Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_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: 6483253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 29
Found at i:965508 original size:15 final size:15
Alignment explanation
Indices: 965484--965517 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
965474 GACCTTACCT
*
965484 GCCCCGCATCCGCCC
1 GCCCCACATCCGCCC
965499 GCCCCACATCCGCCC
1 GCCCCACATCCGCCC
965514 GCCC
1 GCCC
965518 ACTAAATACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.68, G:0.18, T:0.06
Consensus pattern (15 bp):
GCCCCACATCCGCCC
Found at i:971714 original size:23 final size:23
Alignment explanation
Indices: 971688--971731 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
971678 TCAATGGAAG
971688 ATGGATGATGGTGGTGAAGTTTA
1 ATGGATGATGGTGGTGAAGTTTA
*
971711 ATGGATGATGGTGTTGAAGTT
1 ATGGATGATGGTGGTGAAGTT
971732 GTATCTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (23 bp):
ATGGATGATGGTGGTGAAGTTTA
Found at i:976360 original size:23 final size:23
Alignment explanation
Indices: 976299--976363 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
976289 ATGGAAGATG
* *
976299 GATGATGGTATTGAAATTGAATA
1 GATGATGGTGTTGAAGTTGAATA
976322 GATGATGGTGTTGAAGTTGAATA
1 GATGATGGTGTTGAAGTTGAATA
976345 GATGATGGTGTTGAAGTTG
1 GATGATGGTGTTGAAGTTG
976364 TATCTAAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.35
Consensus pattern (23 bp):
GATGATGGTGTTGAAGTTGAATA
Found at i:980143 original size:9 final size:8
Alignment explanation
Indices: 980115--980188 Score: 67
Period size: 9 Copynumber: 8.1 Consensus size: 8
980105 AATAAATTAA
980115 AATAAAAT
1 AATAAAAT
980123 ATATAAATATT
1 A-ATAAA-A-T
980134 AATAAAATT
1 AATAAAA-T
980143 AATAATAAT
1 AATAA-AAT
980152 AATAATAAT
1 AATAA-AAT
980161 AATAATAAT
1 AATAA-AAT
980170 AATATAAAT
1 AATA-AAAT
980179 AATAATAAT
1 AATAA-AAT
980188 A
1 A
980189 TTATTATTAA
Statistics
Matches: 60, Mismatches: 0, Indels: 11
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.03
9 47 0.78
10 9 0.15
11 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AATAAAAT
Found at i:980151 original size:6 final size:6
Alignment explanation
Indices: 980115--980188 Score: 82
Period size: 6 Copynumber: 12.2 Consensus size: 6
980105 AATAAATTAA
*
980115 AATAA- AATATAT AAATATT AATAA- AATTAAT AATAAT AATAAT AATAAT
1 AATAAT AATA-AT -AATAAT AATAAT AA-TAAT AATAAT AATAAT AATAAT
980164 AATAAT AAT-AT AAATAAT AATAAT A
1 AATAAT AATAAT -AATAAT AATAAT A
980189 TTATTATTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
5 8 0.13
6 43 0.72
7 5 0.08
8 4 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATAAT
Found at i:986222 original size:3 final size:3
Alignment explanation
Indices: 986214--986242 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
986204 AACGACATAG
986214 AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
986243 TCAAAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:986654 original size:18 final size:19
Alignment explanation
Indices: 986619--986671 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 19
986609 GATTCATATG
986619 GAATTTTATAA-ATATTA-T
1 GAATTTT-TAATATATTATT
*
986637 GAATTTTTAATATTTTATT
1 GAATTTTTAATATATTATT
986656 GATTATTTTTAATATA
1 GA--ATTTTTAATATA
986672 ATTTAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 3 0.10
18 12 0.41
19 3 0.10
21 11 0.38
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
GAATTTTTAATATATTATT
Found at i:987549 original size:11 final size:12
Alignment explanation
Indices: 987524--987557 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
987514 GAGATCATCA
987524 TTTTCAATTTAT
1 TTTTCAATTTAT
987536 TTTTCAATTT-T
1 TTTTCAATTTAT
*
987547 TTTTCAGTTTA
1 TTTTCAATTTA
987558 GTTTCAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.21, C:0.09, G:0.03, T:0.68
Consensus pattern (12 bp):
TTTTCAATTTAT
Found at i:995482 original size:12 final size:12
Alignment explanation
Indices: 995465--995489 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
995455 GGAAGTGACC
995465 CTTCATCTTCTT
1 CTTCATCTTCTT
995477 CTTCATCTTCTT
1 CTTCATCTTCTT
995489 C
1 C
995490 CAATAAGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.36, G:0.00, T:0.56
Consensus pattern (12 bp):
CTTCATCTTCTT
Found at i:1009866 original size:32 final size:30
Alignment explanation
Indices: 1009823--1009897 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
1009813 ATAAAAAATT
* * *
1009823 AAATTTGAAAGTTAGAGTGATTAAATTAAGA
1 AAATTTAAAAGTTAGAATAATTAAATTAA-A
1009854 ATAATTTAAAAGTTA-AATAATTAAATTAAA
1 A-AATTTAAAAGTTAGAATAATTAAATTAAA
*
1009884 AAA-ATAAAAGTTAG
1 AAATTTAAAAGTTAG
1009898 TGATAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
28 9 0.24
29 2 0.05
30 2 0.05
31 13 0.34
32 12 0.32
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (30 bp):
AAATTTAAAAGTTAGAATAATTAAATTAAA
Found at i:1020326 original size:2 final size:2
Alignment explanation
Indices: 1020321--1021015 Score: 165
Period size: 2 Copynumber: 344.5 Consensus size: 2
1020311 GAAACAATTA
* * *
1020321 AT AT AT AT AT AT AT -T AT A- AGT TT AT AT AT AT -T AT GT AT AA
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * *
1020361 ACT AT AGT TT AT AT AT AA AGT AT AT AT AT -T AT AT AT AT AA ACT
1 A-T AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T
* * *
1020404 AT GT -T AT AT AGT TT AT AT TT AT AT -T AT -T AT AT ACT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * * *
1020445 AA ACT AT AT AC A- AT AT GT AT AA ACT AT AT AGT TT ACT A- AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT A-T AT AT AT
* * *
1020487 AA ACT AT AT AGT GT AT AT AT AA AGT AT AT AT AT -T AT AT AT AT
1 AT A-T AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * *
1020529 AA ACT AT AT AGT TT AT AT TT AT AT -T AT -T AT AT ACT AT AT AT
1 AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * * * * *
1020570 AA ACT AT AT AT AT -T AT GT AT AA ACT AT AT AT ACC AT GT GT AA
1 AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT
* * * *
1020612 ACT AT AG AGT TT AT AT AT AA ACT AT -T GA- ACT AT AT AT AA ACT
1 A-T AT AT A-T AT AT AT AT AT A-T AT AT -AT A-T AT AT AT AT A-T
* * *
1020654 AT AT AGT TT AT -T A- AT AT AA AT -T AT AT AA AT -T AT AT AT GA-
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * * *
1020693 AT -T AT AT AT GA- AT -T AT AT TT AA AT AT AT AC A- AC AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1020732 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
1020773 AT A- AT -T AT AA AT -T AT AT AT ACT AT GT AT AA AT -T AT AT AGT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T
* * * *
1020813 TT AA AT AT AA AGT AT AT A- AGT AT AT AT AC AT AT AT A- AT A- AT
1 AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* * *
1020854 AT AA AGT AT A- AGT TT AT AT -T AT AT AT AT AA AGT AT A- AT -T
1 AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * * *
1020893 AT AA AG ACT AA AGT AT AT A- AGT AT AT A- AT AT AA AGT AT AT A-
1 AT AT AT A-T AT A-T AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT
* * *
1020934 AGT AT AT AA AGT AT AT AT AC AT AT AA AGT AT A- AGT AT AT AT AT
1 A-T AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT
* * *
1020977 AT AT AT AT AT AT AA ACT AT AA AGT GT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT A
1021016 AAGTTTTAGT
Statistics
Matches: 496, Mismatches: 111, Indels: 172
0.64 0.14 0.22
Matches are distributed among these distances:
1 40 0.08
2 411 0.83
3 45 0.09
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1020338 original size:9 final size:9
Alignment explanation
Indices: 1020317--1020590 Score: 71
Period size: 9 Copynumber: 30.1 Consensus size: 9
1020307 AATTGAAACA
1020317 ATTA-ATAT
1 ATTATATAT
1020325 A-TATATAT
1 ATTATATAT
1020333 ATTATA-AGT
1 ATTATATA-T
1020342 -TTATATAT
1 ATTATATAT
*
1020350 ATTATGTAT
1 ATTATATAT
*
1020359 A-AACTATAGT
1 ATTA-TATA-T
1020369 -TTATATAT
1 ATTATATAT
*
1020377 AAAGTATATAT
1 --ATTATATAT
1020388 ATTATATAT
1 ATTATATAT
*
1020397 A-TAAACTAT
1 ATTATA-TAT
*
1020406 GTTATATA-
1 ATTATATAT
*
1020414 GTT-TATAT
1 ATTATATAT
1020422 -TTATAT-T
1 ATTATATAT
1020429 ATTATATACT
1 ATTATATA-T
*
1020439 A-TATATAA
1 ATTATATAT
* *
1020447 ACTATATAC
1 ATTATATAT
* *
1020456 AATATGTAT
1 ATTATATAT
*
1020465 A-AACTATAT
1 ATTA-TATAT
1020474 AGTT-TACTAAT
1 A-TTATA-T-AT
*
1020485 ATAAACTATAT
1 AT-TA-TATAT
1020496 AGTGTATATAT
1 A-T-TATATAT
*
1020507 AAAGTATATAT
1 --ATTATATAT
1020518 ATTATATAT
1 ATTATATAT
*
1020527 ATAAACTATAT
1 AT-TA-TATAT
1020538 AGTT-TATAT
1 A-TTATATAT
1020547 -TTATAT-T
1 ATTATATAT
1020554 ATTATATACT
1 ATTATATA-T
*
1020564 A-TATATAA
1 ATTATATAT
*
1020572 ACTATATAT
1 ATTATATAT
*
1020581 ATTATGTAT
1 ATTATATAT
1020590 A
1 A
1020591 AACTATATAT
Statistics
Matches: 200, Mismatches: 28, Indels: 75
0.66 0.09 0.25
Matches are distributed among these distances:
7 12 0.06
8 42 0.21
9 96 0.48
10 12 0.06
11 31 0.16
12 4 0.02
13 3 0.01
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (9 bp):
ATTATATAT
Found at i:1020392 original size:20 final size:20
Alignment explanation
Indices: 1020321--1021019 Score: 227
Period size: 20 Copynumber: 34.0 Consensus size: 20
1020311 GAAACAATTA
1020321 ATATATA-TATATATTATAAGTTT
1 ATATATATTATATA-TA-AAG--T
* *
1020344 ATATATATTATGTATAAACT
1 ATATATATTATATATAAAGT
*
1020364 ATA-GT-TTATATATAAAGT
1 ATATATATTATATATAAAGT
*
1020382 ATATATATTATATATATAAACT
1 ATATATA-T-TATATATAAAGT
* * *
1020404 ATGTTATATAGTTTATATTTATATT
1 A---TATATA--TTATATATAAAGT
* *
1020429 ATTATATACTATATATAAACT
1 A-TATATATTATATATAAAGT
* * * *
1020450 ATATACAATATGTATAAACT
1 ATATATATTATATATAAAGT
*
1020470 ATATAGT-TTACTAATATAAACT
1 ATATA-TATTA-T-ATATAAAGT
*
1020492 ATATAGT-GTATATATAAAGT
1 ATATA-TATTATATATAAAGT
*
1020512 ATATATATTATATATATAAACT
1 ATATATA-T-TATATATAAAGT
* * *
1020534 ATATAGT-TTATATTTATATT
1 ATATA-TATTATATATAAAGT
* *
1020554 ATTATATACTATATATAAACT
1 A-TATATATTATATATAAAGT
* *
1020575 ATATATATTATGTATAAACT
1 ATATATATTATATATAAAGT
** * * *
1020595 ATATATACCATGTGTAAACT
1 ATATATATTATATATAAAGT
* *
1020615 ATAGAGT-TTATATATAAACT
1 ATATA-TATTATATATAAAGT
* *
1020635 AT-TGA-ACTATATATAAACT
1 ATAT-ATATTATATATAAAGT
*
1020654 ATATAGT-TTATTAATATAAATT
1 ATATA-TATTA-T-ATATAAAGT
* * *
1020676 ATATAAATTATATATGAATT
1 ATATATATTATATATAAAGT
*
1020696 ATATATGAATTATATTTAAA-T
1 ATATAT--ATTATATATAAAGT
*
1020717 ATATACAACATATATATATATATA-T
1 ATAT-----ATAT-TATATATAAAGT
*
1020742 ATATATATATATATATATA-T
1 ATATATAT-TATATATAAAGT
*
1020762 ATATATTATGTATAATTATAAATT
1 ATATA-TAT-TAT-A-TATAAAGT
* * *
1020786 ATATATACTATGTATAAATT
1 ATATATATTATATATAAAGT
*
1020806 ATATAGT-TTAAATATAAAGT
1 ATATA-TATTATATATAAAGT
* *
1020826 ATATA-AGTATATATACA-T
1 ATATATATTATATATAAAGT
* *
1020844 ATATAATAATATAAAGTATAAGT
1 ATAT-ATATTATATA-TA-AAGT
*
1020867 TTATAT-TATATATATAAAGT
1 ATATATAT-TATATATAAAGT
* *
