Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold112
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: 1714866
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.32
Warning! 134939 characters in sequence are not A, C, G, or T
File 7 of 11
Found at i:738229 original size:18 final size:20
Alignment explanation
Indices: 738193--738235 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
738183 AAATTTTTAA
*
738193 ATATTAATAATTATTATTAT
1 ATATTAATAATTATAATTAT
738213 ATATTAA-AA-TATAATTAT
1 ATATTAATAATTATAATTAT
738231 ATATT
1 ATATT
738236 TACATTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.59
19 2 0.09
20 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTAATAATTATAATTAT
Found at i:738364 original size:3 final size:3
Alignment explanation
Indices: 738356--738393 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
738346 ATTACTGATA
738356 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
738394 GGTGATGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:740323 original size:14 final size:14
Alignment explanation
Indices: 740306--740332 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
740296 GATGTTATGT
740306 TTTTTATTTTATAA
1 TTTTTATTTTATAA
740320 TTTTTATTTTATA
1 TTTTTATTTTATA
740333 TATTATCAAT
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTATTTTATAA
Found at i:740982 original size:47 final size:47
Alignment explanation
Indices: 740913--741008 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
740903 GACATTAGAT
740913 CACAAGTTAAAATACATGATTCTAAATGTAGATTTAATTGGTGACTG
1 CACAAGTTAAAATACATGATTCTAAATGTAGATTTAATTGGTGACTG
*
740960 CACAAGTTAAAATACATGATTCTGAATGTAGATTTAATTGGTGACTG
1 CACAAGTTAAAATACATGATTCTAAATGTAGATTTAATTGGTGACTG
741007 CA
1 CA
741009 ATATGATATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (47 bp):
CACAAGTTAAAATACATGATTCTAAATGTAGATTTAATTGGTGACTG
Found at i:743627 original size:21 final size:20
Alignment explanation
Indices: 743601--743670 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
743591 AATAATGTTT
743601 ATAATAAAATTAATTATTATA
1 ATAATAAAATTAA-TATTATA
* *
743622 ATAATATAATTAAATGTTATA
1 ATAATAAAATT-AATATTATA
* * *
743643 ATGATAAGATTAA-AAT-TA
1 ATAATAAAATTAATATTATA
743661 ATAATAAAAT
1 ATAATAAAAT
743671 ATGTATTTAA
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
18 10 0.26
19 1 0.03
20 2 0.05
21 24 0.62
22 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
ATAATAAAATTAATATTATA
Found at i:743811 original size:38 final size:37
Alignment explanation
Indices: 743760--743924 Score: 140
Period size: 38 Copynumber: 4.3 Consensus size: 37
743750 ATATATGATA
* *
743760 AATAATTTAAAATTATTAAAAGAATATTTATATTAAAT
1 AATAAATTAAAATTATT-AAATAATATTTATATTAAAT
* *
743798 AATAAATTTAAATTACATTAAA-AATAATTTATAATTATATT
1 AATAAATTAAAATT--ATTAAATAAT-ATTTAT-ATTA-AAT
* *
743839 AATAATAATTAAAAATTATTAAAATTATATTTATATTAACT
1 AAT-A-AATT-AAAATTATT-AAATAATATTTATATTAAAT
*
743880 AAT-AATAAAAAATTATT-AATAATATTTATATTAAA-
1 AATAAAT-TAAAATTATTAAATAATATTTATATTAAAT
743915 AATAAATTAA
1 AATAAATTAA
743925 TAAATAAATA
Statistics
Matches: 105, Mismatches: 10, Indels: 27
0.74 0.07 0.19
Matches are distributed among these distances:
35 5 0.05
36 19 0.18
38 27 0.26
39 9 0.09
40 7 0.07
41 10 0.10
42 8 0.08
43 13 0.12
44 7 0.07
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (37 bp):
AATAAATTAAAATTATTAAATAATATTTATATTAAAT
Found at i:743833 original size:22 final size:21
Alignment explanation
Indices: 743759--743887 Score: 76
Period size: 21 Copynumber: 6.3 Consensus size: 21
743749 TATATATGAT
*
743759 AAATAATTTAAAATT-ATTAA
1 AAATAATTTATAATTAATTAA
*
743779 AAGA-ATATTTAT-ATTAAAT-A
1 AA-ATA-ATTTATAATTAATTAA
*
743799 ATA-AATTTA-AATTACATTAA
1 AAATAATTTATAATTA-ATTAA
743819 AAATAATTTATAATTATATTAA
1 AAATAATTTATAATTA-ATTAA
* * *
743841 TAATAATTAAAAATT-ATTAA
1 AAATAATTTATAATTAATTAA
* *
743861 AATTATATTTAT-ATTAACTAA
1 AAATA-ATTTATAATTAATTAA
*
743882 TAATAA
1 AAATAA
743888 AAAATTATTA
Statistics
Matches: 83, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
18 9 0.11
19 4 0.05
20 23 0.28
21 25 0.30
22 22 0.27
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (21 bp):
AAATAATTTATAATTAATTAA
Found at i:743893 original size:82 final size:79
Alignment explanation
Indices: 743760--743909 Score: 194
Period size: 82 Copynumber: 1.9 Consensus size: 79
743750 ATATATGATA
* **
743760 AATAATTTAAAATTATTAAAAGAATATTTATATTAAATAATAAATTTAAATTACATTAAAAATAA
1 AATAATTAAAAATTATTAAAAGAATATTTATATTAAATAATAAATAAAAATT--ATTAAAAAT-A
743825 TTTATAATTATATTAAT
63 TTTATAATTATATTAAT
** * *
743842 AATAATTAAAAATTATTAAAATTATATTTATATTAACTAAT-AATAAAAAATTATTAATAATATT
1 AATAATTAAAAATTATTAAAAGAATATTTATATTAAATAATAAAT-AAAAATTATTAAAAATATT
743906 TATA
65 TATA
743910 TTAAAAATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 7 0.12
80 8 0.13
81 3 0.05
82 42 0.70
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (79 bp):
AATAATTAAAAATTATTAAAAGAATATTTATATTAAATAATAAATAAAAATTATTAAAAATATTT
ATAATTATATTAAT
Found at i:743918 original size:18 final size:17
Alignment explanation
Indices: 743897--743953 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
743887 AAAAATTATT
743897 AATAATATTTATATTAAA
1 AATAA-ATTTATATTAAA
* *
743915 AATAAATTAATAAATAAA
1 AATAAATTTAT-ATTAAA
* *
743933 TATAAA-TTATTTTAAA
1 AATAAATTTATATTAAA
743949 AATAA
1 AATAA
743954 TTAAAAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 8 0.26
17 8 0.26
18 15 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAAATTTATATTAAA
Found at i:746791 original size:16 final size:16
Alignment explanation
Indices: 746744--746800 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
746734 GAAATTGATT
*
746744 AATTCGAACTCGTAAATA
1 AATTCAAACTCG-AAA-A
*
746762 AATT-AAACTTGAAAA
1 AATTCAAACTCGAAAA
*
746777 AATTCAAACTCGAAAT
1 AATTCAAACTCGAAAA
746793 AATTCAAA
1 AATTCAAA
746801 TTTAAATTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 5 0.15
16 20 0.59
17 5 0.15
18 4 0.12
ACGTcount: A:0.53, C:0.14, G:0.07, T:0.26
Consensus pattern (16 bp):
AATTCAAACTCGAAAA
Found at i:748090 original size:7 final size:7
Alignment explanation
Indices: 748078--748105 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
748068 TATAAATTAA
748078 TAAATTT
1 TAAATTT
748085 TAAATTT
1 TAAATTT
748092 TAAATTT
1 TAAATTT
748099 TAAATTT
1 TAAATTT
748106 ATTAAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAAATTT
Found at i:750127 original size:13 final size:13
Alignment explanation
Indices: 750105--750138 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
750095 TTAAATTTCG
750105 AATTTAATATAATT
1 AATTT-ATATAATT
750119 AATTTATATAATT
1 AATTTATATAATT
750132 -ATTTATA
1 AATTTATA
750139 AAAAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 8 0.40
14 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTTATATAATT
Found at i:757111 original size:24 final size:24
Alignment explanation
