Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold223
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: 4172444
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 17292 characters in sequence are not A, C, G, or T
File 5 of 26
Found at i:862751 original size:20 final size:21
Alignment explanation
Indices: 862709--862754 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
862699 ATTAAAAATT
862709 TATA-TAAAATAAATTATTAA
1 TATATTAAAATAAATTATTAA
* *
862729 TATATTAAAATATATTTTTATA
1 TATATTAAAATAAATTATTA-A
862751 TATA
1 TATA
862755 ATATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 13 0.59
22 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATTAAAATAAATTATTAA
Found at i:862757 original size:27 final size:23
Alignment explanation
Indices: 862726--862778 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
862716 AATAAATTAT
*
862726 TAAT-ATATTAAAATATATTTTTA
1 TAATAATATTTAAA-ATATTTTTA
*
862749 TATATAATATTTTAAATATTTTTA
1 TA-ATAATATTTAAAATATTTTTA
862773 TAATAA
1 TAATAA
862779 CAAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 6 0.23
24 13 0.50
25 7 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATAATATTTAAAATATTTTTA
Found at i:862789 original size:23 final size:25
Alignment explanation
Indices: 862763--862822 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 25
862753 TAATATTTTA
*
862763 AATATTT-TTATAATA-ACAAAA-AT
1 AATATTTAATATAATATA-AAAATAT
862786 AATATTTAATATAATATAAAAATAT
1 AATATTTAATATAATATAAAAATAT
862811 AATA--TAATATAA
1 AATATTTAATATAA
862823 ATTTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 15 0.45
24 11 0.33
25 7 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATTTAATATAATATAAAAATAT
Found at i:862811 original size:13 final size:13
Alignment explanation
Indices: 862793--862817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
862783 AATAATATTT
862793 AATATAATATAAA
1 AATATAATATAAA
862806 AATATAATATAA
1 AATATAATATAA
862818 TATAAATTTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATAATATAAA
Found at i:863399 original size:18 final size:17
Alignment explanation
Indices: 863382--863422 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
863372 TAATACATAT
863382 TTATATAAAATTTAATA
1 TTATATAAAATTTAATA
863399 -TAT-TAATAATTT-ATA
1 TTATATAA-AATTTAATA
863414 TTATATAAA
1 TTATATAAA
863423 TTCATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
15 6 0.29
16 12 0.57
17 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATATAAAATTTAATA
Found at i:863753 original size:2 final size:2
Alignment explanation
Indices: 863746--863779 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
863736 TGAAAACTAC
* *
863746 AT AT AT AT AT AT AT AT AT AT GT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
863780 GCATAAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:864040 original size:14 final size:13
Alignment explanation
Indices: 864021--864085 Score: 63
Period size: 10 Copynumber: 5.5 Consensus size: 13
864011 TCAGAGTATT
864021 AAATATAATTATAA
1 AAATATAA-TATAA
864035 AAATATAATAT-A
1 AAATATAATATAA
864047 AAA-ATAAT-T-A
1 AAATATAATATAA
864057 AAATAT-A-AT-A
1 AAATATAATATAA
864067 AAATATAATATAA
1 AAATATAATATAA
*
864080 TAATAT
1 AAATAT
864086 TTAAAATATT
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
10 14 0.31
11 8 0.18
12 6 0.13
13 9 0.20
14 8 0.18
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATATAATATAA
Found at i:864048 original size:25 final size:24
Alignment explanation
Indices: 864020--864151 Score: 89
Period size: 22 Copynumber: 5.6 Consensus size: 24
864010 ATCAGAGTAT
864020 TAAATATAATTATAAAAATATAATA
1 TAAATATAA-TATAAAAATATAATA
*
864045 TAAAAATAAT-T-AAAATATAATA
1 TAAATATAATATAAAAATATAATA
* *
864067 -AAATATAATATAATAATATTTAAAA
1 TAAATATAATATAA-AA-ATATAATA
*
864092 TATTATATAATAT-AAAATATTAATA
1 TA-AATATAATATAAAAATA-TAATA
* * * *
864117 T-ATTAAAATTTATAAA-ATAATA
1 TAAATATAATATAAAAATATAATA
*
864139 -AAATATGATATAA
1 TAAATATAATATAA
864152 GGTTATTGCA
Statistics
Matches: 81, Mismatches: 17, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
21 8 0.10
22 24 0.30
23 9 0.11
24 8 0.10
25 21 0.26
26 2 0.02
27 9 0.11
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (24 bp):
TAAATATAATATAAAAATATAATA
Found at i:864063 original size:17 final size:17
Alignment explanation
Indices: 864041--864144 Score: 74
Period size: 17 Copynumber: 6.3 Consensus size: 17
864031 ATAAAAATAT
864041 AATATAAAAATAATTAA
1 AATATAAAAATAATTAA
* *
864058 AATATAATAA-AA-TAT
1 AATATAAAAATAATTAA
* *
864073 AATATAATAATATTTAA
1 AATATAAAAATAATTAA
* *
864090 AATAT-TATATAATATAA
1 AATATAAAAATAAT-TAA
* *
864107 AATATTAATAT-ATTAA
1 AATATAAAAATAATTAA
*
864123 AATTTATAAAATAA-TAA
1 AATATA-AAAATAATTAA
864140 AATAT
1 AATAT
864145 GATATAAGGT
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
15 12 0.18
16 14 0.21
17 37 0.54
18 5 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATATAAAAATAATTAA
Found at i:864074 original size:32 final size:32
Alignment explanation
Indices: 864018--864135 Score: 139
Period size: 32 Copynumber: 3.6 Consensus size: 32
864008 TAATCAGAGT
*
864018 ATTAAATATAATTATAAAAATATAATATAAAAATA
1 ATTAAA-AT-ATTAT-AAAATATAATATAATAATA
*
864053 ATTAAAATATAATAAAATATAATATAATAATA
1 ATTAAAATATTATAAAATATAATATAATAATA
* * * *
864085 TTTAAAATATTATATAATATAAAATATTAATA
1 ATTAAAATATTATAAAATATAATATAATAATA
864117 TATTAAAAT-TTATAAAATA
1 -ATTAAAATATTATAAAATA
864136 ATAAAATATG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
32 54 0.74
33 11 0.15
34 2 0.03
35 6 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (32 bp):
ATTAAAATATTATAAAATATAATATAATAATA
Found at i:864083 original size:40 final size:38
Alignment explanation
Indices: 864039--864151 Score: 107
Period size: 37 Copynumber: 3.0 Consensus size: 38
864029 TTATAAAAAT
*
864039 ATAATATAAAAATAATTAAAATATAATAAAATATAATATA
1 ATAATATTAAAAT-ATTAAAATATAATAAAATAT-ATATA
864079 ATAATATTTAAAATATT---ATATAATATAAA-ATAT-TA
1 ATAATA-TTAAAATATTAAAATATAATA-AAATATATATA
864114 AT-ATATTAAAAT-TTATAAA-ATAATAAAATATGATATA
1 ATAATATTAAAATATTA-AAATATAATAAAATAT-ATATA
864151 A
1 A
864152 GGTTATTGCA
Statistics
Matches: 63, Mismatches: 1, Indels: 21
0.74 0.01 0.25
Matches are distributed among these distances:
32 2 0.03
33 7 0.11
34 6 0.10
35 12 0.19
36 5 0.08
37 13 0.21
38 3 0.05
40 9 0.14
41 6 0.10
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (38 bp):
ATAATATTAAAATATTAAAATATAATAAAATATATATA
Found at i:864150 original size:32 final size:32
Alignment explanation
Indices: 864017--864150 Score: 130
Period size: 32 Copynumber: 4.1 Consensus size: 32
864007 TTAATCAGAG
* *
864017 TATTAAATATAATTATAAAA-ATATAATATAAAAA
1 TATTAAA-AT-ATTATAAAATATAAAATAT-AATA
* *
864051 TAATTAAAATATAATAAAATATAATATAATAATA
1 T-ATTAAAATATTATAAAATATAAAAT-ATAATA
*
864085 T-TTAAAATATTATATAATATAAAATATTAATA
1 TATTAAAATATTATAAAATATAAAATA-TAATA
*
864117 TATTAAAAT-TTATAAAATAATAAAATATGATA
1 TATTAAAATATTATAAAAT-ATAAAATATAATA
864149 TA
1 TA
864151 AGGTTATTGC
Statistics
