Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold24
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: 3006277
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.30
Warning! 383161 characters in sequence are not A, C, G, or T
File 6 of 19
Found at i:760826 original size:21 final size:21
Alignment explanation
Indices: 760781--760827 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
760771 ATATTTTTTT
760781 TATATTTTTAATTCAATCATA
1 TATATTTTTAATTCAATCATA
760802 -ATATTTTTAAATT-AAT-ATTA
1 TATATTTTT-AATTCAATCA-TA
760822 TATATT
1 TATATT
760828 AAATTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 1 0.04
20 13 0.57
21 9 0.39
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TATATTTTTAATTCAATCATA
Found at i:761261 original size:15 final size:16
Alignment explanation
Indices: 761243--761294 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 16
761233 ATCTATATTT
761243 TAAAAAAA-TAAAATA
1 TAAAAAAATTAAAATA
*
761258 TAAAAAAATTAAAATC
1 TAAAAAAATTAAAATA
761274 TAACATAAAAATTAAAATA
1 T-A-A-AAAAATTAAAATA
761293 TA
1 TA
761295 TATATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 8 0.26
16 7 0.23
17 1 0.03
18 2 0.06
19 13 0.42
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAAAAAATTAAAATA
Found at i:761549 original size:19 final size:19
Alignment explanation
Indices: 761522--761582 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
761512 TTTTAAATTT
761522 ATATTAAATTAAATTTTAA
1 ATATTAAATTAAATTTTAA
* *
761541 ATTTTAAATT-ATTATTTAA
1 ATATTAAATTAAAT-TTTAA
*
761560 ATATT-AATAAAATTTTAA
1 ATATTAAATTAAATTTTAA
761578 A-ATTA
1 ATATTA
761583 TTTTTATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 3 0.09
18 11 0.32
19 20 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTAAATTAAATTTTAA
Found at i:761591 original size:28 final size:29
Alignment explanation
Indices: 761539--761596 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
761529 ATTAAATTTT
761539 AAATTTTAAATTATTATTTAAATATTAATA
1 AAATTTTAAATTATTATTT-AATATTAATA
761569 AAATTTTAAAATTATT-TTT-ATATTAATA
1 AAATTTT-AAATTATTATTTAATATTAATA
761597 TTTATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 9 0.33
30 10 0.37
31 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
AAATTTTAAATTATTATTTAATATTAATA
Found at i:761751 original size:26 final size:27
Alignment explanation
Indices: 761704--761759 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
761694 CTCTCTTTAT
* *
761704 TTTTTAAAATTTTTTTTGATATTAA-TA
1 TTTTTAAAAATTATTTTGATA-TAATTA
761731 TTTTTAAAAATTATTTT-ATATAATTA
1 TTTTTAAAAATTATTTTGATATAATTA
761757 TTT
1 TTT
761760 ATATTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 3 0.12
26 8 0.31
27 15 0.58
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTTAAAAATTATTTTGATATAATTA
Found at i:761864 original size:15 final size:15
Alignment explanation
Indices: 761844--761934 Score: 64
Period size: 15 Copynumber: 6.1 Consensus size: 15
761834 ATTATCTTCG
*
761844 TATAATTTTATTTAT
1 TATAATTATATTTAT
*
761859 TATAATTATATTTAA
1 TATAATTATATTTAT
*
761874 AAT-ATTATATATTAT
1 TATAATTATAT-TTAT
*
761889 AATAAATTAT-TTTATT
1 TAT-AATTATATTTA-T
*
761905 TTTAA-TATATTT-T
1 TATAATTATATTTAT
*
761918 TATATTTATATTATAT
1 TATAATTATATT-TAT
761934 T
1 T
761935 TATATTAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
13 4 0.07
14 16 0.27
15 30 0.50
16 5 0.08
17 5 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATAATTATATTTAT
Found at i:761894 original size:20 final size:20
Alignment explanation
Indices: 761856--761899 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
761846 TAATTTTATT
*
761856 TATTATAATTATATTTAAAA
1 TATTATAATTATATATAAAA
*
761876 TATTATATATTATA-ATAAAT
1 TATTATA-ATTATATATAAAA
761896 TATT
1 TATT
761900 TTATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTATAATTATATATAAAA
Found at i:761910 original size:19 final size:19
Alignment explanation
Indices: 761878--761924 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
761868 ATTTAAAATA
*
761878 TTATATATTATAATAAATTAT
1 TTATAT-TTTTAATAAATT-T
*
761899 TT-TATTTTTAATATATTT
1 TTATATTTTTAATAAATTT
761917 TTATATTT
1 TTATATTT
761925 ATATTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 15 0.65
20 3 0.13
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATTTTTAATAAATTT
Found at i:761920 original size:17 final size:18
Alignment explanation
Indices: 761898--761940 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
761888 TAATAAATTA
761898 TTTTATTTT-TAATATAT
1 TTTTATTTTATAATATAT
*
761915 TTTTATATTTATATTATAT
1 TTTTAT-TTTATAATATAT
*
761934 TTATATT
1 TTTTATT
761941 AATTTTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 4 0.18
19 12 0.55
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATTTTATAATATAT
Found at i:761931 original size:11 final size:11
Alignment explanation
Indices: 761917--761945 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
761907 TAATATATTT
761917 TTATATTTATA
1 TTATATTTATA
761928 TTATATTTATA
1 TTATATTTATA
761939 TTA-ATTT
1 TTATATTT
761946 TTATCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTATATTTATA
Found at i:761967 original size:26 final size:26
Alignment explanation
Indices: 761926--761975 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
761916 TTTATATTTA
761926 TATTATATTTATATTAATTTTTATCT
1 TATTATATTTATATTAATTTTTATCT
*
761952 TATTATAGTTTA-ATTATTTTTTAT
1 TATTATA-TTTATATTAATTTTTAT
761976 ATCTGCTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
TATTATATTTATATTAATTTTTATCT
Found at i:762168 original size:17 final size:16
Alignment explanation
Indices: 762146--762183 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
762136 CTACACTCAC
762146 TAAAAAAAAATTATCAA
1 TAAAAAAAAATTA-CAA
*
762163 TAAAAAAATATTACAA
1 TAAAAAAAAATTACAA
762179 -AAAAA
1 TAAAAA
762184 TGAAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 3 0.15
17 12 0.60
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (16 bp):
TAAAAAAAAATTACAA
Found at i:763199 original size:25 final size:25
Alignment explanation
Indices: 763170--763260 Score: 67
Period size: 27 Copynumber: 3.4 Consensus size: 25
763160 AAACAGTATT
763170 TTTAAATTAAAATAATATATATTTA
1 TTTAAATTAAAATAATATATATTTA
* * **
763195 TTTAAATTTAATTATAAAATATATAAA
1 TTTAAA-TTAA-AATAATATATATTTA
* *
763222 TATTAATATAAAAATAATATTTTAATTT-
1 T-TTAA-ATTAAAATAATA-TAT-ATTTA
763250 TTTAAATTAAA
1 TTTAAATTAAA
763261 TAGGTAAATA
Statistics
Matches: 49, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
25 6 0.12
26 9 0.18
27 21 0.43
28 10 0.20
29 3 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TTTAAATTAAAATAATATATATTTA
Found at i:766383 original size:18 final size:17
Alignment explanation
Indices: 766339--766388 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
766329 TTTTTTAAAA
766339 TAAA-AATTTTATTTTT
1 TAAATAATTTTATTTTT
766355 TAAATAGATTTTATTATTT
1 TAAATA-ATTTTATT-TTT
**
766374 TATTTAATTTT-TTTT
1 TAAATAATTTTATTTT
766389 AGATATAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 6 0.21
17 3 0.10
18 13 0.45
19 7 0.24
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TAAATAATTTTATTTTT
Found at i:766889 original size:25 final size:25
Alignment explanation
Indices: 766861--766924 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
766851 CTTGACTTAT
766861 TTTTTAATTATATAATATGTAT-TAA
1 TTTTTAATTATATAATAT-TATGTAA
* *
766886 TTTTATATTTAT-TTATATTATGTAA
1 TTTT-TAATTATATAATATTATGTAA
*
766911 TATTT-ATTATATAA
1 TTTTTAATTATATAA
766925 AAAATAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