Indices: 757066--757111 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
757056 TATTTTTAAT
* **
757066 TTTAAATATGATATAATTATAAAA
1 TTTAAATATAATATAAAAATAAAA
757090 TTTAAATATAATATAAAAATAA
1 TTTAAATATAATATAAAAATAA
757112 TTAATATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
TTTAAATATAATATAAAAATAAAA
Found at i:757120 original size:22 final size:19
Alignment explanation
Indices: 757076--757129 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
757066 TTTAAATATG
757076 ATATAAT-TATAAAATTTAA
1 ATATAATATA-AAAATTTAA
757095 ATATAATATAAAAATAATTAA
1 ATATAATATAAAAAT--TTAA
*
757116 TATATGATATAAAA
1 -ATATAATATAAAA
757130 TAAATATATC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 12 0.40
20 2 0.07
21 4 0.13
22 12 0.40
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
ATATAATATAAAAATTTAA
Found at i:760091 original size:14 final size:14
Alignment explanation
Indices: 760042--760093 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
760032 TTAATAAATA
760042 TAATATAATATATT
1 TAATATAATATATT
760056 TAAATATAATTAATATGAT
1 T-AATATAA-T-ATAT--T
*
760075 TAATATGATATATT
1 TAATATAATATATT
760089 TAATA
1 TAATA
760094 AAAAATTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
14 7 0.22
15 7 0.22
16 5 0.16
17 5 0.16
18 6 0.19
19 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (14 bp):
TAATATAATATATT
Found at i:760343 original size:40 final size:41
Alignment explanation
Indices: 760275--760352 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 41
760265 TAACAAAAAT
* * *
760275 ATATATTTAATTTTATAATATAATTTTTAATATAAATAAAGA
1 ATATATTTAATTATATAATATAAATTTTAA-AAAAATAAAGA
*
760317 ATATCTTTAATTATA-AATA-AAATTTTAAAAAAATAA
1 ATATATTTAATTATATAATATAAATTTTAAAAAAATAA
760353 TATGTATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 7 0.22
40 8 0.25
41 4 0.12
42 13 0.41
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (41 bp):
ATATATTTAATTATATAATATAAATTTTAAAAAAATAAAGA
Found at i:760835 original size:11 final size:11
Alignment explanation
Indices: 760819--760853 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
760809 CATCATATAT
760819 ATATATATTTA
1 ATATATATTTA
760830 ATATATATTTA
1 ATATATATTTA
760841 ATATATATTTA
1 ATATATATTTA
760852 AT
1 AT
760854 TATTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATATATTTA
Found at i:760846 original size:22 final size:20
Alignment explanation
Indices: 760819--760860 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
760809 CATCATATAT
760819 ATATATATTTAATATATATTTA
1 ATATATATTTAAT-TAT-TTTA
760841 ATATATATTTAATTATTTTA
1 ATATATATTTAATTATTTTA
760861 TTAAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 3 0.15
22 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATATATTTAATTATTTTA
Found at i:761169 original size:15 final size:15
Alignment explanation
Indices: 761149--761178 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
761139 ATAATAAATT
*
761149 TTAAAAAATTATTTA
1 TTAAAAAATAATTTA
761164 TTAAAAAATAATTTA
1 TTAAAAAATAATTTA
761179 AACTGAATTA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAAAAAATAATTTA
Found at i:762112 original size:13 final size:13
Alignment explanation
Indices: 762094--762118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
762084 AGAAATTCAC
762094 AAAAAATAATTAT
1 AAAAAATAATTAT
762107 AAAAAATAATTA
1 AAAAAATAATTA
762119 CACTTTAATT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAAATAATTAT
Found at i:763580 original size:19 final size:18
Alignment explanation
Indices: 763551--763601 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
763541 TTTTATGTTG
*
763551 TAATATAATAAAAAGAAA
1 TAATATAATAAAAAAAAA
*
763569 TATATGTAATAAATAAAAAA
1 TA-ATATAATAAA-AAAAAA
763589 TAATATAATAAAA
1 TAATATAATAAAA
763602 TTATATGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 3 0.11
19 18 0.64
20 7 0.25
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (18 bp):
TAATATAATAAAAAAAAA
Found at i:763587 original size:23 final size:24
Alignment explanation
Indices: 763549--763595 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
763539 CTTTTTATGT
763549 TGTAATATAATAAAAAGA-AATATA
1 TGTAATATAATAAAAA-ATAATATA
763573 TGTAATA-AATAAAAAATAATATA
1 TGTAATATAATAAAAAATAATATA
763596 ATAAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 1 0.05
23 14 0.64
24 7 0.32
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (24 bp):
TGTAATATAATAAAAAATAATATA
Found at i:765061 original size:24 final size:23
Alignment explanation
Indices: 765009--765062 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
764999 AAATAAAATA
* *
765009 TTATTTTTACTATTTTTTTTATT
1 TTATTTTTACTATTTTCTCTATT
765032 TATATTATTTACTAATTTTCTCT-TT
1 T-TATT-TTTACT-ATTTTCTCTATT
765057 TTATTT
1 TTATTT
765063 AAAATTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 2 0.08
24 8 0.31
25 9 0.35
26 7 0.27
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (23 bp):
TTATTTTTACTATTTTCTCTATT
Found at i:765202 original size:1 final size:1
Alignment explanation
Indices: 765196--765228 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
765186 ATAATTAATC
*
765196 AAAAAAACAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
765229 GAATTCTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:765504 original size:13 final size:14
Alignment explanation
Indices: 765474--765504 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
765464 AATTAAGTTG
765474 AAATATTTTTTAAT
1 AAATATTTTTTAAT
765488 AAATATTTTTTAA-
1 AAATATTTTTTAAT
765501 AAAT
1 AAAT
765505 TAATTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AAATATTTTTTAAT
Found at i:896119 original size:16 final size:16
Alignment explanation
Indices: 896070--896124 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 16
896060 CGATTATATA
896070 ATAAAAATTATTAATAT
1 ATAAAAATTATTAA-AT
896087 ATAAAAATTTATATAAAT
1 ATAAAAA-TTAT-TAAAT
896105 ATAAATAATT-TTAAAT
1 ATAAA-AATTATTAAAT
896121 ATAA
1 ATAA
896125 TTATCATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 9 0.26
17 8 0.23
18 13 0.37
19 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAAAATTATTAAAT
Found at i:896881 original size:18 final size:18
Alignment explanation
Indices: 896823--896881 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 18
896813 ATATATAATA
* * *
896823 AAAATATATAAATATTTT
1 AAAATTTATTAATATATT
*
896841 AAAATTT-TT-ATAAATT
1 AAAATTTATTAATATATT
896857 -AAA-TTATTAATATATT
1 AAAATTTATTAATATATT
896873 AAAATTTAT
1 AAAATTTAT
896882 AAAAAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
14 2 0.06
15 5 0.16
16 11 0.34
17 4 0.12
18 10 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAAATTTATTAATATATT
Found at i:897209 original size:3 final size:3
Alignment explanation
Indices: 897195--897244 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
897185 ACTACATTAT
*
897195 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
897243 AT
1 AT
897245 TTAGAAGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:898041 original size:22 final size:22
