Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 343 of 362
Found at i:113927905 original size:22 final size:23
Alignment explanation
Indices: 113927879--113927924 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
113927869 CAACCAAACC
113927879 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
113927901 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
113927924 A
1 A
113927925 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:113927930 original size:23 final size:23
Alignment explanation
Indices: 113927886--113927930 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
113927876 ACCAATTCAA
*
113927886 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
113927909 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
113927931 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:113951036 original size:11 final size:11
Alignment explanation
Indices: 113951022--113951092 Score: 61
Period size: 11 Copynumber: 6.5 Consensus size: 11
113951012 ATATCCAAAT
113951022 AATAATAACAA
1 AATAATAACAA
*
113951033 AATAATAGCAA
1 AATAATAACAA
* * *
113951044 TATAACAATAA
1 AATAATAACAA
* *
113951055 AATGATAATAA
1 AATAATAACAA
* *
113951066 AACAACAACAA
1 AATAATAACAA
*
113951077 AATAGTAACAA
1 AATAATAACAA
113951088 AATAA
1 AATAA
113951093 CAGGAAAAAA
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 44 1.00
ACGTcount: A:0.68, C:0.10, G:0.04, T:0.18
Consensus pattern (11 bp):
AATAATAACAA
Found at i:113952435 original size:90 final size:90
Alignment explanation
Indices: 113952316--113952491 Score: 205
Period size: 90 Copynumber: 2.0 Consensus size: 90
113952306 AGTAATTAAG
* * * * * *
113952316 TCTTTTTTTTTCACTCAATTGAACACTTGAACAT-TCAAAATGTATTAAAAAGACCTTCAAACTT
1 TCTTTTTTTTCCACTCAATTGAACACTTGAAC-TGCCAAAATGCATCAAAAAGACATTCAAAATT
113952380 CTT-AAAAA-TAAATTAAGCCCCATAT
65 CTTCAAAAAGT-AATTAAGCCCCATAT
*** *
113952405 TCTTCTTTTTTCCACTCAATTGGGTACTTGAACTGCCAAAATGCATCAAAAAGACATTTAAAATT
1 TCTT-TTTTTTCCACTCAATTGAACACTTGAACTGCCAAAATGCATCAAAAAGACATTCAAAATT
*
113952470 TTTCAAAAAGTAATTAAGCCCC
65 CTTCAAAAAGTAATTAAGCCCC
113952492 TACTTTTATT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
89 5 0.07
90 50 0.69
91 16 0.22
92 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.35
Consensus pattern (90 bp):
TCTTTTTTTTCCACTCAATTGAACACTTGAACTGCCAAAATGCATCAAAAAGACATTCAAAATTC
TTCAAAAAGTAATTAAGCCCCATAT
Found at i:113952542 original size:18 final size:18
Alignment explanation
Indices: 113952521--113952635 Score: 66
Period size: 19 Copynumber: 6.6 Consensus size: 18
113952511 AAAAAATTAT
113952521 AAATTATAAATTTTATAA
1 AAATTATAAATTTTATAA
*
113952539 AAATTATTAAATTTTA-ATG
1 AAATTA-TAAATTTTATA-A
*
113952558 AAA--ATACA----ATAA
1 AAATTATAAATTTTATAA
*
113952570 AAATT-TAAAATTTATTAA
1 AAATTATAAATTTTA-TAA
* *
113952588 AAATTAGAATTTTTTATAA
1 AAATTATAA-ATTTTATAA
*
113952607 AAATCATAAAATTTTATAA
1 AAATTAT-AAATTTTATAA
*
113952626 AAATCATAAA
1 AAATTATAAA
113952636 AAATAATAAC
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
12 4 0.05
13 4 0.05
16 3 0.04
17 2 0.03
18 18 0.24
19 37 0.50
20 6 0.08
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.39
Consensus pattern (18 bp):
AAATTATAAATTTTATAA
Found at i:113952644 original size:19 final size:19
Alignment explanation
Indices: 113952603--113952644 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
113952593 AGAATTTTTT
** *
113952603 ATAAAAATCATAAAATTTT
1 ATAAAAATCATAAAAAATA
113952622 ATAAAAATCATAAAAAATA
1 ATAAAAATCATAAAAAATA
113952641 ATAA
1 ATAA
113952645 CCCCTAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAAAATCATAAAAAATA
Found at i:113952860 original size:55 final size:55
Alignment explanation
Indices: 113952797--113952903 Score: 146
Period size: 55 Copynumber: 1.9 Consensus size: 55
113952787 ATTTACGAAA
*
113952797 TTTATATTTCTTTACATTTTGTATAA-TTTTCTTACGA-CTTTATAAAATTTTATTT
1 TTTATATTTCTATACA-TTT-TATAATTTTTCTTACGATCTTTATAAAATTTTATTT
* * *
113952852 TTTATATTTCTATATATTTTATAATTTTTTTTACGATTTTTATAAAATTTTA
1 TTTATATTTCTATACATTTTATAATTTTTCTTACGATCTTTATAAAATTTTA
113952904 CAATCTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
53 5 0.11
54 13 0.28
55 28 0.61
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.62
Consensus pattern (55 bp):
TTTATATTTCTATACATTTTATAATTTTTCTTACGATCTTTATAAAATTTTATTT
Found at i:113952937 original size:8 final size:9
Alignment explanation
Indices: 113952850--113952949 Score: 53
Period size: 9 Copynumber: 10.7 Consensus size: 9
113952840 AAAATTTTAT
113952850 TTTTTAT-A
1 TTTTTATAA
*
113952858 TTTCTAT-A
1 TTTTTATAA
113952866 TATTTTATAA
1 T-TTTTATAA
*
113952876 TTTTTTTTACGA
1 -TTTTTATA--A
113952888 TTTTTATAAA
1 TTTTTAT-AA
* *
113952898 ATTTTACAA
1 TTTTTATAA
*
113952907 TCTTTTTATAT
1 --TTTTTATAA
*
113952918 TTTTTATGA
1 TTTTTATAA
113952927 TTTTTAT-A
1 TTTTTATAA
*
113952935 TTTTTCTAA
1 TTTTTATAA
113952944 TTTTTA
1 TTTTTA
113952950 ATAAAAGTAG
Statistics
Matches: 70, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
8 15 0.21
9 27 0.39
10 13 0.19
11 13 0.19
12 2 0.03
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:113953748 original size:22 final size:21
Alignment explanation
Indices: 113953722--113953768 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
113953712 ATCAAAACTT
113953722 TTAAATTAAAAAATATAGAATA
1 TTAAATTAAAAAAT-TAGAATA
**
113953744 TTAAAATTATTAAATTAGAATA
1 TT-AAATTAAAAAATTAGAATA
113953766 TTA
1 TTA
113953769 CCTATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 1 0.05
22 11 0.50
23 10 0.45
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
TTAAATTAAAAAATTAGAATA
Found at i:113960238 original size:21 final size:21
Alignment explanation
Indices: 113960212--113960257 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
113960202 GAAGGTAGCG
113960212 ATTCG-AGCAAACTAACCATCC
1 ATTCGAAG-AAACTAACCATCC
*
113960233 ATTCGAAGAAACTAACCATCT
1 ATTCGAAGAAACTAACCATCC
113960254 ATTC
1 ATTC
113960258 CTCTAGGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.24
Consensus pattern (21 bp):
ATTCGAAGAAACTAACCATCC
Found at i:113963130 original size:22 final size:20
Alignment explanation
Indices: 113963105--113963207 Score: 77
Period size: 21 Copynumber: 4.9 Consensus size: 20
113963095 GTTGATTGAA
113963105 TAAAAAATTATTTAAAAATATT
1 TAAAAAA-TA-TTAAAAATATT
** *
113963127 TAAAATTTAGTAAAAGAATATT
1 TAAAAAATA-TTAAA-AATATT
113963149 TAAAAAATATTAAAAAT-TAT
1 TAAAAAATATTAAAAATAT-T
*
113963169 AAAATAAATATT-AAAA-ATT
1 TAAA-AAATATTAAAAATATT
113963188 TATAAAAATAATTAAAAATA
1 TA-AAAAAT-ATTAAAAATA
113963208 AAATTAAGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
19 7 0.11
20 17 0.27
21 21 0.33
22 19 0.30
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAAAAATATTAAAAATATT
Found at i:113963149 original size:32 final size:30
Alignment explanation
Indices: 113963104--113963207 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 30
113963094 TGTTGATTGA
*
113963104 ATAAAAAATTATTTAAAAATATTTAAAATTT
1 ATAAAAAA-TATTTAAAAATATTTAAAAATT
113963135 AGTAAAAGAATATTTAAAAA-ATATTAAAAATT
1 A-TAAAA-AATATTTAAAAATAT-TTAAAAATT
*
113963167 ATAAAATAA-ATATTAAAAAT-TTATAAAAATA
1 ATAAAA-AATAT-TTAAAAATATT-TAAAAATT
*
113963198 ATTAAAAATA
1 ATAAAAAATA
113963208 AAATTAAGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
30 5 0.08
31 31 0.50
32 24 0.39
33 2 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (30 bp):
ATAAAAAATATTTAAAAATATTTAAAAATT
Found at i:113963163 original size:10 final size:10
Alignment explanation
Indices: 113963105--113963205 Score: 71
Period size: 10 Copynumber: 9.6 Consensus size: 10
113963095 GTTGATTGAA
113963105 TAAAAAATTAT
1 TAAAAAA-TAT
*
113963116 TTAAAAATATT
1 TAAAAAATA-T
** *
113963127 TAAAATTTAG
1 TAAAAAATAT
113963137 TAAAAGAATATT
1 TAAAA-AATA-T
113963149 TAAAAAATAT
1 TAAAAAATAT
*
113963159 TAAAAATTAT
1 TAAAAAATAT
*
113963169 AAAATAAATAT
1 TAAA-AAATAT
113963180 T-AAAAAT-T
1 TAAAAAATAT
113963188 TATAAAAATAAT
1 TA-AAAAAT-AT
113963200 TAAAAA
1 TAAAAA
113963206 TAAAATTAAG
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
8 2 0.03
9 4 0.06
10 28 0.40
11 28 0.40
12 8 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:113963832 original size:29 final size:30
Alignment explanation
Indices: 113963800--113963862 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 30
113963790 AAGAGTTTCT
113963800 AATATATATTT-ATTTTT-TTACAAATTTTA
1 AATATAT-TTTAATTTTTCTTACAAATTTTA
** *
113963829 AATA-ATTTTAATTTTTCTTTTACATTTTA
1 AATATATTTTAATTTTTCTTACAAATTTTA
113963858 AATAT
1 AATAT
113963863 TTTCTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 3 0.11
28 8 0.29
29 17 0.61
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (30 bp):
AATATATTTTAATTTTTCTTACAAATTTTA
Found at i:113963867 original size:21 final size:19
Alignment explanation
Indices: 113963833--113963871 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
113963823 ATTTTAAATA
113963833 ATTTTAATTTTTCTTTTAC
