Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold147
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: 880509
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.26
Warning! 187686 characters in sequence are not A, C, G, or T
File 4 of 5
Found at i:740700 original size:2 final size:2
Alignment explanation
Indices: 740693--740742 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
740683 GAAATGTGGG
740693 TA TA TA TA TA TA 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
740735 TA TA TA TA
1 TA TA TA TA
740743 AGTTTAAGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:741154 original size:20 final size:21
Alignment explanation
Indices: 741131--741179 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
741121 TATAAATATT
741131 AATATAAAAATA-ATTTTTAA
1 AATATAAAAATACATTTTTAA
** *
741151 AATATATTAATACTTTTTTAA
1 AATATAAAAATACATTTTTAA
*
741172 AAAATAAA
1 AATATAAA
741180 TCTGTGTAAG
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AATATAAAAATACATTTTTAA
Found at i:741225 original size:126 final size:126
Alignment explanation
Indices: 741073--741433 Score: 611
Period size: 125 Copynumber: 2.9 Consensus size: 126
741063 ATCCAAATTA
* *
741073 ATTTTACTATTTATTCAATAAATTTTATTTAAATTTAATTAT-TAAATATATAAATATTAATATA
1 ATTTTACTATTTATTCAATAATTTTTATTTAAA-TTAATTATAAAAATATATAAATATTAATATA
* *
741137 AAAATAATTTTTAAAATATATTAATACTT-TTTTAAAAAATAAATCTGTGTAAGCTGGCCTTG
65 AAAATAAATTTTAAAATATATTAATA-TTATTTTAAAAAATAAATCTGTGTAAGCTGACCTTG
*
741199 GTTTTACTATTTATTCAATAATTTTTATTTAAATTAATTATAAAAATATATAAATATTAATATAA
1 ATTTTACTATTTATTCAATAATTTTTATTTAAATTAATTATAAAAATATATAAATATTAATATAA
*
741264 AAATAAATTTTAAAATATATTAATATTCTTTT-AAAAATAAATCTGTGTAAGCTGACCTTG
66 AAATAAATTTTAAAATATATTAATATTATTTTAAAAAATAAATCTGTGTAAGCTGACCTTG
741324 ATTTTACTATTTATTCAATAATTTTTATTTAAATTAATTATAAAAATATATAAATATTAATATAA
1 ATTTTACTATTTATTCAATAATTTTTATTTAAATTAATTATAAAAATATATAAATATTAATATAA
* *
741389 AAATAAATTTTAAAATATCTTAATATTATTTTAATAAATAAATCT
66 AAATAAATTTTAAAATATATTAATATTATTTTAAAAAATAAATCT
741434 ACATGTAGGC
Statistics
Matches: 223, Mismatches: 9, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
125 131 0.59
126 92 0.41
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (126 bp):
ATTTTACTATTTATTCAATAATTTTTATTTAAATTAATTATAAAAATATATAAATATTAATATAA
AAATAAATTTTAAAATATATTAATATTATTTTAAAAAATAAATCTGTGTAAGCTGACCTTG
Found at i:741283 original size:34 final size:34
Alignment explanation
Indices: 741241--741305 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
741231 ATTAATTATA
741241 AAAATATATAAATATTAATATAAAAATAAATTTT
1 AAAATATATAAATATTAATATAAAAATAAATTTT
* ** *
741275 AAAATATATTAATATTCTTTTAAAAATAAAT
1 AAAATATATAAATATTAATATAAAAATAAAT
741306 CTGTGTAAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAATATATAAATATTAATATAAAAATAAATTTT
Found at i:741414 original size:34 final size:35
Alignment explanation
Indices: 741366--741431 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
741356 ATTAATTATA
741366 AAAATATATAAATATTAATATAA-AAATAAATTTT
1 AAAATATATAAATATTAATATAATAAATAAATTTT
* * * *
741400 AAAATATCTTAATATTATTTTAATAAATAAAT
1 AAAATATATAAATATTAATATAATAAATAAAT
741432 CTACATGTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 19 0.70
35 8 0.30
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (35 bp):
AAAATATATAAATATTAATATAATAAATAAATTTT
Found at i:741646 original size:19 final size:19
Alignment explanation
Indices: 741611--741661 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
741601 TTTATATAAT
741611 ATAATTTAAAT--AAAATA
1 ATAATTTAAATAAAAAATA
* * *
741628 TTATTTTAATTAAAAAATA
1 ATAATTTAAATAAAAAATA
741647 ATAATTTAAATAAAA
1 ATAATTTAAATAAAA
741662 TAAAATTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 8 0.31
19 18 0.69
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAATTTAAATAAAAAATA
Found at i:741661 original size:17 final size:17
Alignment explanation
Indices: 741611--741669 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
741601 TTTATATAAT
741611 ATAATTTAAATAAAATA
1 ATAATTTAAATAAAATA
* * *
741628 TTATTTTAATTAAAAAATA
1 ATAATTTAA--ATAAAATA
741647 ATAATTTAAATAAAATA
1 ATAATTTAAATAAAATA
741664 A-AATTT
1 ATAATTT
741670 TATATTCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 5 0.15
17 15 0.44
19 14 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATTTAAATAAAATA
Found at i:742658 original size:16 final size:15
Alignment explanation
Indices: 742637--742668 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
742627 TTTAAAGCTC
742637 TTTTCTTTTTCTTTTT
1 TTTTCTTTTT-TTTTT
742653 TTTTCTTTTTTTTTT
1 TTTTCTTTTTTTTTT
742668 T
1 T
742669 ACAACATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:742661 original size:9 final size:10
Alignment explanation
Indices: 742635--742666 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
742625 GATTTAAAGC
742635 TCTTTTCTTTT
1 TCTTTT-TTTT
742646 TCTTTTTTTT
1 TCTTTTTTTT
742656 TCTTTTTTTT
1 TCTTTTTTTT
742666 T
1 T
742667 TTACAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:742667 original size:11 final size:11
Alignment explanation
Indices: 742635--742667 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
742625 GATTTAAAGC
*
742635 TCTTTTCTTTT
1 TCTTTTTTTTT
742646 TC-TTTTTTTT
1 TCTTTTTTTTT
742656 TCTTTTTTTTT
1 TCTTTTTTTTT
742667 T
1 T
742668 TACAACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:743870 original size:15 final size:16
Alignment explanation
Indices: 743850--743883 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
743840 TTTTTTTTAA
*
743850 ATATTTATATAT-AAT
1 ATATTTAAATATCAAT
743865 ATATTTAAATATCAAT
1 ATATTTAAATATCAAT
743881 ATA
1 ATA
743884 AAAATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTAAATATCAAT
Found at i:745342 original size:11 final size:11
Alignment explanation
Indices: 745305--745417 Score: 54
Period size: 11 Copynumber: 9.6 Consensus size: 11
745295 ATGATACAAT
*
745305 AAAA-ATAATT
1 AAAATATAATC
*
745315 AAAATATAATATA
1 AAAATAT-A-ATC
745328 AAAATATAATC
1 AAAATATAATC
745339 AAAATA-AGATAC
1 AAAATATA-AT-C
*
745351 AAATATATAAAC
1 AAA-ATATAATC
745363 AAATATGATATGAT-
1 AAA-AT-ATA--ATC
*
745377 AAAA-ATAATT
1 AAAATATAATC
*
745387 AAAATATAACATG
1 AAAATAT-A-ATC
745400 AAAATATAATC
1 AAAATATAATC
745411 AAAATAT
1 AAAATAT
745418 GATATAAATA
Statistics
Matches: 83, Mismatches: 6, Indels: 27
0.72 0.05 0.23
Matches are distributed among these distances:
9 2 0.02
10 9 0.11
11 26 0.31
12 15 0.18
13 26 0.31
14 4 0.05
15 1 0.01
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (11 bp):
AAAATATAATC
Found at i:745342 original size:24 final size:24
Alignment explanation
Indices: 745305--745432 Score: 111
Period size: 24 Copynumber: 5.4 Consensus size: 24
745295 ATGATACAAT
*
745305 AAAA-ATAATTAAAATATAATATA
1 AAAATATAATCAAAATATAATATA
*
745328 AAAATATAATCAAAATA-AGATACA
1 AAAATATAATCAAAATATA-ATATA
* * *
745352 AATATATAAAC-AAATATGATATGA
1 AAAATATAATCAAAATATAATAT-A
* * *
745376 TAAAA-ATAATTAAAATATAACATG
1 -AAAATATAATCAAAATATAATATA
*
745400 AAAATATAATCAAAATATGATATA
1 AAAATATAATCAAAATATAATATA
*
745424 AATATATAA
1 AAAATATAA
745433 GCATATAAAA
Statistics
Matches: 81, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
23 17 0.21
24 52 0.64
25 12 0.15
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (24 bp):
AAAATATAATCAAAATATAATATA
Found at i:745690 original size:29 final size:29
Alignment explanation
Indices: 745602--745693 Score: 112
Period size: 29 Copynumber: 3.2 Consensus size: 29
745592 ATCGAATTGC
*
745602 CTATGTATTCTTGTTTGTTATAATAAAAT
1 CTATGTATTCTTGTTTGATATAATAAAAT
* * * *
745631 CCATGTTTTCTTGTCTGATATGATAAAAT
1 CTATGTATTCTTGTTTGATATAATAAAAT
* * *
745660 CTATGTACTCTGGTTTGACATAATAAAAT
