Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 6 of 77
Found at i:799109 original size:4 final size:4
Alignment explanation
Indices: 799100--799131 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
799090 ATCCTAATTT
799100 AATA AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA
799132 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:812186 original size:3 final size:3
Alignment explanation
Indices: 812178--812229 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
812168 ATGTGCCTTA
812178 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
812226 ATT A
1 ATT A
812230 CAATTTGGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:815004 original size:17 final size:17
Alignment explanation
Indices: 814982--815044 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
814972 AATTTTGTTT
814982 AATTTATTAAATATATA
1 AATTTATTAAATATATA
*
814999 AATTTAATAAAT-TATA
1 AATTTATTAAATATATA
*
815015 TAATTTATCAAATATGCAT-
1 -AATTTATTAAATAT--ATA
815034 AATTTATTAAA
1 AATTTATTAAA
815045 ACTATATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.11
17 21 0.55
18 11 0.29
20 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTTATTAAATATATA
Found at i:815386 original size:10 final size:10
Alignment explanation
Indices: 815371--815430 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
815361 GAAGTTCAAG
815371 GAGAGAGAAA
1 GAGAGAGAAA
*
815381 GAGAGAAAAA
1 GAGAGAGAAA
815391 GAGAGA-AAA
1 GAGAGAGAAA
* *
815400 GAAAGAGGAAG
1 GAGAGA-GAAA
*
815411 GAGAAAGAAA
1 GAGAGAGAAA
*
815421 GGGAGAGAAA
1 GAGAGAGAAA
815431 AAGAAGGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
9 8 0.20
10 26 0.65
11 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAGAGAGAAA
Found at i:822451 original size:22 final size:22
Alignment explanation
Indices: 822426--822469 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
822416 ATTTTTTGTC
*
822426 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
822448 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
822470 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:826380 original size:22 final size:22
Alignment explanation
Indices: 826352--826395 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
826342 ATTTTTTGTC
* *
826352 CTTAATTCTAGGGATATAAATA
1 CTTAATTCTAGAGATACAAATA
826374 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
826396 TAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:826824 original size:2 final size:2
Alignment explanation
Indices: 826817--826852 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
826807 CGAATGTCTC
*
826817 TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
826853 CATGCACTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:832123 original size:29 final size:29
Alignment explanation
Indices: 832073--832128 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
832063 ATTATTAGGG
*
832073 TATGAAGCAATAATATCAGATGAAATTGA
1 TATGAAGCAATAACATCAGATGAAATTGA
*
832102 TATGAAGCAATAACATCTGATGAAATT
1 TATGAAGCAATAACATCAGATGAAATT
832129 AGGGTATAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (29 bp):
TATGAAGCAATAACATCAGATGAAATTGA
Found at i:834012 original size:15 final size:15
Alignment explanation
Indices: 833994--834031 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
833984 ATTTAACCAC
833994 AAATTCAATTCAATA
1 AAATTCAATTCAATA
*
834009 AAATTTAATTCAATA
1 AAATTCAATTCAATA
834024 AAATTCAA
1 AAATTCAA
834032 ACTCTAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTCAATTCAATA
Found at i:834369 original size:20 final size:20
Alignment explanation
Indices: 834341--834384 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
834331 TATTTATATA
*
834341 TATTTAATAA-ATAAATTTAT
1 TATTAAATAATATAAA-TTAT
834361 TATTAAATAATATAAATTAT
1 TATTAAATAATATAAATTAT
834381 TATT
1 TATT
834385 TTAGATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTAAATAATATAAATTAT
Found at i:840844 original size:19 final size:19
Alignment explanation
Indices: 840806--840845 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
840796 TTCTCTAATG
*
840806 ATTAAAAAATTTCGGTTAT
1 ATTAAAAAATTTCGGGTAT
840825 ATTAAAAAATTGT-GGGTAT
1 ATTAAAAAATT-TCGGGTAT
840844 AT
1 AT
840846 ATGTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (19 bp):
ATTAAAAAATTTCGGGTAT
Found at i:842776 original size:21 final size:21
Alignment explanation
Indices: 842737--842777 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
842727 TTTTTATAAC
*
842737 TAATATTATTAAAGTTTAAAT
1 TAATATTATTAAAGATTAAAT
842758 TAATAATTATTAAA-ATTAAA
1 TAAT-ATTATTAAAGATTAAA
842778 AAAATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TAATATTATTAAAGATTAAAT
Found at i:842783 original size:21 final size:22
Alignment explanation
Indices: 842741--842785 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
842731 TATAACTAAT
* **
842741 ATTATTAAAGTTTAAATTAATA
1 ATTATTAAAGATTAAAAAAATA
842763 ATTATTAAA-ATTAAAAAAATA
1 ATTATTAAAGATTAAAAAAATA
842784 AT
1 AT
842786 ATTTTATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTATTAAAGATTAAAAAAATA
Found at i:851801 original size:23 final size:23
Alignment explanation
Indices: 851775--851856 Score: 92
Period size: 23 Copynumber: 3.4 Consensus size: 23
851765 TTTGATTAAG
851775 TTAAATAAATTTATTCATAAATA
1 TTAAATAAATTTATTCATAAATA
* *
851798 TTAAATAAATATATTCTTAAATA
1 TTAAATAAATTTATTCATAAATA
* *
851821 TTAATAAAAGTATTTATTCATGAATA
1 TTAA-ATAA--ATTTATTCATAAATA
*
851847 ATAAATAAAT
1 TTAAATAAAT
851857 CATAAACAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
23 27 0.56
24 3 0.06
25 3 0.06
26 15 0.31
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
TTAAATAAATTTATTCATAAATA
Found at i:858749 original size:6 final size:6
Alignment explanation
Indices: 858738--858762 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
858728 TCAGATGTGA
858738 TCTCTT TCTCTT TCTCTT TCTCTT T
1 TCTCTT TCTCTT TCTCTT TCTCTT T
858763 GTTTCTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TCTCTT
Found at i:859084 original size:3 final size:3
Alignment explanation
Indices: 859076--859102 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
859066 TAGTAACTAC
859076 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
859103 TATTAGATCA
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:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:859801 original size:21 final size:20
Alignment explanation
Indices: 859771--859809 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
859761 TTTTTTAGCC
859771 AAAATTAATAATAAAAGTTT
1 AAAATTAATAATAAAAGTTT
*
859791 AAAATTTAATAATAGAAGT
1 AAAA-TTAATAATAAAAGT
859810 ATATAACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
AAAATTAATAATAAAAGTTT
Found at i:873397 original size:21 final size:21
Alignment explanation
Indices: 873371--873412 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
873361 ACCATTAATC
*
873371 TTAATTTTATTATTATAATAA
1 TTAATTTTACTATTATAATAA
873392 TTAATTTTACTATTATAATAA
1 TTAATTTTACTATTATAATAA
873413 CAAATGTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATTTTACTATTATAATAA
Found at i:874109 original size:10 final size:10
Alignment explanation
Indices: 874094--874118 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
874084 AAATAAAATG
874094 ATAAAATTTA
1 ATAAAATTTA
874104 ATAAAATTTA
1 ATAAAATTTA
874114 ATAAA
1 ATAAA
874119 CCTTAGGTAT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAAAATTTA
Found at i:874846 original size:28 final size:28
Alignment explanation
Indices: 874808--874863 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
874798 CTCATCTCCC
874808 TCATCACCTGGTCTCAATCTTCTAAACA
1 TCATCACCTGGTCTCAATCTTCTAAACA
874836 TCATCACCTGGTCTCAATCTTCTAAACA
1 TCATCACCTGGTCTCAATCTTCTAAACA
874864 CTCCCAGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.32, G:0.07, T:0.32
Consensus pattern (28 bp):
TCATCACCTGGTCTCAATCTTCTAAACA
Found at i:879359 original size:20 final size:21
Alignment explanation
Indices: 879317--879359 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
879307 ATTCGAATAA
*
879317 TTTATAATTTTAATTAATTTT
1 TTTATAATTTTAATTAATATT
879338 TTTAT-ATTTTAA-TATATATT
1 TTTATAATTTTAATTA-ATATT
879358 TT
