--903930 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
903884 TTAAATTGAT
903894 TAATTCAAACTTAAAA
1 TAATTCAAACTTAAAA
* *
903910 TAATTCAAATTTAGAA
1 TAATTCAAACTTAAAA
903926 TAATT
1 TAATT
903931 TGAACATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (16 bp):
TAATTCAAACTTAAAA
Found at i:903966 original size:31 final size:32
Alignment explanation
Indices: 903905--903966 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
903895 AATTCAAACT
*
903905 TAAAATAATTCAAATTTAGAATAATTTGAACA
1 TAAAATAATTCAAATTTAGAATAATCTGAACA
* * *
903937 TAAAAT-ATTTAAATTTATAATGATCTGAAC
1 TAAAATAATTCAAATTTAGAATAATCTGAAC
903967 TCGAAATAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.37
Consensus pattern (32 bp):
TAAAATAATTCAAATTTAGAATAATCTGAACA
Found at i:905169 original size:3 final size:3
Alignment explanation
Indices: 905161--905242 Score: 164
Period size: 3 Copynumber: 27.3 Consensus size: 3
905151 AATATTGGCT
905161 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
905209 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
905243 CCTCTCGTCT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:905658 original size:21 final size:22
Alignment explanation
Indices: 905622--905663 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
905612 ATGTAATTAA
905622 ATACAAATAAATAATAAAAATTT
1 ATACAAAT-AATAATAAAAATTT
905645 ATACAAAT-ATAATAAAAAT
1 ATACAAATAATAATAAAAAT
905664 ATAAAATCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (22 bp):
ATACAAATAATAATAAAAATTT
Found at i:906343 original size:19 final size:18
Alignment explanation
Indices: 906319--906377 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
906309 TAAAAATAAT
906319 TAAAATATAATATAAAACA
1 TAAAATATAATATAAAA-A
906338 TAAAAT-T-ATATAAAAA
1 TAAAATATAATATAAAAA
*
906354 AATAAATATAATATAAAATA
1 TA-AAATATAATATAAAA-A
906374 TAAA
1 TAAA
906378 TTTATCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
16 2 0.06
17 12 0.35
18 2 0.06
19 16 0.47
20 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAATATAATATAAAAA
Found at i:906350 original size:17 final size:17
Alignment explanation
Indices: 906328--906382 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
906318 TTAAAATATA
*
906328 ATATAAAACATAAAATT
1 ATATAAAAAATAAAATT
*
906345 ATATAAAAAAATAAATATA
1 ATAT-AAAAAATAAA-ATT
* *
906364 ATATAAAATATAAATTT
1 ATATAAAAAATAAAATT
906381 AT
1 AT
906383 CAAAATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 7 0.23
18 18 0.58
19 6 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAAATAAAATT
Found at i:906362 original size:36 final size:34
Alignment explanation
Indices: 906321--906399 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 34
906311 AAAATAATTA
906321 AAATATAATATAAAACATAAAATTATATAAAAAAAT
1 AAATATAATATAAAACAT-AAATT-TATAAAAAAAT
* * *
906357 AAATATAATATAAAATATAAATTTATCAAAATAT
1 AAATATAATATAAAACATAAATTTATAAAAAAAT
906391 ATAATATAA
1 A-AATATAA
906400 ATTATTAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
34 10 0.26
35 12 0.31
36 17 0.44
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (34 bp):
AAATATAATATAAAACATAAATTTATAAAAAAAT
Found at i:906372 original size:12 final size:12
Alignment explanation
Indices: 906309--906376 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
906299 AAATATTACT
906309 TAAAA-ATAAT-
1 TAAAATATAATA
906319 TAAAATATAATA
1 TAAAATATAATA
* *
906331 TAAAACATAAAA
1 TAAAATATAATA
* * *
906343 TTATATA-AAAA
1 TAAAATATAATA
*
906354 AATAAATATAATA
1 TA-AAATATAATA
906367 TAAAATATAA
1 TAAAATATAA
906377 ATTTATCAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
10 5 0.11
11 9 0.20
12 26 0.59
13 4 0.09