1 ATTTTAATTTTTCTTTTAC
113963852 ATTTTAAATATTTTCTTTTA
1 ATTTT-AAT-TTTTCTTTTA
113963872 TAGTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 10 0.56
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTAATTTTTCTTTTAC
Found at i:113973369 original size:27 final size:28
Alignment explanation
Indices: 113973329--113973384 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
113973319 GAAATCGTAG
*
113973329 TTTTTAATTTTCTTTTACAAACAAACAA
1 TTTTTAATTCTCTTTTACAAACAAACAA
*
113973357 TTTTT-ATTCTCTTTTACAAGCAAACAA
1 TTTTTAATTCTCTTTTACAAACAAACAA
113973384 T
1 T
113973385 CTCTACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.46
Consensus pattern (28 bp):
TTTTTAATTCTCTTTTACAAACAAACAA
Found at i:113976852 original size:14 final size:14
Alignment explanation
Indices: 113976829--113976866 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
113976819 TTTGTTTTAG
113976829 GTTATATTTTAATAAT
1 GTTAT-TTTTAA-AAT
113976845 -TTATTTTTAAAAT
1 GTTATTTTTAAAAT
113976858 GTTATTTTT
1 GTTATTTTT
113976867 TAGTCACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 14 0.67
15 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (14 bp):
GTTATTTTTAAAAT
Found at i:113977629 original size:17 final size:17
Alignment explanation
Indices: 113977603--113977636 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
113977593 AGGTTTAGGT
113977603 TTAAAATTTTTAATTAA
1 TTAAAATTTTTAATTAA
*
113977620 TTAAATTTTTTAATTAA
1 TTAAAATTTTTAATTAA
113977637 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAATTTTTAATTAA
Found at i:113977797 original size:29 final size:29
Alignment explanation
Indices: 113977764--113977837 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
113977754 ATAAAATAAT
113977764 AACATAAGTGACTAAAACGTAACATT-TCA
1 AACATAAGTGACTAAAACGTAAC-TTGTCA
* *
113977793 AACATAAATGACTAAAATGTAACTTGAGTCA
1 AACATAAGTGACTAAAACGTAACTT--GTCA
*
113977824 AACAAAAGTGACTA
1 AACATAAGTGACTA
113977838 TTTTTATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 2 0.05
29 21 0.55
31 15 0.39
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACTTGTCA
Found at i:113983499 original size:19 final size:20
Alignment explanation
Indices: 113983475--113983512 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
113983465 TGTTCTTTAT
113983475 TTTG-AATACAAAAAAGAGA
1 TTTGAAATACAAAAAAGAGA
113983494 TTTGAAATACAAAAAAGAG
1 TTTGAAATACAAAAAAGAG
113983513 GTTACAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.21
Consensus pattern (20 bp):
TTTGAAATACAAAAAAGAGA
Found at i:113983523 original size:21 final size:21
Alignment explanation
Indices: 113983478--113983523 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
113983468 TCTTTATTTT
**
113983478 GAATACAAAAAAGAGATTTGA
1 GAATACAAAAAAGAGATTACA
*
113983499 -AATACAAAAAAGAGGTTACA
1 GAATACAAAAAAGAGATTACA
113983519 GAATA
1 GAATA
113983524 TTAATCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.59, C:0.07, G:0.17, T:0.17
Consensus pattern (21 bp):
GAATACAAAAAAGAGATTACA
Found at i:113987671 original size:16 final size:16
Alignment explanation
Indices: 113987648--113987685 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
113987638 TTTAAAATTT
113987648 TAAA-AATATAAAATA
1 TAAATAATATAAAATA
*
113987663 TAAATAATATTAAATA
1 TAAATAATATAAAATA
113987679 TAAATAA
1 TAAATAA
113987686 AATTCTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAATAATATAAAATA
Found at i:113987773 original size:20 final size:20
Alignment explanation
Indices: 113987748--113987797 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
113987738 TGGCTTAAAA
113987748 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
113987768 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
113987785 GTGGTAGTGGATT
1 TTGGTAGTGGATT
113987798 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:113992412 original size:20 final size:20
Alignment explanation
Indices: 113992387--113992436 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
113992377 TGGCTTAAAA
113992387 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
113992407 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
113992424 GTGGTAGTGGATT
1 TTGGTAGTGGATT
113992437 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:113993992 original size:22 final size:22
Alignment explanation
Indices: 113993962--113994003 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
113993952 CAAAAAAATC
*
113993962 TACTTTTTTATTATTTTTTTAA
1 TACTATTTTATTATTTTTTTAA
* *
113993984 TACTATTTTCTTGTTTTTTT
1 TACTATTTTATTATTTTTTT
113994004 CTCTCTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (22 bp):
TACTATTTTATTATTTTTTTAA
Found at i:113996376 original size:17 final size:18
Alignment explanation
Indices: 113996328--113996379 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
113996318 TTGCATTTAT
*
113996328 TAAAATTTAAAATATTCA
1 TAAAATTTAAAAAATTCA
113996346 TAAAATTATAAAAAAATT-A
1 TAAAATT-T-AAAAAATTCA
113996365 -AAAATTCTAAAAAAT
1 TAAAATT-TAAAAAAT
113996380 GATTAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 7 0.23
18 14 0.47
19 2 0.07
20 7 0.23
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATTTAAAAAATTCA
Found at i:114004805 original size:14 final size:14
Alignment explanation
Indices: 114004786--114004812 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
114004776 TGTGTGACCT
114004786 GAATCCTTGTTAAC
1 GAATCCTTGTTAAC
114004800 GAATCCTTGTTAA
1 GAATCCTTGTTAA
114004813 AGAAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (14 bp):
GAATCCTTGTTAAC
Found at i:114011730 original size:13 final size:15
Alignment explanation
Indices: 114011692--114011742 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
114011682 GAGGAAATAA
*
114011692 TAATAATAGTAGTAG
1 TAATAATAATAGTAG
114011707 TAATAATAATAGT-G
1 TAATAATAATAGTAG
*
114011721 TAAT-ATAATAGTAA
1 TAATAATAATAGTAG
114011735 TAATAATA
1 TAATAATA
114011743 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 8 0.25
14 9 0.28
15 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (15 bp):
TAATAATAATAGTAG
Found at i:114013140 original size:35 final size:35
Alignment explanation
Indices: 114013093--114013161 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
114013083 GGGTGTGTGA
* *
114013093 TGGTGCTGGTGGCAGACAGGATGGGAGAGTGGGAG
1 TGGTGCTAGTGGCAGACAGCATGGGAGAGTGGGAG
114013128 TGGTGCTAGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTAGTGGCAGACAGCATGGGAGAGTGGGA
114013162 AGAGGCAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.22, C:0.10, G:0.51, T:0.17
Consensus pattern (35 bp):
TGGTGCTAGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:114013738 original size:44 final size:44
Alignment explanation
Indices: 114013690--114013881 Score: 127
Period size: 44 Copynumber: 4.4 Consensus size: 44
114013680 AAATCCACCG
* * *
114013690 TCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAACCTACTCCACTATTGCTCAGGGAGATAAGATCTGTAA
* * * * * * ***
114013734 TCTTCGATCTATTCCACTGTTGCCCAGGGAGAT-AGAACTACCA
1 TCTTCAACCTACTCCACTATTGCTCAGGGAGATAAGATCTGTAA
* ** * ** * * * **
114013777 GCTTCAATGTACTCCACT-GTAATCAGGGAGGTAAAATCCGTTG
1 TCTTCAACCTACTCCACTATTGCTCAGGGAGATAAGATCTGTAA
* *
114013820 TCTTCAACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAACCTACTCCACTATTGCTCAGGGAGATAAGATCTGTAA
* *
114013864 TCTTCAATCTATTCCACT
1 TCTTCAACCTACTCCACT
114013882 GCCAAATACA
Statistics
Matches: 104, Mismatches: 42, Indels: 4
0.69 0.28 0.03
Matches are distributed among these distances:
42 9 0.09
43 37 0.36
44 58 0.56
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (44 bp):
TCTTCAACCTACTCCACTATTGCTCAGGGAGATAAGATCTGTAA
Found at i:114013761 original size:130 final size:130
Alignment explanation
Indices: 114013604--114013943 Score: 527
Period size: 130 Copynumber: 2.6 Consensus size: 130
114013594 AATGTTGTTT
114013604 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
*
114013669 TCAGGGAGGTAAAATCCACCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
66 TCAGGGAGGTAAAATCCACCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
114013734 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
1 TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
***
114013799 TCAGGGAGGTAAAATCCGTTGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
66 TCAGGGAGGTAAAATCCACCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
* ***** ** * *
114013864 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
1 TCTTCGATCTATTCCACTG--TTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGT
*
114013929 AGTCAGGGAGGTAAA
64 AATCAGGGAGGTAAA
114013944 CTCTGCCATC
Statistics
Matches: 193, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
130 144 0.75
132 49 0.25
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (130 bp):
TCTTCGATCTATTCCACTGTTGCCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGTAA
TCAGGGAGGTAAAATCCACCGTCTTCAACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAA
Found at i:114013925 original size:45 final size:45
Alignment explanation
Indices: 114013865--114014022 Score: 124
Period size: 45 Copynumber: 3.4 Consensus size: 45
114013855 GATCTGTAAT
*
114013865 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
114013910 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAACTCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---A---TCG-G
* *
114013960 CTTCAATCTATTTCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
114014005 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
114014023 TAGTCAGGGA
Statistics
Matches: 82, Mismatches: 20, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
42 11 0.13
43 3 0.04
45 31 0.38
46 4 0.05
49 4 0.05
50 15 0.18
52 3 0.04
53 11 0.13
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Found at i:114013970 original size:95 final size:95
Alignment explanation
Indices: 114013863--114014056 Score: 361
Period size: 95 Copynumber: 2.0 Consensus size: 95
114013853 AAGATCTGTA
114013863 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
114013928 TAGTCAGGGAGGTAAACTCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
*
114013958 ATCTTCAATCTATTTCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
114014023 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
114014053 ATCT
1 ATCT
114014057 GCTTCGCTGC
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCG
Found at i:114014112 original size:134 final size:134
Alignment explanation
Indices: 114013958--114014233 Score: 489
Period size: 134 Copynumber: 2.1 Consensus size: 134
114013948 GCCATCTTCG
* *
114013958 ATCTTCAATCTATTTCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
*
114014023 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAAGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
114014088 TGCA
131 TGCA
114014092 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
* *
114014157 TAGTCAGGGAAGTAAAATCTTCCATCTTTGATCTGCTTCGCTGTCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAAGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
*
114014222 TGCT
131 TGCA
*
114014226 ATATTCAA
1 ATCTTCAA
114014234 CCTGCTCTGC
Statistics
Matches: 135, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGACTTCAATGTACTCCACTG
TAGTCAGGGAAGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:114014306 original size:86 final size:87
Alignment explanation
Indices: 114014181--114014363 Score: 305
Period size: 86 Copynumber: 2.1 Consensus size: 87
114014171 AAATCTTCCA
* *
114014181 TCTTTGATCTGCTTCGCTGTCAAATACAGGAAGGCAAGATCTGCTATATTCAACCTGCTCTGCTA
1 TCTTTGATTTGCTTCGCTGTCAAATACAGGAAGGCAAGATCTGCTATATTCAACCAGCTCTGCTA
114014246 CAAACGAGAGAGGCAAGGTTTG
66 CAAACGAGAGAGGCAAGGTTTG
* * * *
114014268 TCTTCGATTTGCTTCGCTGTC-AATGCAGGAAGGCAAGATTTGCTATCTTCAACCAGCTCTGCTA
1 TCTTTGATTTGCTTCGCTGTCAAATACAGGAAGGCAAGATCTGCTATATTCAACCAGCTCTGCTA
114014332 CAAACGAGAGAGGCAAGGTTTG
66 CAAACGAGAGAGGCAAGGTTTG
114014354 TCTTTGATTT
1 TCTTTGATTT
114014364 TTACTGATCT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 70 0.79
87 19 0.21
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (87 bp):
TCTTTGATTTGCTTCGCTGTCAAATACAGGAAGGCAAGATCTGCTATATTCAACCAGCTCTGCTA
CAAACGAGAGAGGCAAGGTTTG
Found at i:114014348 original size:44 final size:44
Alignment explanation
Indices: 114014212--114014353 Score: 116
Period size: 44 Copynumber: 3.3 Consensus size: 44
114014202 AAATACAGGA
* *
114014212 AGGCAAGATCTGCTATATTCAACCTGCTCTGCTACAAACGAGAG
1 AGGCAAGATTTGCTATCTTCAACCTGCTCTGCTACAAACGAGAG
* * ** * *
114014256 AGGCAAGGTTTG---TCTTCGATTTGCT-TCGCTGTC-AATGCAG-G
1 AGGCAAGATTTGCTATCTTCAACCTGCTCT-GCT-ACAAACG-AGAG
*
114014297 AAGGCAAGATTTGCTATCTTCAACCAGCTCTGCTACAAACGAGAG
1 -AGGCAAGATTTGCTATCTTCAACCTGCTCTGCTACAAACGAGAG
*
114014342 AGGCAAGGTTTG
1 AGGCAAGATTTG
114014354 TCTTTGATTT
Statistics
Matches: 72, Mismatches: 16, Indels: 20
0.67 0.15 0.19
Matches are distributed among these distances:
40 1 0.01
41 16 0.22
42 14 0.19
44 24 0.33
45 16 0.22
46 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (44 bp):
AGGCAAGATTTGCTATCTTCAACCTGCTCTGCTACAAACGAGAG
Found at i:114020743 original size:3 final size:3
Alignment explanation
Indices: 114020735--114020803 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
114020725 AAAATGAGGA
* * * * *
114020735 AAT AAT AAT AAT AAT AGT AGT AGT AAT AAT AAT AGT -GT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
114020781 AGT AAT AAT AAT ATT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
114020804 TAATTTAATG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
2 6 0.11
3 49 0.89
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:114020781 original size:13 final size:15
Alignment explanation
Indices: 114020743--114020793 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
114020733 GAAATAATAA
*
114020743 TAATAATAGTAGTAG
1 TAATAATAATAGTAG
114020758 TAATAATAATAGT-G
1 TAATAATAATAGTAG
*
114020772 TAAT-ATAATAGTAA
1 TAATAATAATAGTAG
114020786 TAATAATA
1 TAATAATA
114020794 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 8 0.25
14 9 0.28
15 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (15 bp):
TAATAATAATAGTAG
Found at i:114022199 original size:35 final size:35
Alignment explanation
Indices: 114022154--114022222 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
114022144 GGGTGTGTGA
114022154 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
114022189 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
114022223 AGAGGCAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.12, G:0.51, T:0.17
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:114029856 original size:15 final size:15
Alignment explanation
Indices: 114029836--114029865 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
114029826 CATTTTATTT
*
114029836 ATATTAGGATAATTA
1 ATATTAAGATAATTA
114029851 ATATTAAGATAATTA
1 ATATTAAGATAATTA
114029866 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:114029895 original size:17 final size:17
Alignment explanation
Indices: 114029860--114029900 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
114029850 AATATTAAGA
114029860 TAATTATTAGGATTATT
1 TAATTATTAGGATTATT
*
114029877 TAATT-TTAGGATTTTTT
1 TAATTATTAGGA-TTATT
114029894 TAATTAT
1 TAATTAT
114029901 CTTTTTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 14 0.67
18 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (17 bp):
TAATTATTAGGATTATT
Found at i:114032671 original size:46 final size:46
Alignment explanation
Indices: 114032166--114032671 Score: 760
Period size: 46 Copynumber: 11.0 Consensus size: 46
114032156 TTTCTGTCAT
* * *
114032166 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
*
114032212 GTTGCCATGGTATCTTTCAACTATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * *
114032258 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
*
114032304 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
** *
114032350 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* **
114032396 GTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * *
114032442 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
* * * *
114032488 ATTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
** *
114032534 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
114032580 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
114032626 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
114032672 AGAGCACACT
Statistics
Matches: 429, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 429 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:114034770 original size:16 final size:16
Alignment explanation
Indices: 114034751--114034783 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
114034741 AATTTTTCCC
*
114034751 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
114034767 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
114034783 T
1 T
114034784 CCCCTGCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:114035030 original size:18 final size:18
Alignment explanation
Indices: 114034987--114035022 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
114034977 AATATCTTTT
*
114034987 ATTTAATAATAATATATA
1 ATTTAATAATAATAAATA
114035005 ATTTAATAATAATAAATA
1 ATTTAATAATAATAAATA
114035023 CATTAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAATAATAATAAATA
Found at i:114037698 original size:5 final size:5
Alignment explanation
Indices: 114037688--114037742 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
114037678 GCAACCCAAT
* * *
114037688 TTTTA TTTTA TTTTA GTTTA TTTTA TTTTTA TTTATT TTTTC TTATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTT-TA TTTTA TT-TTA
114037736 TTTTA TT
1 TTTTA TT
114037743 ATTTATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
5 29 0.69
6 13 0.31
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:114037733 original size:25 final size:25
Alignment explanation
