Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold63
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: 2211945
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 524 characters in sequence are not A, C, G, or T
File 5 of 16
Found at i:755764 original size:24 final size:25
Alignment explanation
Indices: 755737--755793 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
755727 TTCTTTCTTC
*
755737 TCTTCCTCTCCTTTCT-TTCCATCT
1 TCTTCCTCCCCTTTCTCTTCCATCT
** *
755761 TCTTCAACCCCTTTCTCTTCCATTT
1 TCTTCCTCCCCTTTCTCTTCCATCT
755786 TCTCTCCT
1 TCT-TCCT
755794 TCAGCTGGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 13 0.52
25 10 0.40
26 2 0.08
ACGTcount: A:0.07, C:0.42, G:0.00, T:0.51
Consensus pattern (25 bp):
TCTTCCTCCCCTTTCTCTTCCATCT
Found at i:756529 original size:15 final size:15
Alignment explanation
Indices: 756509--756558 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
756499 TATTAGAATT
756509 TTAAAAATATAAAAA
1 TTAAAAATATAAAAA
* *
756524 TT-AAAATATTAAAT
1 TTAAAAATATAAAAA
*
756538 TTAATAATATAAAAA
1 TTAAAAATATAAAAA
756553 TTAAAA
1 TTAAAA
756559 TATTTTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:756531 original size:14 final size:14
Alignment explanation
Indices: 756512--756561 Score: 73
Period size: 14 Copynumber: 3.5 Consensus size: 14
756502 TAGAATTTTA
756512 AAAATATAAAAATT
1 AAAATATAAAAATT
* *
756526 AAAATATTAAATTT
1 AAAATATAAAAATT
756540 AATAATATAAAAATT
1 AA-AATATAAAAATT
756555 AAAATAT
1 AAAATAT
756562 TTTTATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:756541 original size:29 final size:31
Alignment explanation
Indices: 756499--756562 Score: 105
Period size: 29 Copynumber: 2.1 Consensus size: 31
756489 AGGATCAATT
756499 TATTAGAATTTTAAAAATATAAAAATTAAAA
1 TATTAGAATTTTAAAAATATAAAAATTAAAA
*
756530 TATTA-AA-TTTAATAATATAAAAATTAAAA
1 TATTAGAATTTTAAAAATATAAAAATTAAAA
756559 TATT
1 TATT
756563 TTTATTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 25 0.78
30 2 0.06
31 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (31 bp):
TATTAGAATTTTAAAAATATAAAAATTAAAA
Found at i:757295 original size:20 final size:21
Alignment explanation
Indices: 757247--757323 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 21
757237 TAATTTTTTT
*
757247 ATTAT-TAATATTTAAATTTA
1 ATTATATAATATTTAAATATA
757267 ATT-TAATAAT-TTTAAATATA
1 ATTAT-ATAATATTTAAATATA
*
757287 ATTATATAA-ATAT-AATAT-
1 ATTATATAATATTTAAATATA
*
757305 A-TATAAAATA-TTAAATATA
1 ATTATATAATATTTAAATATA
757324 TAACATAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
17 7 0.15
18 7 0.15
19 6 0.13
20 21 0.46
21 5 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTATATAATATTTAAATATA
Found at i:757296 original size:14 final size:14
Alignment explanation
Indices: 757279--757326 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 14
757269 TTAATAATTT
757279 TAAATATAATTATA
1 TAAATATAATTATA
757293 TAAATATAATATATA
1 TAAATATAAT-TATA
*
757308 TAAAATATTAAATATA
1 T-AAATA-TAATTATA
757324 TAA
1 TAA
757327 CATAATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 10 0.33
15 7 0.23
16 10 0.33
17 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATATAATTATA
Found at i:757315 original size:16 final size:16
Alignment explanation
Indices: 757280--757326 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
757270 TAATAATTTT
757280 AAATATAAT-TATAT-
1 AAATATAATATATATA
757294 AAATATAATATATATA
1 AAATATAATATATATA
757310 AAATATTAA-ATATATA
1 AAATA-TAATATATATA
757326 A
1 A
757327 CATAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.30
15 5 0.17
16 13 0.43
17 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAATATATATA
Found at i:758789 original size:22 final size:22
Alignment explanation
Indices: 758746--758788 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
758736 ATATTTATTA
* *
758746 AATTAAATTTAAATATTAAAAG
1 AATTAAAATTAAAAATTAAAAG
758768 AATTAAAAATTAAAAATTAAA
1 AATT-AAAATTAAAAATTAAA
758789 GGAAATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AATTAAAATTAAAAATTAAAAG
Found at i:759229 original size:17 final size:16
Alignment explanation
Indices: 759194--759243 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
759184 TACAAATTAA
*
759194 AAATTAAAT-TAAA-T
1 AAATTTAATATAAATT
759208 AAATTTAATTATAAATT
1 AAATTTAA-TATAAATT
* *
759225 AAATTTCATAAAAATT
1 AAATTTAATATAAATT
759241 AAA
1 AAA
759244 ATCGAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 7 0.23
15 1 0.03
16 14 0.47
17 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTTAATATAAATT
Found at i:759870 original size:28 final size:27
Alignment explanation
Indices: 759834--759933 Score: 84
Period size: 28 Copynumber: 3.7 Consensus size: 27
759824 GCTTTGATAG
759834 TAAA-TTAAATATTTATATATTTTTTA
1 TAAATTTAAATATTTATATATTTTTTA
* *
759860 TAATATTTAAAT-TTATATAAATATTTTA
1 TAA-ATTTAAATATT-TATATATTTTTTA
*
759888 -AAATTTAAGTTTATTTAT-TATTTATTT-
1 TAAATTTAA--ATATTTATATATTT-TTTA
*
759915 TAAATTTATATATTTATAT
1 TAAATTTAAATATTTATAT
759934 TTAAATCTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 17
0.71 0.09 0.21
Matches are distributed among these distances:
26 16 0.28
27 9 0.16
28 31 0.53
29 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (27 bp):
TAAATTTAAATATTTATATATTTTTTA
Found at i:759876 original size:26 final size:26
Alignment explanation
Indices: 759844--759929 Score: 76
Period size: 26 Copynumber: 3.5 Consensus size: 26
759834 TAAATTAAAT
759844 ATTTATATATTTTTTATAATATTTAA
1 ATTTATATATTTTTTATAATATTTAA
*
759870 ATTTATATAAATATTTTA-AA-ATTTAA
1 ATTTATAT--ATTTTTTATAATATTTAA
* * *
759896 GTTTATTTA-TTATT-T-AT-TTTAA
1 ATTTATATATTTTTTATAATATTTAA
759918 ATTTATATATTT
1 ATTTATATATTT
759930 ATATTTAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
22 13 0.27
23 5 0.10
24 1 0.02
26 20 0.42
27 2 0.04
28 7 0.15
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (26 bp):
ATTTATATATTTTTTATAATATTTAA
Found at i:759893 original size:20 final size:20
Alignment explanation
Indices: 759839--759894 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
759829 GATAGTAAAT
* * *
759839 TAAATATTTATATATTTTTTA
1 TAAATATTT-TAAAATTTATA
759860 T-AATA-TTT-AAATTTATA
1 TAAATATTTTAAAATTTATA
759877 TAAATATTTTAAAATTTA
1 TAAATATTTTAAAATTTA
759895 AGTTTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 7 0.24
18 5 0.17
19 5 0.17
20 11 0.38
21 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAATATTTTAAAATTTATA
Found at i:759938 original size:20 final size:18
Alignment explanation
Indices: 759900--759939 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 18
759890 ATTTAAGTTT
759900 ATTTATTATTTATTTTAA
1 ATTTATTATTTATTTTAA
759918 ATTTATATATTTATATTTAA
1 ATTTAT-TATTTAT-TTTAA
759938 AT
1 AT
759940 CTAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 7 0.35
20 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATTATTTATTTTAA
Found at i:762671 original size:24 final size:25
Alignment explanation
Indices: 762622--762672 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
762612 TAAAAATTCG
* *
762622 TAAAAATTATATTATAATTAATGAT
1 TAAAAATTATATTAAAAGTAATGAT
762647 TAAAAATT-TATTAAAAAGTAA-GAT
1 TAAAAATTATATT-AAAAGTAATGAT
762671 TA
1 TA
762673 GTCTTTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (25 bp):
TAAAAATTATATTAAAAGTAATGAT
Found at i:765099 original size:17 final size:18
Alignment explanation