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (12 bp):
TAAAATATAATA
Found at i:906376 original size:18 final size:19
Alignment explanation
Indices: 906321--906399 Score: 73
Period size: 17 Copynumber: 4.4 Consensus size: 19
906311 AAAATAATTA
906321 AAATATAATATAAAACATA-
1 AAATATAATATAAAA-ATAT
*
906340 AAAT-T-ATATAAAAAAAT
1 AAATATAATATAAAAATAT
906357 AAATATAATAT-AAAATAT
1 AAATATAATATAAAAATAT
*
906375 AAAT-T--TATCAAAATAT
1 AAATATAATATAAAAATAT
906391 ATAATATAA
1 A-AATATAA
906400 ATTATTAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
15 3 0.06
16 10 0.20
17 16 0.32
18 13 0.26
19 8 0.16
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATATAATATAAAAATAT
Found at i:906768 original size:16 final size:16
Alignment explanation
Indices: 906747--906781 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
906737 TTGAGATTAT
*
906747 ATTAATTTGGATTTGA
1 ATTAATTTAGATTTGA
*
906763 ATTAATTTAGATTTTA
1 ATTAATTTAGATTTGA
906779 ATT
1 ATT
906782 GTTTTGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (16 bp):
ATTAATTTAGATTTGA
Found at i:907681 original size:13 final size:14
Alignment explanation
Indices: 907658--907691 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
907648 ACTAATTAAC
907658 ATAATATATATAAAA
1 ATAATATAT-TAAAA
*
907673 ATAATATATTAAAT
1 ATAATATATTAAAA
907687 ATAAT
1 ATAAT
907692 TTTGTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATATATTAAAA
Found at i:909270 original size:15 final size:16
Alignment explanation
Indices: 909247--909299 Score: 67
Period size: 15 Copynumber: 3.4 Consensus size: 16
909237 ATTTATAAAT
909247 TTATATTTTATTTATA
1 TTATATTTTATTTATA
*
909263 TTATTTTTTA-TTATA
1 TTATATTTTATTTATA
909278 TTATATTTTAATTT-T-
1 TTATATTTT-ATTTATA
909293 TTATATT
1 TTATATT
909300 ATTTTTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 20 0.61
16 11 0.33
17 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATATTTTATTTATA
Found at i:909281 original size:20 final size:19
Alignment explanation
Indices: 909246--909308 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
909236 AATTTATAAA
*
909246 TTTATATTTTAT-TTATAT
1 TTTATTTTTTATATTATAT
909264 TATT-TTTTATTATATTATAT
1 T-TTATTTT-TTATATTATAT
909284 TTTAATTTTTTATATTAT-T
1 TTT-ATTTTTTATATTATAT
909303 TTTATT
1 TTTATT
909309 AAATAATTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 7 0.18
19 12 0.31
20 16 0.41
21 4 0.10
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTATTTTTTATATTATAT
Found at i:909284 original size:26 final size:23
Alignment explanation
Indices: 909247--909296 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 23
909237 ATTTATAAAT
*
909247 TTATATTTTATTTATATTATTTTTTA
1 TTATATTATATTT-TA--ATTTTTTA
909273 TTATATTATATTTTAATTTTTTA
1 TTATATTATATTTTAATTTTTTA
909296 T
1 T
909297 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 9 0.39
25 2 0.09
26 12 0.52
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTATATTATATTTTAATTTTTTA
Found at i:911537 original size:15 final size:15
Alignment explanation
Indices: 911461--911542 Score: 51
Period size: 15 Copynumber: 5.5 Consensus size: 15
911451 CCTTTATTTT
911461 TTAAATTT-AT-AAA
1 TTAAATTTAATAAAA
* * *
911474 TTAAATTAAATATAT
1 TTAAATTTAATAAAA
**
911489 TTAATTATTTTTTAAAA
1 TTAA--ATTTAATAAAA
* **
911506 TAAAATTTAATTTAA
1 TTAAATTTAATAAAA
*
911521 TTTAATTTAATAAAA
1 TTAAATTTAATAAAA
911536 TTAAATT
1 TTAAATT
911543 AAAAATTTAC
Statistics
Matches: 47, Mismatches: 18, Indels: 6
0.66 0.25 0.08
Matches are distributed among these distances:
13 7 0.15
14 2 0.04
15 29 0.62
17 9 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAAATTTAATAAAA
Found at i:912211 original size:21 final size:21
