Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold253
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: 2064896
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 499 characters in sequence are not A, C, G, or T
File 6 of 13
Found at i:668795 original size:29 final size:30
Alignment explanation
Indices: 668728--668813 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 30
668718 AAAATTTGAT
* * *
668728 TTAAATAA--ATATTTAAATTATTATTTTTA
1 TTAAATAATTATAATTAAAATATT-TATTTA
** *
668757 TTAAATAATTATTTTTAAGATATTTATTTA
1 TTAAATAATTATAATTAAAATATTTATTTA
*
668787 TTTAA-AATTATAATTAAAATATTTATT
1 TTAAATAATTATAATTAAAATATTTATT
668814 AATAATAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
29 27 0.57
30 9 0.19
31 11 0.23
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (30 bp):
TTAAATAATTATAATTAAAATATTTATTTA
Found at i:668845 original size:15 final size:14
Alignment explanation
Indices: 668802--668849 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
668792 AATTATAATT
668802 AAAATATTTATTAA
1 AAAATATTTATTAA
*
668816 TAATAA-ATTTTTTAA
1 -AA-AATATTTATTAA
668831 AAAATATTTAATTAA
1 AAAATATTT-ATTAA
668846 AAAA
1 AAAA
668850 ATATAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 2 0.07
14 6 0.21
15 18 0.64
16 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATATTTATTAA
Found at i:668848 original size:16 final size:15
Alignment explanation
Indices: 668802--668853 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
668792 AATTATAATT
668802 AAAATATTTATTAATA
1 AAAATATTTATTAA-A
668818 ATAAAT-TTT-TT-AA
1 A-AAATATTTATTAAA
668831 AAAATATTTAATTAAA
1 AAAATATTT-ATTAAA
668847 AAAATAT
1 AAAATAT
668854 AATATAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 4 0.13
13 5 0.16
14 1 0.03
15 4 0.13
16 13 0.42
17 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATATTTATTAAA
Found at i:670438 original size:6 final size:6
Alignment explanation
Indices: 670394--670429 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
670384 TCATTTTAAA
*
670394 AAATTT AAATTT AAATTT AGATTT AAATTT -AATTT A
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT A
670430 TTTTAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:673252 original size:2 final size:2
Alignment explanation
Indices: 673216--673240 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
673206 AAGAGTATTT
673216 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
673241 CATTCATATA
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:677732 original size:17 final size:17
Alignment explanation
Indices: 677712--677744 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
677702 AATATGTGAT
677712 ATATATATATATATAAA
1 ATATATATATATATAAA
*
677729 ATATATTTATATATAA
1 ATATATATATATATAA
677745 TTTATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATATATATATAAA
Found at i:680500 original size:2 final size:2
Alignment explanation
Indices: 680493--680535 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
680483 ACCTAAAAGC
680493 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
680535 A
1 A
680536 ATCTTTTTAT
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:682616 original size:16 final size:16
Alignment explanation
Indices: 682595--682625 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
682585 TTTCTCATGA
682595 GGAACTCCATATCAGT
1 GGAACTCCATATCAGT
682611 GGAACTCCATATCAG
1 GGAACTCCATATCAG
682626 AAATTCCCAT
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:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (16 bp):
GGAACTCCATATCAGT
Found at i:689138 original size:14 final size:14
Alignment explanation
Indices: 689119--689164 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
689109 TTCGAGAAAA
*
689119 AAATTTAATTATTT
1 AAATTTATTTATTT
*
689133 AAATTTGTTTCA-TT
1 AAATTTATTT-ATTT
689147 AAATTTATTTATTT
1 AAATTTATTTATTT
689161 AAAT
1 AAAT
689165 CGATTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (14 bp):
AAATTTATTTATTT
Found at i:690065 original size:11 final size:10
Alignment explanation
Indices: 690048--690090 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 10
690038 TTCATTTATA
690048 TATTTATATT
1 TATTTATATT
690058 TCATTTATATT
1 T-ATTTATATT
690069 TATATTATATT
1 TAT-TTATATT
690080 ATATTTTATAT
1 -TA-TTTATAT
690091 AATATTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 3 0.10
11 17 0.59
12 8 0.28
13 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTTATATT
Found at i:690087 original size:17 final size:18
Alignment explanation
Indices: 690043--690096 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
690033 ACTAATTCAT
690043 TTATATATTTATATT-TCA
1 TTATATATTTATATTAT-A
690061 TT-TATATTTATATTATA
1 TTATATATTTATATTATA
*
690078 TTATAT-TTTATATAATA
1 TTATATATTTATATTATA
690095 TT
1 TT
690097 TTAATTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 27 0.82
18 6 0.18
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATATATTTATATTATA
Found at i:690095 original size:22 final size:22
Alignment explanation
Indices: 690042--690113 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 22
690032 TACTAATTCA
690042 TTTATAT-AT-TTATATT-TCA-
1 TTTATATAATATTATATTAT-AT
*
690061 TTTATATTTATATTATATTATAT
1 TTTATA-TAATATTATATTATAT
*
690084 TTTATATAATATTTTAATTAT-T
1 TTTATATAATATTAT-ATTATAT
*
690106 TTGATATA
1 TTTATATA
690114 TCTTATTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 6 0.14
20 1 0.02
21 2 0.05
22 23 0.52
23 12 0.27
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (22 bp):
TTTATATAATATTATATTATAT
Found at i:690312 original size:9 final size:9
Alignment explanation
Indices: 690251--690333 Score: 54
Period size: 7 Copynumber: 9.2 Consensus size: 9
690241 AAATGCAGAG
690251 AAATAATT-
1 AAATAATTA
690259 AAATAATTA
1 AAATAATTA
690268 AAAT-A-TA
1 AAATAATTA
690275 AAATATATTA
1 AAATA-ATTA
690285 TTTAAATACGATATA
1 ---AAATA--AT-TA
690300 AAATAATTA
1 AAATAATTA
690309 AAAT-A-TA
1 AAATAATTA
690316 AAA-AA-TA
1 AAATAATTA
690323 AAATAATTA
1 AAATAATTA
690332 AA
1 AA
690334 TTAAAAAACA
Statistics
Matches: 62, Mismatches: 1, Indels: 23
0.72 0.01 0.27
Matches are distributed among these distances:
7 17 0.27
8 12 0.19
9 15 0.24
10 4 0.06
12 5 0.08
13 5 0.08
14 2 0.03
15 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (9 bp):
AAATAATTA
Found at i:690326 original size:14 final size:16
Alignment explanation
Indices: 690295--690327 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
690285 TTTAAATACG
690295 ATATAAAATAATTAAA
1 ATATAAAATAATTAAA
690311 ATATAAAA-AA-TAAA
1 ATATAAAATAATTAAA
690325 ATA
1 ATA
690328 ATTAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 2 0.12
16 8 0.47
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
ATATAAAATAATTAAA
Found at i:690327 original size:23 final size:21
Alignment explanation
Indices: 690297--690353 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
690287 TAAATACGAT
690297 ATAAAATAATTAAAATATAAAAA
1 ATAAAATAATT-AAAT-TAAAAA
690320 ATAAAATAATTAAATTAAAAA
1 ATAAAATAATTAAATTAAAAA
*
690341 ACAAAA-AA-TAAAT
1 ATAAAATAATTAAAT
690354 CACATATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 5 0.15
