Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold8
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: 6381039
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 22487 characters in sequence are not A, C, G, or T
File 16 of 33
Found at i:2224339 original size:26 final size:26
Alignment explanation
Indices: 2224310--2224399 Score: 95
Period size: 26 Copynumber: 3.7 Consensus size: 26
2224300 AAAATTACAT
2224310 AATATAATATATAATTTATATTATAA
1 AATATAATATATAATTTATATTATAA
*
2224336 AATAT--TATAT-A--TA-AATAT-A
1 AATATAATATATAATTTATATTATAA
* *
2224355 AATATAATATATCATTAATATTATAA
1 AATATAATATATAATTTATATTATAA
*
2224381 TATATAATATATAATTTAT
1 AATATAATATATAATTTAT
2224400 TTTTTAACTC
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
19 6 0.12
20 4 0.08
21 7 0.14
22 1 0.02
23 1 0.02
24 6 0.12
25 4 0.08
26 22 0.43
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (26 bp):
AATATAATATATAATTTATATTATAA
Found at i:2224340 original size:19 final size:18
Alignment explanation
Indices: 2224311--2224391 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 18
2224301 AAATTACATA
* *
2224311 ATATAATATATAATTTAT
1 ATATAAAATATAATATAT
*
2224329 ATTATAAAATATTATATAT
1 A-TATAAAATATAATATAT
*
2224348 AAATATAAATATAATATAT
1 ATATA-AAATATAATATAT
*
2224367 CAT-TAATATTATAATATAT
1 -ATATAA-AATATAATATAT
2224386 AATATA
1 -ATATA
2224392 TAATTTATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.10
19 42 0.84
20 3 0.06
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAAAATATAATATAT
Found at i:2224654 original size:44 final size:43
Alignment explanation
Indices: 2224599--2224689 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 43
2224589 GCTAAATAAA
*
2224599 AATAGCATGTAGGGCTTACCATCTTAATTATTAGTAGGATTAC
1 AATAGCATGTAGGGCTTACCATCTTAATTATTAGTAGAATTAC
* *
2224642 AATAGACATGTAGGGCTTACCATCTTTATTATTAGTAGAATTGC
1 AATAG-CATGTAGGGCTTACCATCTTAATTATTAGTAGAATTAC
2224686 AATA
1 AATA
2224690 AACAAAAATG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
43 5 0.11
44 39 0.89
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (43 bp):
AATAGCATGTAGGGCTTACCATCTTAATTATTAGTAGAATTAC
Found at i:2224729 original size:2 final size:2
Alignment explanation
Indices: 2224722--2224757 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2224712 GATGAAGAAA
*
2224722 AT AT AT AT AT AA 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
2224758 TTCTCTTCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2224939 original size:12 final size:12
Alignment explanation
Indices: 2224922--2224948 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2224912 CAGCAAGTTT
2224922 TATTTATATATA
1 TATTTATATATA
2224934 TATTTATATATA
1 TATTTATATATA
2224946 TAT
1 TAT
2224949 ATATTATTTG
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTTATATATA
Found at i:2224945 original size:16 final size:16
Alignment explanation
Indices: 2224920--2224953 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2224910 GCCAGCAAGT
*
2224920 TTTATTTATATATATA
1 TTTATATATATATATA
2224936 TTTATATATATATATA
1 TTTATATATATATATA
2224952 TT
1 TT
2224954 ATTTGTTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTATATATATATATA
Found at i:2225746 original size:13 final size:15
Alignment explanation
Indices: 2225719--2225756 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
2225709 ATAAAAAATT
2225719 AATTATAAATATTAA
1 AATTATAAATATTAA
2225734 AATT-TAAAT-TTAA
1 AATTATAAATATTAA
2225747 AATATATAAA
1 AAT-TATAAA
2225757 ATAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 6 0.29
15 8 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTATAAATATTAA
Found at i:2225765 original size:21 final size:21
Alignment explanation
Indices: 2225699--2225765 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 21
2225689 AGCGGTCGTG
*
2225699 ATTTAAAGATATA-AAAA-ATT
1 ATTTAAA-ATATATAAAATAAT
*
2225719 AATTATAAATAT-TAAAATTTAA-
1 ATTTA-AAATATATAAAA--TAAT
2225741 ATTTAAAATATATAAAATAAT
1 ATTTAAAATATATAAAATAAT
2225762 ATTT
1 ATTT
2225766 TTAAAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 13
0.70 0.06 0.25
Matches are distributed among these distances:
20 15 0.41
21 12 0.32
22 9 0.24
23 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (21 bp):
ATTTAAAATATATAAAATAAT
Found at i:2226218 original size:23 final size:23
Alignment explanation
Indices: 2226177--2226249 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
2226167 GTATAATTAT
2226177 AATTTTTTATTTATT-AATTAATA
1 AATTTTTTA-TTATTAAATTAATA
* *
2226200 AATTTTTTATAATTAAATTTATA
1 AATTTTTTATTATTAAATTAATA
* * *
2226223 AAATTTTAATTATTAAAATAAATA
1 AATTTTTTATTATT-AAATTAATA
2226247 AAT
1 AAT
2226250 ATAAGATTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
22 4 0.10
23 27 0.68
24 9 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTTTTATTATTAAATTAATA
Found at i:2226813 original size:20 final size:21
Alignment explanation
Indices: 2226770--2226813 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
2226760 AAAATTAGAT
* * *
2226770 TTATAAAATTATATAATATGA
1 TTATAAAATTAAATAAAATAA
2226791 TTAT-AAATTAAATAAAATAA
1 TTATAAAATTAAATAAAATAA
2226811 TTA
1 TTA
2226814 AATTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TTATAAAATTAAATAAAATAA
Found at i:2227539 original size:34 final size:34
Alignment explanation
Indices: 2227501--2227586 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
2227491 TATATCCTAT
2227501 ATTATATATTTATATAAATTTAAATTTTTTA-ATA
1 ATTATATATTTATATAAA-TTAAATTTTTTATATA
* * *
2227535 ATTATATTTTTATCATATATTAATTTTTTTATATA
1 ATTATATATTTAT-ATAAATTAAATTTTTTATATA
*
2227570 A-TATTTATATTATATAA
1 ATTATATAT-TTATATAA
2227587 TCATATTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
34 31 0.72
35 12 0.28
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (34 bp):
ATTATATATTTATATAAATTAAATTTTTTATATA
Found at i:2227922 original size:12 final size:12
Alignment explanation
Indices: 2227907--2227944 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
2227897 GAAATATCAT
*
2227907 TATATATATATA
1 TATATGTATATA
*
2227919 TATATGTATATG
1 TATATGTATATA
2227931 TATATGTATATA
1 TATATGTATATA
2227943 TA
1 TA
2227945 GTAATGTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATATGTATATA
Found at i:2229038 original size:35 final size:34
Alignment explanation
Indices: 2228961--2229052 Score: 84
Period size: 35 Copynumber: 2.7 Consensus size: 34
2228951 GATAATTTAT
* * *
2228961 ATATCTATATTTTATATAATTTTTATGTGTTTAAA
1 ATAT-TATATTTTATATAATTTTAATATGATTAAA
2228996 ATATTATATATTTATATAAATTTTAATAT-ATTAATA
1 ATATTATAT-TTTATAT-AATTTTAATATGATTAA-A
*
2229032 AT-TTATA--TTGTATAATTTTAA
1 ATATTATATTTTATATAATTTTAA
2229053 CGTATTTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
31 8 0.16
32 5 0.10
34 5 0.10
35 20 0.40
36 12 0.24
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (34 bp):
ATATTATATTTTATATAATTTTAATATGATTAAA
Found at i:2229081 original size:18 final size:17
Alignment explanation
Indices: 2228996--2229109 Score: 55
Period size: 18 Copynumber: 6.8 Consensus size: 17
2228986 TGTGTTTAAA
*
2228996 ATATTATATATT-TATAT
1 ATATTTTATATTATAT-T
*
2229013 AAATTTTA-A-TATATT
1 ATATTTTATATTATATT
* *
2229028 AATAATTTATATTGTA-T
1 -ATATTTTATATTATATT
*
2229045 A-ATTTTA-ACGTAT-TT
1 ATATTTTATA-TTATATT
2229060 ATATGTTTATATTATATT
1 ATAT-TTTATATTATATT
* *
2229078 ATATTTTTATAATATTTTT