1 CTATGTATTCTTGTTTGATATAATAAAAT
745689 CTATG
1 CTATG
745694 AGAACATTAG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (29 bp):
CTATGTATTCTTGTTTGATATAATAAAAT
Found at i:746391 original size:6 final size:6
Alignment explanation
Indices: 746382--746420 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
746372 GCCATGGTTG
* * *
746382 CTGAGT CTGAGA CTGAGA CTGAGA CTGGGA CTGGGA CTG
1 CTGAGA CTGAGA CTGAGA CTGAGA CTGAGA CTGAGA CTG
746421 CTGTGCTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.21
Consensus pattern (6 bp):
CTGAGA
Found at i:751169 original size:26 final size:25
Alignment explanation
Indices: 751140--751198 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 25
751130 TGTCCCTATA
* *
751140 TTATAATATCTTATGTAAATTAATTT
1 TTATAAAAT-TTAAGTAAATTAATTT
751166 TTATAAAAAATTTAAGTAAATTAATTT
1 TTAT--AAAATTTAAGTAAATTAATTT
751193 TATATA
1 T-TATA
751199 TTTAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
26 5 0.18
27 16 0.57
28 7 0.25
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (25 bp):
TTATAAAATTTAAGTAAATTAATTT
Found at i:751292 original size:21 final size:21
Alignment explanation
Indices: 751267--751306 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
751257 TGATAATATA
751267 ATAAT-TAATTTTAATTAAATT
1 ATAATGTAA-TTTAATTAAATT
*
751288 ATAATGTGATTTAATTAAA
1 ATAATGTAATTTAATTAAA
751307 AAAATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
ATAATGTAATTTAATTAAATT
Found at i:751931 original size:46 final size:45
Alignment explanation
Indices: 751806--751933 Score: 125
Period size: 47 Copynumber: 2.8 Consensus size: 45
751796 ATTAAATAAT
* *
751806 ATTAAATTGAATTAAAATATTT-ATTTTTATATTATAAAAATTAAAA
1 ATTAAATTAAATTAAAATATTTAATTTTTA-ATT-TAAAAATAAAAA
* * * *
751852 ACT-AATTAAATATAAAATAATTATATTTTTTAATTTATATATAAAAA
1 ATTAAATTAAAT-TAAAAT-ATT-TAATTTTTAATTTAAAAATAAAAA
*
751899 ATTAAATTAAATTAAATATATTTAATTATTAATTT
1 ATTAAATTAAATTAAA-ATATTTAATTTTTAATTT
751934 TCGATTTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
45 7 0.10
46 19 0.28
47 21 0.31
48 14 0.21
49 6 0.09
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (45 bp):
ATTAAATTAAATTAAAATATTTAATTTTTAATTTAAAAATAAAAA
Found at i:754883 original size:20 final size:20
Alignment explanation
Indices: 754860--754907 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
754850 TATAAATATT
754860 AATATAAAAATAATTTTTAA
1 AATATAAAAATAATTTTTAA
** *
754880 AATATATTAATATTTTTTAA
1 AATATAAAAATAATTTTTAA
*
754900 AAAATAAA
1 AATATAAA
754908 TCTGTGTAAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATATAAAAATAATTTTTAA
Found at i:755913 original size:16 final size:15
Alignment explanation
Indices: 755892--755923 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
755882 TTTAAAGCTC
755892 TTTTCTTTTTCTTTTT
1 TTTTCTTTTT-TTTTT
755908 TTTTCTTTTTTTTTT
1 TTTTCTTTTTTTTTT
755923 T
1 T
755924 ACAACATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:755916 original size:9 final size:10
Alignment explanation
Indices: 755890--755921 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
755880 GATTTAAAGC
755890 TCTTTTCTTTT
1 TCTTTT-TTTT
755901 TCTTTTTTTT
1 TCTTTTTTTT
755911 TCTTTTTTTT
1 TCTTTTTTTT
755921 T
1 T
755922 TTACAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:755922 original size:11 final size:11
Alignment explanation
Indices: 755890--755922 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
755880 GATTTAAAGC
*
755890 TCTTTTCTTTT
1 TCTTTTTTTTT
755901 TC-TTTTTTTT
1 TCTTTTTTTTT
755911 TCTTTTTTTTT
1 TCTTTTTTTTT
755922 T
1 T
755923 TACAACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:763277 original size:26 final size:26
Alignment explanation
Indices: 763248--763306 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
763238 TGTCCCTATA
* * *
763248 TTATAAGACCTTATGTAAATTAATTT
1 TTATAAAAACTTAAGTAAATTAATTT
*
763274 TTATAAAAAATTTAAGTAAATTAATTT
1 TTAT-AAAAACTTAAGTAAATTAATTT
763301 TATATA
1 T-TATA
763307 TTTAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.15
27 20 0.74
28 3 0.11
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (26 bp):
TTATAAAAACTTAAGTAAATTAATTT
Found at i:765910 original size:24 final size:24
Alignment explanation
Indices: 765878--765977 Score: 75
Period size: 24 Copynumber: 4.2 Consensus size: 24
765868 AGTTTCTTTC
*
765878 TTATGTTATTGAATAAAATATTAT
1 TTATATTATTGAATAAAATATTAT
*
765902 TTATATTATT-AATAAAATAATTAA
1 TTATATTATTGAATAAAAT-ATTAT
*
765926 TTAAATTAAATTGAAT--AATATTAAT
1 TTATATT--ATTGAATAAAATATT-AT
* * *
765951 TTA-ATTTTTAAATAAAATA-AAT
1 TTATATTATTGAATAAAATATTAT
765973 TTATA
1 TTATA
765978 AAATAAAAAG
Statistics
Matches: 61, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
22 10 0.16
23 9 0.15
24 29 0.48
25 7 0.11
26 3 0.05
27 3 0.05
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (24 bp):
TTATATTATTGAATAAAATATTAT
Found at i:766492 original size:24 final size:25
Alignment explanation
Indices: 766465--766538 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 25
766455 TATATTTTAT
766465 AATAAATTTAAAACTTTTAATA-AA
1 AATAAATTTAAAACTTTTAATATAA
*
766489 AATAAATATTTAAATACTATTTAAAATAA
1 AAT-AA-ATTTAAA-ACT-TTTAATATAA
766518 AAT-AATTTAAAACCTTTTAAT
1 AATAAATTTAAAA-CTTTTAAT
766539 TTTAAAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
24 3 0.07
25 8 0.19
26 16 0.38
27 4 0.10
28 6 0.14
29 5 0.12
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (25 bp):
AATAAATTTAAAACTTTTAATATAA
Found at i:767324 original size:22 final size:24
Alignment explanation
Indices: 767290--767339 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
767280 ATAATTTTTC
*
767290 TTTTAATTAAAAAAATAGATAAT-
1 TTTTAAATAAAAAAATAGATAATA
* *
767313 TTTTAAAT-AAAAATTGGATAATA
1 TTTTAAATAAAAAAATAGATAATA
767336 TTTT
1 TTTT
767340 TTTAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (24 bp):
TTTTAAATAAAAAAATAGATAATA
Found at i:767710 original size:25 final size:25
Alignment explanation
Indices: 767677--767731 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
767667 CATTGTATTG
* *
767677 ATAT-ATATTTTATATAAATATAAA
1 ATATAATATTTTAGATAAATAAAAA
*
767701 ATATAATATTTTAGATATATAAAAA
1 ATATAATATTTTAGATAAATAAAAA
767726 ATATAA
1 ATATAA
767732 AAGATAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATATAATATTTTAGATAAATAAAAA
Found at i:767948 original size:30 final size:30
Alignment explanation
Indices: 767897--767957 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
767887 ATTTATGTCA
* *
767897 TAAATTTTTAATTTTATTAAATTATA-TTAT
1 TAAATTTTTAATTTGAATAAATT-TAGTTAT
767927 TAAATTTTT-ATTATGAATAAATTTAGTTAT
1 TAAATTTTTAATT-TGAATAAATTTAGTTAT
767957 T
1 T
767958 TAAGTTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (30 bp):
TAAATTTTTAATTTGAATAAATTTAGTTAT
Found at i:769498 original size:18 final size:19
Alignment explanation
Indices: 769474--769524 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
769464 TTAAAAATTT
*
769474 ATAAAATAAATTAACTTAA
1 ATAAAATAAATTAAATTAA
**
769493 AT-AAATATTTTAAATTAA
1 ATAAAATAAATTAAATTAA
769511 ATCAAAATAAATTA
1 AT-AAAATAAATTA
769525 TTCAATCCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 15 0.60
19 2 0.08
20 8 0.32
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAAATAAATTAAATTAA
Found at i:774291 original size:17 final size:18
Alignment explanation
Indices: 774266--774301 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
774256 TTGAAAAAGA
774266 TATAATTAT-TTTTTAAT
1 TATAATTATATTTTTAAT
*
774283 TATATTTATATTTTTAAT
1 TATAATTATATTTTTAAT
774301 T
1 T
774302 GACATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATAATTATATTTTTAAT
Found at i:774345 original size:15 final size:15
Alignment explanation
Indices: 774276--774361 Score: 55