Matches: 85, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
31 1 0.01
32 41 0.48
33 23 0.27
34 12 0.14
35 8 0.09
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (32 bp):
TATTAAAATATTATAAAATATAAAATATAATA
Found at i:864392 original size:23 final size:22
Alignment explanation
Indices: 864348--864392 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
864338 AATATAATAT
* **
864348 AATTTTATATAAATATTTTAAA
1 AATTTTATATAAACATAATAAA
864370 AATTTTAATATAAACATAATAAA
1 AATTTT-ATATAAACATAATAAA
864393 TAATAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTTATATAAACATAATAAA
Found at i:865513 original size:2 final size:2
Alignment explanation
Indices: 865506--865567 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
865496 CAATAATAGC
865506 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
865548 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
865568 TGGTCGTAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:869635 original size:17 final size:17
Alignment explanation
Indices: 869613--869645 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
869603 TTTATTTAAA
869613 ATATTT-ATATGATATTT
1 ATATTTAATAT-ATATTT
869630 ATATTTAATATATATT
1 ATATTTAATATATATT
869646 AAATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
ATATTTAATATATATTT
Found at i:872691 original size:2 final size:2
Alignment explanation
Indices: 872684--872723 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
872674 TACTAAAATC
872684 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
872724 CCTGTAATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:876826 original size:24 final size:27
Alignment explanation
Indices: 876799--876852 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 27
876789 TGTTTATTAT
876799 AAATTAA-ATTTTAAATTT-T-TTTAA
1 AAATTAATATTTTAAATTTATATTTAA
*
876823 AAA-TAATATTTTACATTTATATTTAA
1 AAATTAATATTTTAAATTTATATTTAA
876849 AAAT
1 AAAT
876853 ATCAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 13 0.52
25 1 0.04
26 8 0.32
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
AAATTAATATTTTAAATTTATATTTAA
Found at i:876881 original size:13 final size:13
Alignment explanation
Indices: 876849--876881 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
876839 TTATATTTAA
*
876849 AAATATCAAATAT
1 AAATATTAAATAT
876862 AAATATTAAATAT
1 AAATATTAAATAT
876875 AAATATT
1 AAATATT
876882 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATATTAAATAT
Found at i:876937 original size:2 final size:2
Alignment explanation
Indices: 876930--876957 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
876920 ACTTGCATAC
876930 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
876958 GTATGTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:877323 original size:27 final size:28
Alignment explanation
Indices: 877293--877350 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
877283 ACAAAAATTT
*
877293 AAAAAC-TATTAATTCTTTTA-AAAATAC
1 AAAAACTTA-TAATTATTTTATAAAATAC
* *
877320 AAAACCTTATAATTATTTTATTAAATAC
1 AAAAACTTATAATTATTTTATAAAATAC
877348 AAA
1 AAA
877351 TTAAAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAAACTTATAATTATTTTATAAAATAC
Found at i:879769 original size:207 final size:207
Alignment explanation
Indices: 879414--879828 Score: 830
Period size: 207 Copynumber: 2.0 Consensus size: 207
879404 AACCTTCTGA
879414 TGGCACACCATCAATGTTCCTTTCGACAGGGTCAATAAGATTAAAGTTTTTAGGGTCTTTCTTTG
1 TGGCACACCATCAATGTTCCTTTCGACAGGGTCAATAAGATTAAAGTTTTTAGGGTCTTTCTTTG
879479 GATCAAAATTCCCAAAACCTTGGCCAACAACAAAGAAATTGAAGCCATGCAAATGAAGAGGGTGG
66 GATCAAAATTCCCAAAACCTTGGCCAACAACAAAGAAATTGAAGCCATGCAAATGAAGAGGGTGG
879544 CTTTCAGCTTCAAGTTTGCTTGTGTCTTGCATGTTTAGCTCAACGCTAGTGTTAAAATGAAGCAC
131 CTTTCAGCTTCAAGTTTGCTTGTGTCTTGCATGTTTAGCTCAACGCTAGTGTTAAAATGAAGCAC
879609 TACCAGTTTTGT
196 TACCAGTTTTGT
879621 TGGCACACCATCAATGTTCCTTTCGACAGGGTCAATAAGATTAAAGTTTTTAGGGTCTTTCTTTG
1 TGGCACACCATCAATGTTCCTTTCGACAGGGTCAATAAGATTAAAGTTTTTAGGGTCTTTCTTTG
879686 GATCAAAATTCCCAAAACCTTGGCCAACAACAAAGAAATTGAAGCCATGCAAATGAAGAGGGTGG
66 GATCAAAATTCCCAAAACCTTGGCCAACAACAAAGAAATTGAAGCCATGCAAATGAAGAGGGTGG
879751 CTTTCAGCTTCAAGTTTGCTTGTGTCTTGCATGTTTAGCTCAACGCTAGTGTTAAAATGAAGCAC
131 CTTTCAGCTTCAAGTTTGCTTGTGTCTTGCATGTTTAGCTCAACGCTAGTGTTAAAATGAAGCAC
879816 TACCAGTTTTGT
196 TACCAGTTTTGT
879828 T
1 T
879829 CCATTGCTCA
Statistics
Matches: 208, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 208 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (207 bp):
TGGCACACCATCAATGTTCCTTTCGACAGGGTCAATAAGATTAAAGTTTTTAGGGTCTTTCTTTG
GATCAAAATTCCCAAAACCTTGGCCAACAACAAAGAAATTGAAGCCATGCAAATGAAGAGGGTGG
CTTTCAGCTTCAAGTTTGCTTGTGTCTTGCATGTTTAGCTCAACGCTAGTGTTAAAATGAAGCAC
TACCAGTTTTGT
Found at i:880467 original size:2 final size:2
Alignment explanation
Indices: 880460--880509 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
880450 TGTAGAAAGG
880460 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
880502 TA TA TA TA
1 TA TA TA TA
880510 GGAAAATGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:885534 original size:2 final size:2
Alignment explanation
Indices: 885527--885552 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
885517 TTTCAAACCA
885527 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
885553 TCCCTATTTT
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:885665 original size:38 final size:38
Alignment explanation
Indices: 885595--885667 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
885585 TTTTTTTATA
* * * * *
885595 TTTGAGGTTGTCAAGAATTGGACCGTAATTATTGAATT
1 TTTGAAGTTATCAAGAAATGGAACGCAATTATTGAATT
*
885633 TTTGAAGTTATCAAGAAATGGAACGCAGTTATTGA
1 TTTGAAGTTATCAAGAAATGGAACGCAATTATTGA
885668 GTTTCGACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (38 bp):
TTTGAAGTTATCAAGAAATGGAACGCAATTATTGAATT
Found at i:887840 original size:18 final size:19
Alignment explanation
Indices: 887802--887849 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
887792 TATTTTTATT
887802 TAAAT-TTAATTAAAAATA
1 TAAATATTAATTAAAAATA
887820 TAAATATTAA-TATAAAA-A
1 TAAATATTAATTA-AAAATA
887838 TAAATATTAATT
1 TAAATATTAATT
887850 TTTTTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATATTAATTAAAAATA
Found at i:888408 original size:7 final size:7
Alignment explanation
Indices: 888389--888428 Score: 53
Period size: 7 Copynumber: 5.3 Consensus size: 7
888379 CTAAATATTA
888389 TAAATAT
1 TAAATAT
888396 TAAAATAT
1 T-AAATAT
888404 TAAATAT
1 TAAATAT
888411 TAAATTTAT
1 TAAA--TAT
888420 TAAATAT
1 TAAATAT
888427 TA
1 TA
888429 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 16 0.53
8 7 0.23
9 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TAAATAT
Found at i:888422 original size:16 final size:16
Alignment explanation
Indices: 888380--888428 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
888370 AAAAATAACC
888380 TAAATATTA-TAAATAT
1 TAAAT-TTATTAAATAT
*
888396 TAAA-ATATTAAATAT
1 TAAATTTATTAAATAT
888411 TAAATTTATTAAATAT
1 TAAATTTATTAAATAT
888427 TA
1 TA