Alignment explanation
Indices: 898016--898057 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
898006 TTTTTTTATT
898016 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATATA
*
898038 TAAATATTAATATCAAAATA
1 TAAATATTAATATAAAAATA
898058 ATTTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:898273 original size:25 final size:25
Alignment explanation
Indices: 898213--898282 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
898203 TTTTACTTTT
898213 ATTTTTATTT-AATTAAATAAATTA
1 ATTTTTATTTAAATTAAATAAATTA
* * *
898237 CTTTATCATTTAAATT-ATTAAATTTA
1 ATTT-TTATTTAAATTAAATAAA-TTA
*
898263 ATTTTTATTTAATTTAAATA
1 ATTTTTATTTAAATTAAATA
898283 TTTAAATAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
24 3 0.09
25 19 0.54
26 13 0.37
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTTTTATTTAAATTAAATAAATTA
Found at i:899565 original size:12 final size:12
Alignment explanation
Indices: 899548--899573 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
899538 CTGCAAATAC
899548 GAAAAAAAAAAA
1 GAAAAAAAAAAA
899560 GAAAAAAAAAAA
1 GAAAAAAAAAAA
899572 GA
1 GA
899574 GAGACTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
GAAAAAAAAAAA
Found at i:906630 original size:3 final size:3
Alignment explanation
Indices: 906622--906672 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
906612 AACCGTTTAC
906622 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
906670 AAT
1 AAT
906673 TCGACTTGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:908068 original size:11 final size:10
Alignment explanation
Indices: 908038--908096 Score: 56
Period size: 10 Copynumber: 6.3 Consensus size: 10
908028 TTTAAATTTA
908038 ATTATAAAAT
1 ATTATAAAAT
908048 -TTA-AAAAT
1 ATTATAAAAT
908056 ATTATAAATAT
1 ATTATAAA-AT
908067 ATTATAAAAT
1 ATTATAAAAT
* *
908077 -TT-T-TATT
1 ATTATAAAAT
908084 ATTATAAAAT
1 ATTATAAAAT
908094 ATT
1 ATT
908097 TAATTAAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
7 2 0.05
8 8 0.21
9 9 0.23
10 10 0.26
11 10 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:908088 original size:17 final size:17
Alignment explanation
Indices: 908066--908098 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
908056 ATTATAAATA
*
908066 TATTATAAAATTTTTAT
1 TATTATAAAATATTTAT
908083 TATTATAAAATATTTA
1 TATTATAAAATATTTA
908099 ATTAAGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATAAAATATTTAT
Found at i:908134 original size:33 final size:30
Alignment explanation
Indices: 908055--908117 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 30
908045 AATTTAAAAA
908055 TATTATAAATATATTATAA--AA-TTT-TTAT
1 TATTATAAA-ATATT-TAATTAAGTTTATTAT
908083 TATTATAAAATATTTAATTAAGTTTATTAT
1 TATTATAAAATATTTAATTAAGTTTATTAT
908113 TATTA
1 TATTA
908118 GTCAAATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 3 0.10
27 5 0.16
28 11 0.35
29 3 0.10
30 9 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
TATTATAAAATATTTAATTAAGTTTATTAT
Found at i:908284 original size:103 final size:103
Alignment explanation
Indices: 908164--908353 Score: 326
Period size: 103 Copynumber: 1.8 Consensus size: 103
908154 AGTTTTAATG
908164 AAAACTTTAAAATAAATATAAAATAAAGATATTTTTATCTCTTGTTTTGAAATAATAATTAATTA
1 AAAACTTTAAAATAAATATAAAATAAAGATATTTTTATCTCTTGTTTTGAAATAATAATTAATTA
* *
908229 TATAATTTTTTATTTAAAAAAGTTACCAATATTTTTAT
66 TACAATTGTTTATTTAAAAAAGTTACCAATATTTTTAT
* * *
908267 AAAATTTTAAAATAAATATAAAATTAAGATATTTTTGTCTCTTGTTTTGAAATAATAATTAATTA
1 AAAACTTTAAAATAAATATAAAATAAAGATATTTTTATCTCTTGTTTTGAAATAATAATTAATTA
*
908332 TACAATTGTTTATTTTAAAAAG
66 TACAATTGTTTATTTAAAAAAG
908354 CTAACATTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 81 1.00
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (103 bp):
AAAACTTTAAAATAAATATAAAATAAAGATATTTTTATCTCTTGTTTTGAAATAATAATTAATTA
TACAATTGTTTATTTAAAAAAGTTACCAATATTTTTAT
Found at i:941009 original size:62 final size:62
Alignment explanation
Indices: 940912--941036 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
940902 GAACTGTAGT
940912 CTTCCACCTGCAAATAGATAGTTAAAATGTTTTAAAATATAACAAAGAAAAAGCTATTTGAA
1 CTTCCACCTGCAAATAGATAGTTAAAATGTTTTAAAATATAACAAAGAAAAAGCTATTTGAA
*
940974 CTTCCACCTGCAAATAGATAGTTAAAATGTTTTAAAATATAACAACGAAAAAGCTATTTGAA
1 CTTCCACCTGCAAATAGATAGTTAAAATGTTTTAAAATATAACAAAGAAAAAGCTATTTGAA
941036 C
1 C
941037 AACTAATCAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (62 bp):
CTTCCACCTGCAAATAGATAGTTAAAATGTTTTAAAATATAACAAAGAAAAAGCTATTTGAA
Found at i:946464 original size:108 final size:108
Alignment explanation
Indices: 946269--946491 Score: 383
Period size: 108 Copynumber: 2.1 Consensus size: 108
946259 TTCATTAGCC
*
946269 TCCTTCAAGCTGTCAACTATTGGATCAGGAGTATCAATTGAAGCTTGTTTCTCGAGTTCTCCAAT
1 TCCTTCAAGCTGTCAACTACTGGATCAGGAGTATCAATTGAAGCTTGTTTCTCGAGTTCTCCAAT
** *
946334 GCCGTAATCTGGGTCACCCTTTTCCAGTCTGTCTTCTGTTGCA
66 GCCACAATCTGGCTCACCCTTTTCCAGTCTGTCTTCTGTTGCA
*
946377 TCCTTCAAGCTGTCAACTACTGGATCAGGAGTATCAATTGAAGCTTGTTTCTCGAGTTCTTCAAT
1 TCCTTCAAGCTGTCAACTACTGGATCAGGAGTATCAATTGAAGCTTGTTTCTCGAGTTCTCCAAT
* *
946442 GCCACAATCTGGCTCACTCTTTTCCATTCTGTCTTCTGTTGCA
66 GCCACAATCTGGCTCACCCTTTTCCAGTCTGTCTTCTGTTGCA
946485 TCCTTCA
1 TCCTTCA
946492 CTTCATTTTC
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (108 bp):
TCCTTCAAGCTGTCAACTACTGGATCAGGAGTATCAATTGAAGCTTGTTTCTCGAGTTCTCCAAT
GCCACAATCTGGCTCACCCTTTTCCAGTCTGTCTTCTGTTGCA
Found at i:951179 original size:15 final size:16
Alignment explanation
Indices: 951139--951180 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
951129 ATAATGAAAC
* *
951139 AAAATTGATCATACAT
1 AAAAATGATAATACAT
*
951155 AAAAAAGATAATACAT
1 AAAAATGATAATACAT
951171 -AAAATGATAA
1 AAAAATGATAA
951181 AAACTAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (16 bp):
AAAAATGATAATACAT
Found at i:951218 original size:13 final size:14
Alignment explanation
Indices: 951189--951225 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
951179 AAAAACTAAA
951189 AAAAATTAAATTAT
1 AAAAATTAAATTAT
951203 AAAAATTAAATT-T
1 AAAAATTAAATTAT
*
951216 AAAAACTAAA
1 AAAAATTAAA
951226 ACTTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAATTAAATTAT
Found at i:951668 original size:68 final size:68
Alignment explanation
Indices: 951577--951714 Score: 267
Period size: 68 Copynumber: 2.0 Consensus size: 68
951567 TCATCATAAT
951577 TTTTTATTTAAAATAAAAAATAATTAAATTTTTTTGCTTCATTATTATTTTTATTATTTTTTATA
1 TTTTTATTTAAAATAAAAAATAATTAAATTTTTTTGCTTCATTATTATTTTTATTATTTTTTATA
951642 AAA
66 AAA
*
951645 TTTTTATTTAAAATAAAAAATAATTAAATTTTTTTGCTTCATTATTTTTTTTATTATTTTTTATA
1 TTTTTATTTAAAATAAAAAATAATTAAATTTTTTTGCTTCATTATTATTTTTATTATTTTTTATA
951710 AAA
66 AAA
951713 TT
1 TT
951715 AAAATTTTAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (68 bp):
TTTTTATTTAAAATAAAAAATAATTAAATTTTTTTGCTTCATTATTATTTTTATTATTTTTTATA
AAA
Found at i:955709 original size:17 final size:16
Alignment explanation