Alignment explanation
Indices: 912187--912226 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
912177 TTAATTTAAA
912187 AATTAATTTTTAAAA-AATATT
1 AATTAA-TTTTAAAATAATATT
*
912208 AATTTATTTTAAAATAATA
1 AATTAATTTTAAAATAATA
912227 CAATCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTAATTTTAAAATAATATT
Found at i:912400 original size:20 final size:21
Alignment explanation
Indices: 912361--912400 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
912351 TATAATATTT
* *
912361 TTATATGAATTTTTTTAAATA
1 TTATATGAAATTTTTGAAATA
912382 TTATAT-AAATTTTTGAAAT
1 TTATATGAAATTTTTGAAAT
912401 TTGAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TTATATGAAATTTTTGAAATA
Found at i:916698 original size:27 final size:26
Alignment explanation
Indices: 916667--916725 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
916657 TTACAATTAT
916667 TATTTAATTA-ATAAAATTTATAATATA
1 TATTT-ATTAGATAAAA-TTATAATATA
**
916694 TATTTATTAGTATAAAATTATTTTATA
1 TATTTATTAG-ATAAAATTATAATATA
916721 TATTT
1 TATTT
916726 TAATACACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 18 0.64
28 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
TATTTATTAGATAAAATTATAATATA
Found at i:917792 original size:20 final size:20
Alignment explanation
Indices: 917751--917792 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
917741 ATATAGATAA
* *
917751 AATTTATTTTTTATTAGTTT
1 AATTTATTTTTTACTAGATT
917771 AATTTAATTTTTTACT-GATT
1 AATTT-ATTTTTTACTAGATT
917791 AA
1 AA
917793 ATCAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (20 bp):
AATTTATTTTTTACTAGATT
Found at i:918892 original size:2 final size:2
Alignment explanation
Indices: 918885--918909 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
918875 ATCTATAATT
918885 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 T
918910 TCACCTAATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:921901 original size:21 final size:21
Alignment explanation
Indices: 921840--921893 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
921830 ATCTGTTGAA
921840 ACTCCACCTGTTTTGGAGTAT
1 ACTCCACCTGTTTTGGAGTAT
921861 ACTCCACCTGTTTTGGAGTAT
1 ACTCCACCTGTTTTGGAGTAT
921882 ACTCCACCTGTT
1 ACTCCACCTGTT
921894 GCGGAGTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.37
Consensus pattern (21 bp):
ACTCCACCTGTTTTGGAGTAT
Found at i:924861 original size:11 final size:12
Alignment explanation
Indices: 924844--924873 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
924834 AGAATGCTAT
924844 TATAATATAAAA
1 TATAATATAAAA
924856 -ATAATATAAAA
1 TATAATATAAAA
924867 TATAATA
1 TATAATA
924874 CGTGATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TATAATATAAAA
Found at i:925883 original size:6 final size:6
Alignment explanation
Indices: 925872--925898 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
925862 TTTAAAAAAA
925872 TAAATT TAAATT TAAATT TAAATT TAA
1 TAAATT TAAATT TAAATT TAAATT TAA
925899 CTTGATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAAATT
Found at i:926344 original size:16 final size:16
Alignment explanation
Indices: 926323--926353 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
926313 ATTAAAATAA
926323 TTTTAAATATTAAATT
1 TTTTAAATATTAAATT
926339 TTTTAAATATTAAAT
1 TTTTAAATATTAAAT
926354 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTAAATATTAAATT
Found at i:927128 original size:15 final size:15
Alignment explanation
Indices: 927094--927169 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
927084 TAATTTGAAT
* *
927094 ATTAAATTTAATATA
1 ATTAAATTTAAAAAA
* *
927109 TTTAATTTTAAAAAA
1 ATTAAATTTAAAAAA
927124 ATTAAATTTAAAATAA
1 ATTAAATTTAAAA-AA