888429 TTTTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 2 0.07
15 11 0.38
16 16 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAATTTATTAAATAT
Found at i:889461 original size:2 final size:2
Alignment explanation
Indices: 889444--889499 Score: 69
Period size: 2 Copynumber: 28.0 Consensus size: 2
889434 CATTATACTG
*
889444 TA TA TA CTA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
889486 TA TG TA TG TA TA TA
1 TA TA TA TA TA TA TA
889500 GTTCTAACAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
1 1 0.02
2 43 0.93
3 2 0.04
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (2 bp):
TA
Found at i:890657 original size:15 final size:15
Alignment explanation
Indices: 890633--890662 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
890623 GATGCTGGGC
*
890633 ATCTATCACCTGCAT
1 ATCTACCACCTGCAT
890648 ATCTACCACCTGCAT
1 ATCTACCACCTGCAT
890663 GTAAGATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.37, G:0.07, T:0.30
Consensus pattern (15 bp):
ATCTACCACCTGCAT
Found at i:891205 original size:26 final size:26
Alignment explanation
Indices: 891148--891201 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
891138 AAAACTTTTT
* **
891148 AATATTTATTTTGAAAAAAATAGAGC
1 AATATTTATTTTGAAAAAAATAAAAA
*
891174 AATATTTATTTTG-ATAAAATAAAAA
1 AATATTTATTTTGAAAAAAATAAAAA
891199 AAT
1 AAT
891202 TATTACTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (26 bp):
AATATTTATTTTGAAAAAAATAAAAA
Found at i:891375 original size:18 final size:19
Alignment explanation
Indices: 891354--891393 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
891344 TGAAAGACTA
891354 TATT-AATATTTATTATAT
1 TATTAAATATTTATTATAT
*
891372 TATTAAAATATTTTTTATAT
1 TATT-AAATATTTATTATAT
891392 TA
1 TA
891394 ATATTGACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
20 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTAAATATTTATTATAT
Found at i:891396 original size:15 final size:17
Alignment explanation
Indices: 891352--891398 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 17
891342 TTTGAAAGAC
891352 TATATTAATATTTATTA
1 TATATTAATATTTATTA
891369 TATTATTAAAATATTT-TT-
1 TA-TATT--AATATTTATTA
891387 TATATTAATATT
1 TATATTAATATT
891399 GACATAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
15 6 0.22
17 6 0.22
18 6 0.22
19 2 0.07
20 7 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATATTAATATTTATTA
Found at i:891788 original size:2 final size:2
Alignment explanation
Indices: 891781--891806 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
891771 GATAGCATAC
891781 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
891807 ATTAATAGGC
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):
TA
Found at i:892463 original size:21 final size:20
Alignment explanation
Indices: 892429--892468 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
892419 TTATATAATT
892429 ATTTAAAAAATAATATTTAAA
1 ATTTAAAAAATAAT-TTTAAA
**
892450 ATTTAAAATTTAATTTTAA
1 ATTTAAAAAATAATTTTAA
892469 CTTCCTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTAAAAAATAATTTTAAA
Found at i:893705 original size:2 final size:2
Alignment explanation
Indices: 893698--893722 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
893688 GAATTTAAGC
893698 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
893723 TTGCTCTTAT
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:896235 original size:22 final size:20
Alignment explanation
Indices: 896210--896252 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
896200 ATCTTGATCA
896210 AAATTTAATTTAATTTTTAAAT
1 AAATTTAATTT--TTTTTAAAT
*
896232 AAATTTTATTTTTTTTAAAT
1 AAATTTAATTTTTTTTAAAT
896252 A
1 A
896253 TAGTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
22 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATTTAATTTTTTTTAAAT
Found at i:900422 original size:29 final size:29
Alignment explanation
Indices: 900376--900461 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 29
900366 TTGAAAAAAA
* *
900376 TTATTTATAAATTTATTTAATTTAATTTTT
1 TTATTT-TAAAATAATTTAATTTAATTTTT
* * * *
900406 TTATTTTAAACTAATTTAGTTCAATATTT
1 TTATTTTAAAATAATTTAATTTAATTTTT
** * *
900435 TTAAATTAAAATAATATATTTTAATTT
1 TTATTTTAAAATAATTTAATTTAATTT
900462 AAATTGAATT
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 38 0.86
30 6 0.14
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (29 bp):
TTATTTTAAAATAATTTAATTTAATTTTT
Found at i:901023 original size:26 final size:25
Alignment explanation
Indices: 900981--901038 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
900971 AAAATTGTGT
* *
900981 TATAT-TTTAATTTTTTATTTTTTAAA
1 TATATATTTAATTATTTA-TGTTT-AA
901007 TATATATTTAA-TATTTATGTTTAA
1 TATATATTTAATTATTTATGTTTAA
901031 TATATATT
1 TATATATT
901039 CAAATATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 10 0.34
25 4 0.14
26 10 0.34
27 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TATATATTTAATTATTTATGTTTAA
Found at i:901105 original size:23 final size:25
Alignment explanation
Indices: 901072--901121 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
901062 ATATTTAAAA
901072 TAAATAAATTT-T-TAAAAAATATT
1 TAAATAAATTTATATAAAAAATATT
* *
901095 TAAATATATTTATATAAAATATATT
1 TAAATAAATTTATATAAAAAATATT
901120 TA
1 TA
901122 TATTCGACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
24 1 0.04
25 12 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TAAATAAATTTATATAAAAAATATT
Found at i:901116 original size:15 final size:15
Alignment explanation
Indices: 901096--901124 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
901086 AAAAATATTT
901096 AAATATATTTATATA
1 AAATATATTTATATA
901111 AAATATATTTATAT
1 AAATATATTTATAT
901125 TCGACGTTGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATATATTTATATA
Found at i:901364 original size:21 final size:21
Alignment explanation
Indices: 901338--901377 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
901328 AAGCGACACT
901338 GCATGC-ATGCATATAATAACA
1 GCATGCAATGCA-ATAATAACA
901359 GCATGCAATGCAATAATAA
1 GCATGCAATGCAATAATAA
901378 TTATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (21 bp):
GCATGCAATGCAATAATAACA
Found at i:902995 original size:12 final size:13
Alignment explanation
Indices: 902978--903006 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
902968 TTATTTATTG
902978 AAAT-AAAAAATA
1 AAATAAAAAAATA
902990 AAATAAAAAAATA
1 AAATAAAAAAATA
903003 AAAT
1 AAAT
903007 TTCAAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATAAAAAAATA
Found at i:903367 original size:4 final size:4
Alignment explanation
Indices: 903358--903382 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
903348 TCACCAAACC
903358 CTTT CTTT CTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT C
903383 CACGACCTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:911240 original size:2 final size:2
Alignment explanation
Indices: 911228--911262 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
911218 TAGTAAGAGC
*
911228 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
