Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold62
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: 1452230
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.24
Warning! 388291 characters in sequence are not A, C, G, or T
File 4 of 7
Found at i:784029 original size:23 final size:22
Alignment explanation
Indices: 783999--784042 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
783989 ATAATTTAAT
783999 TTATTAATAAATAAAATTATATA
1 TTATTAATAAATAAAA-TATATA
*
784022 TTATTAATACATAAAATATAT
1 TTATTAATAAATAAAATATAT
784043 TCATAAGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTATTAATAAATAAAATATATA
Found at i:784331 original size:2 final size:2
Alignment explanation
Indices: 784320--784361 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
784310 TTTTATGCTT
* * *
784320 TA TA TA -A TA TA TA TT TA TA TA TA TA TA TA TA TG TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
784361 T
1 T
784362 TCTGCCGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:784635 original size:22 final size:21
Alignment explanation
Indices: 784610--784683 Score: 58
Period size: 22 Copynumber: 3.4 Consensus size: 21
784600 ATGTATCAAT
784610 TATTTATTTTTAAAAAATTACA
1 TATTTATTTTT-AAAAATTACA
* * * *
784632 TATTAATTTTTTAGAGATTATA
1 TATTTA-TTTTTAAAAATTACA
*** *
784654 TATTTAAAATTAAAAATAACA
1 TATTTATTTTTAAAAATTACA
784675 TATTTATTT
1 TATTTATTT
784684 AAAAATATAT
Statistics
Matches: 36, Mismatches: 15, Indels: 3
0.67 0.28 0.06
Matches are distributed among these distances:
21 14 0.39
22 17 0.47
23 5 0.14
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
TATTTATTTTTAAAAATTACA
Found at i:786210 original size:27 final size:27
Alignment explanation
Indices: 786180--786232 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
786170 TCAATAACTA
*
786180 ATATTAATTTAATACTAATAGAATAGT
1 ATATTAATCTAATACTAATAGAATAGT
*
786207 ATATTAATCTAATATTAATAGAATAG
1 ATATTAATCTAATACTAATAGAATAG
786233 AAAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (27 bp):
ATATTAATCTAATACTAATAGAATAGT
Found at i:788071 original size:18 final size:18
Alignment explanation
Indices: 788048--788112 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
788038 TGTTTAATTT
788048 ATAAATAAATAAATTATA
1 ATAAATAAATAAATTATA
* **
788066 ATAAATAATTATTTTATA
1 ATAAATAAATAAATTATA
*
788084 A-AAATAAAATAAAATTAAA
1 ATAAAT-AAAT-AAATTATA
788103 ATTAAATAAA
1 A-TAAATAAA
788113 ATAATAATAG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 4 0.11
18 19 0.53
19 6 0.17
20 3 0.08
21 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAATAAATAAATTATA
Found at i:788095 original size:11 final size:11
Alignment explanation
Indices: 788081--788145 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
788071 TAATTATTTT
788081 ATAAAAATAAA
1 ATAAAAATAAA
*
788092 ATAAAATTAAA
1 ATAAAAATAAA
*
788103 AT-TAAATAAA
1 ATAAAAATAAA
* *
788113 ATAATAATAGTA
1 ATAAAAATA-AA
*
788125 ATAATAATAAA
1 ATAAAAATAAA
*
788136 ATAATAATAA
1 ATAAAAATAA
788146 TTTAGTTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
10 8 0.18
11 27 0.60
12 10 0.22
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:788109 original size:16 final size:16
Alignment explanation
Indices: 788084--788145 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
788074 TTATTTTATA
788084 AAAATAAAATAAAATT
1 AAAATAAAATAAAATT
*
788100 AAAATTAAATAAAA-T
1 AAAATAAAATAAAATT
*
788115 AATAATAGTAATAATAA-T
1 AA-AATA-AAATAA-AATT
788133 AAAATAATAATAA
1 AAAATAA-AATAA
788146 TTTAGTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.08
16 16 0.42
17 14 0.37
18 5 0.13
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAATAAAATAAAATT
Found at i:788120 original size:3 final size:3
Alignment explanation
Indices: 788107--788146 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
788097 ATTAAAATTA
*
788107 AAT AA- AAT AAT AAT AGT AAT AAT AAT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
788147 TTAGTTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:788764 original size:16 final size:16
Alignment explanation
Indices: 788745--788779 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
788735 TTTAATTACT
788745 ATTAAATTAAATTTTA
1 ATTAAATTAAATTTTA
* *
788761 ATTAAGTTATATTTTA
1 ATTAAATTAAATTTTA
788777 ATT
1 ATT
788780 CAAGCGCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTAAATTAAATTTTA
Found at i:789033 original size:19 final size:19
Alignment explanation
Indices: 789003--789067 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
788993 CTTACTTTTA
789003 TTATTATTTTAAATAATATT
1 TTATT-TTTTAAATAATATT
*
789023 TTATTTTTTAAAAAATAATT
1 TTATTTTTTAAATAAT-ATT
* **
789043 ATATTGATTAAATTAATA-T
1 TTATTTTTTAAA-TAATATT
789062 TTATTT
1 TTATTT
789068 AAATTTTACC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 15 0.42
20 18 0.50
21 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTATTTTTTAAATAATATT
Found at i:793809 original size:35 final size:35
Alignment explanation
Indices: 793716--793815 Score: 84
Period size: 35 Copynumber: 2.9 Consensus size: 35
793706 AAATTATTAA
*
793716 AAATTTATATTTTTTAATTCT-T-A-TTTATTAATAT
1 AAATTTATA-TTTTTAATT-TATAATTTTAATAATAT
* *
793750 AAATTT-TATTTAATATTTTAATAATTTTAATAAT-T
1 AAATTTATATTT-TTAATTT-ATAATTTTAATAATAT
*
793785 AAATTTATATTATTTAATTTATAATATTAAT
1 AAATTTATATT-TTTAATTTATAATTTTAAT
793816 TTAATTAATC
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
32 4 0.08
33 6 0.11
34 7 0.13
35 18 0.34
36 17 0.32
37 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (35 bp):
AAATTTATATTTTTAATTTATAATTTTAATAATAT
Found at i:793832 original size:18 final size:18
Alignment explanation
Indices: 793791--793824 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
793781 AATTAAATTT
*
793791 ATATT-ATTTAATTTATA
1 ATATTAATTTAATTAATA
793808 ATATTAATTTAATTAAT
1 ATATTAATTTAATTAAT
793825 CAATTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATTAATTTAATTAATA
Found at i:794032 original size:17 final size:19
Alignment explanation
Indices: 794005--794048 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
793995 AATTTTATAT
794005 TAAATTAATATA-T-TAATA
1 TAAA-TAATATAGTATAATA
794023 TAAATAATATAGGTATAATA
1 TAAATAATATA-GTATAATA
794043 TAAATA
1 TAAATA
794049 TTAAAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.30
18 4 0.17
19 1 0.04
20 11 0.48
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAATAATATAGTATAATA
Found at i:794098 original size:17 final size:17
Alignment explanation
Indices: 794078--794151 Score: 51
Period size: 17 Copynumber: 4.1 Consensus size: 17
794068 ATATTTAAAT
794078 AAAAATATAATTTTTTAA
1 AAAAATATAATTTTTT-A
** **
794096 AAAAATTAATGAATAATAAA
1 AAAAA-T-AT-AATTTTTTA
*
794116 AAAAATAAAATTTTTTA
1 AAAAATATAATTTTTTA
794133 AAATAA-ATAATTTTTTA
1 AAA-AATATAATTTTTTA
794150 AA
1 AA
794152 TTTAAATTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
17 20 0.48
18 8 0.19
19 2 0.05
20 8 0.19
21 4 0.10
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
AAAAATATAATTTTTTA
Found at i:794100 original size:19 final size:19
Alignment explanation
Indices: 794071--794151 Score: 62
Period size: 18 Copynumber: 4.3 Consensus size: 19
794061 ATATTTAATA
794071 TTTAAATAAAAATATAATTT
1 TTTAAA-AAAAATATAATTT
*
794091 TTT-AAAAAAAT-TAATGAAT
1 TTTAAAAAAAATATAAT--TT
** *
794110 AATAAAAAAAATAAAATTT
1 TTTAAAAAAAATATAATTT
*
794129 TTT-AAAATAA-ATAATTT
1 TTTAAAAAAAATATAATTT
794146 TTTAAA
1 TTTAAA
794152 TTTAAATTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
17 13 0.28
18 14 0.30
19 6 0.13
20 11 0.23
21 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (19 bp):
TTTAAAAAAAATATAATTT
Found at i:794157 original size:18 final size:17
Alignment explanation
Indices: 794124--794205 Score: 78
Period size: 18 Copynumber: 4.8 Consensus size: 17
794114 AAAAAAATAA
794124 AATTTTTTAAAATAAAT
1 AATTTTTTAAAATAAAT
*
794141 AATTTTTTAAATTTAAAT
1 AATTTTTTAAA-ATAAAT
* * *
794159 TATTTTTAAAAAT-GAT
1 AATTTTTTAAAATAAAT
*
794175 AAATTTTTAAGAGATAAAT
1 AATTTTTTAA-A-ATAAAT
794194 AA-TTTTTAAAAT
1 AATTTTTTAAAAT
794206 TTTTATAATG
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
16 11 0.21
17 14 0.27
18 23 0.44
19 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.48
Consensus pattern (17 bp):
AATTTTTTAAAATAAAT
Found at i:794182 original size:34 final size:36
Alignment explanation
Indices: 794124--794204 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 36
794114 AAAAAAATAA
* * **
794124 AATTTTTTAAAATAAATAATTTTTTAA-ATTTAAAT
1 AATTTTTAAAAATAAATAAATTTTTAAGAGATAAAT
* *
794159 TATTTTTAAAAAT-GATAAATTTTTAAGAGATAAAT
1 AATTTTTAAAAATAAATAAATTTTTAAGAGATAAAT
794194 AATTTTTAAAA
1 AATTTTTAAAA
794205 TTTTTATAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 11 0.29
35 27 0.71
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (36 bp):
AATTTTTAAAAATAAATAAATTTTTAAGAGATAAAT
Found at i:794205 original size:34 final size:34
Alignment explanation
Indices: 794127--794205 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
794117 AAAATAAAAT
* ** *
794127 TTTTTAAAATAAATAATTTTTTAAATTTAAATTA
1 TTTTTAAAATAAATAAATTTTTAAAGATAAATAA
*
794161 TTTTTAAAA-ATGATAAATTTTTAAGAGATAAATAA
1 TTTTTAAAATA-AATAAATTTTTAA-AGATAAATAA
794196 TTTTTAAAAT
1 TTTTTAAAAT
794206 TTTTATAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 1 0.03
34 20 0.54
35 16 0.43
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (34 bp):
TTTTTAAAATAAATAAATTTTTAAAGATAAATAA
Found at i:795475 original size:3 final size:3
Alignment explanation
Indices: 795446--795489 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
795436 AAGAGACTCT
* * *
795446 TTA TTT TTA TTC TTA TTC TTCA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T
795490 GGTTGTTTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:796469 original size:19 final size:19
Alignment explanation
Indices: 796447--796502 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
796437 AATAAAGAGA
796447 TTTAATTTTAATAAATTAT
1 TTTAATTTTAATAAATTAT
* *
796466 TTTAA--ATAA-AAA--AA
1 TTTAATTTTAATAAATTAT
*
796480 ATTAATTTTAATAAATTAT
1 TTTAATTTTAATAAATTAT
796499 TTTA
1 TTTA
796503 TAAAAACTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 10
0.62 0.14 0.24
Matches are distributed among these distances:
14 5 0.19
16 6 0.23
17 6 0.23
19 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAATTTTAATAAATTAT
Found at i:797733 original size:13 final size:13
Alignment explanation
Indices: 797715--797751 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
797705 ATTAAATAAT
797715 ATTTTTTATTTAA
1 ATTTTTTATTTAA
*
797728 ATTTTTTATTTAT
1 ATTTTTTATTTAA
*
797741 ATTCTTTATTT
1 ATTTTTTATTT