Indices: 765067--765104 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
765057 TTGATTATAT
765067 AAATTATTGATTAAAAATA
1 AAATTATT-ATTAAAAATA
*
765086 AAATTATT-TTAAAATTA
1 AAATTATTATTAAAAATA
765103 AA
1 AA
765105 TTTAATGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAATTATTATTAAAAATA
Found at i:765105 original size:16 final size:18
Alignment explanation
Indices: 765066--765106 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
765056 TTTGATTATA
765066 TAAATTATTGATTAAAAAT
1 TAAATTATT-ATTAAAAAT
*
765085 AAAATTATT-TT-AAAAT
1 TAAATTATTATTAAAAAT
765101 TAAATT
1 TAAATT
765107 TAATGACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 10 0.50
17 2 0.10
19 8 0.40
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TAAATTATTATTAAAAAT
Found at i:765142 original size:5 final size:5
Alignment explanation
Indices: 765127--765169 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
765117 AATTATAATT
765127 ATATAA ATATA ATATA A-ATA ATATA AT-TAA ATATA ATATA ATA
1 ATAT-A ATATA ATATA ATATA ATATA ATAT-A ATATA ATATA ATA
765170 CGATATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 5 0.15
5 24 0.71
6 5 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:765177 original size:15 final size:15
Alignment explanation
Indices: 765120--765168 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
765110 TGACATTAAT
*
765120 TATAATTATATA-AA
1 TATAATTAAATATAA
765134 TATAA-TATAA-ATAA
1 TATAATTA-AATATAA
765148 TATAATTAAATATAA
1 TATAATTAAATATAA
765163 TATAAT
1 TATAAT
765169 ACGATATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 3 0.10
14 15 0.50
15 12 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TATAATTAAATATAA
Found at i:765209 original size:26 final size:25
Alignment explanation
Indices: 765173--765232 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
765163 TATAATACGA
*
765173 TATAAATATATAAATATT-TTAAAATT
1 TATAAAAATATAAA-ATTATTAAAA-T
*
765199 TATATAAATATAAAATTATTAAAAT
1 TATAAAAATATAAAATTATTAAAAT
765224 TATAAAAAT
1 TATAAAAAT
765233 TTACTGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TATAAAAATATAAAATTATTAAAAT
Found at i:768565 original size:10 final size:10
Alignment explanation
Indices: 768550--768579 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
768540 GTTTGAATAA
768550 TTTAAATTAT
1 TTTAAATTAT
*
768560 TTTAAATTAA
1 TTTAAATTAT
768570 TTTAAATTAT
1 TTTAAATTAT
768580 GTCAAACTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTAAATTAT
Found at i:773180 original size:22 final size:24
Alignment explanation
Indices: 773152--773204 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
773142 ACATATTTAT
*
773152 ATATAAAAAAAT-ATTAAAATATA
1 ATATAAAAAAATAATAAAAATATA
**
773175 AT-TAAAACTATAATAAAAATATA
1 ATATAAAAAAATAATAAAAATATA
773198 ATATAAA
1 ATATAAA
773205 TATTAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 7 0.28
23 14 0.56
24 4 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
ATATAAAAAAATAATAAAAATATA
Found at i:773188 original size:12 final size:11
Alignment explanation
Indices: 773164--773217 Score: 58
Period size: 11 Copynumber: 4.8 Consensus size: 11
773154 ATAAAAAAAT
773164 ATTAAAATATA
1 ATTAAAATATA
773175 ATTAAAACTATA
1 ATTAAAA-TATA
*
773187 ATAAAAATATA
1 ATTAAAATATA
773198 A-TATAAATATTA
1 ATTA-AAATA-TA
773210 A-TAAAATA
1 ATTAAAATA
773218 ACATATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 1 0.03
11 22 0.58
12 15 0.39
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
ATTAAAATATA
Found at i:773299 original size:25 final size:25
Alignment explanation
Indices: 773232--773302 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 25
773222 ATTAAAATTT
*
773232 ATATTATATAAATTATTAATATTTTAA
1 ATATTATAT-AATTA-TATTATTTTAA
*
773259 ATTTTATATAATTATATTATTTTAA
1 ATATTATATAATTATATTATTTTAA
773284 ATATTATTATAATATATAT
1 ATATTA-TATAAT-TATAT
773303 AAATACATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
25 15 0.38
26 11 0.28
27 13 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATTATATAATTATATTATTTTAA
Found at i:774030 original size:2 final size:2
Alignment explanation
Indices: 774025--774052 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
774015 ATACACACAC
774025 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
774053 TGCCTGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:774267 original size:10 final size:10
Alignment explanation
Indices: 774215--774274 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
774205 AAATAATATT
774215 ATTTTAA-AA
1 ATTTTAATAA
* *
774224 AATTTAATAT
1 ATTTTAATAA
**
774234 ATTTATAATTT
1 ATTT-TAATAA
*
774245 ATATTATATAA
1 ATTTTA-ATAA
774256 ATTTTAATAA
1 ATTTTAATAA
774266 ATTTTAATA
1 ATTTTAATA
774275 TTTATATCGT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
9 6 0.15
10 19 0.47
11 15 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTTAATAA
Found at i:774823 original size:19 final size:18
Alignment explanation
Indices: 774801--774852 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
774791 TTGTAATTAT
774801 TTTTAAAATATTATATAAA
1 TTTTAAAATATTAT-TAAA
*
774820 TTTTAATATATTATTAAA
1 TTTTAAAATATTATTAAA
*
774838 TTAT-AAATATT-TTAA
1 TTTTAAAATATTATTAA
774853 TATATCATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 4 0.13
17 6 0.20
18 7 0.23
19 13 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTTAAAATATTATTAAA
Found at i:774840 original size:27 final size:27
Alignment explanation
Indices: 774810--774862 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
774800 TTTTTAAAAT
*
774810 ATTATATAA-ATTTTAATATATTATTAA
1 ATTATA-AATATTTTAATATATCATTAA
774837 ATTATAAATATTTTAATATATCATTA
1 ATTATAAATATTTTAATATATCATTA
774863 TTATTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTATAAATATTTTAATATATCATTAA
Found at i:774847 original size:17 final size:17
Alignment explanation
Indices: 774806--774852 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
774796 ATTATTTTTA
*
774806 AAATATTATATAAATTTT
1 AAATATTAT-TAAATTAT
774824 AATATATTATTAAATTAT
1 AA-ATATTATTAAATTAT
774842 AAATATT-TTAA
1 AAATATTATTAA
774853 TATATCATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 4 0.15
17 5 0.19
18 11 0.41
19 7 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATATTATTAAATTAT
Found at i:775212 original size:16 final size:15
Alignment explanation
Indices: 775188--775249 Score: 79
Period size: 16 Copynumber: 4.0 Consensus size: 15
775178 TAATATCAAA
*
775188 TAAAATCAAATTAATT
1 TAAATTCAAATT-ATT
775204 TAAATTCAAATTATT
1 TAAATTCAAATTATT
*
775219 AAAAATTCAAATTATT
1 -TAAATTCAAATTATT
*
775235 TAAATTTAAATTATT
1 TAAATTCAAATTATT
775250 AATTTTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
15 16 0.39
16 25 0.61
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAATTCAAATTATT
Found at i:775224 original size:31 final size:31
Alignment explanation
Indices: 775189--775251 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
775179 AATATCAAAT
775189 AAAA-TCAAATTAATTTAAATTCAAATTATTA
1 AAAATTCAAATT-ATTTAAATTCAAATTATTA
*
775220 AAAATTCAAATTATTTAAATTTAAATTATTA
1 AAAATTCAAATTATTTAAATTCAAATTATTA
775251 A
1 A
775252 TTTTTTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 23 0.77
32 7 0.23
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (31 bp):
AAAATTCAAATTATTTAAATTCAAATTATTA
Found at i:775805 original size:18 final size:19
Alignment explanation