1 TT
879360 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.65
21 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATAATTTTAATTAATATT
Found at i:879456 original size:19 final size:19
Alignment explanation
Indices: 879413--879458 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
879403 AGTTTAAATT
*
879413 TAAAATTTAACATAAATAA
1 TAAAATTTAAAATAAATAA
*
879432 TCAAATTTAAAATCAAATAA
1 TAAAATTTAAAAT-AAATAA
879452 -AAAATTT
1 TAAAATTT
879459 TAATTTACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATTTAAAATAAATAA
Found at i:882976 original size:13 final size:13
Alignment explanation
Indices: 882958--882982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
882948 TTATATCATT
882958 TTTATATTTTTTA
1 TTTATATTTTTTA
882971 TTTATATTTTTT
1 TTTATATTTTTT
882983 TCATATTATA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATATTTTTTA
Found at i:883346 original size:24 final size:24
Alignment explanation
Indices: 883302--883347 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
883292 TAATCATAAT
* *
883302 TAAATATTTAATTTCATATAAAAA
1 TAAATATTTAATATCAAATAAAAA
883326 TAAATAATTTAA-ATCAAATAAA
1 TAAAT-ATTTAATATCAAATAAA
883348 TCAATCAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAATATTTAATATCAAATAAAAA
Found at i:885250 original size:22 final size:22
Alignment explanation
Indices: 885221--885267 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
885211 TCAAATTAAA
*
885221 TTATATATA-TTTTTT-AGTTT
1 TTATATATATTTTTTTAAATTT
885241 TTATATATATTTTTTTAAATTT
1 TTATATATATTTTTTTAAATTT
885263 TTATA
1 TTATA
885268 AAATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
21 6 0.25
22 9 0.38
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTATATATATTTTTTTAAATTT
Found at i:886066 original size:30 final size:31
Alignment explanation
Indices: 886030--886095 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
886020 AATATTATTA
* *
886030 TAAAAAAATAT-TAT-AAATAATTAAAATAT
1 TAAAAAAATATGCATAAAATAATAAAAATAT
886059 CT-AAAAAATATGCATAAAATAATAAAAATAT
1 -TAAAAAAATATGCATAAAATAATAAAAATAT
886090 TAAAAA
1 TAAAAA
886096 TATAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 9 0.29
30 4 0.13
31 18 0.58
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (31 bp):
TAAAAAAATATGCATAAAATAATAAAAATAT
Found at i:886079 original size:31 final size:28
Alignment explanation
Indices: 886032--886107 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 28
886022 TATTATTATA
* *
886032 AAAAAATATTATAAATAATTAAAATATCT
1 AAAAAATATCATAAATAATAAAAATAT-T
886061 AAAAAATATGCATAAAATAATAAAAATATT
1 AAAAAATAT-CAT-AAATAATAAAAATATT
886091 -AAAAATAT-A-AAATAATA
1 AAAAAATATCATAAATAATA
886108 TAATATTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
25 8 0.19
27 1 0.02
29 17 0.40
30 3 0.07
31 14 0.33
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (28 bp):
AAAAAATATCATAAATAATAAAAATATT
Found at i:886470 original size:13 final size:12
Alignment explanation
Indices: 886439--886500 Score: 63
Period size: 13 Copynumber: 5.1 Consensus size: 12
886429 TGTATATTCG
*
886439 ATAATTTAAAAT
1 ATAATATAAAAT
*
886451 ATTATATAATAAT
1 ATAATATAA-AAT
886464 ATAATAT-AAAT
1 ATAATATAAAAT
*
886475 ATAATTTAAAAAT
1 ATAATAT-AAAAT
*
886488 AAAATATAAAAT
1 ATAATATAAAAT
886500 A
1 A
886501 ATATAATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
11 9 0.22
12 14 0.34
13 18 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:886474 original size:24 final size:24
Alignment explanation
Indices: 886447--886507 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
886437 CGATAATTTA
* *
886447 AAATATTATATAATAATATAATAT
1 AAATATAATATAATAATAAAATAT
* *
886471 AAATATAATTTAAAAATAAAATAT
1 AAATATAATATAATAATAAAATAT
886495 AAA-ATAATATAAT
1 AAATATAATATAAT
886508 TTAAAATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 8 0.26
24 23 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATATAATATAATAATAAAATAT
Found at i:886521 original size:28 final size:29
Alignment explanation
Indices: 886459--886513 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
886449 ATATTATATA
*
886459 ATAATATAATATAAATATAATTTAAAAAT
1 ATAATATAAAATAAATATAATTTAAAAAT
*
886488 AAAATATAAAAT-AATATAATTTAAAA
1 ATAATATAAAATAAATATAATTTAAAA
886514 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
ATAATATAAAATAAATATAATTTAAAAAT
Found at i:886598 original size:28 final size:25
Alignment explanation
Indices: 886566--886616 Score: 75
Period size: 28 Copynumber: 1.9 Consensus size: 25
886556 TATATTTTAT
886566 ATTTTTATATCAATAATTATAATATATA
1 ATTTTTATAT-AA-AA-TATAATATATA
886594 ATTTTTATATAAAATATAATATA
1 ATTTTTATATAAAATATAATATA
886617 AATATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 2 0.09
27 2 0.09
28 10 0.43
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTTTATATAAAATATAATATATA
Found at i:890327 original size:13 final size:14
Alignment explanation
Indices: 890309--890338 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
890299 ATCGAATTAA
890309 ATTATATA-TTTTT
1 ATTATATAGTTTTT
890322 ATTATATAGTTTTT
1 ATTATATAGTTTTT
890336 ATT
1 ATT
890339 TTTTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
ATTATATAGTTTTT
Found at i:893500 original size:21 final size:22
Alignment explanation
Indices: 893475--893530 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
893465 TATTTGGTAT
893475 ATAAAATTATAATATG-ATAGA
1 ATAAAATTATAATATGAATAGA
* *
893496 ATAAAATAATATTATGAATAGA
1 ATAAAATTATAATATGAATAGA
* *
893518 GTTAAATTA-AATA
1 ATAAAATTATAATA
893531 ATATTATCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (22 bp):
ATAAAATTATAATATGAATAGA
Found at i:895765 original size:9 final size:9
Alignment explanation
Indices: 895707--895766 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
895697 ATCATGCAAA
*
895707 AAAAAAAAT
1 AAAATAAAT
*
895716 AAAACAAAT
1 AAAATAAAT
*
895725 -AAACAAA-
1 AAAATAAAT
*
895732 CAAATAAAT
1 AAAATAAAT
895741 AAAATATAAAT
1 -AAA-ATAAAT
895752 AAAATAAAT
1 AAAATAAAT
895761 AAAATA
1 AAAATA
895767 CCCAAAAATG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
8 13 0.30
9 20 0.45
10 5 0.11
11 6 0.14
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAATAAAT
Found at i:899515 original size:22 final size:22
Alignment explanation
Indices: 899489--899532 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
899479 TATATATTTA
*
899489 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCACTAGAATTAAG
*
899511 TATTTGTATCATTAGAATTAAG
1 TATTTGTATCACTAGAATTAAG
899533 GACAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCACTAGAATTAAG
Found at i:903556 original size:22 final size:22
Alignment explanation
Indices: 903531--903574 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
903521 TATATATTTA
* * *
903531 TATTTGTATCCCTAGAATTAAG
1 TATTTATATACCTAAAATTAAG
903553 TATTTATATACCTAAAATTAAG
1 TATTTATATACCTAAAATTAAG
903575 GATAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (22 bp):
TATTTATATACCTAAAATTAAG
Found at i:904288 original size:67 final size:67
Alignment explanation
Indices: 904205--904374 Score: 216
Period size: 67 Copynumber: 2.5 Consensus size: 67
904195 TCTAAAATTT
** * * *
904205 CAAAAATTTTCATTTAAAATTCAAAGATTCACATTTGATAAATTTTTAAATATTCACACCCAAAA
1 CAAAAATTCACATTTAAAATTCAAAGATTCACATTTGATAAATTTTTAAAGAGTCACACCAAAAA
904270 TG
66 TG
* *
904272 CAAAAATTCACATTTAAAACTCAAGGATTCACATTTGATAAATTTTTAAAGAGTCACACCAAAAA
1 CAAAAATTCACATTTAAAATTCAAAGATTCACATTTGATAAATTTTTAAAGAGTCACACCAAAAA
*
904337 TT
66 TG
* *
904339 CAAAGATTCAC-TTTAAAAAATTTTAAAGATTCACAT
1 CAAAAATTCACATTT--AAAA-TTCAAAGATTCACAT
904375 CCAAAATTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
66 3 0.03
67 69 0.78
68 4 0.05
69 12 0.14
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (67 bp):
CAAAAATTCACATTTAAAATTCAAAGATTCACATTTGATAAATTTTTAAAGAGTCACACCAAAAA
TG
Found at i:904338 original size:23 final size:23
Alignment explanation
Indices: 904311--904393 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 23
904301 CACATTTGAT
*
904311 AAATTTTTAAAGAGTCACACCAA
1 AAATTTTTAAAGATTCACACCAA
* ***
904334 AAA--TTCAAAGATTCACTTTAA
1 AAATTTTTAAAGATTCACACCAA
*
904355 AAAATTTTAAAGATTCACATCC-A
1 AAATTTTTAAAGATTCACA-CCAA
*