1020887 ATA-AT-TATAAAGACTAAAGT
1 ATATATAT-TATATA-TAAAGT
1020907 ATATA-AGTATATAATATAAAGT
1 ATATATA-T-TAT-ATATAAAGT
*
1020929 ATATA-A--GTATATAAAG-
1 ATATATATTATATATAAAGT
*
1020945 -TATATA-TACATATAAAGT
1 ATATATATTATATATAAAGT
*
1020963 ATA-AGTA-TATATATATA-T
1 ATATA-TATTATATATAAAGT
*
1020981 ATATATA-TAAACTATAAAGT
1 ATATATATTATA-TATAAAGT
*
1021001 GTATATA-TATATATAAAGT
1 ATATATATTATATATAAAGT
1021020 TTTAGTATAA
Statistics
Matches: 533, Mismatches: 83, Indels: 124
0.72 0.11 0.17
Matches are distributed among these distances:
15 4 0.01
16 1 0.00
17 16 0.03
18 30 0.06
19 61 0.11
20 196 0.37
21 48 0.09
22 101 0.19
23 30 0.06
24 13 0.02
25 29 0.05
26 4 0.01
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (20 bp):
ATATATATTATATATAAAGT
Found at i:1020395 original size:22 final size:22
Alignment explanation
Indices: 1020370--1021249 Score: 132
Period size: 22 Copynumber: 40.7 Consensus size: 22
1020360 AACTATAGTT
1020370 TATATATAAAGTATATATATTA
1 TATATATAAAGTATATATATTA
*
1020392 TATATATAAACTATGTTATATAGTT-
1 TATATATAAAGTA---TATATA-TTA
* * *
1020417 TATATTTATATTAT-TATA-TA
1 TATATATAAAGTATATATATTA
* *
1020437 CTATATATAAACTATATACA--A
1 -TATATATAAAGTATATATATTA
* *
1020458 TATGTATAAACTATATAGT-TTA
1 TATATATAAAGTATATA-TATTA
* * *
1020480 CTA-ATATAAA--CTATATAGTG
1 -TATATATAAAGTATATATATTA
1020500 TATATATAAAGTATATATATTA
1 TATATATAAAGTATATATATTA
*
1020522 TATATATAAACTATATAGT-TTA
1 TATATATAAAGTATATA-TATTA
* *
1020544 TAT-T-TATATTAT-TATA-TA
1 TATATATAAAGTATATATATTA
*
1020562 CTATATATAAACTATATATATTA
1 -TATATATAAAGTATATATATTA
* * *
1020585 TGTATA-AACTA-TATATACCATGTG
1 TATATATAA--AGTATATA-TAT-TA
* * *
1020609 TAAACTATAGAGTTTATATA-TA
1 TATA-TATAAAGTATATATATTA
* * * *
1020631 AACTAT-TGAACTATATATA-AA
1 TA-TATATAAAGTATATATATTA
** * *
1020652 CTATATAGTTTATTA-ATATA-AA
1 -TATATA-TAAAGTATATATATTA
* *
1020674 T-TATATAAATTATATATGAAT-
1 TATATATAAAGTATATAT-ATTA
*
1020695 TATATATGAA-T-TATAT-TTA
1 TATATATAAAGTATATATATTA
* *
1020714 AATATATACAACATATATATATATA
1 TATATATA-AA-GTATATATAT-TA
*
1020739 TATATATATA-TATATATATATA
1 TATATATAAAGTATATATAT-TA
* *
1020761 TATATATTATGTATAATTATAAATTA
1 TATATATAAAGTAT-A-TAT--ATTA
*
1020787 TATATACT-ATGTATA-A-ATTA
1 TATATA-TAAAGTATATATATTA
* *
1020807 TATAGTTTAAA-TATA-A-AGTA
1 TATA-TATAAAGTATATATATTA
* * *
1020827 TATAAGTATATA-TACATATATAA
1 TAT-A-TATAAAGTATATATATTA
1020850 TA-ATATAAAGTATAAGTTTATATTA
1 TATATATAAAGTAT-A---TATATTA
1020875 TATATATAAAG--TATA-ATTA
1 TATATATAAAGTATATATATTA
* * *
1020894 TAAAGACTAAAGTATATA-AGTA
1 TATATA-TAAAGTATATATATTA
1020916 TATAATATAAAG--TATATA--A
1 TAT-ATATAAAGTATATATATTA
* *
1020935 -GTATATAAAGTATATATA-CA
1 TATATATAAAGTATATATATTA
*
1020955 TATAAAGTATAAGTATATATATATATA
1 TATATA-TA-AAG--TATATATAT-TA
* *
1020982 TATATATAAACTATAAAGTGTATATA
1 TATATATAAAGTAT--A-TATAT-TA
*
1021008 TATATATAAAGT-T-T-TAGTA
1 TATATATAAAGTATATATATTA
* * * * *
1021027 TAAAGCATATA-TACATATATAA
1 TATA-TATAAAGTATATATATTA
1021049 TA-ATATAAAG--TATA-ATTA
1 TATATATAAAGTATATATATTA
* * **
1021067 TAAAGACTAAAGTATATA-AGCA
1 TATATA-TAAAGTATATATATTA
* *
1021089 TATAATATAATGTATATA-AGTA
1 TAT-ATATAAAGTATATATATTA
* * *
1021111 TATAATATAAAATACATA-AGTTT
1 TAT-ATATAAAGTATATATA-TTA
* * *
1021134 TAAATATAAAGTAT-TAAAGTA
1 TATATATAAAGTATATATATTA
* *
1021155 TACCATTTAAAGTAT-TA-A--A
1 TA-TATATAAAGTATATATATTA
*
1021174 -ATATATAAA-TATAAATATTA
1 TATATATAAAGTATATATATTA
*
1021194 -A-ATATAAAGTATATA-AGTA
1 TATATATAAAGTATATATATTA
* *
1021213 TATAATATAAATTAT-TAAATTA
1 TAT-ATATAAAGTATATATATTA
1021235 TATA-ATATAAGTATA
1 TATATATA-AAGTATA
1021250 CAATATGAAG
Statistics
Matches: 639, Mismatches: 116, Indels: 206
0.66 0.12 0.21
Matches are distributed among these distances:
16 3 0.00
17 15 0.02
18 12 0.02
19 57 0.09
20 113 0.18
21 77 0.12
22 203 0.32
23 40 0.06
24 9 0.01
25 56 0.09
26 45 0.07
27 9 0.01
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (22 bp):
TATATATAAAGTATATATATTA
Found at i:1020680 original size:79 final size:81
Alignment explanation
Indices: 1020462--1020658 Score: 197
Period size: 81 Copynumber: 2.4 Consensus size: 81
1020452 ATACAATATG
* * * *
1020462 TATAAACTATATAGTTTACTA-ATATAAACTATATAGT-GTATATATAAAGTATATATATTA-TA
1 TATAAACTAT-TAG-ATACTATATATAAACTATATA-TATTATGTATAAA--ATATATA-TACCA
* * *
1020524 TATATAAACTATATAGTTTATA
60 TGTGTAAACTATAGAGTTTATA
* * * * *
1020546 TTTATATTATTATATACTATATATAAACTATATATATTATGTATAAACTATATATACCATGTGTA
1 TATAAACTATTAGATACTATATATAAACTATATATATTATGTATAAAATATATATACCATGTGTA
1020611 AACTATAGAGTTTATA
66 AACTATAGAGTTTATA
1020627 TATAAACTATT-GA-ACTATATATAAACTATATA
1 TATAAACTATTAGATACTATATATAAACTATATA
1020659 GTTTATTAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
79 19 0.20
80 3 0.03
81 34 0.36
82 6 0.06
83 25 0.27
84 7 0.07
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.43
Consensus pattern (81 bp):
TATAAACTATTAGATACTATATATAAACTATATATATTATGTATAAAATATATATACCATGTGTA
AACTATAGAGTTTATA
Found at i:1020881 original size:191 final size:193
Alignment explanation
Indices: 1020513--1020879 Score: 423
Period size: 191 Copynumber: 1.9 Consensus size: 193
1020503 ATATAAAGTA
* * *
1020513 TATATATTATATATATAAACTATATAGTTTATATTTATATTATTATATACTATATATAAACTATA
1 TATATATTAAATATATAAACTATATAGTATATATATATATTATTATATACTATATATAAACTATA
* * *
1020578 TATATTATGTATAAACTATATATACCATGTGTAAACTATAGAGTTTATATATAAACTATTGAACT
66 TATATAATGTATAAACTATATATACCATGTATAAACTATAGAGTTTAAATATAAACTATTGAACT
* * *
1020643 ATATATAAACTATATAGTTTATTAATATAAATTATATAAATTATATATGAATTATATATGAAT
131 ATATATAAACTATATAATATATAAATATAAATTATATAAATTATATATGAATTATATATGAAT
*
1020706 TATAT-TTAAATATATACAAC-ATATA-TATATATATATATATATATATATA-TATATATATA-T
1 TATATATTAAATATATA-AACTATATAGTATATATATATAT-TAT-TATATACTATATATAAACT
* * * * * *
1020766 ATTATGTATAAT-TATAAATTATATATACTATGTATAAATTATATAGTTTAAATATAAAGTATAT
63 A-TATATATAATGTATAAACTATATATACCATGTATAAACTATAGAGTTTAAATATAAACTAT-T
* * *
1020830 -AAGTATATATACA-TATATAATAATATAAAGTATAAGTT-TAT--ATTATATAT
126 GAACTATATATAAACTATATAAT-ATATAAA-TATAAATTATATAAATTATATAT
1020880 ATAAAGTATA
Statistics
Matches: 148, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
189 9 0.06
190 7 0.05
191 75 0.51
192 43 0.29
193 14 0.09
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (193 bp):
TATATATTAAATATATAAACTATATAGTATATATATATATTATTATATACTATATATAAACTATA
TATATAATGTATAAACTATATATACCATGTATAAACTATAGAGTTTAAATATAAACTATTGAACT
ATATATAAACTATATAATATATAAATATAAATTATATAAATTATATATGAATTATATATGAAT
Found at i:1021013 original size:17 final size:17
Alignment explanation
Indices: 1020726--1021019 Score: 125
Period size: 17 Copynumber: 16.6 Consensus size: 17
1020716 TATATACAAC
*
1020726 ATATATATA-TATATAT
1 ATATATAAAGTATATAT
*
1020742 ATATATATA-TATATAT
1 ATATATAAAGTATATAT
* * *
1020758 ATATATATATTATGTAT
1 ATATATAAAGTATATAT
*
1020775 A-ATTATAAATTATATAT
1 ATA-TATAAAGTATATAT
1020792 ACTATGTATAAA-T-TATAT
1 A-TA--TATAAAGTATATAT
1020810 AGT-T-TAAA-TATA-A-
1 A-TATATAAAGTATATAT
1020823 AGTATAT-AAGTATATAT
1 A-TATATAAAGTATATAT
*
1020840 ACATATATAA-TA-ATAT
1 ATATATA-AAGTATATAT
*
1020856 AAAGTAT-AAGTTTATATTAT
1 ATA-TATAAAG--TATA-TAT
1020876 ATATATAAAGTATAATTAT
1 ATATATAAAGTAT-A-TAT
* *
1020895 AAAGACTAAAGTATATAAGTAT
1 ATATA-TAAAG--TAT-A-TAT
1020917 ATAATATAAAGTATATA-
1 AT-ATATAAAGTATATAT
1020934 AGTATATAAAGTATATAT
1 A-TATATAAAGTATATAT
*
1020952 ACATATAAAGTATAAGTAT
1 ATATATAAAGTAT-A-TAT
1020971 ATATATATATA-TATATAT
1 ATATATA-A-AGTATATAT
*
1020989 AAACTATAAAGTGTATATAT
1 ATA-TATAAA--GTATATAT
1021009 ATATATAAAGT
1 ATATATAAAGT
1021020 TTTAGTATAA
Statistics
Matches: 226, Mismatches: 17, Indels: 69
0.72 0.05 0.22
Matches are distributed among these distances:
13 3 0.01
14 9 0.04
15 10 0.04
16 37 0.16
17 55 0.24
18 25 0.11
19 35 0.15
20 35 0.15
21 1 0.00
22 14 0.06
23 2 0.01
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATATAAAGTATATAT
Found at i:1021093 original size:30 final size:30
Alignment explanation
Indices: 1020903--1021115 Score: 118
Period size: 30 Copynumber: 7.3 Consensus size: 30
1020893 ATAAAGACTA
*
1020903 AAGTATATAAGTATATAATATAAAGTATAT
1 AAGTATATAAGCATATAATATAAAGTATAT
*
1020933 AAGTATATAAAGTATATATACATATAAAG--TAT
1 AAGTATAT-AAG--CATATA-ATATAAAGTATAT
** *
1020965 AAGTATATATATATATATATATATAAACTATA-
1 AAGTATATA-A-GCATATA-ATATAAAGTATAT
* *
1020997 AAGTGTAT-A-TATAT-ATATAAAGT-T-T
1 AAGTATATAAGCATATAATATAAAGTATAT
* * *
1021022 TAGTATA-AAGCATAT-ATACATA-TATAAT
1 AAGTATATAAGCATATAATATAAAGTAT-AT
1021050 AA-TATA-AAG--TATAATTATAAAG-ACTA-
1 AAGTATATAAGCATATAA-TATAAAGTA-TAT
*
1021076 AAGTATATAAGCATATAATATAATGTATAT
1 AAGTATATAAGCATATAATATAAAGTATAT
1021106 AAGTATATAA
1 AAGTATATAA
1021116 TATAAAATAC
Statistics
Matches: 145, Mismatches: 14, Indels: 48
0.70 0.07 0.23
Matches are distributed among these distances:
25 11 0.08
26 21 0.14
27 17 0.12
28 11 0.08
29 8 0.06
30 25 0.17
31 17 0.12
32 19 0.13
33 8 0.06
34 8 0.06
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (30 bp):
AAGTATATAAGCATATAATATAAAGTATAT
Found at i:1021111 original size:8 final size:8
Alignment explanation
Indices: 1020903--1021221 Score: 94
Period size: 8 Copynumber: 41.9 Consensus size: 8
1020893 ATAAAGACTA
1020903 AAGTATAT
1 AAGTATAT
1020911 AAGTATAT
1 AAGTATAT
1020919 AA-TATA-
1 AAGTATAT
1020925 AAGTATAT
1 AAGTATAT
1020933 AAGTATAT
1 AAGTATAT
1020941 AAAGTATAT
1 -AAGTATAT
*
1020950 ATA-CATAT
1 A-AGTATAT
1020958 AA--AGTAT
1 AAGTA-TAT
1020965 AAGTATAT
1 AAGTATAT
1020973 ATA-TATAT
1 A-AGTATAT
1020981 ATA-TATAT
1 A-AGTATAT
*
1020989 AAACTATA-
1 -AAGTATAT
1020997 AAGTGTATAT
1 AA--GTATAT
1021007 ATA-TATAT
1 A-AGTATAT
1021015 AAAGT-T-T
1 -AAGTATAT
*
1021022 TAGTATA-
1 AAGTATAT
1021029 AAGCATATAT
1 AAG--TATAT
1021039 ACA-TATAT
1 A-AGTATAT
1021047 AA-TAATAT
1 AAGT-ATAT
1021055 AA--AGTAT
1 AAGTA-TAT
*
1021062 AATTATA-
1 AAGTATAT
1021069 AAG-ACTA-
1 AAGTA-TAT
1021076 AAGTATAT
1 AAGTATAT
*
1021084 AAGCATAT
1 AAGTATAT
1021092 AA-TATA-
1 AAGTATAT
*
1021098 ATGTATAT
1 AAGTATAT
1021106 AAGTATAT
1 AAGTATAT
1021114 AA-TATA-
1 AAGTATAT
* *
1021120 AAATACAT
1 AAGTATAT
*
1021128 AAGT-TTT
1 AAGTATAT
*
1021135 AAATATA-
1 AAGTATAT
1021142 AAGTAT-T
1 AAGTATAT
*
1021149 AAAGTATAC
1 -AAGTATAT
* *
1021158 CA-TTTA-
1 AAGTATAT
1021164 AAGTAT-T
1 AAGTATAT
*
1021171 AAAATATAT
1 -AAGTATAT
1021180 AA--ATAT
1 AAGTATAT
*
1021186 AAATAT-T
1 AAGTATAT
*
1021193 AAATATA-
1 AAGTATAT
1021200 AAGTATAT
1 AAGTATAT
1021208 AAGTATAT
1 AAGTATAT
1021216 AA-TATA
1 AAGTATA
1021222 AATTATTAAA
Statistics
Matches: 243, Mismatches: 23, Indels: 91
0.68 0.06 0.25
Matches are distributed among these distances:
6 18 0.07
7 81 0.33
8 112 0.46
9 28 0.12
10 2 0.01
11 2 0.01
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (8 bp):
AAGTATAT
Found at i:1021243 original size:35 final size:35
Alignment explanation
Indices: 1021175--1021304 Score: 124
Period size: 35 Copynumber: 3.7 Consensus size: 35