Period size: 15 Copynumber: 5.2 Consensus size: 15
774266 TATAATTATT
774276 TTTTAATTATATTTATA
1 TTTTAATTA-ATTTA-A
774293 TTTTTAATTGACATTTTGAA
1 -TTTTAATT-A-A-TTT-AA
* **
774313 ATTTAATTTTTTTAAA
1 TTTTAATTAATTT-AA
774329 TTTTAATTAATTTAA
1 TTTTAATTAATTTAA
* *
774344 TTTGAATTAAATTAA
1 TTTTAATTAATTTAA
774359 TTT
1 TTT
774362 ATTATAAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
15 18 0.33
16 15 0.27
18 8 0.15
19 9 0.16
20 4 0.07
21 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTTAATTAATTTAA
Found at i:774611 original size:29 final size:29
Alignment explanation
Indices: 774566--774648 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
774556 CATATAACTT
774566 ATTTAT-TTT-AA-AAATTTTTATTTTTA
1 ATTTATATTTAAATAAATTTTTATTTTTA
* *
774592 ATTTATATTTAAATAAATTTTTAATATTA
1 ATTTATATTTAAATAAATTTTTATTTTTA
* * *
774621 TTTTATAATCAAATAAATTTTTGATTTT
1 ATTTATATTTAAATAAATTTTT-ATTTT
774649 ACATTTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 6 0.13
27 3 0.07
28 2 0.04
29 32 0.70
30 3 0.07
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (29 bp):
ATTTATATTTAAATAAATTTTTATTTTTA
Found at i:774615 original size:23 final size:25
Alignment explanation
Indices: 774585--774634 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
774575 AAAAATTTTT
774585 ATTTTTAAT-TTATATTTA-AAT-AA
1 ATTTTTAATATTAT-TTTATAATCAA
774608 ATTTTTAATATTATTTTATAATCAA
1 ATTTTTAATATTATTTTATAATCAA
774633 AT
1 AT
774635 AAATTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 13 0.54
24 7 0.29
25 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTTTTAATATTATTTTATAATCAA
Found at i:774623 original size:28 final size:28
Alignment explanation
Indices: 774538--774642 Score: 85
Period size: 29 Copynumber: 3.8 Consensus size: 28
774528 AAAAAATTAA
* *
774538 ATTT-TATTTAAATAAATTCATATAA-CTT
1 ATTTATATTTAAATAAATT--TTTAATATT
* *
774566 ATTTAT-TTT-AA-AAATTTTTATTTTT
1 ATTTATATTTAAATAAATTTTTAATATT
774591 AATTTATATTTAAATAAATTTTTAATATT
1 -ATTTATATTTAAATAAATTTTTAATATT
* *
774620 ATTTTATAATCAAATAAATTTTT
1 A-TTTATATTTAAATAAATTTTT
774643 GATTTTACAT
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
24 3 0.05
25 2 0.03
26 11 0.17
27 5 0.08
28 10 0.16
29 32 0.51
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTTATATTTAAATAAATTTTTAATATT
Found at i:774779 original size:10 final size:10
Alignment explanation
Indices: 774766--774790 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
774756 AATCCTCTCC
774766 CTCTCTCTGT
1 CTCTCTCTGT
774776 CTCTCTCTGT
1 CTCTCTCTGT
774786 CTCTC
1 CTCTC
774791 CCTCTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.44, G:0.08, T:0.48
Consensus pattern (10 bp):
CTCTCTCTGT
Found at i:775760 original size:2 final size:2
Alignment explanation
Indices: 775753--775787 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
775743 GGAGTTGTTT
775753 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
775788 CCATGCGCTG
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:781504 original size:2 final size:2
Alignment explanation
Indices: 781497--781527 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
781487 CATCAAAACA
781497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
781528 GAGGATGAAG
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:786331 original size:23 final size:23
Alignment explanation
Indices: 786281--786345 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 23
786271 ATTTATATTA
* * **
786281 ATATTTAATATATTATTATAAAT
1 ATATTTTATATATTAATATTTAT
*
786304 TTATTTTATATATTAATATTTAT
1 ATATTTTATATATTAATATTTAT
786327 ATATTTT-TA-ATTAA-ATTTA
1 ATATTTTATATATTAATATTTA
786346 AATAAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 5 0.14
21 5 0.14
22 2 0.06
23 24 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATATTTTATATATTAATATTTAT
Found at i:786379 original size:34 final size:34
Alignment explanation
Indices: 786318--786382 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
786308 TTTATATATT
*
786318 AATATTTATATATTTTTAATTAAATTTAAATAAA
1 AATATTTATATATTATTAATTAAATTTAAATAAA
786352 AATATTT-T-TATTATTAATTAATCATTTAAAT
1 AATATTTATATATTATTAATTAA--ATTTAAAT
786383 TAAATCACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 12 0.43
33 1 0.04
34 15 0.54
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (34 bp):
AATATTTATATATTATTAATTAAATTTAAATAAA
Found at i:786884 original size:19 final size:20
Alignment explanation
Indices: 786862--786904 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
786852 CTGTTAAATA
*
786862 ATAATAT-AATAATATATAT
1 ATAATATAAAAAATATATAT
*
786881 ATAA-ATAAAAAATATATTT
1 ATAATATAAAAAATATATAT
786900 ATAAT
1 ATAAT
786905 CACAATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATATAAAAAATATATAT
Found at i:788715 original size:21 final size:21
Alignment explanation
Indices: 788681--788722 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
788671 AAATTTATAT
788681 AAATATAAAATATTT-TAAAA
1 AAATATAAAATATTTATAAAA
*
788701 AAATTTAACAATATTTATAAAA
1 AAATATAA-AATATTTATAAAA
788723 TTTTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 7 0.37
22 5 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATATAAAATATTTATAAAA
Found at i:788724 original size:19 final size:18
Alignment explanation
Indices: 788673--788732 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 18
788663 ATATATTAAA
*
788673 ATTTATATAAATATAAAAT
1 ATTTATA-AAATTTAAAAT
*
788692 ATTTTAAAAAAATTTAACAAT
1 A-TTT-ATAAAATTTAA-AAT
788713 ATTTATAAAATTTTAAAAT
1 ATTTATAAAA-TTTAAAAT
788732 A
1 A
788733 AAAAAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
19 10 0.29
20 18 0.53
21 6 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTATAAAATTTAAAAT
Found at i:789200 original size:37 final size:37
Alignment explanation
Indices: 789131--789206 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
789121 AATATACTAT
* **
789131 TAAAAATATAAAATAAATATAATATACTTGATAAATA
1 TAAAAATATAAAATAAATAAAATATAAGTGATAAATA
* *
789168 TAAAAATATAATA-AAATAAAATATAAAGTGATATATA
1 TAAAAATATAAAATAAATAAAATAT-AAGTGATAAATA
789205 TA
1 TA
789207 TTTGAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 10 0.30
37 23 0.70
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (37 bp):
TAAAAATATAAAATAAATAAAATATAAGTGATAAATA
Found at i:789259 original size:18 final size:18
Alignment explanation
Indices: 789134--789260 Score: 56
Period size: 18 Copynumber: 7.3 Consensus size: 18
789124 ATACTATTAA
789134 AAATATA-AAATAAATAT
1 AAATATATAAATAAATAT
**
789151 -AATATACTTGATAAATAT
1 AAATATA-TAAATAAATAT
*
789169 AAAAATAT-AATAAA-AT
1 AAATATATAAATAAATAT
*
789185 AAA-ATATAAAGT-GATAT
1 AAATATATAAA-TAAATAT
* * *
789202 ATATATTTGAAAT--ATTT
1 AAATATAT-AAATAAATAT
* * *
789219 GAAATATA-ATTATAATTAA
1 -AAATATATA-AATAAATAT
789238 AAATATATAAATAAATAT
1 AAATATATAAATAAATAT
789256 AAATA
1 AAATA
789261 GCCGGATGTA
Statistics
Matches: 80, Mismatches: 17, Indels: 25
0.66 0.14 0.20
Matches are distributed among these distances:
15 4 0.05
16 15 0.19
17 15 0.19
18 36 0.45
19 10 0.12
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (18 bp):
AAATATATAAATAAATAT
Found at i:791889 original size:18 final size:18
Alignment explanation
Indices: 791866--791919 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
791856 AACTGTGTAC
791866 TATAATATTAAATATAAT
1 TATAATATTAAATATAAT
*
791884 TATAAT-TAAAATATAA-
1 TATAATATTAAATATAAT
*
791900 TATAATATTATTATATAAT
1 TATAATATTA-AATATAAT
791919 T
1 T
791920 TAAAATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.20
17 11 0.37
18 12 0.40
19 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATAATATTAAATATAAT
Found at i:791968 original size:33 final size:34