Indices: 114037686--114037754 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
114037676 AGGCAACCCA
*
114037686 ATTTTTATTTTATTTTAGTTTATT-TT
1 ATTTTTA-TTTATTTT-TTTTATTATT
114037712 ATTTTTATTTATTTTTTCTTATTATT
1 ATTTTTATTTATTTTTT-TTATTATT
* *
114037738 -TTATTATTTATTATTTT
1 ATTTTTATTTATTTTTTT
114037755 GAGATATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 2 0.05
25 27 0.71
26 9 0.24
ACGTcount: A:0.20, C:0.01, G:0.01, T:0.77
Consensus pattern (25 bp):
ATTTTTATTTATTTTTTTTATTATT
Found at i:114037750 original size:15 final size:14
Alignment explanation
Indices: 114037690--114037754 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 14
114037680 AACCCAATTT
114037690 TTATTTTA-TTTTA
1 TTATTTTATTTTTA
114037703 GTTTATTTTATTTTTA
1 --TTATTTTATTTTTA
*
114037719 TTTATTTT-TTCTTA
1 -TTATTTTATTTTTA
114037733 TTATTTTATTATTTA
1 TTATTTTATT-TTTA
114037748 TTATTTT
1 TTATTTT
114037755 GAGATATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.16
14 7 0.16
15 26 0.58
16 5 0.11
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (14 bp):
TTATTTTATTTTTA
Found at i:114037762 original size:28 final size:28
Alignment explanation
Indices: 114037705--114037763 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
114037695 TTATTTTAGT
** *
114037705 TTATTTTATTTTTATTTATTTTTTCTTA
1 TTATTTTATTTTTATTTATTTTGACATA
*
114037733 TTATTTTATTATTTA-TTATTTTGAGATA
1 TTATTTTATT-TTTATTTATTTTGACATA
114037761 TTA
1 TTA
114037764 ATAAAATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (28 bp):
TTATTTTATTTTTATTTATTTTGACATA
Found at i:114038656 original size:4 final size:4
Alignment explanation
Indices: 114038647--114038671 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
114038637 AAAAGGTTCA
114038647 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
114038672 AATAAATAAA
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:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:114038693 original size:5 final size:4
Alignment explanation
Indices: 114038669--114038719 Score: 50
Period size: 4 Copynumber: 12.2 Consensus size: 4
114038659 ACATACATAC
* *
114038669 ATAA ATAA ATAA ATAA ATAAA ATAA A-AA ATATA TATAT GTAA ATAA ATAA
1 ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATA-A -ATAA ATAA ATAA ATAA
114038719 A
1 A
114038720 ATTTGGGACT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 3 0.08
4 28 0.72
5 5 0.13
6 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:114039290 original size:15 final size:15
Alignment explanation
Indices: 114039270--114039299 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
114039260 CATTTTATTT
*
114039270 ATATTAGGATAATTA
1 ATATTAAGATAATTA
114039285 ATATTAAGATAATTA
1 ATATTAAGATAATTA
114039300 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:114039321 original size:16 final size:17
Alignment explanation
Indices: 114039294--114039333 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
114039284 AATATTAAGA
114039294 TAATTATTAGGATTATT
1 TAATTATTAGGATTATT
*
114039311 TAATT-TTAGGATTTTT
1 TAATTATTAGGATTATT
114039327 TAATTAT
1 TAATTAT
114039334 CTTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (17 bp):
TAATTATTAGGATTATT
Found at i:114040747 original size:24 final size:24
Alignment explanation
Indices: 114040623--114040782 Score: 110
Period size: 24 Copynumber: 6.7 Consensus size: 24
114040613 CAACCGATTT
* ** *
114040623 CGCACACATAGTGCTAAACAAATT
1 CGCACACATAGTGCCATTCAAATC
* *
114040647 CGCACACATAGTGCCATGCTACA-C
1 CGCACACATAGTGCCATTC-AAATC
* *
114040671 CGCACACATAGTGCC-TTGAAGATT
1 CGCACACATAGTGCCATTCAA-ATC
* * ** * * *
114040695 CACTCATGTATTGACATCCAAATC
1 CGCACACATAGTGCCATTCAAATC
*
114040719 AGCACACATAGTGCCATT-AAATTC
1 CGCACACATAGTGCCATTCAAA-TC
*
114040743 CGCACACATAGTGCTATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
*
114040767 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
114040783 ATGTTGACCC
Statistics
Matches: 100, Mismatches: 30, Indels: 12
0.70 0.21 0.08
Matches are distributed among these distances:
22 1 0.01
23 5 0.05
24 86 0.86
25 8 0.08
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.23
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:114048440 original size:24 final size:24
Alignment explanation
Indices: 114048407--114048468 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
114048397 TCCAAATCAA
* *
114048407 CACACATAGTGCCATTCAATTCCG
1 CACACATAGTGCCATTCAAATCCC
*
114048431 TACACATAGTGCCATTCAAATCCC
1 CACACATAGTGCCATTCAAATCCC
*
114048455 CACACTTAGTGCCA
1 CACACATAGTGCCA
114048469 ATGTTGACCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.34, G:0.11, T:0.24
Consensus pattern (24 bp):
CACACATAGTGCCATTCAAATCCC
Found at i:114052516 original size:146 final size:145
Alignment explanation
Indices: 114052354--114053187 Score: 1130
Period size: 145 Copynumber: 5.8 Consensus size: 145
114052344 ATATGAAAAT
*
114052354 AAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAAATATAAAAAAATACTTAAAT
1 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATAT-AAAAAATACTTAAAT
*
114052419 AATACATTTGAAATATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTT
65 AATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTT
114052484 AAAAAATAAGATACAA
130 AAAAAATAAGATACAA
*
114052500 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATA
1 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAATACTTAAATA
* *
114052565 ATACATTTGAAACATTATGTATTAAAATAATATGAAGAAATAAAATACGAAAATAATATATTTTA
66 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTA
114052630 AAAAATAAGATACGAA
131 AAAAATAAGATAC-AA
* ** * *
114052646 AAAAATACGAAGAAAGTG-TCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAAACAATTAC
1 AAAAATACGAATAAAGTGCT-AAAATCAGGGTTATTTATTAAAAAAATATAAAAAATAC--TTAA
* * * * *
114052710 ATAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAATATACGAAAAT-A-ATA--
63 ATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATT
114052771 -T-----AT--G----AA
128 TTAAAAAATAAGATACAA
* * *
114052777 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTTAAAAAACATAAAAAACACTTAAATA
1 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAATACTTAAATA
* *
114052842 ATACATTTGAACCATTATGTACTAAAATAATATAAAGAAATAAAATACAAAAATAATATATTTTA
66 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTA
*
114052907 AAAAATAAGATACGA
131 AAAAATAAGATACAA
* * *
114052922 AAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATATAAATAATACTTAAATA
1 AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAATACTTAAATA
* * *
114052987 ATACATTTGAAACATTATGTACTATAATAATATGAAGAAATAAAATACAAAAATAATATATTTTA
66 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTA
*
114053052 AAAAATAAGATATGAA
131 AAAAATAAGATA-CAA
* ** * *
114053068 AAAAATACGAAGAAAGTG-TCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACA
1 AAAAATACGAATAAAGTGCT-AAAATCAGGGTTATTTATTAAAAAAATAT-AAAAAATACTTAAA
* * * *
114053132 TAATACATTTGAAACATTTTTTGCTAAAATAATATAAA-AAATAATATACGAAAATA
64 TAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATA
114053188 TTTTACTTAT
Statistics
Matches: 606, Mismatches: 58, Indels: 48
0.85 0.08 0.07
Matches are distributed among these distances:
129 53 0.09
130 1 0.00
131 55 0.09
132 1 0.00
134 1 0.00
136 1 0.00
138 2 0.00
139 2 0.00
141 1 0.00
143 1 0.00
145 228 0.38
146 162 0.27
147 45 0.07
148 53 0.09
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (145 bp):
AAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAATACTTAAATA
ATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTA
AAAAATAAGATACAA
Found at i:114052777 original size:13 final size:13
Alignment explanation
Indices: 114052736--114052783 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
114052726 ATTTTTTGCT
*
114052736 AAAATAATATAAA
1 AAAATAATATAAG
*
114052749 AAAATAATATACG
1 AAAATAATATAAG
*
114052762 AAAATAATATATG
1 AAAATAATATAAG
*
114052775 AAAAAAATA
1 AAAATAATA
114052784 CGAATAAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (13 bp):
AAAATAATATAAG
Found at i:114052778 original size:26 final size:24
Alignment explanation
Indices: 114052736--114052787 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
114052726 ATTTTTTGCT
114052736 AAAATAATATAAAAAAATAATATACG
1 AAAATAATATAAAAAAA-AA-ATACG
**
114052762 AAAATAATATATGAAAAAAATACG
1 AAAATAATATAAAAAAAAAATACG
114052786 AA
1 AA
114052788 TAAAGTGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.29
25 2 0.08
26 15 0.62
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (24 bp):
AAAATAATATAAAAAAAAAATACG
Found at i:114052795 original size:277 final size:274
Alignment explanation
Indices: 114052485--114053047 Score: 853
Period size: 277 Copynumber: 2.0 Consensus size: 274
114052475 ATATATTTTA
* * *
114052485 AAAAATAAGATA-CAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATAT
1 AAAAATAATATATGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAACAT
* * * *