Indices: 955689--955734 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
955679 ATATAAATAT
955689 AATATATATTTATAACA
1 AATATATATTTATAA-A
*
955706 AATATATATTAATAAA
1 AATATATATTTATAAA
*
955722 TATAT-TATTTATA
1 AATATATATTTATA
955735 TTTAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 7 0.27
16 5 0.19
17 14 0.54
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
AATATATATTTATAAA
Found at i:956632 original size:27 final size:28
Alignment explanation
Indices: 956602--956677 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 28
956592 TTTGTAAAGT
956602 AATTTAATATTTATTTTTTAACTGTT-A
1 AATTTAATATTTATTTTTTAACTGTTAA
* **
956629 AATTGTATTA-TTATTTTTT-TGTGTTAA
1 AATT-TAATATTTATTTTTTAACTGTTAA
956656 AATTTTAAT-TATTATTTTTTAA
1 AA-TTTAATAT-TTATTTTTTAA
956678 AAGTAAATCT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
26 4 0.11
27 19 0.50
28 15 0.39
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (28 bp):
AATTTAATATTTATTTTTTAACTGTTAA
Found at i:956640 original size:28 final size:29
Alignment explanation
Indices: 956612--956677 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 29
956602 AATTTAATAT
956612 TTATTTTTTAACTGTT-AAATTGT-ATTA
1 TTATTTTTTAACTGTTAAAATTGTAATTA
** *
956639 TTATTTTTT-TGTGTTAAAATTTTAATTA
1 TTATTTTTTAACTGTTAAAATTGTAATTA
956667 TTATTTTTTAA
1 TTATTTTTTAA
956678 AAGTAAATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 4 0.12
27 15 0.47
28 13 0.41
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.64
Consensus pattern (29 bp):
TTATTTTTTAACTGTTAAAATTGTAATTA
Found at i:956645 original size:26 final size:28
Alignment explanation
Indices: 956616--956674 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
956606 TAATATTTAT
956616 TTTTTAACTGTT-AAATTGT-ATTATTA
1 TTTTTAACTGTTAAAATTGTAATTATTA
*** *
956642 TTTTTTTGTGTTAAAATTTTAATTATTA
1 TTTTTAACTGTTAAAATTGTAATTATTA
956670 TTTTT
1 TTTTT
956675 TAAAAGTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.33
27 6 0.22
28 12 0.44
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (28 bp):
TTTTTAACTGTTAAAATTGTAATTATTA
Found at i:957759 original size:21 final size:24
Alignment explanation
Indices: 957734--957783 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
957724 GGTCAGTATA
957734 AAATA-AAAAAAAT-TAAAA-AAT
1 AAATAGAAAAAAATATAAAATAAT
*
957755 AAATAGTAAAAAATATAAAATAAT
1 AAATAGAAAAAAATATAAAATAAT
*
957779 CAATA
1 AAATA
957784 TTATTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.21
22 7 0.29
23 5 0.21
24 7 0.29
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (24 bp):
AAATAGAAAAAAATATAAAATAAT
Found at i:957848 original size:40 final size:40
Alignment explanation
Indices: 957761--957859 Score: 96
Period size: 41 Copynumber: 2.4 Consensus size: 40
957751 AAATAAATAG
*
957761 TAAAAAATATAAAATAATCAATATTATTTTAATATAATTA
1 TAAAAAATATAAAATAATCAATATTATTTTAATACAATTA
* *
957801 TATAAAAATA-AAAGTAATCTAAT-TTTTTTTAAAATACAATT-
1 TA-AAAAATATAAAATAATC-AATATTATTTT--AATACAATTA
957842 TAAAAAAATATTAAAATA
1 T-AAAAAATA-TAAAATA
957860 TTTTTTAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
40 16 0.33
41 18 0.38
42 9 0.19
43 5 0.10
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (40 bp):
TAAAAAATATAAAATAATCAATATTATTTTAATACAATTA
Found at i:957849 original size:41 final size:39
Alignment explanation
Indices: 957761--957851 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 39
957751 AAATAAATAG
*
957761 TAAAAAATATAAAATAATCAATATTATTTTAATATAATTA
1 TAAAAAA-ATAAAATAATCAATATTATTTTAATACAATTA
* *
957801 TATAAAAATAAAAGTAATCTAAT-TTTTTTTAAAATACAATT-
1 TAAAAAAATAAAA-TAATC-AATATTATTTT--AATACAATTA
957842 TAAAAAAATA
1 TAAAAAAATA
957852 TTAAAATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
39 6 0.14
40 17 0.40
41 12 0.28
42 8 0.19
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (39 bp):
TAAAAAAATAAAATAATCAATATTATTTTAATACAATTA
Found at i:957869 original size:20 final size:20
Alignment explanation
Indices: 957846--957886 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
957836 ACAATTTAAA
*
957846 AAAATATTAAAATATTTTTT
1 AAAATATTAAAATAATTTTT
* *
957866 AAAATTTTATAATAATTTTT
1 AAAATATTAAAATAATTTTT
957886 A
1 A
957887 TTTTTTAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAATATTAAAATAATTTTT
Found at i:957892 original size:19 final size:20
Alignment explanation
Indices: 957870--957932 Score: 76
Period size: 19 Copynumber: 3.1 Consensus size: 20
957860 TTTTTTAAAA
*
957870 TTTTATA-ATAATTTTTATT
1 TTTTATATATAATTTTAATT
957889 TTTTA-ATATAATTTTAATT
1 TTTTATATATAATTTTAATT
957908 ATTTATATATATATATTTTAATT
1 -TTT-TATATATA-ATTTTAATT
957931 TT
1 TT
957933 GCACTGCGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 1 0.03
19 16 0.42
20 3 0.08
21 2 0.05
22 7 0.18
23 9 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATATATAATTTTAATT
Found at i:961450 original size:2 final size:2
Alignment explanation
Indices: 961443--961472 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
961433 AACTTACATC
961443 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
961473 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:961527 original size:17 final size:18
Alignment explanation
Indices: 961507--961552 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
961497 AAATCTAATT
961507 AAAAACAAAA-TTTTTAA
1 AAAAACAAAATTTTTTAA
**
961524 AAAATTAAAATTTTTTAA
1 AAAAACAAAATTTTTTAA
961542 AAAAATCAAAA
1 AAAAA-CAAAA
961553 ATATTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
19 4 0.17
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAACAAAATTTTTTAA
Found at i:961544 original size:19 final size:17
Alignment explanation
Indices: 961507--961552 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
961497 AAATCTAATT
961507 AAAAA-CAAAATTTTTA
1 AAAAATCAAAATTTTTA
*
961523 AAAAATTAAAATTTTTTAA
1 AAAAATCAAAA-TTTTT-A
961542 AAAAATCAAAA
1 AAAAATCAAAA
961553 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.20
17 4 0.16
18 5 0.20
19 11 0.44
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATCAAAATTTTTA
Found at i:962030 original size:15 final size:14
Alignment explanation
Indices: 962010--962050 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
962000 AATACAAGCT
962010 TTAAACTAATTACTC
1 TTAAACTAATTAC-C
962025 TTAAACTAATTACC
1 TTAAACTAATTACC
*
962039 CTAAACCTAATT
1 TTAAA-CTAATT
962051 CCACATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAACTAATTACC
Found at i:964683 original size:16 final size:17
Alignment explanation
Indices: 964645--964685 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
964635 ATTAATTTAA
964645 TAAT-TTATTTTATTAT
1 TAATATTATTTTATTAT
964661 TAAAATATTATTTTA-TAT
1 T--AATATTATTTTATTAT
964679 TAATATT
1 TAATATT
964686 TATATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.32
18 7 0.32
19 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATATTATTTTATTAT
Found at i:964958 original size:8 final size:8
Alignment explanation