Alignment explanation
Indices: 791894--791977 Score: 113
Period size: 33 Copynumber: 2.5 Consensus size: 34
791884 TATAATTAAA
791894 ATAT-AATATAATATTATTATATAATTTAAAATTT
1 ATATAAATATAA-ATTATTATATAATTTAAAATTT
791928 ATA-AAATATAAATTATTAT-T-ATATTAAAATTT
1 ATATAAATATAAATTATTATATAAT-TTAAAATTT
*
791960 ATATAAATATAAAATATT
1 ATATAAATATAAATTATT
791978 TTAAAAATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
31 2 0.04
32 13 0.28
33 21 0.46
34 10 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (34 bp):
ATATAAATATAAATTATTATATAATTTAAAATTT
Found at i:791981 original size:27 final size:28
Alignment explanation
Indices: 791912--792008 Score: 81
Period size: 32 Copynumber: 3.2 Consensus size: 28
791902 TAATATTATT
791912 ATATAATTTAAAATTTATA-AAATATAAA
1 ATAT-ATTTAAAATTTATATAAATATAAA
791940 TTATTATTATATTAAAATTTATATAAATATAAA
1 --A-TA-TAT-TTAAAATTTATATAAATATAAA
* *
791973 ATAT-TTTAAAAATAATTATAATATAATAAA
1 ATATATTTAAAATTTA-TATAA-AT-ATAAA
792003 ATATAT
1 ATATAT
792009 AAATTTTTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
27 8 0.14
28 6 0.11
29 3 0.05
30 12 0.21
31 6 0.11
32 13 0.23
33 9 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
ATATATTTAAAATTTATATAAATATAAA
Found at i:794097 original size:2 final size:2
Alignment explanation
Indices: 794090--794119 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
794080 CTTGCTTTTA
794090 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
794120 TAAAAAAGAA
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:795805 original size:2 final size:2
Alignment explanation
Indices: 795798--795824 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
795788 TTCGTTCCTT
795798 AC 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 AC A
795825 TATATTAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:796956 original size:20 final size:21
Alignment explanation
Indices: 796923--796962 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
796913 AAATATTAAT
796923 ATAAAATAATATTTTTAAATA
1 ATAAAATAATATTTTTAAATA
*
796944 ATAAAATTA-ATTTTTAAAT
1 ATAAAATAATATTTTTAAAT
796963 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAAAATAATATTTTTAAATA
Found at i:797453 original size:3 final size:3
Alignment explanation
Indices: 797445--797482 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
797435 CTTTCCATTA
797445 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A
797483 GAAGGTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:798103 original size:41 final size:40
Alignment explanation
Indices: 798018--798108 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 40
798008 TAAATGTTTG
798018 AATATTT--ATTATTTAAATTTATTTTATTTATAAAAATA
1 AATATTTAAATTATTTAAATTTATTTTATTTATAAAAATA
* **
798056 ATATATTTAAATTATTTAAATTTAATTTTTTTTATAAATTTA
1 A-ATATTTAAATTATTTAAATTT-ATTTTATTTATAAAAATA
798098 AATA-TTAAATT
1 AATATTTAAATT
798109 TACTATTTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
38 1 0.02
39 6 0.13
40 7 0.15
41 16 0.35
42 16 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (40 bp):
AATATTTAAATTATTTAAATTTATTTTATTTATAAAAATA
Found at i:799000 original size:18 final size:17
Alignment explanation
Indices: 798990--799066 Score: 63
Period size: 17 Copynumber: 4.5 Consensus size: 17
798980 TATTTTTATA
798990 AATTTTAATATATTAAT
1 AATTTTAATATATTAAT
799007 AATTTATAATATA-T-A-
1 AATTT-TAATATATTAAT
* *
799022 AATTTTAAAATATTTAT
1 AATTTTAATATATTAAT
*
799039 ATATTTATATTATATT-AT
1 A-ATTT-TAATATATTAAT
799057 AATTTATAAT
1 AATTT-TAAT
799067 TTTAGTATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
14 6 0.12
15 6 0.12
16 2 0.04
17 15 0.30
18 14 0.28
19 7 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTTAATATATTAAT
Found at i:799023 original size:32 final size:33
Alignment explanation
Indices: 798986--799053 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 33
798976 TTTATATTTT
*
798986 TATAAATTTTAATATATTAATA-ATTTATAATA
1 TATAAATTTTAAAATATTAATATATTTATAATA
* *
799018 TATAAATTTTAAAATATTTATATATTTATATTA
1 TATAAATTTTAAAATATTAATATATTTATAATA
799051 TAT
1 TAT
799054 TATAATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 20 0.62
33 12 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
TATAAATTTTAAAATATTAATATATTTATAATA
Found at i:799034 original size:14 final size:14
Alignment explanation
Indices: 798986--799034 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
798976 TTTATATTTT
798986 TATAAATTTTAATA
1 TATAAATTTTAATA
799000 TATTAATAATTTATAATA
1 TA-T-A-AATTT-TAATA
*
799018 TATAAATTTTAAAA
1 TATAAATTTTAATA
799032 TAT
1 TAT
799035 TTATATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 9 0.30
15 6 0.20
16 2 0.07
17 6 0.20
18 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATAAATTTTAATA
Found at i:800067 original size:31 final size:33
Alignment explanation
Indices: 800011--800083 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
800001 TAAGTTATTT
800011 TTTA-TATT-TAAAATATTATTAATTTTAATAA
1 TTTATTATTATAAAATATTATTAATTTTAATAA
* *
800042 TTTATTATTATAAAATTTTA-T-ATTTTCATAA
1 TTTATTATTATAAAATATTATTAATTTTAATAA
*
800073 TTTGTT-TTATA
1 TTTATTATTATA
800084 TAGATTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 5 0.14
31 18 0.49
32 5 0.14
33 9 0.24
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (33 bp):
TTTATTATTATAAAATATTATTAATTTTAATAA
Found at i:800091 original size:31 final size:32
Alignment explanation
Indices: 800011--800096 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 32
800001 TAAGTTATTT
800011 TTTA-TATT-TAAAATATTATTA-ATTTTAATAA
1 TTTATTATTATAAAAT-TT-TTATATTTTAATAA
*
800042 TTTATTATTATAAAA-TTTTATATTTTCATAA
1 TTTATTATTATAAAATTTTTATATTTTAATAA
* *
800073 TTTGTT-TTATATAGATTTTTATAT
1 TTTATTATTATA-AAATTTTTATAT
800097 CTGTGTATTC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
30 8 0.17
31 22 0.47
32 12 0.26
33 5 0.11
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (32 bp):
TTTATTATTATAAAATTTTTATATTTTAATAA
Found at i:800749 original size:2 final size:2
Alignment explanation
Indices: 800742--800775 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
800732 GGTAGATTTA
*
800742 AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
800776 CGATATGAAA
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:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:800987 original size:99 final size:97
Alignment explanation
Indices: 800787--800966 Score: 222
Period size: 99 Copynumber: 1.9 Consensus size: 97
800777 GATATGAAAT
* * * *
800787 TTTTTTATTTTTAAATAATTTATTTAAAAAATTAATTTATATATTCACTCTTAAATCGATTTAAT
1 TTTTTTATTTTTAAATAATTTATTTAAAAAATTAATCTATATATTCACTCTCAAATCAATTTAAA
* * *
800852 ATTCATACTATCTATTTAAAAAATATTTATTTA
66 ATTCAGAC-ATCTAATCAAAAAATATTTATTTA
* *
800885 TTTTTTATTTTTAAATAATTTATTTAAAATAATTGATCTATATATTCACT-TACAAATTAATTTA
1 TTTTTTATTTTTAAATAATTTATTTAAAA-AATTAATCTATATATTCACTCT-CAAATCAATTTA
*
800949 AAATTTAGAC-TC-AATCAA
64 AAATTCAGACATCTAATCAA
800967 CAATTATTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
96 4 0.06
97 2 0.03
98 30 0.43
99 34 0.49
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.50
Consensus pattern (97 bp):
TTTTTTATTTTTAAATAATTTATTTAAAAAATTAATCTATATATTCACTCTCAAATCAATTTAAA
ATTCAGACATCTAATCAAAAAATATTTATTTA
Found at i:801795 original size:22 final size:21
Alignment explanation
Indices: 801760--801805 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
801750 AATTAATATG
* *
801760 ATTATTATTAAATTAAATTTA
1 ATTATTAATAAATTAAATGTA
801781 ATTATTGAATAAATTAAATGTA
1 ATTATT-AATAAATTAAATGTA
801803 ATT
1 ATT
801806 TATAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
ATTATTAATAAATTAAATGTA
Found at i:806468 original size:25 final size:25
Alignment explanation