114052549 AAAAAATACTTAAATAATACATTTGAAACATTATGTATTAAAATAATATGAAGAAATAAAATACG
66 AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACA
*
114052614 AAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACGAAGAAAGTG-TCAAAATCAGGGTT
131 AAAATAATATATTTTAAAAAATAAGATACG-AAAAAATACAAAGAAAGTGCT-AAAATCAGGGTT
* * * * *
114052678 ATTTATT-AAATTAATATAAAAAAAACAATTACATAATACATTTGAAACATTTTTTGCTAAAATA
194 ATTTATTGAAA-AAATATAAAAAAAAC--TTAAATAATACATTTGAAACATTATGTACTAAAATA
*
114052742 ATATAAAAAAATAATATAC
256 ATATAAAAAAATAAAATAC
* *
114052761 GAAAATAATATATGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTTAAAAAACAT
1 AAAAATAATATATGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAACAT
*
114052826 AAAAAACACTTAAATAATACATTTGAACCATTATGTACTAAAATAATATAAAGAAATAAAATACA
66 AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACA
*
114052891 AAAATAATATATTTTAAAAAATAAGATACGAAAAAATACAAATAAAGTGCTAAAATCAGGGTTAT
131 AAAATAATATATTTTAAAAAATAAGATACGAAAAAATACAAAGAAAGTGCTAAAATCAGGGTTAT
* * * *
114052956 TTATTGAAAAAATATAAATAATACTTAAATAATACATTTGAAACATTATGTACTATAATAATATG
196 TTATTGAAAAAATATAAAAAAAACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATA
*
114053021 AAGAAATAAAATAC
261 AAAAAATAAAATAC
114053035 AAAAATAATATAT
1 AAAAATAATATAT
114053048 TTTAAAAAAT
Statistics
Matches: 260, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
274 59 0.23
276 58 0.22
277 143 0.55
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (274 bp):
AAAAATAATATATGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAACAT
AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATACA
AAAATAATATATTTTAAAAAATAAGATACGAAAAAATACAAAGAAAGTGCTAAAATCAGGGTTAT
TTATTGAAAAAATATAAAAAAAACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATA
AAAAAATAAAATAC
Found at i:114053298 original size:27 final size:27
Alignment explanation
Indices: 114053266--114053335 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
114053256 GACCCACAGA
*
114053266 ACTGGTGCCGCCTCTGCCAGAGGCAAC
1 ACTGGTGCCGCCTCTGCCAAAGGCAAC
* *
114053293 ATTGGTGCCGCCTCTGTCAAAGGCAAC
1 ACTGGTGCCGCCTCTGCCAAAGGCAAC
*
114053320 ACTGGTGCCGTCTCTG
1 ACTGGTGCCGCCTCTG
114053336 GCACCAACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.17, C:0.33, G:0.29, T:0.21
Consensus pattern (27 bp):
ACTGGTGCCGCCTCTGCCAAAGGCAAC
Found at i:114058092 original size:12 final size:12
Alignment explanation
Indices: 114058075--114058099 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114058065 CTATGTGTTC
114058075 TTTATTTTATTT
1 TTTATTTTATTT
114058087 TTTATTTTATTT
1 TTTATTTTATTT
114058099 T
1 T
114058100 ATTTTCACAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:114062536 original size:12 final size:12
Alignment explanation
Indices: 114062519--114062543 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114062509 CTATGTGTTC
114062519 TTTATTTTATTT
1 TTTATTTTATTT
114062531 TTTATTTTATTT
1 TTTATTTTATTT
114062543 T
1 T
114062544 ATTTTCTCAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:114063408 original size:13 final size:13
Alignment explanation
Indices: 114063390--114063421 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
114063380 TTTCCAGCAA
114063390 TTATGAATTTATT
1 TTATGAATTTATT
114063403 TTATGAATTTATT
1 TTATGAATTTATT
*
114063416 TGATGA
1 TTATGA
114063422 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:114063636 original size:50 final size:50
Alignment explanation
Indices: 114063524--114063713 Score: 238
Period size: 50 Copynumber: 3.7 Consensus size: 50
114063514 AAAGAGATCC
* *
114063524 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--GAGAGGTCT
* *
114063580 CCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGTCT
* *
114063630 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGT-CT
* *
114063681 C-TATAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
114063714 TGTTATTATC
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
50 82 0.67
51 3 0.02
52 1 0.01
53 3 0.02
55 2 0.02
56 32 0.26
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACGAGAGGTCT
Found at i:114067458 original size:165 final size:165
Alignment explanation
Indices: 114067152--114067464 Score: 364
Period size: 165 Copynumber: 1.9 Consensus size: 165
114067142 AACAAATTAA
* * * ** *
114067152 AAAAAAAAATCAATTAATTCCTTCAAGTTAAAATTTTATTCCATTGAACCTTTATGGATAATAAT
1 AAAAAAAAATCAATTAAATCCTTCAAATTAAAATTTTATTCAATTGAACCTTTATCCACAATAAT
* * * * ** * * *
114067217 TTAATCAATTTGATCTTTTCATCAACATAAATTCTTATTGCTCGATTTAATCAGACTGTTTATTC
66 TTAATCAATTTAATCTTCTCATCAACAGAAATTCTTACTAATCAATTTAAACAGACTATTTATTC
*
114067282 AGACTAAATGATAAAAAAAATTCTATTGAATTTTG
131 AGACAAAATGATAAAAAAAATTCTATTGAATTTTG
* *
114067317 AAAAAAAAATCAATTAAATCTTTTCAAATT-AATTTTTATTCAATTGAACCTTTATCCACAATAA
1 AAAAAAAAATCAATTAAATC-CTTCAAATTAAAATTTTATTCAATTGAACCTTTATCCACAATAA
* * *
114067381 TTTAATTAATTTAATC-TCTCTATCAACAGAAATAT-TTACTAATCAATTTAAACGGTCTATTTA
65 TTTAATCAATTTAATCTTCTC-ATCAACAGAAAT-TCTTACTAATCAATTTAAACAGACTATTTA
*
114067444 TTTATG-CAAAATGATAAAAAA
128 TTCA-GACAAAATGATAAAAAA
114067465 GAAATAAGTT
Statistics
Matches: 122, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
164 3 0.02
165 110 0.90
166 9 0.07
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (165 bp):
AAAAAAAAATCAATTAAATCCTTCAAATTAAAATTTTATTCAATTGAACCTTTATCCACAATAAT
TTAATCAATTTAATCTTCTCATCAACAGAAATTCTTACTAATCAATTTAAACAGACTATTTATTC
AGACAAAATGATAAAAAAAATTCTATTGAATTTTG
Found at i:114068914 original size:19 final size:19
Alignment explanation
Indices: 114068890--114068927 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
114068880 TTGAGATTGC
*
114068890 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
114068909 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
114068928 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:114075351 original size:47 final size:47
Alignment explanation
Indices: 114075245--114075434 Score: 193
Period size: 47 Copynumber: 3.9 Consensus size: 47
114075235 AATGTGATTT
* * * *
114075245 CCGTATAAGACCATAGCTGGGCTATGGCTTCGGAAAATGTGATATGTGCTT
1 CCGTATAAGACCATATCTGGGATATGGCATCGG----TGTGATATGTGCTA
*
114075296 CCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTA
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* * * *
114075343 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATACGTGAT-
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* ** * *
114075389 CCGTGTAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTG
1 CCGTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG
114075435 ACTATGTGCA
Statistics
Matches: 119, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
46 26 0.22
47 54 0.45
48 10 0.08
51 29 0.24
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (47 bp):
CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
Found at i:114079028 original size:15 final size:15
Alignment explanation
Indices: 114078980--114079029 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
114078970 GTATCTTGGG
*
114078980 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
114078995 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
114079010 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
114079025 TTTCT
1 TTTCT
114079030 CTATCTTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:114081026 original size:47 final size:47
Alignment explanation
Indices: 114080920--114081109 Score: 193
Period size: 47 Copynumber: 3.9 Consensus size: 47
114080910 AATGTGATTT
* * * *
114080920 CCGTATAAGACCATAGCTGGGCTATGGCTTCGGAAAATGTGATATGTGCTT
1 CCGTATAAGACCATATCTGGGATATGGCATCGG----TGTGATATGTGCTA
*
114080971 CCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTA
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* * * *
114081018 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATACGTGAT-
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* ** * *
114081064 CCGTGTAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTG
1 CCGTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG
114081110 ACTATGTGCA
Statistics
Matches: 119, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
46 26 0.22
47 54 0.45
48 10 0.08
51 29 0.24
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (47 bp):
CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
Found at i:114093463 original size:20 final size:20
Alignment explanation
Indices: 114093438--114093475 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
114093428 TTGTATTAAT
114093438 TTATCAAAATAATATAAATA
1 TTATCAAAATAATATAAATA
114093458 TTATCAAAATAATATAAA
1 TTATCAAAATAATATAAA
114093476 AAATTATAAA
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:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTATCAAAATAATATAAATA
Found at i:114094836 original size:24 final size:22
Alignment explanation
Indices: 114094808--114094864 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
114094798 ACTCTCCAAT
* *
114094808 AAATACTAAAAAGAGTATCACAAG