Indices: 775755--775839 Score: 75
Period size: 24 Copynumber: 4.2 Consensus size: 19
775745 AAAAATAAAA
775755 ATTAAATATATTAATATATT
1 ATTAAATATATT-ATATATT
775775 AATTATAAT-TATTATATATT
1 -ATTA-AATATATTATATATT
775795 -TTAAATATATTATATTACTCCT
1 ATTAAATATATTATA-TA-T--T
*
775817 ATTTAAATATATTATATAAT
1 A-TTAAATATATTATATATT
775837 ATT
1 ATT
775840 TTTATTAAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 18
0.74 0.01 0.24
Matches are distributed among these distances:
17 3 0.05
18 10 0.18
19 4 0.07
20 10 0.18
21 8 0.15
22 4 0.07
23 2 0.04
24 14 0.25
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTAAATATATTATATATT
Found at i:778171 original size:2 final size:2
Alignment explanation
Indices: 778164--778203 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
778154 CTCATATAGA
*
778164 AT AT AT AT AT AT AT CT 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
778204 CGTAGGTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:780166 original size:13 final size:13
Alignment explanation
Indices: 780148--780181 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
780138 TATTCATTAA
780148 TTTATATTATATT
1 TTTATATTATATT
*
780161 TTTATATCATATT
1 TTTATATTATATT
*
780174 TTAATATT
1 TTTATATT
780182 TCTCAATATT
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:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTATATTATATT
Found at i:783016 original size:2 final size:2
Alignment explanation
Indices: 783009--783038 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
782999 TGAAATTATC
783009 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
783039 GAACTATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:783361 original size:2 final size:2
Alignment explanation
Indices: 783354--783384 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
783344 AAGAAGAAAA
783354 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
783385 ATTGCATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:790602 original size:26 final size:26
Alignment explanation
Indices: 790554--790607 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
790544 AAAAATATTT
*
790554 AATATATTTATAAATATTAATATTAA
1 AATATATTTATAAATATTAATATAAA
* *
790580 AATATAATTTTTAAAT-TTTATATAAA
1 AATAT-ATTTATAAATATTAATATAAA
790606 AA
1 AA
790608 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AATATATTTATAAATATTAATATAAA
Found at i:791438 original size:17 final size:17
Alignment explanation
Indices: 791414--791452 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
791404 ATAAATAAAT
791414 TAAAATATAT-TT-ATA
1 TAAAATATATATTCATA
791429 TAAAATATATATTCATA
1 TAAAATATATATTCATA
*
791446 TCAAATA
1 TAAAATA
791453 CTAATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 2 0.10
17 9 0.43
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATATATATTCATA
Found at i:792093 original size:2 final size:2
Alignment explanation
Indices: 792086--792128 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
792076 CCCAACAAAG
792086 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
792128 A
1 A
792129 AAAGAAATAT
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:792558 original size:2 final size:2
Alignment explanation
Indices: 792551--792583 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
792541 AAGATTTTTA
792551 TC TC TC TC 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 TC TC TC TC T
792584 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:792588 original size:2 final size:2
Alignment explanation
Indices: 792583--792613 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
792573 TCTCTCTCTC
792583 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
792614 CATTTCTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:793925 original size:24 final size:24
Alignment explanation
Indices: 793880--793925 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
793870 GGAAAAACTA
*
793880 TTAATATTTTATAAAAATAATATT
1 TTAATATTTTATAAAAAAAATATT
*
793904 TTAATAATTTT-TAAATAAAATA
1 TTAAT-ATTTTATAAAAAAAATA
793926 AATAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAATATTTTATAAAAAAAATATT
Found at i:795897 original size:23 final size:23
Alignment explanation
Indices: 795822--795893 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 23
795812 AACTTAGGTT
* * *
795822 ATATATTTATTTATTTAATAAATAA
1 ATATATTTAATAATTT-TTAAA-AA
* * *
795847 ATAAATTTAATATTTTTTATAAA
1 ATATATTTAATAATTTTTAAAAA
795870 ATATATTT-ATAATTTTTAAAAA
1 ATATATTTAATAATTTTTAAAAA
795892 AT
1 AT
795894 TATAAATACA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
22 14 0.37
23 9 0.24
24 3 0.08
25 12 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATATTTAATAATTTTTAAAAA
Found at i:797105 original size:33 final size:32
Alignment explanation
Indices: 797078--797164 Score: 88
Period size: 32 Copynumber: 2.7 Consensus size: 32
797068 ATTTTTTTAT
797078 ATTA-TAATTTTATATTTATATAAATTTTGATAC
1 ATTAGTAA-TTTATA-TTATATAAATTTTGATAC
* * * *
797111 ATTAGTAATTTATATTATATACATTTTAAAAT
1 ATTAGTAATTTATATTATATAAATTTTGATAC
*
797143 ATTCGTAAATTTATA-TATATAA
1 ATTAGT-AATTTATATTATATAA
797165 TTTAAATTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
32 25 0.54
33 18 0.39
34 3 0.07
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (32 bp):
ATTAGTAATTTATATTATATAAATTTTGATAC
Found at i:798818 original size:7 final size:7
Alignment explanation
Indices: 798806--798832 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
798796 CCTTCCCGCG
798806 CATTATT
1 CATTATT
798813 CATTATT
1 CATTATT
798820 CATTATT
1 CATTATT
798827 CATTAT
1 CATTAT
798833 GACGCCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (7 bp):
CATTATT
Found at i:799206 original size:429 final size:429
Alignment explanation
Indices: 798402--799248 Score: 1633
Period size: 428 Copynumber: 2.0 Consensus size: 429
798392 AGTTCTTTTG
*
798402 ATGAGGCCAAACTGAATTATGATCAGTTTTGTTTTCTTAAAGAAAATTTGGGAGGGATGAAATGA
1 ATGACGCCAAACTGAATTATGATCAGTTTTGTTTTCTTAAAGAAAATTTGGGAGGGATGAAATGA
798467 AGAAAAGGATTTTGCAGTAGCCATTTAAATTTATAACTTGATAGATTCTAAGTTTTTTCTTTTCA
66 AGAAAAGGATTTTGCAGTAGCCATTTAAATTTATAACTTGATAGATTCTAAGTTTTTTCTTTTCA
798532 TTGATTCCTGTTGTTCTCATTAACCATATGGCATTGTGAATGATCACATTATCTTCGATGTTCTG
131 TTGATTCCTGTTGTTCTCATTAACCATATGGCATTGTGAATGATCACATTATCTTCGATGTTCTG
798597 TTATCGTATCCGTTATGATTATTTTGAAAGTTCGGTACTCAAGTTCATTAAGATTTAAAATGAAT
196 TTATCGTATCCGTTATGATTATTTTGAAAGTTCGGTACTCAAGTTCATTAAGATTTAAAATGAAT
798662 GACCACCTGCATTTTTTTCCCTATTCTGATTAATAAATTATTCGATAAAACATTTTCGGCAATGT
261 GACCACCTGCATTTTTTTCCCTATTCTGATTAATAAATTATTCGATAAAACATTTTCGGCAATGT
798727 TTTGTTTTCAAATGTATTTGGTTATTATGAAAGTTCTGTATTCTAGTTCTTTTAGGTTTTAACAT
326 TTTGTTTTCAAATGTATTTGGTTATTATGAAAGTTCTGTATTCTAGTTCTTTTAGGTTTTAACAT
798792 GTGACCTTCCCGCGCATTATTCATTATTCATTATTCATT
391 GTGACCTTCCCGCGCATTATTCATTATTCATTATTCATT
*
798831 ATGACGCCAAACTGAATTATGATCAGTTTTGTTTTCTTAAAGAAAATTTGGGAGGGTTGAAATGA
1 ATGACGCCAAACTGAATTATGATCAGTTTTGTTTTCTTAAAGAAAATTTGGGAGGGATGAAATGA
798896 AGAAAAGGATTTTGCAGTAGCCATTTAAATTTATAACTTGATAGATTCTAAG-TTTTTCTTTTCA
66 AGAAAAGGATTTTGCAGTAGCCATTTAAATTTATAACTTGATAGATTCTAAGTTTTTTCTTTTCA
798960 TTGATTCCTGTTGTTCTCATTAACCATATGGCATTGTGAATGATCACATTATCTTCGATGTTCTG
131 TTGATTCCTGTTGTTCTCATTAACCATATGGCATTGTGAATGATCACATTATCTTCGATGTTCTG
*
799025 TTATCGTATCCGTTATGATTATTTTGAAAGTTCGGTACTCAAGTTCATTAAGATTTAAAATGAGT