Indices: 806409--806475 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
806399 TATATCAATT
*
806409 TTTTTTATGT-TAATAATTTATATTA
1 TTTTATATGTATAAT-ATTTATATTA
* * *
806434 -TATATTTGTATAATATTTTTATTA
1 TTTTATATGTATAATATTTATATTA
*
806458 TTTTATATGTATTATATT
1 TTTTATATGTATAATATT
806476 CGTACAATCA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
24 15 0.45
25 18 0.55
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTTATATGTATAATATTTATATTA
Found at i:810033 original size:17 final size:18
Alignment explanation
Indices: 809995--810044 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
809985 AAAATAAAAA
809995 ATTTAATTTAT-AAT-TT
1 ATTTAATTTATAAATATT
810011 GATTTAATTTATAAATATT
1 -ATTTAATTTATAAATATT
*
810030 -TTTATTTTA-AAATAT
1 ATTTAATTTATAAATAT
810045 ATTGTATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 6 0.20
17 19 0.63
18 3 0.10
19 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTAATTTATAAATATT
Found at i:810506 original size:19 final size:18
Alignment explanation
Indices: 810473--810539 Score: 84
Period size: 19 Copynumber: 3.7 Consensus size: 18
810463 AATGGTTGTT
810473 ATAAAAAAATTAAATATA
1 ATAAAAAAATTAAATATA
*
810491 ATACAAAAATTAAAATATA
1 ATAAAAAAATT-AAATATA
*
810510 ATATAAAAA-T-AATATA
1 ATAAAAAAATTAAATATA
810526 ATATAAAAAATTAA
1 ATA-AAAAAATTAA
810540 TATGATATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
16 9 0.21
17 5 0.12
18 12 0.29
19 16 0.38
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAAAAATTAAATATA
Found at i:810525 original size:16 final size:17
Alignment explanation
Indices: 810477--810561 Score: 91
Period size: 18 Copynumber: 4.8 Consensus size: 17
810467 GTTGTTATAA
*
810477 AAAAATTAAATATAATAC
1 AAAAATT-AATATAATAT
810495 AAAAATTAAAATATAATAT
1 AAAAATT--AATATAATAT
810514 AAAAA-TAATATAATAT
1 AAAAATTAATATAATAT
*
810530 AAAAAATTAATATGATAT
1 -AAAAATTAATATAATAT
*
810548 AAATTATTAATATA
1 AAA-AATTAATATA
810562 TAAAATTTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
16 10 0.17
17 8 0.14
18 26 0.44
19 15 0.25
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (17 bp):
AAAAATTAATATAATAT
Found at i:810611 original size:16 final size:16
Alignment explanation
Indices: 810498--810632 Score: 62
Period size: 16 Copynumber: 8.1 Consensus size: 16
810488 ATAATACAAA
*
810498 AATTAAAATATAATAT
1 AATTATAATATAATAT
**
810514 AAAAATAATATAATAT
1 AATTATAATATAATAT
** *
810530 AAAAAATTAATATGATAT
1 -AATTA-TAATATAATAT
*
810548 AAATTATTAATAT-ATAA
1 -AATTA-TAATATAATAT
*
810565 AATT-TTATATAAATAT
1 AATTATAATAT-AATAT
*
810581 AA--ACTAATTTAAATAT
1 AATTA-TAATAT-AATAT
*
810597 AATTATAATATAATAA
1 AATTATAATATAATAT
*
810613 AATTTATAAATATAAAAT
1 AA-TTAT-AATATAATAT
810631 AA
1 AA
810633 ATTTAAAAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
14 5 0.05
16 40 0.43
17 17 0.18
18 32 0.34
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (16 bp):
AATTATAATATAATAT
Found at i:810626 original size:18 final size:19
Alignment explanation
Indices: 810599--810642 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
810589 TTAAATATAA
*
810599 TTAT-AATATAATA-AAAT
1 TTATAAATATAAAATAAAT
810616 TTATAAATATAAAATAAAT
1 TTATAAATATAAAATAAAT
*
810635 TTAAAAAT
1 TTATAAAT
810643 TACTTAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTATAAATATAAAATAAAT
Found at i:810629 original size:15 final size:17
Alignment explanation
Indices: 810599--810637 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
810589 TTAAATATAA
810599 TTATAATATAATAAAAT
1 TTATAATATAATAAAAT
*
810616 TTATAAATATAAAATAAAT
1 TTAT-AATATAATA-AAAT
810635 TTA
1 TTA
810638 AAAATTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 8 0.42
19 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTATAATATAATAAAAT
Found at i:813553 original size:38 final size:38
Alignment explanation
Indices: 813474--813554 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
813464 AATTAATCAA
* * **
813474 TTTTATTATATTTAAAAAAATATATAATTAATATATTAT
1 TTTTATTAAATTTAAAAAAATATAT-ATAAATATAAAAT
813513 TTTTATTAAATTTAAAAATAATATAT-TAAATATAAAAT
1 TTTTATTAAATTTAAAAA-AATATATATAAATATAAAAT
813551 TTTT
1 TTTT
813555 TAAATATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 13 0.35
39 17 0.46
40 7 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (38 bp):
TTTTATTAAATTTAAAAAAATATATATAAATATAAAAT
Found at i:813920 original size:21 final size:20
Alignment explanation
Indices: 813894--813934 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
813884 AAATAAATAA
*
813894 ATAATTTTAATTTTAATAATT
1 ATAATTATAA-TTTAATAATT
813915 ATAATTATAATTTAATAATT
1 ATAATTATAATTTAATAATT
813935 CAAATGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATTATAATTTAATAATT
Found at i:814417 original size:2 final size:2
Alignment explanation
Indices: 814412--814452 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
814402 AAACACACAC
814412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
814453 AGAGATGGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:814615 original size:3 final size:3
Alignment explanation
Indices: 814607--814634 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
814597 TTTTATTTAG
814607 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
814635 GAAGAAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:819797 original size:2 final size:2
Alignment explanation
Indices: 819790--819837 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
819780 CCACTTGTTT
819790 TA TA TA TA TA TA 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
819832 TA TA TA
1 TA TA TA
819838 ACTTGCATGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:820965 original size:18 final size:19
Alignment explanation
Indices: 820928--820966 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
820918 GATTAGATAA
*
820928 TTTATATATTTGTGTTATG
1 TTTATATATTTGTATTATG
820947 TTTATATATTT-TATTATG
1 TTTATATATTTGTATTATG
820965 TT
1 TT
820967 ATAATCGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (19 bp):
TTTATATATTTGTATTATG
Found at i:825005 original size:3 final size:3
Alignment explanation
Indices: 824997--825039 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
824987 AACATTTTCT
824997 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
825040 ATTACTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:825501 original size:16 final size:16
Alignment explanation
Indices: 825460--825547 Score: 72
Period size: 16 Copynumber: 5.4 Consensus size: 16
825450 GAAATAGATC
*
825460 AATTTAAATTTAAAA-
1 AATTAAAATTTAAAAT
*
825475 ATATCTGAAATTTAAAAT
1 A-AT-TAAAATTTAAAAT
* *
825493 GATTAAAATTTAAAGT
1 AATTAAAATTTAAAAT
*
825509 AATTTAAATTTAAAAT
1 AATTAAAATTTAAAAT
*
825525 AA-TACAAATCTAAAAT
1 AATTA-AAATTTAAAAT
*
825541 AACTAAA
1 AATTAAA
825548 GTCGATAACT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
15 2 0.03
16 42 0.71
17 15 0.25
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (16 bp):
AATTAAAATTTAAAAT
Found at i:825656 original size:16 final size:16
Alignment explanation
Indices: 825613--825762 Score: 61
Period size: 16 Copynumber: 9.0 Consensus size: 16
825603 TAATTTTAAT
*
825613 TAATTTAAATTTAAAA
1 TAATTCAAATTTAAAA
* ** *
825629 CAATTCGTATTTAAAG
1 TAATTCAAATTTAAAA
*
825645 TAATTCAAATTTATTTAATT
1 TAATTCAAATTTA---AA-A
* *
825665 TAAGTGTTAAATTT-AAT
1 TAA-T-TCAAATTTAAAA
*
825682 TAATTAAAATTTAAAA
1 TAATTCAAATTTAAAA
* * *
825698 TTATTTAAATTTAAAT
1 TAATTCAAATTTAAAA
* * *
825714 TATTTTATATTT-AAA
1 TAATTCAAATTTAAAA
*
825729 TAATTTAAATTTAAAAA
1 TAATTCAAATTT-AAAA
*
825746 TAATTAAAAGTTTAAAA
1 TAATTCAAA-TTTAAAA
825763 ATTTAAATTA
Statistics
Matches: 102, Mismatches: 22, Indels: 19
0.71 0.15 0.13
Matches are distributed among these distances:
15 19 0.19
16 46 0.45
17 19 0.19
18 5 0.05
19 2 0.02
20 3 0.03
21 1 0.01
22 7 0.07
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (16 bp):
TAATTCAAATTTAAAA
Found at i:825676 original size:22 final size:21
Alignment explanation
Indices: 825646--825714 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 21
825636 TATTTAAAGT
*
825646 AATTCAAATTTATTTAATTTA
1 AATTTAAATTTATTTAATTTA
* * *
825667 AGTGTTAAATTTAATTAATTAA
1 AAT-TTAAATTTATTTAATTTA
*
825689 AATTTAAAATTATTTAAATTTA
1 AATTTAAATTTATTT-AATTTA
825711 AATT
1 AATT
825715 ATTTTATATT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
21 12 0.32
22 26 0.68
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (21 bp):
AATTTAAATTTATTTAATTTA
Found at i:825699 original size:17 final size:17
Alignment explanation
Indices: 825671--825762 Score: 88
Period size: 16 Copynumber: 5.7 Consensus size: 17
825661 AATTTAAGTG
825671 TTAAATTT--AATTAAT
1 TTAAATTTAAAATTAAT
*
825686 TAAAATTTAAAATT-AT
1 TTAAATTTAAAATTAAT
*
825702 TTAAATTT-AAATTATT
1 TTAAATTTAAAATTAAT
*
825718 TTATATTT-AAA-TAAT
1 TTAAATTTAAAATTAAT
*
825733 TTAAATTTAAAAATAAT
1 TTAAATTTAAAATTAAT
*
825750 TAAAAGTTTAAAA
1 TTAAA-TTTAAAA
825763 ATTTAAATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
15 22 0.34
16 23 0.36
17 12 0.19
18 7 0.11
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (17 bp):
TTAAATTTAAAATTAAT
Found at i:825709 original size:31 final size:31
Alignment explanation
Indices: 825671--825771 Score: 109
Period size: 32 Copynumber: 3.2 Consensus size: 31
825661 AATTTAAGTG
825671 TTAAATTT-AATTAATTAAAATTTAAAATTAT
1 TTAAATTTAAATTAATTAAAATTTAAAA-TAT
* * *
825702 TTAAATTTAAATTATTTTATATTT-AAATAAT
1 TTAAATTTAAATTAATTAAAATTTAAAAT-AT
*
825733 TTAAATTTAAAAATAATTAAAAGTTTAAAA-AT
1 TTAAATTT-AAATTAATTAAAA-TTTAAAATAT
825765 TTAAATT
1 TTAAATT
825772 AACCTAATTC
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
30 1 0.02
31 21 0.36
32 30 0.52
33 3 0.05
34 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
TTAAATTTAAATTAATTAAAATTTAAAATAT
Found at i:825726 original size:69 final size:67
Alignment explanation
Indices: 825600--825771 Score: 156
Period size: 69 Copynumber: 2.6 Consensus size: 67
825590 TTAACTCGAT
* * *** **
825600 TGTTAATTTTAATTAATTTAAATTTAAAACAATTCGTATTTAAAGTAATTCAAATTTATTTAATT
1 TGTTAAATTTAATTAATTAAAATTT-AAA-AATTTAAATTTAAAGTAATTCAAATTTAAATAATT
*
825665 TAAG
64 TAAA
* * * *
825669 TGTTAAATTTAATTAATTAAAATTTAAAATTATTTAAATTTAAATTATTTTATATTTAAATAATT
1 TGTTAAATTTAATTAATTAAAATTTAAAA--ATTTAAATTTAAAGTAATTCAAATTTAAATAATT
825734 TAAA
64 TAAA
825738 T-TTAAA---AA-TAATTAAAAGTTTAAAAATTTAAATT
1 TGTTAAATTTAATTAATTAAAA-TTTAAAAATTTAAATT
825772 AACCTAATTC
Statistics
Matches: 88, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
63 9 0.10
64 9 0.10
65 9 0.10
67 1 0.01
68 8 0.09
69 52 0.59
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (67 bp):
TGTTAAATTTAATTAATTAAAATTTAAAAATTTAAATTTAAAGTAATTCAAATTTAAATAATTTA
AA
Found at i:826085 original size:22 final size:21
Alignment explanation
Indices: 826035--826086 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
826025 TTTGATACCG
*
826035 AATAATTTAAATTGTTGATTA
1 AATAATTTAAATTGTTAATTA
*
826056 ATTGAATTTAAATAT-TTAATTTA
1 AAT-AATTTAAAT-TGTTAA-TTA
826079 AATAATTT
1 AATAATTT
826087 GTGAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (21 bp):
AATAATTTAAATTGTTAATTA
Found at i:826112 original size:17 final size:18
Alignment explanation
Indices: 826092--826134 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
826082 AATTTGTGAA
826092 TTTAATTAAAATTTTA-T
1 TTTAATTAAAATTTTATT
* *
826109 TTTAA-TATATTTTTATT
1 TTTAATTAAAATTTTATT
826126 TTTAATTAA
1 TTTAATTAA
826135 TATTAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 8 0.38
17 11 0.52
18 2 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTAATTAAAATTTTATT
Found at i:826286 original size:7 final size:7
Alignment explanation
Indices: 826269--826345 Score: 61
Period size: 7 Copynumber: 10.9 Consensus size: 7
826259 TTTATCACAA
826269 TTAAA-T
1 TTAAATT
826275 TTAAATT
1 TTAAATT
**
826282 TTAAAAA
1 TTAAATT
826289 TTAAATT
1 TTAAATT
*
826296 TAATAAA-A
1 T--TAAATT
826304 TTAAATT
1 TTAAATT
*
826311 TAATAAA-A
1 T--TAAATT
826319 TTAAATT
1 TTAAATT
826326 TTAAATT
1 TTAAATT
826333 TTAAATT
1 TTAAATT
826340 TTAAAT
1 TTAAAT
826346 ATTTGAATCG
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
6 13 0.23
7 33 0.59
8 2 0.04
9 8 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TTAAATT
Found at i:826294 original size:14 final size:14
Alignment explanation
Indices: 826275--826344 Score: 86
Period size: 15 Copynumber: 4.9 Consensus size: 14
826265 ACAATTAAAT
826275 TTAAATTTTAAAAA
1 TTAAATTTTAAAAA
*
826289 TTAAATTTAATAAAA
1 TTAAATTTTA-AAAA
*
826304 TTAAATTTAATAAAA
1 TTAAATTTTA-AAAA
**
826319 TTAAATTTTAAATT
1 TTAAATTTTAAAAA
826333 TTAAATTTTAAA
1 TTAAATTTTAAA
826345 TATTTGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
14 23 0.45
15 28 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAAATTTTAAAAA
Found at i:826319 original size:30 final size:29
Alignment explanation
Indices: 826270--826326 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
826260 TTATCACAAT
* *
826270 TAAATTTAAATTTTAAAAATTAAATTTAA
1 TAAAATTAAATTTAAAAAATTAAATTTAA
826299 TAAAATTAAATTTAATAAAATTAAATTT
1 TAAAATTAAATTTAA-AAAATTAAATTT
826327 TAAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TAAAATTAAATTTAAAAAATTAAATTTAA
Found at i:826337 original size:20 final size:15
Alignment explanation
Indices: 826270--826326 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
826260 TTATCACAAT
* *
826270 TAAATTTAAATTTTA
1 TAAAATTAAATTTAA
826285 -AAAATTAAATTTAA
1 TAAAATTAAATTTAA
826299 TAAAATTAAATTTAA
1 TAAAATTAAATTTAA
826314 TAAAATTAAATTT
1 TAAAATTAAATTT
826327 TAAATTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.31
15 27 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAATTAAATTTAA
Found at i:826344 original size:51 final size:51
Alignment explanation
Indices: 826227--826345 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 51
826217 ATTAGATAAA
* * * *
826227 AAATTTTAACTATTAAA-TTAAAAAATTTAATTTTTATCACAATTAAATTT
1 AAATTTTAAATATTAAATTTAAAAAATTTAAATTTAATCAAAATTAAATTT
*
826277 AAATTTTAAAAATTAAATTTAATAAAA-TTAAATTTAAT-AAAATTAAATTTT
1 AAATTTTAAATATTAAATTTAA-AAAATTTAAATTTAATCAAAATTAAA-TTT
*
826328 AAATTTTAAATTTTAAAT
1 AAATTTTAAATATTAAAT
826346 ATTTGAATCG
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
50 23 0.39
51 32 0.54
52 4 0.07
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (51 bp):
AAATTTTAAATATTAAATTTAAAAAATTTAAATTTAATCAAAATTAAATTT
Found at i:828491 original size:19 final size:20
Alignment explanation
Indices: 828454--828491 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
828444 TCAGAAAATG
**
828454 GCAGATGTTTGTTTTACTTA
1 GCAGATGTTTGTTACACTTA
828474 GCAGATG-TTGTTACACTT
1 GCAGATGTTTGTTACACTT
828492 TTGCAGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (20 bp):
GCAGATGTTTGTTACACTTA
Found at i:832546 original size:25 final size:27
Alignment explanation
Indices: 832495--832548 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
832485 AAAATATTTA
832495 AAAATTATTTTTATAATTAAATTTAAAT
1 AAAATTATTTTTATAATTAAA-TTAAAT
832523 AAAATTATTATTT-T-ATTAAA-TAAAT
1 AAAATTATT-TTTATAATTAAATTAAAT
832548 A
1 A
832549 GTGATAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 6 0.24
27 6 0.24
28 10 0.40
29 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
AAAATTATTTTTATAATTAAATTAAAT
Found at i:834625 original size:38 final size:38
Alignment explanation
Indices: 834545--834627 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 38