20 2 0.06
21 11 0.33
22 4 0.12
23 11 0.33
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
ATAAAATAATTAAATTAAAAA
Found at i:690860 original size:16 final size:15
Alignment explanation
Indices: 690809--690907 Score: 63
Period size: 16 Copynumber: 6.9 Consensus size: 15
690799 ATTTATATAA
690809 ATTTTAATATATTA-
1 ATTTTAATATATTAT
*
690823 ATTATTCATATTATATAT
1 ATT-TTAATA-TAT-TAT
690841 ATTTTAATATATTCAT
1 ATTTTAATATATT-AT
*
690857 ATTTT--T-TAAT-T
1 ATTTTAATATATTAT
690868 ATTTT-A-ATATTAT
1 ATTTTAATATATTAT
*
690881 -TTTTAATTTTATTAT
1 ATTTTAA-TATATTAT
690896 ATTTTAAT-TATT
1 ATTTTAATATATT
690908 TTTTATTATA
Statistics
Matches: 68, Mismatches: 5, Indels: 24
0.70 0.05 0.25
Matches are distributed among these distances:
11 6 0.09
12 7 0.10
13 5 0.07
14 8 0.12
15 13 0.19
16 19 0.28
17 7 0.10
18 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTTAATATATTAT
Found at i:690863 original size:18 final size:17
Alignment explanation
Indices: 690837--690907 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 17
690827 TTCATATTAT
690837 ATATATTTTAATATATTC
1 ATATATTTTAAT-TATTC
* *
690855 ATATTTTTTAATTATTTTA
1 ATATATTTTAATTA--TTC
690874 ATATTATTTTTAATT-TT-
1 ATA-TA-TTTTAATTATTC
690891 ATTATATTTTAATTATT
1 A-TATATTTTAATTATT
690908 TTTTATTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
16 8 0.18
17 7 0.16
18 15 0.34
19 5 0.11
20 1 0.02
21 8 0.18
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATATTTTAATTATTC
Found at i:690876 original size:27 final size:26
Alignment explanation
Indices: 690810--690907 Score: 87
Period size: 25 Copynumber: 3.8 Consensus size: 26
690800 TTTATATAAA
*
690810 TTTTAATATATTAAT-TATTCATATT
1 TTTTAATATTTTAATATATTCATATT
* *
690835 ATAT-ATATTTTAATATATTCATATT
1 TTTTAATATTTTAATATATTCATATT
**
690860 TTTTAATTATTTTAATATTATTTTTAATT
1 TTTTAA-TATTTTAATA-TATTCAT-ATT
690889 TTATT-ATATTTTAAT-TATT
1 TT-TTAATATTTTAATATATT
690908 TTTTATTATA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
24 9 0.15
25 14 0.23
26 5 0.08
27 10 0.17
28 14 0.23
29 6 0.10
30 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTAATATTTTAATATATTCATATT
Found at i:690898 original size:28 final size:27
Alignment explanation
Indices: 690833--690911 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 27
690823 ATTATTCATA
**
690833 TTATATATATTTTAATA-TATTCATATT
1 TTAT-TATATTTTAATATTATTTTTATT
690860 TT-TTAATTATTTTAATATTATTTTTAATT
1 TTATT-A-TATTTTAATATTATTTTT-ATT
690889 TTATTATATTTTAATTATT-TTTT
1 TTATTATATTTTAA-TATTATTTT
690912 ATTATACTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
25 1 0.02
26 2 0.05
27 12 0.27
28 17 0.39
29 10 0.23
30 2 0.05
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (27 bp):
TTATTATATTTTAATATTATTTTTATT
Found at i:691999 original size:21 final size:23
Alignment explanation
Indices: 691961--692014 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 23
691951 ATTATGTATA
*
691961 ATATTATATTTTATTTAAAATATT
1 ATATTA-AATTTATTTAAAATATT
* *
691985 ATA-TAAATTTA-TTAATATTTT
1 ATATTAAATTTATTTAAAATATT
692006 ATATTAAAT
1 ATATTAAAT
692015 AAAATTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 11 0.42
22 10 0.38
23 2 0.08
24 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATATTAAATTTATTTAAAATATT
Found at i:692067 original size:24 final size:23
Alignment explanation
Indices: 692040--692088 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
692030 ATATTATATA
*
692040 TTTATATTATATTTTAAATTAATT
1 TTTATATTATA-CTTAAATTAATT
*
692064 TTTATATTATACTTAATTTAATT
1 TTTATATTATACTTAAATTAATT
692087 TT
1 TT
692089 AATTTTACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTATATTATACTTAAATTAATT
Found at i:692357 original size:10 final size:10
Alignment explanation
Indices: 692338--692385 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
692328 ACATCGAATA
*
692338 TATTATAATT
1 TATTAAAATT
692348 TATTAAAATT
1 TATTAAAATT
692358 TA-TAAAA--
1 TATTAAAATT
692365 TA-T-AAATT
1 TATTAAAATT
692373 TATTAAAATT
1 TATTAAAATT
692383 TAT
1 TAT
692386 ATAATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
6 3 0.09
7 3 0.09
8 2 0.06
9 6 0.18
10 19 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TATTAAAATT
Found at i:692365 original size:9 final size:9
Alignment explanation
Indices: 692344--692405 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
692334 AATATATTAT
692344 AATTTATTAA
1 AATTTA-TAA
692354 AATTTATAA
1 AATTTATAA
692363 AA--TAT-A
1 AATTTATAA
692369 AATTTATTAA
1 AATTTA-TAA
*
692379 AATTTATAT
1 AATTTATAA
*
692388 AATATATAA
1 AATTTATAA
*
692397 TATTT-TAA
1 AATTTATAA
692405 A
1 A
692406 TATAATTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
6 3 0.07
7 3 0.07
8 5 0.12
9 18 0.43
10 13 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
AATTTATAA
Found at i:692401 original size:18 final size:17
Alignment explanation
Indices: 692376--692429 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
692366 ATAAATTTAT
692376 TAAA-ATTTATATAATA
1 TAAATATTTATATAATA
692392 TATAATATTT-TA-AATA
1 TA-AATATTTATATAATA
* *
692408 TAATTATTAATAATAATA
1 TAAATATTTAT-ATAATA
692426 TAAA
1 TAAA
692430 CACACCATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 5 0.17
16 9 0.30
17 5 0.17
18 11 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATATTTATATAATA
Found at i:692406 original size:25 final size:25
Alignment explanation
Indices: 692344--692393 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
692334 AATATATTAT
692344 AATTTATTAAAATTTATAAAATATA
1 AATTTATTAAAATTTATAAAATATA
*
692369 AATTTATTAAAATTTATATAATATA
1 AATTTATTAAAATTTATAAAATATA
692394 TAATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AATTTATTAAAATTTATAAAATATA
Found at i:692723 original size:15 final size:15
Alignment explanation
Indices: 692700--692730 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
692690 TTAATCGAAA
692700 AATTATAAATTTAAT
1 AATTATAAATTTAAT
*
692715 AATTTTAAATTTAAT
1 AATTATAAATTTAAT
692730 A
1 A
692731 TAAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTATAAATTTAAT
Found at i:692742 original size:13 final size:13
Alignment explanation
Indices: 692721--692762 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 13
692711 TAATAATTTT
*
692721 AAATTTAATATAA
1 AAATATAATATAA
692734 AAATATAATATAAAA
1 AAATATAATAT--AA
692749 AAATATAAT-TAA
1 AAATATAATATAA
692761 AA
1 AA
692763 TAATATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 4 0.15
13 10 0.38
14 1 0.04
15 11 0.42
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATATAATATAA
Found at i:692761 original size:14 final size:14
Alignment explanation
Indices: 692732--692774 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
692722 AATTTAATAT
692732 AAAAATATAATATAA
1 AAAAATATAAT-TAA
692747 AAAAATATAATTAA
1 AAAAATATAATTAA
* *
692761 AATAATATATTTAA
1 AAAAATATAATTAA
692775 TAATTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATATAATTAA
Found at i:692801 original size:22 final size:23
Alignment explanation
Indices: 692770--692816 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
692760 AAATAATATA
*
692770 TTTAATAATTATATAATATTTAT
1 TTTAATAATTATAAAATATTTAT
*