904378 AAATTTTTAAAAATTC
1 AAATTTTTAAAGATTC
904394 TAATTTAAAA
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
21 16 0.35
23 30 0.65
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (23 bp):
AAATTTTTAAAGATTCACACCAA
Found at i:904349 original size:113 final size:112
Alignment explanation
Indices: 904220--904432 Score: 295
Period size: 113 Copynumber: 1.9 Consensus size: 112
904210 ATTTTCATTT
* * *
904220 AAAATTCAAAGATTCACATTTGATAAATTTTTAAATATTCACACCCAAAA-TGCAAAAATTC-AC
1 AAAATTCAAAGATTCAC-TTT-AAAAAATTTTAAAGATTCACACCCAAAATTGCAAAAATTCTA-
*
904283 ATTTAAAACTCAAGGATTCACATTTGATAAATTTTTAAAGAGTCACACCA
63 ATTTAAAACTCAAAGATTCACATTTGATAAATTTTTAAAGAGTCACACCA
* **
904333 AAAATTCAAAGATTCACTTTAAAAAATTTTAAAGATTCACATCCAAAATTTTTAAAAATTCTAAT
1 AAAATTCAAAGATTCACTTTAAAAAATTTTAAAGATTCACACCCAAAA-TTGCAAAAATTCTAAT
* *
904398 TTAAAATTCAAATATTCACATTTGATAAATTTTTA
65 TTAAAACTCAAAGATTCACATTTGATAAATTTTTA
904433 GATATTATAC
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
111 24 0.27
112 3 0.03
113 60 0.68
114 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (112 bp):
AAAATTCAAAGATTCACTTTAAAAAATTTTAAAGATTCACACCCAAAATTGCAAAAATTCTAATT
TAAAACTCAAAGATTCACATTTGATAAATTTTTAAAGAGTCACACCA
Found at i:904373 original size:44 final size:47
Alignment explanation
Indices: 904287--904380 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 47
904277 ATTCACATTT
* * *
904287 AAAACTCAAGGATTCACATTTGATAAATTTTTAAAGAGTCACA-CCA
1 AAAACTCAAAGATTCACATTTGAAAAAATTTTAAAGAGTCACATCCA
* *
904333 AAAATTCAAAGATTCAC-TTT-AAAAAATTTTAAAGATTCACATCCA
1 AAAACTCAAAGATTCACATTTGAAAAAATTTTAAAGAGTCACATCCA
904378 AAA
1 AAA
904381 TTTTTAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
44 18 0.43
45 9 0.21
46 15 0.36
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (47 bp):
AAAACTCAAAGATTCACATTTGAAAAAATTTTAAAGAGTCACATCCA
Found at i:904381 original size:44 final size:46
Alignment explanation
Indices: 904277--904382 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 46
904267 AAATGCAAAA
** * * * *
904277 ATTCACATTTAAAACTCAAGGATTCACATTTGATAAATTTTTAAAG
1 ATTCACATCCAAAATTCAAAGATTCACATTTGAAAAAATTTTAAAG
*
904323 AGTCACA-CCAAAAATTCAAAGATTCAC-TTT-AAAAAATTTTAAAG
1 ATTCACATCC-AAAATTCAAAGATTCACATTTGAAAAAATTTTAAAG
904367 ATTCACATCCAAAATT
1 ATTCACATCCAAAATT
904383 TTTAAAAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
44 24 0.48
45 5 0.10
46 21 0.42
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (46 bp):
ATTCACATCCAAAATTCAAAGATTCACATTTGAAAAAATTTTAAAG
Found at i:904534 original size:16 final size:17
Alignment explanation
Indices: 904513--904544 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
904503 TTAAAATTCT
904513 AAACA-TTTTCCTTATA
1 AAACATTTTTCCTTATA
904529 AAACATTTTTCCTTAT
1 AAACATTTTTCCTTAT
904545 TTGAGGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (17 bp):
AAACATTTTTCCTTATA
Found at i:905675 original size:9 final size:9
Alignment explanation
Indices: 905622--905737 Score: 63
Period size: 8 Copynumber: 13.6 Consensus size: 9
905612 TCTCATTTCA
*
905622 CATTTTTCT
1 CATTTTTTT
905631 CATTTTTTT
1 CATTTTTTT
905640 C---TTTTT
1 CATTTTTTT
905646 --TTTTTTT
1 CATTTTTTT
** *
905653 CACATTTAT
1 CATTTTTTT
905662 CATTTTTTT
1 CATTTTTTT
905671 CA-TTTTTT
1 CATTTTTTT
*
905679 CACTTCTTTT
1 CA-TTTTTTT
905689 -ATTTTTTT
1 CATTTTTTT
905697 CACTTCATTTTT
1 CA-TT--TTTTT
*
905709 CA-CTTTTT
1 CATTTTTTT
*
905717 CA-CTTTTT
1 CATTTTTTT
905725 CATTTTTTT
1 CATTTTTTT
905734 -ATTT
1 CATTT
905738 CATCCATTAT
Statistics
Matches: 85, Mismatches: 11, Indels: 23
0.71 0.09 0.19
Matches are distributed among these distances:
6 5 0.06
7 5 0.06
8 33 0.39
9 28 0.33
10 7 0.08
12 7 0.08
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (9 bp):
CATTTTTTT
Found at i:905688 original size:18 final size:18
Alignment explanation
Indices: 905667--905732 Score: 75
Period size: 18 Copynumber: 3.7 Consensus size: 18
905657 TTTATCATTT
905667 TTTTCATTTTTTCACTTC
1 TTTTCATTTTTTCACTTC
905685 TTTT-ATTTTTTTCACTTC
1 TTTTCA-TTTTTTCACTTC
*
905703 ATTTTTCACTTTTTCAC-T-
1 --TTTTCATTTTTTCACTTC
905721 TTTTCATTTTTT
1 TTTTCATTTTTT
905733 TATTTCATCC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
16 11 0.26
17 1 0.02
18 16 0.38
19 1 0.02
20 12 0.29
21 1 0.02
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTCATTTTTTCACTTC
Found at i:918292 original size:24 final size:25
Alignment explanation
Indices: 918263--918332 Score: 90
Period size: 23 Copynumber: 2.8 Consensus size: 25
918253 ATACTATACT
*
918263 TGAAAAAAAAAAGAAAAAATG-AAA
1 TGAAAAAAAAAAGAAAAAAAGAAAA
*
918287 TG-AAAAAAAATGAAAAAAAGAAAA
1 TGAAAAAAAAAAGAAAAAAAGAAAA
918311 TGAAAAGAAAAAAAGAAAAAAA
1 TG-AAA-AAAAAAAGAAAAAAA
918333 AAGTGAATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
23 16 0.41
24 7 0.18
26 2 0.05
27 14 0.36
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (25 bp):
TGAAAAAAAAAAGAAAAAAAGAAAA
Found at i:918295 original size:14 final size:13
Alignment explanation
Indices: 918264--918346 Score: 68
Period size: 15 Copynumber: 6.5 Consensus size: 13
918254 TACTATACTT
918264 GAAAAAAA--AAA
1 GAAAAAAATGAAA
918275 G-AAAAAATGAAA
1 GAAAAAAATGAAA
918287 TGAAAAAAAATGAAA
1 -G-AAAAAAATGAAA
*
918302 AAAAGAAAATGAAAA
1 GAAA-AAAATG-AAA
918317 GAAAAAAA-GAAA
1 GAAAAAAATGAAA
* *
918329 -AAAAAAGTGAAT
1 GAAAAAAATGAAA
918341 GAAAAA
1 GAAAAA
918347 GGAGGACTTA
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
10 6 0.10
11 7 0.12
12 9 0.15
13 10 0.17
14 10 0.17
15 17 0.29
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.07
Consensus pattern (13 bp):
GAAAAAAATGAAA
Found at i:918333 original size:29 final size:28
Alignment explanation
Indices: 918265--918345 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 28
918255 ACTATACTTG
* *
918265 AAAAAAAAAAGAA-AAAATGAAATGAAA
1 AAAAAAAAAAAAAGAAAATGAAAAGAAA
*
918292 AAAAATGAAAAAAAGAAAATGAAAAGAAA
1 AAAAA-AAAAAAAAGAAAATGAAAAGAAA
**
918321 AAAAGAAAAAAAAAGTGAATGAAAA
1 AAAA-AAAAAAAAAGAAAATGAAAA
918346 AGGAGGACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.11
28 6 0.13
29 33 0.73
30 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (28 bp):
AAAAAAAAAAAAAGAAAATGAAAAGAAA
Found at i:918344 original size:24 final size:24
Alignment explanation
Indices: 918263--918346 Score: 82
Period size: 24 Copynumber: 3.3 Consensus size: 24
918253 ATACTATACT
918263 TGAAAAAAA-AAAGAAAAAATGAAA
1 TGAAAAAAAGAAA-AAAAAATGAAA
918287 TGAAAAAAAATGAAAAAAAGAAAATGAAA
1 TG-AAAAAAA-G--AAAAA-AAAATGAAA
*
918316 AGAAAAAAAGAAAAAAAAAGTG-AA
1 TGAAAAAAAGAAAAAAAAA-TGAAA
918340 TGAAAAA
1 TGAAAAA
918347 GGAGGACTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
24 14 0.27
25 14 0.27
27 1 0.02
28 9 0.18
29 13 0.25
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.08
Consensus pattern (24 bp):
TGAAAAAAAGAAAAAAAAATGAAA
Found at i:919480 original size:43 final size:42
Alignment explanation
Indices: 919360--919537 Score: 151
Period size: 42 Copynumber: 4.2 Consensus size: 42
919350 TCAAGAAGCT
* * ** *
919360 ATTTATTTTTTCAAAGTTATGGTGCCTCTGTTTAGATGAGCA
1 ATTTATTTTTTCAAAGTGATGGAGCCTCTAATTAGAGGAGCA
* * * * * * * *
919402 ATTTACTTTCTAAAAGTGGTTGAACCTCTAATTAGATGAGCC
1 ATTTATTTTTTCAAAGTGATGGAGCCTCTAATTAGAGGAGCA
* * *
919444 ATTTATTTTTTTCAAAGTTATGGTGCCTCTATTTAGAGGAGCA
1 ATTTA-TTTTTTCAAAGTGATGGAGCCTCTAATTAGAGGAGCA
* * * *
919487 ATTTA-CTTTTCAAAAGTGGTTGAGCCTCTAATTAGAGGAGCC
1 ATTTATTTTTTC-AAAGTGATGGAGCCTCTAATTAGAGGAGCA
919529 ATTTATTTT
1 ATTTATTTT
919538 CAAGGCATGA
Statistics
Matches: 103, Mismatches: 30, Indels: 5
0.75 0.22 0.04
Matches are distributed among these distances:
41 5 0.05
42 65 0.63
43 33 0.32
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (42 bp):
ATTTATTTTTTCAAAGTGATGGAGCCTCTAATTAGAGGAGCA
Found at i:919502 original size:85 final size:85
Alignment explanation
Indices: 919360--919537 Score: 297
Period size: 85 Copynumber: 2.1 Consensus size: 85
919350 TCAAGAAGCT
* *
919360 ATTTA-TTTTTTCAAAGTTATGGTGCCTCTGTTTAGATGAGCAATTTACTTTCTAAAAGTGGTTG
1 ATTTATTTTTTTCAAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTACTTTCTAAAAGTGGTTG
*
919424 AACCTCTAATTAGATGAGCC
66 AACCTCTAATTAGAGGAGCC
919444 ATTTATTTTTTTCAAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTACTTT-TCAAAAGTGGTT
1 ATTTATTTTTTTCAAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTACTTTCT-AAAAGTGGTT
*
919508 GAGCCTCTAATTAGAGGAGCC
65 GAACCTCTAATTAGAGGAGCC
919529 ATTTATTTT
1 ATTTATTTT
919538 CAAGGCATGA
Statistics
Matches: 88, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
84 6 0.07
85 82 0.93
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (85 bp):
ATTTATTTTTTTCAAAGTTATGGTGCCTCTATTTAGAGGAGCAATTTACTTTCTAAAAGTGGTTG
AACCTCTAATTAGAGGAGCC
Found at i:919802 original size:7 final size:7
Alignment explanation
Indices: 919790--919856 Score: 55
Period size: 7 Copynumber: 9.0 Consensus size: 7
919780 GCTCATTTTA
919790 TTTTATT
1 TTTTATT
919797 TTTTATT
1 TTTTATT
919804 TTTTATT
1 TTTTATT
919811 TTATT-TT
1 TT-TTATT
*
919818 TTGTATCT
1 TTTTAT-T
919826 TATTTATT
1 T-TTTATT
*
919834 CATTTATT
1 -TTTTATT
*
919842 ATTTATT
1 TTTTATT
919849 TATTTATT
1 T-TTTATT
919857 ACTATTATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
6 1 0.02
7 28 0.56
8 17 0.34
9 4 0.08
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (7 bp):
TTTTATT
Found at i:919828 original size:19 final size:19
Alignment explanation
Indices: 919787--919830 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
919777 TAAGCTCATT
* *
919787 TTATTTTATTTTTTATTTT
1 TTATTTTATTTTTTATATC
*
919806 TTATTTTATTTTTTGTATC
1 TTATTTTATTTTTTATATC
919825 TTATTT
1 TTATTT
919831 ATTCATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (19 bp):
TTATTTTATTTTTTATATC
Found at i:919840 original size:8 final size:7
Alignment explanation
Indices: 919825--919995 Score: 79
Period size: 7 Copynumber: 23.7 Consensus size: 7
919815 TTTTTGTATC
919825 TTATTTA
1 TTATTTA
919832 TTCATTTA
1 TT-ATTTA
919840 TTATTTA
1 TTATTTA
919847 TTTATTTA
1 -TTATTTA
*
919855 TTA-CTA
1 TTATTTA
919861 TTA-TTA
1 TTATTTA
919867 TTATTTA
1 TTATTTA
*
919874 TTA-ATA
1 TTATTTA
919880 -TATATTA
1 TTAT-TTA
919887 TTATTTA
1 TTATTTA
*
919894 TCTATTAA
1 T-TATTTA
*
919902 TGTATATA
1 T-TATTTA
**
919910 AAATTTTA
1 TTA-TTTA
919918 TTATTAACTA
1 TTATT---TA
919928 TTATTTA
1 TTATTTA
919935 TTATTTA
1 TTATTTA
919942 TCTA-TTA
1 T-TATTTA
* **
919949 ATATACA
1 TTATTTA
919956 TATATTT-
1 T-TATTTA
*
919963 TTATTGA
1 TTATTTA
919970 -TATGTT-
1 TTAT-TTA
919976 TTATTTA
1 TTATTTA
919983 TTATTTA
1 TTATTTA
919990 TCTATT
1 T-TATT
919996 CTTTTTTTTT
Statistics
Matches: 124, Mismatches: 21, Indels: 37
0.68 0.12 0.20
Matches are distributed among these distances:
5 2 0.02
6 23 0.19
7 52 0.42
8 40 0.32
10 7 0.06
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (7 bp):
TTATTTA
Found at i:919845 original size:15 final size:14
Alignment explanation
Indices: 919825--919995 Score: 79
Period size: 15 Copynumber: 11.9 Consensus size: 14
919815 TTTTTGTATC
919825 TTATTTATTCATTTA
1 TTATTTATT-ATTTA
919840 TTATTTATTTATTTA
1 TTATTTA-TTATTTA
*
919855 TTA-CTATTA-TTA
1 TTATTTATTATTTA
*
919867 TTATTTATTA-ATA
1 TTATTTATTATTTA
919880 -TATATTATTATTTA
1 TTAT-TTATTATTTA
* *
919894 TCTATTAATGTATATA
1 T-TATTTAT-TATTTA
**
919910 AAATTTTATTATTAACTA
1 TTA-TTTATTATT---TA
919928 TTATTTATTATTTA
1 TTATTTATTATTTA
* **
919942 TCTA-TTAATATACA
1 T-TATTTATTATTTA
*
919956 TATATTT-TTATTGA
1 T-TATTTATTATTTA
919970 -TATGTT-TTATTTA
1 TTAT-TTATTATTTA
919983 TTATTTATCTATT
1 TTATTTAT-TATT
919996 CTTTTTTTTT
Statistics
Matches: 119, Mismatches: 20, Indels: 34
0.69 0.12 0.20
Matches are distributed among these distances:
12 12 0.10
13 26 0.22
14 25 0.21
15 30 0.25
16 14 0.12
17 9 0.08
18 3 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (14 bp):
TTATTTATTATTTA
Found at i:919847 original size:4 final size:4
Alignment explanation
Indices: 919786--919899 Score: 71
Period size: 4 Copynumber: 28.5 Consensus size: 4
919776 GTAAGCTCAT
*
919786 TTTA TTTTA TTT- TTTA TTT- TTTA TTTTA TTTT TTGTA TCTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TT-TA T-TTA TTTA
* *
919832 TTCA TTTA -TTA TTTA TTTA TTTA -TTA CTATTA -TTA -TTA TTTA TTAA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -T-TTA TTTA TTTA TTTA TTTA
* *
919878 TATA TATTA -TTA TTTA TCTA TT
1 TTTA T-TTA TTTA TTTA TTTA TT
919900 AATGTATATA
Statistics
Matches: 87, Mismatches: 10, Indels: 25
0.71 0.08 0.20
Matches are distributed among these distances:
3 21 0.24
4 47 0.54
5 15 0.17
6 4 0.05
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:919851 original size:23 final size:22
Alignment explanation
Indices: 919792--919995 Score: 84
Period size: 23 Copynumber: 8.9 Consensus size: 22
919782 TCATTTTATT
*
919792 TTATTTTTTATTT-TTTA-TT-
1 TTATTTATTATTTATTTATTTA
*
919811 TTATTT-TT-TGTATCTTATTTA
1 TTATTTATTATTTAT-TTATTTA
919832 TTCATTTATTATTTATTTATTTA
1 TT-ATTTATTATTTATTTATTTA
*
919855 TTACTATTATTA-TTATTTATTAA
1 TTA-T-TTATTATTTATTTATTTA
* *
919878 TATATATTATTATTTATCTATTAA
1 T-TAT-TTATTATTTATTTATTTA
* **
919902 TGTATATAAAATTT-TATTATTAACTA
1 T-TATTTATTATTTAT-TTATT---TA
*
919928 TTATTTATTATTTATCTATTAATA
1 TTATTTATTATTTATTTATT--TA
* *
919952 TACATATATT-TTTATTGATATGTT-
1 T-TATTTATTATTTATT--TAT-TTA
*
919976 TTATTTATTATTTATCTATT
1 TTATTTATTATTTATTTATT
919996 CTTTTTTTTT
Statistics
Matches: 143, Mismatches: 21, Indels: 40
0.70 0.10 0.20
Matches are distributed among these distances:
17 2 0.01
18 3 0.02
19 9 0.06
20 2 0.01
21 3 0.02
22 9 0.06
23 47 0.33
24 41 0.29
25 20 0.14
26 6 0.04
27 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATTTATTATTTATTTATTTA
Found at i:919940 original size:48 final size:47
Alignment explanation
Indices: 919830--919995 Score: 151
Period size: 48 Copynumber: 3.5 Consensus size: 47
919820 GTATCTTATT
* * **
919830 TATTCATTTATTATTTATTTATTTAT-TAC-TATTATTATTATTTATTAA
1 TATT-ATTTATTATTTATCTATTAATATACATAAAATT-TTA-TTATTAA
* *
919878 TA-TATATTATTATTTATCTATTAATGTATATAAAATTTTATTATTAA
1 TATTAT-TTATTATTTATCTATTAATATACATAAAATTTTATTATTAA
* * *
919925 CTATTATTTATTATTTATCTATTAATATACATATATTTTTATTGA-TATG
1 -TATTATTTATTATTTATCTATTAATATACATAAAATTTTATT-ATTA-A
*
919974 TTTTATTTATTATTTATCTATT
1 TATTATTTATTATTTATCTATT
919996 CTTTTTTTTT
Statistics
Matches: 100, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
46 2 0.02
47 25 0.25
48 64 0.64
49 9 0.09
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (47 bp):
TATTATTTATTATTTATCTATTAATATACATAAAATTTTATTATTAA
Found at i:920718 original size:9 final size:9
Alignment explanation
Indices: 920704--920733 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
920694 TTCAAGGTTT
920704 TTTTTATTA
1 TTTTTATTA
920713 TTTTTATTA
1 TTTTTATTA
*
920722 TTATTATTA
1 TTTTTATTA
920731 TTT
1 TTT
920734 ATTGATTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTATTA
Found at i:920910 original size:64 final size:63
Alignment explanation
Indices: 920805--921044 Score: 294
Period size: 63 Copynumber: 3.8 Consensus size: 63
920795 TGATTTTCTT
* *
920805 TAAATAAAATTTT-AAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTGAAAAA
1 TAAA-AAAATTTTAAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTAAAAAA
** *
920867 TAAAAAAATTTTAAAAAATATATATTTTTAATAAAAAATTGAAAGTATCAATTTTTCTAAAAAA
1 TAAAAAAATTTTAAAAAA-ATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTAAAAAA
* * *
920931 TAAAAAGA-TTTAAAATATATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTAT-TTAAAAA
1 TAAAAAAATTTTAAAA-AAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTT-TCTAAAAAA
*** *
920994 TAAAATTTTTTTAAAAAAAAATA-TTTT-AGGAAAAGTTGAAAGTATCAATTT
1 TAAAAAAATTTTAAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTT
921045 CCCTTGAAAA
Statistics
Matches: 156, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
61 32 0.21
62 13 0.08
63 57 0.37
64 54 0.35
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.38
Consensus pattern (63 bp):
TAAAAAAATTTTAAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTAAAAAA
Found at i:921002 original size:18 final size:18
Alignment explanation
Indices: 920979--921021 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
920969 TGAAAGTATC
*
920979 AATTTTATTTAAAAATAA
1 AATTTTATTTAAAAAAAA
920997 AATTTT-TTTAAAAAAAA
1 AATTTTATTTAAAAAAAA
921014 ATATTTTA
1 A-ATTTTA
921022 GGAAAAGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTTATTTAAAAAAAA
Found at i:921223 original size:55 final size:55
Alignment explanation
Indices: 921105--921223 Score: 138
Period size: 54 Copynumber: 2.2 Consensus size: 55
921095 TTTTTCTTAT
* * *
921105 TCAACTTTT-CCTAAAAATAAAATTTTTAAAAATATTTTAGGAAAAGTTGAAAGTA
1 TCAA-TTTTCCCTAAAAATAAAATTTTTAAAAATATTTAAGGAAAAATTGAAAGAA
* *
921160 TCAA-TTTCCCTAGAAAATAAAA-TTTT-CAAATGCTTTAAGGAAAAATTGAAAGAA
1 TCAATTTTCCCTA-AAAATAAAATTTTTAAAAAT-ATTTAAGGAAAAATTGAAAGAA
921214 TCAATTTTCC
1 TCAATTTTCC
921224 TTGTATGAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
53 7 0.13
54 30 0.55
55 18 0.33
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (55 bp):
TCAATTTTCCCTAAAAATAAAATTTTTAAAAATATTTAAGGAAAAATTGAAAGAA
Found at i:923412 original size:20 final size:20
Alignment explanation
Indices: 923389--923426 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
923379 TTTTCACTCA
923389 AATTTTTAAGTTTTATTTTT
1 AATTTTTAAGTTTTATTTTT
*
923409 AATTTTTAATTTTTATTT
1 AATTTTTAAGTTTTATTT
923427 GAGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (20 bp):
AATTTTTAAGTTTTATTTTT
Found at i:923415 original size:8 final size:7
Alignment explanation
Indices: 923389--923423 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
923379 TTTTCACTCA
923389 AATTTTT
1 AATTTTT
*
923396 AAGTTTT
1 AATTTTT
923403 -ATTTTT
1 AATTTTT
923409 AATTTTT
1 AATTTTT
923416 AATTTTT
1 AATTTTT
923423 A
1 A
923424 TTTGAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (7 bp):
AATTTTT
Found at i:923426 original size:13 final size:14
Alignment explanation
Indices: 923389--923423 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
923379 TTTTCACTCA
923389 AATTTTTAAGTTTT
1 AATTTTTAAGTTTT
*
923403 -ATTTTTAATTTTT
1 AATTTTTAAGTTTT
923416 AATTTTTA
1 AATTTTTA
923424 TTTGAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
AATTTTTAAGTTTT
Found at i:925487 original size:24 final size:23
Alignment explanation
Indices: 925460--925506 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
925450 TTTAAAATAT
925460 GATAC-AAACATAATATGATATTAA
1 GATACGAAA-ATAATATGAT-TTAA
925484 GATACGAAAATAATATGATTTAA
1 GATACGAAAATAATATGATTTAA
925507 AATTTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.18
24 15 0.68
25 3 0.14
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.30
Consensus pattern (23 bp):
GATACGAAAATAATATGATTTAA
Found at i:927521 original size:29 final size:30
Alignment explanation
Indices: 927487--927553 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
927477 GATAAGATGC
927487 AAATTTATGATT-ATTTTTGTGAATT-GTTT
1 AAATTTATGATTGATTTTT-TGAATTAGTTT
* *
927516 AAATTTATTATTGATTTTTTTAATTAGTTT
1 AAATTTATGATTGATTTTTTGAATTAGTTT
*
927546 AATTTTAT
1 AAATTTAT
927554 CACTATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (30 bp):
AAATTTATGATTGATTTTTTGAATTAGTTT
Found at i:927903 original size:30 final size:32
Alignment explanation
Indices: 927865--927936 Score: 121
Period size: 30 Copynumber: 2.3 Consensus size: 32
927855 TGTTATATTT
927865 TGATCAAATTTATTCTAAAATTAAAAA-ATAA
1 TGATCAAATTTATTCTAAAATTAAAAATATAA
927896 T-ATCAAATTTATTCTAAAATTAAAAATATAA
1 TGATCAAATTTATTCTAAAATTAAAAATATAA
*
927927 TGATGAAATT
1 TGATCAAATT
927937 ATATCAATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 25 0.66
31 6 0.16
32 7 0.18
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.38
Consensus pattern (32 bp):
TGATCAAATTTATTCTAAAATTAAAAATATAA
Found at i:928427 original size:13 final size:13
Alignment explanation
Indices: 928411--928458 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
928401 TTAAAATACG
*
928411 ATATAATAATATA
1 ATATAAAAATATA
928424 ATAT--AAATATA
1 ATATAAAAATATA
* *
928435 ATACAAAAATAAA
1 ATATAAAAATATA
928448 ATATAAAAATA
1 ATATAAAAATA
928459 ACATAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 9 0.31
13 20 0.69
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
ATATAAAAATATA
Found at i:930286 original size:7 final size:7
Alignment explanation
Indices: 930276--930316 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
930266 TAAATTGAAA
930276 ATTTAAG
1 ATTTAAG
930283 ATTTAAG
1 ATTTAAG
930290 ATTTAAG
1 ATTTAAG
930297 ATTTAAG
1 ATTTAAG
*
930304 ATTTAAA
1 ATTTAAG
930311 ATTTAA
1 ATTTAA
930317 TTTAATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (7 bp):
ATTTAAG
Found at i:930302 original size:21 final size:21
Alignment explanation
Indices: 930267--930316 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
930257 TATACAAAAT
* *
930267 AAATTGAAAATTTAAGATTTA
1 AAATTTAAGATTTAAGATTTA
*
930288 AGATTTAAGATTTAAGATTTA
1 AAATTTAAGATTTAAGATTTA
930309 AAATTTAA
1 AAATTTAA
930317 TTTAATTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (21 bp):
AAATTTAAGATTTAAGATTTA
Found at i:933705 original size:18 final size:16
Alignment explanation
Indices: 933664--933707 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
933654 TGACTTATGT
*
933664 TAATTTATTTAAGTTAA
1 TAATTT-TTTAAGATAA
933681 TAATTTTTTAAAGATAA
1 TAATTTTTT-AAGATAA
933698 TGAATTTTTT
1 T-AATTTTTT
933708 TTAATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 13 0.54
18 8 0.33
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (16 bp):
TAATTTTTTAAGATAA
Found at i:937966 original size:3 final size:3
Alignment explanation
Indices: 937954--937998 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
937944 TGTTTTTTTA
* *
937954 AAT AAC AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
937999 TTTGTGGGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:938460 original size:28 final size:29
Alignment explanation
Indices: 938429--938516 Score: 81
Period size: 28 Copynumber: 3.0 Consensus size: 29
938419 AATTAATAGA
*
938429 TTTATAATTTGATTATCATATTAAA-ATT
1 TTTATAATTTAATTATCATATTAAATATT
* * * *
938457 TTTAAAATTCAAGTATCATGTTAAATATT
1 TTTATAATTTAATTATCATATTAAATATT
*
938486 TTACTATAATTTAATAATCAT-TTATAATATT
1 TT--TATAATTTAATTATCATATTA-AATATT
938517 AACCCACTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
28 20 0.43
29 5 0.11
30 3 0.06
31 19 0.40
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (29 bp):
TTTATAATTTAATTATCATATTAAATATT
Found at i:938901 original size:3 final size:3
Alignment explanation
Indices: 938888--938918 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
938878 CACATACCTT
*
938888 TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
938919 GTCCAGATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:939225 original size:24 final size:23
Alignment explanation
Indices: 939176--939247 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 23
939166 ATAATATTTA
* **
939176 ATTTAATTTAAATAAAATTT-TTT
1 ATTTAA-TTAAATTAAATTTAAAT
939199 ATTTAATTCAAATTAAATTTAAAT
1 ATTTAATT-AAATTAAATTTAAAT
*
939223 A-TTAGATATATATTAAATTTAAAT
1 ATTTA-AT-TAAATTAAATTTAAAT
939247 A
1 A
939248 AAAATTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
22 2 0.05
23 19 0.46
24 19 0.46
25 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (23 bp):
ATTTAATTAAATTAAATTTAAAT
Found at i:939443 original size:19 final size:19
Alignment explanation
Indices: 939411--939449 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
939401 ATTTAAAAAT
939411 TGATAAATTAAAT-CTAAC
1 TGATAAATTAAATCCTAAC
*
939429 TGATAAAATTCAATCCTAAC
1 TGAT-AAATTAAATCCTAAC
939449 T
1 T
939450 CAAATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.33
Consensus pattern (19 bp):
TGATAAATTAAATCCTAAC
Found at i:940462 original size:55 final size:56
Alignment explanation
Indices: 940401--940512 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
940391 TGTTTTTGAC
* *
940401 TTTTAA-TTTCTTATGATTTATAG-TTTTCTATCTTCTTTTTTAGTGATGAGAGGGT
1 TTTTAATTTTCTTATAATTTATAGTTTTTC-ATCTTCTTTTTTAGGGATGAGAGGGT
* *
940456 TTTTAATTTTCTTATAATTTATGGTTTTTCATCTTCTTTTTTTGGGATGAGAGGGT
1 TTTTAATTTTCTTATAATTTATAGTTTTTCATCTTCTTTTTTAGGGATGAGAGGGT
940512 T
1 T
940513 ATATAAATGT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
55 6 0.12
56 40 0.78
57 5 0.10
ACGTcount: A:0.19, C:0.07, G:0.17, T:0.57
Consensus pattern (56 bp):
TTTTAATTTTCTTATAATTTATAGTTTTTCATCTTCTTTTTTAGGGATGAGAGGGT
Found at i:941882 original size:18 final size:17
Alignment explanation