196 TTATCGTATCCGTTATGATTATTTTGAAAGTTCGGTACTCAAGTTCATTAAGATTTAAAATGAAT
799090 GACCACCTGCATTTTTTTCCCTATTCTGATTAATAAATTATTCGATAAAACATTTTCGGCAATGT
261 GACCACCTGCATTTTTTTCCCTATTCTGATTAATAAATTATTCGATAAAACATTTTCGGCAATGT
*
799155 TTTGTTTTCAAATGTATTTTGGTTATTATGAAAGTTCTGTATTCTAGTTCTTTTAGTTTTTAACA
326 TTTGTTTTCAAATGTA-TTTGGTTATTATGAAAGTTCTGTATTCTAGTTCTTTTAGGTTTTAACA
*
799220 TGTGACCTTCCCGTGCATTATTCATTATT
390 TGTGACCTTCCCGCGCATTATTCATTATT
799249 TCGGTTATGC
Statistics
Matches: 412, Mismatches: 5, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
428 222 0.54
429 190 0.46
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (429 bp):
ATGACGCCAAACTGAATTATGATCAGTTTTGTTTTCTTAAAGAAAATTTGGGAGGGATGAAATGA
AGAAAAGGATTTTGCAGTAGCCATTTAAATTTATAACTTGATAGATTCTAAGTTTTTTCTTTTCA
TTGATTCCTGTTGTTCTCATTAACCATATGGCATTGTGAATGATCACATTATCTTCGATGTTCTG
TTATCGTATCCGTTATGATTATTTTGAAAGTTCGGTACTCAAGTTCATTAAGATTTAAAATGAAT
GACCACCTGCATTTTTTTCCCTATTCTGATTAATAAATTATTCGATAAAACATTTTCGGCAATGT
TTTGTTTTCAAATGTATTTGGTTATTATGAAAGTTCTGTATTCTAGTTCTTTTAGGTTTTAACAT
GTGACCTTCCCGCGCATTATTCATTATTCATTATTCATT
Found at i:802197 original size:57 final size:57
Alignment explanation
Indices: 802109--802224 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
802099 GAGAATGTTC
*
802109 AAAAGCCGAATCCAAATATTATCATCGAAGAAGGTGTTGGAGAAGCCAACATGGAAG
1 AAAAGCCGAATCCAAATATTAGCATCGAAGAAGGTGTTGGAGAAGCCAACATGGAAG
* *
802166 AAAAGTCGAATCCAAATATTAGCATCGAAGAAGGTGTTGGAGAAGCCGACATGGAAG
1 AAAAGCCGAATCCAAATATTAGCATCGAAGAAGGTGTTGGAGAAGCCAACATGGAAG
802223 AA
1 AA
802225 GAGACTAAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.42, C:0.15, G:0.26, T:0.17
Consensus pattern (57 bp):
AAAAGCCGAATCCAAATATTAGCATCGAAGAAGGTGTTGGAGAAGCCAACATGGAAG
Found at i:802498 original size:3 final size:3
Alignment explanation
Indices: 802490--802519 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
802480 CAACATAGGT
802490 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
802520 ATAGTTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:802986 original size:21 final size:21
Alignment explanation
Indices: 802962--803010 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
802952 ACTTAACTCG
802962 TATTTTTATTATATAATATAT
1 TATTTTTATTATATAATATAT
* *
802983 TA-TTTT-TTATATATTATTT
1 TATTTTTATTATATAATATAT
*
803002 TATATTTAT
1 TATTTTTAT
803011 ATCTTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 13 0.57
20 7 0.30
21 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTTTTATTATATAATATAT
Found at i:803004 original size:19 final size:19
Alignment explanation
Indices: 802965--803019 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
802955 TAACTCGTAT
*
802965 TTTTATTATATAATATATTA
1 TTTT-TTATATATTATATTA
*
802985 TTTTTTATATATTATTTTA
1 TTTTTTATATATTATATTA
* *
803004 -TATTTATATCTTATAT
1 TTTTTTATATATTATAT
803020 AATTCATCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 13 0.43
19 13 0.43
20 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTTATATATTATATTA
Found at i:803071 original size:22 final size:22
Alignment explanation
Indices: 803046--803090 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
803036 AATAAATTTT
803046 AATATTATAATTT-TATTATTAA
1 AATATT-TAATTTATATTATTAA
* *
803068 AATATTTTATTTATATTTTTAA
1 AATATTTAATTTATATTATTAA
803090 A
1 A
803091 TTTAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AATATTTAATTTATATTATTAA
Found at i:803123 original size:18 final size:19
Alignment explanation
Indices: 803086--803123 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
803076 ATTTATATTT
*
803086 TTAAATTTAATAAAATTTA
1 TTAAATTTAATAAAAATTA
*
803105 TTAAA-TTACTAAAAATTA
1 TTAAATTTAATAAAAATTA
803123 T
1 T
803124 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAAATTTAATAAAAATTA
Found at i:803743 original size:18 final size:19
Alignment explanation
Indices: 803712--803748 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
803702 TATAAGAATC
*
803712 TATTTTTCATATTTTATTA
1 TATTTTTCAAATTTTATTA
803731 TATTTTT-AAATTTTATTA
1 TATTTTTCAAATTTTATTA
803749 ATAATGTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTTTCAAATTTTATTA
Found at i:805300 original size:25 final size:24
Alignment explanation
Indices: 805259--805314 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
805249 TTAATTAACC
* *
805259 TAAT-TTAATTTTTAACATTAATTA
1 TAATATTAATTGTAAACATTAA-TA
805283 TAATATTAATTGTAAACATTAATA
1 TAATATTAATTGTAAACATTAATA
805307 -AATATTAA
1 TAATATTAA
805315 CGTCGTAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 8 0.28
24 6 0.21
25 15 0.52
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
TAATATTAATTGTAAACATTAATA
Found at i:805700 original size:6 final size:6
Alignment explanation
Indices: 805679--805724 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
805669 AAAATGTAAC
805679 ATTA-A ATTATTA ATTATA ATTATA ATTATA ATTATA ATTATGA ATT
1 ATTATA ATTA-TA ATTATA ATTATA ATTATA ATTATA ATTAT-A ATT
805725 GTTCTTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.11
6 25 0.66
7 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:808034 original size:66 final size:66
Alignment explanation
Indices: 807923--808058 Score: 200
Period size: 66 Copynumber: 2.1 Consensus size: 66
807913 TGCAATACTC
* * * * *
807923 CATCAAAGCATGATTTGAACTAAAATCTTGAAAAAAAGGGGAGGAGAATCTCAGAACATTCTTTT
1 CATCAAAGCATGATTTGAACTAAAACCTCGAAAAAAAGAGAAGGAGAATCTCAAAACATTCTTTT
807988 T
66 T
* * *
807989 CATCAAAGCATGATTTGACCTAAAACCTCGAACAAAAGAGAAGGAGAATTTCAAAACATTCTTTT
1 CATCAAAGCATGATTTGAACTAAAACCTCGAAAAAAAGAGAAGGAGAATCTCAAAACATTCTTTT
808054 T
66 T
808055 CATC
1 CATC
808059 TTTGCGGCCT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (66 bp):
CATCAAAGCATGATTTGAACTAAAACCTCGAAAAAAAGAGAAGGAGAATCTCAAAACATTCTTTT
T
Found at i:809431 original size:21 final size:20
Alignment explanation
Indices: 809380--809430 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
809370 TTATTATTTT
*
809380 AATATATTTTTAAATAATAA
1 AATAAATTTTTAAATAATAA
809400 AATAAATTTTTAAATTAAT-A
1 AATAAATTTTTAAA-TAATAA
*
809420 AGTAAATTTTT
1 AATAAATTTTT
809431 TTATTCGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTAAATAATAA
Found at i:812462 original size:22 final size:21
Alignment explanation
Indices: 812422--812466 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
812412 CCAGCTCAAG
* *
812422 TTTAAATAAATTTTTTTAATAA
1 TTTAAATAAATATTATTAA-AA
*
812444 TTTAAATTAATATTATTAAAA
1 TTTAAATAAATATTATTAAAA
812465 TT
1 TT
812467 ATTTTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAAATAAATATTATTAAAA
Found at i:814598 original size:17 final size:18
Alignment explanation
Indices: 814576--814611 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
814566 TGTTGTTAAA
*
814576 ATATTTG-TTTTAAATAT
1 ATATTTGATTATAAATAT
814593 ATATTTGATTATAAATAT
1 ATATTTGATTATAAATAT
814611 A
1 A
814612 AATATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
ATATTTGATTATAAATAT
Found at i:816527 original size:4 final size:4
Alignment explanation
Indices: 816518--816543 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
816508 TCAAATATTC
816518 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
816544 ATTATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:817869 original size:17 final size:16
Alignment explanation
Indices: 817830--817871 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
817820 ATTATTTTTT