911263 AAACAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:911529 original size:12 final size:12
Alignment explanation
Indices: 911512--911536 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
911502 GTTAGCTAAG
911512 TGACACAAAATT
1 TGACACAAAATT
911524 TGACACAAAATT
1 TGACACAAAATT
911536 T
1 T
911537 ATAAATTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TGACACAAAATT
Found at i:915133 original size:17 final size:17
Alignment explanation
Indices: 915106--915139 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
915096 AAAAAAGAAA
915106 AAAACTGACCTGCAACGT
1 AAAACTGACCTG-AACGT
915124 AAAA-TGACCTGAACGT
1 AAAACTGACCTGAACGT
915140 TAACGCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (17 bp):
AAAACTGACCTGAACGT
Found at i:915808 original size:2 final size:2
Alignment explanation
Indices: 915801--915840 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
915791 CGACGATTTT
915801 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
915841 TTCAAAGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:915908 original size:2 final size:2
Alignment explanation
Indices: 915896--915939 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
915886 AAAATAAGCA
*
915896 AG AG AG CG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
915938 AG
1 AG
915940 CCACAAGCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.02, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:916840 original size:31 final size:32
Alignment explanation
Indices: 916803--916865 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
916793 TTCTCTTTCC
* *
916803 TTGGATAATTA-GATAAACTAATTTGTTTTTT
1 TTGGATAAATAGGATAAACTAATTTGGTTTTT
*
916834 TTGGATAAATAGGGTTAAACTAATTTGGTTTT
1 TTGGATAAATA-GGATAAACTAATTTGGTTTT
916866 ATTTCCAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 10 0.37
33 17 0.63
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.48
Consensus pattern (32 bp):
TTGGATAAATAGGATAAACTAATTTGGTTTTT
Found at i:917555 original size:13 final size:13
Alignment explanation
Indices: 917537--917564 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
917527 TACCGGGCAT
917537 ATTGTATCGATAC
1 ATTGTATCGATAC
917550 ATTGTATCGATAC
1 ATTGTATCGATAC
917563 AT
1 AT
917565 GATGAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:921233 original size:32 final size:32
Alignment explanation
Indices: 921192--921260 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
921182 AGCTTTGTAG
921192 CGATACATTGTATCAATACAACACTTATCTAT
1 CGATACATTGTATCAATACAACACTTATCTAT
* *
921224 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCAATACAACACTTATCTAT
921256 CGATA
1 CGATA
921261 TATTTACTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCAATACAACACTTATCTAT
Found at i:921256 original size:19 final size:19
Alignment explanation
Indices: 921200--921260 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
921190 AGCGATACAT
*
921200 TGTATCAATACAACACTTA
1 TGTATCGATACAACACTTA
*
921219 TCTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
921232 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
921251 TGTATCGATA
1 TGTATCGATA
921261 TATTTACTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
13 8 0.24
14 1 0.03
16 6 0.18
18 1 0.03
19 17 0.52
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:925114 original size:8 final size:8
Alignment explanation
Indices: 925092--925125 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
925082 CAAAAATGCC
925092 AAAAAAA-
1 AAAAAAAG
925099 AAAAAAAG
1 AAAAAAAG
925107 AAAAAAAG
1 AAAAAAAG
*
925115 AAAGAAAG
1 AAAAAAAG
925123 AAA
1 AAA
925126 GGGAGGGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:935669 original size:16 final size:16
Alignment explanation
Indices: 935650--935691 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
935640 TTTAATCTAT
935650 ATAAATTAAATA-ATTA
1 ATAAA-TAAATAGATTA
*
935666 ATAAATAATTAGATTA
1 ATAAATAAATAGATTA
935682 ATAAATAAAT
1 ATAAATAAAT
935692 TTATTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
ATAAATAAATAGATTA
Found at i:935673 original size:20 final size:20
Alignment explanation
Indices: 935653--935691 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
935643 AATCTATATA
*
935653 AATTA-AATAATTAATAAAT
1 AATTAGAATAATAAATAAAT
*
935672 AATTAGATTAATAAATAAAT
1 AATTAGAATAATAAATAAAT
935692 TTATTTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (20 bp):
AATTAGAATAATAAATAAAT
Found at i:937243 original size:25 final size:25
Alignment explanation
Indices: 937209--937258 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
937199 TTATTAAAAA
*
937209 TAAATCAATTAATTTTAATTATTTTT
1 TAAATCAATTAA-TTAAATTATTTTT
937235 TAAAT-AATTAATTAAATTATTTTT
1 TAAATCAATTAATTAAATTATTTTT
937259 AATCTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.52
25 6 0.26
26 5 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TAAATCAATTAATTAAATTATTTTT
Found at i:938279 original size:13 final size:14
Alignment explanation
Indices: 938252--938281 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
938242 GTATATTATT
938252 TTTTAATTATTTTA
1 TTTTAATTATTTTA
938266 TTTTAATT-TTTTA
1 TTTTAATTATTTTA
938279 TTT
1 TTT
938282 ATCATAAAAT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTAATTATTTTA
Found at i:938476 original size:2 final size:2
Alignment explanation
Indices: 938469--938500 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
938459 ACCATCAGTA
938469 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
938501 ATACATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:938807 original size:11 final size:11
Alignment explanation
Indices: 938791--938815 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
938781 ACTAAATTAA
938791 TATATTTGTAT
1 TATATTTGTAT
938802 TATATTTGTAT
1 TATATTTGTAT
938813 TAT
1 TAT
938816 TTTAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATATTTGTAT
Found at i:938912 original size:24 final size:24
Alignment explanation
Indices: 938885--938938 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
938875 TATATTCGTG
938885 TCATA-TTTATATTATTATTGTATA
1 TCATATTTTA-ATTATTATTGTATA
* *
938909 TCATATTTTAATTATTTTTTTATA
1 TCATATTTTAATTATTATTGTATA
*
938933 TTATAT
1 TCATAT
938939 CCGAAGTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (24 bp):
TCATATTTTAATTATTATTGTATA
Found at i:939506 original size:3 final size:3
Alignment explanation
Indices: 939498--939526 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
939488 ATCTTTCTTT
939498 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
939527 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:939701 original size:20 final size:20
Alignment explanation
Indices: 939673--939715 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
939663 TTAATAATTT
939673 TATTAAAAAATATTAATCAA
1 TATTAAAAAATATTAATCAA
* *
939693 TATTTAAAAATATTAATTAA
1 TATTAAAAAATATTAATCAA
939713 TAT
1 TAT
939716 GATATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TATTAAAAAATATTAATCAA