1021165 AGTATTAAAA
*
1021175 TATATAAATATAAA-TATTAAA-TATAAAGTATATAAG
1 TATAT-AATATAAATTATTAAATTATATA--ATATAAG
1021211 TATATAATATAAATTATTAAATTATATAATATAAG
1 TATATAATATAAATTATTAAATTATATAATATAAG
* * * *
1021246 TATACAATATGAAGTATTAAAGTATATAAATATAGAG
1 TATATAATATAAATTATTAAATTATAT-AATATA-AG
*
1021283 -ATAT-ATATTAAATTATAAAATT
1 TATATAATA-TAAATTATTAAATT
1021305 CGTAGGATCA
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
35 41 0.52
36 31 0.39
37 7 0.09
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (35 bp):
TATATAATATAAATTATTAAATTATATAATATAAG
Found at i:1021276 original size:80 final size:78
Alignment explanation
Indices: 1021080--1021289 Score: 185
Period size: 80 Copynumber: 2.6 Consensus size: 78
1021070 AGACTAAAGT
* * * * *
1021080 ATATAAGCATATAATATAATGTATATAAGTATAT-AATATAAAATACATAAGTTTTAAATATAAA
1 ATATAAGTATAAAATATAA-GTATA-AAGTATATAAATATAAAGTATATAAGTTATAAATATAAA
*
1021144 GTATTAAAGTATACC
64 GTATTAAAGTATACA
* *
1021159 ATTTAAAGTATTAAAATATATAAATATAAA-TAT-TAAATATAAAGTATATAAG-TATATAATAT
1 ATAT-AAGTA-T-AAA-ATATAAGTATAAAGTATATAAATATAAAGTATATAAGTTATA-AATAT
* * *
1021221 AAATTATTAAATTATATA
61 AAAGTATTAAAGTATACA
* *
1021239 ATATAAGTATACAATATGAAGTATTAAAGTATATAAATATAGAGATATATA
1 ATATAAGTATAAAATAT-AAGTA-TAAAGTATATAAATATAAAG-TATATA
1021290 TTAAATTATA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
76 4 0.04
77 6 0.06
78 5 0.05
79 15 0.14
80 54 0.51
81 9 0.09
82 6 0.06
83 6 0.06
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (78 bp):
ATATAAGTATAAAATATAAGTATAAAGTATATAAATATAAAGTATATAAGTTATAAATATAAAGT
ATTAAAGTATACA
Found at i:1021278 original size:58 final size:58
Alignment explanation
Indices: 1021133--1021279 Score: 183
Period size: 58 Copynumber: 2.5 Consensus size: 58
1021123 TACATAAGTT
** *
1021133 TTAAATATAAAGTATTAAAGTATACCATTTAAAGTATTAAAATATATAAATATAAATA
1 TTAAATATAAAGTATTAAAGTATATAATATAAAGTATTAAAATATATAAATATAAATA
* * *
1021191 TTAAATATAAAGTA-TATAAGTATATAATATAAATTATTAAATTATAT-AATATAAGTA
1 TTAAATATAAAGTATTA-AAGTATATAATATAAAGTATTAAAATATATAAATATAAATA
*
1021248 -TACAATATGAAGTATTAAAGTATATAAATATA
1 TTA-AATATAAAGTATTAAAGTATAT-AATATA
1021280 GAGATATATA
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
56 2 0.03
57 29 0.37
58 47 0.60
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.37
Consensus pattern (58 bp):
TTAAATATAAAGTATTAAAGTATATAATATAAAGTATTAAAATATATAAATATAAATA
Found at i:1021458 original size:83 final size:82
Alignment explanation
Indices: 1021283--1021520 Score: 379
Period size: 83 Copynumber: 2.9 Consensus size: 82
1021273 AAATATAGAG
* * *
1021283 ATATATATTAAATTATAAAATTCGTAGGATCAAATTGAAATAAAATAAAAATTAAAAGCTTAAAT
1 ATATATATTAAATTATAAAATTTGTAGGATCAAATTGAAATAAAATAAAAATTTAAAGCCTAAAT
1021348 TAATACATTATATAATT
66 TAATACATTATATAATT
* *
1021365 ATATATATTAAACTATAAAATTTGTAGGATCAAGTTGAAATAAAATAAAAAATTTAAAGCCTAAA
1 ATATATATTAAATTATAAAATTTGTAGGATCAAATTGAAATAAAAT-AAAAATTTAAAGCCTAAA
* *
1021430 TTATTACATTATATAGTT
65 TTAATACATTATATAATT
* *
1021448 ATATATATTAAATTATAAAATTTGTAGGATTAAATTGAAAT-AAATAAAAAGTTAAAGCCTAAAT
1 ATATATATTAAATTATAAAATTTGTAGGATCAAATTGAAATAAAATAAAAATTTAAAGCCTAAAT
1021512 TAATACATT
66 TAATACATT
1021521 TTTGGACTAA
Statistics
Matches: 143, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
81 26 0.18
82 47 0.33
83 70 0.49
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.36
Consensus pattern (82 bp):
ATATATATTAAATTATAAAATTTGTAGGATCAAATTGAAATAAAATAAAAATTTAAAGCCTAAAT
TAATACATTATATAATT
Found at i:1022179 original size:17 final size:17
Alignment explanation
Indices: 1022157--1022189 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1022147 TAACTATTTA
1022157 AAATGCAATGCAACATG
1 AAATGCAATGCAACATG
*
1022174 AAATGCAATTCAACAT
1 AAATGCAATGCAACAT
1022190 TAATTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.21
Consensus pattern (17 bp):
AAATGCAATGCAACATG
Found at i:1022398 original size:18 final size:18
Alignment explanation
Indices: 1022377--1022413 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1022367 TTAATATCCA
1022377 AACTATACTAT-ATATACT
1 AACTATA-TATCATATACT
1022395 AACTATATATCATATACT
1 AACTATATATCATATACT
1022413 A
1 A
1022414 TATATTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (18 bp):
AACTATATATCATATACT
Found at i:1024388 original size:22 final size:22
Alignment explanation
Indices: 1024345--1024388 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1024335 AATGCCAGAG
*
1024345 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
* * *
1024367 GGGAATCGATTCCCCTAAAGGA
1 GGGAACCGATACCCCCAAAGGA
1024389 AAATTGTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.32, C:0.30, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:1026029 original size:103 final size:103
Alignment explanation
Indices: 1025850--1026067 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
1025840 GTCGAGGGTC
*
1025850 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGTACACGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACACGTGTGAAGTCTGGTGAGACACATAC
1025915 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
* *
1025953 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACACGTGTGAAGTCTGGTGAGACACATAC
1026018 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
1026056 TATGTGGTCCTT
1 TATGTGGTCCTT
1026068 ATGGACATTA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACACGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:1026133 original size:23 final size:23
Alignment explanation
Indices: 1026079--1026151 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 23
1026069 TGGACATTAT
*
1026079 TATATGGCACTACAGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
***
1026102 TACGCGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
*
1026125 TATATGGCACTTCGGTGC-ATT-
1 TATATGGCACTACGGTGCAATTC
1026146 TATATG
1 TATATG
1026152 AGCTGTGGTG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.14
22 3 0.07
23 33 0.79
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (23 bp):
TATATGGCACTACGGTGCAATTC
Found at i:1027581 original size:24 final size:24
Alignment explanation
Indices: 1027554--1027662 Score: 78
Period size: 24 Copynumber: 4.5 Consensus size: 24
1027544 AAACGGAGAT
* *
1027554 ATCATAAATCAAAACAAAATTCAG
1 ATCAGAAATCAGAACAAAATTCAG
* * * *
1027578 ATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAAAATTCAG
* * *
1027602 ATCAGAAATTAGAATAGAATTCAG
1 ATCAGAAATCAGAACAAAATTCAG
* *
1027626 GTCATG-TATCAGAACAAAATTCA-
1 ATCA-GAAATCAGAACAAAATTCAG
*
1027649 ATTCGGAAATCAGA
1 A-TCAGAAATCAGA
1027663 TAAAATATTT
Statistics
Matches: 64, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
23 1 0.02
24 62 0.97
25 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.23
Consensus pattern (24 bp):
ATCAGAAATCAGAACAAAATTCAG
Found at i:1031268 original size:69 final size:69
Alignment explanation
Indices: 1031126--1031258 Score: 221
Period size: 69 Copynumber: 1.9 Consensus size: 69
1031116 CAGATCAGGG
* * * *
1031126 CAATAACAAGTCGGATCATTTATAGGTCGGGTTGAAAACATGTCGGGTAATACTAGTTATTTACC
1 CAATAACAAGTCGGATCATTTACAGGTCAGGTTGAAAACAGGTCGGGTAATACCAGTTATTTACC
1031191 AGAT
66 AGAT
*
1031195 CAATAACAAGTCGGATCATTTACAGGTCATGTTGAAAACAGGTCGGGTAATACCAGTTATTTAC
1 CAATAACAAGTCGGATCATTTACAGGTCAGGTTGAAAACAGGTCGGGTAATACCAGTTATTTAC
1031259 GGGGTCAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (69 bp):
CAATAACAAGTCGGATCATTTACAGGTCAGGTTGAAAACAGGTCGGGTAATACCAGTTATTTACC
AGAT
Found at i:1032787 original size:2 final size:2
Alignment explanation
Indices: 1032780--1032810 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1032770 TATAATGTGA
1032780 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1032811 GACCAGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1036728 original size:2 final size:2
Alignment explanation
Indices: 1036718--1036751 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1036708 TATATTTTAA
*
1036718 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1036752 TATTGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1036729 original size:8 final size:8
Alignment explanation
Indices: 1036705--1036765 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
1036695 TTTCAAATTA
1036705 TTATATATT
1 TTATATA-T
*
1036714 TTAAATAT
1 TTATATAT
1036722 TTATATAT
1 TTATATAT
*
1036730 ATATATAT
1 TTATATAT
*
1036738 ATATATAT
1 TTATATAT
*
1036746 ATATATTAT
1 TTATA-TAT
*
1036755 TGATA-AT
1 TTATATAT
1036762 TTAT
1 TTAT
1036766 TTTTATTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
7 5 0.11
8 28 0.62
9 12 0.27
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (8 bp):
TTATATAT
Found at i:1037384 original size:16 final size:16
Alignment explanation
Indices: 1037363--1037402 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1037353 AATTAAAATT
* *
1037363 AAAATTATTCAATCTA
1 AAAATTAATCAAACTA
*
1037379 AAAATTAATCAAACTT
1 AAAATTAATCAAACTA
1037395 AAAATTAA
1 AAAATTAA
1037403 AGTAATCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTAATCAAACTA
Found at i:1040519 original size:14 final size:14
Alignment explanation
Indices: 1040500--1040526 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1040490 TCAATGTATT
1040500 AATAGATGCTCCTA
1 AATAGATGCTCCTA
1040514 AATAGATGCTCCT
1 AATAGATGCTCCT
1040527 GATAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (14 bp):
AATAGATGCTCCTA
Found at i:1045423 original size:13 final size:13
Alignment explanation
Indices: 1045401--1045444 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
1045391 TCAAATGAAA
*
1045401 TAAAAATTAAAAT
1 TAAAATTTAAAAT
1045414 TAAAATTTAAAAT
1 TAAAATTTAAAAT
*
1045427 TAAAATTAAAAAT
1 TAAAATTTAAAAT
1045440 TAAAA
1 TAAAA
1045445 ATGAAAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAATTTAAAAT
Found at i:1045427 original size:19 final size:19
Alignment explanation
Indices: 1045401--1045457 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
1045391 TCAAATGAAA
1045401 TAAAAATTAAAATTAAAAT
1 TAAAAATTAAAATTAAAAT
*
1045420 TTAAAATTAAAATTAAAAAT
1 TAAAAATTAAAATT-AAAAT
*
1045440 TAAAAATGAAAATGTAAA
1 TAAAAATTAAAAT-TAAA
1045458 GGAATTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.39
20 19 0.58
21 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (19 bp):
TAAAAATTAAAATTAAAAT
Found at i:1045451 original size:7 final size:7
Alignment explanation
Indices: 1045401--1045451 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
1045391 TCAAATGAAA
1045401 TAAAAAT
1 TAAAAAT
1045408 T-AAAAT
1 TAAAAAT
1045414 T-AAAAT
1 TAAAAAT
*
1045420 TTAAAAT
1 TAAAAAT
1045427 T-AAAAT
1 TAAAAAT
1045433 TAAAAAT
1 TAAAAAT
1045440 TAAAAAT
1 TAAAAAT
*
1045447 GAAAA
1 TAAAA
1045452 TGTAAAGGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 18 0.44
7 23 0.56
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (7 bp):
TAAAAAT
Found at i:1045451 original size:13 final size:13