23 4 0.13
24 6 0.19
25 15 0.48
26 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (25 bp):
TTTTTAATTATATAATATTATGTAA
Found at i:768098 original size:32 final size:31
Alignment explanation
Indices: 768053--768119 Score: 73
Period size: 32 Copynumber: 2.1 Consensus size: 31
768043 TTACATCAGC
* * *
768053 AAAATAAGGTTTTTGATGATTTTTTAATTA-AA
1 AAAATAAGATTTTTCAT--TTTTTTAATAAGAA
*
768085 AAAATAATATTTTTCATTTTTTTAATAAGAA
1 AAAATAAGATTTTTCATTTTTTTAATAAGAA
768116 AAAA
1 AAAA
768120 GTTATCCTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 10 0.33
31 6 0.20
32 14 0.47
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.45
Consensus pattern (31 bp):
AAAATAAGATTTTTCATTTTTTTAATAAGAA
Found at i:768497 original size:17 final size:17
Alignment explanation
Indices: 768475--768510 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
768465 AAAATAATTT
768475 TTTA-TTATTAATTTAAA
1 TTTATTTATT-ATTTAAA
768492 TTTATTTATTATTTAAA
1 TTTATTTATTATTTAAA
768509 TT
1 TT
768511 AAAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTATTTATTATTTAAA
Found at i:768501 original size:21 final size:21
Alignment explanation
Indices: 768461--768513 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
768451 ATTAAATTAA
*
768461 ATTTAAAAT-AATTTTTTATT
1 ATTTAAATTAAATTTTTTATT
*
768481 A-TTAATTTAAATTTATTTATT
1 ATTTAAATTAAATTT-TTTATT
768502 ATTTAAATTAAA
1 ATTTAAATTAAA
768514 AAAATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 5 0.19
20 6 0.22
21 7 0.26
22 9 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTAAATTAAATTTTTTATT
Found at i:768571 original size:14 final size:16
Alignment explanation
Indices: 768541--768572 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
768531 AATTTAATTT
768541 TTAAAATATATAAATA
1 TTAAAATATATAAATA
768557 TTAAAATA-A-AAATA
1 TTAAAATATATAAATA
768571 TT
1 TT
768573 TGTTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 1 0.06
16 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAAAATATATAAATA
Found at i:768962 original size:2 final size:2
Alignment explanation
Indices: 768955--768979 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
768945 AGTCACTCAT
768955 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
768980 GATAGTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:769068 original size:19 final size:19
Alignment explanation
Indices: 768993--769069 Score: 52
Period size: 19 Copynumber: 4.0 Consensus size: 19
768983 AGTTTTCGTT
* * *
768993 ATAATATAAATATGATAAA
1 ATAAAATAAATATAAAAAA
*
769012 ATAAAAT-AAT-TAAATTTAAT
1 ATAAAATAAATATAAA---AAA
*
769032 ATAAAATATATGAT-AAAAA
1 ATAAAATAAAT-ATAAAAAA
769051 ATAAAATAAATATAAAAAA
1 ATAAAATAAATATAAAAAA
769070 TTTTATAGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
17 2 0.05
18 5 0.11
19 23 0.52
20 9 0.20
21 2 0.05
22 2 0.05
23 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
ATAAAATAAATATAAAAAA
Found at i:769624 original size:31 final size:29
Alignment explanation
Indices: 769589--769654 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 29
769579 GATTAGATTT
769589 AATATTTGTTAATTT-AATTTAATTAATAAAA
1 AATATTT-TT-ATTTAAATTTAATT-ATAAAA
769620 AATATTTTTATTTAAAATTTAATTATAAAA
1 AATATTTTTATTT-AAATTTAATTATAAAA
*
769650 TATAT
1 AATAT
769655 AAATATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
29 4 0.12
30 12 0.38
31 16 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
AATATTTTTATTTAAATTTAATTATAAAA
Found at i:773604 original size:19 final size:20
Alignment explanation
Indices: 773582--773621 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
773572 TTAATTATTA
773582 ATTTAAAAT-TTATTTTTAT
1 ATTTAAAATATTATTTTTAT
*
773601 ATTTAATATATTATTTTTAT
1 ATTTAAAATATTATTTTTAT
773621 A
1 A
773622 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTAAAATATTATTTTTAT
Found at i:776883 original size:37 final size:37
Alignment explanation
Indices: 776833--776908 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
776823 TGTTGGTATT
776833 GTAATTATTAAGAAAATAACATGGTATACATGTAAAA
1 GTAATTATTAAGAAAATAACATGGTATACATGTAAAA
*
776870 GTAATTATTAAGAAAGTAACATGGTATACATGTAAAA
1 GTAATTATTAAGAAAATAACATGGTATACATGTAAAA
776907 GT
1 GT
776909 TAAATAGATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (37 bp):
GTAATTATTAAGAAAATAACATGGTATACATGTAAAA
Found at i:777027 original size:17 final size:20
Alignment explanation
Indices: 777014--777052 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
777004 TAATATTTTT
777014 TAAAAA-AATTTATTATTAA
1 TAAAAATAATTTATTATTAA
777033 TAAAAATAATTTATTATTAA
1 TAAAAATAATTTATTATTAA
777053 CAAATACTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAAATAATTTATTATTAA
Found at i:777952 original size:25 final size:27
Alignment explanation
Indices: 777924--777975 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 27
777914 TATATATCGA
777924 TAATAAAAAATAT-TATAA-ATAAAAT
1 TAATAAAAAATATATATAACATAAAAT
*
777949 TAATAAATAATATATATAACATAAAAT
1 TAATAAAAAATATATATAACATAAAAT
777976 ATATTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 12 0.50
26 5 0.21
27 7 0.29
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
TAATAAAAAATATATATAACATAAAAT
Found at i:777956 original size:13 final size:13
Alignment explanation
Indices: 777924--778006 Score: 55
Period size: 13 Copynumber: 6.0 Consensus size: 13
777914 TATATATCGA
777924 TAATAAA-AAATAT
1 TAATAAATAAA-AT
777937 T-ATAAATAAAAT
1 TAATAAATAAAAT
*
777949 TAATAAATAATA-
1 TAATAAATAAAAT
777961 TATATAACATAAAAT
1 TA-ATAA-ATAAAAT
777976 ATATTTATAAAATAAAAT
1 -TA---AT-AAATAAAAT
*
777994 AAATAAATAAAAT
1 TAATAAATAAAAT
778007 ACATATCACA
Statistics
Matches: 58, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
12 10 0.17
13 26 0.45
14 7 0.12
16 2 0.03
17 1 0.02
18 10 0.17
19 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (13 bp):
TAATAAATAAAAT
Found at i:777972 original size:18 final size:18
Alignment explanation
Indices: 777930--778007 Score: 66
Period size: 18 Copynumber: 4.1 Consensus size: 18
777920 TCGATAATAA
*
777930 AAAATATTATAAATAAAATT
1 AAAATA-TATATATAAAA-T
*
777950 AATAAATAATATATATAACAT
1 -A-AAAT-ATATATATAAAAT
*
777971 AAAATATATTTATAAAAT
1 AAAATATATATATAAAAT
* *
777989 AAAATAAATAAATAAAAT
1 AAAATATATATATAAAAT
778007 A
1 A
778008 CATATCACAT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
18 27 0.56
19 4 0.08
20 1 0.02
21 2 0.04
22 13 0.27
23 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATATATATATAAAAT
Found at i:778007 original size:13 final size:13
Alignment explanation
Indices: 777938--778007 Score: 59
Period size: 13 Copynumber: 4.9 Consensus size: 13
777928 AAAAAATATT
*
777938 ATAAATAAAATTA
1 ATAAATAAAATAA
* *
777951 ATAAATAATATAT
1 ATAAATAAAATAA
777964 ATAACATAAAATATA
1 ATAA-ATAAAATA-A
777979 TTTATAAAATAAAATAA
1 ---AT-AAATAAAATAA
777996 ATAAATAAAATA
1 ATAAATAAAATA
778008 CATATCACAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 24 0.52
14 9 0.20
17 1 0.02
18 10 0.22
19 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAATAAAATAA
Found at i:778247 original size:17 final size:17
Alignment explanation
Indices: 778231--778263 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
778221 TTATAATTAT
778231 TATTTAAATT-ATTTTA
1 TATTTAAATTAATTTTA
*
778247 TATTTATATTAATTTTA
1 TATTTAAATTAATTTTA
778264 ATATATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTAAATTAATTTTA
Found at i:778250 original size:16 final size:17
Alignment explanation
Indices: 778231--778300 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