Found at i:939723 original size:24 final size:21
Alignment explanation
Indices: 939662--939726 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 21
939652 AAATCTAATG
* *
939662 ATTAATAATTTTATTAAAAAAT
1 ATTAATAAATATATT-AAAAAT
*
939684 ATTAATCAATAT-TTAAAAAT
1 ATTAATAAATATATTAAAAAT
939704 ATTAATTAATATGATATTAAAAA
1 ATTAA-TAA-AT-ATATTAAAAA
939727 ATACAATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 11 0.31
21 4 0.11
22 11 0.31
23 2 0.06
24 7 0.20
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTAATAAATATATTAAAAAT
Found at i:939736 original size:23 final size:25
Alignment explanation
Indices: 939692--939737 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
939682 ATATTAATCA
* *
939692 ATATTTAAAAATATTAATTAATATG
1 ATATTAAAAAATATCAATTAATATG
939717 ATATTAAAAAATA-CAA-TAATA
1 ATATTAAAAAATATCAATTAATA
939738 CTTTAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 2 0.11
25 12 0.63
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
ATATTAAAAAATATCAATTAATATG
Found at i:940086 original size:12 final size:13
Alignment explanation
Indices: 940063--940096 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
940053 CACGTTAGCA
940063 AAATTATAAATTT
1 AAATTATAAATTT
940076 AAATT-TAAATTT
1 AAATTATAAATTT
*
940088 ATATTATAA
1 AAATTATAA
940097 TCATATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATTATAAATTT
Found at i:940801 original size:2 final size:2
Alignment explanation
Indices: 940796--940831 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
940786 AAGGAAAATA
940796 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
940832 TTCCATTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:943349 original size:3 final size:3
Alignment explanation
Indices: 943341--943384 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
943331 AAAAGTATTT
943341 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
943385 CTATCACTCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:949823 original size:14 final size:15
Alignment explanation
Indices: 949795--949823 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
949785 TATATTTAAA
949795 TATTTTTTTATATTT
1 TATTTTTTTATATTT
949810 TATTTTTTTA-ATTT
1 TATTTTTTTATATTT
949824 AAAATTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TATTTTTTTATATTT
Found at i:953850 original size:37 final size:37
Alignment explanation
Indices: 953800--953873 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
953790 CAGCACCCTG
*
953800 CAACATTAAGCATGCACAATTAGAGTTAACAAATGGA
1 CAACATTAAGCATGAACAATTAGAGTTAACAAATGGA
953837 CAACATTAAGCATGAACAATTAGAGTTAACAAATGGA
1 CAACATTAAGCATGAACAATTAGAGTTAACAAATGGA
953874 AGGATGCACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.22
Consensus pattern (37 bp):
CAACATTAAGCATGAACAATTAGAGTTAACAAATGGA
Found at i:954192 original size:2 final size:2
Alignment explanation
Indices: 954185--954221 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
954175 TAATAAAACA
954185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
954222 AAGAAGCTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:957325 original size:17 final size:17
Alignment explanation
Indices: 957282--957315 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
957272 ATTAAATTTA
957282 AAATTATAATCTCCCAT
1 AAATTATAATCTCCCAT
957299 AAATTATAATCTCCCAT
1 AAATTATAATCTCCCAT
957316 TCAATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTATAATCTCCCAT
Found at i:957342 original size:13 final size:13
Alignment explanation
Indices: 957324--957350 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
957314 ATTCAATTTA
957324 ATTAACTATTTTT
1 ATTAACTATTTTT
957337 ATTAACTATTTTT
1 ATTAACTATTTTT
957350 A
1 A
957351 ACTATTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTAACTATTTTT
Found at i:958071 original size:19 final size:19
Alignment explanation
Indices: 958039--958093 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
958029 AAATAATATT
*
958039 ATTTTATTTAAATATATTTAA
1 ATTTAATTT-AATATATTT-A
958060 ATTTAA-TTAATATCATTTA
1 ATTTAATTTAATAT-ATTTA
958079 ATTTAATTTAATATA
1 ATTTAATTTAATATA
958094 AATAAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 13 0.42
20 13 0.42
21 5 0.16
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTAATTTAATATATTTA
Found at i:958281 original size:17 final size:16
Alignment explanation
Indices: 958250--958283 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
958240 AATATAAATT
958250 TTAAATTTTAAATTTA
1 TTAAATTTTAAATTTA
*
958266 TTAAATATTTATATTTA
1 TTAAAT-TTTAAATTTA
958283 T
1 T
958284 ATCTCATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAAATTTTAAATTTA
Found at i:958329 original size:17 final size:19
Alignment explanation
Indices: 958292--958329 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
958282 ATATCTCATG
*
958292 TATATTTAAATAAATATTT
1 TATATGTAAATAAATATTT
958311 TATATGTAAA-AAA-ATTT
1 TATATGTAAATAAATATTT
958328 TA
1 TA
958330 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TATATGTAAATAAATATTT
Found at i:959126 original size:38 final size:36
Alignment explanation
Indices: 959084--959170 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 36
959074 TTTTTTTATA
* *
959084 TTATAATAATATTTAAAATATTTTATGTTTATATAAAT
1 TTATAATAATATTT-AAATAATTTAT-ATTATATAAAT
959122 TTAT-AT-ATA-TT-AATAATTTATATTATATAAAT
1 TTATAATAATATTTAAATAATTTATATTATATAAAT
*
959154 TTAAAAATAATTATTTA
1 TT-ATAATAA-TATTTA
959171 TTTACGTGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
32 12 0.30
33 10 0.25
34 2 0.05
35 3 0.08
36 5 0.12
37 4 0.10
38 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (36 bp):
TTATAATAATATTTAAATAATTTATATTATATAAAT
Found at i:959154 original size:15 final size:15
Alignment explanation
Indices: 959112--959156 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
959102 TATTTTATGT
959112 TTATATAAATTTATA
1 TTATATAAATTTATA
959127 -TATATTAATAATTTATA
1 TTATA-T-A-AATTTATA
959144 TTATATAAATTTA
1 TTATATAAATTTA
959157 AAAATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.15
15 7 0.27
16 2 0.08
17 9 0.35
18 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATATAAATTTATA
Found at i:960008 original size:30 final size:30
Alignment explanation
Indices: 959972--960083 Score: 215
Period size: 30 Copynumber: 3.7 Consensus size: 30
959962 ATTGACTTAG
959972 TAAACTCTTCCAAAGTCAATCCTTAACGTA
1 TAAACTCTTCCAAAGTCAATCCTTAACGTA
960002 TAAACTCTTCCAAAGTCAATCCTTAACGTA
1 TAAACTCTTCCAAAGTCAATCCTTAACGTA
*
960032 TAAAGTCTTCCAAAGTCAATCCTTAACGTA
1 TAAACTCTTCCAAAGTCAATCCTTAACGTA
960062 TAAACTCTTCCAAAGTCAATCC
1 TAAACTCTTCCAAAGTCAATCC
960084 CAAACATCAA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 80 1.00
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.29
Consensus pattern (30 bp):
TAAACTCTTCCAAAGTCAATCCTTAACGTA
Found at i:960699 original size:27 final size:24
Alignment explanation
Indices: 960635--960699 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
960625 TTAATTTTTT
*
960635 ATATATTTAAAATATTTTAAAAAA
1 ATATATTTAATATATTTTAAAAAA
* *