797752 TTATATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTTTTTATTTAA
Found at i:798251 original size:119 final size:112
Alignment explanation
Indices: 798107--798388 Score: 334
Period size: 119 Copynumber: 2.4 Consensus size: 112
798097 TATTTTTTAA
* * *
798107 TAAAAATAATATTTAATTAACTTTAAAAAATTTATATTAATAAATTAAAATATTAATTATT-T-T
1 TAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATGT
* * *
798170 TTTAAAATAAAAAATTAAATTAAAAAGGGTTTGTTATTGTTATTTTTTAATAAAAT
66 TTT----T--AAAA--AAA-TAAAAAGGATTTATTATTATTATTTTTTAATAAAAT
* * *
798226 TAAAAGTAATATTTAATTAAGTTTAAAAAAATTACATTAACAAATTAAAATATTAATTATTATGT
1 TAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATGT
* *
798291 TTTTATAAAAATAAAAAGTATTTATTATTATTATTTTTTAATAAAAT
66 TTTTAAAAAAATAAAAAGGATTTATTATTATTATTTTTTAATAAAAT
* * *
798338 AAAAAATGACATTTAATTAAATTTAAAAAAATTTACATTAACAAATTAAAA
1 TAAAAATAATATTTAATTAAATTT-AAAAAATTTACATTAACAAATTAAAA
798389 AAATAATATT
Statistics
Matches: 144, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
112 51 0.35
113 28 0.19
115 3 0.02
117 1 0.01
119 56 0.39
120 1 0.01
121 4 0.03
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (112 bp):
TAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATGT
TTTTAAAAAAATAAAAAGGATTTATTATTATTATTTTTTAATAAAAT
Found at i:798365 original size:112 final size:114
Alignment explanation
Indices: 798108--798388 Score: 336
Period size: 112 Copynumber: 2.4 Consensus size: 114
798098 ATTTTTTAAT
* * * *
798108 AAAAATAATATTTAATTAACTTTAAAAAATTTATATTAATAAATTAAAATATTAATTATTTTTTT
1 AAAAATAATATTTAATTAAATTTAAAAAAATTACATTAACAAATTAAAATATTAATTATTTTTTT
* * * *
798173 AAAATAAAAAATTAAATTAAAAAGGGTTTGTTATTGTTATTTTTTAATAAAATT
66 ---AT-AAAAA-TAAATTAAAAAGGATTTATTATTATTATTTTTTAATAAAATA
* *
798227 AAAAGTAATATTTAATTAAGTTTAAAAAAATTACATTAACAAATTAAAATATTAATTATTATGTT
1 AAAAATAATATTTAATTAAATTTAAAAAAATTACATTAACAAATTAAAATATTAATTATT-T-TT
* *
798292 TT-T-ATAA-AAA-TAAAAAGTATTTATTATTATTATTTTTTAATAAAATA
64 TTATAAAAATAAATTAAAAAGGATTTATTATTATTATTTTTTAATAAAATA
* *
798339 AAAAATGACATTTAATTAAATTTAAAAAAATTTACATTAACAAATTAAAA
1 AAAAATAATATTTAATTAAATTTAAAAAAA-TTACATTAACAAATTAAAA
798389 AAATAATATT
Statistics
Matches: 144, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
112 58 0.40
113 22 0.15
115 3 0.02
117 1 0.01
119 55 0.38
120 1 0.01
121 4 0.03
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (114 bp):
AAAAATAATATTTAATTAAATTTAAAAAAATTACATTAACAAATTAAAATATTAATTATTTTTTT
ATAAAAATAAATTAAAAAGGATTTATTATTATTATTTTTTAATAAAATA
Found at i:798390 original size:48 final size:49
Alignment explanation
Indices: 798338--798438 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 49
798328 TTAATAAAAT
*
798338 AAAAAATGACATTTAATTAAATTTAAAA-AAATTTA-CATTA-ACAAATTA
1 AAAAAATAACATTTAA-TAAA-TTAAAAGAAATTTATCATTATACAAATTA
* ** *
798386 AAAAAATAATATTTAATGGATTAAAAGAAATTTATCATTATTCAAATTA
1 AAAAAATAACATTTAATAAATTAAAAGAAATTTATCATTATACAAATTA
798435 AAAA
1 AAAA
798439 CCATCTATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
46 6 0.13
47 9 0.20
48 19 0.42
49 11 0.24
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (49 bp):
AAAAAATAACATTTAATAAATTAAAAGAAATTTATCATTATACAAATTA
Found at i:798875 original size:125 final size:125
Alignment explanation
Indices: 798710--799072 Score: 447
Period size: 125 Copynumber: 2.9 Consensus size: 125
798700 TAAAAATATT
* * *
798710 ATTATAAT-AAAAACTTTTTTTAATTTAAAATTTTGCTATTTTAAAAAAATATAATAATTAATAT
1 ATTATAATAAAAAACTTTTTTTATTTTAAAATTTT-TTATTTTATAAAAA-ATAATAATTAATAT
*
798774 TTTAATTTGTTAATATAAATTTTTTAAACCTAATTAAATATTATTTTTTATTTTATTAA-AA
64 TTTAATTTGTTAATATAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAACAA
798835 ATTATAATAAAAAACTTTTTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAA-AT
1 ATTATAATAAAAAACTTTTTTTATTTTAAAATTTTTTA-TTTTATAAAAA-ATAATAATTAATAT
* *
798899 TTCT-ATTTGTTAATGT-AATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAACAA
64 TT-TAATTTGTTAATATAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAACAA
* * * * * *
798960 ATAATAATAATAAACCCTTTTTATTTTTATTTAATTTTTTTATTTT-TTAAAAATAAT-A--AAT
1 ATTATAATAA-AAA-ACTTTTT-TTATT-TTAAAATTTTTTATTTTATAAAAAATAATAATTAAT
* * *
799021 ATTTTAATTTGTTAATATAATTTTTTTAAAGTTAATAAAATATTATTTTTTA
62 ATTTTAATTTGTTAATATAAATTTTTTAAACTTAATTAAATATTATTTTTTA
799073 ATTAAAAATA
Statistics
Matches: 209, Mismatches: 18, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
123 3 0.01
124 55 0.26
125 66 0.32
126 55 0.26
127 11 0.05
128 8 0.04
129 11 0.05
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (125 bp):
ATTATAATAAAAAACTTTTTTTATTTTAAAATTTTTTATTTTATAAAAAATAATAATTAATATTT
TAATTTGTTAATATAAATTTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAACAA
Found at i:799031 original size:124 final size:121
Alignment explanation
Indices: 798713--799075 Score: 412
Period size: 126 Copynumber: 2.9 Consensus size: 121
798703 AAATATTATT
* * *
798713 ATAAT-AAAAACTTTTTTTAATTTAAAATTTTGCTA-TTTTAAAAAAATATAATAATTAATATTT
1 ATAATAAAAAACTTTTTTTATTTTAAAATTTT-TTATTTTTATAAAAA-ATAAT-A--AATATTT
* * *
798776 TAATTTGTTAATATAAATTTTTTAAACCTAATTAAATATTATTTTTTATTTTATTAAAAATT
61 TAATTTGTTAATAT-AATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAATA
*
798838 ATAATAAAAAACTTTTTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAAATTTCT
1 ATAATAAAAAACTTTTTTTATTTTAAAATTTTTTATTTTTATAAAAA-ATAATAA--ATATTT-T
*
798903 -ATTTGTTAATGTAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAACAAATA
62 AATTTGTTAATATAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAA-AAATA
* * * *
798963 ATAATAATAAACCCTTTTTATTTTTATTTAATTTTTTTATTTTT-T-AAAAATAATAAATATTTT
1 ATAATAA-AAA-ACTTTTT-TTATT-TTAAAATTTTTTATTTTTATAAAAAATAATAAATATTTT
* *
799026 AATTTGTTAATATAATTTTTTTAAAGTTAATAAAATATTATTTTTTAATT
62 AATTTGTTAATATAA-TTTTTTAAACTTAATTAAATATTA-TTTTTAATT
799076 AAAAATAATA
Statistics
Matches: 208, Mismatches: 17, Indels: 25
0.83 0.07 0.10
Matches are distributed among these distances:
123 2 0.01
124 58 0.28
125 57 0.27
126 60 0.29
127 10 0.05
128 5 0.02
129 16 0.08
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (121 bp):
ATAATAAAAAACTTTTTTTATTTTAAAATTTTTTATTTTTATAAAAAATAATAAATATTTTAATT
TGTTAATATAATTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAATA
Found at i:799089 original size:24 final size:24
Alignment explanation
Indices: 799037--799089 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
799027 ATTTGTTAAT
*
799037 ATAATT-TTTTTAAAGTTAATAAA
1 ATAATTATTTTTAAAGTTAAAAAA
*
799060 AT-ATTATTTTTTAA-TTAAAAATA
1 ATAATTATTTTTAAAGTTAAAAA-A
799083 ATAATTA
1 ATAATTA
799090 ATACGTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 9 0.36
23 12 0.48
24 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
ATAATTATTTTTAAAGTTAAAAAA
Found at i:801460 original size:33 final size:33
Alignment explanation
Indices: 801418--801483 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
801408 AGCTCATAGG
*
801418 TTCTCTATTAACTTATGAGATGAATATTAAACA
1 TTCTCTATTAACCTATGAGATGAATATTAAACA
*
801451 TTCTTTATTAACCTATGAGATGAATATTAAACA
1 TTCTCTATTAACCTATGAGATGAATATTAAACA
801484 CGCACATGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (33 bp):
TTCTCTATTAACCTATGAGATGAATATTAAACA
Found at i:804735 original size:52 final size:52
Alignment explanation
Indices: 804657--804784 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
804647 CGAAATATGA
*
804657 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
804709 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
804761 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
804785 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:804895 original size:33 final size:33
Alignment explanation
Indices: 804858--804924 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
804848 AGTAGCTTAA
804858 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
804891 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
804924 A
1 A
804925 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:804898 original size:13 final size:13
Alignment explanation
Indices: 804880--804904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
804870 CAAAAAAATA
804880 TGTATCGATACAT
1 TGTATCGATACAT
804893 TGTATCGATACA
1 TGTATCGATACA
804905 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:805874 original size:56 final size:53
Alignment explanation
Indices: 805790--806279 Score: 472
Period size: 49 Copynumber: 9.8 Consensus size: 53
805780 GAAAAGTGAT
* * * * * *
805790 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGATGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGA-G-A
* * * *
805845 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-GA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
*
805898 AAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
* * *
805948 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT----
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
* * *
805996 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA-TAGACTTAATG--GTG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
* * * *
806045 CAA-GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG-GA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
806096 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T----
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
* * *
806139 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG--GTG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
*
806189 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
* *
806237 -AAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
806280 GAAGGGTTGC
Statistics
Matches: 374, Mismatches: 40, Indels: 48
0.81 0.09 0.10
Matches are distributed among these distances:
43 39 0.10
44 1 0.00
46 1 0.00
48 82 0.22
49 125 0.33
50 1 0.00
51 5 0.01
52 73 0.20
53 6 0.02
54 1 0.00
55 4 0.01
56 36 0.10
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (53 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
Found at i:805971 original size:49 final size:49
Alignment explanation
Indices: 805854--806279 Score: 555
Period size: 49 Copynumber: 8.7 Consensus size: 49
805844 AAAAGGATGT
* *
805854 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
* *
805906 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
805955 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * * *
806004 CAATATGCTGATTCAAGGCCAGCTATA-TAGACTTAATGGTGCAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGC
* *
806052 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGC
*
806104 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* *
806147 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