778221 TTATAATTAT
778231 TATTTAAATTATTTT-A
1 TATTTAAATTATTTTAA
*
778247 TATTTATATTAATTTTAA
1 TATTTAAATT-ATTTTAA
* *
778265 TATATTAATATTTTTTTTCA
1 TAT-TTAA-A-TTATTTTAA
* *
778285 TATTTTAATTTTTTTA
1 TATTTAAATTATTTTA
778301 TAAGGGGCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
16 9 0.21
17 12 0.28
18 5 0.12
19 6 0.14
20 9 0.21
21 2 0.05
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTAAATTATTTTAA
Found at i:778282 original size:20 final size:20
Alignment explanation
Indices: 778245--778299 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
778235 TAAATTATTT
* **
778245 TATATTTATATTAATTTTAA
1 TATATTAATATTTTTTTTAA
*
778265 TATATTAATATTTTTTTTCA
1 TATATTAATATTTTTTTTAA
*
778285 TATTTTAAT-TTTTTT
1 TATATTAATATTTTTT
778300 ATAAGGGGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TATATTAATATTTTTTTTAA
Found at i:784921 original size:16 final size:16
Alignment explanation
Indices: 784900--784938 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
784890 ATGATCGGCA
784900 TAACAATTACCTTCCC
1 TAACAATTACCTTCCC
784916 TAACAATTACCTTCCC
1 TAACAATTACCTTCCC
784932 TAA-AATT
1 TAACAATT
784939 GTGTCTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (16 bp):
TAACAATTACCTTCCC
Found at i:792757 original size:2 final size:2
Alignment explanation
Indices: 792708--792741 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
792698 ATATATATAT
792708 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
792742 CTTACAGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:793345 original size:31 final size:31
Alignment explanation
Indices: 793310--793407 Score: 133
Period size: 31 Copynumber: 3.2 Consensus size: 31
793300 AATAGTATTA
793310 TTAATTTTTATATTTATATTAAAATATAAAT
1 TTAATTTTTATATTTATATTAAAATATAAAT
* *
793341 TTAATCTTTATATTTATATTAAAATGTAAAT
1 TTAATTTTTATATTTATATTAAAATATAAAT
* * * **
793372 TTGACTTTTATATTTATGTTAAAATATGGAT
1 TTAATTTTTATATTTATATTAAAATATAAAT
793403 TTAAT
1 TTAAT
793408 CTCTCTTTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (31 bp):
TTAATTTTTATATTTATATTAAAATATAAAT
Found at i:794344 original size:16 final size:17
Alignment explanation
Indices: 794313--794348 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
794303 TATTTTTATC
*
794313 AAAATTTAAAATATAAA
1 AAAATATAAAATATAAA
794330 AAAATATAAAA-ATAAA
1 AAAATATAAAATATAAA
794346 AAA
1 AAA
794349 TTTTCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATATAAAATATAAA
Found at i:794444 original size:31 final size:28
Alignment explanation
Indices: 794379--794445 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 28
794369 AACCAAATCT
* *
794379 ACATTTTGGCATAATAGAGATTAACTTC
1 ACATTTTGGCATAATAGAGACTAAATTC
794407 ACATTTTGGCATAAGTGCAGAGACTAAATTC
1 ACATTTTGGCATAA-T--AGAGACTAAATTC
*
794438 AGATTTTG
1 ACATTTTG
794446 ATATAAGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 14 0.42
29 1 0.03
31 18 0.55
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (28 bp):
ACATTTTGGCATAATAGAGACTAAATTC
Found at i:796398 original size:6 final size:6
Alignment explanation
Indices: 796389--796414 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
796379 ACAAAATAAA
796389 AAATTT AAATTT AAATTT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AA
796415 TTATACAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:796614 original size:19 final size:19
Alignment explanation
Indices: 796590--796626 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
796580 TTATAACTTA
796590 TTACTTACATAATTTAAAT
1 TTACTTACATAATTTAAAT
* *
796609 TTACTTTCATATTTTAAA
1 TTACTTACATAATTTAAA
796627 ATATGTACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTACTTACATAATTTAAAT
Found at i:797174 original size:20 final size:20
Alignment explanation
Indices: 797149--797186 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
797139 ATTAAAACAT
797149 ATATATATATATATATGTGC
1 ATATATATATATATATGTGC
797169 ATATATATATATATATGT
1 ATATATATATATATATGT
797187 AACAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (20 bp):
ATATATATATATATATGTGC
Found at i:805498 original size:17 final size:17
Alignment explanation
Indices: 805476--805513 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
805466 AGAAGAAAGA
805476 AAATTGAAAGATTCATT
1 AAATTGAAAGATTCATT
805493 AAATTGAAAGATTCATT
1 AAATTGAAAGATTCATT
805510 AAAT
1 AAAT
805514 CATTTACTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (17 bp):
AAATTGAAAGATTCATT
Found at i:807163 original size:2 final size:2
Alignment explanation
Indices: 807156--807182 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
807146 AGATGAATAA
807156 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 A
807183 GAGAGAGAGA
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:807187 original size:2 final size:2
Alignment explanation
Indices: 807182--807211 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
807172 ATATATATAT
807182 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
807212 CTTACTTGTG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:807460 original size:7 final size:7
Alignment explanation
Indices: 807448--807473 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
807438 TTATACAGTA
807448 TTTTTAT
1 TTTTTAT
807455 TTTTTAT
1 TTTTTAT
807462 TTTTTAT
1 TTTTTAT
807469 TTTTT
1 TTTTT
807474 TTATAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:812140 original size:12 final size:12
Alignment explanation
Indices: 812123--812168 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
812113 GCCAGCCAAT
812123 TTTGAAATTCAA
1 TTTGAAATTCAA
*
812135 TTTGAAATAGCCAA
1 TTTGAAAT--TCAA
812149 TTTTGAAATTCAA
1 -TTTGAAATTCAA
812162 TTTGAAA
1 TTTGAAA
812169 CAGTGAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 15 0.52
13 3 0.10
14 3 0.10
15 8 0.28
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (12 bp):
TTTGAAATTCAA
Found at i:812154 original size:27 final size:27
Alignment explanation
Indices: 812116--812168 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
812106 AACTATTGCC
812116 AGCCAATTTTGAAATTCAATTTGAAAT
1 AGCCAATTTTGAAATTCAATTTGAAAT
812143 AGCCAATTTTGAAATTCAATTTGAAA
1 AGCCAATTTTGAAATTCAATTTGAAA
812169 CAGTGAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (27 bp):
AGCCAATTTTGAAATTCAATTTGAAAT
Found at i:812155 original size:15 final size:15
Alignment explanation
Indices: 812116--812157 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 15
812106 AACTATTGCC
812116 AGCCAATTTTGAAAT
1 AGCCAATTTTGAAAT
*
812131 --TCAA-TTTGAAAT
1 AGCCAATTTTGAAAT
812143 AGCCAATTTTGAAAT
1 AGCCAATTTTGAAAT
812158 TCAATTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
12 8 0.36
13 3 0.14
14 3 0.14
15 8 0.36
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (15 bp):
AGCCAATTTTGAAAT
Found at i:812590 original size:44 final size:44
Alignment explanation
Indices: 812527--812690 Score: 274
Period size: 44 Copynumber: 3.7 Consensus size: 44
812517 GGTGTTTTTA
* *
812527 TTATTTATTTTTTCATGGATTGGCATAACCACCCAATTGTATAT
1 TTATTTATTTTTTCGTGGATTGGCATAACCACCCAATTGCATAT
*
812571 TTATTTATTTTTTCGTGGATTGGCATAACCACCAAATTGCATAT
1 TTATTTATTTTTTCGTGGATTGGCATAACCACCCAATTGCATAT
* *
812615 TTATTTATTTTTCCGTGGATTGGCATAGCCACCCAATTGCATAT
1 TTATTTATTTTTTCGTGGATTGGCATAACCACCCAATTGCATAT
*
812659 TTATTTATTTTTTCGTGGATTGACATAACCAC
1 TTATTTATTTTTTCGTGGATTGGCATAACCAC
812691 ATAAATTCTA
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 111 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (44 bp):
TTATTTATTTTTTCGTGGATTGGCATAACCACCCAATTGCATAT