Indices: 964947--965003 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
964937 TATTTAAATA
964947 TATATAAT
1 TATATAAT
*
964955 TATATAAC
1 TATATAAT
964963 TAT-TAA-
1 TATATAAT
964969 -ATATAAT
1 TATATAAT
964976 TATGAT-AT
1 TAT-ATAAT
*
964984 AATATAAT
1 TATATAAT
964992 TATATAAAT
1 TATAT-AAT
965001 TAT
1 TAT
965004 TAAGCCTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
5 2 0.05
6 3 0.08
7 5 0.12
8 22 0.55
9 8 0.20
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (8 bp):
TATATAAT
Found at i:965374 original size:2 final size:2
Alignment explanation
Indices: 965367--965395 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
965357 AAAATCTTCC
965367 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 T
965396 GCCCCCACTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:965987 original size:28 final size:25
Alignment explanation
Indices: 965955--966012 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
965945 TTTTTAAAAT
*
965955 TTTTTAAATTAAATATATTTAAAAATAA
1 TTTTTAAATTAAA-A-A-ATAAAAATAA
**
965983 TTTTTATTTTAAAAAATAAAAATAA
1 TTTTTAAATTAAAAAATAAAAATAA
966008 TTTTT
1 TTTTT
966013 TCTTAAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 14 0.52
26 1 0.04
27 1 0.04
28 11 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTTTAAATTAAAAAATAAAAATAA
Found at i:966951 original size:6 final size:6
Alignment explanation
Indices: 966940--966978 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
966930 AAGAATATAC
* * *
966940 ATACAT ATACAT ATACAT ATATAT ATATAT ATATAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATA
966979 GTTTTCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (6 bp):
ATACAT
Found at i:966957 original size:12 final size:12
Alignment explanation
Indices: 966934--966978 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
966924 GTTTTCAAGA
*
966934 ATATACATACAT
1 ATATATATACAT
*
966946 ATACATATACAT
1 ATATATATACAT
*
966958 ATATATATATAT
1 ATATATATACAT
966970 ATATATATA
1 ATATATATA
966979 GTTTTCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATACAT
Found at i:966963 original size:4 final size:4
Alignment explanation
Indices: 966934--966978 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
966924 GTTTTCAAGA
* * * *
966934 ATAT ACAT ACAT ATAC ATAT ACAT ATAT ATAT ATAT ATAT ATAT A
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT A
966979 GTTTTCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (4 bp):
ATAT
Found at i:966963 original size:10 final size:10
Alignment explanation
Indices: 966934--966978 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
966924 GTTTTCAAGA
*
966934 ATATACATAC
1 ATATACATAT
966944 ATATACATAT
1 ATATACATAT
* *
966954 ACATATATAT
1 ATATACATAT
*
966964 ATATATATAT
1 ATATACATAT
966974 ATATA
1 ATATA
966979 GTTTTCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATACATAT
Found at i:969299 original size:21 final size:22
Alignment explanation
Indices: 969261--969301 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
969251 TAGTGTTGGA
969261 TATGTTTGTTCTCAATATTTTC
1 TATGTTTGTTCTCAATATTTTC
969283 TATGTTT-TTCTGC-ATATTT
1 TATGTTTGTTCT-CAATATTT
969302 GGAGGATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.61
Consensus pattern (22 bp):
TATGTTTGTTCTCAATATTTTC
Found at i:969632 original size:2 final size:2
Alignment explanation
Indices: 969625--969655 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
969615 TTTTTGTGGA
969625 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
969656 GCTGTTCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:971689 original size:21 final size:20
Alignment explanation
Indices: 971659--971701 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
971649 TATTATAAAA
971659 TTATTTTTAT-ATTAATATTT
1 TTATTTTTATAATTAA-ATTT
971679 TTATGTTTTATAATTAAATTT
1 TTAT-TTTTATAATTAAATTT
971700 TT
1 TT
971702 TAAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 12 0.57
22 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATTTTTATAATTAAATTT
Found at i:972031 original size:2 final size:2
Alignment explanation
Indices: 972024--972049 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
972014 TTAAAGTTAG
972024 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
972050 GTATTTTAGT
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:974526 original size:18 final size:19
Alignment explanation
Indices: 974485--974528 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
974475 TTATAATTAA
* *
974485 ATTTAAATTAAAATATATT
1 ATTTTAATTAAAATATACT
974504 ATTTTAATTAAAA-ATACT
1 ATTTTAATTAAAATATACT
974522 ATTTTAA
1 ATTTTAA
974529 GCCAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTTAATTAAAATATACT
Found at i:975065 original size:30 final size:32
Alignment explanation
Indices: 975031--975097 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 32
975021 CCGCTATAAA
* *
975031 ATTTTAAAAAATTAAAGTTA-A-TTAATAATT
1 ATTTTAAAAAATAAAAATTATATTTAATAATT
975061 ATTTTAAAAAATAAAAATTATATTTAATAATT
1 ATTTTAAAAAATAAAAATTATATTTAATAATT
975093 ATTTT
1 ATTTT
975098 TTATATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 18 0.55
31 1 0.03
32 14 0.42
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (32 bp):
ATTTTAAAAAATAAAAATTATATTTAATAATT
Found at i:975198 original size:16 final size:17
Alignment explanation
Indices: 975175--975219 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
975165 TATTTTTTTA
*
975175 TTATTTTTTATTTTATT
1 TTATTTTTAATTTTATT
*
975192 TTATTTTTAAATTT-TT
1 TTATTTTTAATTTTATT
975208 TTATTTTATAAT
1 TTATTTT-TAAT
975220 AAATATAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTTTAATTTTATT
Found at i:975354 original size:2 final size:2
Alignment explanation
Indices: 975347--975376 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
975337 TAACAGAAAC
975347 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
975377 GCTCATCACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:976512 original size:25 final size:26
Alignment explanation
Indices: 976470--976520 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
976460 TATTTTACAT
976470 ATTTTTAAATATAAATATAAAATATA
1 ATTTTTAAATATAAATATAAAATATA
* * *
976496 ATTTTTTAATA-ATATATTAAATATA
1 ATTTTTAAATATAAATATAAAATATA
976521 CAAATAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATTTTTAAATATAAATATAAAATATA
Found at i:978780 original size:1 final size:1
Alignment explanation
Indices: 978774--978798 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
978764 TTGATTAATT
978774 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
978799 CAGTTTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:983181 original size:2 final size:2
Alignment explanation
Indices: 983174--983208 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
983164 TGCACTTTGA
983174 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 A
983209 CTTTTTAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:983833 original size:12 final size:11
