Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008177.1 Hibiscus syriacus cultivar Beakdansim tig00110773_pilon, whole genome shotgun sequence
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: 1003138
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:642619 original size:12 final size:11
Alignment explanation
Indices: 642602--642645 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
642592 AATGTTTTTA
642602 TCTGATTTCTGT
1 TCTGATTT-TGT
*
642614 TCTGATTTTCGA
1 TCTGATTTT-GT
642626 TCTGAATTTTGT
1 TCTG-ATTTTGT
642638 TCTGATTT
1 TCTGATTT
642646 GGATTTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 5 0.18
12 18 0.64
13 5 0.18
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.57
Consensus pattern (11 bp):
TCTGATTTTGT
Found at i:644168 original size:18 final size:19
Alignment explanation
Indices: 644131--644182 Score: 79
Period size: 18 Copynumber: 2.7 Consensus size: 19
644121 TTGATCATTT
*
644131 AATATTTTATTTTGAGATAA
1 AATATTTT-TATTGAGATAA
644151 AATATTTTTATT-AGATAA
1 AATATTTTTATTGAGATAA
644169 AATATTTTTATTGA
1 AATATTTTTATTGA
644183 TTAATTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 18 0.60
19 4 0.13
20 8 0.27
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (19 bp):
AATATTTTTATTGAGATAA
Found at i:648227 original size:30 final size:31
Alignment explanation
Indices: 648193--648266 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 31
648183 ATTCATATAG
*
648193 AATATTAATTTGACTC-CAAACTTTAGATAA
1 AATATTAATTTGACTCTCAAACTTTAGAAAA
* * *
648223 AATATTAATTT-AATCTTAAACTTTTGAAAA
1 AATATTAATTTGACTCTCAAACTTTAGAAAA
*
648253 AATATCAATTTGAC
1 AATATTAATTTGAC
648267 CACTGAATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 3 0.08
30 32 0.89
31 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (31 bp):
AATATTAATTTGACTCTCAAACTTTAGAAAA
Found at i:648980 original size:30 final size:30
Alignment explanation
Indices: 648914--648984 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
648904 TTGATATTTC
* *
648914 ATCTAAAATTTAGGAATAAAATTAGTATTTT
1 ATCTAAAATTTAGG-ATAAAATTACTATTCT
*
648945 ATCTAAAATTTAAGG-TCAAATTACTATTCT
1 ATCTAAAATTT-AGGATAAAATTACTATTCT
*
648975 GTCTAAAATT
1 ATCTAAAATT
648985 CAAGAATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.60
31 11 0.31
32 3 0.09
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Consensus pattern (30 bp):
ATCTAAAATTTAGGATAAAATTACTATTCT
Found at i:652164 original size:2 final size:2
Alignment explanation
Indices: 652157--652293 Score: 93
Period size: 2 Copynumber: 66.5 Consensus size: 2
652147 AACAACTACA
* *
652157 AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT AGT TT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT
* * * *
652201 AGT AT AT AT AT -T AT AT AT AC AA ACT AT AT AGT TT AT AT TT AT
1 A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT
* * *
652243 AT -T AT -T AT AT ACT AT AT AT AA ACT AT AT AT AT -T AT GT AT AA
1 AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
652284 ACT AT AT AT A
1 A-T AT AT AT A
652294 ACATGTATAG
Statistics
Matches: 106, Mismatches: 17, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
1 4 0.04
2 92 0.87
3 10 0.09
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:652188 original size:11 final size:10
Alignment explanation
Indices: 652157--652293 Score: 93
Period size: 11 Copynumber: 13.3 Consensus size: 10
652147 AACAACTACA
652157 ATATATATAT
1 ATATATATAT
652167 ATATATATAT
1 ATATATATAT
652177 ATATACTATAT
1 ATATA-TATAT
*
652188 AGTTTATATAT
1 A-TATATATAT
*
652199 AAAGTATATAT
1 ATA-TATATAT
652210 AT-TATATAT
1 ATATATATAT
* *
652219 ACAAACTATAT
1 ATATA-TATAT
* *
652230 AGTTTATATTT
1 A-TATATATAT
652241 ATAT-TAT-T
1 ATATATATAT
652249 ATATACTATAT
1 ATATA-TATAT
*
652260 ATAAACTATAT
1 ATATA-TATAT
*
652271 ATAT-TATGT
1 ATATATATAT
*
652280 ATAAACTATAT
1 ATATA-TATAT
652291 ATA
1 ATA
652294 ACATGTATAG
Statistics
Matches: 100, Mismatches: 16, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
8 5 0.05
9 18 0.18
10 21 0.21
11 52 0.52
12 4 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (10 bp):
ATATATATAT
Found at i:652195 original size:20 final size:20
Alignment explanation
Indices: 652162--653180 Score: 168
Period size: 20 Copynumber: 50.3 Consensus size: 20
652152 CTACAATATA
*
652162 TATATATATATATATATATAC
1 TATATATAT-TATATATAAAC
*
652183 TATATAGT-TTATATATAAAG
1 TATATA-TATTATATATAAAC
652203 TATATATATTATATATACAAAC
1 TATATATATTATATAT--AAAC
* * *
652225 TATATAGT-TTATATTTATAT
1 TATATA-TATTATATATAAAC
*
652245 TATTATATACTATATATAAAC
1 TA-TATATATTATATATAAAC
*
652266 TATATATATTATGTATAAAC
1 TATATATATTATATATAAAC
652286 TATATATAACATGTATAGACTATAATAC
1 TATATAT---AT-TAT--A-TATAA-AC
*
652314 TATATAGT-TTATATATGAAC
1 TATATA-TATTATATATAAAC
* *
652334 TAT-TAAACTATATATAAAC
1 TATATATATTATATATAAAC
*
652353 TACATAGT-TTATTAATATAAA-
1 TATATA-TATTA-T-ATATAAAC
*
652374 T-TATATAGT-T-TAT---C
1 TATATATATTATATATAAAC
652388 TATA-A-ATTATATATAAAC
1 TATATATATTATATATAAAC
* **
652406 TATACA-ATT-TATATTTA-
1 TATATATATTATATATAAAC
652423 TATAT-TATGTATAATTATAAA-
1 TATATATAT-TAT-A-TATAAAC
* * *
652444 TAATATATACTATGTACAAA-
1 T-ATATATATTATATATAAAC
652464 T-TATATAGTT-TAT-T-AA-
1 TATATATA-TTATATATAAAC
*
652480 TATA-A-ATTATAAATAAAC
1 TATATATATTATATATAAAC
*
652498 TATATAGT-TTATATATATA-
1 TATATA-TATTATATATAAAC
* * * *
652517 TAGTATATATGGTTTAGGGTTTAGGAT
1 TA-TATATAT--TATA---TATA-AAC
* *
652544 TAATTTATGGAATTATATATAAAT
1 T-ATATAT---ATTATATATAAAC
* *
652568 TATATAGT-TTATAGATAATAG
1 TATATA-TATTATATATAA-AC
* * *
652589 TATTTAAACTATATATAAAC
1 TATATATATTATATATAAAC
* * *
652609 AATATATACTA-ACT-TATAC
1 TATATATATTATA-TATAAAC
* * *
652628 TATATGTA-AACTATATATAC
1 TATATATATTA-TATATAAAC
* *
652648 TATATAGT-TTACATATGAAC
1 TATATA-TATTATATATAAAC
* *
652668 TATATGTATAAACTATATAAAC
1 TATATATAT-TA-TATATAAAC
* *
652690 TATATATATAAACTATGTAAAC
1 TATATATAT-TA-TATATAAAC
* *
652712 TATATAGT-TTACATATGAAC
1 TATATA-TATTATATATAAAC
* *
652732 TATATATATAGTTTATTAATGAAC
1 TATATATAT--TATA-T-ATAAAC
*
652756 TATATATAGTT-TATTAGTGAAC
1 TATATATA-TTATA-TA-TAAAC
* * *
652778 TATATAAACTATTTATATAA-
1 TATATATATTATATATA-AAC
*
652798 TATATACT-CTATATATAAAC
1 TATATA-TATTATATATAAAC
652818 TATAGTTTATATTTATATACTACATAC
1 TATA---TATA-TTATATA-TA-A-AC
652845 TATAGTTGATATT-TATAT--AC
1 TATA--T-ATATTATATATAAAC
652865 TATATAT-TATATATATAAAC
1 TATATATAT-TATATATAAAC
* *
652885 -A-ATATA-TAT-TATATAG
1 TATATATATTATATATAAAC
* *
652901 TATA-AT-TTACATATGAAC
1 TATATATATTATATATAAAC
**
652919 TATATATAAAAATTATATAAAC
1 TATATAT-ATTA-TATATAAAC
652941 TATAT-T-TTATATATAAAC
1 TATATATATTATATATAAAC
* *
652959 TATATAGT-TTACATATGAAC
1 TATATA-TATTATATATAAAC
* *
652979 TATATATATAGTTTATTAGTGAAC
1 TATATATAT--TATA-TA-TAAAC
* * * * *
653003 TATATAAACTATTTATATAG
1 TATATATATTATATATAAAC
653023 TATATACTA-TATATATAAAC
1 TATATA-TATTATATATAAAC
* * *
653043 TATAGTTTA-TATTTATATAC
1 TATA-TATATTATATATAAAC
* * *
653063 TACATACTA-TATTTATATAC
1 TATATA-TATTATATATAAAC
653083 --TATATATTATATATAAAC
1 TATATATATTATATATAAAC
* * *
653101 TCTATATA--CTATAT--AG
1 TATATATATTATATATAAAC
* *
653117 TATA-AT-TTACATATGAAC
1 TATATATATTATATATAAAC
**
653135 TATATATAAAAACTATATAAAC
1 TATATAT-ATTA-TATATAAAC
*
653157 TATA-GT-TTATATATAAAC
1 TATATATATTATATATAAAC
653175 TATATA
1 TATATA
653181 ATATAGTTGA
Statistics
Matches: 738, Mismatches: 133, Indels: 256
0.65 0.12 0.23
Matches are distributed among these distances:
13 2 0.00
14 5 0.01
15 10 0.01
16 22 0.03
17 23 0.03
18 94 0.13
19 51 0.07
20 238 0.32
21 64 0.09
22 116 0.16
23 16 0.02
24 43 0.06
25 14 0.02
26 6 0.01
27 19 0.03
28 12 0.02
29 1 0.00
30 2 0.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (20 bp):
TATATATATTATATATAAAC
Found at i:652371 original size:22 final size:22
Alignment explanation
Indices: 652345--652386 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
652335 ATTAAACTAT
652345 ATATAAACTACATAGTTTATTA
1 ATATAAACTACATAGTTTATTA
* *
652367 ATATAAATTATATAGTTTAT
1 ATATAAACTACATAGTTTAT
652387 CTATAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
ATATAAACTACATAGTTTATTA
Found at i:652481 original size:33 final size:32
Alignment explanation
Indices: 652443--652523 Score: 81
Period size: 33 Copynumber: 2.5 Consensus size: 32
652433 ATAATTATAA
** *
652443 ATAATATATACTATGTACAAATTATATAGTTT
1 ATAATATATACTATAAACAAACTATATAGTTT
* * *
652475 ATTAATATAAATTATAAATAAACTATATAGTTT
1 A-TAATATATACTATAAACAAACTATATAGTTT
*
652508 ATATATATATAGTATA
1 ATA-ATATATACTATA
652524 TATGGTTTAG
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
32 3 0.08
33 36 0.92
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (32 bp):
ATAATATATACTATAAACAAACTATATAGTTT
Found at i:652653 original size:22 final size:22
Alignment explanation
Indices: 652628--652741 Score: 96
Period size: 22 Copynumber: 5.4 Consensus size: 22
652618 TAACTTATAC
* *
652628 TATATGTAAACTATATATACTA
1 TATATATAAACTATATAAACTA
* *
652650 TATAGT-T-TAC-ATATGAACTA
1 TATA-TATAAACTATATAAACTA
*
652670 TATGTATAAACTATATAAACTA
1 TATATATAAACTATATAAACTA
*
652692 TATATATAAACTATGTAAACTA
1 TATATATAAACTATATAAACTA
* *
652714 TATAGT-T-TAC-ATATGAACTA
1 TATA-TATAAACTATATAAACTA
652734 TATATATA
1 TATATATA
652742 GTTTATTAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
19 2 0.03
20 25 0.34
21 6 0.08
22 39 0.53
23 2 0.03
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (22 bp):
TATATATAAACTATATAAACTA
Found at i:652739 original size:24 final size:23
Alignment explanation
Indices: 652712--652783 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 23
652702 CTATGTAAAC
*
652712 TATATAGTTTACATATGAACTATA
1 TATATAGTTTA-TTATGAACTATA
652736 TATATAGTTTATTAATGAAC--TA
1 TATATAGTTTATT-ATGAACTATA
652758 TATATAGTTTATTAGTGAACTATA
1 TATATAGTTTATTA-TGAACTATA
652782 TA
1 TA
652784 AACTATTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
21 1 0.02
22 20 0.47
23 1 0.02
24 21 0.49
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (23 bp):
TATATAGTTTATTATGAACTATA
Found at i:652759 original size:22 final size:22
Alignment explanation
Indices: 652712--652783 Score: 92
Period size: 22 Copynumber: 3.2 Consensus size: 22
652702 CTATGTAAAC
*
652712 TATATAGTTTA-CATATGAACTATA