*
817830 TTAATAATTTTAATAA
1 TTAATAATTTTAAAAA
817846 --AATAATTTTAAAAA
1 TTAATAATTTTAAAAA
817860 TTAATAAATTTT
1 TTAAT-AATTTT
817872 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 13 0.59
16 3 0.14
17 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATAATTTTAAAAA
Found at i:820097 original size:28 final size:28
Alignment explanation
Indices: 820066--820133 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
820056 AAAATGTCAA
820066 TTTTATGATTGCTATTAAATAATGACTC
1 TTTTATGATTGCTATTAAATAATGACTC
820094 TTTTATGATTGCTATTAAATAATGACTC
1 TTTTATGATTGCTATTAAATAATGACTC
820122 TTTGTATAGATT
1 TTT-TAT-GATT
820134 TTATTAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 31 0.82
29 3 0.08
30 4 0.11
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.49
Consensus pattern (28 bp):
TTTTATGATTGCTATTAAATAATGACTC
Found at i:829110 original size:16 final size:17
Alignment explanation
Indices: 829089--829123 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
829079 TTAAATTTAT
*
829089 ATTTAA-ATTTGATTCA
1 ATTTAATATTTGAATCA
829105 ATTTAATATTTGAATCA
1 ATTTAATATTTGAATCA
829122 AT
1 AT
829124 ATTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTTAATATTTGAATCA
Found at i:829166 original size:22 final size:22
Alignment explanation
Indices: 829145--829185 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
829135 ATTAAAATAT
829145 TATTT-TAT-ATTAATATTTATA
1 TATTTATATAATTAA-ATTTATA
829166 TATTTATATAATTAAATTTA
1 TATTTATATAATTAAATTTA
829186 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTTATATAATTAAATTTATA
Found at i:829798 original size:23 final size:22
Alignment explanation
Indices: 829756--829821 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
829746 ACATATTTAT
* *
829756 ATATAAAAAATTATTAAAATATA
1 ATAT-AAATATTAATAAAATATA
*
829779 ATTTAAACTA-TAATATAAATATA
1 ATATAAA-TATTAATA-AAATATA
829802 ATATAAATATTAATAAAATA
1 ATATAAATATTAATAAAATA
829822 ACGTATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
22 14 0.39
23 22 0.61
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATAAATATTAATAAAATATA
Found at i:829803 original size:11 final size:11
Alignment explanation
Indices: 829772--829821 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
829762 AAAATTATTA
*
829772 AAATATAATTT
1 AAATATAATAT
829783 AAACTATAATAT
1 AAA-TATAATAT
829795 AAATATAATAT
1 AAATATAATAT
829806 AAATATTAATA-
1 AAATA-TAATAT
829817 AAATA
1 AAATA
829822 ACGTATTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
11 21 0.58
12 15 0.42
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATATAATAT
Found at i:829852 original size:24 final size:25
Alignment explanation
Indices: 829825--829899 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 25
829815 TAAAATAACG
*
829825 TATTAA-AATTTATA-TTATATAAAT
1 TATTAATAATTTAAATTTATAT-AAT
*
829849 TATTAATATTTTAAATTTATATAAT
1 TATTAATAATTTAAATTTATATAAT
* *
829874 TA-TATTATTTTAAATATTATTATAAT
1 TATTAATAATTTAAAT-TTA-TATAAT
829900 ATATATAAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
24 18 0.41
25 14 0.32
26 12 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTAATAATTTAAATTTATATAAT
Found at i:829897 original size:26 final size:25
Alignment explanation
Indices: 829836--829905 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 25
829826 ATTAAAATTT
*
829836 ATATTATATAAATTATTAATATTTTAA
1 ATATTATAT-AATTA-TATTATTTTAA
829863 AT-TTATATAATTATATTATTTTAA
1 ATATTATATAATTATATTATTTTAA
829887 ATATTATTATAATATATAT
1 ATATTA-TATAAT-TATAT
829906 AAACACATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
24 12 0.31
25 8 0.21
26 12 0.31
27 7 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATATTATATAATTATATTATTTTAA
Found at i:830574 original size:2 final size:2
Alignment explanation
Indices: 830569--830604 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
830559 AAATACACAC
830569 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
830605 TGCCTGCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:831364 original size:19 final size:19
Alignment explanation
Indices: 831307--831389 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 19
831297 AAATTGATTA
* *
831307 TTAATATATT-TAAAAATT
1 TTAAAATATTATATAAATT
* * *
831325 TT-AAACATTATAATTATTT
1 TTAAAATATTAT-ATAAATT
831344 TTAAAATATTATATAAATT
1 TTAAAATATTATATAAATT
*
831363 TTAATATATTAT-TAAATT
1 TTAAAATATTATATAAATT
*
831381 AT-AAATATT
1 TTAAAATATT
831390 TTAATATATC
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
17 11 0.22
18 10 0.20
19 22 0.43
20 8 0.16
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAAATATTATATAAATT
Found at i:831388 original size:17 final size:17
Alignment explanation
Indices: 831347--831393 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
831337 ATTATTTTTA
*
831347 AAATATTATATAAATTTT
1 AAATATTAT-TAAATTAT
831365 AATATATTATTAAATTAT
1 AA-ATATTATTAAATTAT
831383 AAATATT-TTAA
1 AAATATTATTAA
831394 TATATCATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 4 0.15
17 5 0.19
18 11 0.41
19 7 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATATTATTAAATTAT
Found at i:831390 original size:27 final size:27
Alignment explanation
Indices: 831351--831403 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
831341 TTTTTAAAAT
*
831351 ATTATATAAATTTTAATATATTATTAA
1 ATTATATAAATTTTAATATATCATTAA
831378 ATTATA-AATATTTTAATATATCATTA
1 ATTATATAA-ATTTTAATATATCATTA
831404 TTATTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTATATAAATTTTAATATATCATTAA
Found at i:831408 original size:3 final size:3
Alignment explanation
Indices: 831400--831436 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
831390 TTAATATATC
*
831400 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT A-T ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
831437 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:831711 original size:15 final size:15
Alignment explanation
Indices: 831693--831729 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
831683 AAATTATTTA
831693 ATTA-TTAATTTAATT
1 ATTATTTAATTT-ATT
831708 ATTATTTAATTTATT
1 ATTATTTAATTTATT
831723 ATT-TTTA
1 ATTATTTA
831730 CTAAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.19
15 10 0.48
16 7 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTATTTAATTTATT
Found at i:831724 original size:12 final size:11
Alignment explanation
Indices: 831685--831726 Score: 66
Period size: 12 Copynumber: 3.6 Consensus size: 11
831675 TTGATTAAAA
831685 ATTATTTAATT
1 ATTATTTAATT
831696 ATTAATTTAATT
1 ATT-ATTTAATT
831708 ATTATTTAATTT
1 ATTATTTAA-TT
831720 ATTATTT
1 ATTATTT
831727 TTACTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTAATT
Found at i:831791 original size:16 final size:15
Alignment explanation
Indices: 831772--831832 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
831762 TAATATCAAA
831772 TAAAATTAAATTAATT
1 TAAAATTAAATT-ATT
*
831788 TAAATTTAAATTATT
1 TAAAATTAAATTATT
* *
831803 AAAAATTTAATTATT
1 TAAAATTAAATTATT
*
831818 TAAATTTAAATTATT
1 TAAAATTAAATTATT
831833 AATTTTTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
15 27 0.71
16 11 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TAAAATTAAATTATT
Found at i:831819 original size:30 final size:31
Alignment explanation
Indices: 831773--831834 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
831763 AATATCAAAT