1 ATA-TTTTATATTA-TATT
2229097 ATATTTT-TATTAT
1 ATATTTTATATTAT
2229110 TTTTTCGTAT
Statistics
Matches: 73, Mismatches: 12, Indels: 25
0.66 0.11 0.23
Matches are distributed among these distances:
14 1 0.01
15 11 0.15
16 14 0.19
17 19 0.26
18 21 0.29
19 7 0.10
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.60
Consensus pattern (17 bp):
ATATTTTATATTATATT
Found at i:2229103 original size:8 final size:8
Alignment explanation
Indices: 2229057--2229113 Score: 51
Period size: 8 Copynumber: 6.4 Consensus size: 8
2229047 TTTTAACGTA
*
2229057 TTTATATG
1 TTTATATT
2229065 TTTATATT
1 TTTATATT
2229073 ATATTATATTT
1 -T-TTATA-TT
2229084 TTATAATATT
1 TT-T-ATATT
2229094 TTTATATT
1 TTTATATT
2229102 TTTATTATT
1 TTTA-TATT
2229111 TTT
1 TTT
2229114 TCGTATATCA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
8 16 0.38
9 10 0.24
10 11 0.26
11 5 0.12
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (8 bp):
TTTATATT
Found at i:2229109 original size:11 final size:11
Alignment explanation
Indices: 2229074--2229139 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
2229064 GTTTATATTA
2229074 TATTATATTTT
1 TATTATATTTT
*
2229085 TA-TA-ATATT
1 TATTATATTTT
2229094 T-TTATATTTT
1 TATTATATTTT
*
2229104 TATTATTTTTT
1 TATTATATTTT
2229115 CGTATATCATATTTT
1 --TAT-T-ATATTTT
2229130 TATTATATTT
1 TATTATATTT
2229140 AAAATTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
9 7 0.16
10 7 0.16
11 16 0.36
12 1 0.02
13 6 0.14
14 1 0.02
15 6 0.14
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (11 bp):
TATTATATTTT
Found at i:2229113 original size:18 final size:18
Alignment explanation
Indices: 2229057--2229114 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
2229047 TTTTAACGTA
*
2229057 TTTATATGTTTA-TATTAT
1 TTTATATTTTTATTATT-T
* *
2229075 ATTATATTTTTATAATATT
1 TTTATATTTTTATTAT-TT
2229094 TTTATATTTTTATTATTT
1 TTTATATTTTTATTATTT
2229112 TTT
1 TTT
2229115 CGTATATCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 15 0.45
19 17 0.52
20 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATATTTTTATTATTT
Found at i:2229121 original size:29 final size:28
Alignment explanation
Indices: 2229059--2229138 Score: 70
Period size: 30 Copynumber: 2.7 Consensus size: 28
2229049 TTAACGTATT
2229059 TATATGTTTATATTATATTATATTTTTA
1 TATATGTTTATATTATATTATATTTTTA
* * *
2229087 TAATATTTTTATATTTTTATTATTTTTTCGTA
1 T-ATATGTTTATA-TTATATTATATTTT--TA
* *
2229119 TATCATATTTTTATTATATT
1 TAT-ATGTTTATATTATATT
2229139 TAAAATTATA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
28 1 0.02
29 10 0.24
30 12 0.29
31 8 0.20
32 10 0.24
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (28 bp):
TATATGTTTATATTATATTATATTTTTA
Found at i:2239178 original size:23 final size:23
Alignment explanation
Indices: 2239118--2239181 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
2239108 AAATTACACT
* *
2239118 ATATAAATATTA-CATAAAAATTA
1 ATATAAATATTATTA-AAAAAATA
*
2239141 AT-TAAACATAATATTAAAAAAATA
1 ATAT-AA-ATATTATTAAAAAAATA
2239165 ATATAAATATTATTAAA
1 ATATAAATATTATTAAA
2239182 TTATTAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
22 1 0.03
23 14 0.42
24 16 0.48
25 2 0.06
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
ATATAAATATTATTAAAAAAATA
Found at i:2239197 original size:17 final size:18
Alignment explanation
Indices: 2239164--2239208 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
2239154 TTAAAAAAAT
2239164 AATA-TAAATATTATTAA
1 AATATTAAATATTATTAA
*
2239181 ATTATTAAATA-TATTAA
1 AATATTAAATATTATTAA
*
2239198 AATATAAAATA
1 AATATTAAATA
2239209 AAAATATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATTAAATATTATTAA
Found at i:2239229 original size:41 final size:41
Alignment explanation
Indices: 2239135--2239235 Score: 109
Period size: 41 Copynumber: 2.4 Consensus size: 41
2239125 TATTACATAA
* *
2239135 AAATTAATTAAACATAATATTAAAAAAATAATATAAATATTATT
1 AAATTAATT-AA-AT-ATATTAAAAAAATAATAAAAATATTAAT
2239179 AAATT-ATTAAATATATTAAAATATAA-AATAAAAATA-TAAT
1 AAATTAATTAAATATATTAAAA-A-AATAATAAAAATATTAAT
*
2239219 ACATTAATTAAATATAT
1 AAATTAATTAAATATAT
2239236 CATATTAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
40 16 0.31
41 23 0.45
42 4 0.08
43 3 0.06
44 5 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (41 bp):
AAATTAATTAAATATATTAAAAAAATAATAAAAATATTAAT
Found at i:2239253 original size:24 final size:25
Alignment explanation
Indices: 2239226--2239279 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
2239216 AATACATTAA
2239226 TTAAATATATCATA-TTAATAATAT
1 TTAAATATATCATATTTAATAATAT
* * *
2239250 TTAAATATATTATATTTATTATTAT
1 TTAAATATATCATATTTAATAATAT
2239275 TTAAA
1 TTAAA
2239280 CGTGCAGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TTAAATATATCATATTTAATAATAT
Found at i:2239673 original size:22 final size:22
Alignment explanation
Indices: 2239643--2239684 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2239633 TTATTATAGT
2239643 AATA-ATTTTAAAATTAATAATA
1 AATATATTTTAAAA-TAATAATA
*
2239665 AATATTTTTTAAAATAATAA
1 AATATATTTTAAAATAATAA
2239685 AATAATAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATATATTTTAAAATAATAATA
Found at i:2239691 original size:23 final size:23
Alignment explanation
Indices: 2239648--2239691 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2239638 ATAGTAATAA
*
2239648 TTTTAAAATTAATAATAAATATT
1 TTTTAAAATTAATAAAAAATATT
2239671 TTTTAAAA-TAATAAAATAATA
1 TTTTAAAATTAATAAAA-AATA
2239692 ATGGTAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTTAAAATTAATAAAAAATATT
Found at i:2240200 original size:18 final size:19
Alignment explanation
Indices: 2240185--2240221 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2240175 TAAATTATTC
2240185 TTAAAAAACTAATTATTTA
1 TTAAAAAACTAATTATTTA
*
2240204 TTAAAAAATTAATT-TTTA
1 TTAAAAAACTAATTATTTA
2240222 AATAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAAAAACTAATTATTTA
Found at i:2240320 original size:25 final size:25
Alignment explanation
Indices: 2240283--2240372 Score: 80
Period size: 26 Copynumber: 3.6 Consensus size: 25
2240273 ATTTAAAAAT
*
2240283 TATATTTTAATTTTAATTTAATTTTA
1 TATATATT-ATTTTAATTTAATTTTA
*
2240309 TACATATTA-TTT-ATTT-ATTTATA
1 TATATATTATTTTAATTTAATTT-TA
* *
2240332 TATATATTTTTTTTAATTTAATATTTT
1 TATATA-TTATTTTAATTTAAT-TTTA
2240359 TATATATT-TTTTAA
1 TATATATTATTTTAA
2240373 ATATTAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
22 4 0.08
23 11 0.21
24 5 0.09
25 10 0.19
26 12 0.23
27 9 0.17
28 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (25 bp):
TATATATTATTTTAATTTAATTTTA
Found at i:2240333 original size:23 final size:23
Alignment explanation
Indices: 2240292--2240351 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
2240282 TTATATTTTA
*
2240292 ATTTTAATTTAATTT-TATACAT
1 ATTTTTATTTAATTTATATACAT
*
2240314 ATTATTTATTT-ATTTATATATAT
1 ATT-TTTATTTAATTTATATACAT
2240337 ATTTTT-TTTAATTTA
1 ATTTTTATTTAATTTA
2240352 ATATTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.09
22 15 0.45
23 15 0.45
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
ATTTTTATTTAATTTATATACAT
Found at i:2240346 original size:21 final size:24
Alignment explanation
Indices: 2240298--2240355 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
2240288 TTTAATTTTA
*
2240298 ATTTAATTT-TATACATATTATTT
1 ATTTAATTTATATATATATTATTT
2240321 ATTT-ATTTATATATATATT-TTT