Indices: 941856--941892 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
941846 CTAAAATCTC
941856 TTAAATTTTTAATCTTTT
1 TTAAATTTTTAAT-TTTT
*
941874 TTAATTTTTTAATTTTT
1 TTAAATTTTTAATTTTT
941891 TT
1 TT
941893 CAAGCTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TTAAATTTTTAATTTTT
Found at i:943229 original size:2 final size:2
Alignment explanation
Indices: 943222--943247 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
943212 GAAACAAAAG
943222 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
943248 TGTATAAGAT
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:945190 original size:3 final size:3
Alignment explanation
Indices: 945182--945206 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
945172 TCAATTTAAA
945182 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
945207 TTCTGACACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:946202 original size:3 final size:3
Alignment explanation
Indices: 946196--946260 Score: 62
Period size: 3 Copynumber: 22.3 Consensus size: 3
946186 ATTTTTAGGA
* * * *
946196 TAT TAT TGT TAT GAT TAT TAT TCT TAT TAT CAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
946243 TA- TGT TAT TAT TAA TAT T
1 TAT TAT TAT TAT TAT TAT T
946261 TGCTCTTTTA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
2 3 0.06
3 45 0.94
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:946358 original size:18 final size:19
Alignment explanation
Indices: 946334--946377 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
946324 TAAAAAAAAT
946334 AGCAAAAAT-AATTATTTA
1 AGCAAAAATGAATTATTTA
* * *
946352 AGGAAAATTGAATTTTTTA
1 AGCAAAAATGAATTATTTA
946371 AGCAAAA
1 AGCAAAA
946378 TGTTGCTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (19 bp):
AGCAAAAATGAATTATTTA
Found at i:947092 original size:17 final size:16
Alignment explanation
Indices: 947066--947099 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
947056 TTGATTTTTC
*
947066 TAAAATTTTCTCTAAA
1 TAAAATTTTCTATAAA
947082 TAAAGATTTTCTATAAA
1 TAAA-ATTTTCTATAAA
947099 T
1 T
947100 TCTATCAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (16 bp):
TAAAATTTTCTATAAA
Found at i:947720 original size:23 final size:23
Alignment explanation
Indices: 947678--947728 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
947668 AGTTTTATTA
*
947678 TGTTATTTTATTTGTCTTAT-AT
1 TGTTATTTTATTTGTATTATAAT
947700 TGTTGATTTTATTTCG-ATTATAAT
1 TGTT-ATTTTATTT-GTATTATAAT
947724 TGTTA
1 TGTTA
947729 CATTCCCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 4 0.16
23 14 0.56
24 7 0.28
ACGTcount: A:0.22, C:0.04, G:0.12, T:0.63
Consensus pattern (23 bp):
TGTTATTTTATTTGTATTATAAT
Found at i:952615 original size:69 final size:69
Alignment explanation
Indices: 952487--952616 Score: 154
Period size: 69 Copynumber: 1.9 Consensus size: 69
952477 GACGAATGAG
* * * ** *
952487 TTTGAGCCTCTTACCATCTTTTATGAAGAGAAATCTAATGTTAAGGTTGATAAGCCAATTTATAT
1 TTTGAGCCTCTCACCATATTTTATGAAGAGAAATCTAATGCTAAAATTGATAAACCAATTTATAT
952552 GAAT
66 GAAT
* * * *
952556 TTTGAGCCTGTCACCATATTTTATGATGAGAAAT-TGAGTGCTAAAATTGATAAATCAATTT
1 TTTGAGCCTCTCACCATATTTTATGAAGAGAAATCT-AATGCTAAAATTGATAAACCAATTT
952617 GTACAACTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
68 1 0.02
69 49 0.98
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (69 bp):
TTTGAGCCTCTCACCATATTTTATGAAGAGAAATCTAATGCTAAAATTGATAAACCAATTTATAT
GAAT
Found at i:956509 original size:20 final size:21
Alignment explanation
Indices: 956484--956535 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
956474 ATTTGGAAGA
956484 TTTCCAAATTTC-AGTGAACT
1 TTTCCAAATTTCTAGTGAACT
*
956504 TTTCC-AGTTTCTAGTGAACT
1 TTTCCAAATTTCTAGTGAACT
*
956524 TTTCCAATTTTC
1 TTTCCAAATTTC
956536 GATGAAGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 5 0.18
20 18 0.64
21 5 0.18
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTCCAAATTTCTAGTGAACT
Found at i:956560 original size:19 final size:20
Alignment explanation
Indices: 956538--956576 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
956528 CAATTTTCGA
956538 TGAAGATTCCAACAA-ATTT
1 TGAAGATTCCAACAAGATTT
*
956557 TGAAGTTTCCAACAAGATTT
1 TGAAGATTCCAACAAGATTT
956577 CTAGTTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGAAGATTCCAACAAGATTT
Found at i:958335 original size:11 final size:11
Alignment explanation
Indices: 958319--958349 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
958309 TATAAAAGGA
958319 GATTACTACCC
1 GATTACTACCC
958330 GATTACTACCC
1 GATTACTACCC
*
958341 GATCACTAC
1 GATTACTAC
958350 TAATGTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.26
Consensus pattern (11 bp):
GATTACTACCC
Found at i:963699 original size:25 final size:26
Alignment explanation
Indices: 963665--963742 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 26
963655 GAATGAAGCG
* *
963665 AATAAGAAATGA-AAAAAAAAAGAAT
1 AATAAAAAATGAGAAAAAAAAAGAAA
*
963690 AATAAAAAATGAGAAAAAAAATGAAA
1 AATAAAAAATGAGAAAAAAAAAGAAA
* *
963716 AAGAAAAAAAGTGAGAAATAAGAAAGA
1 AA-TAAAAAA-TGAGAAA-AAAAAAGA
963743 TATGAAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
25 11 0.26
26 13 0.30
27 6 0.14
28 7 0.16
29 6 0.14
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (26 bp):
AATAAAAAATGAGAAAAAAAAAGAAA
Found at i:963708 original size:12 final size:11
Alignment explanation
Indices: 963671--963722 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 11
963661 AGCGAATAAG
963671 AAATGAAAAAA
1 AAATGAAAAAA
*
963682 AAAAGAATAATAAA
1 AAATG-A-AA-AAA
963696 AAATGAGAAAAA
1 AAATGA-AAAAA
963708 AAATGAAAAAGA
1 AAATGAAAAA-A
963720 AAA
1 AAA
963723 AAAGTGAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 8 0.24
12 14 0.41
13 5 0.15
14 7 0.21
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (11 bp):
AAATGAAAAAA
Found at i:963716 original size:18 final size:17
Alignment explanation
Indices: 963695--963758 Score: 51
Period size: 18 Copynumber: 3.7 Consensus size: 17
963685 AGAATAATAA
963695 AAAATGAGAAAAAAAATG
1 AAAAT-AGAAAAAAAATG
*
963713 AAAA-AGAAAAAAAGTG
1 AAAATAGAAAAAAAATG
* *
963729 AGAAATA-AGAAAGATATG
1 A-AAATAGA-AAAAAAATG
*
963747 AAAAAAGAAAAA
1 AAAATAGAAAAA
963759 CTCAAATTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
16 12 0.33
17 11 0.31
18 13 0.36
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.09
Consensus pattern (17 bp):
AAAATAGAAAAAAAATG
Found at i:964501 original size:39 final size:38
Alignment explanation
Indices: 964453--964840 Score: 243
Period size: 39 Copynumber: 10.1 Consensus size: 38
964443 TTTGAATAAT
* * * *
964453 ATAAAAGCTCTTCTAAACAGAGGCTCAACAATTTTTAAC
1 ATAAAAGCTCTTCTAAATAGAGGCAC-ACAACTTTAAAC
*
964492 ATAAAAGCTCCTTATAAATAGAGGCACACAACTTTAAAC
1 ATAAAAGCT-CTTCTAAATAGAGGCACACAACTTTAAAC
*
964531 ATAAAAGCTCTTCATAAATAAAGGCACACAACTTTAAAC
1 ATAAAAGCTCTTC-TAAATAGAGGCACACAACTTTAAAC
* * *
964570 ATAAAAGCTCTTCCATAATAAAGGCACACGACTTT-AAC
1 ATAAAAGCTCTTCTA-AATAGAGGCACACAACTTTAAAC
* * *
964608 AATAAAGGCTCATCATAAATAAAGGCACACAACTTTAAAC
1 -ATAAAAGCTCTTC-TAAATAGAGGCACACAACTTTAAAC
* * * * ** * *
964648 ATAAAGGCTCATCCATGATAGAGATACACAATTTTAAAA
1 ATAAAAGCTCTTCTA-AATAGAGGCACACAACTTTAAAC
* * *
964687 ATAAAGGCTCTTC---A-A-AGGCACAAAACTTTAAAA
1 ATAAAAGCTCTTCTAAATAGAGGCACACAACTTTAAAC
* * ** * * *
964720 ATAAAGGCTCCTCTATAGCAAAGGCACATAACTTTAAAA
1 ATAAAAGCTCTTCTA-AATAGAGGCACACAACTTTAAAC
* * ** *
964759 AT-AAAGACTCCTC-ATAACAGAGGCACATGACTTTAAAA
1 ATAAAAG-CTCTTCTA-AATAGAGGCACACAACTTTAAAC
* * * * ** *
964797 ATAAAGGCTCCTCTATAACAAAGGCACATGACTTTAAAA
1 ATAAAAGCTCTTCTA-AATAGAGGCACACAACTTTAAAC
964836 ATAAA
1 ATAAA
964841 TAAACACCCA
Statistics
Matches: 299, Mismatches: 34, Indels: 32
0.82 0.09 0.09
Matches are distributed among these distances:
33 26 0.09
34 1 0.00
35 1 0.00
38 42 0.14
39 211 0.71
40 18 0.06
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (38 bp):
ATAAAAGCTCTTCTAAATAGAGGCACACAACTTTAAAC
Found at i:964535 original size:78 final size:77
Alignment explanation
Indices: 964453--964840 Score: 276
Period size: 78 Copynumber: 5.1 Consensus size: 77
964443 TTTGAATAAT
* * * * *
964453 ATAAAAGCTCTTC-TAAACAGAGGCTCAACAATTTTTAACATAAAAGCTCCTT-ATAAATAGAGG
1 ATAAAAGCTCTTCATAAACAAAGGCAC-ACAACTTTAAACATAAAAGCT-CTTCAT-AATAAAGG