692793 TTTAA-AATTTTAAAATATTTAT
1 TTTAATAATTATAAAATATTTAT
692815 TT
1 TT
692817 ACACACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAATAATTATAAAATATTTAT
Found at i:695209 original size:20 final size:19
Alignment explanation
Indices: 695173--695213 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
695163 ATTAAGTTAA
695173 ATTTTAATAAATATATAAT
1 ATTTTAATAAATATATAAT
695192 ATTTTAAATATAAT-TATAAT
1 ATTTT-AATA-AATATATAAT
695212 AT
1 AT
695214 AAAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 12 0.60
21 3 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTAATAAATATATAAT
Found at i:695277 original size:2 final size:2
Alignment explanation
Indices: 695272--695310 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
695262 TCATCAACCT
695272 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
695311 GTGTGTCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:695649 original size:30 final size:29
Alignment explanation
Indices: 695615--695687 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 29
695605 TAATTTGAAT
*
695615 TAAATTCATAACATTTAATTTATAATAAAA
1 TAAATTCTTAACATTTAATTTAT-ATAAAA
695645 TAAATTCTTAATC-TTTAATTTATATAAAA
1 TAAATTCTTAA-CATTTAATTTATATAAAA
*
695674 TAAGTTCTTAACAT
1 TAAATTCTTAACAT
695688 AAATCAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 1 0.03
29 17 0.44
30 20 0.51
31 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (29 bp):
TAAATTCTTAACATTTAATTTATATAAAA
Found at i:696687 original size:42 final size:42
Alignment explanation
Indices: 696633--696724 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
696623 AGTATGAGTA
* * *
696633 ATATATAATAAAAATTA-T-TAATATATTAATATTTATATAAAT
1 ATATATATTAAAAATAATTATAATATA-TAA-AATTATATAAAT
*
696675 ATATATATTAAAAATAATTATAATATATAAAATTATTTAAAT
1 ATATATATTAAAAATAATTATAATATATAAAATTATATAAAT
*
696717 ATAAATAT
1 ATATATAT
696725 GTGAATTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
42 32 0.74
43 4 0.09
44 7 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (42 bp):
ATATATATTAAAAATAATTATAATATATAAAATTATATAAAT
Found at i:696702 original size:20 final size:18
Alignment explanation
Indices: 696677--696719 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
696667 ATATAAATAT
696677 ATATATTAAAAATAATTATA
1 ATATA-TAAAAATAATTA-A
* *
696697 ATATATAAAATTATTTAA
1 ATATATAAAAATAATTAA
696715 ATATA
1 ATATA
696720 AATATGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATATAAAAATAATTAA
Found at i:697074 original size:33 final size:33
Alignment explanation
Indices: 697037--697100 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
697027 TAAGATTGAT
*
697037 CCATCGAGT-CTAAGTTGGGTATTAGATTAGACA
1 CCATCGAGTGC-AACTTGGGTATTAGATTAGACA
*
697070 CCATCTAGTGCAACTTGGGTATTAGATTAGA
1 CCATCGAGTGCAACTTGGGTATTAGATTAGA
697101 AAGCATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (33 bp):
CCATCGAGTGCAACTTGGGTATTAGATTAGACA
Found at i:697141 original size:17 final size:17
Alignment explanation
Indices: 697121--697161 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
697111 TGTCGGATAC
697121 ATTTTTAAAAAATATTA
1 ATTTTTAAAAAATATTA
697138 A--TTTAAAAAATATTA
1 ATTTTTAAAAAATATTA
697153 ATATTTTAA
1 AT-TTTTAA
697162 TTTTAAACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 15 0.71
17 1 0.05
18 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTTTAAAAAATATTA
Found at i:697144 original size:15 final size:15
Alignment explanation
Indices: 697124--697154 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
697114 CGGATACATT
697124 TTTAAAAAATATTAA
1 TTTAAAAAATATTAA
697139 TTTAAAAAATATTAA
1 TTTAAAAAATATTAA
697154 T
1 T
697155 ATTTTAATTT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTAAAAAATATTAA
Found at i:697810 original size:27 final size:27
Alignment explanation
Indices: 697778--697859 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
697768 TTATAATTTT
697778 AAATAT-AATATTATTATATAATATAAA
1 AAATATCAATA-TATTATATAATATAAA
* ** *
697805 AAATATGAATATAACATA-AATTTAAA
1 AAATATCAATATATTATATAATATAAA
*
697831 AATATATCAATAAATTTATATAATATAAA
1 AA-ATATCAATATA-TTATATAATATAAA
697860 TATAAATTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
26 9 0.21
27 20 0.47
28 7 0.16
29 7 0.16
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (27 bp):
AAATATCAATATATTATATAATATAAA
Found at i:697855 original size:21 final size:20
Alignment explanation
Indices: 697807--697868 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
697797 AATATAAAAA
697807 ATATGAATATAACATAAATTT
1 ATAT-AATATAACATAAATTT
* *
697828 A-AAAATATATCAATAAATTT
1 ATATAATATAAC-ATAAATTT
*
697848 ATATAATATAAATATAAATTT
1 ATATAATAT-AACATAAATTT
697869 TTTATATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 7 0.21
20 10 0.30
21 15 0.45
22 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (20 bp):
ATATAATATAACATAAATTT
Found at i:697877 original size:21 final size:21
Alignment explanation
Indices: 697807--697931 Score: 62
Period size: 21 Copynumber: 5.9 Consensus size: 21
697797 AATATAAAAA
*
697807 ATATGAATAT-AACATAAATTT
1 ATAT-AATATAAATATAAATTT
* *
697828 A-AAAATATATCA-ATAAATTT
1 ATATAATATA-AATATAAATTT
697848 ATATAATATAAATATAAATTT
1 ATATAATATAAATATAAATTT
* * * *
697869 -TTTATATATAAACTTTAAAAATA
1 ATATA-ATATAAA-TAT-AAATTT
* *
697892 ATTATAATATAAA-ATTAATAT
1 A-TATAATATAAATATAAATTT
*
697913 ATATATATATATATATAAA
1 ATATA-ATATAAATATAAA
697932 ATACATTAAT
Statistics
Matches: 77, Mismatches: 16, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
19 5 0.06
20 18 0.23
21 33 0.43
22 7 0.09
23 4 0.05
24 7 0.09
25 3 0.04
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (21 bp):
ATATAATATAAATATAAATTT
Found at i:697910 original size:17 final size:19
Alignment explanation
Indices: 697884--697921 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
697874 ATATAAACTT
697884 TAAAAATAAT-TATA-ATA
1 TAAAAATAATATATATATA
*
697901 TAAAATTAATATATATATA
1 TAAAAATAATATATATATA
697920 TA
1 TA
697922 TATATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 4 0.22
19 5 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAATAATATATATATA
Found at i:698630 original size:12 final size:12
Alignment explanation
Indices: 698613--698675 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
698603 ATAAAAAAAT
698613 TAAAATATAATA
1 TAAAATATAATA
*
698625 TAAAATATTATA
1 TAAAATATAATA
*
698637 TAATATA-AATA
1 TAAAATATAATA
* *
698648 TAAAA-ATATTT
1 TAAAATATAATA
*
698659 TAAAATTTATATA
1 TAAAATATA-ATA
698672 TAAA
1 TAAA
698676 TTATTATCAT
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
10 1 0.03
11 14 0.36
12 19 0.49
13 5 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TAAAATATAATA
Found at i:698654 original size:36 final size:33
Alignment explanation
Indices: 698595--698675 Score: 83
Period size: 36 Copynumber: 2.4 Consensus size: 33
698585 TTATGTAATG
* *
698595 TTTATATGATAAAAAAATTAAAATATAATATAAAA
1 TTTATATAATAAAAAAA-TAAAA-ATATTATAAAA
* * *
698630 TATTATATAATATAAATATAAAAATATTTTAAAA
1 T-TTATATAATAAAAAAATAAAAATATTATAAAA
698664 TTTATAT-ATAAA
1 TTTATATAATAAA
698676 TTATTATCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
32 4 0.10
33 6 0.15