Alignment explanation
Indices: 1045393--1045457 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
1045383 AAACATGCTC
1045393 AAATG-AAA-TAA
1 AAATGAAAATTAA
*
1045404 AAATTAAAATTAA
1 AAATGAAAATTAA
* *
1045417 AATTTAAAATTAA
1 AAATGAAAATTAA
* *
1045430 AATTAAAAATTAA
1 AAATGAAAATTAA
1045443 AAATGAAAATGTAA
1 AAATGAAAAT-TAA
1045457 A
1 A
1045458 GGAATTAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
11 4 0.09
12 3 0.07
13 35 0.76
14 4 0.09
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (13 bp):
AAATGAAAATTAA
Found at i:1045453 original size:6 final size:6
Alignment explanation
Indices: 1045398--1045444 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
1045388 TGCTCAAATG
*
1045398 AAATAA AAATTA AAATTA AAATTTA AAATTA AAATTAA AAATTA AAA
1 AAATTA AAATTA AAATTA AAA-TTA AAATTA AAATT-A AAATTA AAA
1045445 ATGAAAATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
6 26 0.68
7 12 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTA
Found at i:1051806 original size:26 final size:26
Alignment explanation
Indices: 1051765--1051814 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
1051755 CCAGAAGGCG
*
1051765 CGCTGACTAGATCTTCTAGAAACTGT
1 CGCTGACTAGACCTTCTAGAAACTGT
*
1051791 CGCTGACTGGACCTTCTAGAAACT
1 CGCTGACTAGACCTTCTAGAAACT
1051815 ACCACGTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (26 bp):
CGCTGACTAGACCTTCTAGAAACTGT
Found at i:1052658 original size:42 final size:38
Alignment explanation
Indices: 1052611--1052702 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 38
1052601 GACTTGTCCA
1052611 AAAATATATATAATCACTACCTGACCCGACCCGACCCAATCC
1 AAAATATATATAATCA-T---TGACCCGACCCGACCCAATCC
* * *
1052653 AAAATATATAT-ATCATTTACCCGACCTGATCCAATCC
1 AAAATATATATAATCATTGACCCGACCCGACCCAATCC
1052690 AAATATATATATA
1 AAA-ATATATATA
1052703 TATATATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
37 21 0.47
38 8 0.18
40 1 0.02
41 4 0.09
42 11 0.24
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.26
Consensus pattern (38 bp):
AAAATATATATAATCATTGACCCGACCCGACCCAATCC
Found at i:1052699 original size:2 final size:2
Alignment explanation
Indices: 1052692--1052753 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
1052682 TCCAATCCAA
1052692 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1052734 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
1052754 CCTCCACCCG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1053458 original size:17 final size:17
Alignment explanation
Indices: 1053436--1053468 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1053426 CTGTCCTTTC
1053436 TGTATTATATCTTTTAT
1 TGTATTATATCTTTTAT
*
1053453 TGTATTATTTCTTTTA
1 TGTATTATATCTTTTA
1053469 GTATCATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (17 bp):
TGTATTATATCTTTTAT
Found at i:1059004 original size:22 final size:22
Alignment explanation
Indices: 1058969--1059022 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
1058959 ACCTCCAAAT
* * *
1058969 AATGTTGATGGAAGAATGCCTTG
1 AATGATGATTGAAGAATG-ATTG
*
1058992 -ATGATGATTGAAGGATGATTG
1 AATGATGATTGAAGAATGATTG
1059013 AATGATGATT
1 AATGATGATT
1059023 AGATGGTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (22 bp):
AATGATGATTGAAGAATGATTG
Found at i:1059096 original size:35 final size:37
Alignment explanation
Indices: 1059057--1059148 Score: 102
Period size: 35 Copynumber: 2.6 Consensus size: 37
1059047 ATATGTGGAC
*
1059057 ATGGTGATAGAAGT-TGATGATAATATAGGCGTG-CA
1 ATGGTGATGGAAGTATGATGATAATATAGGCGTGACA
* * **
1059092 ATGGTGATGGAA-TATGGTGTTGTTATAGGCGTGACA
1 ATGGTGATGGAAGTATGATGATAATATAGGCGTGACA
*
1059128 ATGGTGATGGAAG-ATGGTGAT
1 ATGGTGATGGAAGTATGATGAT
1059149 GAACATATAG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
34 1 0.02
35 26 0.54
36 21 0.44
ACGTcount: A:0.29, C:0.04, G:0.36, T:0.30
Consensus pattern (37 bp):
ATGGTGATGGAAGTATGATGATAATATAGGCGTGACA
Found at i:1060162 original size:23 final size:23
Alignment explanation
Indices: 1060131--1060177 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
1060121 CCTTGAGCTG
1060131 TCCTAGAGTTGTCCTAGTCACTT
1 TCCTAGAGTTGTCCTAGTCACTT
*
1060154 TCCTGGAGTTGTCCTAGTCACTT
1 TCCTAGAGTTGTCCTAGTCACTT
1060177 T
1 T
1060178 TCCTTATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (23 bp):
TCCTAGAGTTGTCCTAGTCACTT
Found at i:1061639 original size:24 final size:24
Alignment explanation
Indices: 1061610--1061675 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
1061600 TATAGGGTAT
*
1061610 TAATTAAGAATGAATGCCCTATAA
1 TAATTAACAATGAATGCCCTATAA
1061634 TAATTAACAATGAATGCCCTATAA
1 TAATTAACAATGAATGCCCTATAA
1061658 TAATTAACAATGAATGCC
1 TAATTAACAATGAATGCC
1061676 AACCAGATCC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (24 bp):
TAATTAACAATGAATGCCCTATAA
Found at i:1061885 original size:12 final size:12
Alignment explanation
Indices: 1061868--1061901 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
1061858 CGTCCGGTTA
1061868 TTTATTATTATT
1 TTTATTATTATT
1061880 TTTATTATTATT
1 TTTATTATTATT
1061892 TTTATTATTA
1 TTTATTATTA
1061902 ATTAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTATTATT
Found at i:1074008 original size:8 final size:8
Alignment explanation
Indices: 1073997--1074102 Score: 135
Period size: 8 Copynumber: 13.1 Consensus size: 8
1073987 TGAAGAAATG
*
1073997 AAAAATGA
1 AAAAAAGA
*
1074005 AAAAATGGA
1 AAAAA-AGA
1074014 AAAATAAAGA
1 AAAA--AAGA
*
1074024 AAAAAATA
1 AAAAAAGA
1074032 AAAAAAGA
1 AAAAAAGA
1074040 AAAAAAGA
1 AAAAAAGA
1074048 AAAAAAGA
1 AAAAAAGA
1074056 AAAAAAGA
1 AAAAAAGA
1074064 AAAAAAGA
1 AAAAAAGA
1074072 AAAAAAG-
1 AAAAAAGA
1074079 AAAAAAG-
1 AAAAAAGA
1074086 AAAAAAGA
1 AAAAAAGA
*
1074094 AAAATAGA
1 AAAAAAGA
1074102 A
1 A
1074103 TAAATAAAAA
Statistics
Matches: 89, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
7 14 0.16
8 62 0.70
9 6 0.07
10 6 0.07
11 1 0.01
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (8 bp):
AAAAAAGA
Found at i:1074010 original size:15 final size:15
Alignment explanation
Indices: 1073992--1074112 Score: 102
Period size: 16 Copynumber: 7.7 Consensus size: 15
1073982 TCGCTTGAAG
*
1073992 AAATGAAAAATGAAA
1 AAATGAAAAAAGAAA
1074007 AAATGGAAAAATAAAGAAAA
1 AAAT-G--AAA-AAAG-AAA
*
1074027 AAATAAAAAAAGAAA
1 AAATGAAAAAAGAAA
*
1074042 AAAAGAAAAAAAGAAA
1 AAATG-AAAAAAGAAA
*
1074058 AAAAGAAAAAAAGAAA
1 AAATG-AAAAAAGAAA
*
1074074 AAAAGAAAAAAGAAA
1 AAATGAAAAAAGAAA
*
1074089 AAA-GAAAAATAGAAT
1 AAATGAAAAA-AGAAA
1074104 AAAT-AAAAA
1 AAATGAAAAA
1074113 GGGGTTCAAG
Statistics
Matches: 93, Mismatches: 5, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
14 6 0.06
15 35 0.38
16 36 0.39
17 3 0.03
18 3 0.03
19 3 0.03
20 7 0.08
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.07
Consensus pattern (15 bp):
AAATGAAAAAAGAAA
Found at i:1074107 original size:9 final size:8
Alignment explanation
Indices: 1073992--1074112 Score: 90
Period size: 8 Copynumber: 15.2 Consensus size: 8
1073982 TCGCTTGAAG
1073992 AAAT-GAA
1 AAATAGAA
1073999 AAAT-GAAA
1 AAATAG-AA
*
1074007 AAATGGAA
1 AAATAGAA
1074015 AAATAAAGAA
1 AAAT--AGAA
* *
1074025 AAAAATAA
1 AAATAGAA
*
1074033 AAAAAGAA
1 AAATAGAA
*
1074041 AAAAAGAA
1 AAATAGAA
*
1074049 AAAAAGAA
1 AAATAGAA
*
1074057 AAAAAGAA
1 AAATAGAA
*
1074065 AAAAAGAA
1 AAATAGAA
*
1074073 AAAAAGAA
1 AAATAGAA
1074081 AAA-AGAA
1 AAATAGAA
1074088 AAA-AGAA
1 AAATAGAA
1074095 AAATAGAA
1 AAATAGAA
1074103 TAAATA-AA
1 -AAATAGAA
1074111 AA
1 AA
1074113 GGGGTTCAAG
Statistics
Matches: 104, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
7 21 0.20
8 71 0.68
9 6 0.06
10 6 0.06
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.07
Consensus pattern (8 bp):
AAATAGAA
Found at i:1074112 original size:1 final size:1
Alignment explanation
Indices: 1074013--1074097 Score: 71
Period size: 1 Copynumber: 85.0 Consensus size: 1
1074003 GAAAAAATGG
* * * * * * * *
1074013 AAAAATAAAGAAAAAAATAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
1074078 GAAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAA
1074098 TAGAATAAAT
Statistics
Matches: 62, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (1 bp):
A
Found at i:1075873 original size:133 final size:134
Alignment explanation
Indices: 1075325--1075874 Score: 619
Period size: 134 Copynumber: 4.1 Consensus size: 134
1075315 ATCAAACTCA
* * * * *
1075325 ATTCAATCTTCCATAAGCAATA-ATGGAATGAATCAACGTCCTCATATATGA-TTTCACTCAAGA
1 ATTCAATATTCCCTGAGCAATAGA-GGAATGAATCAACGTCCTCATATCTGATTTTCCCTCAAGA
* * * * * * *
1075388 AGAAGTGGAATAGATCCCTTTCTTTCATGATTTGATATTCCTTGAGTAACAGTGGAACAAGACTG
65 AGAAGCGGAACAGATCCCTCTCTTTAATGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTA
*
1075453 GCTCG
130 CCTCG
* * * *
1075458 ATTCAATCTTCCCTGAGTAATAGTGGAATGAATCAACGT-CTCCAGATCTGATTTTCCCTCAAGA
1 ATTCAATATTCCCTGAGCAATAGAGGAATGAATCAACGTCCT-CATATCTGATTTTCCCTCAAGA
** * * * * * *
1075522 AGAAGCATAACGGATCCCTCTCTTTCATGATTTGATATTCCCTGAGTAATAGCGGAATAAGCCTA
65 AGAAGCGGAACAGATCCCTCTCTTTAATGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTA
1075587 CCTCG
130 CCTCG
* * * *
1075592 ATTCAATATTCCCTGAGTAACAGAGGAATGAATCAACGTCCCCATATTTGATTTTCCCTCAAGAA
1 ATTCAATATTCCCTGAGCAATAGAGGAATGAATCAACGTCCTCATATCTGATTTTCCCTCAAGAA
** * * * *
1075657 GAAGTTGAACAGATTCCCATAT-TTCAAT-ATTTGATATTCCCTGAGTAACAGTGGAATAAGTTT
66 GAAGCGGAACAGA-TCCC-TCTCTTTAATGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCT
*
1075720 ACCTTG
129 ACCTCG
* * * *
1075726 ATTCAATATTCCCTGAGCAATAGAGGAATGAATCAATGTCCTAATATCTGATTTTCCCACAATAA
1 ATTCAATATTCCCTGAGCAATAGAGGAATGAATCAACGTCCTCATATCTGATTTTCCCTCAAGAA
* *
1075791 GAAGCGGAACAGATCCCATCT-TTTAAT-ATTTGATATTCCCTGAGTAATAGTGGAACAAGTCAA
66 GAAGCGGAACAGATCCC-TCTCTTTAATGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTA
*
1075854 CCTTG
130 CCTCG
1075859 ATTCAATATTCCCTGA
1 ATTCAATATTCCCTGA
1075875 AGAACAGTGA
Statistics
Matches: 357, Mismatches: 54, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
132 2 0.01
133 106 0.30
134 238 0.67
135 9 0.03
136 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (134 bp):
ATTCAATATTCCCTGAGCAATAGAGGAATGAATCAACGTCCTCATATCTGATTTTCCCTCAAGAA
GAAGCGGAACAGATCCCTCTCTTTAATGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTAC
CTCG
Found at i:1076077 original size:3 final size:3
Alignment explanation
Indices: 1076064--1076094 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
1076054 TTTCGTTTAG
1076064 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
1076095 ATTAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1079072 original size:16 final size:16
Alignment explanation
Indices: 1079051--1079103 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
1079041 AAATACACTT
1079051 AAACTCATTAATCTAC
1 AAACTCATTAATCTAC
**
1079067 AAACTCAATT-GGC-AC
1 AAACTC-ATTAATCTAC
1079082 -AACTCATTAATCTAC
1 AAACTCATTAATCTAC
1079097 AAACTCA
1 AAACTCA