1 TATATAGTTTATTA-ATGAAC--TA
652736 TATATAGTTTATTAATGAACTA
1 TATATAGTTTATTAATGAACTA
*
652758 TATATAGTTTATTAGTGAACTA
1 TATATAGTTTATTAATGAACTA
652780 TATA
1 TATA
652784 AACTATTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 27 0.60
24 17 0.38
25 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (22 bp):
TATATAGTTTATTAATGAACTA
Found at i:652760 original size:64 final size:62
Alignment explanation
Indices: 652626--652988 Score: 184
Period size: 64 Copynumber: 5.8 Consensus size: 62
652616 ACTAACTTAT
* * *
652626 ACTATATGTAAACTATATATACTATATAGTTTACATATGAACTATATGTATAAACTATATAA
1 ACTATATATAAACTATATAAACTATATAGTTTACATATGAACTATATATATAAACTATATAA
* *** *
652688 ACTATATATATAAACTATGTAAACTATATAGTTTACATATGAACTATATATATAGTTTATTAATG
1 AC--TATATATAAACTATATAAACTATATAGTTTACATATGAACTATATATATAAACTA-T-ATA
652753 A
62 A
*** * * * *
652754 ACTATATATAGTTTATTAGTGAACTATATAAACTATT-TATAT-AA-TATATACTCT--A-TATA
1 ACTATATATAAACTA-TA-TAAACTATAT--AGT-TTACATATGAACTATATA-TATAAACTATA
652813 TAA
60 TAA
* ** * ** *
652816 ACTATAGTTTATATTTATATACTACATACTATAGTTGATATTTAT-ATACTATATAT-TATA-TA
1 ACTATA-TATA-AACTATATA-AAC-TA-TATAGTT--TACATATGA-ACTATATATATAAACTA
652878 TATAA
58 TATAA
* * * * *
652883 AC-A-ATATATA-T-TATATAGTATA-A-TTTACATATGAACTATATATAAAAATTATATAA
1 ACTATATATAAACTATATAAACTATATAGTTTACATATGAACTATATATATAAACTATATAA
**
652939 ACTATAT-TTTA-TATATAAACTATATAGTTTACATATGAACTATATATATA
1 ACTATATATAAACTATATAAACTATATAGTTTACATATGAACTATATATATA
652989 GTTTATTAGT
Statistics
Matches: 235, Mismatches: 36, Indels: 62
0.71 0.11 0.19
Matches are distributed among these distances:
54 14 0.06
55 3 0.01
56 11 0.05
57 6 0.03
58 13 0.06
59 3 0.01
60 24 0.10
61 4 0.02
62 14 0.06
63 10 0.04
64 70 0.30
65 12 0.05
66 23 0.10
67 20 0.09
68 6 0.03
69 2 0.01
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (62 bp):
ACTATATATAAACTATATAAACTATATAGTTTACATATGAACTATATATATAAACTATATAA
Found at i:652793 original size:24 final size:23
Alignment explanation
Indices: 652726--652784 Score: 93
Period size: 22 Copynumber: 2.6 Consensus size: 23
652716 TAGTTTACAT
652726 ATGAACTATATATATAGTTTATTA
1 ATGAACTATATA-ATAGTTTATTA
652750 ATGAACTATAT-ATAGTTTATTA
1 ATGAACTATATAATAGTTTATTA
*
652772 GTGAACTATATAA
1 ATGAACTATATAA
652785 ACTATTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 21 0.64
23 1 0.03
24 11 0.33
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (23 bp):
ATGAACTATATAATAGTTTATTA
Found at i:652800 original size:18 final size:18
Alignment explanation
Indices: 652779--652988 Score: 54
Period size: 18 Copynumber: 11.0 Consensus size: 18
652769 TTAGTGAACT
*
652779 ATATAAACTATTTATATA
1 ATATAAACTATATATATA
* *
652797 ATATATACTCTATATATA
1 ATATAAACTATATATATA
* * * *
652815 A-ACTATAGTTTATATTTA
1 ATA-TAAACTATATATATA
652833 TATACTACATACTATAGT-TGATA
1 -ATA-TA-A-ACTATA-TAT-ATA
* *
652856 TTTATATACTATATATTATA
1 AT-ATAAACTATATA-TATA
652876 TATATAAAC-A-ATATATA
1 -ATATAAACTATATATATA
* * * *
652893 TTATATAGTATA-ATTTA
1 ATATAAACTATATATATA
* *
652910 CATATGAACTATATATAAAAATT
1 -ATATAAACTATATAT----ATA
*
652933 ATATAAACTATAT-TTTA
1 ATATAAACTATATATATA
*
652950 TATATAAACTATATAGTTTA
1 -ATATAAACTATATA-TATA
*
652970 CATATGAACTATATATATA
1 -ATATAAACTATATATATA
652989 GTTTATTAGT
Statistics
Matches: 140, Mismatches: 30, Indels: 43
0.66 0.14 0.20
Matches are distributed among these distances:
16 5 0.04
17 11 0.08
18 53 0.38
19 8 0.06
20 35 0.25
21 3 0.02
22 20 0.14
23 5 0.04
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (18 bp):
ATATAAACTATATATATA
Found at i:652846 original size:27 final size:27
Alignment explanation
Indices: 652816--652875 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
652806 CTATATATAA
*
652816 ACTATAGTTTATATTTATATACTACAT
1 ACTATAGTTGATATTTATATACTACAT
*
652843 ACTATAGTTGATATTTATATACTATAT
1 ACTATAGTTGATATTTATATACTACAT
*
652870 ATTATA
1 ACTATA
652876 TATATAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.48
Consensus pattern (27 bp):
ACTATAGTTGATATTTATATACTACAT
Found at i:652897 original size:36 final size:34
Alignment explanation
Indices: 652853--652926 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
652843 ACTATAGTTG
*
652853 ATAT-TTATATACTATATATTATATATATAAACAAT
1 ATATATTATATACTATA-ATT-TACATATAAACAAT
* * *
652888 ATATATTATATAGTATAATTTACATATGAACTAT
1 ATATATTATATACTATAATTTACATATAAACAAT
652922 ATATA
1 ATATA
652927 AAAATTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 16 0.47
35 7 0.21
36 11 0.32
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (34 bp):
ATATATTATATACTATAATTTACATATAAACAAT
Found at i:652991 original size:24 final size:24
Alignment explanation
Indices: 652959--653039 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 24
652949 ATATATAAAC
652959 TATATAGTTTACATA-TGAACTATA
1 TATATAGTTTA-ATAGTGAACTATA
*
652983 TATATAGTTTATTAGTGAACTATA
1 TATATAGTTTAATAGTGAACTATA
* *
653007 TAAACTA-TTTATATAGTATATACTATA
1 TATA-TAGTTTA-ATAGT-GA-ACTATA
653034 TATATA
1 TATATA
653040 AACTATAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
23 2 0.04
24 27 0.57
25 6 0.13
26 3 0.06
27 9 0.19
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.44
Consensus pattern (24 bp):
TATATAGTTTAATAGTGAACTATA
Found at i:653012 original size:225 final size:216
Alignment explanation
Indices: 652783--653180 Score: 652
Period size: 216 Copynumber: 1.8 Consensus size: 216
652773 TGAACTATAT
*
652783 AAACTATTTATATAATATATACTCTATATATAAACTATAGTTTATATTTATATACTACATACTAT
1 AAACTATTTATATAATATATACTATATATATAAACTATAGTTTATATTTATATACTACATAC---
*
652848 AGTTGATATTTATATACTATATATTATATATATAAACAATATATATTATATAGTATAATTTACAT
63 ---T-ATATTTATATACTATATA-T-TATATATAAACAATATATACTATATAGTATAATTTACAT
* *
652913 ATGAACTATATATAAAAATTATATAAACTATATTTTATATATAAACTATATAGTTTACATATGAA
122 ATGAACTATATATAAAAACTATATAAACTATAGTTTATATATAAACTATATAGTTTACATATGAA
652978 CTATATATATAGTTTATTAGTGAACTATAT
187 CTATATATATAGTTTATTAGTGAACTATAT
*
653008 AAACTATTTATATAGTATATACTATATATATAAACTATAGTTTATATTTATATACTACATACTAT
1 AAACTATTTATATAATATATACTATATATATAAACTATAGTTTATATTTATATACTACATACTAT
**
653073 ATTTATATACTATATATTATATATAAACTCTATATACTATATAGTATAATTTACATATGAACTAT
66 ATTTATATACTATATATTATATATAAACAATATATACTATATAGTATAATTTACATATGAACTAT
653138 ATATAAAAACTATATAAACTATAGTTTATATATAAACTATATA
131 ATATAAAAACTATATAAACTATAGTTTATATATAAACTATATA
653181 ATATAGTTGA
Statistics
Matches: 166, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
216 86 0.52
217 1 0.01
218 18 0.11
219 1 0.01
225 60 0.36
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (216 bp):
AAACTATTTATATAATATATACTATATATATAAACTATAGTTTATATTTATATACTACATACTAT
ATTTATATACTATATATTATATATAAACAATATATACTATATAGTATAATTTACATATGAACTAT
ATATAAAAACTATATAAACTATAGTTTATATATAAACTATATAGTTTACATATGAACTATATATA
TAGTTTATTAGTGAACTATAT
Found at i:653028 original size:7 final size:6
Alignment explanation
Indices: 653016--653120 Score: 50
Period size: 7 Copynumber: 16.0 Consensus size: 6
653006 ATAAACTATT
* * * *
653016 TATATA GTATATA CTATATA TATAAA CTATAGTT TATATT TATATA CTACATA
1 TATATA -TATATA -TATATA TATATA -TATA-TA TATATA TATATA -TATATA
* * *
653069 CTATATT TATATA CTATATA T-TATA TATAAA CTCTATA TACTATA TAGTATA
1 -TATATA TATATA -TATATA TATATA TATATA -TATATA TA-TATA TA-TATA
653121 ATTTACATAT
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
5 5 0.06
6 22 0.29
7 50 0.65
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (6 bp):
TATATA
Found at i:653028 original size:9 final size:8
Alignment explanation
Indices: 653016--653120 Score: 50
Period size: 9 Copynumber: 12.0 Consensus size: 8
653006 ATAAACTATT
653016 TATATAGTA
1 TATATA-TA
653025 TATACTATA
1 TATA-TATA
*
653034 TATATAAA
1 TATATATA
*
653042 CTATAGTTTA
1 -TATA-TATA
*
653052 TATTTATA
1 TATATATA
*
653060 TACTACATA
1 TA-TATATA
*
653069 CTATATTTA
1 -TATATATA
653078 TATACTATA
1 TATA-TATA
653087 TAT-TATA
1 TATATATA
* *
653094 TATAAACTC
1 TATATA-TA
653103 TATATACTA
1 TATATA-TA
653112 TATAGTATA
1 TATA-TATA
653121 ATTTACATAT
Statistics
Matches: 73, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
7 7 0.10
8 13 0.18
9 45 0.62
10 8 0.11
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (8 bp):
TATATATA
Found at i:653031 original size:18 final size:18
Alignment explanation
Indices: 653005--653039 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
652995 TAGTGAACTA
*
653005 TATAAACTATTTATATAG
1 TATAAACTATATATATAG
*
653023 TATATACTATATATATA
1 TATAAACTATATATATA
653040 AACTATAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
TATAAACTATATATATAG
Found at i:653114 original size:34 final size:34
Alignment explanation
Indices: 653076--653180 Score: 86
Period size: 34 Copynumber: 2.9 Consensus size: 34
653066 ATACTATATT
* *
653076 TATATACTAT-ATATTATATATAAACTCTATATAC
1 TATATACTATAAT-TTACATATAAACTATATATAC
* *
653110 TATATAGTATAATTTACATATGAACTATATATAAAAAC
1 TATATACTATAATTTACATATAAACTATATAT----AC
* *
653148 TATATAAACTATAGTTTATATATAAACTATATA
1 TATAT--ACTATAATTTACATATAAACTATATA
653181 ATATAGTTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
34 25 0.45
35 2 0.04
38 7 0.12
40 22 0.39
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.41
Consensus pattern (34 bp):
TATATACTATAATTTACATATAAACTATATATAC
Found at i:653181 original size:225 final size:225
Alignment explanation
Indices: 652682--653185 Score: 673
Period size: 225 Copynumber: 2.3 Consensus size: 225
652672 TGTATAAACT
* * * *
652682 ATATAAACTATATATATAAACTATGTAAACTATATAGTTTACATATGAAC--TAT--ATATATAG
1 ATATGAACTATATATAAAAACTATATAAAC--TATAGTTTATATAT-AACTATATAAATATATAG
* *
652743 TTTATTAATGAACTATATATAGTTTATTAGTGAACTATATAAACTATTTATATAATATATACTCT
63 TTTAATAATGAACTATATATAGTTTATTAGTGAACTATATAAACTATTTATATAATATATACTAT
652808 ATATATAAACTATAGTTTATATTTATATACTACATACTATAGTTGATATTTATATACTATATATT
128 ATATATAAACTATAGTTTATATTTATATACTACATAC-----TTGATATTTATATACTATATATT
*
652873 ATATATATAAACAATATATATTATATAGTATAATTTAC
188 ATATATATAAACAATATATACTATATAGTATAATTTAC
* *
652911 ATATGAACTATATATAAAAATTATATAAACTATA--TT-T-TAT-A-TATA-AACTATATAGTTT
1 ATATGAACTATATATAAAAACTATATAAACTATAGTTTATATATAACTATATAAATATATAGTTT
*
652969 ACAT-ATGAACTATATATATAGTTTATTAGTGAACTATATAAACTATTTATATAGTATATACTAT
66 A-ATAATGAAC--TATATATAGTTTATTAGTGAACTATATAAACTATTTATATAATATATACTAT