806195 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
* * *
806244 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
806280 GAAGGGTTGC
Statistics
Matches: 328, Mismatches: 34, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
43 40 0.12
48 85 0.26
49 126 0.38
50 1 0.00
51 3 0.01
52 73 0.22
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
Found at i:806075 original size:97 final size:99
Alignment explanation
Indices: 805790--806279 Score: 615
Period size: 97 Copynumber: 4.9 Consensus size: 99
805780 GAAAAGTGAT
* * * * * * *
805790 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGATGAAAAAGGATGTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-GATG---AAGG-TGCC
*
805855 AATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
59 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G
*
805897 AAAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTG
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTG
*
805962 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-
65 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * *
805996 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA-TAGACTTAATGGTGCAA-GTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGGTGCCAATGTG
*
806059 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGG
65 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G
806095 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTG
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTG
*
806154 CTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG
65 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* *
806189 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
* * *
806252 TGATTCAGGGCCAGCTATATTGGGCTTA
66 TGATTCAAGGCCAGCTACATTGGACTTA
806280 GAAGGGTTGC
Statistics
Matches: 347, Mismatches: 23, Indels: 35
0.86 0.06 0.09
Matches are distributed among these distances:
91 40 0.12
94 3 0.01
95 44 0.13
97 95 0.27
98 36 0.10
100 35 0.10
101 47 0.14
102 4 0.01
105 4 0.01
106 1 0.00
107 2 0.01
108 36 0.10
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (99 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGC
TGATTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:806133 original size:198 final size:192
Alignment explanation
Indices: 805854--806279 Score: 640
Period size: 192 Copynumber: 2.2 Consensus size: 192
805844 AAAAGGATGT
* *
805854 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
805919 CAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
66 CAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT
* *
805984 GGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA-TAGACTTAATGGTGCAA
125 GGACTTAAAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTAGACTTAAAGATG-AA
806048 -GTGC
188 GGTGC
*
806052 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
*
806117 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
66 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
* * * *
806182 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
131 AAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTAGACTTAAAGATGAAGGTGC
* * * *
806244 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
806280 GAAGGGTTGC
Statistics
Matches: 211, Mismatches: 15, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
191 34 0.16
192 92 0.44
194 1 0.00
198 84 0.40
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (192 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
AAAGATAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTAGACTTAAAGATGAAGGTGC
Found at i:806157 original size:43 final size:44
Alignment explanation
Indices: 806095--806284 Score: 238
Period size: 43 Copynumber: 4.1 Consensus size: 44
806085 TTAAAGATGG
806095 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
806139 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
806182 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAA----AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
806230 AAAGATGAAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTT
1 --A-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
806279 AGAAGG
1 AAAAGG
806285 GTTGCCACCG
Statistics
Matches: 129, Mismatches: 7, Indels: 20
0.83 0.04 0.13
Matches are distributed among these distances:
43 41 0.32
44 6 0.05
47 1 0.01
48 40 0.31
49 38 0.29
50 1 0.01
51 1 0.01
53 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (44 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:806323 original size:33 final size:34
Alignment explanation
Indices: 806279--806418 Score: 225
Period size: 33 Copynumber: 4.2 Consensus size: 34
806269 TATTGGGCTT
806279 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
806312 AGAATGG-TTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
806345 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
806379 AGAA-GGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
806412 A-AAGGGT
1 AGAAGGGT
806419 GAAAGATGCC
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
32 2 0.02
33 69 0.70
34 28 0.28
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:806361 original size:67 final size:67
Alignment explanation
Indices: 806279--806418 Score: 232
Period size: 67 Copynumber: 2.1 Consensus size: 67
806269 TATTGGGCTT
806279 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTTGCCACCAACTTGTGTGGGCTT
*
806342 TGG
65 TAG
*
806345 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCAACTTGTGTGGGCTTT
806410 AG
66 AG
806412 A-AAGGGT
1 AGAAGGGT
806419 GAAAGATGCC
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
66 15 0.21
67 55 0.79
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.29
Consensus pattern (67 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCAACTTGTGTGGGCTTT
AG
Found at i:806546 original size:70 final size:70
Alignment explanation
Indices: 806400--806623 Score: 326
Period size: 71 Copynumber: 3.2 Consensus size: 70
806390 CACCGACTTG
** * * *
806400 TGTGGGCTTTAGAAAGGGTGAAAGA-TGCCACGAAGTTGTGGAC-TTAAAAAGAACAAGGTGCCA
1 TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCA
*
806463 CGGAGT
65 CAGAGT
806469 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCAC
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCAC
**
806534 TCAGT
66 AGAGT
*
806539 TTTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCC
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCC
806604 ACAGAGT
64 ACAGAGT
806611 TGTGGGCTTTAAA
1 TGTGGGCTTTAAA
806624 GAAAAAATGC
Statistics
Matches: 140, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
68 11 0.08
69 27 0.19
70 32 0.23
71 51 0.36
72 19 0.14
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.22
Consensus pattern (70 bp):
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCAC
AGAGT
Found at i:806603 original size:35 final size:34
Alignment explanation
Indices: 806420--806623 Score: 239
Period size: 35 Copynumber: 5.9 Consensus size: 34
806410 AGAAAGGGTG
* * *
806420 AAAGATGCCACGAAGTTGTGGAC-TTAAAAAGAA
1 AAAGGTGCCACAAAGTTGTGGGCTTTAAAAAGAA
* ** *
806453 CAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAA
1 AAAGGTGCCACAAAGTTGTGGGCTTTAAAA-AGAA
806488 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACAAAGTTGTGGGCTTTAAAAAGAA
** * *
806523 AAAGGTGCCACTCAGTTTTGGGCTTTGAAAAGGGAA
1 AAAGGTGCCACAAAGTTGTGGGCTTT-AAAA-AGAA
806559 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACAAAGTTGTGGGCTTTAAAAAGAA
*
806594 AAAGTGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAG-GTGCCACAAAGTTGTGGGCTTTAAA
806624 GAAAAAATGC
Statistics
Matches: 146, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
33 19 0.13
34 25 0.17
35 48 0.33
36 35 0.24
37 19 0.13
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.22
Consensus pattern (34 bp):
AAAGGTGCCACAAAGTTGTGGGCTTTAAAAAGAA
Found at i:806662 original size:30 final size:30
Alignment explanation
Indices: 806627--806683 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
806617 CTTTAAAGAA
806627 AAAATGCCACTAAGTCGTGGACTTTGAGAC
1 AAAATGCCACTAAGTCGTGGACTTTGAGAC
*
806657 AAAATGCCACTGAGTCGTGGACTTTGA
1 AAAATGCCACTAAGTCGTGGACTTTGA
806684 AAAGGTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAATGCCACTAAGTCGTGGACTTTGAGAC
Found at i:814923 original size:52 final size:52
Alignment explanation
Indices: 814845--814972 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
814835 CGAAATATGA
*
814845 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
814897 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
814949 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
814973 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:814999 original size:13 final size:13
Alignment explanation
Indices: 814981--815005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
814971 CAAAGATCAG
814981 TGTATCGATACAA
1 TGTATCGATACAA
814994 TGTATCGATACA
1 TGTATCGATACA
815006 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:817802 original size:11 final size:11
Alignment explanation
Indices: 817774--817805 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
817764 TTTGGCATTG
817774 GCATTTGACAA
1 GCATTTGACAA
817785 G-ATTTGACAA
1 GCATTTGACAA
817795 GCATTTGACAA
1 GCATTTGACAA
817806 AGGGGGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (11 bp):
GCATTTGACAA
Found at i:818540 original size:13 final size:13
Alignment explanation
Indices: 818522--818548 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
818512 ACATTATGCT
818522 TTGTATCGATACA
1 TTGTATCGATACA
818535 TTGTATCGATACA
1 TTGTATCGATACA
818548 T
1 T
818549 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:820259 original size:92 final size:92
Alignment explanation
Indices: 820098--820325 Score: 258
Period size: 92 Copynumber: 2.5 Consensus size: 92
820088 AATAAATGTG
* * * ** * * * *
820098 ATTATATATGAGAATCAGATTCTTTTTCATGGGAATAAAAGAAAAGTTGATTGATTATAAATGTC
1 ATTATATCTGAGAATCGGATTCTTTTTTAT-AAAAAAAAAGAAAAGTTGACTGAATATAAATATC
* * *
820163 AGACTGCAAGAATTAGATTAATGCATGA
65 AGACTACAAGAATTAGACTAATGCATAA
** * * *
820191 ATTATATCTGATTATTGGATTCTTTTTTATAAAAAAAAAGGAAAGTTGACTGAATATAAATATTA
1 ATTATATCTGAGAATCGGATTCTTTTTTATAAAAAAAAAGAAAAGTTGACTGAATATAAATATCA
* *
820256 GACTATAAGGATTAGACTAATGCATAA
66 GACTACAAGAATTAGACTAATGCATAA
* *
820283 ATTATATTTGAGAATCGGATTCTTTTTTATATAAAAAAAGAAA
1 ATTATATCTGAGAATCGGATTCTTTTTTATAAAAAAAAAGAAA
820326 TGGATTCTTT
Statistics
Matches: 110, Mismatches: 25, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
92 86 0.78
93 24 0.22
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.36
Consensus pattern (92 bp):
ATTATATCTGAGAATCGGATTCTTTTTTATAAAAAAAAAGAAAAGTTGACTGAATATAAATATCA