1 ATTTAATTTATATATATATTATTT
2240343 -TTTAATTTA-ATAT
1 ATTTAATTTATATAT
2240356 TTTTATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 7 0.22
22 12 0.38
23 13 0.41
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTTAATTTATATATATATTATTT
Found at i:2240355 original size:23 final size:23
Alignment explanation
Indices: 2240283--2240355 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 23
2240273 ATTTAAAAAT
2240283 TATATTTTAATTTTAATTTAATTTTATA
1 TATATTTT--TTTTAATTTAA---TATA
*
2240311 CATATTATTTATTT-ATTT-ATATA
1 TATATT-TTT-TTTAATTTAATATA
2240334 TATATTTTTTTTAATTTAATAT
1 TATATTTTTTTTAATTTAATAT
2240356 TTTTATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
21 3 0.08
22 7 0.18
23 13 0.33
26 1 0.03
27 5 0.13
28 8 0.21
29 2 0.05
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (23 bp):
TATATTTTTTTTAATTTAATATA
Found at i:2240367 original size:17 final size:15
Alignment explanation
Indices: 2240316--2240367 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
2240306 TTATACATAT
2240316 TATTTATTTATTTATA
1 TATTTATTT-TTTATA
* *
2240332 TATATATTTTTTTTA
1 TATTTATTTTTTATA
2240347 -ATTTAATATTTTTATA
1 TATTT-AT-TTTTTATA
2240363 TATTT
1 TATTT
2240368 TTTAAATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 3 0.10
15 7 0.24
16 15 0.52
17 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTATTTTTTATA
Found at i:2241009 original size:50 final size:52
Alignment explanation
Indices: 2240947--2241047 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 52
2240937 TTTTAGTTTT
*
2240947 ATTTAATATATTAA-AA-TTATATTTATAT-TTTTAATATTTATT-TATATAAA
1 ATTTAAAATATTAATAATTTAT-TTTATATATTTTAATATTT-TTATATATAAA
2240997 ATTTAAAATATTAATAATTTATTTTATATAAATTTTAATATTTTTATATAT
1 ATTTAAAATATTAATAATTTATTTTATAT--ATTTTAATATTTTTATATAT
2241048 TTATATAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
50 13 0.30
51 9 0.20
52 4 0.09
53 2 0.05
54 16 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (52 bp):
ATTTAAAATATTAATAATTTATTTTATATATTTTAATATTTTTATATATAAA
Found at i:2241011 original size:30 final size:29
Alignment explanation
Indices: 2240977--2241060 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
2240967 ATTTATATTT
2240977 TTAATATTTATTTATATAAAATTTAAAATA
1 TTAATATTTATTTATATAAAATTT-AAATA
*
2241007 TTAATAATTTATTT-TATATAAATTTTAATA
1 TTAAT-ATTTATTTATATA-AAATTTAAATA
** * *
2241037 TTTTTATATATTTATATAATATTT
1 TTAATATTTATTTATATAAAATTT
2241061 TTATTATATT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
29 12 0.26
30 20 0.43
31 14 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
TTAATATTTATTTATATAAAATTTAAATA
Found at i:2241044 original size:18 final size:18
Alignment explanation
Indices: 2241018--2241096 Score: 70
Period size: 18 Copynumber: 4.1 Consensus size: 18
2241008 TAATAATTTA
2241018 TTTTATATAAATTTTAATAT
1 TTTTATAT-AATTTT-ATAT
*
2241038 TTTTATATATTTATATAATAT
1 TTTTATATAATT-T-T-ATAT
*
2241059 TTTTAT-TATATTTTTTAT
1 TTTTATATA-ATTTTATAT
*
2241077 TTTTATATTATTTTATAT
1 TTTTATATAATTTTATAT
2241095 TT
1 TT
2241097 AAAATTATCA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
18 19 0.38
19 5 0.10
20 12 0.24
21 14 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATATAATTTTATAT
Found at i:2241045 original size:8 final size:8
Alignment explanation
Indices: 2241028--2241096 Score: 52
Period size: 8 Copynumber: 8.5 Consensus size: 8
2241018 TTTTATATAA
*
2241028 ATTTTAAT
1 ATTTTTAT
2241036 ATTTTTAT
1 ATTTTTAT
*
2241044 ATATTTAT
1 ATTTTTAT
**
2241052 A-TAATAT
1 ATTTTTAT
*
2241059 TTTTATTAT
1 ATTT-TTAT
2241068 ATTTTT-T
1 ATTTTTAT
2241075 ATTTTTAT
1 ATTTTTAT
2241083 ATTATTTTAT
1 A-T-TTTTAT
2241093 ATTT
1 ATTT
2241097 AAAATTATCA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
7 10 0.21
8 22 0.47
9 8 0.17
10 7 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
ATTTTTAT
Found at i:2241072 original size:11 final size:11
Alignment explanation
Indices: 2241034--2241073 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
2241024 ATAAATTTTA
2241034 ATATTTTTA-T
1 ATATTTTTATT
* *
2241044 ATATTTATATA
1 ATATTTTTATT
2241055 ATATTTTTATT
1 ATATTTTTATT
2241066 ATATTTTT
1 ATATTTTT
2241074 TATTTTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATATTTTTATT
Found at i:2241176 original size:16 final size:15
Alignment explanation
Indices: 2241155--2241198 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
2241145 TAAATATTAT
2241155 CATATTTATATTTTAA
1 CATATTTATATTTT-A
* *
2241171 CATATTAATAATTTA
1 CATATTTATATTTTA
*
2241186 TATATTTATATTT
1 CATATTTATATTT
2241199 AAATTAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
CATATTTATATTTTA
Found at i:2242277 original size:28 final size:30
Alignment explanation
Indices: 2242236--2242294 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
2242226 AATGAAAAAA
2242236 ATATTTGAAGTTTT-TATTATT-AAATTAT
1 ATATTTGAAGTTTTATATTATTAAAATTAT
* * *
2242264 ATATTTTAATTTTTATATTTTTAAAATTAT
1 ATATTTGAAGTTTTATATTATTAAAATTAT
2242294 A
1 A
2242295 ATAAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 6 0.23
30 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (30 bp):
ATATTTGAAGTTTTATATTATTAAAATTAT
Found at i:2242306 original size:17 final size:20
Alignment explanation
Indices: 2242286--2242327 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 20
2242276 TTATATTTTT
2242286 AAAATTA-TAAT-AAA-TAA
1 AAAATTATTAATAAAATTAA
2242303 AAAA-TATTAATAAAATTAA
1 AAAATTATTAATAAAATTAA
2242322 AAAATT
1 AAAATT
2242328 TATTTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.10
17 8 0.38
18 3 0.14
19 7 0.33
20 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTATTAATAAAATTAA
Found at i:2242322 original size:19 final size:21
Alignment explanation
Indices: 2242300--2242353 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 21
2242290 TTATAATAAA
2242300 TAAAAAATATTA-ATAAA-AT
1 TAAAAAATATTATATAAATAT
*
2242319 TAAAAAAT-TTATTTAAATAT
1 TAAAAAATATTATATAAATAT
2242339 TAATAAAATACTTAT
1 TAA-AAAATA-TTAT
2242354 TTACTTTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 5 0.17
21 5 0.17
23 4 0.14
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAAAATATTATATAAATAT
Found at i:2242336 original size:18 final size:19
Alignment explanation
Indices: 2242296--2242336 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
2242286 AAAATTATAA
2242296 TAAA-TAAAAAATATTAAT
1 TAAATTAAAAAATATTAAT
* *
2242314 AAAATTAAAAAAT-TTATT
1 TAAATTAAAAAATATTAAT
2242332 TAAAT
1 TAAAT
2242337 ATTAATAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATTAAAAAATATTAAT
Found at i:2242384 original size:6 final size:7
Alignment explanation
Indices: 2242368--2242395 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
2242358 TTTACAATAT
2242368 AAAATTA
1 AAAATTA
2242375 AAAATTA
1 AAAATTA
2242382 AAAATTA
1 AAAATTA
2242389 AAAATTA
1 AAAATTA
2242396 TATTGTAAGT
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATTA
Found at i:2242449 original size:18 final size:19
Alignment explanation
Indices: 2242428--2242474 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
2242418 ATCATTCAAA
2242428 AATTTATTTAATA-TTATT
1 AATTTATTTAATATTTATT
**
2242446 AA-TTATTTTTTATTTATT
1 AATTTATTTAATATTTATT
*
2242464 AATTTTTTTAA
1 AATTTATTTAA
2242475 AAAATAATAA
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
17 8 0.36
18 9 0.41
19 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