Alignment explanation
Indices: 983819--983881 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 11
983809 ATATTGAATT
983819 TTATTATTTTA
1 TTATTATTTTA
983830 -T-TTATCTTTA
1 TTATTAT-TTTA
*
983840 -TATT-TTTCA
1 TTATTATTTTA
983849 TTTATTATTATTA
1 -TTATTATT-TTA
983862 TTATTATTATTA
1 TTATTATT-TTA
983874 TTATTATT
1 TTATTATT
983882 ATAAGTTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
9 7 0.16
10 7 0.16
11 6 0.14
12 22 0.50
13 2 0.05
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:983858 original size:3 final size:3
Alignment explanation
Indices: 983850--983883 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
983840 TATTTTTCAT
983850 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
983884 AAGTTATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:984201 original size:25 final size:26
Alignment explanation
Indices: 984162--984219 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
984152 AAAATTCAAT
* *
984162 AAAATTAATATATTAAATAATTTTTA
1 AAAAATAATATATTAAATAATTCTTA
984188 AAAAATAATA-ATTAAATAATTCTTA
1 AAAAATAATATATTAAATAATTCTTA
*
984213 AATAATA
1 AAAAATA
984220 CTTACAGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
AAAAATAATATATTAAATAATTCTTA
Found at i:984223 original size:11 final size:11
Alignment explanation
Indices: 984190--984223 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
984180 AATTTTTAAA
*
984190 AAATAATAATT
1 AAATAATACTT
*
984201 AAATAATTCTT
1 AAATAATACTT
984212 AAATAATACTT
1 AAATAATACTT
984223 A
1 A
984224 CAGATATATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATAATACTT
Found at i:984590 original size:5 final size:5
Alignment explanation
Indices: 984582--984616 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
984572 AGAAAAGAAA
984582 AAAAT AAAAAT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT AAA
984617 GTGCAAAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:984798 original size:20 final size:21
Alignment explanation
Indices: 984770--984824 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
984760 TAATGTTTCA
* *
984770 ATTAATTTATAAT-TATAAAT
1 ATTATTTTAAAATATATAAAT
* *
984790 ATTATTTTAAAATATTTAATT
1 ATTATTTTAAAATATATAAAT
984811 ATTATTTTAAAATA
1 ATTATTTTAAAATA
984825 ATTTTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 11 0.37
21 19 0.63
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTATTTTAAAATATATAAAT
Found at i:988757 original size:2 final size:2
Alignment explanation
Indices: 988752--988783 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
988742 CACGTGTGTG
988752 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
988784 AATTTCTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:988899 original size:20 final size:23
Alignment explanation
Indices: 988858--988903 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
988848 TATAAAAATT
988858 AAAAATAATACATATTATTTTTA
1 AAAAATAATACATATTATTTTTA
988881 AAAAATAATA-A-ATTA-TTTTA
1 AAAAATAATACATATTATTTTTA
988901 AAA
1 AAA
988904 TTTTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.35
21 4 0.17
22 1 0.04
23 10 0.43
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAAATAATACATATTATTTTTA
Found at i:988909 original size:30 final size:30
Alignment explanation
Indices: 988874--988931 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
988864 AATACATATT
* *
988874 ATTTTTAAAAAATAATAAATTAT-TTTAAA
1 ATTTTTTAAAAATAAAAAATTATCTTTAAA
988903 ATTTTTTAAAAATAAAAAATTATCTTTAA
1 ATTTTTTAAAAATAAAAAATTATCTTTAA
988932 TGATCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (30 bp):
ATTTTTTAAAAATAAAAAATTATCTTTAAA
Found at i:993001 original size:31 final size:30
Alignment explanation
Indices: 992941--993001 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
992931 TTATTATTTA
**
992941 ATAATAAATATAATTAAATTAAATTTAATT
1 ATAATAAATATAATTAAATTAAAAATAATT
*
992971 ATAA-AAATATAATATTAATATAAAAATAATT
1 ATAATAAATATAAT-TAAAT-TAAAAATAATT
993002 TTTTTATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 9 0.35
30 8 0.31
31 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
ATAATAAATATAATTAAATTAAAAATAATT
Found at i:994229 original size:20 final size:20
Alignment explanation
Indices: 994206--994262 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
994196 AAATATTACA
*
994206 AATAAAATTAAAAATTAATG
1 AATAATATTAAAAATTAATG
* * * *
994226 AATACTGTTAATAATAAATG
1 AATAATATTAAAAATTAATG
*
994246 AATAATTTTAAAAATTA
1 AATAATATTAAAAATTA
994263 TGATTTAAGA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (20 bp):
AATAATATTAAAAATTAATG
Found at i:998644 original size:63 final size:62
Alignment explanation
Indices: 998566--998698 Score: 155
Period size: 63 Copynumber: 2.1 Consensus size: 62
998556 ATTTGATTTG
* **
998566 ATTTAAATTATTATTT-AATAATTAAAATTTA-TTTTT-ATTTAAATTTAATTATAAAAATATAA
1 ATTTAAATTAATATTTAAATAA-T-AAATTTAGTTTTTAATTTAAATAAAATT-TAAAAATA-AA
998628 A
62 A
* *
998629 ATTTTAATTAATATTTAAATAATAATTTTAGTTTTTAAATTTAAATAAAATTTAAAAATAAAA
1 ATTTAAATTAATATTTAAATAATAAATTTAGTTTTT-AATTTAAATAAAATTTAAAAATAAAA
998692 ATTTAAA
1 ATTTAAA
998699 ATTCTAATTC
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
62 6 0.10
63 29 0.48
64 13 0.22
65 12 0.20
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (62 bp):
ATTTAAATTAATATTTAAATAATAAATTTAGTTTTTAATTTAAATAAAATTTAAAAATAAAA
Found at i:998687 original size:13 final size:14
Alignment explanation
Indices: 998671--998699 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
998661 TTTTAAATTT
998671 AAAT-AAAATTTAA
1 AAATAAAAATTTAA
998684 AAATAAAAATTTAA
1 AAATAAAAATTTAA
998698 AA
1 AA
998700 TTCTAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAAAAATTTAA
Found at i:999186 original size:17 final size:15
Alignment explanation
Indices: 999174--999203 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
999164 AAATAAAGTA
999174 TGATTTTTTATAAAT
1 TGATTTTTTATAAAT
*
999189 TTATTTTTTATAAAT
1 TGATTTTTTATAAAT
999204 AATTATAAAT
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:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TGATTTTTTATAAAT
Found at i:1000371 original size:18 final size:18
Alignment explanation
Indices: 1000348--1000387 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1000338 TAAAGCTTTT
*
1000348 ATAAAAATAATAATAATA
1 ATAAAAATAAAAATAATA
*
1000366 ATAAAAATAAAAATAGTA
1 ATAAAAATAAAAATAATA
1000384 ATAA
1 ATAA
1000388 TATTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
ATAAAAATAAAAATAATA
Found at i:1000734 original size:60 final size:57
Alignment explanation
Indices: 1000607--1000741 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 57
1000597 TAAATATGAT
* * *
1000607 AATTCATGTATTTATATCAAATTTAAATATTATATTATATTATAATTATATTTAAAA
1 AATTCATATATTTATATCAAATTTAAACATTATATTATATTATAATAATATTTAAAA
* *
1000664 TATT-TTATATTTATAT-AAATTTTAATACATTAATAATTCATATTAT-ATAA-ATTTTAAAA
1 AATTCATATATTTATATCAAA-TTTAA-ACATT-AT-ATT-ATATTATAATAATA-TTTAAAA