GACTACAAGAATTAGACTAATGCATAA
Found at i:820330 original size:28 final size:29
Alignment explanation
Indices: 820299--820354 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
820289 TTTGAGAATC
*
820299 GGATTCTTTTTTATA-TAAAAAAAGAAAT
1 GGATTCTTTTTTATAGAAAAAAAAGAAAT
820327 GGATTCTTTTTTATAGAAAAAAAAGAAA
1 GGATTCTTTTTTATAGAAAAAAAAGAAA
820355 AATTGACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (29 bp):
GGATTCTTTTTTATAGAAAAAAAAGAAAT
Found at i:820372 original size:121 final size:120
Alignment explanation
Indices: 820206--820446 Score: 374
Period size: 121 Copynumber: 2.0 Consensus size: 120
820196 ATCTGATTAT
* * * *
820206 TGGATTCTTTTTTATAAAAAAAAAGGAAAGTTGACTGAATATAAATATTAGACTATAAGGATTAG
1 TGGATTCTTTTTTATAAAAAAAAAGAAAAATTGACTAAATATAAATATCAGACTATAAGGATTAG
* * *
820271 ACTAATGCATAAATTATATTTGAGAATCGGATTCTTTTTTATATAAAAAAAGAAA
66 ACTAATGCATAAATTATATCTGAGAATCGAATTCTTGTTTATATAAAAAAAGAAA
* *
820326 TGGATTCTTTTTTATAGAAAAAAAAGAAAAATTGACTAAATGTAAATGTCAGACTATAAGGATTA
1 TGGATTCTTTTTTATA-AAAAAAAAGAAAAATTGACTAAATATAAATATCAGACTATAAGGATTA
* *
820391 GACTAATGCATGAATTATATCTGAGAATCGAATTCTTGTTTATATAAAAAACGAAA
65 GACTAATGCATAAATTATATCTGAGAATCGAATTCTTGTTTATATAAAAAAAGAAA
820447 CACTGATTGA
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
120 16 0.15
121 93 0.85
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.34
Consensus pattern (120 bp):
TGGATTCTTTTTTATAAAAAAAAAGAAAAATTGACTAAATATAAATATCAGACTATAAGGATTAG
ACTAATGCATAAATTATATCTGAGAATCGAATTCTTGTTTATATAAAAAAAGAAA
Found at i:820493 original size:84 final size:88
Alignment explanation
Indices: 820328--820988 Score: 511
Period size: 92 Copynumber: 7.3 Consensus size: 88
820318 AAAAGAAATG
* * * *
820328 GATTCTTTTTTATAGAAAAAAAAGAAAAATTGACTAAATGTAAATGTCAGACTATAAGGATTAGA
1 GATTCTTTTTTATA-AAAAAAAAG-AAAACTGATTGATTGTAAATGTCAG---ATAA-GATTAGA
820393 CTAATGCATGAATTATATCTGAGAATCGA
60 CTAATGCATGAATTATATCTGAGAATCGA
* * * *
820422 -ATTCTTGTTTATATAAAAAACGAAACACTGATTGATTGTAAATG-CA-A-AA-ATTGGACTAAT
1 GATTCTTTTTTATAAAAAAAAAGAAA-ACTGATTGATTGTAAATGTCAGATAAGATTAGACTAAT
*
820482 GCATGAATTATATCTGAAAATC-A
65 GCATGAATTATATCTGAGAATCGA
* * *
820505 GATTCTTTTTTATAGAAAAAAAGAAAAGTTGACTGATTGTAAATGTCAGACTGTAATGATTAGAC
1 GATTCTTTTTTATAAAAAAAAAGAAAA-CTGATTGATTGTAAATGTCAGA---TAA-GATTAGAC
*
820570 TAATGCATGAATTATAT-TTAGGAAT-GA
61 TAATGCATGAATTATATCTGA-GAATCGA
* *
820597 GATTCTTTTTTATAGAAAAAAAAAGAAAGACTGATTGATTGTAAATGTTAGACTGGAAGGATAAG
1 GATTCTTTTTTAT--AAAAAAAAAGAAA-ACTGATTGATTGTAAATGTCAGA-T--AA-GATTAG
* *
820662 ACTAATGCATGAATTTTATTTGAGAATC-A
59 ACTAATGCATGAATTATATCTGAGAATCGA
* * * * * *
820691 GA-T-TTTTTTATAGAAAAAAAGAAAAGTTGACTGATTATAAATGTTAAACTGTAAGGATTAGAC
1 GATTCTTTTTTATAAAAAAAAAGAAAA-CTGATTGATTGTAAATGTCAGA---TAA-GATTAGAC
* *
820754 TAATACATTAATTATATCTGAGAATC-A
61 TAATGCATGAATTATATCTGAGAATCGA
* *
820781 GATTCTTTTTTATAGAAAAAAAAG---ATTGATTAATTGTAAATGTCAGACTATAAGAATTAGAC
1 GATTCTTTTTTATA-AAAAAAAAGAAAACTGATTGATTGTAAATGTCAG---ATAAG-ATTAGAC
* * * *
820843 TAATACATGAATTACATTTAAGAATC-A
61 TAATGCATGAATTATATCTGAGAATCGA
* *
820870 GA-T-TTTTTTATAGAAAAATAAGAAAGACTGATTGATTGTAAATGTTAGACGATAAGGATTAGA
1 GATTCTTTTTTATA-AAAAAAAAGAAA-ACTGATTGATTGTAAATG-T-CA-GATAA-GATTAGA
* *
820933 CTAATGCATTAATTATATCTGGGAATC-A
60 CTAATGCATGAATTATATCTGAGAATCGA
*
820961 GA-T-TTTTTTAT-AGAAAAAAGAAAGACTG
1 GATTCTTTTTTATAAAAAAAAAGAAA-ACTG
820989 TAAAGATTAG
Statistics
Matches: 470, Mismatches: 59, Indels: 81
0.77 0.10 0.13
Matches are distributed among these distances:
83 2 0.00
84 68 0.14
85 2 0.00
86 3 0.01
87 19 0.04
88 2 0.00
89 67 0.14
90 68 0.14
91 67 0.14
92 83 0.18
93 22 0.05
94 64 0.14
95 3 0.01
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.33
Consensus pattern (88 bp):
GATTCTTTTTTATAAAAAAAAAGAAAACTGATTGATTGTAAATGTCAGATAAGATTAGACTAATG
CATGAATTATATCTGAGAATCGA
Found at i:820734 original size:184 final size:181
Alignment explanation
Indices: 820333--820985 Score: 757
Period size: 184 Copynumber: 3.6 Consensus size: 181
820323 AAATGGATTC
* * * *
820333 TTTTTTATAGAAAAAAAAGAAAAATTGACTAAATGTAAATGTCAGACTATAAGGATTAGACTAAT
1 TTTTTTATAG-AAAAAAAGAAAAGTTGACTGATTGTAAATGTCAGACTGTAAGGATTAGACTAAT
* * * *
820398 GCATGAATTATATCTGAGAATC-GAATTCTTGTTTAT--ATAAAAAACGAAACACTGATTGATTG
65 GCATGAATTATATCTGAGAATCAG-ATTCTTTTTTATAGAAAAAAAAAGAAAGACTGATTGATTG
* * *
820460 TAAATG-CA-A--AA-ATTGGACTAATGCATGAATTATATCTGAAAATCAGATT
129 TAAATGTCAGACTAAGATTAGACTAATGCATGAATTATATTTGAGAATCAGA-T
*
820509 CTTTTTTATAGAAAAAAAGAAAAGTTGACTGATTGTAAATGTCAGACTGTAATGATTAGACTAAT
1 -TTTTTTATAGAAAAAAAGAAAAGTTGACTGATTGTAAATGTCAGACTGTAAGGATTAGACTAAT
* *
820574 GCATGAATTATAT-TTAGGAATGAGATTCTTTTTTATAGAAAAAAAAAGAAAGACTGATTGATTG
65 GCATGAATTATATCTGA-GAATCAGATTCTTTTTTATAGAAAAAAAAAGAAAGACTGATTGATTG
* * *
820638 TAAATGTTAGACTGGAAGGATAAGACTAATGCATGAATTTTATTTGAGAATCAGAT
129 TAAATGTCAGACT--AA-GATTAGACTAATGCATGAATTATATTTGAGAATCAGAT
* * * *
820694 TTTTTTATAGAAAAAAAGAAAAGTTGACTGATTATAAATGTTAAACTGTAAGGATTAGACTAATA
1 TTTTTTATAGAAAAAAAGAAAAGTTGACTGATTGTAAATGTCAGACTGTAAGGATTAGACTAATG
* * *
820759 CATTAATTATATCTGAGAATCAGATTCTTTTTTATAG----AAAAA-AAAGATTGATTAATTGTA
66 CATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAAAAGAAAGACTGATTGATTGTA
* * *
820819 AATGTCAGACTATAAGAATTAGACTAATACATGAATTACATTTAAGAATCAGAT
131 AATGTCAGAC--TAAG-ATTAGACTAATGCATGAATTATATTTGAGAATCAGAT
* * *
820873 TTTTTTATAGAAAAATAAG-AAAGACTGATTGATTGTAAATGTTAGAC-GATAAGGATTAGACTA
1 TTTTTTATAGAAAAA-AAGAAAAG-TTGACTGATTGTAAATGTCAGACTG-TAAGGATTAGACTA
* *
820936 ATGCATTAATTATATCTGGGAATCAGA-T-TTTTTTATAGAAAAAAGAAAGA
63 ATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAA-AAAGA
820986 CTGTAAAGAT
Statistics
Matches: 412, Mismatches: 39, Indels: 43
0.83 0.08 0.09
Matches are distributed among these distances:
175 2 0.00
176 77 0.19
177 11 0.03
178 40 0.10
179 81 0.20
180 67 0.16
181 1 0.00
182 2 0.00
183 3 0.01
184 94 0.23
185 3 0.01
186 31 0.08
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.33
Consensus pattern (181 bp):
TTTTTTATAGAAAAAAAGAAAAGTTGACTGATTGTAAATGTCAGACTGTAAGGATTAGACTAATG
CATGAATTATATCTGAGAATCAGATTCTTTTTTATAGAAAAAAAAAGAAAGACTGATTGATTGTA
AATGTCAGACTAAGATTAGACTAATGCATGAATTATATTTGAGAATCAGAT
Found at i:820907 original size:270 final size:268
Alignment explanation
Indices: 820328--820983 Score: 821
Period size: 270 Copynumber: 2.4 Consensus size: 268
820318 AAAAGAAATG
* * * * * * *
820328 GATTCTTTTTTATAGAAAAAAAAGAAAAATTGACTAAATGTAAATGTCAGACTATAAGGATTAGA
1 GATTCTTTTTTATAGAAAAAAAAGAAAGACTGATTGATTGTAAATGTTAGACTGTAAGGATTAGA
* *
820393 CTAATGCATGAATTATATCTGAGAATC-GAATTCTTGTTTATATAAAAAACG-AAACACTGATTG
66 CTAATGCATGAATTATATCTGAGAATCAG-ATT-TT-TTTATAGAAAAAAAGAAAACACTGATTG
* *
820456 ATTGTAAATGCAAAAATTGGACTAATGCATGAATTATATCTGAAAATCAGATTCTTTTTTATAGA
128 ATTGTAAATGCAAAAATTAGACTAATACATGAATTATATCTGAAAATCAGATTCTTTTTTATAGA
* * * *
820521 AAAAAAGAAAAGTTGACTGATTGTAAATGTCAGACTGTAATGATTAGACTAATGCATGAATTATA
193 AAAAAAGAAAAGTTGACTAATTGTAAATGTCAGACTATAATGATTAGACTAATACATGAATTACA
* *
820586 TTTAGGAATGA
258 TTTAAGAATCA
* *
820597 GATTCTTTTTTATAGAAAAAAAAAGAAAGACTGATTGATTGTAAATGTTAGACTGGAAGGATAAG
1 GATTCTTTTTTATAG-AAAAAAAAGAAAGACTGATTGATTGTAAATGTTAGACTGTAAGGATTAG
* * *
820662 ACTAATGCATGAATTTTATTTGAGAATCAGATTTTTTTATAGAAAAAAAGAAAAGTTGACTGATT
65 ACTAATGCATGAATTATATCTGAGAATCAGATTTTTTTATAGAAAAAAAGAAAA---CACTGATT
* ** * *
820727 -ATAAATGTTAAACTGTAAGGATTAGACTAATACATTAATTATATCTGAGAATCAGATTCTTTTT
127 GAT---TG-TAAA-TGCAAAAATTAGACTAATACATGAATTATATCTGAAAATCAGATTCTTTTT
* *
820791 TATAG-AAAAAA-AAGA-TTGATTAATTGTAAATGTCAGACTATAA-GAATTAGACTAATACATG
187 TATAGAAAAAAAGAAAAGTTGACTAATTGTAAATGTCAGACTATAATG-ATTAGACTAATACATG
820852 AATTACATTTAAGAATCA
251 AATTACATTTAAGAATCA
*
820870 GA-T-TTTTTTATAGAAAAATAAGAAAGACTGATTGATTGTAAATGTTAGAC-GATAAGGATTAG
1 GATTCTTTTTTATAGAAAAAAAAGAAAGACTGATTGATTGTAAATGTTAGACTG-TAAGGATTAG
* *
820932 ACTAATGCATTAATTATATCTGGGAATCAGATTTTTTTATAG-AAAAAAGAAA
65 ACTAATGCATGAATTATATCTGAGAATCAGATTTTTTTATAGAAAAAAAGAAA
820984 GACTGTAAAG
Statistics
Matches: 338, Mismatches: 36, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
268 13 0.04
269 31 0.09
270 151 0.45
271 13 0.04
272 9 0.03
273 57 0.17
274 5 0.01
275 10 0.03
276 49 0.14
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (268 bp):
GATTCTTTTTTATAGAAAAAAAAGAAAGACTGATTGATTGTAAATGTTAGACTGTAAGGATTAGA
CTAATGCATGAATTATATCTGAGAATCAGATTTTTTTATAGAAAAAAAGAAAACACTGATTGATT
GTAAATGCAAAAATTAGACTAATACATGAATTATATCTGAAAATCAGATTCTTTTTTATAGAAAA
AAAGAAAAGTTGACTAATTGTAAATGTCAGACTATAATGATTAGACTAATACATGAATTACATTT
AAGAATCA
Found at i:825020 original size:53 final size:53
Alignment explanation
Indices: 824953--825097 Score: 236
Period size: 53 Copynumber: 2.7 Consensus size: 53
824943 GAAAGTTTGT
* * *
824953 ATTTAAGTCATTATCGAAAAATAATACATGTAAAAATAAATTTACTAAATTTA
1 ATTTAAGTCGTTATCAAAAAATATTACATGTAAAAATAAATTTACTAAATTTA
*
825006 ATTTAAGTCGTTATCAAAAAATATTACATGTAAAAATTAATTTACTAAATTTA
1 ATTTAAGTCGTTATCAAAAAATATTACATGTAAAAATAAATTTACTAAATTTA
* *
825059 ATTTAAGTCGTTATAAAAAAATATTACATATAAAAATAA
1 ATTTAAGTCGTTATCAAAAAATATTACATGTAAAAATAA
825098 TACAGATAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 85 1.00
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.37
Consensus pattern (53 bp):
ATTTAAGTCGTTATCAAAAAATATTACATGTAAAAATAAATTTACTAAATTTA
Found at i:825092 original size:17 final size:17
Alignment explanation
Indices: 825070--825111 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
825060 TTTAAGTCGT
*
825070 TATAAAAAAATATTACA
1 TATAAAAAAATAATACA
825087 TAT--AAAAATAATACA
1 TATAAAAAAATAATACA
*
825102 GATAAAAAAA
1 TATAAAAAAA
825112 CTATACTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 13 0.62
17 8 0.38
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (17 bp):
TATAAAAAAATAATACA
Found at i:825117 original size:17 final size:16
Alignment explanation
Indices: 825071--825117 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
825061 TTAAGTCGTT
*
825071 ATAAAAAAATATTACAT
1 ATAAAAAAATA-TACAG
*
825088 ATAAAAATA-ATACAG
1 ATAAAAAAATATACAG
825103 ATAAAAAAACTATAC
1 ATAAAAAAA-TATAC
825118 TTTAAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 12 0.48
16 1 0.04
17 12 0.48
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (16 bp):
ATAAAAAAATATACAG
Found at i:825315 original size:13 final size:13
Alignment explanation
Indices: 825297--825322 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
825287 AATAAAAATC
825297 TTTTTATTTTTAT
1 TTTTTATTTTTAT
825310 TTTTTATTTTTAT
1 TTTTTATTTTTAT
825323 AAAAATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:825515 original size:26 final size:27
Alignment explanation