653033 ATATATAAACTATAGTTTATATTTATATACTACATAC-T-ATATTTATATACTATATA-T-TATA
128 ATATATAAACTATAGTTTATATTTATATACTACATACTTGATATTTATATACTATATATTATATA
**
653094 TATAAACTCTATATACTATATAGTATAATTTAC
193 TATAAACAATATATACTATATAGTATAATTTAC
653127 ATATGAACTATATATAAAAACTATATAAACTATAGTTTATATATAAACTATAT-AATATA
1 ATATGAACTATATATAAAAACTATATAAACTATAGTTTATATAT-AACTATATAAATATA
653186 GTTGATATTT
Statistics
Matches: 246, Mismatches: 14, Indels: 36
0.83 0.05 0.12
Matches are distributed among these distances:
216 67 0.27
217 1 0.00
218 20 0.08
219 2 0.01
220 3 0.01
221 1 0.00
222 3 0.01
223 29 0.12
224 1 0.00
225 89 0.36
227 4 0.02
229 26 0.11
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.43
Consensus pattern (225 bp):
ATATGAACTATATATAAAAACTATATAAACTATAGTTTATATATAACTATATAAATATATAGTTT
AATAATGAACTATATATAGTTTATTAGTGAACTATATAAACTATTTATATAATATATACTATATA
TATAAACTATAGTTTATATTTATATACTACATACTTGATATTTATATACTATATATTATATATAT
AAACAATATATACTATATAGTATAATTTAC
Found at i:653206 original size:54 final size:53
Alignment explanation
Indices: 653150--653254 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 53
653140 ATAAAAACTA
* * *
653150 TATAAACTATAGTT-TATATATAAACTATATAATATAGTTGATATTTATATAG
1 TATATACTATAGTTATATATATAAACTATATAATATAATTGATACTTATATAG
* * *
653202 TATATACTATAGTTGATATTTATATACTATATAATATAATTTATACTTATATA
1 TATATACTATAGTT-ATATATATAAACTATATAATATAATTGATACTTATATA
653255 ATTTTTACTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 13 0.29
54 32 0.71
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.47
Consensus pattern (53 bp):
TATATACTATAGTTATATATATAAACTATATAATATAATTGATACTTATATAG
Found at i:653251 original size:27 final size:27
Alignment explanation
Indices: 653146--653254 Score: 123
Period size: 27 Copynumber: 4.0 Consensus size: 27
653136 ATATATAAAA
* *
653146 ACTATATAAACTATAGTT--TATATATAA
1 ACTATAT-AA-TATAGTTGATATTTATAT
653173 ACTATATAATATAGTTGATATTTATAT
1 ACTATATAATATAGTTGATATTTATAT
* *
653200 AGTATATACTATAGTTGATATTTATAT
1 ACTATATAATATAGTTGATATTTATAT
* * *
653227 ACTATATAATATAATTTATACTTATAT
1 ACTATATAATATAGTTGATATTTATAT
653254 A
1 A
653255 ATTTTTACTA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
25 7 0.10
26 2 0.03
27 62 0.87
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (27 bp):
ACTATATAATATAGTTGATATTTATAT
Found at i:653255 original size:15 final size:14
Alignment explanation
Indices: 653235--653269 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
653225 ATACTATATA
653235 ATATAATTTATACTT
1 ATATAATTTATAC-T
*
653250 ATATAATTTTTACT
1 ATATAATTTATACT
653264 ATATAA
1 ATATAA
653270 ATTCAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (14 bp):
ATATAATTTATACT
Found at i:653264 original size:54 final size:52
Alignment explanation
Indices: 653149--653266 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 52
653139 TATAAAAACT
* * *
653149 ATATAAACTATAGTTTATATATAAACTATATAATATAGTTGATATTTATATA
1 ATATATACTATAGTTTATATATAAACTATATAATATAATTGATACTTATATA
* * * *
653201 GTATATACTATAGTTGATATTTATATACTATATAATATAATTTATACTTATATA
1 ATATATACTATAGTT--TATATATAAACTATATAATATAATTGATACTTATATA
* *
653255 ATTTTTACTATA
1 ATATATACTATA
653267 TAAATTCAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
52 13 0.24
54 41 0.76
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (52 bp):
ATATATACTATAGTTTATATATAAACTATATAATATAATTGATACTTATATA
Found at i:653981 original size:24 final size:24
Alignment explanation
Indices: 653946--654014 Score: 95
Period size: 23 Copynumber: 2.9 Consensus size: 24
653936 TGCCACATAA
*
653946 TTGTCCCAAAGGACCACATAGGTT
1 TTGTCCCAAAGGACCACATAGATT
**
653970 TTGTCCTGAAGGACCACATA-ATT
1 TTGTCCCAAAGGACCACATAGATT
*
653993 TTGTCCCAAATGACCACATAGA
1 TTGTCCCAAAGGACCACATAGA
654015 ACCCTCGACT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (24 bp):
TTGTCCCAAAGGACCACATAGATT
Found at i:653998 original size:23 final size:23
Alignment explanation
Indices: 653938--654012 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
653928 CACCGAAATG
653938 CCACATAA--TTGTCCCAAAGGA
1 CCACATAATTTTGTCCCAAAGGA
* **
653959 CCACATAGGTTTTGTCCTGAAGGA
1 CCACATA-ATTTTGTCCCAAAGGA
*
653983 CCACATAATTTTGTCCCAAATGA
1 CCACATAATTTTGTCCCAAAGGA
654006 CCACATA
1 CCACATA
654013 GAACCCTCGA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.16
23 19 0.43
24 18 0.41
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (23 bp):
CCACATAATTTTGTCCCAAAGGA
Found at i:654175 original size:36 final size:36
Alignment explanation
Indices: 654134--654212 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
654124 ATGGGCATTT
654134 TCACATTGAGTATTTTCGTATACACATGTTCACATG
1 TCACATTGAGTATTTTCGTATACACATGTTCACATG
*
654170 TCACATTGAGTATTTTTGTATACACATGTTCACATG
1 TCACATTGAGTATTTTCGTATACACATGTTCACATG
654206 TCACATT
1 TCACATT
654213 TTCATAATCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.41
Consensus pattern (36 bp):
TCACATTGAGTATTTTCGTATACACATGTTCACATG
Found at i:660896 original size:21 final size:22
Alignment explanation
Indices: 660872--660922 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
660862 ACCGAAGTGT
660872 CACATA-ATTGTCCAGAAGGAC
1 CACATAGATTGTCCAGAAGGAC
* * *
660893 CACATAGGTTTGTCCCGAAGGGC
1 CACATA-GATTGTCCAGAAGGAC
660916 CACATAG
1 CACATAG
660923 GTTTTGTCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 6 0.24
22 1 0.04
23 18 0.72
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (22 bp):
CACATAGATTGTCCAGAAGGAC
Found at i:660912 original size:23 final size:24
Alignment explanation
Indices: 660879--660946 Score: 93
Period size: 23 Copynumber: 2.9 Consensus size: 24
660869 TGTCACATAA
*
660879 TTGTCCAGAAGGACCACATAGG-T
1 TTGTCCCGAAGGACCACATAGGTT
*
660902 TTGTCCCGAAGGGCCACATAGGTT
1 TTGTCCCGAAGGACCACATAGGTT
* *
660926 TTGTCCCAAAGGACAACATAG
1 TTGTCCCGAAGGACCACATAG
660947 AACCCTCGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 20 0.51
24 19 0.49
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (24 bp):
TTGTCCCGAAGGACCACATAGGTT
Found at i:660937 original size:24 final size:23
Alignment explanation
Indices: 660879--660946 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 23
660869 TGTCACATAA
660879 TTGT-CCAGAAGGACCACATAGGT
1 TTGTCCCA-AAGGACCACATAGGT
* *
660902 TTGTCCCGAAGGGCCACATAGGTT
1 TTGTCCCAAAGGACCACATAGG-T
*
660926 TTGTCCCAAAGGACAACATAG
1 TTGTCCCAAAGGACCACATAG
660947 AACCCTCGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
23 17 0.45
24 21 0.55
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (23 bp):
TTGTCCCAAAGGACCACATAGGT
Found at i:663016 original size:16 final size:16
Alignment explanation
Indices: 662995--663027 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
662985 AAAAAACAGT
*
662995 AAATAAATAGAAAATA
1 AAATAAAAAGAAAATA
663011 AAATAAAAAGAAAATA
1 AAATAAAAAGAAAATA
663027 A
1 A
663028 TCCTCACTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:663549 original size:24 final size:24
Alignment explanation
Indices: 663504--663553 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
663494 ATAAAGAACC
*
663504 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
663528 AAAATAAAGTTTAAACAT-CCATTA
1 AAAATAAA-CTTAAACATACCATTA
663552 AA
1 AA
663554 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:670604 original size:29 final size:29
Alignment explanation
Indices: 670444--670613 Score: 209
Period size: 29 Copynumber: 5.9 Consensus size: 29
670434 GACTATTATG
* * *
670444 AAAATAACACATTTTTCGAAATAATTCCC
1 AAAATATCACCTTTTTCAAAATAATTCCC
*
670473 ATAATATCACCTTTTTCAAAATAATTCCC
1 AAAATATCACCTTTTTCAAAATAATTCCC
** *
670502 AAAATATCATTTTTTTCGAAATAATTCCC
1 AAAATATCACCTTTTTCAAAATAATTCCC
* ** *
670531 AAAATATCACTTTTTTTGAAATAATTTCC
1 AAAATATCACCTTTTTCAAAATAATTCCC
670560 AAAATATCACCTTTTTCAAAATAATTCCC
1 AAAATATCACCTTTTTCAAAATAATTCCC
*
670589 AAAATAAT-ACCATTTT-AAAATAATT
1 AAAAT-ATCACCTTTTTCAAAATAATT
670614 ACATCGTCGG
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
28 9 0.07
29 113 0.91
30 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATATCACCTTTTTCAAAATAATTCCC
Found at i:676757 original size:18 final size:20
Alignment explanation
Indices: 676722--676761 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
676712 AAACTATTTA
*
676722 TATATATTACATATATAGTT
1 TATATATTACATACATAGTT
676742 TATATA-TAC-TACATAGTT
1 TATATATTACATACATAGTT
676760 TA
1 TA
676762 CAAATGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 3 0.16
20 6 0.32
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (20 bp):
TATATATTACATACATAGTT
Found at i:676859 original size:37 final size:38
Alignment explanation
Indices: 676818--676899 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 38
676808 ATATACAAAC
676818 TATATATATA-T-ATTAGTATTATATATAAATATATA-TA
1 TATATATATAGTCATTAGTA-TATATA-AAATATATAGTA
*
676855 TATATATATAGTTCATTAGTATATATAAACTATATAGTA
1 TATATATATAG-TCATTAGTATATATAAAATATATAGTA
676894 TATATA
1 TATATA
676900 AACTATACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
37 10 0.25
38 8 0.20
39 15 0.38
40 7 0.17
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (38 bp):
TATATATATAGTCATTAGTATATATAAAATATATAGTA
Found at i:676878 original size:67 final size:67
Alignment explanation
Indices: 676771--676898 Score: 181
Period size: 67 Copynumber: 1.9 Consensus size: 67
676761 ACAAATGAAC
*
676771 TATATATAAAAACTATATATATATATAAGTATATGGTATATACAAACTATATA-TATATATTAGT
1 TATATATAAAAACTATATATATATATAAGTATATAGTATATACAAACTATATAGTATATATTAGT
676835 AT
66 AT
* *
676837 TATATATAAATA-TATATATATATATATAGT-TCATTAGTATATATAAACTATATAGTATATAT
1 TATATATAAAAACTATATATATATATA-AGTAT-A-TAGTATATACAAACTATATAGTATATAT
676899 AAACTATACA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
65 15 0.27
66 15 0.27
67 18 0.33
68 7 0.13
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (67 bp):
TATATATAAAAACTATATATATATATAAGTATATAGTATATACAAACTATATAGTATATATTAGT
AT
Found at i:676925 original size:51 final size:49
Alignment explanation
Indices: 676846--676990 Score: 204
Period size: 51 Copynumber: 3.0 Consensus size: 49
676836 TTATATATAA
*
676846 ATATATA-TATATA-TATATAGTTCATTAGTATATATAAACTATATAGT
1 ATATATACTATACATTATATAGTTCATTAGTATATATAAACTATATAGT
676893 ATATATAAACTATACATTATATAGTTCATTAGTATATATAAACTATATAGT