1000723 AATTCATATATTTATATCA
1 AATTCATATATTTATATCA
1000742 TTTTATATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
55 3 0.05
56 15 0.24
57 7 0.11
58 3 0.05
59 16 0.25
60 18 0.29
61 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (57 bp):
AATTCATATATTTATATCAAATTTAAACATTATATTATATTATAATAATATTTAAAA
Found at i:1000753 original size:17 final size:18
Alignment explanation
Indices: 1000728--1000771 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
1000718 TAAAAAATTC
1000728 ATATATTTATATCA-TTTT
1 ATAT-TTTATATCATTTTT
*
1000746 ATATTTTA-ATTATTTTT
1 ATATTTTATATCATTTTT
1000763 ATATTTTAT
1 ATATTTTAT
1000772 TTATATAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.13
17 16 0.70
18 4 0.17
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
ATATTTTATATCATTTTT
Found at i:1000775 original size:17 final size:17
Alignment explanation
Indices: 1000742--1000775 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1000732 ATTTATATCA
1000742 TTTTATATTTTAATTAT
1 TTTTATATTTTAATTAT
*
1000759 TTTTATATTTTATTTAT
1 TTTTATATTTTAATTAT
1000776 ATAATCATAT
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATATTTTAATTAT
Found at i:1001224 original size:18 final size:17
Alignment explanation
Indices: 1001191--1001224 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1001181 ATTTTATATC
*
1001191 AAATAAAATCTAATTTA
1 AAATAAAAGCTAATTTA
1001208 AAATAAAAGCTTAATTT
1 AAATAAAAGC-TAATTT
1001225 CTATTAACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (17 bp):
AAATAAAAGCTAATTTA
Found at i:1001617 original size:3 final size:3
Alignment explanation
Indices: 1001609--1001637 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1001599 TCACTAACTT
1001609 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1001638 GATTTGTGTT
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:1002870 original size:15 final size:15
Alignment explanation
Indices: 1002844--1002890 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1002834 GTGACATAAT
1002844 ATTTAAAATTTTTTTA
1 ATTT-AAATTTTTTTA
* **
1002860 TTTTATTTTTTTTTA
1 ATTTAAATTTTTTTA
1002875 ATTTAAATTTTTTTA
1 ATTTAAATTTTTTTA
1002890 A
1 A
1002891 AAATGCTGGC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 22 0.88
16 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTAAATTTTTTTA
Found at i:1003052 original size:12 final size:12
Alignment explanation
Indices: 1003031--1003063 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1003021 AATTTTAAAA
1003031 TAAATA-TAATT
1 TAAATATTAATT
1003042 TAAATATTAATT
1 TAAATATTAATT
*
1003054 TATATATTAA
1 TAAATATTAA
1003064 AAAAATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TAAATATTAATT
Found at i:1003824 original size:3 final size:3
Alignment explanation
Indices: 1003816--1003841 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1003806 ATTTATTTAT
1003816 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1003842 TTCAATGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1004251 original size:31 final size:30
Alignment explanation
Indices: 1004176--1004252 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 30
1004166 AGGTTGAAAA
* *
1004176 TAAAAA-AAATTAAATAAATATAAAAATTT
1 TAAAAATAAATTAAATAAAAATAAAAAATT
1004205 TAAAAATAAATTTAAATAAAAATAAAATAATT
1 TAAAAATAAA-TTAAATAAAAATAAAA-AATT
* *
1004237 TAAAAGTTAATTAAAT
1 TAAAAATAAATTAAAT
1004253 TGTAAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 6 0.15
30 3 0.07
31 21 0.51
32 11 0.27
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (30 bp):
TAAAAATAAATTAAATAAAAATAAAAAATT
Found at i:1004334 original size:19 final size:20
Alignment explanation
Indices: 1004310--1004374 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
1004300 TTGGTATATA
1004310 TATTTTT-AGAGAGATTAAT
1 TATTTTTAAGAGAGATTAAT
* *
1004329 TATTTTTAAGAAAGATCAACAT
1 TATTTTTAAGAGAGAT-TA-AT
*
1004351 T-TTTTTAAAAGAGATTAAT
1 TATTTTTAAGAGAGATTAAT
1004370 TATTT
1 TATTT
1004375 CTTGTAGAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 10 0.27
20 11 0.30
21 13 0.35
22 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (20 bp):
TATTTTTAAGAGAGATTAAT
Found at i:1004344 original size:20 final size:20
Alignment explanation
Indices: 1004310--1004374 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
1004300 TTGGTATATA
*
1004310 TATTTTT-AGAGAGATTAAT
1 TATTTTTAAGAAAGATTAAT
*
1004329 TATTTTTAAGAAAGATCAACAT
1 TATTTTTAAGAAAGAT-TA-AT
1004351 T-TTTTTAA-AAGAGATTAAT
1 TATTTTTAAGAA-AGATTAAT
1004370 TATTT
1 TATTT
1004375 CTTGTAGAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 10 0.26
20 13 0.34
21 12 0.32
22 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (20 bp):
TATTTTTAAGAAAGATTAAT
Found at i:1004926 original size:16 final size:16
Alignment explanation
Indices: 1004902--1004932 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1004892 AGGTCTTTCA
1004902 AATAATAATAATAAAT
1 AATAATAATAATAAAT
*
1004918 AATAGTAATAATAAA
1 AATAATAATAATAAA
1004933 CTCCCATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AATAATAATAATAAAT
Found at i:1005318 original size:18 final size:19
Alignment explanation
Indices: 1005290--1005328 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1005280 CAATTCACAA
1005290 AAAATAATTTAAAAATAAT
1 AAAATAATTTAAAAATAAT
*
1005309 AAAA-AATTTAAAATTAAT
1 AAAATAATTTAAAAATAAT
1005327 AA
1 AA
1005329 TTAAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATAATTTAAAAATAAT
Found at i:1005779 original size:19 final size:19
Alignment explanation
Indices: 1005755--1005811 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
1005745 AAATAAATAA
1005755 AATAATTTTAATTATATTT
1 AATAATTTTAATTATATTT
1005774 AATAA-TTTATATTATATTTT
1 AATAATTTTA-ATTATA-TTT
* *
1005794 AATTATTTTATTTATATT
1 AATAATTTTAATTATATT
1005812 ATTTTTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 4 0.12
19 13 0.39
20 12 0.36
21 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AATAATTTTAATTATATTT
Found at i:1005796 original size:20 final size:19
Alignment explanation
Indices: 1005755--1005811 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
1005745 AAATAAATAA
1005755 AATAATTTTAATTATA-TTT
1 AATAATTTT-ATTATATTTT
1005774 AATAATTTATATTATATTTT
1 AATAATTT-TATTATATTTT
*
1005794 AATTATTTTATTTATATT
1 AATAATTTTA-TTATATT
1005812 ATTTTTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AATAATTTTATTATATTTT
Found at i:1006020 original size:2 final size:2
Alignment explanation
Indices: 1006013--1006046 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1006003 TTGTAAACAA
*
1006013 TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1006047 AATTGCCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:1015973 original size:2 final size:2
Alignment explanation
Indices: 1015966--1015991 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1015956 CCATAGATCC
1015966 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
1015992 TTGTATTATG