Indices: 825478--825548 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
825468 TATTAATGTA
825478 ATTTTT-TTAAAATTAAT-TAAATATT
1 ATTTTTATTAAAATTAATATAAATATT
* *
825503 ATTTTTATTAAAAAATAATGATTAATATT
1 ATTTTTATT-AAAATTAAT-ATAAATATT
825532 ATTATTTATT-AAATTAA
1 ATT-TTTATTAAAATTAA
825549 AAAAATTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 6 0.16
26 2 0.05
27 8 0.21
28 6 0.16
29 10 0.26
30 6 0.16
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (27 bp):
ATTTTTATTAAAATTAATATAAATATT
Found at i:826005 original size:9 final size:9
Alignment explanation
Indices: 825961--826025 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
825951 AATTAAGTTT
*
825961 TTATATTAA
1 TTATTTTAA
* *
825970 TAATATTAA
1 TTATTTTAA
825979 TTACTTTT-A
1 TTA-TTTTAA
*
825988 TTGTTTTAA
1 TTATTTTAA
825997 TTATTTTAA
1 TTATTTTAA
826006 TTTTATTTTTAA
1 --TTA-TTTTAA
826018 TTATTTTA
1 TTATTTTA
826026 TACTTGAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
8 4 0.09
9 27 0.59
10 6 0.13
11 3 0.07
12 6 0.13
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTATTTTAA
Found at i:826374 original size:14 final size:14
Alignment explanation
Indices: 826355--826409 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
826345 CATATCTATT
*
826355 TTTCTTTATTTTCC
1 TTTCTTTATTTTCA
*
826369 TTTCTTTATATTTCT
1 TTTCTTTAT-TTTCA
826384 TTCTCTTTAATTTT-A
1 TT-TCTTT-ATTTTCA
826399 TTTCTTTATTT
1 TTTCTTTATTT
826410 ATTTTACTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
13 4 0.11
14 14 0.39
15 8 0.22
16 8 0.22
17 2 0.06
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTCTTTATTTTCA
Found at i:826439 original size:10 final size:10
Alignment explanation
Indices: 826424--826459 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
826414 TACTAGAAAT
826424 AAAAAATATA
1 AAAAAATATA
*
826434 AAAAAATCTA
1 AAAAAATATA
826444 AAAAAATA-A
1 AAAAAATATA
826453 AAAAAAT
1 AAAAAAT
826460 TTGGTTGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAAATATA
Found at i:827288 original size:5 final size:5
Alignment explanation
Indices: 827274--827303 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
827264 AATAATAACA
827274 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
827304 ACCATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:827532 original size:20 final size:20
Alignment explanation
Indices: 827509--827550 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
827499 AGTGACAACT
*
827509 TATAAT-AATTTTTATTTTAA
1 TATAATAAATTTATA-TTTAA
*
827529 TATATTAAATTTATATTTAA
1 TATAATAAATTTATATTTAA
827549 TA
1 TA
827551 CGTTATGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATAATAAATTTATATTTAA
Found at i:827743 original size:45 final size:45
Alignment explanation
Indices: 827692--827782 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
827682 AACAGTAATC
*
827692 ACCATGGAAGCTAATATGGACGAAAGTTTGATTAAAACCTAAACA
1 ACCATGGAAACTAATATGGACGAAAGTTTGATTAAAACCTAAACA
*
827737 ACCATGGAAACTAATATGGACGACAGTTTGATTAAAACCTAAACA
1 ACCATGGAAACTAATATGGACGAAAGTTTGATTAAAACCTAAACA
827782 A
1 A
827783 AGTATACAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.22
Consensus pattern (45 bp):
ACCATGGAAACTAATATGGACGAAAGTTTGATTAAAACCTAAACA
Found at i:829030 original size:16 final size:15
Alignment explanation
Indices: 829002--829037 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
828992 GGAGTTCAAT
829002 AAAAAAATAATTAAA
1 AAAAAAATAATTAAA
*
829017 AAAAGAAATTATTAAA
1 AAAA-AAATAATTAAA
829033 AAAAA
1 AAAAA
829038 TGATAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAAAAATAATTAAA
Found at i:829472 original size:30 final size:30
Alignment explanation
Indices: 829435--829514 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
829425 TTATCAATTT
829435 ATATTTATATTACTTTATATTATGTAATA-
1 ATATTTATATTACTTTATATTATGTAATAG
* * * ** *
829464 AGTATTTATATTAATTTATTTTTTGTGGTTG
1 A-TATTTATATTACTTTATATTATGTAATAG
829495 ATATTTATATTACTTTATAT
1 ATATTTATATTACTTTATAT
829515 CTTTTGAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 1 0.02
30 39 0.95
31 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (30 bp):
ATATTTATATTACTTTATATTATGTAATAG
Found at i:837010 original size:28 final size:28
Alignment explanation
Indices: 836977--837032 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
836967 ACATTATCTA
836977 GTTAAGAAAAAATTATCCATATTGTCTT
1 GTTAAGAAAAAATTATCCATATTGTCTT
** * *
837005 GTTAAGCCAAACTTATCCATTTTGTCTT
1 GTTAAGAAAAAATTATCCATATTGTCTT
837033 AATACAGTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (28 bp):
GTTAAGAAAAAATTATCCATATTGTCTT
Found at i:837109 original size:28 final size:27
Alignment explanation
Indices: 837045--837114 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
837035 TACAGTCTAC
* *
837045 TTTCGATATTATCTTGTTAAGACAACTT
1 TTTC-ATATTGTCTTGTTAAGAAAACTT
837073 TTTCCATATTGTCTTGTTAAGGAAAACTT
1 TTT-CATATTGTCTTGTTAA-GAAAACTT
837102 ATTT-ATATTGTCT
1 -TTTCATATTGTCT
837115 GAAACGCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 26 0.70
29 8 0.22
30 3 0.08
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (27 bp):
TTTCATATTGTCTTGTTAAGAAAACTT
Found at i:837113 original size:83 final size:83
Alignment explanation
Indices: 836962--837158 Score: 209
Period size: 83 Copynumber: 2.3 Consensus size: 83
836952 ACATGTTTAT
* * * * * * *
836962 TTTAGACATTATCTAGTTAAGAAAAAATTATCCATATTGTCTTGTTAAGCCAAACTTATCCATTT
1 TTTAGATATTATCTTGTTAAG-ACAATTTTTCCATATTGTCTTGTTAAGCAAAACTTATCCATAT
* *
837027 TGTCTTAATA-CA-GTCTAC
65 TGTCTGAA-ACCATATCTAC
* * **
837045 TTTCGATATTATCTTGTTAAGACAACTTTTTCCATATTGTCTTGTTAAGGAAAACTTATTTATAT
1 TTTAGATATTATCTTGTTAAGACAA-TTTTTCCATATTGTCTTGTTAAGCAAAACTTATCCATAT
837110 TGTCTGAAACGCATATCTAC
65 TGTCTGAAAC-CATATCTAC
* *
837130 TTTAGATATTATCTTATAAAGACAATTTT
1 TTTAGATATTATCTTGTTAAGACAATTTT
837159 AACTATTTTG
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
82 4 0.04
83 57 0.61
84 6 0.06
85 27 0.29
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (83 bp):
TTTAGATATTATCTTGTTAAGACAATTTTTCCATATTGTCTTGTTAAGCAAAACTTATCCATATT
GTCTGAAACCATATCTAC
Found at i:838097 original size:13 final size:13
Alignment explanation
Indices: 838079--838104 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
838069 CATTTTTCTG
838079 TGTATCGATACAT
1 TGTATCGATACAT
838092 TGTATCGATACAT
1 TGTATCGATACAT
838105 CGATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:838108 original size:21 final size:21
Alignment explanation
Indices: 838082--838126 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
838072 TTTTCTGTGT
838082 ATCGATACATTGTATCGATAC
1 ATCGATACATTGTATCGATAC
* *
838103 ATCGATTCTTTGTATCGATAC
1 ATCGATACATTGTATCGATAC
838124 ATC
1 ATC
838127 TAGGAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (21 bp):
ATCGATACATTGTATCGATAC
Found at i:838122 original size:34 final size:33
Alignment explanation
Indices: 838059--838125 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
838049 GCCAAGGAAA
**
838059 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGATTCTGTGTATCGATACAT
*
838092 TGTATCGATACATCGATTCTTTGTATCGATACAT
1 TGTATCGATACAT-GATTCTGTGTATCGATACAT
838126 CTAGGAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGATTCTGTGTATCGATACAT
Found at i:840547 original size:28 final size:28
Alignment explanation
Indices: 840480--840580 Score: 152
Period size: 28 Copynumber: 3.6 Consensus size: 28
840470 TTTCACAATT
**
840480 GGGGATACTCCAACCCCGTTAATCATC--
1 GGGGATACTCCAACCCCGTT-ATTTTCGA
840507 GGGGATACTCCAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTTCGA
*
840535 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTTCGA
840563 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
840581 GCTTTATTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.06
27 20 0.29
28 45 0.65
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.23
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTCGA
Found at i:840691 original size:79 final size:78
Alignment explanation
Indices: 840535--840790 Score: 257
Period size: 79 Copynumber: 3.2 Consensus size: 78
840525 TTATTTTCGA
* ** * *
840535 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTA-TTCCTAAAATAT
1 GGGGATACTCCAACCCCGTTATTTCAGA-GGGATACTCCAACCCCGATTTTATTTCC-AAAACAC
*
840599 TGA-TTTCTAATAATC
64 CGATTTTCT-ATAATC
* ** * *
840614 GGGGATACTCCAACCCCATTATTTTTGAGGGTATACTCCAACCCTGATTTTATTTTCAAAACACC
1 GGGGATACTCCAACCCCGTTATTTCAGAGGG-ATACTCCAACCCCGATTTTATTTCCAAAACACC
* *
840679 AATTTTCTATAATT
65 GATTTTCTATAATC
** * * *
840693 AAGGATACTCCAACCCTGTTATTTCCAAAGGGATACTCCAACCCCGATTTTATTTCCAGAACACC
1 GGGGATACTCCAACCCCGTTATTT-CAGAGGGATACTCCAACCCCGATTTTATTTCCAAAACACC
*
840758 GATTTTCCATAATC
65 GATTTTCTATAATC
*
840772 AGGGG-TACTCCAGCCCCGT
1 -GGGGATACTCCAACCCCGT
840791 CGTCATCTCC
Statistics
Matches: 143, Mismatches: 29, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
78 3 0.02
79 126 0.88
80 14 0.10
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGTTATTTCAGAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCG
ATTTTCTATAATC
Found at i:842684 original size:27 final size:27
Alignment explanation
Indices: 842645--842696 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
842635 CAGATTTTGA
*
842645 AGAAAAGCGGGGTTGGAGTATCCCCTC
1 AGAAAAGCAGGGTTGGAGTATCCCCTC
*
842672 AGAAGAGCAGGGTTGGAGTATCCCC
1 AGAAAAGCAGGGTTGGAGTATCCCC
842697 GACAATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.21, G:0.35, T:0.17
Consensus pattern (27 bp):
AGAAAAGCAGGGTTGGAGTATCCCCTC
Found at i:845223 original size:20 final size:20
Alignment explanation
Indices: 845198--845236 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
845188 CATTTGAGAC
845198 ATGTATCGA-TATATTCACTT
1 ATGTATCGATTA-ATTCACTT
845218 ATGTATCGATTAATTCACT
1 ATGTATCGATTAATTCACT
845237 AATTGTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (20 bp):
ATGTATCGATTAATTCACTT
Found at i:846600 original size:57 final size:57
Alignment explanation
Indices: 846456--846793 Score: 204
Period size: 57 Copynumber: 5.9 Consensus size: 57
846446 AATGACCTTA
* * * *
846456 AAATGCATGAAA-TAGCATAATTGA-CCTTAAATCATGGAAAATGATTAAAATGACCCT
1 AAATGCATGAAATTA-CATAA-TAACCCTTAAATCATGAAAAATGACTAAAATGATCCT
* ** **** * *
846513 AAATGCATGAATTTTTATAATGGTTCTTAAATCATGAAAAATGAGTAAAATGATGCT
1 AAATGCATGAAATTACATAATAACCCTTAAATCATGAAAAATGACTAAAATGATCCT
** * * * *
846570 AAATGCATGAAATTGTATAATAACCTTTAAATCATGTAAAAT-ACAAAAATGGTCCT
1 AAATGCATGAAATTACATAATAACCCTTAAATCATGAAAAATGACTAAAATGATCCT
* * * * * * * **
846626 AAAATGTATGAAATTAAATAATAGCCCCCTAAATAAT-AGAAAATGACTGAAATGGTGAT
1 -AAATGCATGAAATTACATAATA-ACCCTTAAATCATGA-AAAATGACTAAAATGATCCT
** * * *
846685 AACATGCATGAAATTACATAATAACCCTTAAATTGTGGAAAATGACTATAAT-AGTTCT