1079104 ATTGGCACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 3 0.10
14 6 0.21
15 4 0.14
16 13 0.45
17 3 0.10
ACGTcount: A:0.43, C:0.26, G:0.04, T:0.26
Consensus pattern (16 bp):
AAACTCATTAATCTAC
Found at i:1079088 original size:30 final size:30
Alignment explanation
Indices: 1079052--1079113 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
1079042 AATACACTTA
1079052 AACTCATTAATCTACAAACTCAATTGGCAC
1 AACTCATTAATCTACAAACTCAATTGGCAC
1079082 AACTCATTAATCTACAAACTCAATTGGCAC
1 AACTCATTAATCTACAAACTCAATTGGCAC
1079112 AA
1 AA
1079114 TAATTTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (30 bp):
AACTCATTAATCTACAAACTCAATTGGCAC
Found at i:1084982 original size:17 final size:18
Alignment explanation
Indices: 1084955--1084995 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
1084945 TGAACCCTTA
* *
1084955 TTTTTCTTTTCTTTTTCT
1 TTTTTCTTTTCCTTCTCT
1084973 TTTTTC-TTTCCTTCTCT
1 TTTTTCTTTTCCTTCTCT
1084990 TTTTTC
1 TTTTTC
1084996 ATCTAAGCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTCCTTCTCT
Found at i:1093926 original size:19 final size:19
Alignment explanation
Indices: 1093891--1093929 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1093881 TATTATTATA
*
1093891 AATATTTGTATTTAATATT
1 AATATATGTATTTAATATT
1093910 AATATATGT-TTTAAATATT
1 AATATATGTATTT-AATATT
1093929 A
1 A
1093930 TGTGATAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
AATATATGTATTTAATATT
Found at i:1101521 original size:14 final size:14
Alignment explanation
Indices: 1101502--1101534 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1101492 TAATGGGGAG
1101502 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
1101516 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
1101530 GAATC
1 TAATC
1101535 ACTAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.21
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:1102148 original size:22 final size:22
Alignment explanation
Indices: 1102120--1102166 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1102110 CACTCTTTGG
*
1102120 AGATTTTTAAGTTATAGTAGTT
1 AGATTTTTAAGTTATAGCAGTT
1102142 AGATTTTTAAGTTATAGCAGTT
1 AGATTTTTAAGTTATAGCAGTT
1102164 AGA
1 AGA
1102167 GTACGAGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (22 bp):
AGATTTTTAAGTTATAGCAGTT
Found at i:1103701 original size:23 final size:23
Alignment explanation
Indices: 1103654--1103703 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1103644 AATAACATAT
**
1103654 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
1103677 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
1103700 TAGG
1 TAGG
1103704 CATTTAACCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:1103763 original size:87 final size:87
Alignment explanation
Indices: 1103617--1103779 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
1103607 TATATTATAT
* * *
1103617 CATTTAACTGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGCAGCGCTTATATAATGTAATAGGT
1103682 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
*
1103704 CATTTAACCGGAAATATTATCAAGTACAATAACAAATTAGGCAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGCAGCGCTTATATAATGTAATAGGT
1103769 AGCGCTTATAT
66 AGCGCTTATAT
1103780 TGACATATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGCAGCGCTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:1105743 original size:545 final size:546
Alignment explanation
Indices: 1104358--1105729 Score: 2225
Period size: 545 Copynumber: 2.5 Consensus size: 546
1104348 TAAAGTACCA
* * * * *
1104358 ACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTAGATACCGGTTTTGTCATATT
1 ACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTATCATTTAGACACCGGTTTTGTCATATT
* * ** *
1104423 TTTACATATTATATTATTATGGATCGATACATTT-TCATAAAGTATCGATACTTTTTAGGCGCTA
66 ATTACATGTTATATTGCTATGGATCGATACATTTGT-ATAAAGTATCGACACTTTTTAGGCGCTA
* *
1104487 TAATTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTATCGACACTTTCAATA
130 TAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCGACACTTTCAATA
*
1104552 TATCCTGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTAT
195 TATCCAGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTAT
* *
1104617 ATTGATATGGATTGATACATTTGTATAAAATATCGACACTTTTTAAGCGCTATAACTTCTTCTCT
260 ATTGATATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAAGCGCTATAACTTCTTCTCT
1104682 TTTAAATATAAAAAGTGTCGATAATTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTT
325 TTTAAATATAAAAAGTGTCGATAATTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTT
*
1104747 TTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATC
390 TTTACCAGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATC
*
1104812 GATACATTTGTATAAAATATCGACACTTTTTAGGCGTTATAACTTCTTCTCTTTTAAATTACAAA
455 GATACATTTGTATAAAATATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAA
1104877 AGTGTCGATACTTATATTAATTTATCG
520 AGTGTCGATACTTATATTAATTTATCG
* * * ** * * *
1104904 GCACTTTCAATATATATGGTATCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATT
1 ACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTATCATTTAGACACCGGTTTTGTCATATT
* *
1104969 ATTACATGTTATAATGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGACGCTAT
66 ATTACATGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTAT
1105034 AACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCGACACTTTCAATAT
131 AACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCGACACTTTCAATAT
* *
1105099 ATCCGGTATCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATA
196 ATCCAGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATA
* * *
1105164 TTGATATGGATCGATACATTTGTATAAAGTATCGATACTTTTTAGGTGCTATAACTTCTTCTCTT
261 TTGATATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAAGCGCTATAACTTCTTCTCTT
* *
1105229 TTAAATATCAAAAGTGTCGATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTT
326 TTAAATATAAAAAGTGTCGATAATTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTT
1105294 TTACCAG-TTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCG
391 TTACCAGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCG
*
1105358 ATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAA
456 ATACATTTGTATAAAATATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAA
*
1105423 GTGTCGATACTTATATTACTTTATCG
521 GTGTCGATACTTATATTAATTTATCG
* * *
1105449 ACACTTTCAATATATCTAGTAGCGGTTTACCGGTTTTATCA-TAATGACACCGGTTTTGTCATAT
1 ACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTATCATTTA-GACACCGGTTTTGTCATAT
* *
1105513 TATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTATAGGCGCTA
65 TATTACATGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTA
1105578 TAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCGACACTTTCAATA
130 TAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCGACACTTTCAATA
** * * * *
1105643 TATCCAGTAGCGGTTTACCGGTTTTATCATAAT-GACACC-GATTTTATCATATT-TGTACTTGT
195 TATCCAGTAGCTTTTTACCGGTTTTATCAT-TTCGAGACCTG-TTTTGTCATATTAT-TACCTGT
*
1105705 TATATTGCTATGGATCGATACATTT
257 TATATTGATATGGATCGATACATTT
1105730 TTCATTTGTA
Statistics
Matches: 764, Mismatches: 57, Indels: 11
0.92 0.07 0.01
Matches are distributed among these distances:
544 3 0.00
545 395 0.52
546 365 0.48
547 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (546 bp):
ACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTATCATTTAGACACCGGTTTTGTCATATT
ATTACATGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTAT
AACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCGACACTTTCAATAT
ATCCAGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATA
TTGATATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAAGCGCTATAACTTCTTCTCTT
TTAAATATAAAAAGTGTCGATAATTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTT
TTACCAGTTTTATCATTTCGAGACCTGTTTTGTCATATTATTACCTGTTATATTGCTATGGATCG
ATACATTTGTATAAAATATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAA
GTGTCGATACTTATATTAATTTATCG
Found at i:1105746 original size:182 final size:182
Alignment explanation
Indices: 1104358--1105729 Score: 2157
Period size: 182 Copynumber: 7.5 Consensus size: 182
1104348 TAAAGTACCA
* * ** * * * *
1104358 ACACTTTCAACATAACCGGTAGCGCTTTACCGGTTTTGTCATTTAGATACCGGTTTTGTCATATT
1 ACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATT
* * * ** *
1104423 TTTACATATTATATTATTATGGATCGATACATTT-TCATAAAGTATCGATACTTTTTAGGCGCTA
66 ATTACCTGTTATATTGCTATGGATCGATACATTTGT-ATAAAGTATCGACACTTTTTAGGCGCTA
* *
1104487 TAATTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTATCG
130 TAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCG
*
1104540 ACACTTTCAATATATCCTGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATT
1 ACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATT
* * * *
1104605 ATTACCTGTTATATTGATATGGATTGATACATTTGTATAAAATATCGACACTTTTTAAGCGCTAT
66 ATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTAT
*
1104670 AACTTCTTCTCTTTTAAATATA-AAAAGTGTCGATAATTATATTAATTTATCG
131 AACTTCTTCTCTTTTAAAT-TACAAAAGTGTCGATACTTATATTAATTTATCG
1104722 ACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATT
1 ACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATT
* *
1104787 ATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAATATCGACACTTTTTAGGCGTTAT
66 ATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTAT
1104852 AACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCG
131 AACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCG
* ** *
1104904 GCACTTTCAATATATATGGTATCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATT
1 ACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATT
* * *
1104969 ATTACATGTTATAATGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGACGCTAT
66 ATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTAT
1105034 AACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCG
131 AACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCG
*
1105086 ACACTTTCAATATATCCGGTATCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATT
1 ACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATT
* * *
1105151 ATTACCTGTTATATTGATATGGATCGATACATTTGTATAAAGTATCGATACTTTTTAGGTGCTAT
66 ATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTAT
1105216 AACTTCTTCTCTTTTAAA-TATCAAAAGTGTCGATACTTATATTAATTTATCG
131 AACTTCTTCTCTTTTAAATTA-CAAAAGTGTCGATACTTATATTAATTTATCG
*
1105268 ACACTTTCAATATATCCGGTAGCTTTTTACCAG-TTTATCATTTCGAGACCTGTTTTGTCATATT
1 ACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATT
1105332 ATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTAT
66 ATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTAT
*
1105397 AACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTACTTTATCG
131 AACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCG
** ** * * *
1105449 ACACTTTCAATATATCTAGTAGCGGTTTACCGGTTTTATCATAAT-GACACCGGTTTTGTCATAT
1 ACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCAT-TTCGAGACCTGTTTTGTCATAT
*