1 ATATAT--ACTATACATTATATAGTTCATTAGTATATATAAACTATATAGT
* * * * *
676944 ATATATAGTTTATATTATATAGTTCATTAATATATATAACCTATATA
1 ATATATACTATACATTATATAGTTCATTAGTATATATAAACTATATA
676991 TTAATTTATT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
47 6 0.07
49 37 0.42
50 5 0.06
51 40 0.45
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (49 bp):
ATATATACTATACATTATATAGTTCATTAGTATATATAAACTATATAGT
Found at i:676926 original size:33 final size:35
Alignment explanation
Indices: 676889--676953 Score: 107
Period size: 33 Copynumber: 1.9 Consensus size: 35
676879 ATAAACTATA
676889 TAGTATATATAAACTATACA-T-TATATAGTTCAT
1 TAGTATATATAAACTATACAGTATATATAGTTCAT
*
676922 TAGTATATATAAACTATATAGTATATATAGTT
1 TAGTATATATAAACTATACAGTATATATAGTT
676954 TATATTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 19 0.66
34 1 0.03
35 9 0.31
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (35 bp):
TAGTATATATAAACTATACAGTATATATAGTTCAT
Found at i:676947 original size:49 final size:50
Alignment explanation
Indices: 676859--676990 Score: 194
Period size: 49 Copynumber: 2.6 Consensus size: 50
676849 TATATATATA
676859 TATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTATACAT
1 TATATAGTTCATTAGTATATATAAACTATATAG-ATATATAAACTATACAT
* * * *
676910 TATATAGTTCATTAGTATATATAAACTATATAG-TATATATAGTTTATAT
1 TATATAGTTCATTAGTATATATAAACTATATAGATATATAAACTATACAT
* *
676959 TATATAGTTCATTAATATATATAACCTATATA
1 TATATAGTTCATTAGTATATATAAACTATATA
676991 TTAATTTATT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
49 42 0.56
51 33 0.44
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (50 bp):
TATATAGTTCATTAGTATATATAAACTATATAGATATATAAACTATACAT
Found at i:676981 original size:2 final size:2
Alignment explanation
Indices: 676784--676964 Score: 74
Period size: 2 Copynumber: 87.0 Consensus size: 2
676774 ATATAAAAAC
* * *
676784 TA TA TA TA TA TA TA -A GTA TA TGG TA TA TA CA AA CTA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA T-A TA TA TA TA TA -TA TA TA TA
*
676826 TA TA T- TA GTA T- TA TA TA TA AA TA TA TA TA TA TA TA TA TA GT-
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
676867 TCA T- TA GTA TA TA TA AA CTA TA TA GTA TA TA TA AA CTA TA CA T-
1 T-A TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA
* *
676910 TA TA TA GT- TCA T- TA GTA TA TA TA AA CTA TA TA GTA TA TA TA GTT
1 TA TA TA -TA T-A TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA -TA
676954 TA TA T- TA TA TA
1 TA TA TA TA TA TA
676965 GTTCATTAAT
Statistics
Matches: 137, Mismatches: 17, Indels: 50
0.67 0.08 0.25
Matches are distributed among these distances:
1 9 0.07
2 107 0.78
3 21 0.15
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (2 bp):
TA
Found at i:677124 original size:61 final size:61
Alignment explanation
Indices: 677050--677182 Score: 185
Period size: 61 Copynumber: 2.2 Consensus size: 61
677040 TATAATGATC
* **
677050 AAATTGAACAAATTTTAAATAAGAAGCTTAAATTAATAAATTGTAACAATAAATTTGGACA
1 AAATTGAACAAATTTTAAATAAGAAACTTAAATTAATAAATTACAACAATAAATTTGGACA
* * * * * *
677111 AAATTGAAGAAATTTTAAATATGAAACTTAAATTAATATATTACATCATTAAATTTGGACT
1 AAATTGAACAAATTTTAAATAAGAAACTTAAATTAATAAATTACAACAATAAATTTGGACA
677172 AAATTGAACAA
1 AAATTGAACAA
677183 CTTTAAAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (61 bp):
AAATTGAACAAATTTTAAATAAGAAACTTAAATTAATAAATTACAACAATAAATTTGGACA
Found at i:678108 original size:31 final size:31
Alignment explanation
Indices: 678043--678155 Score: 153
Period size: 31 Copynumber: 3.8 Consensus size: 31
678033 TAATATGTTC
* *
678043 ATATGTCCCGAAGAACATA---AGT-AGTCC
1 ATATGTCCCGAAGAACATAGGTAATCAGTCA
*
678070 ATATGTCCCGAAGAACATAGGTAATCAGTTA
1 ATATGTCCCGAAGAACATAGGTAATCAGTCA
* *
678101 ATATGTCCTGAAGAACATAGGTAATCAGTCC
1 ATATGTCCCGAAGAACATAGGTAATCAGTCA
678132 ATATGTCCCGAAGAACATAGGTAA
1 ATATGTCCCGAAGAACATAGGTAA
678156 CCCTCGACTC
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 19 0.25
30 2 0.03
31 54 0.72
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (31 bp):
ATATGTCCCGAAGAACATAGGTAATCAGTCA
Found at i:681517 original size:31 final size:31
Alignment explanation
Indices: 681476--681602 Score: 166
Period size: 31 Copynumber: 4.1 Consensus size: 31
681466 ACTCGTATAA
* *
681476 TAATCTGTCCATATATCCCGAAGAACATATG
1 TAATCAGTCCATATATCCCGAAGAACATAGG
* *
681507 TAATCAGTCCATATATCTCGAATAACA-ATGG
1 TAATCAGTCCATATATCCCGAAGAACATA-GG
* * *
681538 TAATCAATCCATATGTCCTGAAGAACATAGG
1 TAATCAGTCCATATATCCCGAAGAACATAGG
*
681569 TAATCAGTCCATATGTCCCGAAGAACATAGG
1 TAATCAGTCCATATATCCCGAAGAACATAGG
681600 TAA
1 TAA
681603 CCCTCGACTC
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
30 1 0.01
31 81 0.98
32 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (31 bp):
TAATCAGTCCATATATCCCGAAGAACATAGG
Found at i:683472 original size:103 final size:102
Alignment explanation
Indices: 683266--683579 Score: 341
Period size: 103 Copynumber: 3.1 Consensus size: 102
683256 TTTATAACTT
* * * *
683266 TTCATCCGTGTTCATCCCAAAAACCTCATTTGATATTTACAAACACCAAAACCGAAACCATTTCG
1 TTCATCCGTATTCATCCCAAAAACCTCATTTGATATTCACAAACACCAAAACCCAAACCATTTCA
* * * *
683331 TGTTTTTTTCGATCAAACTCCCATAATTTCAACCTTTG
66 T-ATTTTTTCGATCAAACTCCCAAAAATTCATCCTTTG
* *
683369 TTCATCCGTATTCATCCCAAAAACTCTCATTTGATCTTCAGAAACACCAAAACCCAAACCATTTC
1 TTCATCCGTATTCATCCCAAAAAC-CTCATTTGATATTCACAAACACCAAAACCCAAACCATTTC
* **
683434 ATATTTTTTCGATCAAACACCCAAAAATTCATTTTTTG
65 ATATTTTTTCGATCAAACTCCCAAAAATTCATCCTTTG
* * * * *
683472 TTCATTCC--AGTTCTTCCC-CAAACCATTATTTGATATTCACAAACACCAAAACCTAAGCCCA-
1 TTCA-TCCGTA-TTCATCCCAAAAACC-TCATTTGATATTCACAAACACCAAAACCCAA-ACCAT
* * *
683533 TTCCTATTTTTTTGATCAAACTCCCAAAAGTTCATCCATTT-
62 TTCATATTTTTTCGATCAAACTCCCAAAAATTCATCC-TTTG
683574 TTCATC
1 TTCATC
683580 TGTGTTCTTC
Statistics
Matches: 179, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
101 3 0.02
102 67 0.37
103 69 0.39
104 40 0.22
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (102 bp):
TTCATCCGTATTCATCCCAAAAACCTCATTTGATATTCACAAACACCAAAACCCAAACCATTTCA
TATTTTTTCGATCAAACTCCCAAAAATTCATCCTTTG
Found at i:683597 original size:102 final size:102
Alignment explanation
Indices: 683266--683591 Score: 354
Period size: 102 Copynumber: 3.2 Consensus size: 102
683256 TTTATAACTT
* * *
683266 TTCATCCGTGTTCATCCCAAAAACCTCATTTGATATTTACAAACACCAAAACCGAAACCATTTCG
1 TTCATCCGTGTTCATCCCAAAAACCTCATTTGATATTCACAAACACCAAAACCCAAACCATTTCA
* * * *
683331 TGTTTTTTTCGATCAAACTCCCATAATTTCAACCTTTG
66 TATTTTTTT-GATCAAACTCCCAAAAATTCATCCTTTG
* * *
683369 TTCATCCGTATTCATCCCAAAAACTCTCATTTGATCTTCAGAAACACCAAAACCCAAACCATTTC
1 TTCATCCGTGTTCATCCCAAAAAC-CTCATTTGATATTCACAAACACCAAAACCCAAACCATTTC
* * **
683434 ATATTTTTTCGATCAAACACCCAAAAATTCATTTTTTG
65 ATATTTTTTTGATCAAACTCCCAAAAATTCATCCTTTG
* * * * * *
683472 TTCATTCC-AGTTCTTCCC-CAAACCATTATTTGATATTCACAAACACCAAAACCTAAGCCCA-T
1 TTCA-TCCGTGTTCATCCCAAAAACC-TCATTTGATATTCACAAACACCAAAACCCAA-ACCATT
* *
683534 TCCTATTTTTTTGATCAAACTCCCAAAAGTTCATCCATTT-
63 TCATATTTTTTTGATCAAACTCCCAAAAATTCATCC-TTTG
* *
683574 TTCATCTGTGTTCTTCCC
1 TTCATCCGTGTTCATCCC
683592 CAAACCCTTA
Statistics
Matches: 186, Mismatches: 31, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
101 3 0.02
102 75 0.40
103 62 0.33
104 46 0.25
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (102 bp):
TTCATCCGTGTTCATCCCAAAAACCTCATTTGATATTCACAAACACCAAAACCCAAACCATTTCA
TATTTTTTTGATCAAACTCCCAAAAATTCATCCTTTG
Found at i:683790 original size:6 final size:6
Alignment explanation
Indices: 683779--683853 Score: 55
Period size: 6 Copynumber: 12.5 Consensus size: 6
683769 AGCCCTAACT
* * * *
683779 CAAACC CAAACC CTAA-C CAGAACC TAAACC TAAACC CAAACC TAATA-C
1 CAAACC CAAACC CAAACC CA-AACC CAAACC CAAACC CAAACC CAA-ACC
* **
683827 CGAACC CAAACC TGAACC CAAACC CAA
1 CAAACC CAAACC CAAACC CAAACC CAA
683854 TCTCGAACCT
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
5 3 0.06
6 47 0.89
7 3 0.06
ACGTcount: A:0.47, C:0.41, G:0.04, T:0.08
Consensus pattern (6 bp):
CAAACC
Found at i:683794 original size:18 final size:18
Alignment explanation
Indices: 683771--683808 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
683761 CTTCTCTAAG
683771 CCCTAACTCA-AACCCAAA
1 CCCTAAC-CAGAACCCAAA
*
683789 CCCTAACCAGAACCTAAA
1 CCCTAACCAGAACCCAAA
683807 CC
1 CC
683809 TAAACCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.42, C:0.45, G:0.03, T:0.11
Consensus pattern (18 bp):
CCCTAACCAGAACCCAAA
Found at i:683814 original size:18 final size:17
Alignment explanation
Indices: 683779--683850 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 17
683769 AGCCCTAACT
* *
683779 CAAACCCAAACCCTAAC
1 CAAACCTAAACCCAAAC
*
683796 CAGAACCTAAACCTAAACC
1 CA-AACCTAAACCCAAA-C
* *
683815 CAAACCTAATACCGAACC
1 CAAACCTAA-ACCCAAAC
*
683833 CAAACCTGAACCCAAAC
1 CAAACCTAAACCCAAAC
683850 C
1 C
683851 CAATCTCGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
17 9 0.20
18 27 0.61
19 8 0.18
ACGTcount: A:0.46, C:0.42, G:0.04, T:0.08
Consensus pattern (17 bp):
CAAACCTAAACCCAAAC
Found at i:683861 original size:30 final size:29
Alignment explanation
Indices: 683780--683862 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
683770 GCCCTAACTC
*
683780 AAACCCAAACCCTAA-CCAGAACCTAAACCT
1 AAACCCAAACCC-AATCC-GAACCCAAACCT
*
683810 AAACCCAAACCTAATACCGAACCCAAACCT
1 AAACCCAAACCCAAT-CCGAACCCAAACCT
*
683840 GAACCCAAACCCAATCTCGAACC
1 AAACCCAAACCCAATC-CGAACC
683863 TGAACATGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 3 0.07
30 41 0.89
31 2 0.04
ACGTcount: A:0.45, C:0.41, G:0.05, T:0.10
Consensus pattern (29 bp):
AAACCCAAACCCAATCCGAACCCAAACCT
Found at i:683912 original size:12 final size:12
Alignment explanation
Indices: 683889--683952 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
683879 CTAGAACTAG
*
683889 AACCCTAAATCTG
1 AACCC-AAATCTA
683902 AACCCAAATCTA
1 AACCCAAATCTA
* * *
683914 AATCCAAACCCA
1 AACCCAAATCTA
*
683926 AACCCAAATCCA
1 AACCCAAATCTA
* *
683938 AACCCGAATCCA
1 AACCCAAATCTA
683950 AAC
1 AAC
683953 TATTTGAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
12 39 0.89
13 5 0.11
ACGTcount: A:0.47, C:0.38, G:0.03, T:0.12
Consensus pattern (12 bp):
AACCCAAATCTA
Found at i:683950 original size:18 final size:18