AATTTATTTAATATTTATT
Found at i:2242517 original size:22 final size:23
Alignment explanation
Indices: 2242492--2242544 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
2242482 TAACTCAAAT
2242492 ATTAAATTTATTAATATAA-AAA
1 ATTAAATTTATTAATATAATAAA
* * *
2242514 ATTAATTTTTTTATTATAATAAA
1 ATTAAATTTATTAATATAATAAA
2242537 A--AAATTTA
1 ATTAAATTTA
2242545 ATAAATATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 5 0.20
22 16 0.64
23 4 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTAAATTTATTAATATAATAAA
Found at i:2243243 original size:12 final size:11
Alignment explanation
Indices: 2243214--2243267 Score: 51
Period size: 10 Copynumber: 5.2 Consensus size: 11
2243204 TTATTTTAAA
*
2243214 TAATTTATATT
1 TAATATATATT
2243225 TAATATATATT
1 TAATATATATT
**
2243236 TAA-ATATAAA
1 TAATATATATT
*
2243246 T-ATATATAAT
1 TAATATATATT
2243256 TAA-ATATATT
1 TAATATATATT
2243266 TA
1 TA
2243268 TAATTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.03
10 21 0.58
11 14 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATATATATT
Found at i:2243269 original size:20 final size:20
Alignment explanation
Indices: 2243219--2243269 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2243209 TTAAATAATT
*
2243219 TATATTTAATATATATTTAAA
1 TATATTT-ATATATAATTAAA
**
2243240 TATAAATATATATAATTAAA
1 TATATTTATATATAATTAAA
2243260 TATATTTATA
1 TATATTTATA
2243270 ATTATATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATATTTATATATAATTAAA
Found at i:2243282 original size:16 final size:16
Alignment explanation
Indices: 2243209--2243273 Score: 75
Period size: 16 Copynumber: 4.2 Consensus size: 16
2243199 TTTTATTATT
*
2243209 TTAAATA-ATTTATAT
1 TTAAATATATTTATAA
2243224 TTAATATATATTTA-AA
1 TTAA-ATATATTTATAA
2243240 TATAAATATA--TATAA
1 T-TAAATATATTTATAA
2243255 TTAAATATATTTATAA
1 TTAAATATATTTATAA
2243271 TTA
1 TTA
2243274 TATTTATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
14 10 0.23
15 7 0.16
16 18 0.42
17 8 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATATATTTATAA
Found at i:2244716 original size:2 final size:2
Alignment explanation
Indices: 2244711--2244753 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
2244701 TGTGTGTGCC
*
2244711 TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2244752 TA
1 TA
2244754 CATTGTTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2245574 original size:21 final size:21
Alignment explanation
Indices: 2245545--2245624 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 21
2245535 TTATATAAAA
*
2245545 AATATTTTATTTTTATATTTT
1 AATAATTTATTTTTATATTTT
* *
2245566 AATAATTTATATTATAAAAATTTT
1 AATAATTTAT-TT-T-TATATTTT
*
2245590 AAAAAATATTTTATTTTTATATTTT
1 ----AATAATTTATTTTTATATTTT
2245615 AATAATTTAT
1 AATAATTTAT
2245625 ATTATAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
21 18 0.40
22 2 0.04
23 1 0.02
24 6 0.13
25 6 0.13
26 1 0.02
27 2 0.04
28 9 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
AATAATTTATTTTTATATTTT
Found at i:2245576 original size:15 final size:15
Alignment explanation
Indices: 2245556--2245637 Score: 51
Period size: 15 Copynumber: 5.2 Consensus size: 15
2245546 ATATTTTATT
2245556 TTTATATTTTAATAA
1 TTTATATTTTAATAA
* *
2245571 TTTATATTATAAAAA
1 TTTATATTTTAATAA
*
2245586 TTTTAAAAAATATTTT-AT-T
1 -TTT-----ATATTTTAATAA
2245605 TTTATATTTTAATAA
1 TTTATATTTTAATAA
* *
2245620 TTTATATTATAAAAA
1 TTTATATTTTAATAA
2245635 TTT
1 TTT
2245638 TAAAAAATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
13 7 0.14
14 2 0.04
15 29 0.57
16 3 0.06
18 3 0.06
20 1 0.02
21 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTATATTTTAATAA
Found at i:2245597 original size:28 final size:28
Alignment explanation
Indices: 2245566--2245652 Score: 89
Period size: 28 Copynumber: 3.4 Consensus size: 28
2245556 TTTATATTTT
2245566 AATAATTTATATTATAAAAATTTTAAAA
1 AATAATTTATATTATAAAAATTTTAAAA
** *
2245594 AAT-ATTT-TATT-TTTATATTTT----
1 AATAATTTATATTATAAAAATTTTAAAA
2245615 AATAATTTATATTATAAAAATTTTAAAA
1 AATAATTTATATTATAAAAATTTTAAAA
*
2245643 AATATTTTAT
1 AATAATTTAT
2245653 TTTTATTATT
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
21 3 0.07
22 4 0.09
23 4 0.09
24 7 0.16
25 7 0.16
26 4 0.09
27 4 0.09
28 12 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
AATAATTTATATTATAAAAATTTTAAAA
Found at i:2245682 original size:49 final size:49
Alignment explanation
Indices: 2245540--2245676 Score: 249
Period size: 49 Copynumber: 2.8 Consensus size: 49
2245530 TCTAATTATA
2245540 TAAAAAATATTTTATTTTTATATTTTAATAATTTATATTATAAAAATTT
1 TAAAAAATATTTTATTTTTATATTTTAATAATTTATATTATAAAAATTT
2245589 TAAAAAATATTTTATTTTTATATTTTAATAATTTATATTATAAAAATTT
1 TAAAAAATATTTTATTTTTATATTTTAATAATTTATATTATAAAAATTT
2245638 TAAAAAATATTTTATTTTTATTATTTTATATAA-TTATAT
1 TAAAAAATATTTTATTTTTA-TATTTTA-ATAATTTATAT
2245677 CTAAAATTAT
Statistics
Matches: 86, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
49 69 0.80
50 13 0.15
51 4 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (49 bp):
TAAAAAATATTTTATTTTTATATTTTAATAATTTATATTATAAAAATTT
Found at i:2247326 original size:30 final size:30
Alignment explanation
Indices: 2247267--2247371 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 30
2247257 ATTACCTTTT
2247267 TATAAATAATATATAAAAAATTTTAAAAAATA
1 TATAAA-AATATATAAAAAATTTT-AAAAATA
*
2247299 TATAAAAATACATAAAAAATTTTAAAAATA
1 TATAAAAATATATAAAAAATTTTAAAAATA
*
2247329 TATAAAAATATAT-AAAAA-TGTAAAAATA
1 TATAAAAATATATAAAAAATTTTAAAAATA
* *
2247357 TATATATATATATAA
1 TATAAAAATATATAA
2247372 TATAAAATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
28 20 0.30
29 6 0.09
30 19 0.28
31 16 0.24
32 6 0.09
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (30 bp):
TATAAAAATATATAAAAAATTTTAAAAATA
Found at i:2247381 original size:10 final size:10
Alignment explanation
Indices: 2247267--2247371 Score: 92
Period size: 10 Copynumber: 10.5 Consensus size: 10
2247257 ATTACCTTTT
2247267 TATAAATAATA
1 TATAAA-AATA
2247278 TATAAAAA-A
1 TATAAAAATA
*
2247287 TTTTAAAAAATA
1 -TAT-AAAAATA
2247299 TATAAAAATA
1 TATAAAAATA
*
2247309 CATAAAAA-A
1 TATAAAAATA
*
2247318 TTTTAAAAATA
1 -TATAAAAATA
2247329 TATAAAAATA
1 TATAAAAATA
2247339 TAT-AAAA-A
1 TATAAAAATA
*
2247347 TGTAAAAATA
1 TATAAAAATA
* *
2247357 TATATATATA
1 TATAAAAATA
2247367 TATAA
1 TATAA
2247372 TATAAAATAA
Statistics
Matches: 76, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
8 3 0.04
9 10 0.13
10 48 0.63
11 14 0.18
12 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (10 bp):
TATAAAAATA
Found at i:2252952 original size:12 final size:12
Alignment explanation
Indices: 2252935--2252961 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2252925 ACATATCCGT
2252935 GTCGGACACATA
1 GTCGGACACATA
2252947 GTCGGACACATA
1 GTCGGACACATA
2252959 GTC
1 GTC
2252962 ATATCACATT
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:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (12 bp):
GTCGGACACATA
Found at i:2254957 original size:2 final size:2
Alignment explanation
Indices: 2254952--2254976 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2254942 AAAAATTATT
2254952 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2254977 TCATATAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2255597 original size:2 final size:2
Alignment explanation