831773 AAAATTAAATTAATTTAAATTTAAATTATTA
1 AAAATTAAATTAATTTAAATTTAAATTATTA
*
831804 AAAATTTAATT-ATTTAAATTTAAATTATTA
1 AAAATTAAATTAATTTAAATTTAAATTATTA
831834 A
1 A
831835 TTTTTTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
AAAATTAAATTAATTTAAATTTAAATTATTA
Found at i:832136 original size:24 final size:24
Alignment explanation
Indices: 832107--832170 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 24
832097 CGGTTAATTT
832107 TTTAAA-AAATTAAT-ATAAATATAA
1 TTTAAATAAATTAATAATAAA-AT-A
*
832131 TTTAAATATAATATAATAATAAAATT
1 TTTAAATA-AAT-TAATAATAAAATA
832157 TTTAAATAAATTAA
1 TTTAAATAAATTAA
832171 AATTTATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
24 9 0.26
25 4 0.11
26 11 0.31
27 6 0.17
28 5 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTAAATAAATTAATAATAAAATA
Found at i:832152 original size:11 final size:11
Alignment explanation
Indices: 832113--832146 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
832103 ATTTTTTAAA
832113 AAAT-TAATAT
1 AAATATAATAT
*
832123 AAATATAATTT
1 AAATATAATAT
832134 AAATATAATAT
1 AAATATAATAT
832145 AA
1 AA
832147 TAATAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATATAATAT
Found at i:832352 original size:17 final size:18
Alignment explanation
Indices: 832332--832385 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 18
832322 ATAAAATAAA
832332 ATTAAATATATTA-ATAT
1 ATTAAATATATTATATAT
*
832349 ATTAATTATAATTATTATAT
1 ATTAAATAT-ATTA-TATAT
832369 ATTTAAATATATTATAT
1 A-TTAAATATATTATAT
832386 TACTCCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 8 0.26
18 4 0.13
19 3 0.10
20 9 0.29
21 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTAAATATATTATATAT
Found at i:832421 original size:26 final size:26
Alignment explanation
Indices: 832344--832421 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 26
832334 TAAATATATT
832344 AATATATTAATTATAATTATTATATATTTA
1 AATATATT-A-TATAA-TATT-TATATTTA
* **
832374 AATATATTATAT--TACTCCTATTTA
1 AATATATTATATAATATTTATATTTA
*
832398 AATATATTATATAATATTTTTATT
1 AATATATTATATAATATTTATATT
832422 AAAAATTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
24 18 0.45
25 3 0.08
26 7 0.17
28 3 0.08
29 1 0.03
30 8 0.20
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
AATATATTATATAATATTTATATTTA
Found at i:834747 original size:2 final size:2
Alignment explanation
Indices: 834740--834769 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
834730 CTCATATAGA
*
834740 AT AT AT AT AT CT 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
834770 CGTAGGTTTC
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:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:836688 original size:13 final size:14
Alignment explanation
Indices: 836670--836737 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 14
836660 AAATTTTTAC
836670 ATATTA-ATAATTT
1 ATATTATATAATTT
836683 ATATTATATAATTT
1 ATATTATATAATTT
*
836697 TTAATATATTCATTAATTT
1 AT-AT-TA-T-A-TAATTT
*
836716 ATATTATAT-TTTT
1 ATATTATATAATTT
*
836729 ATATCATAT
1 ATATTATAT
836738 TTTAATATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
13 17 0.38
14 9 0.20
15 3 0.07
16 3 0.07
17 3 0.07
18 3 0.07
19 7 0.16
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATTATATAATTT
Found at i:836706 original size:19 final size:19
Alignment explanation
Indices: 836682--836725 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
836672 ATTAATAATT
*
836682 TATATT-ATATAATTTTTAA
1 TATATTCAT-TAATTTATAA
*
836701 TATATTCATTAATTTATAT
1 TATATTCATTAATTTATAA
836720 TATATT
1 TATATT
836726 TTTATATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATTCATTAATTTATAA
Found at i:836717 original size:33 final size:31
Alignment explanation
Indices: 836661--836724 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 31
836651 TGTGCTTTAA
836661 AATTTTTACATATTAATAATTTATATTATAT
1 AATTTTTACATATTAATAATTTATATTATAT
* *
836692 AATTTTTAATATATTCATTAATTTATATTATAT
1 AATTTTT-ACATATT-AATAATTTATATTATAT
836725 TTTTATATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 7 0.24
32 6 0.21
33 16 0.55
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
AATTTTTACATATTAATAATTTATATTATAT
Found at i:839170 original size:4 final size:4
Alignment explanation
Indices: 839163--839193 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
839153 TATATATATA
839163 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
839194 CATTCATATA
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:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:839901 original size:2 final size:2
Alignment explanation
Indices: 839894--839938 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
839884 AAGAAGAAAA
839894 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
839936 AG A
1 AG A
839939 ATTGCATTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:842664 original size:2 final size:2
Alignment explanation
Indices: 842659--842683 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
842649 ATATATATAT
842659 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
842684 AATAAGCCAA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:847169 original size:26 final size:26
Alignment explanation
Indices: 847121--847174 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
847111 AAAAATATTT
*
847121 AATATATTTATAAATATTAATATTAA
1 AATATATTTATAAATATTAATATAAA
* *
847147 AATATAATTTTTAAAT-TTTATATAAA
1 AATAT-ATTTATAAATATTAATATAAA
847173 AA
1 AA
847175 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AATATATTTATAAATATTAATATAAA
Found at i:847570 original size:24 final size:24
Alignment explanation
Indices: 847508--847572 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
847498 TTTTATATTT
*
847508 ATATTTATTTTAATAAA--TTAATA
1 ATATTTATTAT-ATAAATTTTAATA
*
847531 ATTTTTATTATATAAATTTTAA-A
1 ATATTTATTATATAAATTTTAATA
*
847554 ATATTTATATATTTAAATT
1 ATATTTAT-TATATAAATT
847573 ATATTTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 5 0.14
23 17 0.49
24 13 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATTTATTATATAAATTTTAATA
Found at i:848005 original size:17 final size:17
Alignment explanation
Indices: 847981--848019 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
847971 ATAAATAAAT
847981 TAAAATATAT-TT-ATA
1 TAAAATATATATTCATA
847996 TAAAATATATATTCATA
1 TAAAATATATATTCATA
*
848013 TCAAATA
1 TAAAATA
848020 CTAATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 2 0.10
17 9 0.43
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATATATATTCATA
Found at i:848794 original size:292 final size:293
Alignment explanation
Indices: 848224--848832 Score: 1123
Period size: 292 Copynumber: 2.1 Consensus size: 293
848214 AATCAGAAAG
* *
848224 ATATATATATATATATATATAGTAAATGGTAAAATATGGTATTATGAGCCTGGCTACAGTCATTA
1 ATATATTTA-ATA-ATATATAATAAATGGTAAAATATGGTATTATGAGCCTGGCTACAGTCATTA
*
848289 TTCATATTCTTTTGAGCTTGCAAGCATGTTAAGATTTCACATCTTCTTTGAAAGGTTGAAGTTCC
64 TTCATATTCTTTTGAGCTTGCAAGCATGTAAAGATTTCACATCTTCTTTGAAAGGTTGAAGTTCC
848354 CAACAAAGATATATATATATATATAAAAGAAATATAGATCTGATGATGTGTCGAACTAATCAGGC
129 CAACAAAG--A-ATATATATATATAAAAGAAATATAGATCTGATGATGTGTCGAACTAATCAGGC
848419 TTAATCCAATTTAGTCTGGGACATAAAACATATTTATTGAGAAATACTCTTTAACTCCGAATTAA
191 TTAATCCAATTTAGTCTGGGACATAAAACATATTTATTGAGAAATACTCTTTAACTCCGAATTAA
848484 ATTTTAAATAAATTTTTATAAACTTAAATTACTATTTA
256 ATTTTAAATAAATTTTTATAAACTTAAATTACTATTTA