Found at i:813043 original size:23 final size:23
Alignment explanation
Indices: 813017--813063 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
813007 TAAAAAATCA
813017 TAAATCAATTAATT-AAATTAATT
1 TAAATCAA-TAATTAAAATTAATT
* *
813040 TAAATTAATATTTAAAATTAATT
1 TAAATCAATAATTAAAATTAATT
813063 T
1 T
813064 TTATTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TAAATCAATAATTAAAATTAATT
Found at i:813044 original size:10 final size:10
Alignment explanation
Indices: 813023--813073 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
813013 ATCATAAATC
813023 AATTAA-TTA
1 AATTAATTTA
813032 AATTAATTTA
1 AATTAATTTA
813042 AATTAATATTTAA
1 AATT-A-ATTT-A
*
813055 AATTAATTTT
1 AATTAATTTA
*
813065 TATTAATTT
1 AATTAATTT
813074 TAATCAAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
9 6 0.17
10 15 0.42
11 5 0.14
12 5 0.14
13 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
AATTAATTTA
Found at i:813069 original size:23 final size:22
Alignment explanation
Indices: 813031--813076 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
813021 TCAATTAATT
813031 AAATTAATTTAAATTAATATTTA
1 AAATTAATTTAAATTAAT-TTTA
**
813054 AAATTAATTTTTATTAATTTTA
1 AAATTAATTTAAATTAATTTTA
813076 A
1 A
813077 TCAAATCGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AAATTAATTTAAATTAATTTTA
Found at i:815630 original size:20 final size:20
Alignment explanation
Indices: 815605--815658 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
815595 ATTAGATTAA
*
815605 ATTTTATATTTT-ATACTAAT
1 ATTTTAT-TTTTAATAATAAT
815625 ATTTTATTTTTAATAATAAT
1 ATTTTATTTTTAATAATAAT
*
815645 ATCTTA-TTTTAATA
1 ATTTTATTTTTAATA
815659 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTATTTTTAATAATAAT
Found at i:815665 original size:20 final size:20
Alignment explanation
Indices: 815622--815665 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
815612 ATTTTATACT
* *
815622 AATATTTTATTTTTAATAAT
1 AATATCTTATTTTTAATAAA
815642 AATATCTTA-TTTTAATATAA
1 AATATCTTATTTTTAATA-AA
815662 AATA
1 AATA
815666 AATTATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AATATCTTATTTTTAATAAA
Found at i:815676 original size:23 final size:22
Alignment explanation
Indices: 815658--815701 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
815648 TTATTTTAAT
*
815658 ATAAAATAAATTATAATTTAAAA
1 ATAAAAAAAATTA-AATTTAAAA
815681 ATAAAAAAAATTAAATTTAAA
1 ATAAAAAAAATTAAATTTAAA
815702 CTTAACAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
ATAAAAAAAATTAAATTTAAAA
Found at i:816233 original size:38 final size:37
Alignment explanation
Indices: 816163--816234 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
816153 CACATGAAAT
* **
816163 ATAAATATATATTTATTTTTTAATTTTTATATATTTA
1 ATAAATATATATTTATTATTTAATTTAAATATATTTA
816200 ATAAAT-TATATTTTATTATTTATATTTAAATATAT
1 ATAAATATATA-TTTATTATTTA-ATTTAAATATAT
816235 ATTTGATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 4 0.13
37 16 0.53
38 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (37 bp):
ATAAATATATATTTATTATTTAATTTAAATATATTTA
Found at i:820661 original size:59 final size:59
Alignment explanation
Indices: 820596--820771 Score: 318
Period size: 58 Copynumber: 3.0 Consensus size: 59
820586 TATATCTTTT
*
820596 ATATATCATACACTTATAGTTAAAATTTGGATAACGTAATTACTAATAATTATAAAATC
1 ATATATCATACACTTATAGTTAAAATTTGGATAGCGTAATTACTAATAATTATAAAATC
*
820655 ATATATCATACACTTATAGTTAAAATTTGGATAGCATAATTACTAATAATTAT-AAATC
1 ATATATCATACACTTATAGTTAAAATTTGGATAGCGTAATTACTAATAATTATAAAATC
*
820713 ATATATCATACACTTATCGTTAAAATTTGGATAGCGTAATTACTAATAATTATAAAATC
1 ATATATCATACACTTATAGTTAAAATTTGGATAGCGTAATTACTAATAATTATAAAATC
820772 TCCTGGATAG
Statistics
Matches: 112, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
58 56 0.50
59 56 0.50
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (59 bp):
ATATATCATACACTTATAGTTAAAATTTGGATAGCGTAATTACTAATAATTATAAAATC
Found at i:821031 original size:15 final size:15
Alignment explanation
Indices: 821011--821039 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
821001 TCAAAATTTG
821011 AATATAATATTTTTA
1 AATATAATATTTTTA
821026 AATATAATATTTTT
1 AATATAATATTTTT
821040 TAAGTTGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATATAATATTTTTA
Found at i:826824 original size:2 final size:2
Alignment explanation
Indices: 826807--826859 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
826797 GTTCTGTTTA
* *
826807 AT AT AT CT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
826849 AT AT AG AT AT A
1 AT AT AT AT AT A
826860 ACTTTTATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:836261 original size:30 final size:29
Alignment explanation
Indices: 836193--836268 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
836183 CTAAATTTTA
* * *
836193 TTATTTTATTTAAATAAATTTTTACGCTT
1 TTATTTTATCTAAATAAATATTTACACTT
836222 TTATTTTATCTAAATAAATATTTA-ACTT
1 TTATTTTATCTAAATAAATATTTACACTT
*
836250 TTAATTTTTATCAAAATAA
1 TT-A-TTTTATCTAAATAA
836269 TTAAATAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
28 5 0.12
29 23 0.56
30 13 0.32
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.54
Consensus pattern (29 bp):
TTATTTTATCTAAATAAATATTTACACTT
Found at i:836302 original size:29 final size:27
Alignment explanation
Indices: 836268--836335 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
836258 TATCAAAATA
**
836268 ATTAAATAAACTCTTAAATTTTAATTTAT
1 ATTAAATAAACTCTT-AA-TCCAATTTAT
*
836297 ATTAAAATAAATTCTTAATCCAATTTAT
1 ATT-AAATAAACTCTTAATCCAATTTAT
836325 ACTTAAATAAA
1 A-TTAAATAAA
836336 TTTTTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 16 0.47
29 7 0.21
30 11 0.32
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (27 bp):
ATTAAATAAACTCTTAATCCAATTTAT
Found at i:836332 original size:28 final size:28
Alignment explanation
Indices: 836290--836343 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
836280 CTTAAATTTT
836290 AATTTATATTAAAATAAATTCTTAATCC
1 AATTTATATTAAAATAAATTCTTAATCC
*
836318 AATTTATACTT-AAATAAATTTTTAAT
1 AATTTATA-TTAAAATAAATTCTTAAT
836344 ATAAAGTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (28 bp):
AATTTATATTAAAATAAATTCTTAATCC
Found at i:840336 original size:19 final size:19
Alignment explanation
Indices: 840312--840350 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
840302 TAATTTTTCG
840312 TCCCTTATTTTATTATTCT
1 TCCCTTATTTTATTATTCT
840331 TCCCTTATTTTATTATTCT
1 TCCCTTATTTTATTATTCT
840350 T
1 T
840351 TTGGTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (19 bp):
TCCCTTATTTTATTATTCT
Found at i:845348 original size:24 final size:25
Alignment explanation
Indices: 845321--845367 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
845311 TGAGTAATAA
*
845321 ATTTAGTATT-TAAATATGTAAATT
1 ATTTAGTATTATAAATATCTAAATT
**
845345 ATTTTTTATTATAAATATCTAAA
1 ATTTAGTATTATAAATATCTAAA
845368 AATTTATATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
ATTTAGTATTATAAATATCTAAATT
Found at i:845372 original size:24 final size:24
Alignment explanation
Indices: 845327--845372 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
845317 ATAAATTTAG
* *
845327 TATTTAAATATGTAAATTATTTTT
1 TATTTAAATATCTAAATAATTTTT
845351 TATTATAAATATCTAAA-AATTT
1 TATT-TAAATATCTAAATAATTT
845373 ATATCTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TATTTAAATATCTAAATAATTTTT
Found at i:845446 original size:89 final size:89
Alignment explanation
Indices: 845222--845455 Score: 266
Period size: 89 Copynumber: 2.6 Consensus size: 89
845212 GTATGTTTCA
* * *