1105513 TATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTATAGGCGCTA
65 TATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTA
1105578 TAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCG
130 TAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCG
* ** * * *
1105631 ACACTTTCAATATATCCAGTAGCGGTTTACCGGTTTTATCATAAT-GACACC-GATTTTATCATA
1 ACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCAT-TTCGAGACCTG-TTTTGTCATA
*
1105694 TT-TGTACTTGTTATATTGCTATGGATCGATACATTT
64 TTAT-TACCTGTTATATTGCTATGGATCGATACATTT
1105730 TTCATTTGTA
Statistics
Matches: 1117, Mismatches: 64, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
181 175 0.16
182 938 0.84
183 4 0.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
ACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACCTGTTTTGTCATATT
ATTACCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCTAT
AACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTATCG
Found at i:1106123 original size:27 final size:28
Alignment explanation
Indices: 1106093--1106195 Score: 118
Period size: 31 Copynumber: 3.5 Consensus size: 28
1106083 TAAAAAAACA
* *
1106093 TAAGATATAATCA-TTTTTTTATTTAAT
1 TAAGATGTGATCACTTTTTTTATTTAAT
*
1106120 TAAGATGTGGTCACTTTTGTTTTTATTTAAT
1 TAAGATGTGATCAC--TT-TTTTTATTTAAT
1106151 TAAGATGTGATCACTTTCGTTTTCATTTAAT
1 TAAGATGTGATCACTTT--TTTT-ATTTAAT
1106182 TAAGATGTGATCAC
1 TAAGATGTGATCAC
1106196 CCCGAGTTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
27 10 0.15
28 1 0.02
29 2 0.03
30 6 0.09
31 46 0.71
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.50
Consensus pattern (28 bp):
TAAGATGTGATCACTTTTTTTATTTAAT
Found at i:1106146 original size:31 final size:31
Alignment explanation
Indices: 1106108--1106195 Score: 149
Period size: 31 Copynumber: 2.8 Consensus size: 31
1106098 TATAATCATT
* *
1106108 TTTTTATTTAATTAAGATGTGGTCACTTTTG
1 TTTTTATTTAATTAAGATGTGATCACTTTCG
1106139 TTTTTATTTAATTAAGATGTGATCACTTTCG
1 TTTTTATTTAATTAAGATGTGATCACTTTCG
*
1106170 TTTTCATTTAATTAAGATGTGATCAC
1 TTTTTATTTAATTAAGATGTGATCAC
1106196 CCCGAGTTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (31 bp):
TTTTTATTTAATTAAGATGTGATCACTTTCG
Found at i:1110359 original size:3 final size:3
Alignment explanation
Indices: 1110351--1110378 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1110341 GAAGGAAGCA
1110351 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1110379 TTGGCGCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1112195 original size:35 final size:35
Alignment explanation
Indices: 1112146--1112219 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
1112136 CATAATCCTC
*
1112146 AATTTCATTATAAACCCCAAATTCCAAAATAATTT
1 AATTACATTATAAACCCCAAATTCCAAAATAATTT
* * * *
1112181 AATTACATTTTAAACCTCAAATTCTAAAATACTTT
1 AATTACATTATAAACCCCAAATTCCAAAATAATTT
1112216 AATT
1 AATT
1112220 TTGGGTTTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.38
Consensus pattern (35 bp):
AATTACATTATAAACCCCAAATTCCAAAATAATTT
Found at i:1112262 original size:35 final size:35
Alignment explanation
Indices: 1112216--1112290 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
1112206 AAAATACTTT
*
1112216 AATTTTGGGTTTAGAATATAATTAAAGTATTTTGG
1 AATTTGGGGTTTAGAATATAATTAAAGTATTTTGG
* * *
1112251 AATTTGGGGTTTAGAATGTAATTGAAGTGTTTTGG
1 AATTTGGGGTTTAGAATATAATTAAAGTATTTTGG
1112286 AATTT
1 AATTT
1112291 TAAACATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (35 bp):
AATTTGGGGTTTAGAATATAATTAAAGTATTTTGG
Found at i:1115375 original size:23 final size:23
Alignment explanation
Indices: 1115349--1115393 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1115339 AAAGTGCCAC
*
1115349 GTAAAAATGTCCCGAAGGACCAT
1 GTAAAAATGTCCCGAAGAACCAT
* *
1115372 GTAAAATTGTCCTGAAGAACCA
1 GTAAAAATGTCCCGAAGAACCA
1115394 CGTAGAACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (23 bp):
GTAAAAATGTCCCGAAGAACCAT
Found at i:1121322 original size:23 final size:23
Alignment explanation
Indices: 1121292--1121353 Score: 124
Period size: 23 Copynumber: 2.7 Consensus size: 23
1121282 CCCCCCATGA
1121292 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
1121315 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
1121338 GGGAACCGATTCCCCC
1 GGGAACCGATTCCCCC
1121354 CACATGGGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.19
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:1124202 original size:16 final size:16
Alignment explanation
Indices: 1124181--1124215 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1124171 TTTTATTAAT
1124181 TGTTTTCAACCTGACC
1 TGTTTTCAACCTGACC
*
1124197 TGTTTTTAACCTGACC
1 TGTTTTCAACCTGACC
1124213 TGT
1 TGT
1124216 AAATGATCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.26, G:0.14, T:0.43
Consensus pattern (16 bp):
TGTTTTCAACCTGACC
Found at i:1124499 original size:23 final size:23
Alignment explanation
Indices: 1124465--1124537 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
1124455 ATGTGAAGGA
*
1124465 AAATTAATATAGTTTAAATTATAT
1 AAATT-ATATAGTTTAATTTATAT
1124489 AAATTATATAGTTTAATTTATAT
1 AAATTATATAGTTTAATTTATAT
1124512 AAATTATATAGTTTAATTTATAT
1 AAATTATATAGTTTAATTTATAT
1124535 AAA
1 AAA
1124538 GAAAAAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 43 0.90
24 5 0.10
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
AAATTATATAGTTTAATTTATAT
Found at i:1124511 original size:14 final size:14
Alignment explanation
Indices: 1124492--1124535 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
1124482 ATTATATAAA
1124492 TTATATAGTTTAAT
1 TTATATAGTTTAAT
1124506 TTATATA----AA-
1 TTATATAGTTTAAT
1124515 TTATATAGTTTAAT
1 TTATATAGTTTAAT
1124529 TTATATA
1 TTATATA
1124536 AAGAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
9 7 0.28
10 2 0.08
13 2 0.08
14 14 0.56
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (14 bp):
TTATATAGTTTAAT
Found at i:1125130 original size:17 final size:17
Alignment explanation
Indices: 1125108--1125142 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1125098 GCAACAACAG
1125108 GAAGCAAGCAGCAGGAA
1 GAAGCAAGCAGCAGGAA
1125125 GAAGCAAGCAGCAGGAA
1 GAAGCAAGCAGCAGGAA
1125142 G
1 G
1125143 TAGGAAACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.37, T:0.00
Consensus pattern (17 bp):
GAAGCAAGCAGCAGGAA
Found at i:1125153 original size:17 final size:17
Alignment explanation
Indices: 1125108--1125154 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
1125098 GCAACAACAG
*
1125108 GAAGCAAGCAGCAGGAA
1 GAAGCAAACAGCAGGAA
*
1125125 GAAGCAAGCAGCAGGAA
1 GAAGCAAACAGCAGGAA
* *
1125142 GTAGGAAACAGCA
1 GAAGCAAACAGCA
1125155 AGCAACATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.47, C:0.17, G:0.34, T:0.02
Consensus pattern (17 bp):
GAAGCAAACAGCAGGAA
Found at i:1127860 original size:102 final size:99
Alignment explanation
Indices: 1127684--1127912 Score: 341
Period size: 102 Copynumber: 2.3 Consensus size: 99
1127674 AATAAACAAC
*
1127684 CAACAGTAGCAACAAATTAAACAGTTTATTTAAACTGTAAATAAAGACAACTAACAACCTTATAA
1 CAACAGTAGCAACAAATTAAACAGTTTATTTAAACTCTAAATAAAGACAACTAACAACCTTATAA
1127749 AAACAATCCGAATGAACAACCAACAACACAAACAAAT
66 AAACAATCCGAATGAA-AA--AACAACACAAACAAAT
* * * *
1127786 CAACAGTAGCAACAAATTGAACAGTTTATTTAAACTCTAAATAAAGGCATCTAACAACCTTATAG
1 CAACAGTAGCAACAAATTAAACAGTTTATTTAAACTCTAAATAAAGACAACTAACAACCTTATAA
** *
1127851 AAGTAATCCGAATGAAAAACCAACACAAACAAAT
66 AAACAATCCGAATGAAAAAACAACACAAACAAAT
* *
1127885 CAACAATAGCAACAAATTAAACATTTTA
1 CAACAGTAGCAACAAATTAAACAGTTTA
1127913 GTTACCTCTT
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
99 40 0.34
101 2 0.02
102 74 0.64
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.21
Consensus pattern (99 bp):
CAACAGTAGCAACAAATTAAACAGTTTATTTAAACTCTAAATAAAGACAACTAACAACCTTATAA
AAACAATCCGAATGAAAAAACAACACAAACAAAT
Found at i:1128123 original size:32 final size:33
Alignment explanation
Indices: 1128084--1128217 Score: 200
Period size: 33 Copynumber: 4.1 Consensus size: 33
1128074 TAAAACCCTT
*
1128084 GAAAAAAAGGATTCAAATATCAACCAAAAACAGA
1 GAAAAAAA-GATTCGAATATCAACCAAAAACAGA
* *
1128118 GAAAAAAATATTTGAATA-CAACCAAAAACAGA
1 GAAAAAAAGATTCGAATATCAACCAAAAACAGA
*
1128150 G-AAAAAATATTCGAATATCAACCAAAAACAGA
1 GAAAAAAAGATTCGAATATCAACCAAAAACAGA
*
1128182 GAAAAAATGATTCGAATATCAACCAAAAACAGA
1 GAAAAAAAGATTCGAATATCAACCAAAAACAGA
1128215 GAA
1 GAA
1128218 TTTGAGAGAA
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
31 15 0.16
32 30 0.33
33 39 0.42
34 8 0.09
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.14
Consensus pattern (33 bp):
GAAAAAAAGATTCGAATATCAACCAAAAACAGA
Found at i:1128123 original size:33 final size:32
Alignment explanation
Indices: 1128086--1128217 Score: 194
Period size: 32 Copynumber: 4.1 Consensus size: 32
1128076 AAACCCTTGA
*
1128086 AAAAAAGGATTCAAATATCAACCAAAAACAGAG
1 AAAAAA-GATTCGAATATCAACCAAAAACAGAG
* *
1128119 AAAAAAATATTTGAATA-CAACCAAAAACAGAG
1 -AAAAAAGATTCGAATATCAACCAAAAACAGAG
*
1128151 AAAAAATATTCGAATATCAACCAAAAACAGAG
1 AAAAAAGATTCGAATATCAACCAAAAACAGAG
1128183 AAAAAATGATTCGAATATCAACCAAAAACAGAG
1 AAAAAA-GATTCGAATATCAACCAAAAACAGAG
1128216 AA
1 AA
1128218 TTTGAGAGAA
Statistics
Matches: 91, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
31 15 0.16
32 36 0.40
33 34 0.37
34 6 0.07
ACGTcount: A:0.61, C:0.14, G:0.11, T:0.14
Consensus pattern (32 bp):
AAAAAAGATTCGAATATCAACCAAAAACAGAG
Found at i:1128267 original size:22 final size:22
Alignment explanation
Indices: 1128241--1128289 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
1128231 GAGAGTTAGT
1128241 GAGATCAAAATGATCA-AAATGA
1 GAGATCAAAATGA-CATAAATGA
*
1128263 GAGATCAAAATGAGATAAATGA
1 GAGATCAAAATGACATAAATGA
1128285 GAGAT
1 GAGAT
1128290 AGCCAGTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.53, C:0.06, G:0.22, T:0.18
Consensus pattern (22 bp):
GAGATCAAAATGACATAAATGA
Found at i:1128270 original size:13 final size:13
Alignment explanation
Indices: 1128252--1128277 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1128242 AGATCAAAAT
1128252 GATCAAAATGAGA
1 GATCAAAATGAGA
1128265 GATCAAAATGAGA
1 GATCAAAATGAGA
1128278 TAAATGAGAG
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:0.54, C:0.08, G:0.23, T:0.15
Consensus pattern (13 bp):
GATCAAAATGAGA
Found at i:1129420 original size:24 final size:21
Alignment explanation
Indices: 1129369--1129452 Score: 93
Period size: 22 Copynumber: 4.0 Consensus size: 21
1129359 TATAAGTTAC
1129369 ATATATAGTTTATATA-ACAT
1 ATATATAGTTTATATATACAT
*
1129389 ATAAATAGATTGTATATATACAT
1 ATATATAG-TT-TATATATACAT
*
1129412 ATACTATAGGTTATATAT--AT
1 ATA-TATAGTTTATATATACAT
*
1129432 ATATATAGTTTATACATACAT
1 ATATATAGTTTATATATACAT
1129453 GATACATGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
19 12 0.23
20 12 0.23
21 4 0.08
22 13 0.25
23 8 0.15
24 4 0.08
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (21 bp):
ATATATAGTTTATATATACAT