1 AAATACTAAAAA-A-AAGCACAAG
*
114094832 AAATA-TAAAAAAAAGCACAAT
1 AAATACTAAAAAAAAGCACAAG
114094853 AAATACTAAAAA
1 AAATACTAAAAA
114094865 TTGTCTCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 11 0.38
22 7 0.24
23 6 0.21
24 5 0.17
ACGTcount: A:0.67, C:0.11, G:0.07, T:0.16
Consensus pattern (22 bp):
AAATACTAAAAAAAAGCACAAG
Found at i:114104686 original size:131 final size:131
Alignment explanation
Indices: 114104534--114104804 Score: 382
Period size: 131 Copynumber: 2.1 Consensus size: 131
114104524 TTTAAGTAAT
* * *
114104534 TTTTAGAAGACATGAACGAAATCTT-GAAGGGATACTCGATTATTTTGAGCAAACGCGAAATTGT
1 TTTTAAAAGACATGAACGAAAT-TTCGAAGCGATACTCAATTATTTTGAGCAAACGCGAAATTGT
* * * * * *
114104598 AACCTAACACATTAGGGCACGATTCCGTGAATTACTAAATATCGAATGTCGTCTTCGTTTGGAAG
65 AACCCAACACATTAGGGCACGATTCCGCGAATTACCAAACATCAAATCTCGTCTTCGTTTGGAAG
114104663 AA
130 AA
* *
114104665 TTTTAAAAGACATGAATGAAATTTCGAAGCGATATTCAATTATTTTGAGCAAACGCGAAATTGTA
1 TTTTAAAAGACATGAACGAAATTTCGAAGCGATACTCAATTATTTTGAGCAAACGCGAAATTGTA
* * * *
114104730 ACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATCTTGTCTTCGTTTTGAAGA
66 ACCCAACACATTAGGGCACGATTCCGCGAATTACCAAACATCAAATCTCGTCTTCGTTTGGAAGA
114104795 A
131 A
*
114104796 TTTTTAAAG
1 TTTTAAAAG
114104805 GAATACTTAT
Statistics
Matches: 123, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
130 2 0.02
131 121 0.98
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (131 bp):
TTTTAAAAGACATGAACGAAATTTCGAAGCGATACTCAATTATTTTGAGCAAACGCGAAATTGTA
ACCCAACACATTAGGGCACGATTCCGCGAATTACCAAACATCAAATCTCGTCTTCGTTTGGAAGA
A
Found at i:114108414 original size:13 final size:16
Alignment explanation
Indices: 114108381--114108426 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
114108371 AAATGGACTC
114108381 TTTGGACTTATTTATT
1 TTTGGACTTATTTATT
114108397 TTTGGA-TT-TTTATT
1 TTTGGACTTATTTATT
* *
114108411 TTGGGTC-TATTTATT
1 TTTGGACTTATTTATT
114108426 T
1 T
114108427 ACAAATGAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 11 0.42
15 9 0.35
16 6 0.23
ACGTcount: A:0.15, C:0.04, G:0.15, T:0.65
Consensus pattern (16 bp):
TTTGGACTTATTTATT
Found at i:114113953 original size:10 final size:10
Alignment explanation
Indices: 114113935--114114048 Score: 56
Period size: 10 Copynumber: 11.2 Consensus size: 10
114113925 AAAATATATT
*
114113935 AAAATTTATA
1 AAAACTTATA
*
114113945 TAAACTTATAA
1 AAAACTTAT-A
*
114113956 AAAGAATTATA
1 AAA-ACTTATA
114113967 AAAACTTAT-
1 AAAACTTATA
*
114113976 GAAACTTATAA
1 AAAACTTAT-A
* *
114113987 AAAAATTTTA
1 AAAACTTATA
114113997 AAAA--TATA
1 AAAACTTATA
*
114114005 AAAATTTA-A
1 AAAACTTATA
*
114114014 TAAAACATATTTA
1 -AAAAC-T-TATA
**
114114027 AAATTTTATA
1 AAAACTTATA
114114037 AAAACTTATA
1 AAAACTTATA
114114047 AA
1 AA
114114049 TAATATAAAG
Statistics
Matches: 77, Mismatches: 17, Indels: 20
0.68 0.15 0.18
Matches are distributed among these distances:
8 7 0.09
9 9 0.12
10 36 0.47
11 15 0.19
12 9 0.12
13 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAACTTATA
Found at i:114114307 original size:19 final size:18
Alignment explanation
Indices: 114114283--114114322 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
114114273 GATATTCTCC
114114283 TTTTTATTGATAAATTATT
1 TTTTTATTGATAAATT-TT
**
114114302 TTTTTATTTTTAAATTTT
1 TTTTTATTGATAAATTTT
114114320 TTT
1 TTT
114114323 ATCTCCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTATTGATAAATTTT
Found at i:114115509 original size:15 final size:16
Alignment explanation
Indices: 114115477--114115517 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
114115467 ATTTTTTATT
114115477 TTTTGGATTTAGGGTTA
1 TTTT-GATTTAGGGTTA
114115494 TTTTGATTTA-GGTTA
1 TTTTGATTTAGGGTTA
114115509 TTTTGATTT
1 TTTTGATTT
114115518 TGATTTCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.58
16 6 0.25
17 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.22, T:0.61
Consensus pattern (16 bp):
TTTTGATTTAGGGTTA
Found at i:114115568 original size:5 final size:6
Alignment explanation
Indices: 114115508--114115674 Score: 101
Period size: 6 Copynumber: 28.7 Consensus size: 6
114115498 GATTTAGGTT
* * * * * **
114115508 ATTTTG ATTTTG ATTTCG ATTCTA ATTCTA ATTTTG ATTTTG ATTTCA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* ** **
114115556 ATTTTG A-TTTG ATTTTG ATTTTG ATTTAG -GGTT- ATTTTG -GGTT-
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* ** * * **
114115599 ATTTCG ATTTCA ATTTTG ATTTTG ACTCTG ATTTTG ATTTCA ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
** *
114115647 ATTTAA ATTTTG ATTTTG ATTTCG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTT
114115675 AGGGTTATTT
Statistics
Matches: 119, Mismatches: 37, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
5 11 0.09
6 108 0.91
ACGTcount: A:0.21, C:0.06, G:0.14, T:0.59
Consensus pattern (6 bp):
ATTTTG
Found at i:114115568 original size:17 final size:17
Alignment explanation
Indices: 114115537--114115582 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
114115527 TTCTAATTCT
114115537 AATTTTGATTTTGATTTC
1 AATTTTGA-TTTGATTTC
*
114115555 AATTTTGATTTGATTTT
1 AATTTTGATTTGATTTC
*
114115572 GATTTTGATTT
1 AATTTTGATTT
114115583 AGGGTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.63
Consensus pattern (17 bp):
AATTTTGATTTGATTTC
Found at i:114115885 original size:16 final size:16
Alignment explanation
Indices: 114115860--114115903 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
114115850 ACTGCTGTTT
*
114115860 ATTGTCTGTATCTGCC
1 ATTGTTTGTATCTGCC
*
114115876 ATTGTTTGTATCTGTC
1 ATTGTTTGTATCTGCC
*
114115892 ATTGTTTATATC
1 ATTGTTTGTATC
114115904 CTAGCTGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (16 bp):
ATTGTTTGTATCTGCC
Found at i:114123392 original size:25 final size:25
Alignment explanation
Indices: 114123360--114123427 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 25
114123350 TACGTGCTGT
114123360 TGACTATTTTTTAATATGCATGTAG
1 TGACTATTTTTTAATATGCATGTAG
*
114123385 TGAGTATTTTTTTAATAATATGCATGTAG
1 TGACTA--TTTTT--TAATATGCATGTAG
*
114123414 TGACTGTTTTTTAA
1 TGACTATTTTTTAA
114123428 GTGTGTGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 8 0.22
27 10 0.28
29 18 0.50
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (25 bp):
TGACTATTTTTTAATATGCATGTAG
Found at i:114123395 original size:26 final size:28
Alignment explanation
Indices: 114123366--114123425 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
114123356 CTGTTGACTA
*
114123366 TTTTT-TAATATGCATGTAGTGAGTATT
1 TTTTTATAATATGCATGTAGTGACTATT
*
114123393 TTTTTAATAATATGCATGTAGTGACTGTT
1 TTTTT-ATAATATGCATGTAGTGACTATT
114123422 TTTT
1 TTTT
114123426 AAGTGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
29 24 0.83
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (28 bp):
TTTTTATAATATGCATGTAGTGACTATT
Found at i:114124127 original size:21 final size:21
Alignment explanation
Indices: 114124093--114124154 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
114124083 TGTTCACAAT
* *
114124093 CAAGTGGTTTCCCCAACTCAG
1 CAAGAGGTTACCCCAACTCAG
* *
114124114 CAATAGGTTACCCCAAATCAG
1 CAAGAGGTTACCCCAACTCAG
114124135 CAAGAGAG-TACCCCAACTCA
1 CAAGAG-GTTACCCCAACTCA
114124155 ACAGGCTGCC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (21 bp):
CAAGAGGTTACCCCAACTCAG
Found at i:114126285 original size:32 final size:32
Alignment explanation
Indices: 114126249--114126310 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
114126239 GAGCAAAACA
114126249 TGCCAACTATGAAATGGTGATGGATTTAGCCC
1 TGCCAACTATGAAATGGTGATGGATTTAGCCC
114126281 TGCCAACTATGAAATGGTGATGGATTTAGC
1 TGCCAACTATGAAATGGTGATGGATTTAGC
114126311 TCTATTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (32 bp):
TGCCAACTATGAAATGGTGATGGATTTAGCCC
Found at i:114133713 original size:22 final size:23
Alignment explanation
Indices: 114133671--114133713 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
114133661 GCTATTATTT
* *
114133671 TCATTGTTTTTGTTGTTGTTTTG
1 TCATTGTTTTTGGTGTCGTTTTG
114133694 TCATTG-TTTTGGTGTCGTTT
1 TCATTGTTTTTGGTGTCGTTT
114133714 CACTATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.05, C:0.07, G:0.23, T:0.65
Consensus pattern (23 bp):
TCATTGTTTTTGGTGTCGTTTTG
Found at i:114137750 original size:15 final size:16
Alignment explanation
Indices: 114137730--114137778 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
114137720 GGTAATAAGT
114137730 AAATAA-AATAAAATA
1 AAATAATAATAAAATA
**
114137745 AAATAATTTTAAAATA
1 AAATAATAATAAAATA
*
114137761 AAA-AATAAAAAAATA
1 AAATAATAATAAAATA
114137776 AAA
1 AAA
114137779 CATATTGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 18 0.64
16 10 0.36
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATAATAATAAAATA
Found at i:114139490 original size:13 final size:13
Alignment explanation
Indices: 114139474--114139539 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
114139464 TTTAAATTAA
*
114139474 ACTTTTCAGAAGC
1 ACTTTTCAAAAGC
*