1 AA-ATGCATGAAATTACATAATAACCCTTAAATCATGAAAAATGACTAAAATGA-TCCT
* * * *
846743 AAAATGCATGGATTTACATAAGAATCCC-TAAATAATG-AAAATGACTTAAAA
1 -AAATGCATGAAATTACATAATAA-CCCTTAAATCATGAAAAATGAC-TAAAA
846794 AATGCATGAA
Statistics
Matches: 218, Mismatches: 51, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
56 12 0.06
57 104 0.48
58 69 0.32
59 33 0.15
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (57 bp):
AAATGCATGAAATTACATAATAACCCTTAAATCATGAAAAATGACTAAAATGATCCT
Found at i:846727 original size:116 final size:114
Alignment explanation
Indices: 846540--846793 Score: 258
Period size: 116 Copynumber: 2.2 Consensus size: 114
846530 TAATGGTTCT
* * * ** *
846540 TAAATCATGAAAAATGAGTAAAATGATGCTAAATGCATGAAATTGTATAATAACCTTTAAATCAT
1 TAAATAATG-AAAATGACTAAAATGATGATAAATGCATGAAATTACATAATAACCCTTAAATCAT
* * * * *
846605 GTAAAAT-ACAAAAATGGTCCTAAAATGTATGAAATTAAATAATAGCCCCC
65 GGAAAATGACAAAAATAGTCCTAAAATGCATGAAATTAAATAAGA-ACCCC
* * **
846655 TAAATAATAGAAAATGACTGAAATGGTGATAACATGCATGAAATTACATAATAACCCTTAAATTG
1 TAAATAAT-GAAAATGACTAAAATGATGATAA-ATGCATGAAATTACATAATAACCCTTAAATCA
* * * * * * *
846720 TGGAAAATGACTATAATAGTTCTAAAATGCATGGATTTACATAAGAATCCC
64 TGGAAAATGACAAAAATAGTCCTAAAATGCATGAAATTAAATAAGAACCCC
846771 TAAATAATGAAAATGACTTAAAA
1 TAAATAATGAAAATGAC-TAAAA
846794 AATGCATGAA
Statistics
Matches: 112, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
115 34 0.30
116 50 0.45
117 28 0.25
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (114 bp):
TAAATAATGAAAATGACTAAAATGATGATAAATGCATGAAATTACATAATAACCCTTAAATCATG
GAAAATGACAAAAATAGTCCTAAAATGCATGAAATTAAATAAGAACCCC
Found at i:849901 original size:95 final size:96
Alignment explanation
Indices: 849692--849946 Score: 263
Period size: 95 Copynumber: 2.7 Consensus size: 96
849682 TTTTTTGTTG
* ** * * * * *
849692 AAAAATGGGGTTAGAGTATCTACTT-AGAGGAAT-GAGGTTGGAGTGTCCTTGATGATGACATTT
1 AAAAATAGGGTTAGAGTATCCCCTTGA-AAGAATAG-GGTTGGAGTATCC-CGATGATGAAAATT
* * *
849755 TAGGCAAAAATAAGATTCAAATCTTAGCAAGTTT
63 TAAGCAAAAATAAAATTCAAATCTTAACAAGTTT
849789 AAAAATAGGGTTAGAGTATCCCCTCT-AAAGAATAGGGTTGGAGTATCCCGATGATGAAAATTTA
1 AAAAATAGGGTTAGAGTATCCCCT-TGAAAGAATAGGGTTGGAGTATCCCGATGATGAAAATTTA
**
849853 AGC-AAAATAAAATTTTAATCTTAACAAGTTT
65 AGCAAAAATAAAATTCAAATCTTAACAAGTTT
* *
849884 AAAAAT-GAGGTTGGAGTATCCCCTTGAAAGAGTAGGGTTGGAGTATTCCCG-TGAAT-AAAATT
1 AAAAATAG-GGTTAGAGTATCCCCTTGAAAGAATAGGGTTGGAGTA-TCCCGATG-ATGAAAATT
849946 T
63 T
849947 TGATATTTTT
Statistics
Matches: 137, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
94 2 0.01
95 72 0.53
96 22 0.16
97 38 0.28
98 3 0.02
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (96 bp):
AAAAATAGGGTTAGAGTATCCCCTTGAAAGAATAGGGTTGGAGTATCCCGATGATGAAAATTTAA
GCAAAAATAAAATTCAAATCTTAACAAGTTT
Found at i:851102 original size:12 final size:12
Alignment explanation
Indices: 851082--851118 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
851072 TTTTGTTGAG
*
851082 ATATGGCTAATA
1 ATATGGCTAAAA
*
851094 ATGTGGCTAAAA
1 ATATGGCTAAAA
851106 ATATGGCTAAAA
1 ATATGGCTAAAA
851118 A
1 A
851119 AAAGGTCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (12 bp):
ATATGGCTAAAA
Found at i:852146 original size:20 final size:20
Alignment explanation
Indices: 852121--852173 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
852111 ATTGGGCAGA
*
852121 ATGTATCGATACAAT-TCTTC
1 ATGTATCGATACAATATC-CC
852141 ATGTATCGATACAATATCCC
1 ATGTATCGATACAATATCCC
852161 ATGTATCGATACA
1 ATGTATCGATACA
852174 TTTCACTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATATCCC
Found at i:852247 original size:19 final size:19
Alignment explanation
Indices: 852202--852257 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
852192 CTGCCAGTTT
* *
852202 CATGTATCGATATAATTGGG
1 CATGTATCGATACAA-TGAG
*
852222 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
852241 CATGTATCGATACAATG
1 CATGTATCGATACAATG
852258 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:852260 original size:13 final size:13
Alignment explanation
Indices: 852242--852268 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
852232 TACAATGAGC
852242 ATGTATCGATACA
1 ATGTATCGATACA
852255 ATGTATCGATACA
1 ATGTATCGATACA
852268 A
1 A
852269 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:857082 original size:16 final size:16
Alignment explanation
Indices: 857045--857088 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
857035 AAAGTTGAAA
857045 GCAAAAGCACAAAAAAT
1 GCAAAAGCA-AAAAAAT
857062 G-AAAAG-AAAAAAAGT
1 GCAAAAGCAAAAAAA-T
857077 GCAAAAGCAAAA
1 GCAAAAGCAAAA
857089 TAAAAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 6 0.25
15 3 0.12
16 10 0.42
17 5 0.21
ACGTcount: A:0.68, C:0.11, G:0.16, T:0.05
Consensus pattern (16 bp):
GCAAAAGCAAAAAAAT
Found at i:858431 original size:28 final size:28
Alignment explanation
Indices: 858417--858814 Score: 431
Period size: 28 Copynumber: 13.9 Consensus size: 28
858407 AGTCCATGAT
*
858417 TCAGTGGCAT-TTTTTAAAGCCCACAAG
1 TCAGTGGCATCTTTTCAAAGCCCACAAG
*
858444 TCAGTGGCATCTTTTTTAAAGCCCACAAG
1 TCAGTGGCATC-TTTTCAAAGCCCACAAG
** *
858473 TTGGTGGCATCATTTCAAAAGCCCACAAG
1 TCAGTGGCATCTTTTC-AAAGCCCACAAG
* *
858502 TCAGTGGCATCCTTTCAAAGTCCACAAG
1 TCAGTGGCATCTTTTCAAAGCCCACAAG
858530 TCAGTGGCATCTTTTCAAAGCCCACAAG
1 TCAGTGGCATCTTTTCAAAGCCCACAAG
*
858558 TCAGTGGCATCCTTTCAAAAGCCCACAAG
1 TCAGTGGCATCTTTTC-AAAGCCCACAAG
* * **
858587 TCAGTGACATCTTTTCCAAGTTCACAAG
1 TCAGTGGCATCTTTTCAAAGCCCACAAG
* * *
858615 TCATTGGCATCCTTTCAAAGCCCACAAA
1 TCAGTGGCATCTTTTCAAAGCCCACAAG
* * *
858643 TTAGTGGCATCCTATCAAAGCCCACAAG
1 TCAGTGGCATCTTTTCAAAGCCCACAAG
* * *
858671 TTAGTGGCATCCTTTCAAAGTCCACAAG
1 TCAGTGGCATCTTTTCAAAGCCCACAAG
*
858699 TTAGT-GCATCTTTTCAAAAGCCCACAAG
1 TCAGTGGCATCTTTTC-AAAGCCCACAAG
* *
858727 TTAGTGGCATTTTCTTTTTCAAAGCCCACAAC
1 TCAGTGGCA---TC-TTTTCAAAGCCCACAAG
* * *
858759 TCCGTGGCACCATTTCAAAGCCCACAAG
1 TCAGTGGCATCTTTTCAAAGCCCACAAG
* *
858787 TCAGTGGCACCCTTCTCTAAAGCCCACA
1 TCAGTGGCA-TCTTTTC-AAAGCCCACA
858815 CAAGTCGGTG
Statistics
Matches: 319, Mismatches: 40, Indels: 21
0.84 0.11 0.06
Matches are distributed among these distances:
27 19 0.06
28 179 0.56
29 86 0.27
30 10 0.03
32 20 0.06
33 5 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (28 bp):
TCAGTGGCATCTTTTCAAAGCCCACAAG
Found at i:858557 original size:85 final size:84
Alignment explanation
Indices: 858417--858814 Score: 469
Period size: 85 Copynumber: 4.6 Consensus size: 84
858407 AGTCCATGAT
* * * * *
858417 TCAGTGGCAT-TTTTTAAAGCCCACAAGTCAGTGGCATCTTTTTTAAAGCCCACAAGTTGGTGGC
1 TCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTTAGTGGC
*
858481 ATCATTTCAAAAGCCCACAAG
65 ATCCTTTC-AAAGCCCACAAG
*
858502 TCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA
1 TCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGGCA
858567 TCCTTTCAAAAGCCCACAAG
66 TCCTTTC-AAAGCCCACAAG
* * * * * * *
858587 TCAGTGACATCTTTTCCAAGTTCACAAGTCATTGGCATCCTTTCAAAGCCCACAAATTAGTGGCA
1 TCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGGCA
*
858652 TCCTATCAAAGCCCACAAG
66 TCCTTTCAAAGCCCACAAG
* *
858671 TTAGTGGCATCCTTTCAAAGTCCACAAGTTAGT-GCATCTTTTCAAAAGCCCACAAGTTAGTGGC
1 TCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCTTTTC-AAAGCCCACAAGTTAGTGGC
* *
858735 ATTTTCTTTTTCAAAGCCCACAAC
65 A---TC-CTTTCAAAGCCCACAAG
* * * *
858759 TCCGTGGCA-CCATTTCAAAGCCCACAAGTCAGTGGCACCCTTCTCTAAAGCCCACA
1 TCAGTGGCATCC-TTTCAAAGTCCACAAGTCAGTGGCA-TCTTTTC-AAAGCCCACA
858815 CAAGTCGGTG
Statistics
Matches: 269, Mismatches: 35, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
83 9 0.03
84 58 0.22
85 115 0.43
86 25 0.09
87 4 0.01
88 40 0.15
89 3 0.01
90 15 0.06
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (84 bp):
TCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTTAGTGGCA
TCCTTTCAAAGCCCACAAG
Found at i:858844 original size:32 final size:32
Alignment explanation
Indices: 858781--858847 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
858771 TTTCAAAGCC
*
858781 CACAAGTCAGTGGCACCCTTCTCTAAAGCCCA
1 CACAAGTCAGTGACACCCTTCTCTAAAGCCCA
* * *
858813 CACAAGTCGGTGACAACCCTTTTC-AAGGCCCA
1 CACAAGTCAGTGAC-ACCCTTCTCTAAAGCCCA
858845 CAC
1 CAC
858848 GAGTTTGTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 22 0.73
33 8 0.27
ACGTcount: A:0.28, C:0.37, G:0.16, T:0.18
Consensus pattern (32 bp):
CACAAGTCAGTGACACCCTTCTCTAAAGCCCA
Found at i:859722 original size:19 final size:20
Alignment explanation
Indices: 859672--859724 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
859662 AAACATCATC
* *
859672 GTTTGATTAATATTAATTTA
1 GTTTTATTAATTTTAATTTA
**
859692 GTTTTAAAAATTTTAATTTA
1 GTTTTATTAATTTTAATTTA
859712 -TTTTATTAATTTT
1 GTTTTATTAATTTT
859725 GAAATTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (20 bp):
GTTTTATTAATTTTAATTTA
Found at i:859892 original size:8 final size:8
Alignment explanation
Indices: 859879--859911 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
859869 GACAAATCTT
859879 TTTCATTA
1 TTTCATTA
859887 TTTCATTA
1 TTTCATTA
*
859895 TTT-TTTA
1 TTTCATTA
859902 TTTCATTA
1 TTTCATTA
859910 TT
1 TT
859912 AATTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTCATTA
Found at i:859904 original size:15 final size:16
Alignment explanation
Indices: 859884--859932 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
859874 ATCTTTTTCA
859884 TTATTTCATTATT-TT
1 TTATTTCATTATTATT
859899 TTATTTCATTATTAATT
1 TTATTTCATTATT-ATT
* *
859916 TTATTTTATTTTTATT
1 TTATTTCATTATTATT
859932 T
1 T
859933 GTTCATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 13 0.43
16 4 0.13
17 13 0.43
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTTCATTATTATT
Found at i:859922 original size:23 final size:22
Alignment explanation
Indices: 859879--859926 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
859869 GACAAATCTT
*
859879 TTTCATTATTTCATTATTTTTTA
1 TTTCATTATTTAATTA-TTTTTA
*
859902 TTTCATTA-TTAATTTTATTTTA
1 TTTCATTATTTAATTAT-TTTTA
859924 TTT
1 TTT
859927 TTATTTGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 1 0.05
22 13 0.59
23 8 0.36
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTCATTATTTAATTATTTTTA
Found at i:860286 original size:11 final size:11
Alignment explanation
Indices: 860253--860294 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
860243 ACTAAAAACA
860253 AGAAA-AAAAG
1 AGAAAGAAAAG
* *
860263 AAAAAAAAAAG
1 AGAAAGAAAAG
860274 AGAAAGAAAAG
1 AGAAAGAAAAG
860285 AGAGAAGAAA
1 AGA-AAGAAA
860295 TAAAAACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 4 0.15
11 17 0.63
12 6 0.22
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAAG
Found at i:862124 original size:97 final size:96