34 10 0.26
35 6 0.15
36 13 0.33
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (33 bp):
TTTATATAATAAAAAAATAAAAATATTATAAAA
Found at i:698672 original size:24 final size:24
Alignment explanation
Indices: 698612--698675 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
698602 GATAAAAAAA
698612 TTAAAATATA-ATAT-AAAATATT
1 TTAAAATATATATATAAAAATATT
* * *
698634 ATATAATATAAATATAAAAATATT
1 TTAAAATATATATATAAAAATATT
*
698658 TTAAAATTTATATATAAA
1 TTAAAATATATATATAAA
698676 TTATTATCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 8 0.24
23 4 0.12
24 22 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
TTAAAATATATATATAAAAATATT
Found at i:698719 original size:29 final size:29
Alignment explanation
Indices: 698641--698720 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
698631 ATTATATAAT
*
698641 ATAAATATAAAAATATTTTAAAATTTATAT
1 ATAAATAT-AAAATATTTTAAAATTTATAC
** *
698671 ATAAAT-TATTATCATATTAAAATTTATAC
1 ATAAATATAAAAT-ATTTTAAAATTTATAC
698700 ATAAATATAAAATATTTTAAA
1 ATAAATATAAAATATTTTAAA
698721 TATAATTATG
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
28 3 0.07
29 28 0.68
30 10 0.24
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
ATAAATATAAAATATTTTAAAATTTATAC
Found at i:701276 original size:22 final size:20
Alignment explanation
Indices: 701246--701287 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
701236 CTTTATATAT
*
701246 TTATGTTATAATGATATATTTA
1 TTATATTATAAT--TATATTTA
701268 TTATATTATAATTATATTTA
1 TTATATTATAATTATATTTA
701288 AAATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTATATTATAATTATATTTA
Found at i:701893 original size:16 final size:16
Alignment explanation
Indices: 701874--701909 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
701864 AATTTTAATG
*
701874 TTTTAAAAAATATATT
1 TTTTAAAAAATAAATT
701890 TTTTAAAAAATAAATT
1 TTTTAAAAAATAAATT
701906 TTTT
1 TTTT
701910 TAATTAAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTAAAAAATAAATT
Found at i:703170 original size:17 final size:18
Alignment explanation
Indices: 703135--703188 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
703125 ATTATTGTAA
* *
703135 AAATAAATTTGATT-TTT
1 AAATAAATTTAATTAATT
703152 AAATAAATTT-ATTAATT
1 AAATAAATTTAATTAATT
703169 AAATTAATATTTAATTAATT
1 AAA-TAA-ATTTAATTAATT
703189 TATTATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 3 0.09
17 15 0.47
18 3 0.09
19 4 0.12
20 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
AAATAAATTTAATTAATT
Found at i:703184 original size:16 final size:17
Alignment explanation
Indices: 703150--703227 Score: 65
Period size: 16 Copynumber: 4.8 Consensus size: 17
703140 AATTTGATTT
* *
703150 TTAAATAAATTTATTAA
1 TTAAATTAATATATTAA
703167 TTAAATTAATAT-TTAA
1 TTAAATTAATATATTAA
* *
703183 TTAATTTATTATATTAA
1 TTAAATTAATATATTAA
* *
703200 TTCAGTTAA-ATATT--
1 TTAAATTAATATATTAA
703214 TTAATATTAATATA
1 TTAA-ATTAATATA
703228 AATAAAAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
14 3 0.06
15 4 0.08
16 22 0.45
17 20 0.41
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (17 bp):
TTAAATTAATATATTAA
Found at i:703252 original size:13 final size:13
Alignment explanation
Indices: 703234--703258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
703224 TATAAATAAA
703234 AATTTAATTTAAT
1 AATTTAATTTAAT
703247 AATTTAATTTAA
1 AATTTAATTTAA
703259 AAAAATATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTAATTTAAT
Found at i:705339 original size:16 final size:17
Alignment explanation
Indices: 705277--705360 Score: 70
Period size: 17 Copynumber: 5.0 Consensus size: 17
705267 TCAAATAAAA
*
705277 AATA-ATTAAAATAATAT
1 AATATATTAAAAT-TTAT
*
705294 AAATATAATACAAATTTAT
1 -AATATATTA-AAATTTAT
705313 AATATATTAAAATTTA-
1 AATATATTAAAATTTAT
705329 AATA-A-TATAAA-TTAT
1 AATATATTA-AAATTTAT
*
705344 AATTTATTAAAATTTAT
1 AATATATTAAAATTTAT
705361 GTAAATATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
14 5 0.09
15 7 0.13
16 8 0.15
17 13 0.24
18 12 0.22
19 6 0.11
20 4 0.07
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATATTAAAATTTAT
Found at i:705341 original size:32 final size:32
Alignment explanation
Indices: 705298--705387 Score: 103
Period size: 31 Copynumber: 2.8 Consensus size: 32
705288 TAATATAAAT
*
705298 ATAATACAAATTTATAATATATTAAAATTTAA
1 ATAATATAAATTTATAATATATTAAAATTTAA
* *
705330 ATAATATAAA-TTATAATTTATTAAAATTTAT
1 ATAATATAAATTTATAATATATTAAAATTTAA
* *
705361 GTAAATATATAATATATAATAT-TTAAA
1 AT-AATATA-AATTTATAATATATTAAA
705388 TACTATCAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
31 20 0.41
32 15 0.31
33 7 0.14
34 7 0.14
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (32 bp):
ATAATATAAATTTATAATATATTAAAATTTAA
Found at i:705384 original size:26 final size:26
Alignment explanation
Indices: 705309--705385 Score: 66
Period size: 26 Copynumber: 2.8 Consensus size: 26
705299 TAATACAAAT
*
705309 TTATAATATATTAAAATTTAAATAATATAAA
1 TTATAATATATTAAAA-TT---T-ATGTAAA
*
705340 TTATAATTTATTAAAATTTATGTAAA
1 TTATAATATATTAAAATTTATGTAAA
*
705366 TATATAATATA-TAATATTTA
1 T-TATAATATATTAAAATTTA
705386 AATACTATCA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 15 0.37
27 9 0.22
30 2 0.05
31 15 0.37
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (26 bp):
TTATAATATATTAAAATTTATGTAAA
Found at i:707282 original size:20 final size:20
Alignment explanation
Indices: 707257--707302 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
707247 AAATAAAGGC
*
707257 TCCCTCCTCCATCTCAAGTA
1 TCCCTCATCCATCTCAAGTA
* **
707277 TCCCTCATCCTTCTCTTGTA
1 TCCCTCATCCATCTCAAGTA
707297 TCCCTC
1 TCCCTC
707303 TTCAATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.13, C:0.46, G:0.04, T:0.37
Consensus pattern (20 bp):
TCCCTCATCCATCTCAAGTA
Found at i:710762 original size:19 final size:17
Alignment explanation
Indices: 710740--710784 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
710730 TATATAAACA
710740 TAAATATAATATAAATTAT
1 TAAATATAATA-AAATT-T
*
710759 TAAATATATTAAAATTT
1 TAAATATAATAAAATTT
710776 TAAATATAA
1 TAAATATAA
710785 ATATTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 5 0.21
19 10 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATATAATAAAATTT
Found at i:712866 original size:29 final size:31
Alignment explanation
Indices: 712826--712885 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
712816 CTGTCAAATT
* *
712826 ATTTTAATTTTATATAA-TTT-TAAATTAAA
1 ATTTTAAATTTAAATAATTTTATAAATTAAA
712855 ATTTTAAATTTAAATAATTTTATAAATTAAA
1 ATTTTAAATTTAAATAATTTTATAAATTAAA
712886 TTAATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 15 0.56
30 3 0.11
31 9 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
ATTTTAAATTTAAATAATTTTATAAATTAAA
Found at i:712905 original size:37 final size:38
Alignment explanation
Indices: 712830--712913 Score: 93
Period size: 37 Copynumber: 2.2 Consensus size: 38
712820 CAAATTATTT
*
712830 TAATTTTATATAATTTTAAATTAAAATTTTAAATTTAAA
1 TAATTTTATATAA-TTTAAATTAAAATTTCAAATTTAAA
*
712869 TAATTTTATA-AA-TTAAATTAATTAATTTCAGA-TTAAA
1 TAATTTTATATAATTTAAATTAA--AATTTCAAATTTAAA
*
712906 TAAATTTA
1 TAATTTTA
712914 AATTATCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 9 0.22