845222 ATAATAAATTTAAATATTT-AATATTATTAGAATTAATAAAA-TAATAAATATTTAAAAATTTAT
1 ATAATAAATTT-AATATTTAAATA-TA-TA-AATTATTAAAATTTATAAATATCTAAAAATTTAT
845285 ACTTAAATTTATTTTAAATTTTTTTATG
62 ACTTAAATTTATTTTAAATTTTTTTATG
* * ***
845313 AGTAATAAATTTAGTATTTAAATATGTAAATTATT-TTTTATTATAAATATCTAAAAATTTATA-
1 A-TAATAAATTTAATATTTAAATATATAAATTATTAAAAT-TTATAAATATCTAAAAATTTATAC
845376 TCTAAATTT-TGTTTAAA-TTTTTTATGG
64 T-TAAATTTAT-TTTAAATTTTTTTAT-G
845403 ATAATAAATTTAATATTTAAATATATAAATTATTAAAATTTAT-AATATCTAAA
1 ATAATAAATTTAATATTTAAATATATAAATTATTAAAATTTATAAATATCTAAA
845456 TTTATAAAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
88 10 0.08
89 51 0.42
90 39 0.32
91 8 0.07
92 14 0.11
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (89 bp):
ATAATAAATTTAATATTTAAATATATAAATTATTAAAATTTATAAATATCTAAAAATTTATACTT
AAATTTATTTTAAATTTTTTTATG
Found at i:845449 original size:24 final size:24
Alignment explanation
Indices: 845412--845466 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
845402 GATAATAAAT
*
845412 TTAATATTTAAATATATAAA-TTA
1 TTAAAATTTAAATATATAAATTTA
*
845435 TTAAAATTTATAATATCTAAATTTA
1 TTAAAATTTA-AATATATAAATTTA
*
845460 TAAAAAT
1 TTAAAAT
845467 AAATAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 9 0.33
24 9 0.33
25 9 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
TTAAAATTTAAATATATAAATTTA
Found at i:845472 original size:25 final size:24
Alignment explanation
Indices: 845422--845472 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
845412 TTAATATTTA
* **
845422 AATATATAAATTATTAAAATTTAT
1 AATATATAAATTATAAAAATAAAT
*
845446 AATATCTAAATTTATAAAAATAAAT
1 AATATATAAA-TTATAAAAATAAAT
845471 AA
1 AA
845473 AAATATCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
AATATATAAATTATAAAAATAAAT
Found at i:845663 original size:16 final size:15
Alignment explanation
Indices: 845639--845673 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
845629 ATTTTAAATT
*
845639 TTTATTTAAATTGAAA
1 TTTAATTAAATT-AAA
845655 TTTAATTAAATTAAA
1 TTTAATTAAATTAAA
845670 TTTA
1 TTTA
845674 TTATTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
TTTAATTAAATTAAA
Found at i:845783 original size:28 final size:29
Alignment explanation
Indices: 845724--845782 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
845714 ATTAATATTT
845724 ATATATTTTATAATTAAATTTAAAATAAAA
1 ATATATTTTATAATTAAATTT-AAATAAAA
* *
845754 ATAT-TTTTATTATTAAATATTAATTAAAA
1 ATATATTTTATAATTAAAT-TTAAATAAAA
845783 TTAATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
ATATATTTTATAATTAAATTTAAATAAAA
Found at i:845833 original size:18 final size:17
Alignment explanation
Indices: 845810--845858 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
845800 TAATTTAATT
845810 TAAATAAATTAAATTAAA
1 TAAATAAATTAAATT-AA
* *
845828 TAAAT-AATTTAATTTA
1 TAAATAAATTAAATTAA
845844 TAAATAAATTTAAAT
1 TAAATAAA-TTAAAT
845859 ATTATCAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.23
17 10 0.38
18 10 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATAAATTAAATTAA
Found at i:845919 original size:23 final size:23
Alignment explanation
Indices: 845893--845965 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
845883 AACATAATTA
845893 TAAATAATTAATAATAATTATTT
1 TAAATAATTAATAATAATTATTT
* * *
845916 TAAATGATTAAATATTTATT-TTT
1 TAAATAATT-AATAATAATTATTT
*
845939 TAAAATAA-TAA-AAAAATTATTAT
1 T-AAATAATTAATAATAATTATT-T
845962 TAAA
1 TAAA
845966 AAAATATTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
21 4 0.10
22 7 0.18
23 15 0.38
24 13 0.33
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (23 bp):
TAAATAATTAATAATAATTATTT
Found at i:845974 original size:17 final size:16
Alignment explanation
Indices: 845948--845987 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
845938 TTAAAATAAT
845948 AAAAAA-ATTATTATTA
1 AAAAAATATTATT-TTA
845964 AAAAAATATTATTTTA
1 AAAAAATATTATTTTA
845980 AAATAAAT
1 AAA-AAAT
845988 TCACTTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAAATATTATTTTA
Found at i:845982 original size:15 final size:15
Alignment explanation
Indices: 845947--845976 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
845937 TTTAAAATAA
845947 TAAAAAAATTATTAT
1 TAAAAAAATTATTAT
845962 TAAAAAAA-TATTAT
1 TAAAAAAATTATTAT
845976 T
1 T
845977 TTAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAAAAATTATTAT
Found at i:849324 original size:32 final size:32
Alignment explanation
Indices: 849288--849351 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
849278 TTGTATATGG
*
849288 GATAAACATTAAATAAAATTATTCATAAATTT
1 GATAAACATTAAACAAAATTATTCATAAATTT
* * *
849320 GATAAATATTAGACATAATTATTCATAAATTT
1 GATAAACATTAAACAAAATTATTCATAAATTT
849352 AACATTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (32 bp):
GATAAACATTAAACAAAATTATTCATAAATTT
Found at i:849480 original size:14 final size:15
Alignment explanation
Indices: 849463--849492 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
849453 GATATATAAA
849463 ATTTATTTAAT-TTT
1 ATTTATTTAATGTTT
849477 ATTTATTTAATGTTT
1 ATTTATTTAATGTTT
849492 A
1 A
849493 AGAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTATTTAATGTTT
Found at i:850100 original size:48 final size:48
Alignment explanation
Indices: 850044--850142 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 48
850034 TTTAATAGTA
* *
850044 TATTCGGTTTACTAAAACGAAGTAGTTATAATGGAATAGAATAATTTT
1 TATTCGGTTTACTAAAACGAAGTAGTTATAATGAAATAGAATAAATTT
850092 TATTCGGTTTACTAAAACGAAGTAGTTATAATGAAATAGAATAAATTT
1 TATTCGGTTTACTAAAACGAAGTAGTTATAATGAAATAGAATAAATTT
850140 TAT
1 TAT
850143 AATAATTTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.37
Consensus pattern (48 bp):
TATTCGGTTTACTAAAACGAAGTAGTTATAATGAAATAGAATAAATTT
Found at i:850525 original size:56 final size:57
Alignment explanation
Indices: 850451--850557 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 57
850441 TAAATTATAT
* **
850451 ATATTGAAATCCAAATTATAAAATTTAATTTTGAAAATATTAT-AATTATGACGTAA
1 ATATTAAAATCCAAATTATAAAATTTAATTTAAAAAATATTATAAATTATGACGTAA
* * *
850507 ATATTAAAATTCAAATTATAAAATTTACTTTAAAAAATGTTATAAATTATG
1 ATATTAAAATCCAAATTATAAAATTTAATTTAAAAAATATTATAAATTATG
850558 TTGAGATCCG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
56 37 0.84
57 7 0.16
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.40
Consensus pattern (57 bp):
ATATTAAAATCCAAATTATAAAATTTAATTTAAAAAATATTATAAATTATGACGTAA
Found at i:850576 original size:48 final size:48
Alignment explanation
Indices: 850520--850628 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 48
850510 TTAAAATTCA
*
850520 AATTATAAAATTTACTTTAAAAAATGTTATAAATTATGTTGAGATCCG
1 AATTATAAAATTTAATTTAAAAAATGTTATAAATTATGTTGAGATCCG
** ** * * *
850568 AATTATAAAATTTAATTTTGAAAATGTTATAGTTTATTTTGTGATTCG
1 AATTATAAAATTTAATTTAAAAAATGTTATAAATTATGTTGAGATCCG
850616 AATTAT-AAATTTA
1 AATTATAAAATTTA
850629 GTTTTTAAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 7 0.13
48 46 0.87
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (48 bp):
AATTATAAAATTTAATTTAAAAAATGTTATAAATTATGTTGAGATCCG
Found at i:853873 original size:2 final size:2
Alignment explanation
Indices: 853866--853897 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
853856 CCTTGATTAC
853866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
853898 GAAACTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:856755 original size:192 final size:192
Alignment explanation
Indices: 856422--857191 Score: 1324
Period size: 192 Copynumber: 4.0 Consensus size: 192
856412 ACTTATCCGA
*