Alignment explanation
Indices: 683902--683951 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
683892 CCTAAATCTG
*
683902 AACCCAAATCTAAATCCA
1 AACCCAAATCCAAATCCA
*
683920 AACCCAAACCCAAATCCA
1 AACCCAAATCCAAATCCA
*
683938 AACCCGAATCCAAA
1 AACCCAAATCCAAA
683952 CTATTTGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.50, C:0.38, G:0.02, T:0.10
Consensus pattern (18 bp):
AACCCAAATCCAAATCCA
Found at i:686698 original size:23 final size:23
Alignment explanation
Indices: 686672--686726 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
686662 CTTAATGTAG
*
686672 GATGCTTGTTGAATTGATGCAAT
1 GATGCTTGTTGAATTGATACAAT
*
686695 GATGCTTGTTGAATTGATACAGT
1 GATGCTTGTTGAATTGATACAAT
686718 GATGCTTGT
1 GATGCTTGT
686727 CAGTTGCTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.40
Consensus pattern (23 bp):
GATGCTTGTTGAATTGATACAAT
Found at i:687394 original size:38 final size:39
Alignment explanation
Indices: 687337--687411 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
687327 AATTATAAAG
687337 AATATAAAGAATTAGAATTAAAATAAAAACCAAATTTAT
1 AATATAAAGAATTAGAATTAAAATAAAAACCAAATTTAT
* * * *
687376 AATATACA-AATTATAATTAATATAAAAACTAAATTT
1 AATATAAAGAATTAGAATTAAAATAAAAACCAAATTT
687412 CAAAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 25 0.78
39 7 0.22
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (39 bp):
AATATAAAGAATTAGAATTAAAATAAAAACCAAATTTAT
Found at i:690654 original size:15 final size:15
Alignment explanation
Indices: 690636--690691 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
690626 TAACCGGTTT
690636 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
690651 CGGTTTTTTTAAAAAAC
1 CGG--TTTTAAAAAAAC
*
690668 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
690683 CGATTTTAA
1 CGGTTTTAA
690692 TATTCCAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.59
17 14 0.41
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:690664 original size:17 final size:17
Alignment explanation
Indices: 690639--690689 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
690629 CCGGTTTCGG
690639 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
690656 TTTTTAAAAAACCGG--
1 TTTTAAAAAAACCGGTT
* *
690671 TTATAAAAAAACCGATT
1 TTTTAAAAAAACCGGTT
690688 TT
1 TT
690690 AATATTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
17 16 0.57
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:691102 original size:13 final size:13
Alignment explanation
Indices: 691081--691135 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
691071 AAGTTCGATA
*
691081 AATTTAAATACTT
1 AATTGAAATACTT
691094 AATTGAAATACTT
1 AATTGAAATACTT
* *
691107 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
691121 AATTGAAATACTT
1 AATTGAAATACTT
691134 AA
1 AA
691136 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:691217 original size:32 final size:33
Alignment explanation
Indices: 691121--691227 Score: 164
Period size: 33 Copynumber: 3.3 Consensus size: 33
691111 AACTCAACAT
* * *
691121 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
691154 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
691187 AATTCAAATACTTAAAAACTT-CAAGTTCGAT-
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
*
691218 AATTGAAATA
1 AATTCAAATA
691228 AAGTTATAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 9 0.13
32 10 0.14
33 51 0.73
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:693531 original size:14 final size:13
Alignment explanation
Indices: 693501--693541 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
693491 TTTCGGATAA
693501 AAACCGGTTTTTT
1 AAACCGGTTTTTT
*
693514 AAACCGATTTTTT
1 AAACCGGTTTTTT
693527 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
693541 A
1 A
693542 TCCGTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (13 bp):
AAACCGGTTTTTT
Found at i:696138 original size:23 final size:23
Alignment explanation
Indices: 696111--696175 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
696101 CAGCTCATAT
696111 AAATGCACCGAAGTGCCATGAAG
1 AAATGCACCGAAGTGCCATGAAG
* ** *
696134 AAATGCACCGAAATGCCGCGTAG
1 AAATGCACCGAAGTGCCATGAAG
* *
696157 AAATACACAGAAGTGCCAT
1 AAATGCACCGAAGTGCCAT
696176 ATACAATGTA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCATGAAG
Found at i:697744 original size:15 final size:15
Alignment explanation
Indices: 697726--697863 Score: 267
Period size: 15 Copynumber: 9.2 Consensus size: 15
697716 GAGGGTATAA
697726 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
697741 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
697756 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
697771 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
697786 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
697801 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
697816 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
697831 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
697846 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
697861 TAG
1 TAG
697864 GAGTCCTACG
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
15 122 1.00
ACGTcount: A:0.14, C:0.25, G:0.33, T:0.28
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:698757 original size:21 final size:19
Alignment explanation
Indices: 698709--698757 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
698699 CATATACATA
698709 TTCCAAATGACCAAATATG
1 TTCCAAATGACCAAATATG
*
698728 TGTCTCAAATGACCGCATATATG
1 T-TC-CAAATGA-C-CAAATATG
698751 TTCCAAA
1 TTCCAAA
698758 GGATTACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 11 0.44
22 3 0.12
23 8 0.32
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (19 bp):
TTCCAAATGACCAAATATG
Found at i:699401 original size:35 final size:34
Alignment explanation
Indices: 699358--699429 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
699348 ATTCGATGTT
* **
699358 CCTAGGTATTGATAC-ATGCTTTCTGGAATCGATA
1 CCTAGGTATCGATACTACCCTTTC-GGAATCGATA
*
699392 CCTATGGTATCGATACTACCCTTTCGGTATCGATA
1 CCTA-GGTATCGATACTACCCTTTCGGAATCGATA
699427 CCT
1 CCT
699430 CATGAAGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 4 0.12
35 22 0.69
36 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (34 bp):
CCTAGGTATCGATACTACCCTTTCGGAATCGATA
Found at i:702054 original size:2 final size:2
Alignment explanation
Indices: 702042--702078 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
702032 ATGAAAGTCT
702042 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
702079 AAAAAAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:718123 original size:3 final size:3
Alignment explanation
Indices: 718115--718154 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
718105 CTCTTCTCCT
718115 TTC TTC TTC TTC TTC TTC TTC TTTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC
718155 ACGTGGAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:718131 original size:22 final size:22
Alignment explanation
Indices: 718106--718154 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
718096 TCCAGAATTC
718106 TCTTCTCCTTTCTTCTTCTTCT
1 TCTTCTCCTTTCTTCTTCTTCT
*
718128 TCTTCTTCTTTCTTCTTCTTCT
1 TCTTCTCCTTTCTTCTTCTTCT
718150 TCTTC
1 TCTTC
718155 ACGTGGAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (22 bp):
TCTTCTCCTTTCTTCTTCTTCT
Found at i:718153 original size:19 final size:19
Alignment explanation
Indices: 718118--718154 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
718108 TTCTCCTTTC
718118 TTCTTCTTCTTCTTCTTCT
1 TTCTTCTTCTTCTTCTTCT
718137 TTCTTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTCTTC
718155 ACGTGGAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TTCTTCTTCTTCTTCTTCT
Found at i:718742 original size:64 final size:64
Alignment explanation
Indices: 718674--718899 Score: 260
Period size: 64 Copynumber: 3.5 Consensus size: 64
718664 ATTGTTTGAA
** **
718674 TGTGCATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAAT
1 TGTGCATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAAT
718737 T
64 T
* **
718738 TGTGCATCGATGCATAAGTAGTGCATCGAAGCATCCCATTAATAAGGAAACATCGAATGCAATT
1 TGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATT
* * * * * *
718802 AGTGCATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTT
1 TGTGCATCGATGCATAA-GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATT
* * *
718866 TATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 TGTGCATCGATGCATAAGTAGTGCATCGATGCAT
718900 ACCTTCATTA
Statistics
Matches: 137, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
63 2 0.01
64 128 0.93
65 7 0.05
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
TGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATT
Found at i:722674 original size:63 final size:63
Alignment explanation
Indices: 722607--722767 Score: 184
Period size: 64 Copynumber: 2.5 Consensus size: 63
722597 ATTGTTTGAA
* ** * *
722607 TGTGCATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAAATAA-ATACCTCGAATGCAATT
1 TGTGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATT-AATAAGAAACATCGAATGCAATT
* *
722670 TGTGCATCGATGCATAAGTAGTGCATCGAAGCATCCCATTAATAAGGAAACATCGAATGCAATT
1 TGTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAA-GAAACATCGAATGCAATT
* *
722734 AGTGCATCGATGCATAAGGCA-TGCATCGATGCAT
1 TGTGCATCGATGCAT-AGGTAGTGCATCGATGCAT
722768 AAGGCATGCA
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
62 5 0.06
63 33 0.40
64 42 0.51
65 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (63 bp):
TGTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAAGAAACATCGAATGCAATT
Found at i:722760 original size:19 final size:19
Alignment explanation
Indices: 722736--722786 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
722726 ATGCAATTAG
722736 TGCATCGATGCATAAGGCA
1 TGCATCGATGCATAAGGCA
722755 TGCATCGATGCATAAGGCA
1 TGCATCGATGCATAAGGCA
722774 TGCATCGATGCAT
1 TGCATCGATGCAT
722787 CCCAGTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (19 bp):
TGCATCGATGCATAAGGCA
Found at i:722770 original size:83 final size:83
Alignment explanation
Indices: 722671--722850 Score: 215
Period size: 83 Copynumber: 2.2 Consensus size: 83
722661 AATGCAATTT
* * *
722671 GTGCATCGATGCATAA-GTAGTGCATCGAAGCATCCCATTAATAAGGA-AACATCGAATGCA-AT