960659 ATTATATTT-TTATATTTATATTCAAAA
1 A-TATATTTAATATATTT-TA--AAAAA
960686 ATATATTTAATATA
1 ATATATTTAATATA
960700 GTATTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
24 7 0.22
25 9 0.28
26 7 0.22
27 9 0.28
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
ATATATTTAATATATTTTAAAAAA
Found at i:962565 original size:20 final size:21
Alignment explanation
Indices: 962524--962565 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
962514 ATATTTATTC
*
962524 AAAAATTTTCTAAATATATAA
1 AAAAATTTTCTAAAGATATAA
962545 AAAAATTTT-TAAAAGAT-TAA
1 AAAAATTTTCT-AAAGATATAA
962565 A
1 A
962566 CATATTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAATTTTCTAAAGATATAA
Found at i:969864 original size:20 final size:21
Alignment explanation
Indices: 969835--969887 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
969825 AATATTTAAA
*
969835 ATATTTTATATTTATATAAATT
1 ATATTATATATTTA-ATAAATT
*
969857 -T-TTATATA-TTAATAATTT
1 ATATTATATATTTAATAAATT
969875 ATATTATATATTT
1 ATATTATATATTT
969888 TTTAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 6 0.23
19 4 0.15
20 13 0.50
21 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATTATATATTTAATAAATT
Found at i:969871 original size:18 final size:19
Alignment explanation
Indices: 969833--969886 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
969823 ATAATATTTA
969833 AAATATTTTATAT-TTATAT
1 AAAT-TTTTATATATTATAT
969852 AAATTTTTATATATTA-AT
1 AAATTTTTATATATTATAT
*
969870 AATTTATATTATATATT
1 AAATT-T-TTATATATT
969887 TTTTAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 14 0.45
19 8 0.26
20 9 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AAATTTTTATATATTATAT
Found at i:970210 original size:18 final size:16
Alignment explanation
Indices: 970187--970221 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
970177 AATATTTAAA
970187 ATATTTATATAATATTTT
1 ATATTT-TATAA-ATTTT
970205 ATATTTTATAAATTTT
1 ATATTTTATAAATTTT
970221 A
1 A
970222 ATATGATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTTTATAAATTTT
Found at i:970225 original size:17 final size:19
Alignment explanation
Indices: 970175--970225 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 19
970165 TAATGTAATA
*
970175 ATAATATTTAAAATATTTAT
1 ATAATATTT-TAATATTTAT
970195 ATAATATTTT-ATATTT-T
1 ATAATATTTTAATATTTAT
970212 ATAA-ATTTTAATAT
1 ATAATATTTTAATAT
970226 GATGATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.17
17 9 0.31
18 6 0.21
20 9 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATAATATTTTAATATTTAT
Found at i:979586 original size:2 final size:2
Alignment explanation
Indices: 979579--979615 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
979569 AAGTTACTTT
979579 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
979616 ACATATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:982937 original size:2 final size:2
Alignment explanation
Indices: 982928--982967 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
982918 AAAAACTCTT
982928 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
982968 GTATGTATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:991679 original size:2 final size:2
Alignment explanation
Indices: 991672--991701 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
991662 ACCAAACATA
991672 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
991702 CACTACGGGA
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:997650 original size:10 final size:10
Alignment explanation
Indices: 997618--997650 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
997608 AACGTTAAAT
997618 TAATTTTATA
1 TAATTTTATA
997628 T-ATTTTA-A
1 TAATTTTATA
997636 TAATTTTATA
1 TAATTTTATA
997646 TAATT
1 TAATT
997651 AATATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 2 0.10
9 12 0.57
10 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TAATTTTATA
Found at i:997657 original size:16 final size:17
Alignment explanation
Indices: 997618--997669 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
997608 AACGTTAAAT
*
997618 TAATTTTATATATTTTAA
1 TAATTTTATATA-ATTAA
997636 TAATTTTATATAATTAA
1 TAATTTTATATAATTAA
997653 T-ATTTTA-ATAAATTAA
1 TAATTTTATAT-AATTAA
997669 T
1 T
997670 TATTAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 2 0.06
16 13 0.41
17 5 0.16
18 12 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTTTATATAATTAA
Found at i:997673 original size:17 final size:17
Alignment explanation
Indices: 997615--997673 Score: 59
Period size: 16 Copynumber: 3.4 Consensus size: 17
997605 TATAACGTTA
*
997615 AATTAATTTTATATATTTT
1 AATT-ATTTTATATA-ATT
*
997634 AATAATTTTATATAATT
1 AATTATTTTATATAATT
997651 AA-TATTTTA-ATAAATT
1 AATTATTTTATAT-AATT
997667 AATTATT
1 AATTATT
997674 AAATTTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
15 2 0.06
16 12 0.34
17 8 0.23
18 10 0.29
19 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATTTTATATAATT
Found at i:997776 original size:28 final size:27
Alignment explanation
Indices: 997736--997799 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
997726 AAAATTTTAA
* *
997736 TTTTTAATATAAATTTAATAATTAAAAT
1 TTTTTAATATAAAATAAATAA-TAAAAT
*
997764 TTTTTTATATAAAATAAATAATAAAAT
1 TTTTTAATATAAAATAAATAATAAAAT
*
997791 AATTTTAAT
1 -TTTTTAAT
997800 TTATTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTTTAATATAAAATAAATAATAAAAT
Found at i:998215 original size:25 final size:27
Alignment explanation
Indices: 998180--998229 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
998170 AATTTTTTAT
* *
998180 ATTTAATAAAT-ATT-ATTTTAATTAA
1 ATTTAAAAAATCATTAATTCTAATTAA
998205 ATTTAAAAAATCATTAATTCTAATT
1 ATTTAAAAAATCATTAATTCTAATT
998230 TTACTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 3 0.14
27 8 0.38
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTAAAAAATCATTAATTCTAATTAA
Found at i:999084 original size:1 final size:1
Alignment explanation
Indices: 999078--999108 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
999068 TAATTCTTTC
*
999078 TTTTTTTTTTTTTTTTTTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
999109 AGTCCTCTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:1001032 original size:10 final size:10
Alignment explanation
Indices: 1001013--1001047 Score: 54
Period size: 9 Copynumber: 3.5 Consensus size: 10
1001003 TTAATTATAT
1001013 AAATATTTTTA
1 AAATA-TTTTA
1001024 AAATATTTTA
1 AAATATTTTA
1001034 AAAT-TTTTA
1 AAATATTTTA
1001043 AAATA
1 AAATA
1001048 ATAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
10 9 0.39
11 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
AAATATTTTA
Found at i:1001043 original size:9 final size:9
Alignment explanation
Indices: 1001012--1001046 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
1001002 TTTAATTATA
1001012 TAAATATTTT
1 TAAA-ATTTT
1001022 TAAAATATTT
1 TAAAAT-TTT
1001032 TAAAATTTT
1 TAAAATTTT
1001041 TAAAAT
1 TAAAAT
1001047 AATAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 11 0.46
10 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TAAAATTTT