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:1016037 original size:8 final size:8
Alignment explanation
Indices: 1015969--1016073 Score: 64
Period size: 8 Copynumber: 13.8 Consensus size: 8
1015959 TAGATCCATA
*
1015969 TATATATA
1 TATATATT
*
1015977 TATATATA
1 TATATATT
1015985 TATATATT
1 TATATATT
* *
1015993 TGTATTATG
1 TATA-TATT
*
1016002 TAAATA-T
1 TATATATT
1016009 TATAT-TT
1 TATATATT
*
1016016 TA-A-AAT
1 TATATATT
1016022 TATATATT
1 TATATATT
*
1016030 TTTATATT
1 TATATATT
1016038 TATATA-T
1 TATATATT
1016045 TATAT-TT
1 TATATATT
1016052 ATATTATATT
1 -TA-TATATT
1016062 T-TAT-TT
1 TATATATT
1016068 TATATA
1 TATATA
1016074 ATATTTTAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
6 7 0.09
7 21 0.28
8 36 0.48
9 9 0.12
10 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
TATATATT
Found at i:1016071 original size:17 final size:17
Alignment explanation
Indices: 1016029--1016081 Score: 70
Period size: 17 Copynumber: 3.0 Consensus size: 17
1016019 AATTATATAT
*
1016029 TTTTATATTTATATATTA
1 TTTTATA-TTATATTTTA
1016047 TATTTATATTATATTTTA
1 T-TTTATATTATATTTTA
*
1016065 TTTTATATAATATTTTA
1 TTTTATATTATATTTTA
1016082 ATTATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 15 0.47
18 11 0.34
19 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATATTATATTTTA
Found at i:1016086 original size:16 final size:15
Alignment explanation
Indices: 1016009--1016086 Score: 61
Period size: 16 Copynumber: 4.9 Consensus size: 15
1015999 ATGTAAATAT
1016009 TATATTTTAAAATTATA
1 TATATTTT--AATTATA
1016026 TAT-TTTTATATT-TA
1 TATATTTTA-ATTATA
* *
1016040 TATATTATATTTATA
1 TATATTTTAATTATA
*
1016055 TTATATTTTATTTTATA
1 -TATATTTTA-ATTATA
1016072 TAATATTTTAATTAT
1 T-ATATTTTAATTAT
1016087 TTTTTTTAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
14 8 0.16
15 9 0.18
16 17 0.33
17 17 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATTTTAATTATA
Found at i:1016413 original size:19 final size:19
Alignment explanation
Indices: 1016381--1016444 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 19
1016371 AAGCAAATAT
1016381 AAATATA-ATATAATTATTA
1 AAATATATAT-TAATTATTA
*
1016400 AAATATATATTAATCATATTT
1 AAATATATATTAAT--TATTA
* *
1016421 AAATATATTTTATTTATATA
1 AAATATATATTAATTAT-TA
1016441 AAAT
1 AAAT
1016445 CAATTTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
19 14 0.38
20 7 0.19
21 16 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATATATTAATTATTA
Found at i:1019385 original size:2 final size:2
Alignment explanation
Indices: 1019378--1019411 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1019368 CTTAATTATT
1019378 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
1019412 AGAGCAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1020246 original size:27 final size:27
Alignment explanation
Indices: 1020188--1020247 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
1020178 TCAAATTTTT
*
1020188 AATTTTTATTAATTAAATTAAATAATAT
1 AATTTTTATTAATTAAA-TAAATAATAA
1020216 AATTTTT-TTAATATAAA-AAATAATTAA
1 AATTTTTATTAAT-TAAATAAATAA-TAA
1020243 AATTT
1 AATTT
1020248 AAATATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.21
27 12 0.41
28 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
AATTTTTATTAATTAAATAAATAATAA
Found at i:1021026 original size:26 final size:25
Alignment explanation
Indices: 1020983--1021041 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
1020973 TCTCTATTTT
* *
1020983 TTTTAAAATATTAATTTT-ATTTAA
1 TTTTAAAAAATTAATTTTCATTAAA
1021007 TCTTTAAAAAATTAATTTTTCATTAAA
1 T-TTTAAAAAATTAA-TTTTCATTAAA
1021034 TTTTAAAA
1 TTTTAAAA
1021042 CGTAGATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 1 0.03
25 12 0.40
26 11 0.37
27 6 0.20
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (25 bp):
TTTTAAAAAATTAATTTTCATTAAA
Found at i:1021139 original size:25 final size:24
Alignment explanation
Indices: 1021105--1021156 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
1021095 TATAAGATAT
*
1021105 AAATTATATA-ATATATAAAATATAA
1 AAATAATATATAT-TATAAAAT-TAA
*
1021130 AAATAATATATATTATATAATTAA
1 AAATAATATATATTATAAAATTAA
1021154 AAA
1 AAA
1021157 ATAGGTTGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 16 0.67
26 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATAATATATATTATAAAATTAA
Found at i:1023400 original size:21 final size:22
Alignment explanation
Indices: 1023365--1023406 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1023355 ATAAATAATA
* *
1023365 TTATAAGTAAAATTTTTAAATT
1 TTATAAATAAAATTTTAAAATT
1023387 TTATAAAT-AAATTTTAAAAT
1 TTATAAATAAAATTTTAAAAT
1023407 AAAGTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TTATAAATAAAATTTTAAAATT
Found at i:1023408 original size:12 final size:13
Alignment explanation
Indices: 1023381--1023409 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1023371 GTAAAATTTT
1023381 TAAATTTTATAAA
1 TAAATTTTATAAA
1023394 TAAATTTTA-AAA
1 TAAATTTTATAAA
1023406 TAAA
1 TAAA
1023410 GTGTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATTTTATAAA
Found at i:1023656 original size:21 final size:20
Alignment explanation
Indices: 1023632--1023679 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1023622 GAATCAATTG
**
1023632 AATTAAATTTTAAATTTTTAA
1 AATTAAATTTT-AATCATTAA
*
1023653 AATTTAATTTTAATCATTAA
1 AATTAAATTTTAATCATTAA
1023673 AATTAAA
1 AATTAAA
1023680 AAATATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTAAATTTTAATCATTAA
Found at i:1026297 original size:14 final size:14
Alignment explanation
Indices: 1026278--1026311 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
1026268 AAGGTATTTT
1026278 TTTTGT-ATGTTTGA
1 TTTTGTAATGTTT-A
1026292 TTTTGTAATGTTTA
1 TTTTGTAATGTTTA
1026306 TTTTGT
1 TTTTGT
1026312 TTTCTGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.15, C:0.00, G:0.18, T:0.68
Consensus pattern (14 bp):
TTTTGTAATGTTTA
Found at i:1033005 original size:19 final size:19
Alignment explanation
Indices: 1032981--1033018 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1032971 ATTAAAATAT
1032981 TATTTTAT-ATTAATATTTA
1 TATTTTATAATTAA-ATTTA
1033000 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
1033019 AATAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTTTATAATTAAATTTA
Found at i:1033122 original size:14 final size:15
Alignment explanation
Indices: 1033091--1033132 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
1033081 ATTTGTTTAA
*
1033091 AATTTAATTTATACG
1 AATTAAATTTATACG
*
1033106 AATTAAATTTAT-TG
1 AATTAAATTTATACG
*
1033120 AATTAAATATATA
1 AATTAAATTTATA
1033133 ATTTTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (15 bp):
AATTAAATTTATACG
Found at i:1033524 original size:2 final size:2
Alignment explanation
Indices: 1033517--1033552 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1033507 GCAAGTATTA
1033517 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
1033553 TAAGGAGCTG
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
Done.