Indices: 2255590--2255635 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
2255580 CAGTTTTAAA
* *
2255590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2255632 AT AT
1 AT AT
2255636 TAGATCTCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2255691 original size:2 final size:2
Alignment explanation
Indices: 2255684--2255727 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
2255674 AGTCGTGTGG
* *
2255684 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2255726 AT
1 AT
2255728 GAAGCTACGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2256257 original size:2 final size:2
Alignment explanation
Indices: 2256250--2256290 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
2256240 CATCATCAAG
* *
2256250 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2256291 GCAGTTATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2260851 original size:3 final size:3
Alignment explanation
Indices: 2260843--2260891 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
2260833 ATCGATCTTT
2260843 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2260891 T
1 T
2260892 ATTTTTTTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2261718 original size:2 final size:2
Alignment explanation
Indices: 2261711--2261744 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2261701 TGATAAGTTT
2261711 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
2261745 GATTAGTTGG
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:2263034 original size:29 final size:29
Alignment explanation
Indices: 2262980--2263035 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
2262970 ATGATAGGAA
* *
2262980 GAAAGGAAAATGGAAAGAAAATAAAAAGG
1 GAAAGGAAAAGGGAAAGAAAAGAAAAAGG
*
2263009 GAAAGGGAAAGGGACAAG-AAAGAAAAA
1 GAAAGGAAAAGGGA-AAGAAAAGAAAAA
2263036 AAAATTGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.87
30 3 0.13
ACGTcount: A:0.64, C:0.02, G:0.30, T:0.04
Consensus pattern (29 bp):
GAAAGGAAAAGGGAAAGAAAAGAAAAAGG
Found at i:2266662 original size:2 final size:2
Alignment explanation
Indices: 2266655--2266694 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2266645 TTACTCAATG
2266655 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2266695 TGTGAACACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2268255 original size:18 final size:18
Alignment explanation
Indices: 2268232--2268268 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2268222 TATCACACAT
2268232 TTTGCTCTTACCTCAGCC
1 TTTGCTCTTACCTCAGCC
*
2268250 TTTGCTCTTACCTCCGCC
1 TTTGCTCTTACCTCAGCC
2268268 T
1 T
2268269 GGACCCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.41, G:0.11, T:0.41
Consensus pattern (18 bp):
TTTGCTCTTACCTCAGCC
Found at i:2272507 original size:25 final size:26
Alignment explanation
Indices: 2272479--2272527 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
2272469 ATTTTATATT
2272479 TATTAAATGT-ATTGTTTTTTAAAAG
1 TATTAAATGTGATTGTTTTTTAAAAG
* * *
2272504 TATTACATTTGATTTTTTTTTAAA
1 TATTAAATGTGATTGTTTTTTAAA
2272528 TATTTGATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (26 bp):
TATTAAATGTGATTGTTTTTTAAAAG
Found at i:2272816 original size:2 final size:2
Alignment explanation
Indices: 2272809--2272834 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2272799 TCATTTAGTG
2272809 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
2272835 TTTTGAGTCA
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:2274887 original size:14 final size:15
Alignment explanation
Indices: 2274859--2274900 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
2274849 AATTTATATT
2274859 TTAAT-TTTAAAAAA
1 TTAATATTTAAAAAA
*
2274873 TT-ATATTTAATAAA
1 TTAATATTTAAAAAA
2274887 TTCAATATTTAAAA
1 TT-AATATTTAAAA
2274901 TCGTCCGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.09
14 12 0.52
16 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAATATTTAAAAAA
Found at i:2277014 original size:24 final size:25
Alignment explanation
Indices: 2276976--2277023 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
2276966 TATATTATTT
* *
2276976 TTTATTTTTTAAATATGTATTTTAA
1 TTTAATTTTTAAATAAGTATTTTAA
*
2277001 TTTAATTTTT-AATAAGTTTTTTA
1 TTTAATTTTTAAATAAGTATTTTA
2277024 TTAATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTAATTTTTAAATAAGTATTTTAA
Found at i:2277124 original size:20 final size:21
Alignment explanation
Indices: 2277091--2277153 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 21
2277081 ATAAGTTAAC
** *
2277091 AATTAATAAAATAAAA-GTAT
1 AATTAATATTATAAAATATAT
2277111 AATTAATATTATAAAATATAT
1 AATTAATATTATAAAATATAT
2277132 AATT-ATATTATAAAA-A-AT
1 AATTAATATTATAAAATATAT
2277150 AATT
1 AATT
2277154 TTTGTAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 6 0.15
19 1 0.03
20 25 0.64
21 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AATTAATATTATAAAATATAT
Found at i:2277386 original size:2 final size:2
Alignment explanation
Indices: 2277381--2277424 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2277371 TTTAAAAAAG
*
2277381 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2277423 AT
1 AT
2277425 TGAAGAGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2280431 original size:14 final size:15
Alignment explanation
Indices: 2280412--2280441 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2280402 TTATAAAAAA
2280412 TAATATTT-TAATTT
1 TAATATTTGTAATTT
2280426 TAATATTTGTAATTT
1 TAATATTTGTAATTT
2280441 T
1 T
2280442 TTATTTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TAATATTTGTAATTT
Found at i:2282451 original size:2 final size:2
Alignment explanation
Indices: 2282444--2282483 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2282434 CTTTAAGATA
2282444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2282484 TACCAGTCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2285351 original size:22 final size:22
Alignment explanation
Indices: 2285323--2285364 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2285313 TATTCATATA
*
2285323 TTTATATCATATTTATATTTTT
1 TTTATATCATAATTATATTTTT
*
2285345 TTTATATTATAATTATATTT
1 TTTATATCATAATTATATTT
2285365 AAAAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTATATCATAATTATATTTTT
Found at i:2285391 original size:19 final size:18
Alignment explanation
Indices: 2285367--2285448 Score: 68
Period size: 19 Copynumber: 4.7 Consensus size: 18
2285357 TTATATTTAA
2285367 AAATTTATATATTTTATAT
1 AAATTT-TATATTTTATAT
*
2285386 AAATTTTAAAATTTTA-AT
1 AAATTTT-ATATTTTATAT
2285404 -AA-TTTATA--TTATAT
1 AAATTTTATATTTTATAT
*
2285418 AAATTTTATCATATTTACAT
1 AAATTTTAT-AT-TTTATAT
2285438 AAA-TTTATATT
1 AAATTTTATATT
2285449 ATTTTTTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
13 3 0.06
14 2 0.04
15 4 0.08
16 8 0.15
17 4 0.08
18 5 0.10
19 18 0.35
20 8 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATTTTATATTTTATAT
Found at i:2285391 original size:27 final size:27
Alignment explanation
Indices: 2285361--2285412 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
2285351 TTATAATTAT
*
2285361 ATTTAAAAA-TTTATATATTTTATATAA
1 ATTTAAAAATTTTA-ATAATTTATATAA
*
2285388 ATTTTAAAATTTTAATAATTTATAT
1 ATTTAAAAATTTTAATAATTTATAT
2285413 TATATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
ATTTAAAAATTTTAATAATTTATATAA
Found at i:2285421 original size:32 final size:35
Alignment explanation