856422 TATGGATAACAAATAAAGGTGCCTGTCTTGACGTTTCTGATCAGTTTCAGCTAAAGAAACCGCGT
1 TATGGGTAACAAATAAAGGTGCCTGTCTTGACGTTTCTGATCAGTTTCAGCTAAAGAAACCGCGT
*
856487 GTTGAAGTTGAAAACTCATGAGAGAAAACAACACATTCTTTTGCCCATAACAAGCATGCAAGCAA
66 GCTGAAGTTGAAAACTCATGAGAGAAAACAACACATTCTTTTGCCCATAACAAGCATGCAAGCAA
*
856552 GTTTCCAGGAATGAGCATTGAAATTACAACATAATCTTCTTTTACGCGTAAAGAAACTCAAG
131 GTTTCCAGGAATGAGCATTGAAATTACAACACAATCTTCTTTTACGCGTAAAGAAACTCAAG
* *
856614 TATGGGTAACAAATATAGGTGCCTGTCTTGACGTTTCTGATCAGTTTCAGCTAAAGCAACCGCGT
1 TATGGGTAACAAATAAAGGTGCCTGTCTTGACGTTTCTGATCAGTTTCAGCTAAAGAAACCGCGT
* * *
856679 GCTGAAGTTGAAAACTCATGAGAGACAACAACACATTATTTTGCCCATAAAAAGCATGCAAGCAA
66 GCTGAAGTTGAAAACTCATGAGAGAAAACAACACATTCTTTTGCCCATAACAAGCATGCAAGCAA
856744 GTTTCCAGGAATGAGCATTGAAATTACAACACAATCTTCTTTTACGCGTAAAGAAACTCAAG
131 GTTTCCAGGAATGAGCATTGAAATTACAACACAATCTTCTTTTACGCGTAAAGAAACTCAAG
* *
856806 TATGGGTAACAAATATAGGTGCCTGTCTTGACGTTTCTGATCAGTTTCAGCTAAAGCAACCGCGT
1 TATGGGTAACAAATAAAGGTGCCTGTCTTGACGTTTCTGATCAGTTTCAGCTAAAGAAACCGCGT
* **
856871 GCTGAAGTTGAAAACTCATGAGAGACAACAACACATTCTTTTGCCCATAACAAGCATATAAGCAA
66 GCTGAAGTTGAAAACTCATGAGAGAAAACAACACATTCTTTTGCCCATAACAAGCATGCAAGCAA
* * ** *
856936 GTTTCCAGGAATGAGCATTGAAATTACAACACAAGCTTCTTTTATGTATAAACAAACTCAAG
131 GTTTCCAGGAATGAGCATTGAAATTACAACACAATCTTCTTTTACGCGTAAAGAAACTCAAG
*
856998 TATGGGTAACAAATAAAGGTGTCTGTCTTGACGTTTCTGATCAGTTTCAGCTAAAGAAACCGCGT
1 TATGGGTAACAAATAAAGGTGCCTGTCTTGACGTTTCTGATCAGTTTCAGCTAAAGAAACCGCGT
*
857063 GTTGAAGTTGAAAACTCATGAGAGAAAACAACACATTCTTTTGCCCATAACAAGCATGCAAGCAA
66 GCTGAAGTTGAAAACTCATGAGAGAAAACAACACATTCTTTTGCCCATAACAAGCATGCAAGCAA
* * * *
857128 GTTTCCAGGAACGAGCACTGAAATTACAACATAATCTTCTTTTACGTGTAAAGAAACTCAAG
131 GTTTCCAGGAATGAGCATTGAAATTACAACACAATCTTCTTTTACGCGTAAAGAAACTCAAG
857190 TA
1 TA
857192 GAACAATTTC
Statistics
Matches: 547, Mismatches: 31, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
192 547 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (192 bp):
TATGGGTAACAAATAAAGGTGCCTGTCTTGACGTTTCTGATCAGTTTCAGCTAAAGAAACCGCGT
GCTGAAGTTGAAAACTCATGAGAGAAAACAACACATTCTTTTGCCCATAACAAGCATGCAAGCAA
GTTTCCAGGAATGAGCATTGAAATTACAACACAATCTTCTTTTACGCGTAAAGAAACTCAAG
Found at i:859948 original size:2 final size:2
Alignment explanation
Indices: 859941--859983 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
859931 ATTTTTAAGA
859941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
859983 A
1 A
859984 CTTTTGTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:863360 original size:13 final size:11
Alignment explanation
Indices: 863342--863379 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 11
863332 CTAGAATATT
863342 TATATTTAATA
1 TATATTTAATA
863353 TACGTATTTAATA
1 TA--TATTTAATA
863366 TATATTTAA-A
1 TATATTTAATA
863376 TATA
1 TATA
863380 AATATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.20
11 9 0.36
13 11 0.44
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATATTTAATA
Found at i:865191 original size:22 final size:23
Alignment explanation
Indices: 865166--865208 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
865156 TTAAATATAT
*
865166 ATTTT-TATTAAGTATTTTTTAC
1 ATTTTATATAAAGTATTTTTTAC
*
865188 ATTTTATATAAATTATTTTTT
1 ATTTTATATAAAGTATTTTTT
865209 TAATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTTTATATAAAGTATTTTTTAC
Found at i:866060 original size:16 final size:16
Alignment explanation
Indices: 866039--866069 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
866029 TTTGATATTA
866039 AATAAATATTAAATAT
1 AATAAATATTAAATAT
*
866055 AATAAATATTTAATA
1 AATAAATATTAAATA
866070 AAAATATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAAATATTAAATAT
Found at i:866703 original size:2 final size:2
Alignment explanation
Indices: 866696--866727 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
866686 TGGTAGCAAT
866696 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
866728 ATTTAACAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:867673 original size:22 final size:22
Alignment explanation
Indices: 867639--867681 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
867629 AATATGATTG
867639 AATAATAAGAATATAATATAAA
1 AATAATAAGAATATAATATAAA
*
867661 AATAATTAA-AATATGATATAA
1 AATAA-TAAGAATATAATATAA
867682 TACGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (22 bp):
AATAATAAGAATATAATATAAA
Found at i:867769 original size:2 final size:2
Alignment explanation
Indices: 867762--867797 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
867752 AATTATAATT
867762 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
867798 GTATTTGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:872334 original size:2 final size:2
Alignment explanation
Indices: 872327--872365 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
872317 GGCATGGCAT
872327 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 T
872366 ATATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:872370 original size:2 final size:2
Alignment explanation
Indices: 872365--872391 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
872355 TCTCTCTCTC
872365 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 T
872392 TAATGGGTTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:872748 original size:10 final size:10
Alignment explanation
Indices: 872733--872757 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
872723 GCTTCTAGAT
872733 ATATTAAGTG
1 ATATTAAGTG
872743 ATATTAAGTG
1 ATATTAAGTG
872753 ATATT
1 ATATT
872758 TAATAAGTTT
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:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (10 bp):
ATATTAAGTG
Found at i:873610 original size:32 final size:31
Alignment explanation
Indices: 873562--873652 Score: 98
Period size: 32 Copynumber: 2.9 Consensus size: 31
873552 TATATTTAAA
*
873562 ATAT-TTTATATCTATATAAATTTTAATTTAT
1 ATATATTTATAT-TATATAAATTTTAATTCAT
*
873593 -TGATAATTTATATTATATAAATTTTAA-ACAT
1 AT-AT-ATTTATATTATATAAATTTTAATTCAT
*
873624 ATATATTTATATTATATCATATTTTAATT
1 ATATATTTATATTATAT-AAATTTTAATT
873653 ATTTTATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
30 14 0.28
31 14 0.28
32 15 0.30
33 7 0.14
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (31 bp):
ATATATTTATATTATATAAATTTTAATTCAT
Found at i:873618 original size:16 final size:16
Alignment explanation
Indices: 873551--873654 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
873541 TAAATTATAA
*
873551 TTATATT-TAAAATATT
1 TTATATTATATAA-ATT
873567 TTATATCTATATAAATT
1 TTATAT-TATATAAATT
873584 TTA-ATT-TATTGATAA-T
1 TTATATTATA-T-A-AATT
873600 TTATATTATATAAATT
1 TTATATTATATAAATT
** *
873616 TTA-AACATATATA-T
1 TTATATTATATAAATT
*
873630 TTATATTATATCATATT
1 TTATATTATAT-AAATT
873647 TTA-ATTAT
1 TTATATTAT
873655 TTTATATATA
Statistics
Matches: 71, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
14 6 0.08
15 16 0.23
16 26 0.37
17 17 0.24
18 6 0.08
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (16 bp):
TTATATTATATAAATT
Found at i:873661 original size:16 final size:18
Alignment explanation
Indices: 873510--873694 Score: 72
Period size: 17 Copynumber: 11.3 Consensus size: 18
873500 ACATAACAAT
** *
873510 TTATATATTCGTATCATA
1 TTATATATTTATATTATA
*
873528 TTATATATTT-TATTAAA
1 TTATATATTTATATTATA
873545 TTATA-A-TTATATT-TA
1 TTATATATTTATATTATA
**
873560 AAATAT-TTTATATCTATA
1 TTATATATTTATAT-TATA
*
873578 -TAAAT-TTTA-ATT-TA
1 TTATATATTTATATTATA
873592 TTGATA-ATTTATATTATA
1 TT-ATATATTTATATTATA
* *
873610 -TA-A-ATTT-TA-AACA
1 TTATATATTTATATTATA
873623 -TATATATTTATATTATA