114139487 ACTTCTT-AAAAGT
1 ACTT-TTCAAAAGC
* * *
114139500 ATTTTTCCATAGC
1 ACTTTTCAAAAGC
114139513 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
114139526 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
114139539 A
1 A
114139540 TTACCAAACT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 2 0.05
13 37 0.90
14 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:114149064 original size:26 final size:27
Alignment explanation
Indices: 114149009--114149064 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
114148999 TGGGAAATGG
*
114149009 TTTACGAAAATATTTTCTATTTTCATT
1 TTTACGAAAATATTTTCTATTTTCAGT
114149036 TTTA-GAAAATAGTTTTC-A-TTTCTAGT
1 TTTACGAAAATA-TTTTCTATTTTC-AGT
114149062 TTT
1 TTT
114149065 TAAAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 4 0.15
26 13 0.50
27 9 0.35
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (27 bp):
TTTACGAAAATATTTTCTATTTTCAGT
Found at i:114156682 original size:21 final size:21
Alignment explanation
Indices: 114156656--114156696 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
114156646 AGACGAGCAA
* *
114156656 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
114156677 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
114156697 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:114161538 original size:22 final size:24
Alignment explanation
Indices: 114161510--114161556 Score: 80
Period size: 22 Copynumber: 2.0 Consensus size: 24
114161500 AATTTGAATT
114161510 TTTTTGAATATTTT-AATA-TATA
1 TTTTTGAATATTTTGAATATTATA
114161532 TTTTTGAATATTTTGAATATTATA
1 TTTTTGAATATTTTGAATATTATA
114161556 T
1 T
114161557 AGAATTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.61
23 4 0.17
24 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTTTGAATATTTTGAATATTATA
Found at i:114165824 original size:24 final size:23
Alignment explanation
Indices: 114165797--114165866 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
114165787 TTGTTAACAT
114165797 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTA-A
* * *
114165821 TGTTCATGACCATGTTCATTTAA
1 TGTTCGTGAACATGTTCAATTAA
* *
114165844 TGTTCGTAAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCAATTAA
114165867 GTTAAATGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCAATTAA
Found at i:114167497 original size:22 final size:22
Alignment explanation
Indices: 114167439--114167497 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
114167429 GAATGGTATC
114167439 TACAAATCAAATCTCTAAGATT
1 TACAAATCAAATCTCTAAGATT
*
114167461 TACAAAATCATATCTCCTAAGA-T
1 TAC-AAATCAAATCT-CTAAGATT
*
114167484 TACATATCAAATCT
1 TACAAATCAAATCT
114167498 ACGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
23 14 0.44
24 6 0.19
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.32
Consensus pattern (22 bp):
TACAAATCAAATCTCTAAGATT
Found at i:114174506 original size:30 final size:30
Alignment explanation
Indices: 114174470--114174533 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
114174460 ACTAGCAGGA
114174470 GATATATATATATATATAAAAGGAGTCTTG
1 GATATATATATATATATAAAAGGAGTCTTG
114174500 GATATATATATATATATAAAAGGAGTCTTG
1 GATATATATATATATATAAAAGGAGTCTTG
114174530 GATA
1 GATA
114174534 AGTGGATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (30 bp):
GATATATATATATATATAAAAGGAGTCTTG
Found at i:114188228 original size:22 final size:22
Alignment explanation
Indices: 114188200--114188241 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
114188190 AACATGAAGT
*
114188200 AAGAGAAGTAACCAGAGTTCTA
1 AAGAGAAGTAACCAAAGTTCTA
114188222 AAGAGAAGTAACCAAAGTTC
1 AAGAGAAGTAACCAAAGTTC
114188242 CAAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (22 bp):
AAGAGAAGTAACCAAAGTTCTA
Found at i:114202784 original size:16 final size:18
Alignment explanation
Indices: 114202763--114202795 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
114202753 AAATTTTAAG
114202763 AAATTAG-CA-AAAAAAA
1 AAATTAGACAGAAAAAAA
114202779 AAATTAGACAGAAAAAA
1 AAATTAGACAGAAAAAA
114202796 TAATAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (18 bp):
AAATTAGACAGAAAAAAA
Found at i:114203213 original size:22 final size:22
Alignment explanation
Indices: 114203188--114203231 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
114203178 TAATCTTATA
114203188 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
114203210 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
114203232 TTTTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:114203269 original size:13 final size:14
Alignment explanation
Indices: 114203251--114203292 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
114203241 TTTCAACTTT
114203251 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
114203264 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
114203279 ATTTTAAATAATAT
1 ATTTT-AATAATAT
114203293 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:114203277 original size:16 final size:16
Alignment explanation
Indices: 114203255--114203291 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
114203245 AACTTTATTT
114203255 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
114203272 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
114203287 TAATA
1 TAATA
114203292 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:114203341 original size:15 final size:15
Alignment explanation
Indices: 114203321--114203380 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
114203311 AATATTCGAT
114203321 ATAAATATTTTAATA
1 ATAAATATTTTAATA
*
114203336 ATAAATATTTATTATA
1 ATAAATATTT-TAATA
*
114203352 ATTATAAGTATATTAATA
1 A-TA-AA-TATTTTAATA
*
114203370 ATAAATGTTTT
1 ATAAATATTTT
114203381 GTAGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 14 0.39
16 7 0.19
17 4 0.11
18 7 0.19
19 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
ATAAATATTTTAATA
Found at i:114211508 original size:23 final size:22
Alignment explanation
Indices: 114211465--114211510 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
114211455 AAAATTTTAG
*
114211465 TAAATAAAAAATTATTAAATAT
1 TAAATAAAAAATAATTAAATAT
* *
114211487 TAAATTAAAAATAATATCAATAT
1 TAAATAAAAAATAAT-TAAATAT
114211510 T
1 T
114211511 TAAAAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATAAAAAATAATTAAATAT
Found at i:114212740 original size:21 final size:20
Alignment explanation
Indices: 114212710--114212748 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
114212700 TCGTAGAACC
*
114212710 TTTTAAATAATAACTAATTAA
1 TTTTAAATAA-AAATAATTAA
*
114212731 TTTTATATAAAAATAATT
1 TTTTAAATAAAAATAATT
114212749 TTATCAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAAATAAAAATAATTAA
Found at i:114214254 original size:9 final size:9
Alignment explanation
Indices: 114214240--114214270 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
114214230 CACCCTCTAG
114214240 TTTTTTCTT
1 TTTTTTCTT
114214249 TTTTTTCTTT
1 TTTTTTC-TT
114214259 TTTTTTCTT
1 TTTTTTCTT
114214268 TTT
1 TTT
114214271 AGTTTCTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:114214260 original size:10 final size:10
Alignment explanation
Indices: 114214240--114214270 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
114214230 CACCCTCTAG
114214240 TTTTTTC-TT
1 TTTTTTCTTT
114214249 TTTTTTCTTT
1 TTTTTTCTTT
114214259 TTTTTTCTTT
1 TTTTTTCTTT
114214269 TT
1 TT
114214271 AGTTTCTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:114215733 original size:19 final size:19
Alignment explanation
Indices: 114215709--114215746 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
114215699 ACAATTTAAT
114215709 TATTTATCTAA-TAAATATA
1 TATTTA-CTAATTAAATATA
114215728 TATTTACTAATTAAATATA
1 TATTTACTAATTAAATATA
114215747 AATATTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTTACTAATTAAATATA
Found at i:114225728 original size:6 final size:6
Alignment explanation
Indices: 114225717--114225742 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
114225707 ACTTAGTTCG
114225717 GATGAA GATGAA GATGAA GATGAA GA
1 GATGAA GATGAA GATGAA GATGAA GA
114225743 AGATACTGCC
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:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (6 bp):
GATGAA
Found at i:114230017 original size:34 final size:33
Alignment explanation
Indices: 114229979--114230042 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
114229969 GTAAAACAAT
*
114229979 TTAAAATAGAGG-ATATCTATATATATATAAAATA
1 TTAAAATAG-GGAATATATATATATA-ATAAAATA
*
114230013 TTAAAATAGGTAATATATATATATAATAAA
1 TTAAAATAGGGAATATATATATATAATAAA
114230043 CACTATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 6 0.22
34 21 0.78
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.36
Consensus pattern (33 bp):
TTAAAATAGGGAATATATATATATAATAAAATA
Found at i:114230166 original size:25 final size:22
Alignment explanation
Indices: 114230138--114230242 Score: 70
Period size: 21 Copynumber: 4.5 Consensus size: 22