Indices: 2285380--2285450 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 35
2285370 TTTATATATT
2285380 TTATATAAATTTTAAAAT-TTTA-AT-AATTTATA
1 TTATATAAATTTTAAAATATTTACATAAATTTATA
**
2285412 TTATATAAATTTTATCATATTTACATAAATTTATA
1 TTATATAAATTTTAAAATATTTACATAAATTTATA
2285447 TTAT
1 TTAT
2285451 TTTTTATTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 16 0.47
33 4 0.12
34 2 0.06
35 12 0.35
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (35 bp):
TTATATAAATTTTAAAATATTTACATAAATTTATA
Found at i:2286481 original size:2 final size:2
Alignment explanation
Indices: 2286468--2286513 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
2286458 GAAGGGATCG
*
2286468 GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2286510 GA GA
1 GA GA
2286514 CTGCAAGAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2288551 original size:3 final size:3
Alignment explanation
Indices: 2288543--2288579 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2288533 GTCATTTCCC
2288543 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2288580 GCCTGAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2288963 original size:31 final size:33
Alignment explanation
Indices: 2288905--2288978 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 33
2288895 AATAATTTTT
2288905 TAAAATTTAATTATAAAAATATATAAAT-ATTAATA
1 TAAAATTT--TTATAAAAATATATAAATAATTAA-A
*
2288940 TAAAATTTTTA-AAAAAT-TTTAAATAATTAAA
1 TAAAATTTTTATAAAAATATATAAATAATTAAA
2288971 T-AAATTTT
1 TAAAATTTT
2288979 CAAATCGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
30 7 0.19
31 8 0.22
32 11 0.30
33 3 0.08
35 8 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
TAAAATTTTTATAAAAATATATAAATAATTAAA
Found at i:2289620 original size:5 final size:5
Alignment explanation
Indices: 2289593--2289684 Score: 58
Period size: 5 Copynumber: 19.4 Consensus size: 5
2289583 AATTTCAGAC
*
2289593 ATAAT ATAAT -T-AT ATAAT -T-AT ATAAT ATAA- A-AAT A-AATT AAAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA-T ATAAT
* *
2289637 AAAAT ATAAATT ATAAT ATATT ATAAAT ATAAT ATAA- AT-AT ATAAT
1 ATAAT AT-AA-T ATAAT ATAAT AT-AAT ATAAT ATAAT ATAAT ATAAT
2289683 AT
1 AT
2289685 TTTAAATTAT
Statistics
Matches: 72, Mismatches: 3, Indels: 24
0.73 0.03 0.24
Matches are distributed among these distances:
3 7 0.10
4 12 0.17
5 40 0.56
6 10 0.14
7 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:2289641 original size:11 final size:11
Alignment explanation
Indices: 2289616--2289683 Score: 57
Period size: 11 Copynumber: 6.0 Consensus size: 11
2289606 ATAATTATAT
2289616 AATATAAAAATA
1 AATAT-AAAATA
2289628 AAT-TAAAATAA
1 AATATAAAAT-A
*
2289639 AATATAAATTA
1 AATATAAAATA
**
2289650 TAATATATTATA
1 -AATATAAAATA
*
2289662 AATATAATATA
1 AATATAAAATA
*
2289673 AATATATAATA
1 AATATAAAATA
2289684 TTTTAAATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
10 5 0.11
11 25 0.54
12 16 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATAAAATA
Found at i:2289647 original size:17 final size:17
Alignment explanation
Indices: 2289619--2289681 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
2289609 ATTATATAAT
2289619 ATAAAA-ATAAATTAAA
1 ATAAAATATAAATTAAA
*
2289635 ATAAAATATAAATTATA
1 ATAAAATATAAATTAAA
* * *
2289652 ATATATTATAAATATAAT
1 ATAAAATATAAAT-TAAA
2289670 ATAAATATATAA
1 ATAAA-ATATAA
2289682 TATTTTAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
16 6 0.16
17 20 0.54
18 6 0.16
19 5 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAAATATAAATTAAA
Found at i:2289669 original size:16 final size:17
Alignment explanation
Indices: 2289593--2289672 Score: 63
Period size: 17 Copynumber: 4.5 Consensus size: 17
2289583 AATTTCAGAC
2289593 ATAATATAATTATATAATTAT
1 ATAATAT-ATTATA-AA-T-T
**
2289614 ATAATATAAAAATAAATT
1 ATAATAT-ATTATAAATT
* * *
2289632 AAAATAAAATATAAATT
1 ATAATATATTATAAATT
2289649 ATAATATATTATAAA-T
1 ATAATATATTATAAATT
2289665 ATAATATA
1 ATAATATA
2289673 AATATATAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
16 9 0.18
17 21 0.41
18 6 0.12
19 1 0.02
20 2 0.04
21 12 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAATATATTATAAATT
Found at i:2289695 original size:28 final size:27
Alignment explanation
Indices: 2289624--2289699 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 27
2289614 ATAATATAAA
* * *
2289624 AATAAATTAAAATAAAATATAAATTAT
1 AATATATTTAAATATAATATAAATTAT
2289651 AATATATTATAAATATAATATAAATATAT
1 AATATATT-TAAATATAATATAAAT-TAT
2289680 AATAT-TTTAAAT-T-ATATAAA
1 AATATATTTAAATATAATATAAA
2289700 ATCATCGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 7 0.16
26 1 0.02
27 12 0.27
28 16 0.36
29 8 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
AATATATTTAAATATAATATAAATTAT
Found at i:2289970 original size:28 final size:29
Alignment explanation
Indices: 2289939--2290018 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 29
2289929 TAGATTTGTA
2289939 TTATTTTTTAAATTAATTTATTTAAAA-T
1 TTATTTTTTAAATTAATTTATTTAAAATT
* * * *
2289967 TTA-TATTTAAA-AAATTAAAATTAAAATT
1 TTATTTTTTAAATTAATT-TATTTAAAATT
2289995 TTATATTTTTATAATTAAATTTAT
1 TTAT-TTTTTA-AATT-AATTTAT
2290019 ATTATTTTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
26 4 0.11
27 14 0.38
28 7 0.19
30 5 0.14
31 2 0.05
32 1 0.03
33 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TTATTTTTTAAATTAATTTATTTAAAATT
Found at i:2290026 original size:22 final size:21
Alignment explanation
Indices: 2289984--2290031 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 21
2289974 TAAAAAATTA
2289984 AAATTAAAATTTTATATTTTT
1 AAATTAAAATTTTATATTTTT
2290005 ATAATT-AAA-TTTATATTATTTT
1 A-AATTAAAATTTTATA-T-TTTT
2290027 AAATT
1 AAATT
2290032 TTAATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 6 0.25
21 9 0.38
22 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AAATTAAAATTTTATATTTTT
Found at i:2290049 original size:16 final size:16
Alignment explanation
Indices: 2290030--2290096 Score: 62
Period size: 16 Copynumber: 4.1 Consensus size: 16
2290020 TTATTTTAAA
*
2290030 TTTTAATTGAATCGAT
1 TTTTAATTGAATTGAT
*
2290046 TTTTAATATGTATTGAT
1 TTTTAAT-TGAATTGAT
* * *
2290063 TTTAAATTTAATTTAT
1 TTTTAATTGAATTGAT
* *
2290079 TTTTAATTAAATTAAT
1 TTTTAATTGAATTGAT
2290095 TT
1 TT
2290097 AAATTCAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
16 28 0.68
17 13 0.32
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTTAATTGAATTGAT
Found at i:2290106 original size:20 final size:21
Alignment explanation
Indices: 2290064--2290120 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
2290054 TGTATTGATT
** *
2290064 TTAAATTTAATTTATTTTTAA
1 TTAAATTTAATTTAAATTCAA
2290085 TTAAA-TTAATTTAAATTCAA
1 TTAAATTTAATTTAAATTCAA
*
2290105 TTAAGTTTAAATTTAA
1 TTAAATTT-AATTTAA
2290121 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 16 0.53
21 7 0.23
22 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAAATTTAATTTAAATTCAA
Found at i:2290113 original size:16 final size:15
Alignment explanation
Indices: 2290063--2290122 Score: 66
Period size: 16 Copynumber: 3.9 Consensus size: 15
2290053 ATGTATTGAT
*
2290063 TTTAAATTTAATTTAT
1 TTTAAATTTAA-TTAA
* *
2290079 TTTTAATTAAATTAA
1 TTTAAATTTAATTAA
*
2290094 TTTAAATTCAATTAA
1 TTTAAATTTAATTAA
2290109 GTTTAAATTTAATT
1 -TTTAAATTTAATT
2290123 TTTTAAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
15 16 0.43
16 21 0.57