Found at i:1001451 original size:16 final size:18
Alignment explanation
Indices: 1001414--1001455 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
1001404 AAATATTTAC
1001414 ATAATATTTAATATAAAA
1 ATAATATTTAATATAAAA
*
1001432 ATAATATTT-AT-TAAAT
1 ATAATATTTAATATAAAA
1001448 ATAATATT
1 ATAATATT
1001456 ATATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.52
17 2 0.09
18 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATATTTAATATAAAA
Found at i:1001782 original size:13 final size:11
Alignment explanation
Indices: 1001752--1001889 Score: 62
Period size: 11 Copynumber: 12.9 Consensus size: 11
1001742 AATAAAATTT
1001752 AATATAATATA
1 AATATAATATA
1001763 AATATAATATA
1 AATATAATATA
1001774 AGTATATAAT-T-
1 A--ATATAATATA
* * * *
1001785 ATTTTAAAATT
1 AATATAATATA
*
1001796 GATATAATATA
1 AATATAATATA
1001807 AAT-T-AT-T-
1 AATATAATATA
*
1001814 AATATATTA-A
1 AATATAATATA
*
1001824 AAT-TTATATA
1 AATATAATATA
* *
1001834 AAAATAAAATAA
1 AATATAATAT-A
1001846 AATATTAATATA
1 AATA-TAATATA
1001858 TAATATAA-ATA
1 -AATATAATATA
*
1001869 TATA-AATATA
1 AATATAATATA
1001879 AAGTATAATAT
1 AA-TATAATAT
1001890 TACGTAATCG
Statistics
Matches: 92, Mismatches: 19, Indels: 31
0.65 0.13 0.22
Matches are distributed among these distances:
7 3 0.03
8 2 0.02
9 12 0.13
10 15 0.16
11 30 0.33
12 14 0.15
13 16 0.17
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AATATAATATA
Found at i:1001833 original size:32 final size:33
Alignment explanation
Indices: 1001764--1001834 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
1001754 TATAATATAA
*
1001764 ATATAATATAAGTATATAATTATTTTAAAATTG
1 ATATAATATAAGTATATAATTATATTAAAATTG
* *
1001797 ATATAATATAAAT-TATTAA-TATATTAAAATTT
1 ATATAATATAAGTATA-TAATTATATTAAAATTG
1001829 ATATAA
1 ATATAA
1001835 AAATAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 19 0.56
33 15 0.44
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (33 bp):
ATATAATATAAGTATATAATTATATTAAAATTG
Found at i:1001838 original size:44 final size:42
Alignment explanation
Indices: 1001729--1001864 Score: 103
Period size: 44 Copynumber: 3.0 Consensus size: 42
1001719 ATAAAAAAAT
* * *
1001729 TATTAAAATATAAAATAAAATTTAATATAATATAAATATAATA
1 TATTAAAAT-TTATATAAAAATTAATATAATATAAATATAATA
* * * *
1001772 TAAGTATATAA-TTATTTTAAAATTGATATAATATAAATTATTAATA
1 T-A-T-TAAAATTTATATAAAAATTAATATAATATAAA-TA-TAATA
* *
1001818 TATTAAAATTTATATAAAAATAAAATAAAATATTAATATATAATA
1 TATTAAAATTTATATAAAAAT-TAATATAATA-TAA-ATATAATA
1001863 TA
1 TA
1001865 AATATATAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
43 5 0.07
44 32 0.45
45 18 0.25
46 15 0.21
47 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (42 bp):
TATTAAAATTTATATAAAAATTAATATAATATAAATATAATA
Found at i:1001839 original size:22 final size:24
Alignment explanation
Indices: 1001821--1001886 Score: 64
Period size: 27 Copynumber: 2.7 Consensus size: 24
1001811 ATTAATATAT
1001821 TAAAAT-TT-ATATAAAAATAAAA
1 TAAAATATTAATATAAAAATAAAA
*
1001843 TAAAATATTAATATATAATATAAATA
1 TAAAATATTAATATA-AAAATAAA-A
*
1001869 TATAAATATAAAGTATAA
1 TA-AAATATTAA-TATAA
1001887 TATTACGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
22 6 0.17
23 2 0.06
24 5 0.14
25 7 0.19
26 3 0.08
27 9 0.25
28 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
TAAAATATTAATATAAAAATAAAA
Found at i:1001850 original size:32 final size:32
Alignment explanation
Indices: 1001736--1001885 Score: 80
Period size: 32 Copynumber: 4.7 Consensus size: 32
1001726 AATTATTAAA
* * *
1001736 ATATAAAATAAAAT-TTAATATAATATAA---
1 ATATAAAATAAAATATAAATATATTAAAATTG
* * * *
1001764 ATATAATATAAGTATATAATTATTTTAAAATTG
1 ATATAAAATAA-AATATAAATATATTAAAATTG
* * * *
1001797 ATATAATATAAATTATTAATATATTAAAATTT
1 ATATAAAATAAAATATAAATATATTAAAATTG
* *
1001829 ATATAAAA-ATAAA-ATAAA-ATATTAATATATA
1 ATATAAAATA-AAATATAAATATATTAAAAT-TG
1001860 ATATAAATATATAAATATAAAGTATA
1 ATATAAA-ATA-AAATATAAA-TATA
1001886 ATATTACGTA
Statistics
Matches: 92, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
28 10 0.11
29 2 0.02
30 18 0.20
31 13 0.14
32 25 0.27
33 16 0.17
34 5 0.05
36 3 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (32 bp):
ATATAAAATAAAATATAAATATATTAAAATTG
Found at i:1004755 original size:17 final size:17
Alignment explanation
Indices: 1004733--1004832 Score: 52
Period size: 17 Copynumber: 6.1 Consensus size: 17
1004723 AGTATATTAA
1004733 TATTATTTTATATATTT
1 TATTATTTTATATATTT
*
1004750 TATTATATTATA-A--T
1 TATTATTTTATATATTT
* *
1004764 TATT-TGTTAAATATTT
1 TATTATTTTATATATTT
1004780 TAATT-TTTTATATAAATTT
1 T-ATTATTTTATAT--ATTT
* * *
1004799 TAATATATTA-ATAATT
1 TATTATTTTATATATTT
* *
1004815 TA-TATTATATAAATTT
1 TATTATTTTATATATTT
1004831 TA
1 TA
1004833 AAAATATATT
Statistics
Matches: 63, Mismatches: 12, Indels: 17
0.68 0.13 0.18
Matches are distributed among these distances:
13 5 0.08
14 6 0.10
15 5 0.08
16 14 0.22
17 20 0.32
18 4 0.06
19 9 0.14
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (17 bp):
TATTATTTTATATATTT
Found at i:1004813 original size:11 final size:11
Alignment explanation
Indices: 1004799--1004854 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
1004789 ATATAAATTT
1004799 TAATATATTAA
1 TAATATATTAA
1004810 TAATTTATATTATA
1 TAA--TATATTA-A
*
1004824 TAA-ATTTTAA
1 TAATATATTAA
*
1004834 AAATATATTAA
1 TAATATATTAA
*
1004845 TATTATATTA
1 TAATATATTA
1004855 TATTTTAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
10 3 0.08
11 22 0.61
13 7 0.19
14 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATATATTAA
Found at i:1004823 original size:32 final size:33
Alignment explanation
Indices: 1004780--1004857 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
1004770 TTAAATATTT
1004780 TAATTT-T-TTATATAAATTTT-AATATATTAA
1 TAATTTATATTATATAAATTTTAAATATATTAA
1004810 TAATTTATATTATATAAATTTTAAAAATATATTAA
1 TAATTTATATTATATAAATTTT--AAATATATTAA
1004845 T-A-TTATATTATAT
1 TAATTTATATTATAT
1004858 TTTAATAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
30 6 0.14
31 1 0.02
32 13 0.30
33 11 0.26
34 1 0.02
35 11 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
TAATTTATATTATATAAATTTTAAATATATTAA
Found at i:1004829 original size:15 final size:14
Alignment explanation
Indices: 1004781--1004832 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 14
1004771 TAAATATTTT
1004781 AATTTT-TTATATA
1 AATTTTATTATATA
*
1004794 AATTTTAATATATTAA
1 AATTTTATTATA-T-A
1004810 TAATTTATATTATATA
1 -AATTT-TATTATATA
1004826 AATTTTA
1 AATTTTA
1004833 AAAATATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 6 0.19
14 6 0.19
15 6 0.19
16 2 0.06
17 6 0.19
18 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTTATTATATA
Found at i:1005606 original size:19 final size:19
Alignment explanation
Indices: 1005574--1005615 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
1005564 GGGTGAATAA
* *
1005574 ATAAATTTTTTATTAATTT
1 ATAAATTATATATTAATTT
*
1005593 ATAAATTATATATTTATTT
1 ATAAATTATATATTAATTT
1005612 -TAAA
1 ATAAA