Alignment explanation
Indices: 861987--862328 Score: 528
Period size: 97 Copynumber: 3.5 Consensus size: 96
861977 AATTCTATTT
* * *
861987 ATCGGGGATACT-CAACCCATTCCTCCGAGGGGACACTCCAACCCCGCTTTTAAACACATCAAAG
1 ATCGGGGACACTCCAACCCATTCCTCCGAAGGGATACTCCAACCCCGCTTTTAAACACATCAAAG
862051 TTTAAATCTTATTCTCACAT-AAATTATCATC
66 TTTAAATCTTATTCTCAC-TCAAATTATCATC
862082 ATCGGGGACACTCCAACCTCATTCCTCCGAAGGGATACTCCAACCCCGCTTTTAAACACATCAAA
1 ATCGGGGACACTCCAACC-CATTCCTCCGAAGGGATACTCCAACCCCGCTTTTAAACACATCAAA
*
862147 GTTTCAATCTTATTCTCACTCAAATTATCATC
65 GTTTAAATCTTATTCTCACTCAAATTATCATC
* *
862179 ATCGGGGACACTCCAATCCCATTCCTCCGAAGGGATACTCTAACCCTGCTTTTAAACACATCAAA
1 ATCGGGGACACTCCAA-CCCATTCCTCCGAAGGGATACTCCAACCCCGCTTTTAAACACATCAAA
* *
862244 GTTTAAATCTTATTCTCACTCAAAATGTCATC
65 GTTTAAATCTTATTCTCACTCAAATTATCATC
* *
862276 ATCGGGGACACTCCAACTCGATTCCTCCG-AGAGGATACTCCAACCCCGTTTTT
1 ATCGGGGACACTCCAAC-CCATTCCTCCGAAG-GGATACTCCAACCCCGCTTTT
862329 TAATCAAAAA
Statistics
Matches: 228, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
95 11 0.05
96 9 0.04
97 206 0.90
98 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (96 bp):
ATCGGGGACACTCCAACCCATTCCTCCGAAGGGATACTCCAACCCCGCTTTTAAACACATCAAAG
TTTAAATCTTATTCTCACTCAAATTATCATC
Found at i:869003 original size:99 final size:99
Alignment explanation
Indices: 868832--869022 Score: 328
Period size: 99 Copynumber: 1.9 Consensus size: 99
868822 GGTAGCATGT
* * *
868832 GTGGGAGAAAAACAAATCGAAGTTTGAAAAATCATTTCGGGCTCATCTAGTATCATTGAATCATG
1 GTGGGAAAAAAACAAATCGAAGTTTGAAAAATCATTTCAGGCTCATCTAGAATCATTGAATCATG
868897 AACCATACCTTTTCAAAAAGGAAATTTGACATTG
66 AACCATACCTTTTCAAAAAGGAAATTTGACATTG
* *
868931 GTGGGAAAAAAACAAATTGAAGTTTGAAAAATCATTTTAGGCTCATCTAGAATCATTGAATCATG
1 GTGGGAAAAAAACAAATCGAAGTTTGAAAAATCATTTCAGGCTCATCTAGAATCATTGAATCATG
*
868996 AACCATACCTTTTCAGAAAGGAAATTT
66 AACCATACCTTTTCAAAAAGGAAATTT
869023 TGTAAATTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 86 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (99 bp):
GTGGGAAAAAAACAAATCGAAGTTTGAAAAATCATTTCAGGCTCATCTAGAATCATTGAATCATG
AACCATACCTTTTCAAAAAGGAAATTTGACATTG
Found at i:870968 original size:19 final size:19
Alignment explanation
Indices: 870944--870981 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
870934 CTAAGGCCAT
870944 GTATCGATACATCATATGG
1 GTATCGATACATCATATGG
* *
870963 GTATCGATATATCTTATGG
1 GTATCGATACATCATATGG
870982 ATTTGTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (19 bp):
GTATCGATACATCATATGG
Found at i:872384 original size:20 final size:20
Alignment explanation
Indices: 872359--872400 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
872349 CTCGAAAATG
*
872359 TTGAACCTATTTACATTCTT
1 TTGAACCTAATTACATTCTT
*
872379 TTGAACCTAATTACATTGTT
1 TTGAACCTAATTACATTCTT
872399 TT
1 TT
872401 ATTACATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.07, T:0.50
Consensus pattern (20 bp):
TTGAACCTAATTACATTCTT
Found at i:875173 original size:58 final size:58
Alignment explanation
Indices: 875088--875217 Score: 147
Period size: 58 Copynumber: 2.2 Consensus size: 58
875078 CTAAACAAGT
* * * *
875088 ATGAAATTGCATAATAGTCCTTTAAACATAGAAAATGACTAAAATAGTCC-TAAAATGC
1 ATGAAATTGCATAAAAGTCCTTAAAACATAGAAAATGACTAAAAT-GACCTTAAAAGGC
* * * *
875146 ATGAAATTGTATAAAAGT-CTCTAAAACATGGCAAATGACTAGAATGACCTTAAAAGGC
1 ATGAAATTGCATAAAAGTCCT-TAAAACATAGAAAATGACTAAAATGACCTTAAAAGGC
*
875204 ATGAAAATGCATAA
1 ATGAAATTGCATAA
875218 TGGTTTTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 5 0.08
58 55 0.92
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (58 bp):
ATGAAATTGCATAAAAGTCCTTAAAACATAGAAAATGACTAAAATGACCTTAAAAGGC
Found at i:876315 original size:21 final size:21
Alignment explanation
Indices: 876289--876334 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
876279 AAACTTTATC
876289 TTTTCTTTTGTTTTTATCTCA
1 TTTTCTTTTGTTTTTATCTCA
* *
876310 TTTTCTTTTGTTTTTCTCTCT
1 TTTTCTTTTGTTTTTATCTCA
876331 TTTT
1 TTTT
876335 TTCTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTCTTTTGTTTTTATCTCA
Found at i:876354 original size:21 final size:23
Alignment explanation
Indices: 876289--876354 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 23
876279 AAACTTTATC
**
876289 TTTTCTTTTG-TTTT-TATCTCA
1 TTTTCTTTTGTTTTTCTATCTTT
*
876310 TTTTCTTTTGTTTTTCTCTCTTT
1 TTTTCTTTTGTTTTTCTATCTTT
*
876333 TTTTC-TTT-TTTTTCTATGTTT
1 TTTTCTTTTGTTTTTCTATCTTT
876354 T
1 T
876355 AGTTGAGAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 22 0.58
22 7 0.18
23 9 0.24
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTCTTTTGTTTTTCTATCTTT
Found at i:878165 original size:56 final size:56
Alignment explanation
Indices: 877835--878297 Score: 315
Period size: 56 Copynumber: 8.4 Consensus size: 56
877825 CTATATTGTG
* * * *
877835 TTTTTCATTTTAGTGCTAATTTCAACTAGGATGAAACC--CTTAGCTAGC-CTTGGGC
1 TTTTTCATTTTGGTGCCAATTTCAACTAGGACGAAACCTAC-TAGCTA-CTCTTAGGC
* * * * * * * *
877890 TTCTTCATTTCGATGCCAATTTTAGCTAGGATGAAACC-A--A-CTATTATTAGGC
1 TTTTTCATTTTGGTGCCAATTTCAACTAGGACGAAACCTACTAGCTACTCTTAGGC
* * * * * * * *
877942 TTTTT-TTCTTTGGAGCCAATTTCAATTAAGACGAAACTTACTAGCTATTTTTAAGC
1 TTTTTCAT-TTTGGTGCCAATTTCAACTAGGACGAAACCTACTAGCTACTCTTAGGC
* * * * **
877998 CTTTTCATTTT-GTGTCAATTTCAATTAAGA-GAAATTTACTAGCTACTCTTA-GC
1 TTTTTCATTTTGGTGCCAATTTCAACTAGGACGAAACCTACTAGCTACTCTTAGGC
* * * * * * * *
878051 TTTTTTCATTTTGGAGCCTATTTCAAATTAGG-C-AGAACCCATTAGTTATTTTTAGGC
1 -TTTTTCATTTTGGTGCCAATTTC-AACTAGGACGA-AACCTACTAGCTACTCTTAGGC
* * *
878108 TTTTTCATTTTGGTGCCAATTTCAACTAGGATGAATCCTACTAGCTACTCTTGGGC
1 TTTTTCATTTTGGTGCCAATTTCAACTAGGACGAAACCTACTAGCTACTCTTAGGC
* * * * ** * *
878164 TTTTTTATTTTGGTGCTAATTTCAATTAGAACGAAACCTGGTAGTTACTCTTAAGC
1 TTTTTCATTTTGGTGCCAATTTCAACTAGGACGAAACCTACTAGCTACTCTTAGGC
* * * * *
878220 TTTTTCATTTTGGTGCCAATTTCAACAAGGGCAAAACCTA-TGAGTTACTCTTGGGC
1 TTTTTCATTTTGGTGCCAATTTCAACTAGGACGAAACCTACT-AGCTACTCTTAGGC
878276 TTTTTCATTTTGGTGCCAATTT
1 TTTTTCATTTTGGTGCCAATTT
878298 TGTTTTGGCT
Statistics
Matches: 317, Mismatches: 74, Indels: 33
0.75 0.17 0.08
Matches are distributed among these distances:
51 1 0.00
52 33 0.10
53 4 0.01
54 28 0.09
55 65 0.21
56 182 0.57
57 4 0.01
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (56 bp):
TTTTTCATTTTGGTGCCAATTTCAACTAGGACGAAACCTACTAGCTACTCTTAGGC
Found at i:880158 original size:13 final size:14
Alignment explanation
Indices: 880135--880165 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
880125 TTGCACTCAA
880135 TTTTCTATTTTTCT
1 TTTTCTATTTTTCT
880149 TTTTCT-TTTTTCT
1 TTTTCTATTTTTCT
880162 TTTT
1 TTTT
880166 TGATGTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCTATTTTTCT
Found at i:888069 original size:75 final size:75
Alignment explanation
Indices: 887986--888138 Score: 288
Period size: 75 Copynumber: 2.0 Consensus size: 75
887976 TAGAGTTTCA
887986 TATAAGTGTTTTCAAGTCTTAAACCAAATGTTTTCAAAGTAAAAATATTCCAAAGTATCGATACA
1 TATAAGTGTTTTCAAGTCTTAAACCAAATGTTTTCAAAGTAAAAATATTCCAAAGTATCGATACA
888051 TAGGTATTTG
66 TAGGTATTTG
* *
888061 TATAAGTGTTTTCAAGTCTTAAATCGAATGTTTTCAAAGTAAAAATATTCCAAAGTATCGATACA
1 TATAAGTGTTTTCAAGTCTTAAACCAAATGTTTTCAAAGTAAAAATATTCCAAAGTATCGATACA
888126 TAGGTATTTG
66 TAGGTATTTG
888136 TAT
1 TAT
888139 CAATACATTA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (75 bp):
TATAAGTGTTTTCAAGTCTTAAACCAAATGTTTTCAAAGTAAAAATATTCCAAAGTATCGATACA
TAGGTATTTG
Found at i:888259 original size:19 final size:19
Alignment explanation
Indices: 888235--888290 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
888225 TATATCGATA
888235 CATTGTATCGATACATGCT
1 CATTGTATCGATACATGCT
* * *
888254 CATTGTATTGATGCATACT
1 CATTGTATCGATACATGCT
888273 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
888291 AAACTGGTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:888344 original size:20 final size:20
Alignment explanation
Indices: 888319--888371 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
888309 CTAAGTGAAA
* *
888319 TGTATCGATGCATG-GGACAT
1 TGTATCGATACATGAAGA-AT
888339 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
888359 TGTATCGATACAT
1 TGTATCGATACAT
888372 TATGCCCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:897002 original size:19 final size:20
Alignment explanation
Indices: 896978--897030 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
896968 ATCGATACGC
896978 TGTATCGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
* *
896997 TGTATCGATACCTACTCAAT
1 TGTATCGATACATGCTCAAT
*
897017 TGTATTGATACATG
1 TGTATCGATACATG
897031 AAACTAGCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:900403 original size:110 final size:110
Alignment explanation
Indices: 900201--900403 Score: 230
Period size: 110 Copynumber: 1.8 Consensus size: 110
900191 TTTATGCAAA
** * * * **
900201 AAATGAATTATCCTATGTAAAAGGCTTTTGTACGCCACTTTATGACTCTAAACAATGGCCTATTC
1 AAATGAATTATCCTACATAAAAGGCATTCGTACGCCACTTTATAACTCTAAACAATGAACTATTC
* * * * *
900266 TGAAGTCAATCCTTTGGTGCTCGAATCTGCATAATTAATACAATT
66 TGAAGCCAATCCCTTGGGGCCCAAATCTGCATAATTAATACAATT
* * * *
900311 AAATGAATTATCCTACATAAAAGGGATTCGTATGCTACTTTATAACTCTAGATC-ATGAACTATT
1 AAATGAATTATCCTACATAAAAGGCATTCGTACGCCACTTTATAACTCTA-AACAATGAACTATT
900375 -TCGAAGCCAATCCCTTGGGGCCCAAATCT
65 CT-GAAGCCAATCCCTTGGGGCCCAAATCT
900404 AGGAAATTAA
Statistics
Matches: 75, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
109 1 0.01
110 72 0.96
111 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (110 bp):
AAATGAATTATCCTACATAAAAGGCATTCGTACGCCACTTTATAACTCTAAACAATGAACTATTC
TGAAGCCAATCCCTTGGGGCCCAAATCTGCATAATTAATACAATT
Found at i:901183 original size:4 final size:4
Alignment explanation
Indices: 901174--901203 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
901164 CATAAACTAA
901174 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
901204 CTTTAGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:901530 original size:12 final size:11
Alignment explanation
Indices: 901496--901553 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
901486 CCAGGCCACC
901496 TTTTTCTTC-T
1 TTTTTCTTCAT
*
901506 TTTTTTTTC--
1 TTTTTCTTCAT
*
901515 TTTTCCTTCAT
1 TTTTTCTTCAT
*
901526 TTTTTCTTCTCT
1 TTTTTCTTC-AT
*
901538 TTTTTCTTTAT
1 TTTTTCTTCAT
901549 TTTTT
1 TTTTT
901554 TCTCTCTTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
9 7 0.18
10 8 0.21
11 14 0.37
12 9 0.24
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTTCAT
Found at i:901584 original size:42 final size:42
Alignment explanation
Indices: 901496--901583 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
901486 CCAGGCCACC
* *
901496 TTTTTCTTCTTTTTTTTTCTTTTCCTTCATTTTTTCTTCTCT