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (15 bp):
TTTAAATTTAATTAA
Found at i:2290441 original size:14 final size:14
Alignment explanation
Indices: 2290424--2290460 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2290414 AATATTTAAT
2290424 AATTTAAAATTTGA
1 AATTTAAAATTTGA
* *
2290438 AATTTGAAATTTTA
1 AATTTAAAATTTGA
2290452 AATTTAAAA
1 AATTTAAAA
2290461 CTCTTTCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (14 bp):
AATTTAAAATTTGA
Found at i:2290442 original size:22 final size:21
Alignment explanation
Indices: 2290404--2290458 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
2290394 TACCATTACT
*
2290404 TTTAAAAATTAATATTTAATAA
1 TTTAAAATTTAATATTTAA-AA
*
2290426 TTTAAAATTTGAA-ATTTGAAA
1 TTTAAAATTT-AATATTTAAAA
*
2290447 TTTTAAATTTAA
1 TTTAAAATTTAA
2290459 AACTCTTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 2 0.07
21 11 0.38
22 14 0.48
23 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
TTTAAAATTTAATATTTAAAA
Found at i:2292348 original size:2 final size:2
Alignment explanation
Indices: 2292341--2292377 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
2292331 TTCTAATGCT
2292341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2292378 GCTTATCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:2293746 original size:80 final size:76
Alignment explanation
Indices: 2293604--2293749 Score: 204
Period size: 80 Copynumber: 1.9 Consensus size: 76
2293594 TAAAAATAAT
2293604 ATATAATAATATTTTTATAAAATATATCAAAAACAATAAATAAATTATCAAATATTATATTTAAT
1 ATATAATAATATTTTTATAAAATATATCAAAAACAATAAATAAATTATCAAATATTATATTTAAT
2293669 ACAATATTCAC
66 ACAATATTCAC
* * * *
2293680 ATATAATAATATTTTTAT-CAATATATTAAAATACAAATACAAATAAAATTATTAATTATTATAT
1 ATATAATAATATTTTTATAAAATATATCAAAA-AC-AAT--AAAT-AAATTATCAAATATTATAT
2293744 TTAATA
61 TTAATA
2293750 TAATTTTACC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
75 11 0.18
76 20 0.33
77 3 0.05
79 4 0.07
80 23 0.38
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (76 bp):
ATATAATAATATTTTTATAAAATATATCAAAAACAATAAATAAATTATCAAATATTATATTTAAT
ACAATATTCAC
Found at i:2303590 original size:3 final size:3
Alignment explanation
Indices: 2303582--2303608 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2303572 TTGAATGCAA
2303582 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
2303609 GTTGTTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2303613 original size:3 final size:3
Alignment explanation
Indices: 2303607--2303638 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2303597 ATTATTATTA
2303607 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
2303639 ATTAAAAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:2304787 original size:14 final size:14
Alignment explanation
Indices: 2304768--2304796 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2304758 CGCTAGATGG
2304768 GAAAAGAAAAAAAA
1 GAAAAGAAAAAAAA
2304782 GAAAAGAAAAAAAA
1 GAAAAGAAAAAAAA
2304796 G
1 G
2304797 CACGTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
GAAAAGAAAAAAAA
Found at i:2308504 original size:16 final size:19
Alignment explanation
Indices: 2308488--2308522 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
2308478 TTATAAATAA
2308488 TTTTTAA-AAT-ATTTAAT
1 TTTTTAATAATAATTTAAT
2308505 TTTTTAATAATAATTTAA
1 TTTTTAATAATAATTTAA
2308523 ATTTATGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTAATAATAATTTAAT
Found at i:2309389 original size:3 final size:3
Alignment explanation
Indices: 2309381--2309421 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2309371 TAAGAGAAAA
2309381 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2309422 GGCATATTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2310090 original size:18 final size:18
Alignment explanation
Indices: 2310069--2310134 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
2310059 ATATATATAT
2310069 TATTTTATATTTATTAAA
1 TATTTTATATTTATTAAA
* *
2310087 TA-TTTATTATGTTAAT-AG
1 TATTTTA-TAT-TTATTAAA
*
2310105 TATCCTTTATATCTATTAAA
1 TAT--TTTATATTTATTAAA
2310125 TATTTTATAT
1 TATTTTATAT
2310135 ATTTATATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
17 4 0.11
18 15 0.41
19 7 0.19
20 7 0.19
21 4 0.11
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (18 bp):
TATTTTATATTTATTAAA
Found at i:2314691 original size:12 final size:13
Alignment explanation
Indices: 2314670--2314698 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2314660 TGAATTATAA
2314670 TTAAATTTTAAAT
1 TTAAATTTTAAAT
2314683 TTAAA-TTTAAAT
1 TTAAATTTTAAAT
2314695 TTAA
1 TTAA
2314699 CTCAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAAATTTTAAAT
Found at i:2322170 original size:22 final size:22
Alignment explanation
Indices: 2322127--2322170 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2322117 GGGATGCGAG
2322127 AAGAAGAGAAAGAAAAGTAAGA
1 AAGAAGAGAAAGAAAAGTAAGA
* *
2322149 AAGAATAGATAGACAAAG-AAGA
1 AAGAAGAGAAAGA-AAAGTAAGA
2322171 CAATTTTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.66, C:0.02, G:0.25, T:0.07
Consensus pattern (22 bp):
AAGAAGAGAAAGAAAAGTAAGA
Found at i:2323309 original size:27 final size:25
Alignment explanation
Indices: 2323275--2323329 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
2323265 TATGGATATA
*
2323275 ATAAAAATAATTATAATATAATATAAT
1 ATAAAAATAATTAAAATAT-ATA-AAT
*
2323302 ATAAAAATATTTAAAATATATAAAT
1 ATAAAAATAATTAAAATATATAAAT
2323327 ATA
1 ATA
2323330 TTAAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 6 0.23
26 3 0.12
27 17 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAAAAATAATTAAAATATATAAAT
Found at i:2323321 original size:17 final size:18
Alignment explanation
Indices: 2323289--2323336 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
2323279 AAATAATTAT
* *
2323289 AATATAATATAATATAAA
1 AATATATTAAAATATAAA
*
2323307 AATAT-TTAAAATATATA
1 AATATATTAAAATATAAA
2323324 AATATATTAAAAT
1 AATATATTAAAAT
2323337 TTATATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATATATTAAAATATAAA
Found at i:2323330 original size:27 final size:26
Alignment explanation
Indices: 2323270--2323336 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
2323260 TTCCATATGG
* *
2323270 ATATAATAAAAATAATTATAATATAAT
1 ATAT-ATAAAAATAATTAAAATATAAA
*
2323297 ATAATATAAAAATATTTAAAATATATAA
1 AT-ATATAAAAATAATTAAAATATA-AA
*
2323325 ATATATTAAAAT
1 ATATATAAAAAT
2323337 TTATATGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 29 0.85
28 5 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
ATATATAAAAATAATTAAAATATAAA
Found at i:2323348 original size:19 final size:18
Alignment explanation
Indices: 2323289--2323341 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
2323279 AAATAATTAT
* * *
2323289 AATATAATATAATATAAA
1 AATATATTAAAATATATA
2323307 AATAT-TTAAAATATATA
1 AATATATTAAAATATATA
*
2323324 AATATATTAAAATTTATA
1 AATATATTAAAATATATA
2323342 TGATATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATATTAAAATATATA
Found at i:2324007 original size:23 final size:23
Alignment explanation
Indices: 2323970--2324019 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
2323960 GTAAATAATT
2323970 TATTTTTTATATATA-TTAAAAA
1 TATTTTTTATATATATTTAAAAA
* *
2323992 TATTTATTTATTTATATTTAAATA
1 TATTT-TTTATATATATTTAAAAA
2324016 TATT
1 TATT
2324020 CATAAGTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.21
23 9 0.38