* * * *
927140 TTTAAAATCAAAATA
1 ATTAAATTTAAAAAA
*
927155 ATTCAAATTCAAAAA
1 ATT-AAATTTAAAAA
927170 TTTATATTAA
Statistics
Matches: 46, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
15 25 0.54
16 21 0.46
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTAAATTTAAAAAA
Found at i:927144 original size:16 final size:16
Alignment explanation
Indices: 927095--927168 Score: 71
Period size: 16 Copynumber: 4.8 Consensus size: 16
927085 AATTTGAATA
*
927095 TTAAATTTAATAT-AT
1 TTAAATTTAAAATAAT
* *
927110 TTAATTTTAAAA-AAA
1 TTAAATTTAAAATAAT
927125 TTAAATTTAAAATAAT
1 TTAAATTTAAAATAAT
* *
927141 TTAAAATCAAAATAAT
1 TTAAATTTAAAATAAT
* *
927157 TCAAATTCAAAA
1 TTAAATTTAAAA
927169 ATTTATATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
15 22 0.46
16 26 0.54
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAATTTAAAATAAT
Found at i:927476 original size:18 final size:17
Alignment explanation
Indices: 927428--927476 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
927418 TATATTTTTT
927428 AAAATTTATATAATA-C
1 AAAATTTATATAATATC
*
927444 -AAA-TTATAAATATATC
1 AAAATTTATATA-ATATC
927460 AAAATTTATATCAATAT
1 AAAATTTATAT-AATAT
927477 ATTTTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
14 6 0.23
15 6 0.23
16 1 0.04
17 3 0.12
18 9 0.35
19 1 0.04
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTTATATAATATC
Found at i:928895 original size:10 final size:11
Alignment explanation
Indices: 928882--928918 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
928872 TTATTATTTT
928882 TAAAT-AATTA
1 TAAATAAATTA
928892 TAAATAAATTA
1 TAAATAAATTA
*
928903 -AATTAAATTA
1 TAAATAAATTA
928913 TAAATA
1 TAAATA
928919 TATTTATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATAAATTA
Found at i:930927 original size:23 final size:23
Alignment explanation
Indices: 930895--930939 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
930885 TATTTTTATT
*
930895 TAAATTTAATTATAAA-AATTTA
1 TAAATTTAATTAAAAATAATTTA
930917 TAAATATTAATTAAAAATAATTT
1 TAAAT-TTAATTAAAAATAATTT
930940 TATTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 10 0.50
24 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAATTTAATTAAAAATAATTTA
Found at i:930988 original size:6 final size:6
Alignment explanation
Indices: 930977--931001 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
930967 CACACCAAAA
930977 TAAATT TAAATT TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT T
931002 TTTTCAAATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:934777 original size:23 final size:23
Alignment explanation
Indices: 934751--934796 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
934741 CGTGAATGAC
934751 TTAATTTGTTAATAACAAAAGTA
1 TTAATTTGTTAATAACAAAAGTA
934774 TTAATTTGTTAATAACAAAAGTA
1 TTAATTTGTTAATAACAAAAGTA
934797 CAATAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (23 bp):
TTAATTTGTTAATAACAAAAGTA
Found at i:935260 original size:24 final size:23
Alignment explanation
Indices: 935234--935277 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
935224 TGATAGAATA
*
935234 AAAATTACACAAATTAAATTTGT
1 AAAATGACACAAATTAAATTTGT
* *
935257 AAAATGATACAAATTTAATTT
1 AAAATGACACAAATTAAATTT
935278 TTATTTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (23 bp):
AAAATGACACAAATTAAATTTGT
Found at i:935573 original size:15 final size:15
Alignment explanation
Indices: 935553--935582 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
935543 TTTAAATAAT
935553 TTCTAATAGAGTTAA
1 TTCTAATAGAGTTAA
*
935568 TTCTAATAGATTTAA
1 TTCTAATAGAGTTAA
935583 ATTGCAGACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (15 bp):
TTCTAATAGAGTTAA