964516 CACACAACTTTAAAC
63 CACACAACTTTAAAC
*
964531 ATAAAAGCTCTTCATAAATAAAGGCACACAACTTTAAACATAAAAGCTCTTCCATAATAAAGGCA
1 ATAAAAGCTCTTCATAAACAAAGGCACACAACTTTAAACATAAAAGCTCTT-CATAATAAAGGCA
*
964596 CACGACTTT-AAC
65 CACAACTTTAAAC
* * * * * * * **
964608 AATAAAGGCTCATCATAAATAAAGGCACACAACTTTAAACATAAAGGCTCATCCATGATAGAGAT
1 -ATAAAAGCTCTTCATAAACAAAGGCACACAACTTTAAACATAAAAGCTC-TTCATAATAAAGGC
* *
964673 ACACAATTTTAAAA
64 ACACAACTTTAAAC
* * * * * **
964687 ATAAAGGCTC-T--T---CAAAGGCACAAAACTTTAAAAATAAAGGCTCCTCTATAGCAAAGGCA
1 ATAAAAGCTCTTCATAAACAAAGGCACACAACTTTAAACATAAAAGCTCTTC-ATAATAAAGGCA
* *
964746 CATAACTTTAAAA
65 CACAACTTTAAAC
* * ** * * * *
964759 AT-AAAGACTCCTCAT-AACAGAGGCACATGACTTTAAAAATAAAGGCTCCTCTATAACAAAGGC
1 ATAAAAG-CTCTTCATAAACAAAGGCACACAACTTTAAACATAAAAGCTCTTC-ATAATAAAGGC
** *
964822 ACATGACTTTAAAA
64 ACACAACTTTAAAC
964836 ATAAA
1 ATAAA
964841 TAAACACCCA
Statistics
Matches: 259, Mismatches: 37, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
71 4 0.02
72 50 0.19
73 1 0.00
75 2 0.01
77 64 0.25
78 123 0.47
79 15 0.06
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (77 bp):
ATAAAAGCTCTTCATAAACAAAGGCACACAACTTTAAACATAAAAGCTCTTCATAATAAAGGCAC
ACAACTTTAAAC
Found at i:964792 original size:38 final size:39
Alignment explanation
Indices: 964492--964840 Score: 279
Period size: 39 Copynumber: 9.1 Consensus size: 39
964482 AATTTTTAAC
* * *
964492 ATAAAAGCTCCT-TATAA-ATAGAGGCACACAACTTTAAAC
1 ATAAAGGCTCCTCTATAACA-A-AGGCACATAACTTTAAAA
* * * * *
964531 ATAAAAGCTCTTC-ATAAATAAAGGCACACAACTTTAAAC
1 ATAAAGGCTCCTCTAT-AACAAAGGCACATAACTTTAAAA
* * * * ** *
964570 ATAAAAGCTCTTCCATAATAAAGGCACACGACTTTAACA
1 ATAAAGGCTCCTCTATAACAAAGGCACATAACTTTAAAA
* * * *
964609 ATAAAGGCTCATC-ATAAATAAAGGCACACAACTTTAAAC
1 ATAAAGGCTCCTCTAT-AACAAAGGCACATAACTTTAAAA
* * * * * ** * *
964648 ATAAAGGCTCATCCATGATAGAGATACACAATTTTAAAA
1 ATAAAGGCTCCTCTATAACAAAGGCACATAACTTTAAAA
*
964687 ATAAAGG---CTCT-T--CAAAGGCACAAAACTTTAAAA
1 ATAAAGGCTCCTCTATAACAAAGGCACATAACTTTAAAA
*
964720 ATAAAGGCTCCTCTATAGCAAAGGCACATAACTTTAAAA
1 ATAAAGGCTCCTCTATAACAAAGGCACATAACTTTAAAA
* * *
964759 ATAAAGACTCCTC-ATAACAGAGGCACATGACTTTAAAA
1 ATAAAGGCTCCTCTATAACAAAGGCACATAACTTTAAAA
*
964797 ATAAAGGCTCCTCTATAACAAAGGCACATGACTTTAAAA
1 ATAAAGGCTCCTCTATAACAAAGGCACATAACTTTAAAA
964836 ATAAA
1 ATAAA
964841 TAAACACCCA
Statistics
Matches: 267, Mismatches: 30, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
33 22 0.08
35 1 0.00
36 6 0.02
37 1 0.00
38 36 0.13
39 193 0.72
40 7 0.03
41 1 0.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (39 bp):
ATAAAGGCTCCTCTATAACAAAGGCACATAACTTTAAAA
Found at i:964804 original size:22 final size:22
Alignment explanation
Indices: 964779--964840 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
964769 CTCATAACAG
964779 AGGCACATGACTTTAAAAATAA
1 AGGCACATGACTTTAAAAATAA
* * * *
964801 AGG--C-T-CCTCT-ATAACAA
1 AGGCACATGACTTTAAAAATAA
964818 AGGCACATGACTTTAAAAATAA
1 AGGCACATGACTTTAAAAATAA
964840 A
1 A
964841 TAAACACCCA
Statistics
Matches: 27, Mismatches: 8, Indels: 10
0.60 0.18 0.22
Matches are distributed among these distances:
17 8 0.30
18 3 0.11
19 2 0.07
20 2 0.07
21 3 0.11
22 9 0.33
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.23
Consensus pattern (22 bp):
AGGCACATGACTTTAAAAATAA
Found at i:968320 original size:12 final size:12
Alignment explanation
Indices: 968303--968328 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
968293 CACTTGTAGG
968303 TAAATTAAGAAA
1 TAAATTAAGAAA
968315 TAAATTAAGAAA
1 TAAATTAAGAAA
968327 TA
1 TA
968329 TAGTTCCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (12 bp):
TAAATTAAGAAA
Found at i:976861 original size:119 final size:124
Alignment explanation
Indices: 976670--976947 Score: 292
Period size: 120 Copynumber: 2.3 Consensus size: 124
976660 TTTCTGCTAT
* *
976670 AAATTATCTTCTAATATGTTGGT-AGGATTT-TATGAAAATTATTTCTTTTCTAAAAATTAATTT
1 AAATTACCTTCTAATATGTTGGTAAGGCTTTGT-TGAAAATTATTTCTTTTCTAAAAATTAATTT
* * *
976733 TTAT-TTAAAAA-TCATTAGGCTT-TCCAATAAGTTGGTAA-AACTTCA-TCTT-AAAAATC
65 TTATATAAAAAATTAATAAGG-TTCTCCAATAAGTTGGTAATAACTT-ATTCTTAAAAAATC
** *
976789 AAATTACCTTCTAATATGTTGGTAAGGCTTTGTTGAAAATTATTT-TTCCTT-TTGAAATTTATT
1 AAATTACCTTCTAATATGTTGGTAAGGCTTTGTTGAAAATTATTTCTT--TTCTAAAAATTAATT
* * ** *
976852 TTT-TATAAAAAATTAATAAGGTTCTTCAATATGTTGGTAATTTCTTATTTTTTAAAAAAATC
64 TTTATATAAAAAATTAATAAGGTTCTCCAATAAGTTGGTAATAACTTA-TTCTT-AAAAAATC
976914 AAATTACCTTCTAATATGTTGGTAAGGC-TTGTTG
1 AAATTACCTTCTAATATGTTGGTAAGGCTTTGTTG
976948 TTTTATTAAA
Statistics
Matches: 134, Mismatches: 13, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
119 25 0.19
120 38 0.28
121 24 0.18
122 3 0.02
123 3 0.02
124 6 0.04
125 35 0.26
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (124 bp):
AAATTACCTTCTAATATGTTGGTAAGGCTTTGTTGAAAATTATTTCTTTTCTAAAAATTAATTTT
TATATAAAAAATTAATAAGGTTCTCCAATAAGTTGGTAATAACTTATTCTTAAAAAATC
Found at i:977121 original size:4 final size:4
Alignment explanation
Indices: 977104--977153 Score: 55
Period size: 4 Copynumber: 11.8 Consensus size: 4
977094 GATGGAAAAC
* *
977104 AAAT AAAT AGAT AAAT AAAT AACT AAACAT AAAT GAAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT -AA-AT AAAT -AAAT AAAT AAAT AAA
977154 AATACCAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 30 0.77
5 8 0.21
6 1 0.03
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:980002 original size:19 final size:20
Alignment explanation
Indices: 979978--980016 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
979968 GATGTCTTTT
*
979978 TCTTGATTGACTT-ATGATA
1 TCTTGATCGACTTAATGATA
979997 TCTTGATCGACTTAATGATA
1 TCTTGATCGACTTAATGATA
980017 GTGAAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (20 bp):
TCTTGATCGACTTAATGATA
Found at i:980176 original size:18 final size:18
Alignment explanation
Indices: 980153--980204 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
980143 GTGTTTTATT
*
980153 TTTTTATTTAATTTAATA
1 TTTTTATTTAATTTAAGA
* *
980171 TTTTTATTGAATAATAAGA
1 TTTTTATTTAAT-TTAAGA
980190 TTTTTATTTGAATTT
1 TTTTTATTT-AATTT
980205 TTAAATGCGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 11 0.41
19 13 0.48
20 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTTTATTTAATTTAAGA
Found at i:981180 original size:19 final size:18
Alignment explanation
Indices: 981136--981182 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
981126 TGTTATAAAT
*
981136 AATTTTAAATTATAATCA
1 AATTTTAAATAATAATCA
981154 AATATTTAACATAATATAT-A
1 AAT-TTTAA-ATAATA-ATCA
981174 AATTTTAAA
1 AATTTTAAA
981183 ATATCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 10 0.40
20 9 0.36
21 2 0.08
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTTTAAATAATAATCA
Found at i:981322 original size:29 final size:29
Alignment explanation
Indices: 981266--981340 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
981256 AATAAATATC
*
981266 ATATTA-ATTAATAAA--TTTATAATTTAA
1 ATATTATATTAA-AAATTTTTAAAATTTAA
*
981293 ATTTTATATTAAAAATTTTTAAAATTTAA
1 ATATTATATTAAAAATTTTTAAAATTTAA
*
981322 ATATTATATTAAATATTTT
1 ATATTATATTAAAAATTTT
981341 ACTATAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 8 0.20
28 5 0.12
29 28 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
ATATTATATTAAAAATTTTTAAAATTTAA
Found at i:981390 original size:16 final size:17
Alignment explanation
Indices: 981366--981399 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
981356 CAGTTCATAA
*
981366 TATTTATTTTTT-TATT
1 TATTAATTTTTTATATT
981382 TATTAATTTTTTATATT
1 TATTAATTTTTTATATT
981399 T
1 T
981400 TAATCTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTAATTTTTTATATT
Found at i:982184 original size:18 final size:18
Alignment explanation
Indices: 982136--982185 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
982126 AAAGCTAATA
*
982136 ATATTAAAAATGAATATC
1 ATATTAAAAATTAATATC
*
982154 ATATTAATTAATTAAT-TC
1 ATATTAA-AAATTAATATC
982172 ATAATTAAAAATTA
1 AT-ATTAAAAATTA
982186 TTAATTCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATTAAAAATTAATATC
Found at i:982421 original size:27 final size:28
Alignment explanation
Indices: 982355--982421 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