24 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTTTTTATATATATTTAAAAA
Found at i:2324843 original size:3 final size:3
Alignment explanation
Indices: 2324835--2324862 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2324825 TAGGGATTGC
2324835 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2324863 ATATCTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2325155 original size:30 final size:30
Alignment explanation
Indices: 2325101--2325184 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 30
2325091 AAGATAATAT
* *
2325101 ATATATATATATTATAAATTAAAAATAA-TAAT
1 ATATA-ATATATTAT--TTTAAAAATAATTAAA
2325133 AT-TAAATATAATTATTTTAAAAATAATTAAA
1 ATAT-AATAT-ATTATTTTAAAAATAATTAAA
*
2325164 ATATAATATATTTTTTTAAAA
1 ATATAATATATTATTTTAAAA
2325185 TTTATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
30 21 0.47
31 15 0.33
32 9 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
ATATAATATATTATTTTAAAAATAATTAAA
Found at i:2325160 original size:15 final size:15
Alignment explanation
Indices: 2325118--2325161 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
2325108 TATATTATAA
*
2325118 ATTAAAAATAATAAT
1 ATTAAAAATAATTAT
*
2325133 ATTAAATATAATTAT
1 ATTAAAAATAATTAT
*
2325148 TTTAAAAATAATTA
1 ATTAAAAATAATTA
2325162 AAATATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAAAAATAATTAT
Found at i:2325211 original size:26 final size:27
Alignment explanation
Indices: 2325145--2325232 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 27
2325135 TAAATATAAT
* * *
2325145 TATTTTAAAAATAATTAAAATATAATATAT
1 TATTTT-AAAATATTTATAATATAA-A-AA
*
2325175 TTTTTTAAAAT-TTATATTAATAT-AAAA
1 TATTTTAAAATATT-TA-TAATATAAAAA
2325202 TATTTT-AAATATTTATAATATAAAAA
1 TATTTTAAAATATTTATAATATAAAAA
2325228 TATTT
1 TATTT
2325233 AATTATCATA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
25 6 0.12
26 15 0.31
27 8 0.16
28 2 0.04
29 8 0.16
30 10 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TATTTTAAAATATTTATAATATAAAAA
Found at i:2325234 original size:25 final size:27
Alignment explanation
Indices: 2325177--2325232 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
2325167 TAATATATTT
*
2325177 TTTTAAAATTTATATTAATATAAAATA
1 TTTTAAAATTTATAATAATATAAAATA
2325204 TTTTAAATATTTATAAT-ATA-AAAATA
1 TTTTAAA-ATTTATAATAATATAAAATA
2325230 TTT
1 TTT
2325233 AATTATCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.33
27 10 0.37
28 8 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TTTTAAAATTTATAATAATATAAAATA
Found at i:2327530 original size:17 final size:18
Alignment explanation
Indices: 2327479--2327527 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
2327469 TATATATTAC
*
2327479 TTATATACATTAAATTTTT
1 TTATATA-ATTAAATTTTG
2327498 TTA-ATAAGTTAAATTTTG
1 TTATATAA-TTAAATTTTG
2327516 TTATATAATTAA
1 TTATATAATTAA
2327528 TTTCATAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 1 0.04
18 19 0.70
19 7 0.26
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
TTATATAATTAAATTTTG
Found at i:2327789 original size:13 final size:13
Alignment explanation
Indices: 2327771--2327806 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
2327761 GACAGCTGAG
2327771 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
2327784 AAAGAAAG-AAAA
1 AAAGAAAGAAAAA
*
2327796 AAGGAAAGAAA
1 AAAGAAAGAAA
2327807 GGAGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAA
Found at i:2327802 original size:21 final size:21
Alignment explanation
Indices: 2327769--2327827 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
2327759 GAGACAGCTG
2327769 AGAAAGAAA-GAAAAAAAAGAA
1 AGAAA-AAAGGAAAAAAAAGAA
* * *
2327790 AGAAAAAAGGAAAGAAAGGAG
1 AGAAAAAAGGAAAAAAAAGAA
*
2327811 A-AAAAAAGGGAAAAAAA
1 AGAAAAAAGGAAAAAAAA
2327828 TTTATGTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
AGAAAAAAGGAAAAAAAAGAA
Found at i:2327823 original size:29 final size:28
Alignment explanation
Indices: 2327770--2327826 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
2327760 AGACAGCTGA
2327770 GAAAGAAAGAAAAAAAAGAAAGAAAAAAG
1 GAAAGAAAGAAAAAAAAG-AAGAAAAAAG
*
2327799 GAAAGAAAGGAGAAAAAAAG-GGAAAAAA
1 GAAAGAAA-GA-AAAAAAAGAAGAAAAAA
2327827 ATTTATGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 15 0.60
30 2 0.08
31 8 0.32
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (28 bp):
GAAAGAAAGAAAAAAAAGAAGAAAAAAG
Found at i:2327905 original size:29 final size:26
Alignment explanation
Indices: 2327836--2327906 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
2327826 AATTTATGTG
* *
2327836 TTATTTTTTATGTAAAATATTATATTT
1 TTATATTTTATGT-ATATATTATATTT
2327863 TTATATTTT-T-TATATATTAATAATTT
1 TTATATTTTATGTATATATT-AT-ATTT
*
2327889 ATTTTATTTTATGTATAT
1 -TTATATTTTATGTATAT
2327907 TTTTATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 6 0.17
25 3 0.08
26 5 0.14
27 16 0.44
28 1 0.03
29 5 0.14
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (26 bp):
TTATATTTTATGTATATATTATATTT
Found at i:2328086 original size:11 final size:11
Alignment explanation
Indices: 2328070--2328094 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2328060 AATATATTCG
2328070 TATATTTATAT
1 TATATTTATAT
2328081 TATATTTATAT
1 TATATTTATAT
2328092 TAT
1 TAT
2328095 TTTTCATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTATAT
Found at i:2329054 original size:14 final size:14
Alignment explanation
Indices: 2329014--2329075 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
2329004 AATTTTAACT
*
2329014 TTAAA-TTTATTTA
1 TTAAATTTTATTAA
2329027 TTAAATATTT-TTAA
1 TTAAAT-TTTATTAA
*
2329041 ATAAATTTTATTAA
1 TTAAATTTTATTAA
*
2329055 TTATAATTTTAAATAA
1 TTA-AATTTT-ATTAA
2329071 TTAAA
1 TTAAA
2329076 AATTTTATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 8 0.20
14 14 0.35
15 11 0.28
16 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAAATTTTATTAA
Found at i:2329063 original size:27 final size:26
Alignment explanation
Indices: 2329015--2329070 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
2329005 ATTTTAACTT
*
2329015 TAAATTTATTTATTAAATATTTTTAAA
1 TAAATTTATTAATTAAATA-TTTTAAA
*
2329042 TAAATTTTATTAATTATA-ATTTTAAA
1 TAAA-TTTATTAATTAAATATTTTAAA
2329068 TAA
1 TAA
2329071 TTAAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 10 0.38
27 5 0.19
28 11 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TAAATTTATTAATTAAATATTTTAAA
Found at i:2329237 original size:17 final size:16
Alignment explanation
Indices: 2329209--2329268 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
2329199 TTACGTGATG
2329209 AAAAAGAAAGAAAGAA
1 AAAAAGAAAGAAAGAA
2329225 AGAAAA-AATAGAAAGAA
1 A-AAAAGAA-AGAAAGAA
*
2329242 AAAATAGAAAAAATAGAA
1 AAAA-AGAAAGAA-AGAA
*
2329260 AAATAGAAA
1 AAAAAGAAA
2329269 AAAATTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 6 0.16
17 22 0.59
18 9 0.24
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (16 bp):
AAAAAGAAAGAAAGAA
Found at i:2329239 original size:13 final size:13
Alignment explanation
Indices: 2329211--2329251 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
2329201 ACGTGATGAA
*
2329211 AAAGAAAGAA-AG
1 AAAGAAAAAATAG
2329223 AAAGAAAAAATAG
1 AAAGAAAAAATAG
2329236 AAAGAAAAAATAG
1 AAAGAAAAAATAG
2329249 AAA
1 AAA
2329252 AAATAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 9 0.33
13 18 0.67
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (13 bp):
AAAGAAAAAATAG
Done.