Found at i:935685 original size:64 final size:63
Alignment explanation
Indices: 935615--935739 Score: 187
Period size: 64 Copynumber: 2.0 Consensus size: 63
935605 TTATTATTGG
* * *
935615 TAATAAATATTACTCATAAATATCAAAAATAAAAAAAGTTAATATCGTAAAATAATATTTATTA
1 TAATAAATATTAATCATAAATATCAAAAATAAAAAAAGTTAA-ATCATAAAATAATAATTATTA
* **
935679 TAATAAATATTAATCATAAATATCAATAATAAAAAATTTTAAATCATAAAATAATAATTAT
1 TAATAAATATTAATCATAAATATCAAAAATAAAAAAAGTTAAATCATAAAATAATAATTAT
935740 AATTACAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 17 0.31
64 38 0.69
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (63 bp):
TAATAAATATTAATCATAAATATCAAAAATAAAAAAAGTTAAATCATAAAATAATAATTATTA
Found at i:935699 original size:13 final size:13
Alignment explanation
Indices: 935678--935711 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
935668 AATATTTATT
*
935678 ATAATAAATATTA
1 ATAATAAATATCA
*
935691 ATCATAAATATCA
1 ATAATAAATATCA
935704 ATAATAAA
1 ATAATAAA
935712 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAAATATCA
Found at i:935700 original size:29 final size:31
Alignment explanation
Indices: 935668--935742 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
935658 ATCGTAAAAT
*
935668 AATATTTATTATAATAAATATT-AATCAT-A
1 AATATTAATTATAATAAATATTAAATCATAA
* * * *
935697 AATATCAATAATAAAAAATTTTAAATCATAA
1 AATATTAATTATAATAAATATTAAATCATAA
*
935728 AATAATAATTATAAT
1 AATATTAATTATAAT
935743 TACAAATTAC
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 17 0.49
30 6 0.17
31 12 0.34
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (31 bp):
AATATTAATTATAATAAATATTAAATCATAA
Found at i:935757 original size:63 final size:64
Alignment explanation
Indices: 935619--935757 Score: 156
Period size: 64 Copynumber: 2.2 Consensus size: 64
935609 TATTGGTAAT
* * * * * *
935619 AAATATTACTCATAAATATCAAAAATAAAAAAAGTTAATATCGTAAAATAATATTTATTATAAT
1 AAATATCAATCATAAATATCAAAAATAAAAAAAGTTAATATCATAAAATAATAATTATAATAAC
* * ** *
935683 AAATATTAATCATAAATATCAATAATAAAAAATTTTAA-ATCATAAAATAATAATTATAATTAC
1 AAATATCAATCATAAATATCAAAAATAAAAAAAGTTAATATCATAAAATAATAATTATAATAAC
935746 AAAT-TACAATCA
1 AAATAT-CAATCA
935758 CTATTTAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
62 1 0.02
63 29 0.45
64 34 0.53
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (64 bp):
AAATATCAATCATAAATATCAAAAATAAAAAAAGTTAATATCATAAAATAATAATTATAATAAC
Found at i:941888 original size:30 final size:30
Alignment explanation
Indices: 941843--941930 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
941833 TAATATTTAA
941843 TAATTTAAATTAATTAATTAAAAATAATAT
1 TAATTTAAATTAATTAATTAAAAATAATAT
941873 T-ATTTAAATTTAATT-A-TAAAAATATATAT
1 TAATTTAAA-TTAATTAATTAAAAATA-ATAT
* * *
941902 TAATATAAAATTAA-TATTTATAAATAATA
1 TAAT-TTAAATTAATTAATTAAAAATAATA
941931 AATGTGCTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
28 8 0.16
29 14 0.29
30 16 0.33
31 11 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
TAATTTAAATTAATTAATTAAAAATAATAT
Found at i:942863 original size:22 final size:22
Alignment explanation
Indices: 942837--942879 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
942827 AAAAATTTAA
942837 TTTTAT-ATTAATATTTATATAT
1 TTTTATAATTAA-ATTTATATAT
942859 TTTTATAATTAAATTTATATA
1 TTTTATAATTAAATTTATATA
942880 AATAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTATAATTAAATTTATATAT
Found at i:943646 original size:15 final size:15
Alignment explanation
Indices: 943626--943656 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
943616 TTTATTATTT
943626 TTTAATATAATATCA
1 TTTAATATAATATCA
943641 TTTAATATAATATCA
1 TTTAATATAATATCA
943656 T
1 T