1 GTGCATCGATGCATAAGGCA-TGCATCGAAGCATCCCAGTAATAA-GACAACATCGAATACATAT
*
722733 TAGTGCATCGATGCATAAGGCA
64 TA-TGCACCGATGCATAA-GCA
* * *
722755 -TGCATCGATGCATAAGGCATGCATCGATGCATCCCAGTAATAATACAACATCGAATACATTTTA
1 GTGCATCGATGCATAAGGCATGCATCGAAGCATCCCAGTAATAAGACAACATCGAATACATATTA
* *
722819 TGCACCGATGCATCAGTA
66 TGCACCGATGCATAAGCA
722837 GTGCATCGATGCAT
1 GTGCATCGATGCAT
722851 CCTTCATTAA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
82 3 0.04
83 75 0.90
84 5 0.06
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (83 bp):
GTGCATCGATGCATAAGGCATGCATCGAAGCATCCCAGTAATAAGACAACATCGAATACATATTA
TGCACCGATGCATAAGCA
Found at i:723695 original size:100 final size:100
Alignment explanation
Indices: 723576--723893 Score: 547
Period size: 100 Copynumber: 3.2 Consensus size: 100
723566 GTCGAGGGTC
723576 TATGTGGTCCTTCGGGATATATATGTATTCTTGGAACATGTGAAGTCTGGTGAGACACATACTTG
1 TATGTGGTCCTTCGGGATATATATGTATTCTTGGAACATGTGAAGTCTGGTGAGACACATACTTG
723641 ATCCCTAGTATA-GTATATGATTTCTTAAGGAGTGA
66 ATCCCTAGTATATGTATATGA-TTCTTAAGGAGTGA
723676 TATGTGGTCCTTCGGG--ATATATGTATTCTTTGGAACATGTGTAAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTC-TTGGAACATGTG--AAGTCTGGTGAGACACATAC
723739 TTGATCCCTAGTATATGTATAT-ATTCTTAAGGAGTGA
63 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
723776 TATGTGGTCCTTC-GGATATATATGTATTCTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
1 TATGTGGTCCTTCGGGATATATATGTATTCTTGGAACA--TGTGAAGTCTGGTGAGACACATACT
723840 TGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
64 TGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
723877 TATGTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
723894 CATTATTATA
Statistics
Matches: 208, Mismatches: 0, Indels: 18
0.92 0.00 0.08
Matches are distributed among these distances:
98 12 0.06
99 14 0.07
100 93 0.45
101 76 0.37
102 13 0.06
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (100 bp):
TATGTGGTCCTTCGGGATATATATGTATTCTTGGAACATGTGAAGTCTGGTGAGACACATACTTG
ATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
Found at i:723963 original size:23 final size:23
Alignment explanation
Indices: 723904--723966 Score: 101
Period size: 22 Copynumber: 2.8 Consensus size: 23
723894 CATTATTATA
*
723904 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
723927 CGGCAC-TCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
723949 TGGCACTTCGGTGCAATT
1 TGGCACTTCGGTGCAATT
723967 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 20 0.56
23 16 0.44
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:728412 original size:63 final size:62
Alignment explanation
Indices: 728345--728564 Score: 225
Period size: 63 Copynumber: 3.5 Consensus size: 62
728335 TTATTTGAAG
** ** *
728345 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAATACATCGAATGCAATTT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAAGAA-ACATCGAATGCAA-TT
*
728408 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGGAAACATCGAATGCAATT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAACATCGAATGCAATT
* * * * *
728470 GTGCATCGATGCATAAG--GCAGCATCGATGC-TCCCAGTAATAATACAACATCGAATACATTTT
1 GTGCATCGATGCATAAGTAG-TGCATCGATGCATCCCATTAATAAGA-AACATCGAATGCA-ATT
* * *
728532 ATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGTAGTGCATCGATGCAT
728565 ACCTTCATTA
Statistics
Matches: 133, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
60 12 0.09
61 22 0.17
62 35 0.26
63 58 0.44
64 6 0.05
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (62 bp):
GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAACATCGAATGCAATT
Found at i:728524 original size:61 final size:62
Alignment explanation
Indices: 728392--728564 Score: 199
Period size: 62 Copynumber: 2.8 Consensus size: 62
728382 TTAAAATAAT
* * *
728392 ACATCGAATGCAATTTGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGGAA
1 ACATCGAATGCAATTTGTGCATCGATGCATAAG-AGAGCATCGATGCATCCCAGTAATAAGAA
*
728455 ACATCGAATGCAA-TTGTGCATCGATGCATAAG-GCAGCATCGATGC-TCCCAGTAATAATACA
1 ACATCGAATGCAATTTGTGCATCGATGCATAAGAG-AGCATCGATGCATCCCAGTAATAAGA-A
* * * * * *
728516 ACATCGAATACATTTTATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 ACATCGAATGCAATTTGTGCATCGATGCATAAG-AGAGCATCGATGCAT
728565 ACCTTCATTA
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
60 12 0.13
61 22 0.23
62 35 0.37
63 23 0.24
64 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (62 bp):
ACATCGAATGCAATTTGTGCATCGATGCATAAGAGAGCATCGATGCATCCCAGTAATAAGAA
Found at i:729587 original size:101 final size:103
Alignment explanation
Indices: 729294--729614 Score: 589
Period size: 100 Copynumber: 3.2 Consensus size: 103
729284 GTCGAGGGTC
729294 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
729359 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
729397 TATGTGGTCCTTC-GG--ATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
729459 TTGATCCCTAGTATATGTATATGATTCTT-AGGAG-GA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
* *
729495 TATGTGGTCCTTCGGGATATATATGTATTCTTTGAAACATGTGTGAAGTCTAGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
729560 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
729598 TATGTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
729615 CATTATTATA
Statistics
Matches: 211, Mismatches: 2, Indels: 10
0.95 0.01 0.04
Matches are distributed among these distances:
98 15 0.07
99 7 0.03
100 76 0.36
101 74 0.35
102 7 0.03
103 32 0.15
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
Found at i:729679 original size:23 final size:22
Alignment explanation
Indices: 729625--729685 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 22
729615 CATTATTATA
729625 TGGCACTACGGTGCAATTCTAC
1 TGGCACTACGGTGCAATTCTAC
*
729647 --GCACTCCGGTGCAATTCTAC
1 TGGCACTACGGTGCAATTCTAC
*
729667 GTGGCACTTCGGTGCAATT
1 -TGGCACTACGGTGCAATT
729686 ATATGAGCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 19 0.56
23 15 0.44
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.28
Consensus pattern (22 bp):
TGGCACTACGGTGCAATTCTAC
Found at i:731111 original size:14 final size:15
Alignment explanation
Indices: 731076--731108 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
731066 ATCAACAGAT
731076 ATAATTTTTATGTAA
1 ATAATTTTTATGTAA
*
731091 ATAATTTTTATTTAA
1 ATAATTTTTATGTAA
731106 ATA
1 ATA
731109 TTTAGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
ATAATTTTTATGTAA
Found at i:731533 original size:36 final size:37
Alignment explanation
Indices: 731461--731534 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
731451 TTTAGAAAAT
* * *
731461 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTATCTTTAAAAAATTAAAAATCATAAA
*
731498 ATTTATATAATTAT-TTTACAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTATCTTTAAAAAATTAAAAATCATAAA
731534 A
1 A
731535 AAGTTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 6 0.19
37 22 0.69
38 4 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (37 bp):
ATTTATATATTATCTTTAAAAAATTAAAAATCATAAA
Found at i:739635 original size:43 final size:43
Alignment explanation
Indices: 739578--739737 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 43
739568 CTAAATCCTC
* ** *
739578 CCTTTTCTGTATGTCTATTCTCCCTCGTTTTTACTCTGTGCTCT
1 CCTTTT-TCTATGTCTGGTCTCCCTCTTTTTTACTCTGTGCTCT
*
739622 CCTTTTTCTATGTCTGGT-TCCCTTTTTTTTACTCTGTGCTCT
1 CCTTTTTCTATGTCTGGTCTCCCTCTTTTTTACTCTGTGCTCT
*
739664 CTTTTTTTCTATGTCTGGTC-CCCTCTTTTTTACTCTGTGCTCTT
1 C-CTTTTTCTATGTCTGGTCTCCCTCTTTTTTACTCTGTGCTC-T
** * * *
739708 TTTTTTTCTATATCTGGTCCCCCTCCTTTT
1 CCTTTTTCTATGTCTGGTCTCCCTCTTTTT
739738 CGTAATAGCC
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
42 23 0.23
43 63 0.62
44 16 0.16
ACGTcount: A:0.06, C:0.28, G:0.11, T:0.56
Consensus pattern (43 bp):
CCTTTTTCTATGTCTGGTCTCCCTCTTTTTTACTCTGTGCTCT
Found at i:739651 original size:42 final size:42
Alignment explanation
Indices: 739599--739729 Score: 190
Period size: 43 Copynumber: 3.1 Consensus size: 42
739589 TGTCTATTCT
* * *
739599 CCCTCGTTTTTACTCTGTGCTCTCCTTTTTCTATGTCTGGTT
1 CCCTCTTTTTTACTCTGTGCTCTCTTTTTTCTATGTCTGGTC
*
739641 CCCTTTTTTTTACTCTGTGCTCTCTTTTTTTCTATGTCTGGTC
1 CCCTCTTTTTTACTCTGTGCTCTC-TTTTTTCTATGTCTGGTC
* *
739684 CCCTCTTTTTTACTCTGTGCTCTTTTTTTTTCTATATCTGGTC
1 CCCTCTTTTTTACTCTGTGCTC-TCTTTTTTCTATGTCTGGTC
739727 CCC
1 CCC
739730 CTCCTTTTCG
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
42 22 0.28
43 57 0.71
44 1 0.01
ACGTcount: A:0.05, C:0.28, G:0.11, T:0.55
Consensus pattern (42 bp):
CCCTCTTTTTTACTCTGTGCTCTCTTTTTTCTATGTCTGGTC
Found at i:739689 original size:24 final size:23
Alignment explanation
Indices: 739624--739694 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 23
739614 TGTGCTCTCC
*
739624 TTTTTCTATGTCTGGTTCC-CTT
1 TTTTTCTATGTCTGGTCCCTCTT
* *
739646 TTTTT-TA-CTCT-GTGCTCTCTT
1 TTTTTCTATGTCTGGT-CCCTCTT
739667 TTTTTCTATGTCTGGTCCCCTCTT
1 TTTTTCTATGTCTGGT-CCCTCTT
739691 TTTT
1 TTTT
739695 ACTCTGTGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.05
20 4 0.11
21 10 0.26
22 7 0.18
23 3 0.08
24 12 0.32
ACGTcount: A:0.04, C:0.24, G:0.11, T:0.61
Consensus pattern (23 bp):
TTTTTCTATGTCTGGTCCCTCTT
Found at i:740199 original size:53 final size:53
Alignment explanation
Indices: 740122--740367 Score: 287
Period size: 53 Copynumber: 4.6 Consensus size: 53
740112 GTCTGCTTCT
* * *** * *
740122 TCTTG-TTCAGGGATTAAAGAACTCGAATAATCTTCTAAAAATGGGTTCACTCCC
1 TCTTGCTTCAGGGAGT--AGAACTCGAACAATCTTCTACCTACGGGTTCGCTCCC
* *** *
740176 TATTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGTTTACGAGTTCGCTCCC
1 TCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTACGGGTTCGCTCCC
* * *
740229 TCTTGCTTTAGGGAATAGAACTCGAACAATCTTCTACCTACGGGTTCTCTCCC
1 TCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTACGGGTTCGCTCCC
* * * *
740282 TCTTACTTCAGGGAGTAGAACTCGAACAATCTTTTGCCTACGGGTTTGCTCCC
1 TCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTACGGGTTCGCTCCC
*
740335 TCTTGTTTCAGGGAGTAGAACTCGAACAATCTT
1 TCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
740368 TTGGTGTGAT
Statistics
Matches: 164, Mismatches: 27, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
53 151 0.92
54 4 0.02
55 9 0.05
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (53 bp):
TCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACCTACGGGTTCGCTCCC
Found at i:740282 original size:106 final size:106
Alignment explanation
Indices: 740122--740367 Score: 316
Period size: 106 Copynumber: 2.3 Consensus size: 106
740112 GTCTGCTTCT
* * * *
740122 TCTTG-TTCAGGGATTAAAGAACTCGAATAATCTTCTAAAAATGGGTTCACTCCCTATTGCTTCA
1 TCTTGTTTCAGGGA--ATAGAACTCGAACAATCTTCTAAAAACGGGTTCACTCCCTATTACTTCA
**
740186 GGGAGTAGAACTCGAACAATCTTCTGTTTACGAGTTCGCTCCC
64 GGGAGTAGAACTCGAACAATCTTCTGCCTACGAGTTCGCTCCC
*** * *
740229 TCTTGCTTT-AGGGAATAGAACTCGAACAATCTTCTACCTACGGGTTCTCTCCCTCTTACTTCAG
1 TCTTG-TTTCAGGGAATAGAACTCGAACAATCTTCTAAAAACGGGTTCACTCCCTATTACTTCAG
* * *
740293 GGAGTAGAACTCGAACAATCTTTTGCCTACGGGTTTGCTCCC
65 GGAGTAGAACTCGAACAATCTTCTGCCTACGAGTTCGCTCCC
*
740335 TCTTGTTTCAGGGAGTAGAACTCGAACAATCTT
1 TCTTGTTTCAGGGAATAGAACTCGAACAATCTT
740368 TTGGTGTGAT
Statistics
Matches: 121, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
105 3 0.02
106 106 0.88
107 5 0.04
108 5 0.04
109 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (106 bp):
TCTTGTTTCAGGGAATAGAACTCGAACAATCTTCTAAAAACGGGTTCACTCCCTATTACTTCAGG
GAGTAGAACTCGAACAATCTTCTGCCTACGAGTTCGCTCCC
Found at i:740817 original size:42 final size:42
Alignment explanation
Indices: 740742--740870 Score: 172
Period size: 42 Copynumber: 3.1 Consensus size: 42
740732 TCCGAGAAGG
* * *
740742 CTTA-AAATGGCCCGAAGGACTT-ATCATCTTGCTCGAAAGA
1 CTTACAAATGGCCCGAATGATTTAATCATCATGCTCGAAAGA
*
740782 CTTACAAATGACCCGAATGATTTAATCATCATGCTCGAAAGA
1 CTTACAAATGGCCCGAATGATTTAATCATCATGCTCGAAAGA
** * *
740824 CTTACTGATGGCCCTAATGATTTAATCATCATGCTCGAATGA
1 CTTACAAATGGCCCGAATGATTTAATCATCATGCTCGAAAGA
740866 CTTAC
1 CTTAC
740871 TGATAGCACT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 4 0.05
41 15 0.19
42 59 0.76
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (42 bp):
CTTACAAATGGCCCGAATGATTTAATCATCATGCTCGAAAGA
Found at i:740871 original size:42 final size:42
Alignment explanation
Indices: 740764--741010 Score: 171
Period size: 42 Copynumber: 5.7 Consensus size: 42
740754 CGAAGGACTT
* **
740764 ATCATCTTGCTCGAAAGACTTACAAATGACCCGAATGATTTA
1 ATCATCATGCTCGAAAGACTTACTGATGACCCGAATGATTTA
* *
740806 ATCATCATGCTCGAAAGACTTACTGATGGCCCTAATGATTTA
1 ATCATCATGCTCGAAAGACTTACTGATGACCCGAATGATTTA
* * *
740848 ATCATCATGCTCGAATGACTTACTGATAGCACTTACTG-ATGGATTTGC
1 ATCATCATGCTCGAAAGACTTACTGAT-G-AC---CCGAAT-GATTT-A
* * * ** *
740896 TTCA-CTACT-CTTCGGTGAAGGCTTACAAAAT-ACCCGAAGGATTTA
1 ATCATC-A-TGC-TC-G-AAAGACTTAC-TGATGACCCGAATGATTTA
* * * *
740941 ATCATCATGCTCGAAATACTTACTGATGGCCCGAA-GAACTTC
1 ATCATCATGCTCGAAAGACTTACTGATGACCCGAATG-ATTTA
740983 ATCATCATGCTCGAAAGACTTACTGATG
1 ATCATCATGCTCGAAAGACTTACTGATG
741011 GCACTTACTG
Statistics
Matches: 158, Mismatches: 29, Indels: 36
0.71 0.13 0.16
Matches are distributed among these distances:
41 3 0.02
42 106 0.67
43 2 0.01
44 4 0.03
45 5 0.03
46 10 0.06
47 8 0.05
48 5 0.03
49 5 0.03
50 1 0.01
51 7 0.04
52 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (42 bp):
ATCATCATGCTCGAAAGACTTACTGATGACCCGAATGATTTA
Found at i:741003 original size:22 final size:21
Alignment explanation
Indices: 740941--741004 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 21
740931 GAAGGATTTA
*
740941 ATCATCATGCTCGAAATACTT
1 ATCATCATGCTCGAAAGACTT
* *
740962 A-C-TGATGGCCCG-AAGAACTT
1 ATCATCAT-GCTCGAAAG-ACTT
740982 CATCATCATGCTCGAAAGACTT
1 -ATCATCATGCTCGAAAGACTT
741004 A
1 A
741005 CTGATGGCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 12
0.65 0.10 0.24
Matches are distributed among these distances:
19 5 0.16
20 9 0.28
21 3 0.09
22 9 0.28
23 6 0.19
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (21 bp):
ATCATCATGCTCGAAAGACTT
Found at i:741018 original size:13 final size:13
Alignment explanation
Indices: 741000--741024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
740990 TGCTCGAAAG
741000 ACTTACTGATGGC
1 ACTTACTGATGGC
741013 ACTTACTGATGG
1 ACTTACTGATGG
741025 GTTTGCTTTA
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:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:741147 original size:42 final size:42
Alignment explanation
Indices: 741063--741155 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
741053 TTACAAATTA
* * *
741063 CCCTAAAGATTTAATCATCATGCTCGAAAGACTTACCGATGG
1 CCCTAAGGATTTAAGCATCATGCTCGAAAGACTTACCAATGG
**
741105 CCCTAAGGATTTAAGCATCATGCTCGAAAGACTTATTAATGG
1 CCCTAAGGATTTAAGCATCATGCTCGAAAGACTTACCAATGG
*
741147 CCCGAAGGA
1 CCCTAAGGA
741156 CTTACTAAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (42 bp):
CCCTAAGGATTTAAGCATCATGCTCGAAAGACTTACCAATGG
Found at i:741147 original size:135 final size:135
Alignment explanation
Indices: 740782--741139 Score: 545
Period size: 135 Copynumber: 2.7 Consensus size: 135
740772 GCTCGAAAGA
* * *
740782 CTTACAAATGACCCGAATGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCTAATGATTT
1 CTTACAAATTACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCTAAGGATTT
* *
740847 AATCATCATGCTCGAATGACTTACTGATAGCACTTACTGATGGATTTGCTTCACTACTCTTCGGT
66 AATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGATTTGCTTCACTACTCTTCGGT
740912 GAAGG
131 GAAGG
* * * * * *
740917 CTTACAAAATACCCGAAGGATTTAATCATCATGCTCGAAATACTTACTGATGGCCCGAAGAACTT
1 CTTACAAATTACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCTAAGGATTT
* * * * *
740982 CATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTTACTGCTCTTCTGT
66 AATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGATTTGCTTCACTACTCTTCGGT
741047 GAAGG
131 GAAGG
* *
741052 CTTACAAATTACCCTAAAGATTTAATCATCATGCTCGAAAGACTTACCGATGGCCCTAAGGATTT
1 CTTACAAATTACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCTAAGGATTT
*
741117 AAGCATCATGCTCGAAAGACTTA
66 AATCATCATGCTCGAAAGACTTA
741140 TTAATGGCCC
Statistics
Matches: 198, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
135 198 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (135 bp):
CTTACAAATTACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCTAAGGATTT
AATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGATTTGCTTCACTACTCTTCGGT
GAAGG
Found at i:751035 original size:43 final size:43
Alignment explanation
Indices: 750978--751137 Score: 198
Period size: 43 Copynumber: 3.7 Consensus size: 43
750968 CTAAATCCTC
* ** *
750978 CCTTTTCTGTATGTCTATTCTCCCTCGTTTTTACTCTGTGCTCT
1 CCTTTT-TCTATGTCTGGTCTCCCTCTTTTTTACTCTGTGCTCT
751022 CCTTTTTCTATGTCTGGT-TCCCTCTTTTTTACTCTGTGCTCT
1 CCTTTTTCTATGTCTGGTCTCCCTCTTTTTTACTCTGTGCTCT
*
751064 CTTTTTTTCTATGTCTGGTC-CCCTCTTTTTTACTCTGTGCTCAT
1 C-CTTTTTCTATGTCTGGTCTCCCTCTTTTTTACTCTGTGCTC-T
** * *
751108 TTTTTTTCTATGTCTGGTCCCCCTCCTTTT
1 CCTTTTTCTATGTCTGGTCTCCCTCTTTTT
751138 CGTAATAGCC
Statistics
Matches: 105, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
42 24 0.23
43 65 0.62
44 16 0.15
ACGTcount: A:0.06, C:0.29, G:0.11, T:0.54
Consensus pattern (43 bp):
CCTTTTTCTATGTCTGGTCTCCCTCTTTTTTACTCTGTGCTCT
Found at i:751051 original size:42 final size:42
Alignment explanation
Indices: 750998--751125 Score: 202
Period size: 43 Copynumber: 3.0 Consensus size: 42
750988 ATGTCTATTC
* *
750998 TCCCTCGTTTTTACTCTGTGCTCTCCTTTTTCTATGTCTGGT
1 TCCCTCTTTTTTACTCTGTGCTCTCTTTTTTCTATGTCTGGT
751040 TCCCTCTTTTTTACTCTGTGCTCTCTTTTTTTCTATGTCTGGT
1 TCCCTCTTTTTTACTCTGTGCTCTC-TTTTTTCTATGTCTGGT
* *
751083 CCCCTCTTTTTTACTCTGTGCTCATTTTTTTTCTATGTCTGGT
1 TCCCTCTTTTTTACTCTGTGCTC-TCTTTTTTCTATGTCTGGT
751126 CCCCCTCCTT
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
42 24 0.30
43 55 0.69
44 1 0.01
ACGTcount: A:0.05, C:0.27, G:0.12, T:0.55
Consensus pattern (42 bp):
TCCCTCTTTTTTACTCTGTGCTCTCTTTTTTCTATGTCTGGT
Found at i:751067 original size:19 final size:19
Alignment explanation
Indices: 751005--751070 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
750995 TTCTCCCTCG
751005 TTTTTACTCTGTGCTCTCCT
1 TTTTTACTCTGTGCTCT-CT
* * *
751025 TTTTCTATGTCTGGTTCCCTCT
1 TTTT-TA-CTCT-GTGCTCTCT
751047 TTTTTACTCTGTGCTCTCT
1 TTTTTACTCTGTGCTCTCT
751066 TTTTT
1 TTTTT
751071 TCTATGTCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
19 12 0.32
20 7 0.19
21 4 0.11
22 9 0.24
23 5 0.14
ACGTcount: A:0.05, C:0.26, G:0.11, T:0.59
Consensus pattern (19 bp):
TTTTTACTCTGTGCTCTCT
Found at i:751069 original size:20 final size:20
Alignment explanation
Indices: 751005--751071 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
750995 TTCTCCCTCG
751005 TTTTTACTCTGTGCTCTCCTT
1 TTTTTACTCTGTGCTCT-CTT
* * * *
751026 TTTCTATGTCTG-GTTCCCTCT
1 TTTTTA-CTCTGTGCTCTCT-T
751047 TTTTTACTCTGTGCTCTCTT
1 TTTTTACTCTGTGCTCTCTT
751067 TTTTT
1 TTTTT
751072 CTATGTCTGG
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
20 12 0.34
21 19 0.54
22 4 0.11
ACGTcount: A:0.04, C:0.25, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTTTACTCTGTGCTCTCTT
Found at i:754911 original size:4 final size:4
Alignment explanation
Indices: 754904--754943 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
754894 AATAAATATC
* *
754904 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TCAT TTGT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
754944 AAATCCGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:757597 original size:4 final size:4
Alignment explanation
Indices: 757588--757618 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
757578 ACCCATTCGA
757588 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
757619 AATGTTAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:758414 original size:21 final size:21
Alignment explanation
Indices: 758372--758414 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
758362 TTTCTGGGCT
* *
758372 AGGGGAATCGATACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
758393 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
758414 A
1 A
758415 ACGAACCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.23, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:758487 original size:23 final size:22
Alignment explanation
Indices: 758443--758487 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
758433 AATGTCATGG
*
758443 GGGAACCGATACCCCCATAGGA
1 GGGAACCGATACCCCCAAAGGA
*
758465 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