1 TTTTTCTTCTTTTTTTTTCTCTTCCTTCATTCTTTCTTCTCT
901538 TTTTTCTT-TATTTTTTTCTCTCTTCCTT-ATTCTTTCTT-TCT
1 TTTTTCTTCT-TTTTTTT-TCTCTTCCTTCATTCTTTCTTCTCT
901579 TTTTT
1 TTTTT
901584 TGGTTCTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
41 9 0.21
42 24 0.57
43 9 0.21
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.76
Consensus pattern (42 bp):
TTTTTCTTCTTTTTTTTTCTCTTCCTTCATTCTTTCTTCTCT
Found at i:901598 original size:42 final size:43
Alignment explanation
Indices: 901496--901583 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
901486 CCAGGCCACC
* * *
901496 TTTTTC-TTCTTTTTTTTTCTTTTCCTTCATTTTTTCTTCTCT
1 TTTTTCTTTCTTTTTTTCTCTCTTCCTTCATTCTTTCTTCTCT
*
901538 TTTTTCTTTATTTTTTTCTCTCTTCCTT-ATTCTTTCTT-TCT
1 TTTTTCTTTCTTTTTTTCTCTCTTCCTTCATTCTTTCTTCTCT
901579 TTTTT
1 TTTTT
901584 TGGTTCTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
41 8 0.20
42 15 0.37
43 18 0.44
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.76
Consensus pattern (43 bp):
TTTTTCTTTCTTTTTTTCTCTCTTCCTTCATTCTTTCTTCTCT
Found at i:902666 original size:28 final size:28
Alignment explanation
Indices: 902634--902702 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
902624 CAAGCAAGTG
*
902634 TGGGCTTCGACTCAGA-TGCCAACTAATA
1 TGGGCTTTGACTCA-ATTGCCAACTAATA
* * *
902662 TGGGCTTTGACTTAATTGCCAGCTAGTA
1 TGGGCTTTGACTCAATTGCCAACTAATA
902690 TGGGCTTTGACTC
1 TGGGCTTTGACTC
902703 TATAGGACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (28 bp):
TGGGCTTTGACTCAATTGCCAACTAATA
Found at i:902885 original size:28 final size:28
Alignment explanation
Indices: 902772--902891 Score: 91
Period size: 28 Copynumber: 4.3 Consensus size: 28
902762 TAATATGGGT
* * ** *
902772 TTTGACTTATTTGTCAACAAATATAGGC
1 TTTGACTTATGTGCCAATGAATGTAGGC
* * ** *
902800 TTAGACTTGTGTGCCAATGAGCGTGGGC
1 TTTGACTTATGTGCCAATGAATGTAGGC
*
902828 TTTGACTTATGTGCTAGA-GAATGT-GAGC
1 TTTGACTTATGTGCCA-ATGAATGTAG-GC
* *
902856 TTCGACTTATGTGCCAATTAATGTAGGC
1 TTTGACTTATGTGCCAATGAATGTAGGC
902884 TTTGACTT
1 TTTGACTT
902892 GTGCCAGCAA
Statistics
Matches: 69, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
27 2 0.03
28 65 0.94
29 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (28 bp):
TTTGACTTATGTGCCAATGAATGTAGGC
Found at i:902908 original size:17 final size:18
Alignment explanation
Indices: 902886--902923 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
902876 ATGTAGGCTT
902886 TGACTT-GTGCCAGCAAG
1 TGACTTAGTGCCAGCAAG
*
902903 TGACTTACGTGCTAGCAAG
1 TGACTTA-GTGCCAGCAAG
902922 TG
1 TG
902924 TGGGCTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (18 bp):
TGACTTAGTGCCAGCAAG
Found at i:913368 original size:13 final size:13
Alignment explanation
Indices: 913350--913379 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
913340 AGAAAAAATA
*
913350 TTTATTTTTATTT
1 TTTATTATTATTT
913363 TTTATTATTATTT
1 TTTATTATTATTT
913376 TTTA
1 TTTA
913380 AAAAAAGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTATTATTT
Found at i:913894 original size:111 final size:107
Alignment explanation
Indices: 913739--914263 Score: 449
Period size: 108 Copynumber: 4.8 Consensus size: 107
913729 TGCCCAAGTA
* * * * *
913739 CTATGTACTTTATGCAAAAAATAAATTATCCCATGTAAAGGGCATTCGTATGCTACATTATGACT
1 CTATGTAATTAATGCAAAAAATAAATTATCCTATATAAAAGGCATTCGTATGCTACATTATGACT
* *
913804 CTAGACAATGGCCTATTCTGAGGCTGATCCTTTGGTGCTCGAAT
66 CTAGACAATGACCTATTTTGAGGC--ATCCTTTGGTGCTCGAAT
* * * * *
913848 CTATGTAATTTAATGCAATTAAATAAATTATCTTAAATAAAAGGCATTTGTATGCTACTTTATGA
1 CTATGTAA-TTAATGCAA-AAAATAAATTATCCTATATAAAAGGCATTCGTATGCTACATTATGA
* * * * * * *
913913 CTGTAGATAATGACTTATTTTGTGGCATCCCTTGATGCCCGAAT
64 CTCTAGACAATGACCTATTTTGAGGCATCCTTTGGTGCTCGAAT
*
913957 GC-ATGTAATTAATGCAAAAAATGAATTATCCTATATAAAAAGGCATTCGTATG-T-CATTTTAT
1 -CTATGTAATTAATGCAAAAAATAAATTATCCTATAT-AAAAGGCATTCGTATGCTACA--TTAT
*
914019 GACTCTAGACAATGACCTATTTTGGGGCCAAT-CTTTCGGTGCTCGAAT
62 GACTCTAGACAATGACCTATTTTGAGG-C-ATCCTTT-GGTGCTCGAAT
** * * * * *
914067 CTACATAATTAATGTAAAAAAT-AATTATCCTATATAAATGGCATTCGTATACCA-ATTTACGAC
1 CTATGTAATTAATGCAAAAAATAAATTATCCTATATAAAAGGCATTCGTATGCTACA-TTATGAC
* * * * ** **
914130 TCTAGATAATAATCTATTTTGGGGCCAATCCCCTGGTGCTTAAAT
65 TCTAGACAATGACCTATTTTGAGG-C-ATCCTTTGGTGCTCGAAT
* * *
914175 ACTATGTAATTTACGCAAAAAATGAATTATCC-ATATAAAAGGCATTCGTATGC--CATT-TGAC
1 -CTATGTAATTAATGCAAAAAATAAATTATCCTATATAAAAGGCATTCGTATGCTACATTATG--
* *
914236 AACTCTGGACAATGATCTATTTTGAGGC
63 -ACTCTAGACAATGACCTATTTTGAGGC
914264 CAATCCCTTG
Statistics
Matches: 339, Mismatches: 58, Indels: 39
0.78 0.13 0.09
Matches are distributed among these distances:
106 2 0.01
107 18 0.05
108 109 0.32
109 107 0.32
110 45 0.13
111 58 0.17
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (107 bp):
CTATGTAATTAATGCAAAAAATAAATTATCCTATATAAAAGGCATTCGTATGCTACATTATGACT
CTAGACAATGACCTATTTTGAGGCATCCTTTGGTGCTCGAAT
Found at i:914009 original size:108 final size:109
Alignment explanation
Indices: 913739--914276 Score: 516
Period size: 109 Copynumber: 4.9 Consensus size: 109
913729 TGCCCAAGTA
* * * * * *
913739 CTATGTACTTTATGCAAAAAATAAATTATCCCATGTAAAGGGCATTCGTATGCTACATTATGACT
1 CTATGTAATTAATGCAAAAAATAAATTATCCTATATAAAAGGCATTCGTATGCTACTTTATGACT
* * * ** *
913804 CTAGACAATGGCCTATTCTGAGGCTGATCCTTTGGTGCTCGAAT
66 CTAGACAATGACCTATTTTGGGGCCAATCCCTTGGTGCTCGAAT
* * * *
913848 CTATGTAATTTAATGCAATTAAATAAATTATCTTAAATAAAAGGCATTTGTATGCTACTTTATGA
1 CTATGTAA-TTAATGCAA-AAAATAAATTATCCTATATAAAAGGCATTCGTATGCTACTTTATGA
* * * * * *
913913 CTGTAGATAATGACTTATTTTGTGG-C-ATCCCTTGATGCCCGAAT
64 CTCTAGACAATGACCTATTTTGGGGCCAATCCCTTGGTGCTCGAAT
* *
913957 GC-ATGTAATTAATGCAAAAAATGAATTATCCTATATAAAAAGGCATTCGTATG-TCATTTTATG
1 -CTATGTAATTAATGCAAAAAATAAATTATCCTATAT-AAAAGGCATTCGTATGCT-ACTTTATG
*
914020 ACTCTAGACAATGACCTATTTTGGGGCCAAT-CTTTCGGTGCTCGAAT
63 ACTCTAGACAATGACCTATTTTGGGGCCAATCCCTT-GGTGCTCGAAT
** * * * * * *
914067 CTACATAATTAATGTAAAAAAT-AATTATCCTATATAAATGGCATTCGTATACCAATTTACGACT
1 CTATGTAATTAATGCAAAAAATAAATTATCCTATATAAAAGGCATTCGTATGCTACTTTATGACT
* * * * **
914131 CTAGATAATAATCTATTTTGGGGCCAATCCCCTGGTGCTTAAAT
66 CTAGACAATGACCTATTTTGGGGCCAATCCCTTGGTGCTCGAAT
* * * * **
914175 ACTATGTAATTTACGCAAAAAATGAATTATCC-ATATAAAAGGCATTCGTATGCCA-TTTGACAA
1 -CTATGTAATTAATGCAAAAAATAAATTATCCTATATAAAAGGCATTCGTATGCTACTTT-ATGA
* * *
914238 CTCTGGACAATGATCTATTTTGAGGCCAATCCCTTGGTG
64 CTCTAGACAATGACCTATTTTGGGGCCAATCCCTTGGTG
914277 TCTGAACATT
Statistics
Matches: 354, Mismatches: 61, Indels: 28
0.80 0.14 0.06
Matches are distributed among these distances:
107 16 0.05
108 113 0.32
109 123 0.35
110 45 0.13
111 57 0.16
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (109 bp):
CTATGTAATTAATGCAAAAAATAAATTATCCTATATAAAAGGCATTCGTATGCTACTTTATGACT
CTAGACAATGACCTATTTTGGGGCCAATCCCTTGGTGCTCGAAT
Found at i:914062 original size:219 final size:216
Alignment explanation
Indices: 913729--914268 Score: 588
Period size: 219 Copynumber: 2.5 Consensus size: 216
913719 AATTTATTAG
* * * * *
913729 TGCCCAAGTACTATGTACTTTATGCAAAAAATAAATTATCCCATGTAAAGGGCATTCGTATGCTA
1 TGCCCAAATACTATGTAATTTATGCAAAAAATGAATTAT-CCATATAAAAGGCATTCGTATG-T-
* * ** **
913794 CA--TTATGACTCTAGACAATGGCCTATTCTGAGGCTGATCCTTTGGTGCTCGAATCTATGTAAT
63 CATTTTATGACTCTAGACAATGACCTATTTTGAGGCCAAT-CTTTGGTGCTCGAATCTACATAA-
* * * * * * * *
913857 TTAATGCAATTAAATAAATTATCTTAAATAAAAGGCATTTGTATGCTACTTTATGACTGTAGATA
126 TTAATGCAA-AAAAT-AATTATCCTAAATAAAAGGCATTCGTATACCAATTTACGACTCTAGATA
* * *
913922 ATGA-CTTATTTTGTGG-C-ATCCCTTGA
189 ATAATC-TATTTTGGGGCCAATCCCCTGA
* * *
913948 TGCCCGAATGC-ATGTAATTAATGCAAAAAATGAATTATCCTATATAAAAAGGCATTCGTATGTC
1 TGCCCAAATACTATGTAATTTATGCAAAAAATGAATTATCC-ATAT-AAAAGGCATTCGTATGTC
*
914012 ATTTTATGACTCTAGACAATGACCTATTTTGGGGCCAATCTTTCGGTGCTCGAATCTACATAATT
64 ATTTTATGACTCTAGACAATGACCTATTTTGAGGCCAATCTTT-GGTGCTCGAATCTACATAATT
* * *
914077 AATGTAAAAAATAATTATCCTATATAAATGGCATTCGTATACCAATTTACGACTCTAGATAATAA
128 AATGCAAAAAATAATTATCCTAAATAAAAGGCATTCGTATACCAATTTACGACTCTAGATAATAA
*
914142 TCTATTTTGGGGCCAATCCCCTGG
193 TCTATTTTGGGGCCAATCCCCTGA
** * *
914166 TGCTTAAATACTATGTAATTTACGCAAAAAATGAATTATCCATATAAAAGGCATTCGTATGCCAT
1 TGCCCAAATACTATGTAATTTATGCAAAAAATGAATTATCCATATAAAAGGCATTCGTATGTCAT
* ** * *
914231 TTGACAACTCTGGACAATGATCTATTTTGAGGCCAATC
66 TTTATGACTCTAGACAATGACCTATTTTGAGGCCAATC
914269 CCTTGGTGTC
Statistics
Matches: 269, Mismatches: 43, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
216 52 0.19
217 61 0.23
218 58 0.22
219 98 0.36
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (216 bp):
TGCCCAAATACTATGTAATTTATGCAAAAAATGAATTATCCATATAAAAGGCATTCGTATGTCAT
TTTATGACTCTAGACAATGACCTATTTTGAGGCCAATCTTTGGTGCTCGAATCTACATAATTAAT
GCAAAAAATAATTATCCTAAATAAAAGGCATTCGTATACCAATTTACGACTCTAGATAATAATCT
ATTTTGGGGCCAATCCCCTGA
Found at i:915954 original size:13 final size:13
Alignment explanation
Indices: 915936--915964 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
915926 TCTTTTTTCT
915936 CTTTTTTTCTTCA
1 CTTTTTTTCTTCA
915949 CTTTTTTTCTTCA
1 CTTTTTTTCTTCA
915962 CTT
1 CTT
915965 CCCAAAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (13 bp):
CTTTTTTTCTTCA
Found at i:916769 original size:21 final size:20
Alignment explanation
Indices: 916745--916796 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
916735 TTCGAATTTC
*
916745 AAAAATAGGAAAATTTAATGG
1 AAAAA-AGGAAAAATTAATGG
*
916766 AAAAAAAGAAAAATTAATGG
1 AAAAAAGGAAAAATTAATGG
916786 AATAAAAGGAA
1 AA-AAAAGGAA
916797 TTTTTTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.17
Consensus pattern (20 bp):
AAAAAAGGAAAAATTAATGG
Found at i:916858 original size:15 final size:12
Alignment explanation
Indices: 916818--916856 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
916808 TGATTTATTT
916818 TAAGTTAAATAA
1 TAAGTTAAATAA
916830 TAAGTTAAATAA
1 TAAGTTAAATAA
916842 TAAGTTAAATAA
1 TAAGTTAAATAA
916854 TAA
1 TAA
916857 TATTTTGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (12 bp):
TAAGTTAAATAA
Found at i:916975 original size:21 final size:21
Alignment explanation
Indices: 916951--916990 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
916941 AAGGGAATTC
*
916951 TAAAAGAAAA-TCAATAACTCA
1 TAAAAAAAAATTCAA-AACTCA
916972 TAAAAAAAAATTCAAAACT
1 TAAAAAAAAATTCAAAACT
916991 GATTTGATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.20
Consensus pattern (21 bp):
TAAAAAAAAATTCAAAACTCA
Found at i:919906 original size:13 final size:13
Alignment explanation
Indices: 919888--919914 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
919878 ACAATTGAGT
919888 ATGTATCGATACA
1 ATGTATCGATACA
919901 ATGTATCGATACA
1 ATGTATCGATACA
919914 A
1 A
919915 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Done.