943657 CTTTAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAATATAATATCA
Found at i:944372 original size:11 final size:11
Alignment explanation
Indices: 944339--944397 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
944329 TATATGAGTC
944339 ATATTTTTATT
1 ATATTTTTATT
*
944350 ATTTTTTATATT
1 ATATTTT-TATT
*
944362 ACATTTTTATT
1 ATATTTTTATT
*
944373 ATATTTTAATT
1 ATATTTTTATT
944384 -T-TTTTATATT
1 ATATTTT-TATT
944394 ATAT
1 ATAT
944398 CTAAAATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
11 20 0.53
12 10 0.26
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (11 bp):
ATATTTTTATT
Found at i:944376 original size:16 final size:14
Alignment explanation
Indices: 944351--944394 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
944341 ATTTTTATTA
944351 TTTTTTATATTACAT
1 TTTTTTATATTA-AT
944366 TTTTATTATATTTTAAT
1 TTTT-TTATA--TTAAT
944383 TTTTTTATATTA
1 TTTTTTATATTA
944395 TATCTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.12
15 4 0.15
16 10 0.38
17 6 0.23
18 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTTATATTAAT
Found at i:944760 original size:12 final size:12
Alignment explanation
Indices: 944730--944760 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
944720 ATACATATCA
944730 TTTTATAAATTT
1 TTTTATAAATTT
944742 TTCTTATAAATTT
1 TT-TTATAAATTT
944755 TTTTAT
1 TTTTAT
944761 TTTTACTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATAAATTT
Found at i:945556 original size:3 final size:3
Alignment explanation
Indices: 945550--945582 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
945540 TGACTTGATG
945550 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
945583 TTTAAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:947075 original size:18 final size:18
Alignment explanation
Indices: 947054--947088 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
947044 TATATTTAAT
947054 TTAA-TAATTATATAAAAA
1 TTAATTAATTAT-TAAAAA
947072 TTAATTAATTATTAAAA
1 TTAATTAATTATTAAAA
947089 CGATCAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAATTAATTATTAAAAA
Found at i:947603 original size:9 final size:9
Alignment explanation
Indices: 947576--947616 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
947566 TATATTACTT
947576 ATTTTTTAA
1 ATTTTTTAA
*
947585 A-ATTTTAA
1 ATTTTTTAA
947593 ATTTTTTAA
1 ATTTTTTAA
947602 ATTATTTT-A
1 ATT-TTTTAA
947611 ATTTTT
1 ATTTTT
947617 AATTATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 10 0.36
9 14 0.50
10 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:947617 original size:17 final size:19
Alignment explanation
Indices: 947576--947624 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 19
947566 TATATTACTT
947576 ATTTTTTAAA--ATTTTAA
1 ATTTTTTAAATTATTTTAA
947593 ATTTTTTAAATTATTTT-A
1 ATTTTTTAAATTATTTTAA
947611 A-TTTTT-AATTATTT
1 ATTTTTTAAATTATTT
947625 AATATACGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.27
17 15 0.50
18 2 0.07
19 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTTAAATTATTTTAA
Found at i:948231 original size:2 final size:2
Alignment explanation
Indices: 948224--948255 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
948214 AAGTGCATAA
948224 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
948256 CAATTGCCCA
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:948712 original size:11 final size:10
Alignment explanation
Indices: 948682--948723 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
948672 TTTCGGTTCA
*
948682 AATTTTATTA
1 AATTTTATTT
*
948692 AATTTGATTT
1 AATTTTATTT
948702 AATTTTAATTT
1 AATTTT-ATTT
948713 AATTTTATTT
1 AATTTTATTT
948723 A
1 A