834535 AACAATAATA
834545 AATTAATCAAATATTTTCATAAATATAATTAATAAATT
1 AATTAATCAAATATTTTCATAAATATAATTAATAAATT
* * * *
834583 -ATTAAT-TAATATTTTCCACTTAATATTATTAA-ACATT
1 AATTAATCAAATATTTT-CA-TAAATATAATTAATAAATT
834620 AATTAATC
1 AATTAATC
834628 TATACTGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
36 8 0.22
37 12 0.32
38 17 0.46
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (38 bp):
AATTAATCAAATATTTTCATAAATATAATTAATAAATT
Found at i:835998 original size:27 final size:29
Alignment explanation
Indices: 835968--836027 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
835958 TCACTCTATT
* *
835968 ATTAATA-TTT-AAATTTATTATCAAAAC
1 ATTAATATTTTAAAATATAATATCAAAAC
* *
835995 ATTATTATTTTAAAATATAATATCAAAAT
1 ATTAATATTTTAAAATATAATATCAAAAC
836024 ATTA
1 ATTA
836028 TTTTTTATCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.22
28 3 0.11
29 18 0.67
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (29 bp):
ATTAATATTTTAAAATATAATATCAAAAC
Found at i:836515 original size:15 final size:16
Alignment explanation
Indices: 836487--836516 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
836477 ATATAAAATA
836487 ATATTTTAAAATAATG
1 ATATTTTAAAATAATG
836503 ATATTTT-AAATAAT
1 ATATTTTAAAATAAT
836517 AAATTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATATTTTAAAATAATG
Found at i:844109 original size:18 final size:17
Alignment explanation
Indices: 844086--844185 Score: 52
Period size: 16 Copynumber: 6.1 Consensus size: 17
844076 TAAATATTTT
844086 AATATTTATATAAAATA
1 AATATTTATATAAAATA
* *
844103 AAT-TATTA-ATATATTA
1 AATAT-TTATATAAAATA
844119 AAT-TTTATATAAATATAA
1 AATATTTATATAAA-AT-A
*
844137 AATATTT-TA-AATATA
1 AATATTTATATAAAATA
* * *
844152 ATTA-TAATATAATA-A
1 AATATTTATATAAAATA
*
844167 AATATTAAATATAAAATA
1 AATATT-TATATAAAATA
844185 A
1 A
844186 TATACGAATT
Statistics
Matches: 64, Mismatches: 9, Indels: 19
0.70 0.10 0.21
Matches are distributed among these distances:
14 1 0.02
15 13 0.20
16 22 0.34
17 17 0.27
18 8 0.12
19 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATTTATATAAAATA
Found at i:844115 original size:20 final size:21
Alignment explanation
Indices: 844092--844185 Score: 56
Period size: 20 Copynumber: 4.6 Consensus size: 21
844082 TTTTAATATT
844092 TATATAAAATAAATTAT-TAA
1 TATATAAAATAAATTATATAA
* *
844112 TATATTAAAT--TTTATATAA
1 TATATAAAATAAATTATATAA
**
844131 -ATATAAAATATTTTAAATATAA
1 TATATAAAATAAATT--ATATAA
* *
844153 TTATAATATAATAAAATAT-TAA
1 -TAT-ATAAAATAAATTATATAA
844175 -ATATAAAATAA
1 TATATAAAATAA
844186 TATACGAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
18 12 0.21
19 11 0.19
20 14 0.24
22 9 0.16
23 2 0.03
24 2 0.03
25 8 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATATAAAATAAATTATATAA
Found at i:844140 original size:27 final size:28
Alignment explanation
Indices: 844109--844189 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 28
844099 AATAAATTAT
* *
844109 TAATATATTAAATTTTA-TATAAATATAA
1 TAATATATTAAATATAATTAT-AATATAA
*
844137 -AATATTTTAAATATAATTATAATATAA
1 TAATATATTAAATATAATTATAATATAA
* *
844164 TAAAATATTAAATATAA-AATAATATA
1 TAATATATTAAATATAATTATAATATA
844190 CGAATTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 28 0.62
28 17 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TAATATATTAAATATAATTATAATATAA
Found at i:844157 original size:22 final size:21
Alignment explanation
Indices: 844130--844187 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
844120 ATTTTATATA
* *
844130 AATATAAAATATTTTAAATATA
1 AATATAAAATA-ATAAAATATA
* *
844152 ATTATAATATAATAAAATATTA
1 AATATAAAATAATAAAATA-TA
844174 AATATAAAATAATA
1 AATATAAAATAATA
844188 TACGAATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATATAAAATAATAAAATATA
Found at i:848843 original size:2 final size:2
Alignment explanation
Indices: 848836--848871 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
848826 ACATTCACCC
* *
848836 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
848872 CAAGGATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:849091 original size:21 final size:19
Alignment explanation
Indices: 849054--849093 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
849044 TTAAATGTAA
*
849054 TTATAAAATATATTAATAT
1 TTATAAAATATAATAATAT
849073 TTATATAAATATAAATAATAT
1 TTATA-AAATAT-AATAATAT
849094 ATTAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATAAAATATAATAATAT
Found at i:852172 original size:23 final size:23
Alignment explanation
Indices: 852132--852206 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
852122 ATTTTTTTTA
* **
852132 AAATATTAATATTTAATATATTT
1 AAATATAAATATAAAATATATTT
852155 AAATATAAATATAAAATATAATTTTT
1 AAATATAAATATAAAATAT-A--TTT
*
852181 TAA-ATAAATA-AAAATATATATT
1 AAATATAAATATAAAATATAT-TT
852203 AAAT
1 AAAT
852207 TTTTACCGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
21 1 0.02
22 4 0.10
23 17 0.40
24 8 0.19
25 7 0.17
26 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATATAAATATAAAATATATTT
Found at i:852209 original size:29 final size:31
Alignment explanation
Indices: 852154--852211 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
852144 TTAATATATT
* *
852154 TAAATATAAATATAAAATATAATTTTTTAAA
1 TAAATAAAAATATAAAATATAAATTTTTAAA
*
852185 TAAATAAAAATAT-ATAT-TAAATTTTTA
1 TAAATAAAAATATAAAATATAAATTTTTA
852212 CCGTATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 3 0.12
31 12 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
TAAATAAAAATATAAAATATAAATTTTTAAA
Found at i:852410 original size:6 final size:7
Alignment explanation
Indices: 852393--852417 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
852383 GGAATCAATT
852393 TTTTTTA
1 TTTTTTA
852400 TTTTTTA
1 TTTTTTA
852407 TTTTTTA
1 TTTTTTA
852414 TTTT
1 TTTT
852418 ATAATTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:853143 original size:17 final size:17
Alignment explanation
Indices: 853103--853145 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
853093 AATCAGATTT
*
853103 TAAATAAATATTAAAAA
1 TAAATATATATTAAAAA
* *
853120 TAAATATATATTTAATA
1 TAAATATATATTAAAAA
853137 TAAATATAT
1 TAAATATAT
853146 TTATTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATATATATTAAAAA
Found at i:853188 original size:22 final size:22
Alignment explanation
Indices: 853124--853188 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
853114 TAAAAATAAA
*
853124 TATATATTTAATATAAA-TATAT
1 TATATATTTAA-AAAAATTATAT
** * *
853146 T-TAT-TTTTTAAAATTTTTAT
1 TATATATTTAAAAAAATTATAT
853166 TATATATTTAAAAAAATTATAT
1 TATATATTTAAAAAAATTATAT
853188 T
1 T
853189 TTTTATATTT
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 3 0.10
20 8 0.26
21 6 0.19
22 14 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATATTTAAAAAAATTATAT
Found at i:853996 original size:35 final size:34
Alignment explanation
Indices: 853957--854059 Score: 84
Period size: 35 Copynumber: 3.0 Consensus size: 34
853947 CTCGTTTGAG
*
853957 TTAAATTATTATTTAAATAATAAAAATATTTTTAT
1 TTAAATTATTATTTAAATAATAAAAATAATTTT-T
* * **
853992 TTAAATT-TAATTATAAATATTAATTATAATTTTT
1 TTAAATTATTATT-TAAATAATAAAAATAATTTTT
** * *
854026 TTAAAAAATTATTTTTAATAAT-AAAATAAATTTT
1 TTAAATTATTA-TTTAAATAATAAAAATAATTTTT
854060 AAACTAATTC
Statistics
Matches: 52, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
34 19 0.37
35 31 0.60
36 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (34 bp):
TTAAATTATTATTTAAATAATAAAAATAATTTTT
Found at i:854218 original size:19 final size:18
Alignment explanation
Indices: 854172--854219 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
854162 ATTAAATTCG
*
854172 ATAATTTTA-AATATAAT
1 ATAAATTTATAATATAAT
854189 AT-AATTATATAATATAAAT
1 ATAAATT-TATAATAT-AAT