37 12 0.30
38 9 0.22
39 10 0.25
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (38 bp):
TAATTTTATATAATTTAAATTAAAATTTCAAATTTAAA
Found at i:716163 original size:19 final size:21
Alignment explanation
Indices: 716122--716193 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
716112 TATTTAAATA
*
716122 TAAATATAAAATATAATTTTT
1 TAAATATAAAATATAATTATT
*
716143 TAAATAT-ATATA-AATTATT
1 TAAATATAAAATATAATTATT
* * *
716162 TAAAAAAATTAAATATATTTATAT
1 T--AAATATAAAATATAATTAT-T
716186 TAAATATA
1 TAAATATA
716194 TATCTAACTC
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
19 7 0.18
20 4 0.10
21 12 0.31
22 9 0.23
23 5 0.13
24 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATATAAAATATAATTATT
Found at i:717109 original size:2 final size:2
Alignment explanation
Indices: 717104--717138 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
717094 CAGCAGCTTT
717104 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
717139 TCTTTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:717768 original size:2 final size:2
Alignment explanation
Indices: 717761--717786 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
717751 TTTCTTGTCA
717761 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
717787 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:717791 original size:2 final size:2
Alignment explanation
Indices: 717786--717829 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
717776 TCTCTCTCTC
* * *
717786 TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA GA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
717828 TA
1 TA
717830 AAAAACTACA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:717887 original size:15 final size:14
Alignment explanation
Indices: 717863--717914 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
717853 AAAAGAATCG
*
717863 TAAATA-AAATATT
1 TAAATATAAATTTT
*
717876 TAAATTTTAAATTTAT
1 TAAA-TATAAATTT-T
717892 TAAATATAAATTTT
1 TAAATATAAATTTT
*
717906 TAAAAATAA
1 TAAATATAA
717915 TTATATGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 4 0.12
14 10 0.31
15 13 0.41
16 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAATATAAATTTT
Found at i:718104 original size:20 final size:19
Alignment explanation
Indices: 718059--718106 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
718049 AATATCCATG
718059 TTATTT-AAAATATTTAAA
1 TTATTTAAAAATATTTAAA
* *
718077 TCAATTAAAAGATATTTAAA
1 TTATTTAAAA-ATATTTAAA
718097 TTATTTAAAA
1 TTATTTAAAA
718107 TATGGGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 4 0.17
19 3 0.12
20 17 0.71
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
TTATTTAAAAATATTTAAA
Found at i:722255 original size:19 final size:19
Alignment explanation
Indices: 722197--722255 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
722187 TTTTTGTGAT
722197 AATTTGATTGTTTATA-TA
1 AATTTGATTGTTTATATTA
* * * *
722215 GAACTTTGTTTTTTTTTTTTA
1 -AA-TTTGATTGTTTATATTA
722236 AATTTGATTGTTTATATTA
1 AATTTGATTGTTTATATTA
722255 A
1 A
722256 TCAATTTTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
19 16 0.53
20 12 0.40
21 2 0.07
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (19 bp):
AATTTGATTGTTTATATTA
Found at i:724265 original size:48 final size:48
Alignment explanation
Indices: 724210--724301 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
724200 GATCTTTTGG
724210 AAAGAGAGTTACATATATATATATATAAATTGTATTTTGATAGAAACA
1 AAAGAGAGTTACATATATATATATATAAATTGTATTTTGATAGAAACA
* *
724258 AAAGAGAGTTATATATATATATATATATATTGTATTTTGATAGA
1 AAAGAGAGTTACATATATATATATATAAATTGTATTTTGATAGA
724302 TACGATCTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.46, C:0.02, G:0.13, T:0.39
Consensus pattern (48 bp):
AAAGAGAGTTACATATATATATATATAAATTGTATTTTGATAGAAACA
Found at i:728946 original size:28 final size:27
Alignment explanation
Indices: 728897--728982 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 27
728887 CATTTGTTTA
*
728897 TCAAAAATAGTGGTTATTTTGTATTTG
1 TCAAAAATGGTGGTTATTTTGTATTTG
728924 TCAAAAATGGTGGTT-TCCTTTGTATTTG
1 TCAAAAATGGTGGTTAT--TTTGTATTTG
* * * *
728952 TCAAATATGGAGGCT-TGTT-TATTTG
1 TCAAAAATGGTGGTTATTTTGTATTTG
728977 TCAAAA
1 TCAAAA
728983 TTTGTGGCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
25 11 0.22
26 3 0.06
27 14 0.27
28 23 0.45
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (27 bp):
TCAAAAATGGTGGTTATTTTGTATTTG
Found at i:731565 original size:21 final size:22
Alignment explanation
Indices: 731536--731581 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
731526 TGTTAAGACA
** *
731536 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
731558 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
731579 AGT
1 AGT
731582 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:733520 original size:28 final size:27
Alignment explanation
Indices: 733465--733535 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
733455 GCCACCCATT
*
733465 TGTTTGTTAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
733492 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
733520 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
733536 AGGCTTGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.23, C:0.06, G:0.24, T:0.48
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:737554 original size:2 final size:2
Alignment explanation
Indices: 737549--737581 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
737539 AGCAGCAACC
737549 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
737582 TCTTTTATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:738524 original size:20 final size:19
Alignment explanation
Indices: 738477--738528 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 19
738467 AATATCCATG
738477 TTATTT-AAAATATTTAAA
1 TTATTTAAAAATATTTAAA
* * *
738495 TCAATCAAAAGATATTTAAA
1 TTATTTAAAA-ATATTTAAA
738515 TTATTT-AAAATATT
1 TTATTTAAAAATATT
738529 GGGAAAATGA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
18 8 0.31
19 6 0.23
20 12 0.46
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
TTATTTAAAAATATTTAAA
Found at i:739207 original size:19 final size:19
Alignment explanation
Indices: 739160--739208 Score: 75
Period size: 17 Copynumber: 2.7 Consensus size: 19
739150 TTTATAATAT
739160 TATTAAAATATTATTTTTA
1 TATTAAAATATTATTTTTA
*
739179 TAGT--AATATTATTTTTA
1 TATTAAAATATTATTTTTA
739196 TATTAAAATATTA
1 TATTAAAATATTA
739209 AAGTTTAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 16 0.62
19 10 0.38
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TATTAAAATATTATTTTTA
Found at i:744481 original size:2 final size:2
Alignment explanation
Indices: 744474--744526 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
744464 AGAGAATTCC
744474 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
744516 AT AT AT AT AT A
1 AT AT AT AT AT A
744527 CATTGTATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:749655 original size:2 final size:2
Alignment explanation
Indices: 749650--749683 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
749640 TAAAATTCTA
*
749650 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