1 TTATATATTTATATTATA
*
873640 TCATAT-TTTA-ATTAT-
1 TTATATATTTATATTATA
*
873655 TT-TATATATATA-TATA
1 TTATATATTTATATTATA
*
873671 -TATCATATTTATATAATA
1 TTAT-ATATTTATATTATA
*
873689 TAATAT
1 TTATAT
873695 TGTCAGGTAT
Statistics
Matches: 126, Mismatches: 19, Indels: 44
0.67 0.10 0.23
Matches are distributed among these distances:
13 4 0.03
14 8 0.06
15 25 0.20
16 29 0.23
17 36 0.29
18 22 0.17
19 2 0.02
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (18 bp):
TTATATATTTATATTATA
Found at i:874669 original size:24 final size:24
Alignment explanation
Indices: 874641--874689 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
874631 ATCTAGATGG
874641 ATTAAAATAATTATAAAAATTTAT
1 ATTAAAATAATTATAAAAATTTAT
* *
874665 ATTAAAATAATTGTGAAAATTTAT
1 ATTAAAATAATTATAAAAATTTAT
874689 A
1 A
874690 AGTCACAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
ATTAAAATAATTATAAAAATTTAT
Found at i:875534 original size:15 final size:15
Alignment explanation
Indices: 875492--875553 Score: 56
Period size: 15 Copynumber: 4.0 Consensus size: 15
875482 CAAATTCATT
*
875492 TTAATTTAAATTTAA
1 TTAATTAAAATTTAA
875507 TTTAATTAAAAAATTTAA
1 -TTAATT--AAAATTTAA
875525 -TAATTCAAAA-TTAA
1 TTAATT-AAAATTTAA
*
875539 TTAATTTAAATTTAA
1 TTAATTAAAATTTAA
875554 ATTGACTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 7 0.18
15 13 0.33
16 11 0.28
18 8 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAATTAAAATTTAA
Found at i:875623 original size:16 final size:16
Alignment explanation
Indices: 875579--875624 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
875569 TAATAATTTA
* *
875579 AACTCAAAATTAATCG
1 AACTCAAAATGACTCG
875595 AACTCAAAATGACTCG
1 AACTCAAAATGACTCG
875611 AACTCAAAATGACT
1 AACTCAAAATGACT
875625 TGAATCCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.48, C:0.22, G:0.09, T:0.22
Consensus pattern (16 bp):
AACTCAAAATGACTCG
Found at i:875857 original size:32 final size:32
Alignment explanation
Indices: 875800--875860 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
875790 ATTTAAAAAA
*
875800 ATTTAAAATAAAAATAATCTTAATTCAAAGTG
1 ATTTAAAATAAAAATAATCTGAATTCAAAGTG
*
875832 ATTTAAAATTAAAATAAT-TCGAATTCAAA
1 ATTTAAAATAAAAATAATCT-GAATTCAAA
875861 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (32 bp):
ATTTAAAATAAAAATAATCTGAATTCAAAGTG
Found at i:876497 original size:20 final size:19
Alignment explanation
Indices: 876455--876497 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
876445 TTTATTATTT
*
876455 ATTTTATTATTAAAATATT
1 ATTTTATTATTAAAATATA
876474 ATTTTAATTATT-AAATAATA
1 ATTTT-ATTATTAAAAT-ATA
876494 ATTT
1 ATTT
876498 ATATCGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTATTATTAAAATATA
Found at i:876498 original size:19 final size:20
Alignment explanation
Indices: 876455--876498 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
876445 TTTATTATTT
* *
876455 ATTTTATTATTAAAATATTA
1 ATTTAATTATTAAAATAATA
*
876475 TTTTAATTATT-AAATAATA
1 ATTTAATTATTAAAATAATA
876494 ATTTA
1 ATTTA
876499 TATCGAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTAATTATTAAAATAATA
Found at i:879850 original size:2 final size:2
Alignment explanation
Indices: 879843--879876 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
879833 AATTTAGGGC
879843 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
879877 ATTGCTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:880942 original size:6 final size:6
Alignment explanation
Indices: 880926--880979 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
880916 CAAAGCTTTG
*
880926 CCCTTC TCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTT-
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
880973 CCCTTC C
1 CCCTTC C
880980 GATCTTCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 5 0.11
6 40 0.89
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (6 bp):
CCCTTC
Found at i:883125 original size:21 final size:22
Alignment explanation
Indices: 883089--883153 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
883079 AAAAAATAGT
883089 TTTTA-AATTAATATTT-ATATA
1 TTTTATAATTAA-ATTTAATATA
883110 TTTTATAATTAAATTTAAATATA
1 TTTTATAATTAAATTT-AATATA
*
883133 TTTTATTTATTAAATATTAAT
1 TTTTA-TAATTAAAT-TTAAT
883154 TTCGATAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 9 0.24
22 6 0.16
23 10 0.26
24 11 0.29
25 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTATAATTAAATTTAATATA
Found at i:883152 original size:25 final size:23
Alignment explanation
Indices: 883089--883152 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
883079 AAAAAATAGT
883089 TTTTA-AATTAATATTT--ATATA
1 TTTTATAATTAA-ATTTAAATATA
883110 TTTTATAATTAAATTTAAATATA
1 TTTTATAATTAAATTTAAATATA
*
883133 TTTTATTTATTAAATATTAA
1 TTTTA-TAATTAAAT-TTAA
883153 TTTCGATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 9 0.24
22 6 0.16
23 10 0.27
24 8 0.22
25 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTATAATTAAATTTAAATATA
Found at i:883260 original size:13 final size:14
Alignment explanation
Indices: 883242--883273 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
883232 ATAACTTTAA
883242 AATTA-TATTTTTT
1 AATTATTATTTTTT
883255 AATTATTATTTTTT
1 AATTATTATTTTTT
883269 AATTA
1 AATTA
883274 ATATAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
AATTATTATTTTTT
Found at i:883590 original size:11 final size:11
Alignment explanation
Indices: 883574--883652 Score: 76
Period size: 11 Copynumber: 7.2 Consensus size: 11
883564 CCAATTATAT
*
883574 TAAATATTATA
1 TAAATATAATA
883585 TAAATATAATA
1 TAAATATAATA
*
883596 TAAAAATAAT-
1 TAAATATAATA
883606 TAAAATATAATA
1 T-AAATATAATA
883618 TAAAATATAA-A
1 T-AAATATAATA
883629 -AAATATGAATA
1 TAAATAT-AATA
883640 -AAATATAAATA
1 TAAATAT-AATA
883651 TA
1 TA
883653 TAAATATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
9 6 0.10
10 3 0.05
11 39 0.66
12 11 0.19
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (11 bp):
TAAATATAATA
Found at i:883640 original size:20 final size:21
Alignment explanation
Indices: 883586--883648 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
883576 AATATTATAT
883586 AAATATAATATAAAA-ATAATTA
1 AAATATAATATAAAATATAA--A
883608 AAATATAATATAAAATATAAA
1 AAATATAATATAAAATATAAA
*
883629 AAATATGA-ATAAAATATAAA
1 AAATATAATATAAAATATAAA
883649 TATATAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 12 0.31
21 8 0.21
22 15 0.38
23 4 0.10
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AAATATAATATAAAATATAAA
Found at i:883672 original size:24 final size:24
Alignment explanation
Indices: 883638--883722 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 24
883628 AAAATATGAA
883638 TAAAATATAAAT-ATATAAATATTT
1 TAAAATATAAATAATATAAAT-TTT
* *
883662 TAAAATCTAAATAATATGAATTTT
1 TAAAATATAAATAATATAAATTTT
** * *
883686 TATTATATCAAA-AATTTAAAATTTA
1 TAAAATAT-AAATAATAT-AAATTTT
883711 TATAAATATAAA
1 TA-AAATATAAA
883723 ATATTTTAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
24 23 0.49
25 20 0.43
26 4 0.09
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (24 bp):
TAAAATATAAATAATATAAATTTT
Found at i:885657 original size:18 final size:19
Alignment explanation
Indices: 885634--885673 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
885624 AAAATTAAAG
* *
885634 TTTGTA-AATTTTATTCTT
1 TTTGTATAATTATATTATT
885652 TTTGTATAATTATATTATT
1 TTTGTATAATTATATTATT
885671 TTT
1 TTT
885674 CATGATTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTGTATAATTATATTATT
Found at i:886826 original size:15 final size:17