854208 ATAAATTTATAA
1 ATAAATTTATAA
854220 ATTTTTGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 3 0.12
17 4 0.15
18 5 0.19
19 10 0.38
20 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAATTTATAATATAAT
Found at i:857625 original size:27 final size:27
Alignment explanation
Indices: 857595--857648 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
857585 CTTAAGCTTA
857595 ATTATGACTTTAAATTTAATTATTATT
1 ATTATGACTTTAAATTTAATTATTATT
* *
857622 ATTATTATTTTAAATTTAATTATTATT
1 ATTATGACTTTAAATTTAATTATTATT
857649 TAATAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (27 bp):
ATTATGACTTTAAATTTAATTATTATT
Found at i:858078 original size:22 final size:22
Alignment explanation
Indices: 858050--858092 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
858040 ATTAAAAAAT
*
858050 TATTTTT-TTATTAATATTTAAA
1 TATTTTTATAATTAA-ATTTAAA
858072 TATTTTTATAATTAAATTTAA
1 TATTTTTATAATTAAATTTAA
858093 TTAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTAAA
Found at i:858346 original size:3 final size:3
Alignment explanation
Indices: 858338--858399 Score: 56
Period size: 3 Copynumber: 19.7 Consensus size: 3
858328 ACTTAAATTA
*
858338 AAT AAT AAT TAT AAAT AAT AAAT AAT AAT ATAT AAAT AAT -AT AAT AAT
1 AAT AAT AAT AAT -AAT AAT -AAT AAT AAT A-AT -AAT AAT AAT AAT AAT
858386 AGAT -AT AAT AAT AA
1 A-AT AAT AAT AAT AA
858400 ACTAAAAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
2 4 0.08
3 34 0.68
4 11 0.22
5 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:858361 original size:20 final size:20
Alignment explanation
Indices: 858336--858418 Score: 91
Period size: 20 Copynumber: 4.1 Consensus size: 20
858326 TAACTTAAAT
858336 TAAATAATAATTATAAATAA
1 TAAATAATAATTATAAATAA
858356 TAAATAATAATATATAAATAA
1 TAAATAATAAT-TATAAATAA
858377 TATAATAATAGA-TAT-AATAA
1 TA-AATAATA-ATTATAAATAA
* *
858397 TAAACTAAAAAATATAAA-AA
1 TAAA-TAATAATTATAAATAA
858417 TA
1 TA
858419 TAGATTTATA
Statistics
Matches: 56, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
19 3 0.05
20 29 0.52
21 16 0.29
22 7 0.12
23 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (20 bp):
TAAATAATAATTATAAATAA
Found at i:858363 original size:17 final size:16
Alignment explanation
Indices: 858341--858464 Score: 59
Period size: 14 Copynumber: 7.9 Consensus size: 16
858331 TAAATTAAAT
858341 AATAATTATAAATAATA
1 AATAA-TATAAATAATA
*
858358 AATAATA-ATAT-ATA
1 AATAATATAAATAATA
858372 AATAATAT-AATAATA
1 AATAATATAAATAATA
*
858387 GATATAATAATAAACTAAAA
1 -A-ATAAT-ATAAA-TAATA
*
858407 AAT-ATAAAAAT-ATA
1 AATAATATAAATAATA
* * *
858421 GAT-TTATAAAT-AGA
1 AATAATATAAATAATA
*
858435 AAT-ATATTAAT-ATA
1 AATAATATAAATAATA
*
858449 AATAAATATTAATAAT
1 AAT-AATATAAATAAT
858465 TACTTACCAA
Statistics
Matches: 84, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
14 37 0.44
15 7 0.08
16 15 0.18
17 14 0.17
18 4 0.05
19 3 0.04
20 4 0.05
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (16 bp):
AATAATATAAATAATA
Found at i:858391 original size:12 final size:11
Alignment explanation
Indices: 858338--858399 Score: 69
Period size: 10 Copynumber: 5.7 Consensus size: 11
858328 ACTTAAATTA
858338 AATAATAAT-T
1 AATAATAATAT
858348 -ATAAATAATA-
1 AAT-AATAATAT
858358 AATAATAATAT
1 AATAATAATAT
858369 -ATAAATAATAT
1 AAT-AATAATAT
858380 AATAATAGATAT
1 AATAATA-ATAT
858392 AATAATAA
1 AATAATAA
858400 ACTAAAAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
9 2 0.04
10 15 0.33
11 15 0.33
12 13 0.29
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
AATAATAATAT
Found at i:862015 original size:55 final size:54
Alignment explanation
Indices: 861944--862055 Score: 179
Period size: 55 Copynumber: 2.1 Consensus size: 54
861934 TATGGCCCAA
* *
861944 TTTTTCTTCACTGTTGAGTATCATTAAAGTCAGCTAATCAATGTTTTGTTCCTTG
1 TTTTTCTTCACCGTTGAGTATCATTAAAGTCAGCTAATCAATGTCTTGTT-CTTG
* *
861999 TTTTTCTTCACCGTTGAGTATGATTAAAGTCAGCTGATCAATGTCTTGTTCTTG
1 TTTTTCTTCACCGTTGAGTATCATTAAAGTCAGCTAATCAATGTCTTGTTCTTG
862053 TTT
1 TTT
862056 ATACCATCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 7 0.13
55 46 0.87
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (54 bp):
TTTTTCTTCACCGTTGAGTATCATTAAAGTCAGCTAATCAATGTCTTGTTCTTG
Found at i:862248 original size:11 final size:10
Alignment explanation
Indices: 862217--862255 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
862207 AATAAATATT
862217 AAATATAATA
1 AAATATAATA
862227 AAATATAATA
1 AAATATAATA
*
862237 AATATTTAATAA
1 AA-ATATAAT-A
862249 AAATATA
1 AAATATA
862256 TATTTAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 12 0.48
11 10 0.40
12 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATATAATA
Found at i:862258 original size:17 final size:18
Alignment explanation
Indices: 862233--862280 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
862223 AATAAAATAT
*
862233 AATAAATATTTA-ATAAA
1 AATATATATTTAGATAAA
*
862250 AATATATATTTAGTTAAA
1 AATATATATTTAGATAAA
862268 AAGTATATGATTT
1 AA-TATAT-ATTT
862281 TCACTATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 11 0.42
18 6 0.23
19 5 0.19
20 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (18 bp):
AATATATATTTAGATAAA
Found at i:862266 original size:21 final size:21
Alignment explanation
Indices: 862198--862266 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
862188 ATCGAATTAT
* *
862198 TTAATTAAAAATAAATATTAAA
1 TTAA-TAAAAATATATATTTAA
** *
862220 TATAAT-AAAATATAATAAATAT
1 T-TAATAAAAATAT-ATATTTAA
*
862242 TTAATAAAAATATATATTTAG
1 TTAATAAAAATATATATTTAA
862263 TTAA
1 TTAA
862267 AAAGTATATG
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
21 19 0.53
22 14 0.39
23 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (21 bp):
TTAATAAAAATATATATTTAA
Found at i:864447 original size:17 final size:17
Alignment explanation
Indices: 864425--864457 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
864415 ATTATGTTTC
*
864425 AAATATATATCTATAAA
1 AAATATATATATATAAA
864442 AAATATATATATATAA
1 AAATATATATATATAA
864458 TATATCCAAC
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:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATATATATATAAA
Found at i:864849 original size:16 final size:16
Alignment explanation
Indices: 864828--864861 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
864818 TATCGGATAC
864828 ATAACCATATTCAATA
1 ATAACCATATTCAATA
864844 ATAACCATATTCAATA
1 ATAACCATATTCAATA
864860 AT
1 AT
864862 CAATACTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAACCATATTCAATA
Found at i:869424 original size:12 final size:11
Alignment explanation
Indices: 869403--869432 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
869393 ATGAGCCTCA
869403 TTAATTTAAAT
1 TTAATTTAAAT
869414 TTAAGTTTAAAT
1 TTAA-TTTAAAT
869426 TTAATTT
1 TTAATTT
869433 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (11 bp):
TTAATTTAAAT
Found at i:869500 original size:23 final size:22
Alignment explanation
Indices: 869455--869503 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
869445 AAATATCAAT
* *
869455 TAAATCTAATTTAATTTATAAA
1 TAAATCTAATTTAATATAAAAA
*
869477 TAAATTTAATATTAATATAAAAA
1 TAAATCTAAT-TTAATATAAAAA
869500 TAAA
1 TAAA
869504 ATTATTAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAATCTAATTTAATATAAAAA
Found at i:870466 original size:14 final size:14
Alignment explanation
Indices: 870443--870479 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
870433 TTATTTTTTA
870443 AAATAA-ATTGATT
1 AAATAATATTGATT
870456 AAATAATATTGATT
1 AAATAATATTGATT
870470 ATAATAATAT
1 A-AATAATAT
870480 ATCTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 6 0.27
14 8 0.36
15 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (14 bp):
AAATAATATTGATT
Done.