Found at i:1129494 original size:48 final size:48
Alignment explanation
Indices: 1129406--1129497 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
1129396 GATTGTATAT
* * * *
1129406 ATACATATACTATAGGTTATATATATATATATAGTTTATACATACATG
1 ATACATATACTATAAGTTACATATATATATACAGTGTATACATACATG
* *
1129454 ATACATGTACTATAAGTTACATATATAGTTTACA-TGTATACATA
1 ATACATATACTATAAGTTACATATATA-TATACAGTGTATACATA
1129498 TATTATAGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
48 33 0.89
49 4 0.11
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (48 bp):
ATACATATACTATAAGTTACATATATATATACAGTGTATACATACATG
Found at i:1129604 original size:28 final size:26
Alignment explanation
Indices: 1129536--1129630 Score: 75
Period size: 28 Copynumber: 3.4 Consensus size: 26
1129526 TATTCTTTAT
* *
1129536 GTTTAGGGTTTATGATTTATGATGTAAGG
1 GTTTAGGGTTTA-GATTTAAG-T-TTAGG
*
1129565 GTTAAGGG-TTAGGATTTAAAGTTTAGG
1 GTTTAGGGTTTA-GATTT-AAGTTTAGG
*
1129592 GTTTAGGGTTTAGATTATTAAGTTTTGG
1 GTTTAGGGTTTAGA-T-TTAAGTTTAGG
*
1129620 GTTTAGAGTTT
1 GTTTAGGGTTT
1129631 TTTATATAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
27 13 0.24
28 31 0.56
29 11 0.20
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (26 bp):
GTTTAGGGTTTAGATTTAAGTTTAGG
Found at i:1129766 original size:42 final size:41
Alignment explanation
Indices: 1129742--1129851 Score: 157
Period size: 42 Copynumber: 2.6 Consensus size: 41
1129732 TAGTTTATAC
* *
1129742 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
1 ATACATATACTATAAGTTACATATATA-TATACATTACATAT
* *
1129784 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
1 ATACATATACTATAAGTTACATATATA-TATACATTACATAT
*
1129826 ATACACATACTATAAGTTACATATAT
1 ATACATATACTATAAGTTACATATAT
1129852 TAACTATTGT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (41 bp):
ATACATATACTATAAGTTACATATATATATACATTACATAT
Found at i:1129779 original size:18 final size:18
Alignment explanation
Indices: 1129758--1129828 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1129748 ATACTATAAG
1129758 TTACATATATAGTTTACA
1 TTACATATATAGTTTACA
* * *
1129776 TTACATGTATACATATACTATAA
1 TTACATATATA-GT-T--TA-CA
1129799 GTTACATATATAGTTTACA
1 -TTACATATATAGTTTACA
*
1129818 TTACATGTATA
1 TTACATATATA
1129829 CACATACTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
18 20 0.50
19 2 0.05
20 3 0.08
22 3 0.08
23 2 0.05
24 10 0.25
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.42
Consensus pattern (18 bp):
TTACATATATAGTTTACA
Found at i:1129803 original size:24 final size:24
Alignment explanation
Indices: 1129776--1129847 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
1129766 ATAGTTTACA
1129776 TTACATGTATACATATACTATAAG
1 TTACATGTATACATATACTATAAG
* * *
1129800 TTACATATATA-GT-T--TA-CA-
1 TTACATGTATACATATACTATAAG
*
1129818 TTACATGTATACACATACTATAAG
1 TTACATGTATACATATACTATAAG
1129842 TTACAT
1 TTACAT
1129848 ATATTAACTA
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
18 10 0.29
19 1 0.03
20 3 0.09
22 3 0.09
23 2 0.06
24 16 0.46
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (24 bp):
TTACATGTATACATATACTATAAG
Found at i:1130146 original size:66 final size:59
Alignment explanation
Indices: 1130067--1130237 Score: 166
Period size: 62 Copynumber: 2.7 Consensus size: 59
1130057 TTTCTTTAAT
**
1130067 ATATATATATATATATATATATATATATATATATTCTATATATTACTTATATTAGTTATGCATAC
1 ATATATATATATATATATATATATATATATATAAACTATATATT--TTATA-TAGTT-T--ATAC
* *
1130132 ATATATATACTATAT-TAATATAAATTATAACATATAAACTATATATTTTATATAGTTTATAC
1 ATATATATA-TATATAT-ATATATA-TAT-ATATATAAACTATATATTTTATATAGTTTATAC
* *
1130194 ATATATAGTTTATATATATATATATATAGTATATTAA-TATATAT
1 ATATATA-TATATATATATATATATATA-TATATAAACTATATAT
1130238 ATATAGTATA
Statistics
Matches: 91, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
60 8 0.09
61 9 0.10
62 22 0.24
63 2 0.02
64 1 0.01
65 15 0.16
66 16 0.18
67 3 0.03
68 15 0.16
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (59 bp):
ATATATATATATATATATATATATATATATATAAACTATATATTTTATATAGTTTATAC
Found at i:1130200 original size:15 final size:15
Alignment explanation
Indices: 1130180--1130215 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
1130170 CTATATATTT
1130180 TATATAGTTTATACA
1 TATATAGTTTATACA
*
1130195 TATATAGTTTATATA
1 TATATAGTTTATACA
1130210 TATATA
1 TATATA
1130216 TATATAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:1130210 original size:13 final size:13
Alignment explanation
Indices: 1130180--1130497 Score: 129
Period size: 13 Copynumber: 23.5 Consensus size: 13
1130170 CTATATATTT
1130180 TATATAGTTTATACA
1 TATATAGTTTAT--A
1130195 TATATAGTTTATA
1 TATATAGTTTATA
*
1130208 TATATA-TATATA
1 TATATAGTTTATA
*
1130220 TAGTATA-TTAATA
1 TA-TATAGTTTATA
*
1130233 TATATA-TATAGTA
1 TATATAGTTTA-TA
* *
1130246 TAT-TAATATATA
1 TATATAGTTTATA
*
1130258 TA-ATATTTTATAAA
1 TATATAGTTTAT--A
1130272 CTATATA-TTT-T-
1 -TATATAGTTTATA
*
1130283 T-TGTAGTTTATACA
1 TATATAGTTTAT--A
1130297 TATATAGTTTATA
1 TATATAGTTTATA
*
1130310 TACATAGTTTATA
1 TATATAGTTTATA
*
1130323 TATATAGTTCACATA
1 TATATAGTT--TATA
* * *
1130338 AACATAATTTATA
1 TATATAGTTTATA
1130351 TATATAGCTTATAATAA
1 TATATAG-TT-T-AT-A
1130368 TTATATAGTTTATA
1 -TATATAGTTTATA
**
1130382 -ATATA-AATATA
1 TATATAGTTTATA
* *
1130393 GTTTATAATTTTATA
1 -TATAT-AGTTTATA
*
1130408 TACATAGTTTATA
1 TATATAGTTTATA
** *
1130421 TATATAGTGCACA
1 TATATAGTTTATA
*
1130434 TAATATAATTTATA
1 T-ATATAGTTTATA
1130448 TATATAGTTTATAATAA
1 TATATAG-TT-T-AT-A
1130465 TTATATAGTTTATA
1 -TATATAGTTTATA
*
1130479 TATA-ATTTTATA
1 TATATAGTTTATA
1130491 TTATATA
1 -TATATA
1130498 TATTATATTT
Statistics
Matches: 233, Mismatches: 37, Indels: 67
0.69 0.11 0.20
Matches are distributed among these distances:
9 3 0.01
10 4 0.02
11 5 0.02
12 37 0.16
13 87 0.37
14 23 0.10
15 45 0.19
16 9 0.04
17 6 0.03
18 14 0.06
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:1130249 original size:102 final size:102
Alignment explanation
Indices: 1130132--1130328 Score: 288
Period size: 102 Copynumber: 1.9 Consensus size: 102
1130122 TTATGCATAC
*
1130132 ATATATATACTATATTAATATAAATTATAACATATAAACTATATATTTTATATAGTTTATACATA
1 ATATATATACTATATTAATATAAATAATAACATATAAACTATATATTTTATATAGTTTATACATA
*
1130197 TATAGTTTATATATATA-TATATATAGTATATTAATAT
66 TATAGTTTATATACATAGTATATATA-TATATTAATAT
* * *** * *
1130234 ATATATATAGTATATTAATATATATAATATTTTATAAACTATATATTTTTTGTAGTTTATACATA
1 ATATATATACTATATTAATATAAATAATAACATATAAACTATATATTTTATATAGTTTATACATA
*
1130299 TATAGTTTATATACATAGTTTATATATATA
66 TATAGTTTATATACATAGTATATATATATA
1130329 GTTCACATAA
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 77 0.92
103 7 0.08
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (102 bp):
ATATATATACTATATTAATATAAATAATAACATATAAACTATATATTTTATATAGTTTATACATA
TATAGTTTATATACATAGTATATATATATATTAATAT
Found at i:1130278 original size:2 final size:2
Alignment explanation
Indices: 1130065--1130263 Score: 122
Period size: 2 Copynumber: 103.0 Consensus size: 2
1130055 TATTTCTTTA
*
1130065 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T CT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
** *
1130106 AT AT -T ACT -T AT AT -T AGT -T AT GC AT AC AT AT AT AT ACT AT
1 AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT
* * * *
1130145 AT -T A- AT AT AA AT -T AT A- AC AT AT AA ACT AT AT AT -T TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * *
1130183 AT AGT TT AT AC AT AT AT AGT TT AT AT AT AT AT AT AT AT AGT AT
1 AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT
1130226 AT -T A- AT AT AT AT AT AT AGT AT AT -T A- AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
1130264 TTTATAAACT
Statistics
Matches: 155, Mismatches: 19, Indels: 46
0.70 0.09 0.21
Matches are distributed among these distances:
1 15 0.10
2 129 0.83
3 11 0.07
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1130364 original size:26 final size:25
Alignment explanation
Indices: 1130296--1130461 Score: 87
Period size: 28 Copynumber: 6.6 Consensus size: 25
1130286 TAGTTTATAC
* *
1130296 ATATATAGTTTATATACATAGTTTAT
1 ATATATAG-TTATAAACATAATTTAT
1130322 ATATATAGTTCACATAAACATAATTTAT
1 ATATATAGTT---ATAAACATAATTTAT
1130350 ATATATAGCTTAT--A-ATAATTATAT
1 ATATATAG-TTATAAACATAATT-TAT
* * * *
1130374 AGTTTATA-ATATAAATATAGTTTAT
1 A-TATATAGTTATAAACATAATTTAT
* *
1130399 A-AT-T--TTATATACATAGTTTAT
1 ATATATAGTTATAAACATAATTTAT
* * *
1130420 ATATATAGTGCACATAATATAATTTAT
1 ATATATAGT-TATA-AACATAATTTAT
1130447 ATATATAGTTTATAA
1 ATATATAG-TTATAA
1130462 TAATTATATA
Statistics
Matches: 108, Mismatches: 16, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
21 15 0.14
22 3 0.03
23 11 0.10
24 5 0.05
25 13 0.12
26 18 0.17
27 19 0.18
28 22 0.20
29 2 0.02
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (25 bp):
ATATATAGTTATAAACATAATTTAT
Found at i:1130391 original size:18 final size:18
Alignment explanation
Indices: 1130347--1130482 Score: 93
Period size: 18 Copynumber: 7.2 Consensus size: 18
1130337 AAACATAATT
*
1130347 TATATATATAGCTTATAA
1 TATATATATAGTTTATAA
1130365 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
1130383 TATAAATATAGTTTATAA
1 TATATATATAGTTTATAA
*
1130401 TTTTATATACATAGTTTAT-A
1 ---TATATATATAGTTTATAA
* *
1130421 TATATAGTGCACA-TAATATAA
1 TATATA-T--ATAGT-TTATAA
1130442 TTTATATATATAGTTTATAA
1 --TATATATATAGTTTATAA
1130462 TA-ATTATATAGTTTAT-A
1 TATA-TATATAGTTTATAA
1130479 TATA
1 TATA
1130483 ATTTTATATT
Statistics
Matches: 94, Mismatches: 9, Indels: 30
0.71 0.07 0.23
Matches are distributed among these distances:
17 11 0.12
18 45 0.48
19 2 0.02
20 13 0.14
21 16 0.17
22 1 0.01
23 6 0.06
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (18 bp):
TATATATATAGTTTATAA
Found at i:1130472 original size:97 final size:97
Alignment explanation
Indices: 1130304--1130483 Score: 317
Period size: 97 Copynumber: 1.9 Consensus size: 97
1130294 ACATATATAG
*
1130304 TTTATATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCTTATAATAAT
1 TTTATATACATAGTTTATATATATAGTGCACATAAACATAATTTATATATATAGCTTATAATAAT
1130369 TATATAGTTTATAATATAAATATAGTTTATAAT
66 TATATAGTTTAT-ATATAAATATAGTTTATAAT
* *
1130402 TTTATATACATAGTTTATATATATAGTGCACAT-AATATAATTTATATATATAGTTTATAATAAT
1 TTTATATACATAGTTTATATATATAGTGCACATAAACATAATTTATATATATAGCTTATAATAAT
1130466 TATATAGTTTATATATAA
66 TATATAGTTTATATATAA
1130484 TTTTATATTA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
96 6 0.08
97 41 0.52
98 32 0.41
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (97 bp):
TTTATATACATAGTTTATATATATAGTGCACATAAACATAATTTATATATATAGCTTATAATAAT
TATATAGTTTATATATAAATATAGTTTATAAT
Found at i:1130496 original size:17 final size:18
Alignment explanation
Indices: 1130448--1130505 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 18
1130438 ATAATTTATA
1130448 TATATAGTT-TATAATAAT
1 TATATAGTTATAT-ATAAT
1130466 TATATAGTTTATATATAAT
1 TATATAG-TTATATATAAT
*