848522 ATATATTTAATAATATATAATAAATGGTAAAATATGGTATTATGAGCCTGGCTACAGTCATTATT
1 ATATATTTAATAATATATAATAAATGGTAAAATATGGTATTATGAGCCTGGCTACAGTCATTATT
848587 CATATTCTTTTGAGCTTGCAAGCATGTAAAGATTTCACATCTTCTTTGAAAGGTTGAAGTTCCCA
66 CATATTCTTTTGAGCTTGCAAGCATGTAAAGATTTCACATCTTCTTTGAAAGGTTGAAGTTCCCA
848652 ACAAAG-ATATATATATATAAAAGAAATATAGATCTGATGATGTGTCGAACTAATCAGGCTTAAT
131 ACAAAGAATATATATATATAAAAGAAATATAGATCTGATGATGTGTCGAACTAATCAGGCTTAAT
848716 CCAATTTAGTCTGGGACATAAAACATATTTATTGAGAAATACTCTTTAACT-CGTAATTAAATTT
196 CCAATTTAGTCTGGGACATAAAACATATTTATTGAGAAATACTCTTTAACTCCG-AATTAAATTT
848780 TAAATAAATTTTTATAAACTTAAATTACTATTTA
260 TAAATAAATTTTTATAAACTTAAATTACTATTTA
848814 ATATATTTAATAATATATA
1 ATATATTTAATAATATATA
848833 TATATATATA
Statistics
Matches: 307, Mismatches: 3, Indels: 8
0.97 0.01 0.03
Matches are distributed among these distances:
291 2 0.01
292 172 0.56
296 122 0.40
297 3 0.01
298 8 0.03
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.37
Consensus pattern (293 bp):
ATATATTTAATAATATATAATAAATGGTAAAATATGGTATTATGAGCCTGGCTACAGTCATTATT
CATATTCTTTTGAGCTTGCAAGCATGTAAAGATTTCACATCTTCTTTGAAAGGTTGAAGTTCCCA
ACAAAGAATATATATATATAAAAGAAATATAGATCTGATGATGTGTCGAACTAATCAGGCTTAAT
CCAATTTAGTCTGGGACATAAAACATATTTATTGAGAAATACTCTTTAACTCCGAATTAAATTTT
AAATAAATTTTTATAAACTTAAATTACTATTTA
Found at i:849102 original size:2 final size:2
Alignment explanation
Indices: 849095--849119 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
849085 AAGATTTTTA
849095 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
849120 ATATATATAT
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:849124 original size:2 final size:2
Alignment explanation
Indices: 849119--849143 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
849109 TCTCTCTCTC
849119 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
849144 CATTTCTTTA
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:850155 original size:15 final size:15
Alignment explanation
Indices: 850135--850164 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
850125 ACTGATAATT
850135 TATAAATATATTTAA
1 TATAAATATATTTAA
850150 TATAAATATATTTAA
1 TATAAATATATTTAA
850165 ATTTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAAATATATTTAA
Found at i:852404 original size:23 final size:23
Alignment explanation
Indices: 852329--852400 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 23
852319 AACTTAGGTT
* * *
852329 ATATATTTATTTATTTAATAAATAA
1 ATATATTTAATAATTT-TTAAA-AA
* * *
852354 ATAAATTTAATATTTTTTATAAA
1 ATATATTTAATAATTTTTAAAAA
852377 ATATATTT-ATAATTTTTAAAAA
1 ATATATTTAATAATTTTTAAAAA
852399 AT
1 AT
852401 TATAAATACA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
22 14 0.37
23 9 0.24
24 3 0.08
25 12 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATATTTAATAATTTTTAAAAA
Found at i:855327 original size:7 final size:7
Alignment explanation
Indices: 855315--855341 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
855305 CCTTCCCGCG
855315 CATTATT
1 CATTATT
855322 CATTATT
1 CATTATT
855329 CATTATT
1 CATTATT
855336 CATTAT
1 CATTAT
855342 GACGCCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (7 bp):
CATTATT
Found at i:858701 original size:57 final size:57
Alignment explanation
Indices: 858613--858728 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
858603 GAGAATGTTC
*
858613 AAAAGCCGAATCCAAATATTATCATCGAAGAAGGTGTTGGAGAAGCCAACATGGAAG
1 AAAAGCCGAATCCAAATATTAGCATCGAAGAAGGTGTTGGAGAAGCCAACATGGAAG
* *
858670 AAAAGTCGAATCCAAATATTAGCATCGAAGAAGGTGTTGGAGAAGCCGACATGGAAG
1 AAAAGCCGAATCCAAATATTAGCATCGAAGAAGGTGTTGGAGAAGCCAACATGGAAG
858727 AA
1 AA
858729 GAGACTAAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.42, C:0.15, G:0.26, T:0.17
Consensus pattern (57 bp):
AAAAGCCGAATCCAAATATTAGCATCGAAGAAGGTGTTGGAGAAGCCAACATGGAAG
Found at i:859001 original size:3 final size:3
Alignment explanation
Indices: 858993--859019 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
858983 CAACATAGGT
858993 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
859020 ATAGTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:859490 original size:11 final size:12
Alignment explanation
Indices: 859474--859514 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
859464 TTATTATATA
859474 ATATATT-TTTT
1 ATATATTATTTT
859485 ATATATTATTTT
1 ATATATTATTTT
859497 ATAT-TTATATCTT
1 ATATATTAT-T-TT
859510 ATATA
1 ATATA
859515 ATTCATCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 11 0.42
12 9 0.35
13 6 0.23
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATATTATTTT
Found at i:859565 original size:22 final size:21
Alignment explanation
Indices: 859540--859585 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
859530 AATAAATTTT
859540 AATATTATAATTT-TATTATTAA
1 AATATT-TAATTTATATT-TTAA
*
859562 AATATTTTATTTATATTTTAA
1 AATATTTAATTTATATTTTAA
859583 AAT
1 AAT
859586 TTAATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AATATTTAATTTATATTTTAA
Found at i:860920 original size:38 final size:38
Alignment explanation
Indices: 860878--860954 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
860868 TTAAAAAATG
860878 TAAGAAAATAATAAGAGAAGATTTAGAGTTAGATTTAT
1 TAAGAAAATAATAAGAGAAGATTTAGAGTTAGATTTAT
860916 TAAGAAAATAATAAGAGAAGATTTAGAGTTAGATTTAT
1 TAAGAAAATAATAAGAGAAGATTTAGAGTTAGATTTAT
860954 T
1 T
860955 CAAAAGTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.32
Consensus pattern (38 bp):
TAAGAAAATAATAAGAGAAGATTTAGAGTTAGATTTAT
Found at i:861140 original size:20 final size:21
Alignment explanation
Indices: 861074--861140 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 21
861064 ATTATACATT
*
861074 ATATATTAAA-TTTACTGATAA
1 ATATTTTAAACTTTACT-ATAA
861095 A-ATTTTAAACTTTACTATAA
1 ATATTTTAAACTTTACTATAA
*
861115 AT-TTTTAAACTTTATTA-AA
1 ATATTTTAAACTTTACTATAA
861134 ATATTTT
1 ATATTTT
861141 TATCGTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.10
20 30 0.73
21 7 0.17
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.49
Consensus pattern (21 bp):
ATATTTTAAACTTTACTATAA
Found at i:861307 original size:21 final size:21
Alignment explanation
Indices: 861281--861323 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
861271 AAAATATTTT
*
861281 TATTTA-AATTTAATTATAAAA
1 TATTTATAAATTAA-TATAAAA
861302 TATTTATAAATTAATATAAAA
1 TATTTATAAATTAATATAAAA
861323 T
1 T
861324 TAATTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATTTATAAATTAATATAAAA
Found at i:861315 original size:28 final size:29
Alignment explanation
Indices: 861259--861315 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
861249 TCGAATAATT
* *
861259 ATTTAATTAATAAAAATATTTTTATTTAA
1 ATTTAATTAATAAAAATATTTTAAATTAA
861288 ATTTAATT-AT-AAAATATTTATAAATTAA
1 ATTTAATTAATAAAAATATTT-TAAATTAA
861316 TATAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.36
28 8 0.32
29 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
ATTTAATTAATAAAAATATTTTAAATTAA
Found at i:862598 original size:25 final size:24
Alignment explanation
Indices: 862557--862612 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
862547 TTAATTAACC
* *
862557 TAAT-TTAATTTTTAACATTAATTA
1 TAATATTAATTGTAAACATTAA-TA
862581 TAATATTAATTGTAAACATTAATA
1 TAATATTAATTGTAAACATTAATA
862605 -AATATTAA
1 TAATATTAA
862613 CGTCGTAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 8 0.28
24 6 0.21
25 15 0.52