114230128 TTAAATAAGA
114230138 ATAAGACAAGTTTAAAATAATATAT
1 ATAAGA-AA-TTTAAAATAA-ATAT
114230163 ATAAAGAAATTTAAAATAAATAT
1 AT-AAGAAATTTAAAATAAATAT
*** *
114230186 -TAAGAGGCTCAAAATAATAATATGT
1 ATAAGAAATTTAAAAT-A-AATA--T
* *
114230211 AAAAGAAATTTAAAAT-AATGT
1 ATAAGAAATTTAAAATAAATAT
114230232 ATAAGAAATTT
1 ATAAGAAATTT
114230243 TGAAGTAAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
21 21 0.33
22 2 0.03
23 11 0.17
24 10 0.16
25 5 0.08
26 14 0.22
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (22 bp):
ATAAGAAATTTAAAATAAATAT
Found at i:114230367 original size:24 final size:26
Alignment explanation
Indices: 114230320--114230373 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
114230310 ACACAAAGAT
114230320 TTAAAATAAATCATATATGAAAAAAA
1 TTAAAATAAATCATATATGAAAAAAA
*
114230346 TTAAAATGAAT-A-ATATGTAAAAACAA
1 TTAAAATAAATCATATATG-AAAAA-AA
114230372 TT
1 TT
114230374 TTGAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 5 0.20
25 6 0.24
26 14 0.56
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (26 bp):
TTAAAATAAATCATATATGAAAAAAA
Found at i:114230543 original size:2 final size:2
Alignment explanation
Indices: 114230538--114230566 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
114230528 AAAACTTAAA
114230538 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 A
114230567 GGTGGTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114232497 original size:19 final size:17
Alignment explanation
Indices: 114232464--114232502 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
114232454 AATATCAATA
*
114232464 AAAATATTTTTAATATT
1 AAAATATTTTTAATAAT
114232481 AAAATATTTAATTAATAAT
1 AAAATATTT--TTAATAAT
114232500 AAA
1 AAA
114232503 TTGAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATATTTTTAATAAT
Found at i:114241073 original size:16 final size:16
Alignment explanation
Indices: 114241052--114241104 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
114241042 TTGGTTCGCT
114241052 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
114241068 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
114241084 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
114241100 GTAAT
1 GTAAT
114241105 AGCAATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.40, C:0.06, G:0.34, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:114241310 original size:21 final size:20
Alignment explanation
Indices: 114241286--114241372 Score: 53
Period size: 19 Copynumber: 4.5 Consensus size: 20
114241276 AATAAGATTA
114241286 TTAATATAAATAATAAATAAT
1 TTAATATAAATAA-AAATAAT
* *
114241307 TTAATAATAATTTAAAATAA-
1 TTAAT-ATAAATAAAAATAAT
* *
114241327 TT-AT-T-ATTAAATATAAT
1 TTAATATAAATAAAAATAAT
*
114241344 TTAATA-AAA-AATATATAAT
1 TTAATATAAATAA-AAATAAT
114241363 TTAATA-AAAT
1 TTAATATAAAT
114241373 TCTTAATATA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
16 9 0.17
17 3 0.06
18 4 0.07
19 19 0.35
20 2 0.04
21 11 0.20
22 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATATAAATAAAAATAAT
Found at i:114241315 original size:11 final size:11
Alignment explanation
Indices: 114241296--114241328 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
114241286 TTAATATAAA
114241296 TAATAAATAATT
1 TAAT-AATAATT
114241308 TAATAATAATT
1 TAATAATAATT
114241319 TAA-AATAATT
1 TAATAATAATT
114241329 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:114241349 original size:24 final size:21
Alignment explanation
Indices: 114241273--114241385 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
114241263 GTTATTAAAT
114241273 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
114241295 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
114241317 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
* *
114241343 TTTAATAAA-AAAT-ATATAA
1 TTTAATAAATTATTAATATAA
*
114241362 TTTAATAAAATTCTTAATATAA
1 TTTAAT-AAATTATTAATATAA
114241384 TT
1 TT
114241386 ATTCTTATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
19 12 0.17
20 6 0.08
21 14 0.20
22 13 0.18
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:114241352 original size:29 final size:28
Alignment explanation
Indices: 114241319--114241409 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
114241309 AATAATAATT
114241319 TAAAATAATTATTATTAAATATAATTTAA
1 TAAAATAATTATTATTAAATATAATTT-A
* * *
114241348 TAAAA-AATATATAATTTAATAAAATTCT-
1 TAAAATAAT-TATTATTAAATATAATT-TA
* * *
114241376 TAATATAATTATTCTTATAT-TAATTTA
1 TAAAATAATTATTATTAAATATAATTTA
114241403 CTAAAAT
1 -TAAAAT
114241410 CATAATATAA
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 19 0.40
29 22 0.47
30 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
TAAAATAATTATTATTAAATATAATTTA
Found at i:114241362 original size:56 final size:57
Alignment explanation
Indices: 114241286--114241419 Score: 157
Period size: 56 Copynumber: 2.3 Consensus size: 57
114241276 AATAAGATTA
114241286 TTAATATAAATAATAAATAATTTAATAATAA-T-TTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAA-AATTCTTAAAATAATTATTATTAAAT-TAAT
* * * *
114241344 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATTAAT
1 TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
* *
114241400 TTACTAAAATCATAATATAA
1 TTAATAAAATAATAA-ATAA
114241420 AATAATATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
55 2 0.03
56 29 0.45
57 24 0.37
58 10 0.15
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
Found at i:114241817 original size:77 final size:77
Alignment explanation
Indices: 114241696--114241847 Score: 295
Period size: 77 Copynumber: 2.0 Consensus size: 77
114241686 TTTTTGTCCA
114241696 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
1 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
114241761 ATTGACATAACT
66 ATTGACATAACT
*
114241773 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATGTATAAAATTTT
1 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
114241838 ATTGACATAA
66 ATTGACATAA
114241848 AACTTTAAGA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (77 bp):
CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
ATTGACATAACT
Found at i:114244405 original size:51 final size:52
Alignment explanation
Indices: 114244323--114244425 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 52
114244313 GCAGTGAATT
114244323 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGA
114244375 TCAAAAACCACAAC-AAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGA
1 TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGA
114244426 GAGAATAGGT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 37 0.73
52 14 0.27
ACGTcount: A:0.59, C:0.16, G:0.19, T:0.06
Consensus pattern (52 bp):
TCAAAAACCACAACAAAATGACAGGGAAAAAATGAAAAAAGAGACCGAGAGA
Found at i:114247838 original size:37 final size:38
Alignment explanation
Indices: 114247774--114247846 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
114247764 ATTCATATAA
* *
114247774 TAATAATTATATTAAAAATATTATTAAATTATATTTAG
1 TAATAATTATATTAAAAATATGATTAAAATATATTTAG
* *
114247812 TAATAATTATGTT-AAAATATGGTTAAAATATATTT
1 TAATAATTATATTAAAAATATGATTAAAATATATTT
114247847 TTAAATAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 19 0.61
38 12 0.39
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (38 bp):
TAATAATTATATTAAAAATATGATTAAAATATATTTAG
Found at i:114248056 original size:16 final size:16
Alignment explanation
Indices: 114248035--114248089 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
114248025 TGAGTTATTG
*
114248035 ATTACAACTTTATTCC
1 ATTACAGCTTTATTCC
*
114248051 ATTACAGCTTTATTCA
1 ATTACAGCTTTATTCC
*
114248067 ATTACAGCCTTATTCC
1 ATTACAGCTTTATTCC
114248083 ATTACAG
1 ATTACAG
114248090 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACAGCTTTATTCC
Found at i:114257490 original size:12 final size:12
Alignment explanation
Indices: 114257473--114257499 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
114257463 TGCTTTTATT
114257473 AAAAATTATAAA
1 AAAAATTATAAA
114257485 AAAAATTATAAA
1 AAAAATTATAAA
114257497 AAA
1 AAA
114257500 TTAAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:114257573 original size:10 final size:9
Alignment explanation
Indices: 114257548--114257667 Score: 50
Period size: 9 Copynumber: 12.4 Consensus size: 9
114257538 AATAAAAAAT
114257548 TAAAATATTA
1 TAAAAT-TTA
114257558 -AAAATTTGA
1 TAAAATTT-A
114257567 TAAAATTTA
1 TAAAATTTA
*
114257576 TAAAATAATA
1 TAAAAT-TTA
* *
114257586 GAAAAATCGTA
1 -TAAAAT-TTA
114257597 -AAAATATATA
1 TAAAAT-T-TA
*
114257607 TAAAAATTA
1 TAAAATTTA
114257616 TAAAATTTTA
1 TAAAA-TTTA
*
114257626 TAAAAATCGTAA
1 T-AAAAT--TTA
*
114257638 AAAAATTTA
1 TAAAATTTA
114257647 TAAAA--TA
1 TAAAATTTA
114257654 TAAAATTCTA
1 TAAAATT-TA
114257664 TAAA
1 TAAA
114257668 GTCATAGAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
7 7 0.08
8 2 0.02
9 31 0.36
10 23 0.27
11 20 0.24
12 2 0.02
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (9 bp):
TAAAATTTA
Done.