1005616 AGAAGTTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATAAATTATATATTAATTT
Found at i:1005657 original size:19 final size:20
Alignment explanation
Indices: 1005629--1005675 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
1005619 AGTTAAGGTG
*
1005629 TATTTAATTATTATAT-ATT
1 TATTTTATTATTATATAATT
*
1005648 TATTTTATTATTTTATAATT
1 TATTTTATTATTATATAATT
1005668 TATATTTA
1 TAT-TTTA
1005676 AATTTTGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.58
20 6 0.25
21 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTTTATTATTATATAATT
Found at i:1005680 original size:20 final size:20
Alignment explanation
Indices: 1005629--1005686 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
1005619 AGTTAAGGTG
1005629 TATTT-AATTATTATATATTTA
1 TATTTAAATT-TTATA-ATTTA
*
1005650 T-TTTATTATTTTATAATTTA
1 TATTTA-AATTTTATAATTTA
*
1005670 TATTTAAATTTTGTAAT
1 TATTTAAATTTTATAAT
1005687 AATTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 18 0.58
21 10 0.32
22 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTTAAATTTTATAATTTA
Found at i:1009149 original size:16 final size:17
Alignment explanation
Indices: 1009130--1009200 Score: 69
Period size: 16 Copynumber: 4.3 Consensus size: 17
1009120 TTTAATTATC
1009130 AATTTTAAAAATT-AAT
1 AATTTTAAAAATTAAAT
*
1009146 AA--TTAATCAAATTAATT
1 AATTTTAA--AAATTAAAT
* *
1009163 ATTTTTTAAAATTAAAT
1 AATTTTAAAAATTAAAT
1009180 AATTTT-AAAATTAAAT
1 AATTTTAAAAATTAAAT
1009196 AATTT
1 AATTT
1009201 AATTTAATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
14 4 0.09
16 22 0.49
17 16 0.36
19 3 0.07
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTTAAAAATTAAAT
Found at i:1009176 original size:17 final size:16
Alignment explanation
Indices: 1009166--1009200 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1009156 ATTAATTATT
1009166 TTTTAAAATTAAATAA
1 TTTTAAAATTAAATAA
1009182 TTTTAAAATTAAATAA
1 TTTTAAAATTAAATAA
1009198 TTT
1 TTT
1009201 AATTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTAAAATTAAATAA
Found at i:1010439 original size:15 final size:15
Alignment explanation
Indices: 1010414--1010452 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
1010404 ATTACTCTCC
1010414 AAAACAAAATTAAATT
1 AAAACAAAATTAAA-T
1010430 AAAA-AAAATTAAAT
1 AAAACAAAATTAAAT
1010444 AAAATCAAA
1 AAAA-CAAA
1010453 CCAAACACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 7 0.33
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAACAAAATTAAAT
Found at i:1014544 original size:2 final size:2
Alignment explanation
Indices: 1014537--1014565 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1014527 GGATATACGT
1014537 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 T
1014566 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1019463 original size:17 final size:19
Alignment explanation
Indices: 1019428--1019463 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
1019418 CAATTTTTAT
1019428 TTTTATAAATAAATTATAA
1 TTTTATAAATAAATTATAA
1019447 TTTTA-AAA-AAATTATAA
1 TTTTATAAATAAATTATAA
1019464 ATATTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTTATAAATAAATTATAA
Found at i:1019472 original size:18 final size:17
Alignment explanation
Indices: 1019433--1019472 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1019423 TTTATTTTTA
* *
1019433 TAAATAAATTATAATTT
1 TAAAAAAATTATAATAT
1019450 TAAAAAAATTATAAATAT
1 TAAAAAAATTAT-AATAT
1019468 TAAAA
1 TAAAA
1019473 TTCAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAAAAATTATAATAT
Found at i:1019871 original size:27 final size:26
Alignment explanation
Indices: 1019841--1019921 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 26
1019831 TTATAATTAT
1019841 ATTTAAAATAATTTATATTTATATAAA
1 ATTTAAAATAATTTATA-TTATATAAA
1019868 ATTTAATATGTTAATAATTTATATTATATAAA
1 ATTT-A-A----AATAATTTATATTATATAAA
* *
1019900 TTTTAAAAT-ATTCATATTATAT
1 ATTTAAAATAATTTATATTATAT
1019922 TATATTTTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
25 12 0.26
26 3 0.07
27 4 0.09
28 1 0.02
29 1 0.02
30 1 0.02
31 1 0.02
32 12 0.26
33 11 0.24
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (26 bp):
ATTTAAAATAATTTATATTATATAAA
Found at i:1019884 original size:18 final size:17
Alignment explanation
Indices: 1019837--1019904 Score: 58
Period size: 16 Copynumber: 4.2 Consensus size: 17
1019827 TTTATTATAA
1019837 TTATATTTA-A-AATAAT
1 TTATATTTATATAA-AAT
1019853 TTATATTTATATAAAAT
1 TTATATTTATATAAAAT
1019870 TTAATATGTTA-AT--AAT
1 TT-ATAT-TTATATAAAAT
*
1019886 TTATA-TTATATAAATT
1 TTATATTTATATAAAAT
1019902 TTA
1 TTA
1019905 AAATATTCAT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
13 3 0.07
14 2 0.05
15 3 0.07
16 19 0.43
17 6 0.14
18 8 0.18
19 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (17 bp):
TTATATTTATATAAAAT
Found at i:1019905 original size:32 final size:32
Alignment explanation
Indices: 1019847--1019926 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
1019837 TTATATTTAA
* *
1019847 AATAATTTATATTTATATAAAATTTAATATGTT
1 AATAATTTATA-TTATATAAAATTTAAAATATT
*
1019880 AATAATTTATATTATATAAATTTTAAAATATT
1 AATAATTTATATTATATAAAATTTAAAATATT
*
1019912 CAT-A-TTATATTATAT
1 AATAATTTATATTATAT
1019927 TTTAATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 11 0.26
31 1 0.02
32 20 0.47
33 11 0.26
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (32 bp):
AATAATTTATATTATATAAAATTTAAAATATT
Found at i:1019934 original size:11 final size:12
Alignment explanation
Indices: 1019916--1019955 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
1019906 AATATTCATA
1019916 TTATATTATATT
1 TTATATTATATT
*
1019928 TTA-ATTATTTT
1 TTATATTATATT
1019939 TTATATTATA-T
1 TTATATTATATT
1019950 TTATAT
1 TTATAT
1019956 AACCATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATATTATATT
Found at i:1019936 original size:25 final size:24
Alignment explanation
Indices: 1019886--1019951 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
1019876 TGTTAATAAT
* *
1019886 TTATATTATA-TAAATTTTAAAATA
1 TTATATTATATTATATTTT-AATTA
1019910 TTCATATTATATTATATTTTAATTA
1 TT-ATATTATATTATATTTTAATTA
*
1019935 TT-TTTTATATTATATTT
1 TTATATTATATTATATTT
1019952 ATATAACCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 14 0.38
24 2 0.05
25 14 0.38
26 7 0.19
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
TTATATTATATTATATTTTAATTA
Found at i:1021113 original size:53 final size:53
Alignment explanation
Indices: 1021033--1021156 Score: 230
Period size: 53 Copynumber: 2.3 Consensus size: 53
1021023 TCGTACCACA
*
1021033 TTTTGACCCCATAACCAAGGCTCTAGTCCTTGGATGCATGCATAGCTTTTATC
1 TTTTGACCCCATAACCAAGGCTCTAGTCCTTGGATACATGCATAGCTTTTATC
*
1021086 TTTTGACCCCATAACCAAGGCTCTAGTCCTTGGATATATGCATAGCTTTTATC
1 TTTTGACCCCATAACCAAGGCTCTAGTCCTTGGATACATGCATAGCTTTTATC
1021139 TTTTGACCCCATAACCAA
1 TTTTGACCCCATAACCAA
1021157 TATTTGCGGG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 69 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.34
Consensus pattern (53 bp):
TTTTGACCCCATAACCAAGGCTCTAGTCCTTGGATACATGCATAGCTTTTATC
Done.