758488 AAGTTGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:760058 original size:23 final size:23
Alignment explanation
Indices: 760025--760092 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
760015 ATTATTATAT
760025 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
760048 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* * *
760071 GGTACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
760093 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:762050 original size:7 final size:6
Alignment explanation
Indices: 762038--762099 Score: 54
Period size: 6 Copynumber: 9.5 Consensus size: 6
762028 TAAATAAAAC
*
762038 AAAATAA AAAATA AAGATA AAAATA AAAATA ATATATTATA AAACAT-
1 AAAAT-A AAAATA AAAATA AAAATA AAAATA A-A-A--ATA AAA-ATA
762085 AAAATA AAAATA AAA
1 AAAATA AAAATA AAA
762100 GTATTATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
5 2 0.04
6 30 0.64
7 8 0.17
8 2 0.04
9 1 0.02
10 4 0.09
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:762059 original size:12 final size:11
Alignment explanation
Indices: 762023--762099 Score: 59
Period size: 12 Copynumber: 6.8 Consensus size: 11
762013 CGTCAATACT
*
762023 AAAATTAAAT-
1 AAAATAAAATA
*
762033 AAAACAAAATAA
1 AAAATAAAAT-A
762045 AAAATAAAGATA
1 AAAATAAA-ATA
762057 AAAATAAAA-A
1 AAAATAAAATA
* **
762067 TAATATATTATA
1 -AAAATAAAATA
762079 AAACATAAAATA
1 AAA-ATAAAATA
762091 AAAATAAAA
1 AAAATAAAA
762100 GTATTATTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
10 9 0.17
11 15 0.29
12 26 0.50
13 2 0.04
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:762128 original size:2 final size:2
Alignment explanation
Indices: 762121--762157 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
762111 ATTTTAATAA
762121 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
762158 AAAGCTCGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:763579 original size:26 final size:26
Alignment explanation
Indices: 763542--763594 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
763532 ACCGAGAAGA
763542 TAGAATACGAGTGACCTATTTTGAGT
1 TAGAATACGAGTGACCTATTTTGAGT
*
763568 TAGAATATGAGTGACCTATTTTGAGT
1 TAGAATACGAGTGACCTATTTTGAGT
763594 T
1 T
763595 GATAGCCTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (26 bp):
TAGAATACGAGTGACCTATTTTGAGT
Found at i:764164 original size:3 final size:3
Alignment explanation
Indices: 764150--764190 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
764140 AAAATACTGT
* *
764150 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA CAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
764191 GTATATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:774191 original size:17 final size:16
Alignment explanation
Indices: 774165--774198 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
774155 ATTATTAAAT
*
774165 AATTTTATTTAGTATTA
1 AATTTAATTTAGT-TTA
774182 AATTTAATTTAGTTTA
1 AATTTAATTTAGTTTA
774198 A
1 A
774199 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
AATTTAATTTAGTTTA
Found at i:784598 original size:21 final size:21
Alignment explanation
Indices: 784574--784625 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
784564 TTTAGAAGTA
784574 TGGTCAGGGATTCGTTGGAAC
1 TGGTCAGGGATTCGTTGGAAC
784595 TGGTCAGGGATTCGTTGGAAC
1 TGGTCAGGGATTCGTTGGAAC
*
784616 TAGTCAGGGA
1 TGGTCAGGGA
784626 GTCATTTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.13, G:0.38, T:0.27
Consensus pattern (21 bp):
TGGTCAGGGATTCGTTGGAAC
Found at i:810864 original size:32 final size:32
Alignment explanation
Indices: 810828--810991 Score: 114
Period size: 32 Copynumber: 5.2 Consensus size: 32
810818 CATAAACCCT
810828 TACATGGTAAAGTAAGAGTACAATTAACTTAC
1 TACATGGTAAAGTAAGAGTACAATTAACTTAC
* ** * *
810860 TACATGGTGAA--AA-TTTATCACATAAAC--CC
1 TACATGGTAAAGTAAGAGTA-CA-ATTAACTTAC
810889 TTACATGGTAAAGTAAGAGTACAATTAACTTAC
1 -TACATGGTAAAGTAAGAGTACAATTAACTTAC
* ** * *
810922 TACATGGTGAA--AA-TTTATCACATAAAC--CC
1 TACATGGTAAAGTAAGAGTA-CA-ATTAACTTAC
810951 TTACATGGTAAAGTAAGAGTACAATTAACTTAC
1 -TACATGGTAAAGTAAGAGTACAATTAACTTAC
810984 TACATGGT
1 TACATGGT
810992 GAAAAATTAA
Statistics
Matches: 96, Mismatches: 20, Indels: 32
0.65 0.14 0.22
Matches are distributed among these distances:
29 6 0.06
30 28 0.29
31 20 0.21
32 36 0.38
33 6 0.06
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (32 bp):
TACATGGTAAAGTAAGAGTACAATTAACTTAC
Found at i:810885 original size:62 final size:62
Alignment explanation
Indices: 810810--810996 Score: 374
Period size: 62 Copynumber: 3.0 Consensus size: 62
810800 CTCATGATGT
810810 ATTTATCACATAAACCCTTACATGGTAAAGTAAGAGTACAATTAACTTACTACATGGTGAAA
1 ATTTATCACATAAACCCTTACATGGTAAAGTAAGAGTACAATTAACTTACTACATGGTGAAA
810872 ATTTATCACATAAACCCTTACATGGTAAAGTAAGAGTACAATTAACTTACTACATGGTGAAA
1 ATTTATCACATAAACCCTTACATGGTAAAGTAAGAGTACAATTAACTTACTACATGGTGAAA
810934 ATTTATCACATAAACCCTTACATGGTAAAGTAAGAGTACAATTAACTTACTACATGGTGAAA
1 ATTTATCACATAAACCCTTACATGGTAAAGTAAGAGTACAATTAACTTACTACATGGTGAAA
810996 A
1 A
810997 ATTAAGTTTT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 125 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (62 bp):
ATTTATCACATAAACCCTTACATGGTAAAGTAAGAGTACAATTAACTTACTACATGGTGAAA
Found at i:810896 original size:30 final size:30
Alignment explanation
Indices: 810860--810959 Score: 89
Period size: 30 Copynumber: 3.3 Consensus size: 30
810850 ATTAACTTAC
810860 TACATGGTGAAAATTTATCACATAAACCCT
1 TACATGGTGAAAATTTATCACATAAACCCT
* ** * *
810890 TACATGGT-AAAGTAAGAGT-ACAATTAA-CTT
1 TACATGGTGAAAAT-TTA-TCAC-ATAAACCCT
810920 ACTACATGGTGAAAATTTATCACATAAACCCT
1 --TACATGGTGAAAATTTATCACATAAACCCT
810952 TACATGGT
1 TACATGGT
810960 AAAGTAAGAG
Statistics
Matches: 52, Mismatches: 10, Indels: 16
0.67 0.13 0.21
Matches are distributed among these distances:
29 4 0.08
30 21 0.40
31 10 0.19
32 13 0.25
33 4 0.08
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (30 bp):
TACATGGTGAAAATTTATCACATAAACCCT
Found at i:817989 original size:17 final size:17
Alignment explanation
Indices: 817967--818005 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
817957 CTCTCCTTGT
*
817967 TCAACTTTTCCACTTTA
1 TCAACTTGTCCACTTTA
817984 TCAACTTGTCCACTTTA
1 TCAACTTGTCCACTTTA
818001 TCAAC
1 TCAAC
818006 AAACATCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.31, G:0.03, T:0.41
Consensus pattern (17 bp):
TCAACTTGTCCACTTTA
Found at i:819841 original size:16 final size:16
Alignment explanation
Indices: 819823--819854 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
819813 TTTTGTGGGC
819823 TTTAGTACTTGTTCTCT
1 TTTA-TACTTGTTCTCT
819840 TTTATACTTGTTCTC
1 TTTATACTTGTTCTC
819855 ATGAAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.12, C:0.19, G:0.09, T:0.59
Consensus pattern (16 bp):
TTTATACTTGTTCTCT
Found at i:834129 original size:38 final size:33
Alignment explanation
Indices: 834045--834116 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
834035 ACATGGCATC
* *
834045 TATTAATAACTCAATTTTATTTTATTACTATTT
1 TATTAATAACTCAAATTTATTTTATTAATATTT
*
834078 TATTAATGACTCAAATTTATTTTATTAATATTT
1 TATTAATAACTCAAATTTATTTTATTAATATTT
834111 TATTAA
1 TATTAA
834117 ATTCTAATCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.56
Consensus pattern (33 bp):
TATTAATAACTCAAATTTATTTTATTAATATTT
Found at i:834346 original size:97 final size:97
Alignment explanation
Indices: 834180--834368 Score: 360
Period size: 97 Copynumber: 1.9 Consensus size: 97
834170 ATTACAGACC
834180 CATAAACCCAAATCTCCTACGGTGTTGTCGGCGTTGGTTTCATCTTGATTGGATTCTAGAAATTC
1 CATAAACCCAAATCTCCTACGGTGTTGTCGGCGTTGGTTTCATCTTGATTGGATTCTAGAAATTC
834245 GTCAACCCCTTAAACCCAAACCAAATCTATTT
66 GTCAACCCCTTAAACCCAAACCAAATCTATTT
* *
834277 CATAATCCCAAATCTCCTACGGTGTTGTCGGCGTTGGTTTCATCTTGATTGTATTCTAGAAATTC
1 CATAAACCCAAATCTCCTACGGTGTTGTCGGCGTTGGTTTCATCTTGATTGGATTCTAGAAATTC
834342 GTCAACCCCTTAAACCCAAACCAAATC
66 GTCAACCCCTTAAACCCAAACCAAATC
834369 ACTTTCCCCC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 90 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (97 bp):
CATAAACCCAAATCTCCTACGGTGTTGTCGGCGTTGGTTTCATCTTGATTGGATTCTAGAAATTC
GTCAACCCCTTAAACCCAAACCAAATCTATTT
Found at i:839845 original size:28 final size:28
Alignment explanation
Indices: 839765--839845 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 28
839755 AAATTTTATA
* *
839765 AGTAACTTCAAGACTTCAAATATC-TTAG
1 AGTAACTTCAATACTTCAAAT-TCATTAC
* * *
839793 AGTAACTTCAATAATACATATTTCATT-C
1 AGTAACTTCAATACTTCA-AATTCATTAC
839821 AGTAACTTCAATACTTCAAAGTTCA
1 AGTAACTTCAATACTTCAAA-TTCA
839846 AAACAAATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
27 1 0.02
28 37 0.88
29 4 0.10
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.35
Consensus pattern (28 bp):
AGTAACTTCAATACTTCAAATTCATTAC
Found at i:840956 original size:19 final size:19
Alignment explanation
Indices: 840932--840971 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
840922 TTTGAGATAT
840932 ATGTACATTGCCCATCACC
1 ATGTACATTGCCCATCACC
840951 ATGTACATTGCCCATCACC
1 ATGTACATTGCCCATCACC
840970 AT
1 AT
840972 TGCGTTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.35, G:0.10, T:0.28
Consensus pattern (19 bp):
ATGTACATTGCCCATCACC
Found at i:845944 original size:41 final size:42
Alignment explanation
Indices: 845849--845929 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
845839 ACATCAACAA
* *
845849 AGTTGATTTAAGTAATAAATAGTTTGATACAATTTAGATAAG
1 AGTTGGTTTAAGTAATAAACAGTTTGATACAATTTAGATAAG
845891 AGTTGGTTTAAGTAATAAACAGTTTGATA-AATTTAGATA
1 AGTTGGTTTAAGTAATAAACAGTTTGATACAATTTAGATA
845930 TATATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
41 10 0.27
42 27 0.73
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.38
Consensus pattern (42 bp):
AGTTGGTTTAAGTAATAAACAGTTTGATACAATTTAGATAAG
Found at i:847058 original size:26 final size:26
Alignment explanation
Indices: 847027--847081 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
847017 AGTCTATTTA
* *
847027 CTATTAAATGTAT-CAATTTAGTCCCT
1 CTATTAAATG-ATGCAAATTAATCCCT
*
847053 CTATTATATGATGCAAATTAATCCCT
1 CTATTAAATGATGCAAATTAATCCCT
847079 CTA
1 CTA
847082 CTACTGAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (26 bp):
CTATTAAATGATGCAAATTAATCCCT
Done.