749684 CATTTAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:749829 original size:2 final size:2
Alignment explanation
Indices: 749811--749863 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
749801 AAAGGTTCTT
* *
749811 TA TA TT TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
749853 TA TA TA -A TA TA
1 TA TA TA TA TA TA
749864 AAACATGGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:751864 original size:12 final size:12
Alignment explanation
Indices: 751828--751906 Score: 78
Period size: 12 Copynumber: 7.0 Consensus size: 12
751818 AATAAATTCG
751828 TATA-TTTATAT
1 TATATTTTATAT
* *
751839 TTTA-TTTATGT
1 TATATTTTATAT
*
751850 TATTTTTTATAT
1 TATATTTTATAT
751862 TATA--TTATAT
1 TATATTTTATAT
*
751872 CATATTTTATAT
1 TATATTTTATAT
*
751884 CATATTTTA-AT
1 TATATTTTATAT
751895 TATATTTTATAT
1 TATATTTTATAT
751907 AATAGTGCCG
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
10 9 0.16
11 21 0.38
12 26 0.46
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.65
Consensus pattern (12 bp):
TATATTTTATAT
Found at i:752056 original size:31 final size:31
Alignment explanation
Indices: 752018--752076 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
752008 AATAATAGGA
752018 TAATAAGTTAGTAAAATGATATATATCCTAT
1 TAATAAGTTAGTAAAATGATATATATCCTAT
752049 TAATAAGTTAGTAAAATGATATATATCC
1 TAATAAGTTAGTAAAATGATATATATCC
752077 GTAAAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (31 bp):
TAATAAGTTAGTAAAATGATATATATCCTAT
Found at i:752094 original size:29 final size:30
Alignment explanation
Indices: 752019--752084 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 30
752009 ATAATAGGAT
*
752019 AATAAGTTAGTAAAATGATATATATCCTATT
1 AATAAGTTAG-AAAATGATATATATCCTATA
752050 AATAAGTTAGTAAAATGATATATATCCGTA-A
1 AATAAGTTAG-AAAATGATATATATCC-TATA
752081 AATA
1 AATA
752085 TATTAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (30 bp):
AATAAGTTAGAAAATGATATATATCCTATA
Found at i:754577 original size:6 final size:6
Alignment explanation
Indices: 754566--754605 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
754556 GGTGGTGACA
* * *
754566 GTGGAG GTGGAG GTAGAG GTGGAG GTGGCG GTGGTG GTGG
1 GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGGAG GTGG
754606 GAAAATTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.12, C:0.03, G:0.65, T:0.20
Consensus pattern (6 bp):
GTGGAG
Found at i:759249 original size:19 final size:18
Alignment explanation
Indices: 759198--759254 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
759188 TTTATTTAAA
*
759198 TTTAAT-TATAAAATATAT
1 TTTAATATAT-AAATATTT
*
759216 ATTAATATATAAATAATTT
1 TTTAATATATAAAT-ATTT
* *
759235 TTTAATATTTTAATATTT
1 TTTAATATATAAATATTT
759253 TT
1 TT
759255 AGATAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATATATAAATATTT
Found at i:760136 original size:29 final size:28
Alignment explanation
Indices: 760037--760138 Score: 81
Period size: 29 Copynumber: 3.7 Consensus size: 28
760027 AAAAATTACA
*
760037 AATTTTTTATA-TATAATATTCTTAAATAT
1 AATTTTTTATATTAT-ATATT-TAAAATAT
760066 AATTTATTTAT-TT-T-TA-TTAAAATAT
1 AATTT-TTTATATTATATATTTAAAATAT
** *
760091 -ATTAGTTATAATAATATATTTAAAATAT
1 AATTTTTTAT-ATTATATATTTAAAATAT
760119 AATTTTTTATAATTATATAT
1 AATTTTTTAT-ATTATATAT
760139 ATTTTTTTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
23 4 0.07
24 3 0.05
25 8 0.14
26 2 0.03
27 4 0.07
28 9 0.16
29 22 0.38
30 6 0.10
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (28 bp):
AATTTTTTATATTATATATTTAAAATAT
Found at i:760341 original size:2 final size:2
Alignment explanation
Indices: 760334--760362 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
760324 CATAAAAATC
760334 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 A
760363 AAGAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:767146 original size:22 final size:22
Alignment explanation
Indices: 767079--767162 Score: 64
Period size: 22 Copynumber: 3.8 Consensus size: 22
767069 ATATATTTTA
* * * *
767079 TATATTATAATTATATTTAAAA
1 TATAATATATTTATATATAAAT
* * *
767101 TATTATATATTTTTGATAT-TAT
1 TATAATATATTTAT-ATATAAAT
*
767123 TAATAATTTATTT-TATATAAAT
1 T-ATAATATATTTATATATAAAT
767145 TATAATATATTTATATAT
1 TATAATATATTTATATAT
767163 TCATATTATA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
21 14 0.30
22 21 0.45
23 12 0.26
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (22 bp):
TATAATATATTTATATATAAAT
Found at i:769077 original size:22 final size:23
Alignment explanation
Indices: 769051--769132 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 23
769041 ATTTCAATCA
769051 TTATTTTATAAT-TTTAATATAT
1 TTATTTTATAATATTTAATATAT
* *
769073 TTATTAT-TAATATTTAACATAAT
1 TTATTTTATAATATTTAATAT-AT
* * * *
769096 TAATTATAATATTATTTATTATAT
1 TTATT-TTATAATATTTAATATAT
*
769120 TTATATTATAATA
1 TTATTTTATAATA
769133 AATATAATAA
Statistics
Matches: 44, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
21 4 0.09
22 13 0.30
23 12 0.27
24 5 0.11
25 10 0.23
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATTTTATAATATTTAATATAT
Found at i:771674 original size:3 final size:3
Alignment explanation
Indices: 771666--771691 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
771656 TAAAAGTTTC
771666 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
771692 TTGTTCCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:772345 original size:25 final size:24
Alignment explanation
Indices: 772317--772364 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
772307 AAGGTATTAA
772317 ATTTAAATATATTATT-TTTAATTTT
1 ATTTAAATAT-TT-TTATTTAATTTT
*
772342 ATTTAAGTATTTTTATTTAATTT
1 ATTTAAATATTTTTATTTAATTT
772365 ATTATCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 10 0.48
25 9 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
ATTTAAATATTTTTATTTAATTTT
Found at i:773811 original size:24 final size:23
Alignment explanation
Indices: 773784--773832 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
773774 TTTTTATTAA
773784 TTTAAATAA-ATTTATATTTAATAT
1 TTTAAA-AATATTTATATTTAA-AT
*
773808 TTTAAAAATATTTTTATTTAAAT
1 TTTAAAAATATTTATATTTAAAT
773831 TT
1 TT
773833 AATTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAAAAATATTTATATTTAAAT
Found at i:773860 original size:21 final size:21
Alignment explanation
Indices: 773826--773865 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
773816 TATTTTTATT
773826 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
773847 TAAATATTAA-TATAAAATA
1 TAAAT-TTAATTATAAAATA
773866 ATTTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:774061 original size:10 final size:10
Alignment explanation
Indices: 774030--774091 Score: 67
Period size: 10 Copynumber: 6.5 Consensus size: 10
774020 ACTATTATTA
*
774030 TTATATTATT
1 TTATATTAAT
774040 TTA-ATT--T
1 TTATATTAAT
774047 TTATATTAAT
1 TTATATTAAT
774057 TTATATTAAT
1 TTATATTAAT
* *
774067 TTATTTTGAT
1 TTATATTAAT
*
774077 TTATATCAAT
1 TTATATTAAT
774087 TTATA
1 TTATA
774092 CCGACATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
7 4 0.09
8 3 0.07
9 3 0.07
10 34 0.77
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
TTATATTAAT