948724 GTATGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
AATTTTATTT
Found at i:948909 original size:62 final size:62
Alignment explanation
Indices: 948843--948965 Score: 192
Period size: 62 Copynumber: 2.0 Consensus size: 62
948833 AAATTATAAA
* * *
948843 AATATTTTTAAAATTAAAAAATTTATGAATCGAATCAATTTAAATCAATAAATTTTAATTTT
1 AATATTTTTAAAATTAAAAAATATATAAATCAAATCAATTTAAATCAATAAATTTTAATTTT
* * *
948905 AATATTTTTAAATTTAAAAAATATATAAATTAAATCAATTTAAATTAATAAATTTTAATTT
1 AATATTTTTAAAATTAAAAAATATATAAATCAAATCAATTTAAATCAATAAATTTTAATTT
948966 AAATCAATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (62 bp):
AATATTTTTAAAATTAAAAAATATATAAATCAAATCAATTTAAATCAATAAATTTTAATTTT
Found at i:948950 original size:15 final size:15
Alignment explanation
Indices: 948930--948977 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
948920 AAAAAATATA
948930 TAAATTAAATCAATT
1 TAAATTAAATCAATT
*
948945 TAAATT-AATAAATTT
1 TAAATTAAATCAA-TT
*
948960 TAATTTAAATCAATT
1 TAAATTAAATCAATT
948975 TAA
1 TAA
948978 TTATAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 5 0.18
15 18 0.64
16 5 0.18
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAATTAAATCAATT
Found at i:948970 original size:30 final size:30
Alignment explanation
Indices: 948875--948985 Score: 120
Period size: 30 Copynumber: 3.7 Consensus size: 30
948865 TTATGAATCG
* *
948875 AATCAATTTAAATCAATAAATTTTAATTTT
1 AATCAATTTAAATTAATAAATTTTAATTTA
* * * *
948905 AAT-ATTTTTAAATTTAAAAAATATATAAATTA
1 AATCA-ATTTAAA-TTAATAAAT-TTTAATTTA
948937 AATCAATTTAAATTAATAAATTTTAATTTA
1 AATCAATTTAAATTAATAAATTTTAATTTA
948967 AATCAATTT-AATT-ATAAAT
1 AATCAATTTAAATTAATAAAT
948986 ATTATCATAC
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
28 6 0.09
29 5 0.07
30 25 0.37
31 15 0.22
32 15 0.22
33 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (30 bp):
AATCAATTTAAATTAATAAATTTTAATTTA
Found at i:948978 original size:15 final size:15
Alignment explanation
Indices: 948934--948985 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
948924 AATATATAAA
*
948934 TTAAATCAATTTAAA
1 TTAAATCAATTTAAT
*
948949 TT-AATAAATTTTAAT
1 TTAAATCAA-TTTAAT
948964 TTAAATCAATTTAAT
1 TTAAATCAATTTAAT
948979 TATAAAT
1 T-TAAAT
948986 ATTATCATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 5 0.16
15 16 0.52
16 10 0.32
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAAATCAATTTAAT
Found at i:949413 original size:2 final size:2
Alignment explanation
Indices: 949406--949430 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
949396 CTTCTTCGAA
949406 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
949431 GAAAATCGAA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:953255 original size:15 final size:15
Alignment explanation
Indices: 953210--953255 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
953200 AAATAATAAT
953210 TATAATATTCAAATC
1 TATAATATTCAAATC
*
953225 TGAATATTATTCAAATC
1 T--ATAATATTCAAATC
*
953242 TATAATATTTAAAT
1 TATAATATTCAAAT
953256 TTACAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 12 0.46
17 14 0.54
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (15 bp):
TATAATATTCAAATC
Found at i:956976 original size:23 final size:24
Alignment explanation
Indices: 956930--956989 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 24
956920 TTTGAAAAAA
956930 ATTTAAATTTTATTAATTTATTTAT
1 ATTTAAA-TTTATTAATTTATTTAT
956955 ATTTAAA-TTATT-ATTTATTT-T
1 ATTTAAATTTATTAATTTATTTAT
*
956976 ATTAAAAATTTATT
1 ATT-TAAATTTATT
956990 TTATATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 4 0.12
22 11 0.34
23 10 0.31
25 7 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTAAATTTATTAATTTATTTAT
Done.