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
TAATATTAATTGTAAACATTAATA
Found at i:862997 original size:13 final size:13
Alignment explanation
Indices: 862981--863023 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
862971 TGTAACATTA
862981 AATTATTAATTA-T
1 AATTA-TAATTATT
862994 AATTATAATTATT
1 AATTATAATTATT
*
863007 AATTATAATTATG
1 AATTATAATTATT
863020 AATT
1 AATT
863024 GTTCTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 6 0.21
13 22 0.79
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
AATTATAATTATT
Found at i:862998 original size:6 final size:6
Alignment explanation
Indices: 862977--863023 Score: 60
Period size: 6 Copynumber: 7.5 Consensus size: 6
862967 AAAATGTAAC
862977 ATTA-A ATTATTA ATTATA ATTATA ATTATTA ATTATA ATTATGA ATT
1 ATTATA ATTA-TA ATTATA ATTATA ATTA-TA ATTATA ATTAT-A ATT
863024 GTTCTTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.11
6 19 0.50
7 15 0.39
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (6 bp):
ATTATA
Found at i:863005 original size:19 final size:19
Alignment explanation
Indices: 862977--863023 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
862967 AAAATGTAAC
862977 ATTA-AATTATTAATTATA
1 ATTATAATTATTAATTATA
862995 ATTATAATTATTAATTATA
1 ATTATAATTATTAATTATA
863014 ATTATGAATT
1 ATTAT-AATT
863024 GTTCTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 4 0.15
19 19 0.70
20 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTATAATTATTAATTATA
Found at i:865334 original size:66 final size:66
Alignment explanation
Indices: 865223--865358 Score: 200
Period size: 66 Copynumber: 2.1 Consensus size: 66
865213 TGCAATACTC
* * * * *
865223 CATCAAAGCATGATTTGAACTAAAATCTTGAAAAAAAGGGGAGGAGAATCTCAGAACATTCTTTT
1 CATCAAAGCATGATTTGAACTAAAACCTCGAAAAAAAGAGAAGGAGAATCTCAAAACATTCTTTT
865288 T
66 T
* * *
865289 CATCAAAGCATGATTTGACCTAAAACCTCGAACAAAAGAGAAGGAGAATTTCAAAACATTCTTTT
1 CATCAAAGCATGATTTGAACTAAAACCTCGAAAAAAAGAGAAGGAGAATCTCAAAACATTCTTTT
865354 T
66 T
865355 CATC
1 CATC
865359 TTTGCGGCCT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (66 bp):
CATCAAAGCATGATTTGAACTAAAACCTCGAAAAAAAGAGAAGGAGAATCTCAAAACATTCTTTT
T
Found at i:866732 original size:21 final size:20
Alignment explanation
Indices: 866681--866731 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
866671 TTATTATTTT
*
866681 AATATATTTTTAAATAATAA
1 AATAAATTTTTAAATAATAA
866701 AATAAATTTTTAAATTAAT-A
1 AATAAATTTTTAAA-TAATAA
*
866721 AGTAAATTTTT
1 AATAAATTTTT
866732 TTATTCGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATAAATTTTTAAATAATAA
Found at i:869758 original size:22 final size:21
Alignment explanation
Indices: 869718--869762 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
869708 CCAGCTCAAG
* *
869718 TTTAAATAAATTTTTTTAATAA
1 TTTAAATAAATATTATTAA-AA
*
869740 TTTAAATTAATATTATTAAAA
1 TTTAAATAAATATTATTAAAA
869761 TT
1 TT
869763 ATTTTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAAATAAATATTATTAAAA
Found at i:871894 original size:17 final size:18
Alignment explanation
Indices: 871872--871907 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
871862 TGTTGTTAAA
*
871872 ATATTTG-TTTTAAATAT
1 ATATTTGATTATAAATAT
871889 ATATTTGATTATAAATAT
1 ATATTTGATTATAAATAT
871907 A
1 A
871908 AATATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
ATATTTGATTATAAATAT
Found at i:873824 original size:4 final size:4
Alignment explanation
Indices: 873815--873840 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
873805 TCAAATATTC
873815 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
873841 ATTATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:875164 original size:17 final size:16
Alignment explanation
Indices: 875125--875166 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
875115 ATTATTTTTT
*
875125 TTAATAATTTTAATAA
1 TTAATAATTTTAAAAA
875141 --AATAATTTTAAAAA
1 TTAATAATTTTAAAAA
875155 TTAATAAATTTT
1 TTAAT-AATTTT
875167 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 13 0.59
16 3 0.14
17 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATAATTTTAAAAA
Found at i:877392 original size:28 final size:28
Alignment explanation
Indices: 877361--877428 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
877351 AAAATGTCAA
877361 TTTTATGATTGCTATTAAATAATGACTC
1 TTTTATGATTGCTATTAAATAATGACTC
877389 TTTTATGATTGCTATTAAATAATGACTC
1 TTTTATGATTGCTATTAAATAATGACTC
877417 TTTGTATAGATT
1 TTT-TAT-GATT
877429 TTATTAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 31 0.82
29 3 0.08
30 4 0.11
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.49
Consensus pattern (28 bp):
TTTTATGATTGCTATTAAATAATGACTC
Found at i:885079 original size:32 final size:33
Alignment explanation
Indices: 885007--885087 Score: 96
Period size: 32 Copynumber: 2.5 Consensus size: 33
884997 TATATTTAAA
* *
885007 ATAT-TTTATATTTATATAAATTTTAATAACTCG
1 ATATATTTATA-TTATATAAATTTTAAAAAATCG
* *
885040 ATA-ATTTATATTATCTAAATTTTAAAAAAT-T
1 ATATATTTATATTATATAAATTTTAAAAAATCG
885071 ATATATTTATATTATAT
1 ATATATTTATATTATAT
885088 TCATATTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 3 0.07
32 29 0.71
33 9 0.22
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (33 bp):
ATATATTTATATTATATAAATTTTAAAAAATCG
Found at i:885087 original size:5 final size:5
Alignment explanation
Indices: 885068--885178 Score: 65
Period size: 5 Copynumber: 22.2 Consensus size: 5
885058 ATTTTAAAAA
*
885068 ATTAT A-TAT -TTAT ATTAT ATTCAT ATTATT TTTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATT-AT ATTA-T ATTAT ATTAT ATTAT ATTAT
* * *
885118 ACTT-T ATTTCAT ATTTT AATTAT -TTTT A-TAT ATTAT ATTTTT ATTAT
1 A-TTAT A-TT-AT ATTAT -ATTAT ATTAT ATTAT ATTAT A-TTAT ATTAT
*
885165 A-TA- ATCAT ATTAT A
1 ATTAT ATTAT ATTAT A
885179 ATTAATGAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
3 1 0.01
4 15 0.18
5 43 0.52
6 21 0.26
7 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:885088 original size:11 final size:11
Alignment explanation
Indices: 885072--885166 Score: 88
Period size: 11 Copynumber: 8.5 Consensus size: 11
885062 TAAAAAATTA
885072 TATATTTATAT
1 TATATTTATAT
*
885083 TATATTCATAT
1 TATATTTATAT
*
885094 TATTTTTATAT
1 TATATTTATAT
885105 TATA-TTATAT
1 TATATTTATAT
885115 TATACTTTAT-T
1 TATA-TTTATAT
885126 TCATATTT-TAAT
1 T-ATATTTAT-AT
*
885138 TATTTTTATATAT
1 TA-TATT-TATAT
*
885151 TATATTTTTAT
1 TATATTTATAT
885162 TATAT
1 TATAT
885167 AATCATATTA
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
10 11 0.16
11 37 0.54
12 15 0.22
13 5 0.07
14 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTATAT
Found at i:885131 original size:27 final size:27
Alignment explanation
Indices: 885077--885132 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
885067 AATTATATAT
*
885077 TTATATTATATTCATATTATTTTTATA
1 TTATATTATATTCATATTATTTTCATA
885104 TTATATTATATT-ATACTT-TATTTCATA
1 TTATATTATATTCATA-TTAT-TTTCATA
885131 TT
1 TT
885133 TTAATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (27 bp):
TTATATTATATTCATATTATTTTCATA
Found at i:885612 original size:2 final size:2
Alignment explanation
Indices: 885605--885658 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
885595 TTTAAAATGT
* *
885605 TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
885647 TA TA TA TA TA TA
1 TA TA TA TA TA TA
885659 GGACAAGGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.