Found at i:774290 original size:16 final size:17
Alignment explanation
Indices: 774271--774318 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 17
774261 ATTTTATATT
774271 TATTTATAATTA-AAAA
1 TATTTATAATTATAAAA
*
774287 TA-TTA-AA-TATTAAA
1 TATTTATAATTATAAAA
*
774301 TATTTATAATTTTAAAA
1 TATTTATAATTATAAAA
774318 T
1 T
774319 TTATATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 7
0.71 0.09 0.20
Matches are distributed among these distances:
13 2 0.08
14 7 0.28
15 6 0.24
16 4 0.16
17 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTTATAATTATAAAA
Found at i:774360 original size:22 final size:22
Alignment explanation
Indices: 774323--774377 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
774313 TAAAATTTAT
*
774323 ATTTATATA--TACACAT-ATA
1 ATTTATATATTTATACATCATA
774342 ATTTAATATATTTATACATCATA
1 ATTT-ATATATTTATACATCATA
774365 ATTTATAT-TTTAT
1 ATTTATATATTTAT
774378 TAACAACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
21 5 0.16
22 10 0.32
23 7 0.23
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTATATATTTATACATCATA
Found at i:778965 original size:2 final size:2
Alignment explanation
Indices: 778960--779003 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
778950 TTTTCTTCCA
*
778960 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G TG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
779001 AG A
1 AG A
779004 AACAGTTTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.48, C:0.00, G:0.50, T:0.02
Consensus pattern (2 bp):
AG
Found at i:790619 original size:2 final size:2
Alignment explanation
Indices: 790612--790636 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
790602 TTTATAAGTT
790612 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
790637 TGAAAAATTA
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:793608 original size:3 final size:3
Alignment explanation
Indices: 793600--793634 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
793590 AGTTTTAATT
793600 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
793635 AGAGCCCATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:797005 original size:27 final size:27
Alignment explanation
Indices: 796974--797054 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 27
796964 CCCATTTTCT
796974 AATAAAAATTAGCCACCAATTTTGACA
1 AATAAAAATTAGCCACCAATTTTGACA
* *
797001 AAT---AATAAGCCACCAATTTTTACA
1 AATAAAAATTAGCCACCAATTTTGACA
* *
797025 AACAAAAA-TAACCACC-ATATTTGACA
1 AATAAAAATTAGCCACCAAT-TTTGACA
797051 AATA
1 AATA
797055 CAAAGGAACC
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
24 21 0.49
25 2 0.05
26 15 0.35
27 5 0.12
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.25
Consensus pattern (27 bp):
AATAAAAATTAGCCACCAATTTTGACA
Found at i:797051 original size:26 final size:26
Alignment explanation
Indices: 796998--797079 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 26
796988 ACCAATTTTG
*
796998 ACAAATAATAAGCCACCA-ATTTTTACAA
1 ACAAA-AATAA-CCACCATA-TTTGACAA
797026 ACAAAAATAACCACCATATTTGACAA
1 ACAAAAATAACCACCATATTTGACAA
* ** *
797052 ATACAAAGGAACCATCATATTTGACAA
1 ACA-AAAATAACCACCATATTTGACAA
797079 A
1 A
797080 TACAAAGAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 15 0.32
27 27 0.57
28 5 0.11
ACGTcount: A:0.51, C:0.21, G:0.06, T:0.22
Consensus pattern (26 bp):
ACAAAAATAACCACCATATTTGACAA
Found at i:797099 original size:27 final size:27
Alignment explanation
Indices: 797034--797086 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
797024 AAACAAAAAT
*
797034 AACCACCATATTTGACAAATACAAAGG
1 AACCATCATATTTGACAAATACAAAGG
797061 AACCATCATATTTGACAAATACAAAG
1 AACCATCATATTTGACAAATACAAAG
797087 AGTGACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.21
Consensus pattern (27 bp):
AACCATCATATTTGACAAATACAAAGG
Found at i:798741 original size:24 final size:24
Alignment explanation
Indices: 798713--798758 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
798703 AATAAAAATT
798713 AGCCACCAATTT-TGACAAACAACA
1 AGCCACCAATTTGT-ACAAACAACA
798737 AGCCACCAATTTGTACAAACAA
1 AGCCACCAATTTGTACAAACAA
798759 AAATAACCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.46, C:0.28, G:0.09, T:0.17
Consensus pattern (24 bp):
AGCCACCAATTTGTACAAACAACA
Found at i:798796 original size:28 final size:28
Alignment explanation
Indices: 798763--798845 Score: 148
Period size: 28 Copynumber: 3.0 Consensus size: 28
798753 AAACAAAAAT
*
798763 AACCACCATATTTGACAAATATAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
798791 AACCACCATATTTGACAAATACAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
*
798819 AACTACCATATTTGACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
798846 GTGGCATTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.20
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:800787 original size:21 final size:22
Alignment explanation
Indices: 800749--800794 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
800739 ATCTGTTGAA
* **
800749 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
800770 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
800792 ACT
1 ACT
800795 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:803368 original size:24 final size:24
Alignment explanation
Indices: 803340--803385 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
803330 AATAAAAATT
803340 AGCCACCAATTT-TGACAAACAACA
1 AGCCACCAATTTGT-ACAAACAACA
803364 AGCCACCAATTTGTACAAACAA
1 AGCCACCAATTTGTACAAACAA
803386 AAATAACCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.46, C:0.28, G:0.09, T:0.17
Consensus pattern (24 bp):
AGCCACCAATTTGTACAAACAACA
Found at i:803413 original size:22 final size:22
Alignment explanation
Indices: 803382--803441 Score: 57
Period size: 28 Copynumber: 2.5 Consensus size: 22
803372 ATTTGTACAA
*
803382 ACAAAAATAACCACCATATTTG
1 ACAAATATAACCACCATATTTG
803404 ACAAATATAAAGGAAACCACCATATTTG
1 ACAAATAT------AACCACCATATTTG
803432 ACAAATATAA
1 ACAAATATAA
803442 AGGAAACTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
22 9 0.29
28 22 0.71
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.22
Consensus pattern (22 bp):
ACAAATATAACCACCATATTTG
Found at i:803423 original size:28 final size:28
Alignment explanation
Indices: 803390--803472 Score: 139
Period size: 28 Copynumber: 3.0 Consensus size: 28
803380 AAACAAAAAT
803390 AACCACCATATTTGACAAATATAAAGGA
1 AACCACCATATTTGACAAATATAAAGGA
803418 AACCACCATATTTGACAAATATAAAGGA
1 AACCACCATATTTGACAAATATAAAGGA
* * *
803446 AACTACCATATTTGACAGATACAAAGG
1 AACCACCATATTTGACAAATATAAAGG
803473 GTGACATTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (28 bp):
AACCACCATATTTGACAAATATAAAGGA
Found at i:805752 original size:23 final size:22
Alignment explanation
Indices: 805721--805763 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
805711 CATTACATAC
*
805721 ATATATTAAAATAATATATTTT
1 ATATATTAAAAAAATATATTTT
*
805743 ATATAATTAAAAAAATTTATT
1 ATAT-ATTAAAAAAATATATT
805764 GAACAAAGTT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATATTAAAAAAATATATTTT
Found at i:806188 original size:10 final size:10
Alignment explanation
Indices: 806156--806189 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