Alignment explanation
Indices: 886808--886848 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
886798 TTATAGATTT
886808 AAAATTCTTT-TC-AAA
1 AAAATTCTTTATCGAAA
*
886823 AAAATTTTTTATCGAAA
1 AAAATTCTTTATCGAAA
886840 AAAA-TCTTT
1 AAAATTCTTT
886849 CTCTTGTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 9 0.41
16 6 0.27
17 7 0.32
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (17 bp):
AAAATTCTTTATCGAAA
Found at i:889180 original size:18 final size:16
Alignment explanation
Indices: 889148--889188 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
889138 TAAAAATATA
889148 AATTTTTATATAAAAT
1 AATTTTTATATAAAAT
*
889164 TATTTTTAATAATAAAAT
1 AATTTTT-AT-ATAAAAT
889182 AATTTTT
1 AATTTTT
889189 TAAATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 6 0.29
17 2 0.10
18 13 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTTTATATAAAAT
Found at i:889560 original size:15 final size:15
Alignment explanation
Indices: 889540--889568 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
889530 TTGCATAAGC
889540 TAATAATTTAAATAG
1 TAATAATTTAAATAG
889555 TAATAATTTAAATA
1 TAATAATTTAAATA
889569 ATAACTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
TAATAATTTAAATAG
Found at i:889635 original size:13 final size:13
Alignment explanation
Indices: 889617--889647 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
889607 ATTTTGATTT
889617 TTTATTATTGATA
1 TTTATTATTGATA
889630 TTTATTATTGATA
1 TTTATTATTGATA
*
889643 ATTAT
1 TTTAT
889648 CATAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (13 bp):
TTTATTATTGATA
Found at i:892516 original size:173 final size:175
Alignment explanation
Indices: 891959--892697 Score: 1247
Period size: 175 Copynumber: 4.2 Consensus size: 175
891949 TTGCATTTAC
* * * *
891959 CATTTTACTGCATCTTAG-CCAGTTTCGATTCC-TCTCTAATGAAAATGCTCCAATTATGATAAT
1 CATTTTA-TGCATC-TAGTCAAGTTTTGATTCCTTATCTAATG-AAATTCT-CAATTATGATAAT
* *
892022 AATTTTTAATATCATTATAATTT-AAAAAATATTAAGATTAAAATG-AAATTGTAAATTCAAAAC
62 AAATTTTAATATAATTATAATTTAAAAAAATATTAAGATTAAAATGAAAATT-TAAATTCAAAAC
892085 TCATACTTCACAAAATTACCCAAGTCAATATCATATGATTTTTTTAATCA
126 TCATACTTCACAAAATTACCCAAGTCAATATCATATGATTTTTTTAATCA
892135 CATTTTATGCATCTAGTCAAGTTTTGATTCCTTATCTAATGAAATTCTCAATTATGATAATAAAT
1 CATTTTATGCATCTAGTCAAGTTTTGATTCCTTATCTAATGAAATTCTCAATTATGATAATAAAT
892200 TTTAATATAATTATAATTTAAAAAAATATTAAGATTAAAATGAAAATTTAAATTCAAAACTCATA
66 TTTAATATAATTATAATTTAAAAAAATATTAAGATTAAAATGAAAATTTAAATTCAAAACTCATA
892265 CTTCACAAAATTACCCAAGTCAATATCATATGATTTTTTTAATCA
131 CTTCACAAAATTACCCAAGTCAATATCATATGATTTTTTTAATCA
* * *
892310 CATTTTATGCATCTAGTCAAGTTTTGATTCCTTATCTAATGAAATACTCAATTATGGTAATAACT
1 CATTTTATGCATCTAGTCAAGTTTTGATTCCTTATCTAATGAAATTCTCAATTATGATAATAAAT
* *
892375 TTTAATATAATTATAATTT-TAAAAA-ATTAAGATGAAAATGAAAATTTAAATTCAAAACTCATA
66 TTTAATATAATTATAATTTAAAAAAATATTAAGATTAAAATGAAAATTTAAATTCAAAACTCATA
*
892438 CTTCACAAAATTATCCAAGTCAATATCATATGATTTTTTTAATCA
131 CTTCACAAAATTACCCAAGTCAATATCATATGATTTTTTTAATCA
*
892483 CATTTTATGCATCTAGCCAAGTTTTGATTCCTTATCTAATGAAATTCTCAATTATGATAATAAAT
1 CATTTTATGCATCTAGTCAAGTTTTGATTCCTTATCTAATGAAATTCTCAATTATGATAATAAAT
892548 TTTAATATAATTATAATTTAAAAAAATATTAAGATTAAAATGAAAATTTAAATTCAAAACTCATA
66 TTTAATATAATTATAATTTAAAAAAATATTAAGATTAAAATGAAAATTTAAATTCAAAACTCATA
*
892613 TTTCACAAAATTACCCAAGTCAATATCATATGATTTTTTTTAATCA
131 CTTCACAAAATTACCCAAGTCAATATCATATGA-TTTTTTTAATCA
*
892659 CATTTTATGCATCTAGTCAAGTTTTGATTCCTTGTCTAA
1 CATTTTATGCATCTAGTCAAGTTTTGATTCCTTATCTAA
892698 GCAGTTGAGT
Statistics
Matches: 534, Mismatches: 22, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
173 161 0.30
174 47 0.09
175 257 0.48
176 69 0.13
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.40
Consensus pattern (175 bp):
CATTTTATGCATCTAGTCAAGTTTTGATTCCTTATCTAATGAAATTCTCAATTATGATAATAAAT
TTTAATATAATTATAATTTAAAAAAATATTAAGATTAAAATGAAAATTTAAATTCAAAACTCATA
CTTCACAAAATTACCCAAGTCAATATCATATGATTTTTTTAATCA
Found at i:892860 original size:2 final size:2
Alignment explanation
Indices: 892853--892878 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
892843 CAATAAAATA
892853 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
892879 GATTTTCGTG
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:893292 original size:28 final size:31
Alignment explanation
Indices: 893260--893340 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 31
893250 ATTAAAAAAT
*
893260 ATAAATA-TTATATAAAAATATTAT-TATA-
1 ATAAATATTTATATAAAAATATTATAAATAC
* *
893288 TTAAA-ATTTATATAAAATTAATTATAAATAC
1 ATAAATATTTATATAAAAAT-ATTATAAATAC
*
893319 ATAAATATTTATATAAATATAT
1 ATAAATATTTATATAAAAATAT
893341 AAAATTTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.02
28 15 0.36
29 5 0.12
30 3 0.07
31 6 0.14
32 12 0.29
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (31 bp):
ATAAATATTTATATAAAAATATTATAAATAC
Found at i:893301 original size:14 final size:16
Alignment explanation
Indices: 893265--893298 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
893255 AAAATATAAA
893265 TATTATATAAAAATAT
1 TATTATATAAAAATAT
*
893281 TATTATATTAAAAT-T
1 TATTATATAAAAATAT
893296 TAT
1 TAT
893299 ATAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTATATAAAAATAT
Found at i:893333 original size:20 final size:20
Alignment explanation
Indices: 893310--893375 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 20
893300 TAAAATTAAT
893310 TATAAATACATAAATATTTA
1 TATAAATACATAAATATTTA
*
893330 TATAAATATATAAA-ATTT-
1 TATAAATACATAAATATTTA
* * *
893348 TAATACATACACAAATA-TAA
1 T-ATAAATACATAAATATTTA
893368 TATAAATA
1 TATAAATA
893376 TATTCATTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
18 1 0.03
19 21 0.57
20 15 0.41
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (20 bp):
TATAAATACATAAATATTTA
Found at i:893339 original size:38 final size:38
Alignment explanation
Indices: 893296--893378 Score: 105
Period size: 38 Copynumber: 2.1 Consensus size: 38
893286 TATTAAAATT
* *
893296 TATATAAAATTAATT-ATAAATACATAAATATTTATATAAA
1 TATATAAAATT--TTAATAAATACACAAATA-TAATATAAA
*
893336 TATATAAAATTTTAATACATACACAAATATAATATAAA
1 TATATAAAATTTTAATAAATACACAAATATAATATAAA
893374 TATAT
1 TATAT
893379 TCATTATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
38 15 0.38
39 13 0.33
40 11 0.28
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (38 bp):
TATATAAAATTTTAATAAATACACAAATATAATATAAA
Found at i:893860 original size:3 final size:3
Alignment explanation
Indices: 893852--893884 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
893842 ATGTTTACAC
893852 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
893885 AGGTAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:895836 original size:22 final size:22
Alignment explanation
Indices: 895709--895836 Score: 59
Period size: 22 Copynumber: 5.8 Consensus size: 22
895699 TTAAAATATA
*
895709 ATTTTTAT-ATT-AATATTTAT
1 ATTTTTATAATTAAATTTTTAT
* * ** *
895729 ATATTTATAATTTAATTTGAAA
1 ATTTTTATAATTAAATTTTTAT
*
895751 ATTTTTATAATTAAAATATTTATT
1 ATTTTTATAATT-AAATTTTTA-T
** * * *
895775 ATTTACAAAATAAAATATTTAAAAT
1 ATTTTTATAATTAAAT-TTT--TAT
*
895800 ACTTTTAT-ATT--ATTTTTAT
1 ATTTTTATAATTAAATTTTTAT
895819 ATTTTTATAATTAAATTT
1 ATTTTTATAATTAAATTT
895837 AAAATAAAAT
Statistics
Matches: 74, Mismatches: 24, Indels: 18
0.64 0.21 0.16
Matches are distributed among these distances:
19 9 0.12
20 10 0.14
21 6 0.08
22 22 0.30
23 9 0.12
24 12 0.16
25 5 0.07
26 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (22 bp):
ATTTTTATAATTAAATTTTTAT
Done.