982345 TATGATATTT
*
982355 AAATTTTAAAAATATTTAATGTAATACTA
1 AAATTTT-AAAATATTTAATCTAATACTA
*
982384 AAATTAT-AAATATCTTAA-CTAATA-TA
1 AAATTTTAAAATAT-TTAATCTAATACTA
*
982410 ATATTTTAAAAT
1 AAATTTTAAAAT
982422 TTATTTATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 7 0.22
27 15 0.47
28 4 0.12
29 6 0.19
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (28 bp):
AAATTTTAAAATATTTAATCTAATACTA
Found at i:982563 original size:19 final size:19
Alignment explanation
Indices: 982522--982582 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
982512 TTAAAATTTT
** *
982522 TTAAAATTTAAATATCATA
1 TTAAAATTTATTTATAATA
982541 TTAAATATTTCA-TTATAAT-
1 TTAAA-ATTT-ATTTATAATA
982560 TTAAAATTTATTTATAATA
1 TTAAAATTTATTTATAATA
982579 TTAA
1 TTAA
982583 CCCTATTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
17 1 0.03
18 11 0.31
19 14 0.39
20 9 0.25
21 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAATTTATTTATAATA
Found at i:983783 original size:11 final size:11
Alignment explanation
Indices: 983764--983795 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
983754 CTCTTATCAT
*
983764 TATTAAAATAA
1 TATTTAAATAA
983775 TATTTAAATAA
1 TATTTAAATAA
983786 TATTTAAATA
1 TATTTAAATA
983796 TTGACGTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTTAAATAA
Found at i:984177 original size:24 final size:24
Alignment explanation
Indices: 984137--984195 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
984127 TTTTATCTTG
**
984137 TATAT-TTAAGTAATTTTTTAGAAA
1 TATATATTAA-TAATTTTCAAGAAA
* *
984161 TATATATTAATAGTTTTCAATAAA
1 TATATATTAATAATTTTCAAGAAA
*
984185 AATATATTAAT
1 TATATATTAAT
984196 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (24 bp):
TATATATTAATAATTTTCAAGAAA
Found at i:1002204 original size:2 final size:2
Alignment explanation
Indices: 1002152--1002192 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1002142 GTCTTTGTGG
1002152 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1002193 TTGTTTTCTC
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1003219 original size:19 final size:22
Alignment explanation
Indices: 1003174--1003221 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1003164 TTACTGGATG
1003174 AAAA-TTATTTCAAAAAATTAT
1 AAAATTTATTTCAAAAAATTAT
1003195 ATAAATTTATTT-AAAAAA-TA-
1 A-AAATTTATTTCAAAAAATTAT
1003215 AAAATTT
1 AAAATTT
1003222 CAATTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 6 0.24
20 1 0.04
21 3 0.12
22 9 0.36
23 6 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTTATTTCAAAAAATTAT
Found at i:1004165 original size:21 final size:21
Alignment explanation
Indices: 1004124--1004165 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1004114 AATATATTTC
* *
1004124 TATTTAAAATATATATTAATA
1 TATTTAAAATATAAATAAATA
1004145 TATTTATAAA-ATAAATAAATA
1 TATTTA-AAATATAAATAAATA
1004166 AATATGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATTTAAAATATAAATAAATA
Found at i:1006105 original size:12 final size:12
Alignment explanation
Indices: 1006086--1006115 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1006076 CCATGAGAGA
1006086 GAAGCAAGGAGG
1 GAAGCAAGGAGG
*
1006098 GGAGCAAGGAGG
1 GAAGCAAGGAGG
1006110 GAAGCA
1 GAAGCA
1006116 CAGTAAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.50, T:0.00
Consensus pattern (12 bp):
GAAGCAAGGAGG
Found at i:1012047 original size:13 final size:13
Alignment explanation
Indices: 1012029--1012054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1012019 TTTTATATAC
1012029 ATAAACCTACATA
1 ATAAACCTACATA
1012042 ATAAACCTACATA
1 ATAAACCTACATA
1012055 TATATTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAAACCTACATA
Found at i:1012157 original size:16 final size:16
Alignment explanation
Indices: 1012124--1012157 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1012114 AATTAAAATT
* *
1012124 AATATATTTTTATTAA
1 AATATATATTTATAAA
1012140 AATATATATTTATAAA
1 AATATATATTTATAAA
1012156 AA
1 AA
1012158 AATTACCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATATATTTATAAA
Found at i:1013248 original size:18 final size:17
Alignment explanation
Indices: 1013221--1013255 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1013211 TATAAAACAT
*
1013221 ATTTTTTATTTTTTTTA
1 ATTTTTTATTATTTTTA
1013238 ATTTATTTATTATTTTTA
1 ATTT-TTTATTATTTTTA
1013256 TAAAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTTTATTATTTTTA
Found at i:1013361 original size:24 final size:23
Alignment explanation
Indices: 1013315--1013368 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
1013305 GTATTTATCA
1013315 AATTTATTAAAAAATACACATTTT
1 AATTTATTAAAAAATACACA-TTT
* *
1013339 AATTTATTAATAATATATA-ATTT
1 AATTTATTAA-AAAATACACATTT
1013362 AATTTAT
1 AATTTAT
1013369 ATCAAATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 10 0.37
24 11 0.41
25 6 0.22
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
AATTTATTAAAAAATACACATTT
Found at i:1013632 original size:13 final size:14
Alignment explanation
Indices: 1013607--1013634 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1013597 TTGTTTCATG
1013607 AAAAATAATTTTTA
1 AAAAATAATTTTTA
1013621 AAAAATAATTTTTA
1 AAAAATAATTTTTA
1013635 TATTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:1013842 original size:21 final size:21
Alignment explanation
Indices: 1013818--1013857 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1013808 TTTTACTTAC
1013818 AAATAATATTATATTATAAAT
1 AAATAATATTATATTATAAAT
1013839 AAATAATATTATATTATAA
1 AAATAATATTATATTATAA
1013858 TATATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATAATATTATATTATAAAT
Found at i:1013917 original size:18 final size:17
Alignment explanation
Indices: 1013818--1014069 Score: 84
Period size: 15 Copynumber: 15.6 Consensus size: 17
1013808 TTTTACTTAC
1013818 AAATAATATTATATTAT
1 AAATAATATTATATTAT
*
1013835 AAATAA-ATAATATTAT
1 AAATAATATTATATTAT
* *
1013851 ATTATAATA-TAT-TAAT
1 A-AATAATATTATATTAT
1013867 AAATAATATCATATATACTAT
1 AAATAATAT--TATAT--TAT
*
1013888 TAATACA-A-TATATTCAT
1 AAATA-ATATTATATT-AT
1013905 AAATAATATTATAATATAT
1 AAATAATATTAT-AT-TAT
** *
1013924 TCATAA-ATAATA-TAT
1 AAATAATATTATATTAT
*
1013939 AAATAAATATTATA--CT
1 AAAT-AATATTATATTAT
1013955 -AAT-ATATTA-A-TAT
1 AAATAATATTATATTAT
* * *
1013968 TAATAA-ATAATATAAT
1 AAATAATATTATATTAT
*
1013984 AAATATTATTA-ATT-T
1 AAATAATATTATATTAT
* *
1013999 AATTAATA-AATATTAT
1 AAATAATATTATATTAT
1014015 -AATAATA-TATGA--AT
1 AAATAATATTAT-ATTAT
*
1014029 AAATAATATAATATTA-
1 AAATAATATTATATTAT
* *
1014045 ATATAATATT-T-TAAT
1 AAATAATATTATATTAT
1014060 AAATAATATT
1 AAATAATATT
1014070 TTAATATATT
Statistics
Matches: 173, Mismatches: 32, Indels: 62
0.65 0.12 0.23
Matches are distributed among these distances:
12 1 0.01
13 7 0.04
14 11 0.06
15 52 0.30
16 39 0.23
17 29 0.17
18 16 0.09
19 9 0.05
20 1 0.01
21 7 0.04
22 1 0.01
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATAATATTATATTAT
Found at i:1013920 original size:23 final size:22
Alignment explanation
Indices: 1013827--1014091 Score: 140
Period size: 23 Copynumber: 11.8 Consensus size: 22
1013817 CAAATAATAT
* *
1013827 TATATTATAAATAA-ATAATAT
1 TATATTATAAATAATATTATAA
1013848 TATATTAT-AAT-ATATTAATAAA
1 TATATTATAAATAATATT-AT-AA
* * *
1013870 TAATATCATATATACTATTAATACAA
1 T-ATATTATAAATAATATT-AT--AA
1013896 TATATTCATAAATAATATTATAA
1 TATATT-ATAAATAATATTATAA
1013919 TATATTCATAAATAATA-TATAAA
1 TATATT-ATAAATAATATTAT-AA
*
1013942 TAAATATTAT-ACTAATA-TATTAA
1 T--ATATTATAAATAATATTA-TAA
* *
1013965 TAT-TAATAAATAATATAATAA
1 TATATTATAAATAATATTATAA
* *
1013986 -ATATTATTAATTTAAT-TAATAA
1 TATATTA-TAA-ATAATATTATAA
1014008 -ATATTAT-AATAATA-TATGAA
1 TATATTATAAATAATATTAT-AA
* * * *
1014028 TAAATAATATAATATTAATATAA
1 TATATTATA-AATAATATTATAA
* *
1014051 TATTTTAATAAATAATATTTTAA
1 TATATT-ATAAATAATATTATAA
1014074 TATATTAATAAATAATAT
1 TATATT-ATAAATAATAT
1014092 AAAGAATAAT
Statistics
Matches: 193, Mismatches: 27, Indels: 46
0.73 0.10 0.17
Matches are distributed among these distances:
19 7 0.04
20 13 0.07
21 29 0.15
22 21 0.11
23 81 0.42
24 11 0.06
25 18 0.09
26 13 0.07
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATTATAAATAATATTATAA
Done.