806146 GATATGAAGA
806156 ATAATTAAAAT
1 ATAA-TAAAAT
*
806167 AAAATAAAAT
1 ATAATAAAAT
806177 ATAATAAAAT
1 ATAATAAAAT
806187 ATA
1 ATA
806190 GAAAATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 18 0.86
11 3 0.14
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
ATAATAAAAT
Found at i:807004 original size:20 final size:20
Alignment explanation
Indices: 806979--807029 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
806969 TATTTTTATT
806979 TATATA-TAATCATAAAAATA
1 TATATATTAAT-ATAAAAATA
806999 TATATATTAATATAAAAATA
1 TATATATTAATATAAAAATA
*
807019 -ATATTTTAATA
1 TATATATTAATA
807030 ATATAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 10 0.34
20 15 0.52
21 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TATATATTAATATAAAAATA
Found at i:807375 original size:2 final size:2
Alignment explanation
Indices: 807368--807393 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
807358 ATTAAACATG
807368 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
807394 TAATTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:808608 original size:3 final size:3
Alignment explanation
Indices: 808600--808626 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
808590 AGTTTTAATT
808600 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
808627 GAGCCCATCA
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:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:812558 original size:3 final size:3
Alignment explanation
Indices: 812550--812586 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
812540 AAGCAGATGA
812550 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
812587 AGGGAGGCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:812717 original size:2 final size:2
Alignment explanation
Indices: 812710--812741 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
812700 ACTAACATAG
812710 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
812742 CAAACACTTC
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:813105 original size:2 final size:2
Alignment explanation
Indices: 813098--813127 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
813088 ATGAAAATCT
813098 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
813128 GATACATGTG
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):
TA
Found at i:814311 original size:29 final size:29
Alignment explanation
Indices: 814251--814311 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
814241 ATCAAAGAAA
* * *
814251 TTTAAATAATTTTATATCATGAAAAAATC
1 TTTAAATAATTTTAAATAATGAAAAAAAC
*
814280 TTTAAATTATTTTAAATAAT-AAAATAAAC
1 TTTAAATAATTTTAAATAATGAAAA-AAAC
814309 TTT
1 TTT
814312 TAACTTGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
TTTAAATAATTTTAAATAATGAAAAAAAC
Found at i:815441 original size:30 final size:29
Alignment explanation
Indices: 815361--815451 Score: 105
Period size: 30 Copynumber: 3.1 Consensus size: 29
815351 AACTTGTTAG
* *
815361 TTATTTTAATATTATTAAACATACATATT-T
1 TTATTTTAATAATATT-AATATA-ATATTAT
*
815391 ATATTTTAATAATATATAATATAATATTAT
1 TTATTTTAATAATAT-TAATATAATATTAT
815421 TTATTTTAATAATAATTAATA-AATATTAT
1 TTATTTTAATAAT-ATTAATATAATATTAT
815450 TT
1 TT
815452 TCATTTATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
29 15 0.28
30 36 0.67
31 3 0.06
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (29 bp):
TTATTTTAATAATATTAATATAATATTAT
Found at i:815948 original size:22 final size:22
Alignment explanation
Indices: 815909--815955 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
815899 GAAAATTCTA
*
815909 TTTGAAAAATAATGTTTTTAGTT
1 TTTGAAAAATAATATTTTTA-TT
*
815932 TTTGAAAACTAA-ATTTTTATT
1 TTTGAAAAATAATATTTTTATT
815953 TTT
1 TTT
815956 ATTTGTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (22 bp):
TTTGAAAAATAATATTTTTATT
Found at i:820036 original size:27 final size:27
Alignment explanation
Indices: 819998--820050 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
819988 TTTATAGACA
*
819998 AAAAAAATCACCATATTTGACAAATAT
1 AAAAAAACCACCATATTTGACAAATAT
*
820025 AAAAAAACCACCATTTTTGACAAATA
1 AAAAAAACCACCATATTTGACAAATA
820051 CAAATGATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.55, C:0.17, G:0.04, T:0.25
Consensus pattern (27 bp):
AAAAAAACCACCATATTTGACAAATAT
Found at i:824563 original size:26 final size:27
Alignment explanation
Indices: 824531--824602 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
824521 AAACAACAAG
*
824531 CCACCATTTTTTATAAATAAAAAG-AA
1 CCACCATTTTTTACAAATAAAAAGAAA
* * *
824557 CCACCATATTTGACAAATATAAAGAAA
1 CCACCATTTTTTACAAATAAAAAGAAA
* *
824584 CTACCTTTTTTTACAAATA
1 CCACCATTTTTTACAAATA
824603 CAAATGGTGG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
26 20 0.54
27 17 0.46
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (27 bp):
CCACCATTTTTTACAAATAAAAAGAAA
Found at i:826872 original size:9 final size:8
Alignment explanation
Indices: 826844--826870 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
826834 CCCAAAGCTT
826844 AAATAAAA
1 AAATAAAA
826852 AAATAAAA
1 AAATAAAA
826860 AAATAAAA
1 AAATAAAA
826868 AAA
1 AAA
826871 ATTCTAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAATAAAA
Found at i:829663 original size:11 final size:11
Alignment explanation
Indices: 829647--829687 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
829637 ATTTCATATT
829647 TTTTTTCTTTC
1 TTTTTTCTTTC
829658 TTTTTTCTTCATC
1 TTTTTTCTT--TC
*
829671 TTCTTTCTTTC
1 TTTTTTCTTTC
829682 TTTTTT
1 TTTTTT
829688 ACCTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:829701 original size:24 final size:22
Alignment explanation
Indices: 829647--829701 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
829637 ATTTCATATT
**
829647 TTTTTTCTTTCTTTTTTCTTCA
1 TTTTTTCTTTCTTTTTTCTAAA
829669 TCTTCTTTCTTTCTTTTTTACCTAAA
1 T-TT-TTTCTTTCTTTTTT--CTAAA
829695 TTTTTTC
1 TTTTTTC
829702 AACCCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 2 0.07
24 18 0.67
25 2 0.07
26 4 0.15
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTCTTTCTTTTTTCTAAA
Found at i:830068 original size:23 final size:23
Alignment explanation
Indices: 830042--830087 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
830032 CCACTCAATC
830042 GGAAAACCCACTTTGATTTTTTT
1 GGAAAACCCACTTTGATTTTTTT
* * **
830065 GGAAAGCCCTCTTTTTTTTTTTT
1 GGAAAACCCACTTTGATTTTTTT
830088 TTTTTTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (23 bp):
GGAAAACCCACTTTGATTTTTTT
Found at i:830892 original size:45 final size:48
Alignment explanation
Indices: 830791--830896 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 48
830781 AATGTGCCAT
* *
830791 TTCAAGGTCAGCGACATCGGGCTAAGGGAAAAGTGGACCAATGTGCTGA
1 TTCAAGGCCAGCGACATCGGGCTAA-GGAAAAGTGGACCAATATGCTGA
* * * *
830840 CTCAAGGCCAGCGACATTGGGCTTA-GAAAGGT-G-CCAATATGCTGA
1 TTCAAGGCCAGCGACATCGGGCTAAGGAAAAGTGGACCAATATGCTGA
830885 TTCAAGGCCAGC
1 TTCAAGGCCAGC
830897 AATATCGGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 22 0.44
46 1 0.02
47 6 0.12
49 21 0.42
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (48 bp):
TTCAAGGCCAGCGACATCGGGCTAAGGAAAAGTGGACCAATATGCTGA
Done.