1130485 TTTATA-TTATATAT-AT
1 TATATAGTTATATATAAT
1130501 TATAT
1 TATAT
1130506 TTTTTTTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 6 0.17
17 8 0.22
18 7 0.19
19 12 0.33
20 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TATATAGTTATATATAAT
Found at i:1130504 original size:97 final size:99
Alignment explanation
Indices: 1130296--1130505 Score: 311
Period size: 97 Copynumber: 2.1 Consensus size: 99
1130286 TAGTTTATAC
*
1130296 ATATATAGTTTATATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCTT
1 ATATATA--TTATATACATAGTTTATATATATAGTGCACATAAACATAATTTATATATATAGCTT
1130361 ATAATAATTATATAGTTTATAATATAAATATAGTTT
64 ATAATAATTATATAGTTTATAATATAAATATAGTTT
* * *
1130397 ATA-ATTTTATATACATAGTTTATATATATAGTGCACAT-AATATAATTTATATATATAGTTTAT
1 ATATATATTATATACATAGTTTATATATATAGTGCACATAAACATAATTTATATATATAGCTTAT
* *
1130460 AATAATTATATAGTTTAT-ATATAATTTTA-TATT
66 AATAATTATATAGTTTATAATATAAATATAGT-TT
1130493 ATATATATTATAT
1 ATATATATTATAT
1130506 TTTTTTTCAT
Statistics
Matches: 100, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
95 1 0.01
96 14 0.14
97 49 0.49
98 31 0.31
100 2 0.02
101 3 0.03
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (99 bp):
ATATATATTATATACATAGTTTATATATATAGTGCACATAAACATAATTTATATATATAGCTTAT
AATAATTATATAGTTTATAATATAAATATAGTTT
Found at i:1146265 original size:24 final size:24
Alignment explanation
Indices: 1146233--1146278 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
1146223 TATTCCATAT
1146233 GATGTATAAAACATCTATGTACAC
1 GATGTATAAAACATCTATGTACAC
1146257 GATGTATAAAACATCTATGTAC
1 GATGTATAAAACATCTATGTAC
1146279 CATGTCATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (24 bp):
GATGTATAAAACATCTATGTACAC
Found at i:1152745 original size:23 final size:23
Alignment explanation
Indices: 1152681--1152747 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
1152671 TTATAAATAA
*
1152681 TGATGAACAGT-GCCGTGAACAG
1 TGATGAACAGTACCCGTGAACAG
* * *
1152703 TGATGAACAATACTCATGAACAG
1 TGATGAACAGTACCCGTGAACAG
1152726 TGATGAACAGTACCCGTGAACA
1 TGATGAACAGTACCCGTGAACA
1152748 ATGACTGTAC
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 10 0.27
23 27 0.73
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.19
Consensus pattern (23 bp):
TGATGAACAGTACCCGTGAACAG
Found at i:1153611 original size:24 final size:24
Alignment explanation
Indices: 1153579--1153624 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1153569 TAATCCATAT
*
1153579 GATGTATAAAGCATCTATGTACAC
1 GATGTATAAAACATCTATGTACAC
1153603 GATGTATAAAACATCTATGTAC
1 GATGTATAAAACATCTATGTAC
1153625 CATGTCATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (24 bp):
GATGTATAAAACATCTATGTACAC
Found at i:1157934 original size:3 final size:3
Alignment explanation
Indices: 1157926--1157974 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
1157916 ATTCAATTAG
1157926 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
1157972 ATT
1 ATT
1157975 TGGTTTGAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1168330 original size:3 final size:3
Alignment explanation
Indices: 1168322--1168383 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
1168312 AAATGATTGT
1168322 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1168370 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
1168384 TTCTCCTAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1182851 original size:32 final size:32
Alignment explanation
Indices: 1182810--1182870 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
1182800 CACCAAATTT
* *
1182810 TGTCCTTTAATGTTGTTGCATTATATAATATA
1 TGTCCTTTAATGTCGTTACATTATATAATATA
1182842 TGTCCTTTAATGTCGTTACATTATATAAT
1 TGTCCTTTAATGTCGTTACATTATATAAT
1182871 GTATTTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.49
Consensus pattern (32 bp):
TGTCCTTTAATGTCGTTACATTATATAATATA
Found at i:1183947 original size:18 final size:21
Alignment explanation
Indices: 1183919--1183964 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
1183909 ATTTAATCCT
1183919 TTTTCTTATTAT-T-TATATA
1 TTTTCTTATTATATATATATA
1183938 TTTT-TTATTATATATATATA
1 TTTTCTTATTATATATATATA
1183958 TTTTCTT
1 TTTTCTT
1183965 TCTTTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.29
19 5 0.21
20 10 0.42
21 2 0.08
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTTATTATATATATATA
Found at i:1184225 original size:2 final size:2
Alignment explanation
Indices: 1184218--1184242 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1184208 CTTTACTTAC
1184218 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1184243 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1194648 original size:15 final size:14
Alignment explanation
Indices: 1194623--1194660 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
1194613 GTCCTAAGTT
*
1194623 GAAAAAAAAAACAA
1 GAAAAAAAAAAAAA
1194637 GAAAACAAAAAAAAA
1 GAAAA-AAAAAAAAA
1194652 GAAAAAAAA
1 GAAAAAAAA
1194661 GAGAAAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAAAAA
Found at i:1194659 original size:18 final size:18
Alignment explanation
Indices: 1194625--1194659 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1194615 CCTAAGTTGA
*
1194625 AAAAAAAAACAAGAAAAC
1 AAAAAAAAACAAAAAAAC
*
1194643 AAAAAAAAAGAAAAAAA
1 AAAAAAAAACAAAAAAA
1194660 AGAGAAAAAC
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:0.89, C:0.06, G:0.06, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACAAAAAAAC
Found at i:1194720 original size:81 final size:83
Alignment explanation
Indices: 1194591--1194750 Score: 220
Period size: 82 Copynumber: 2.0 Consensus size: 83
1194581 AATACTTCGC
* * *
1194591 TTAGGATGAAAACCGAGAGGGCGTCCTAAGTTGAAAAAAAAAACAAGAAAACA-AAAAAAAAGAA
1 TTAGGATGAAAACCGAAAGGGCGCCCTAAATTGAAAAAAAAAACAAGAAAA-AGAAAAAAAAGAA
1194655 -AAAA-AAGAGAAAAACGT
65 CAAAAGAAGAGAAAAACGT
* * *
1194672 TTAGGGTGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAGAAA-AAGAAAAAGGAAAAAAAGAA
1 TTAGGATGAAAA-CCGAAAGGGCGCCCTAAATTGAAAAAAAAAACAAGAAAAAGAAAAAAAAGAA
1194736 CAAAAGAAGAGAAAA
65 CAAAAGAAGAGAAAA
1194751 TAAGGGGGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
80 1 0.01
81 28 0.41
82 31 0.45
83 9 0.13
ACGTcount: A:0.60, C:0.10, G:0.21, T:0.09
Consensus pattern (83 bp):
TTAGGATGAAAACCGAAAGGGCGCCCTAAATTGAAAAAAAAAACAAGAAAAAGAAAAAAAAGAAC
AAAAGAAGAGAAAAACGT
Found at i:1195681 original size:105 final size:105
Alignment explanation
Indices: 1195499--1195958 Score: 859
Period size: 105 Copynumber: 4.4 Consensus size: 105
1195489 AGGTTTTACC
* *
1195499 CAGAGTCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1195564 ACGAAGGGACCGCTGGTTGTCAACAAACATTTATCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
1195604 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1195669 ATGAAGGGACCGCTGGTTGTCAACAAACATTTCTCCAA-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTT
1195709 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1195774 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
1195814 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1195879 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
1195919 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1195959 GGAACAATAC
Statistics
Matches: 346, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
104 3 0.01
105 340 0.98
106 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:1196460 original size:32 final size:32
Alignment explanation
Indices: 1196419--1196479 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
1196409 CACCAAATTT
* *
1196419 TGTCCTTTAATGTTGTTGCATTATATAATATA
1 TGTCCTTTAATGTCGTTACATTATATAATATA
1196451 TGTCCTTTAATGTCGTTACATTATATAAT
1 TGTCCTTTAATGTCGTTACATTATATAAT
1196480 GTATTTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.49
Consensus pattern (32 bp):
TGTCCTTTAATGTCGTTACATTATATAATATA
Found at i:1197579 original size:2 final size:2
Alignment explanation
Indices: 1197574--1197616 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1197564 ATTTTTTCTT
1197574 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1197616 T
1 T
1197617 TTCCATATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1198687 original size:32 final size:32
Alignment explanation
Indices: 1198648--1198708 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
1198638 ATGTAAATAC
* *
1198648 ATTATATAATGTAACGACATTAAAGGACATAT
1 ATTATATAATGCAACAACATTAAAGGACATAT
1198680 ATTATATAATGCAACAACATTAAAGGACA
1 ATTATATAATGCAACAACATTAAAGGACA
1198709 AAATTTGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (32 bp):
ATTATATAATGCAACAACATTAAAGGACATAT
Found at i:1207296 original size:51 final size:50
Alignment explanation
Indices: 1207240--1207344 Score: 131
Period size: 51 Copynumber: 2.1 Consensus size: 50
1207230 GAACTTGTTG
* *
1207240 AAAAGGAAAAGGATAAATGA-AAAGGGACACCGAAGATGGAAAAAAAGAAAC
1 AAAAGGAAAAGGAGAAAGGAGAAA-GGACACCGAAGA-GGAAAAAAAGAAAC
* * * *
1207291 AAAAGGAAGAGGGGAAAGGAGAAAGGACATCGAAGAGGAAAAAAAGAAAG
1 AAAAGGAAAAGGAGAAAGGAGAAAGGACACCGAAGAGGAAAAAAAGAAAC
1207341 AAAA
1 AAAA
1207345 TGAGGAGGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 17 0.36
51 27 0.57
52 3 0.06
ACGTcount: A:0.61, C:0.06, G:0.30, T:0.04
Consensus pattern (50 bp):
AAAAGGAAAAGGAGAAAGGAGAAAGGACACCGAAGAGGAAAAAAAGAAAC
Found at i:1209669 original size:2 final size:2
Alignment explanation
Indices: 1209662--1209718 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1209652 TCAATCTACA
1209662 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1209704 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1209719 ATTTATGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1209879 original size:85 final size:85
Alignment explanation
Indices: 1209775--1209954 Score: 247
Period size: 85 Copynumber: 2.1 Consensus size: 85
1209765 AATGACACGT
* *
1209775 GCTTCAATGACACGCAATGTAAGTTATACATGCGTG-TCATAAATTTATGACACACAAATGTATG
1 GCTTCAATGACACGCAATGTAAGTCATACATGCGTGCT-ATAAATTTATGACAAACAAATGTATG
*
1209839 TCAAGCAT-ATTTATGATGGGG
65 TC-AGCATAATTTATGACGGGG
* * *
1209860 GCTTCAATGACGCTCAATGTAAGTCATACATGCGTGCTATAAATTTATGACAAACAAATGTGTGT
1 GCTTCAATGACACGCAATGTAAGTCATACATGCGTGCTATAAATTTATGACAAACAAATGTATGT
* *
1209925 CATCTTAATTTATGACGGGG
66 CAGCATAATTTATGACGGGG
*
1209945 ACTTCAATGA
1 GCTTCAATGA
1209955 ATCTCATTGA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
84 3 0.04
85 80 0.95
86 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Consensus pattern (85 bp):
GCTTCAATGACACGCAATGTAAGTCATACATGCGTGCTATAAATTTATGACAAACAAATGTATGT
CAGCATAATTTATGACGGGG
Found at i:1209971 original size:85 final size:85
Alignment explanation
Indices: 1209776--1209988 Score: 236
Period size: 85 Copynumber: 2.5 Consensus size: 85
1209766 ATGACACGTG
* * *
1209776 CTTCAATGACA-CGCAATGTAAGTTATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
1 CTTCAATGA-AGCTCAATGTAAGTCATACATGCGTGTCATAAATTTATGACAAACAAATGTATGT
* *
1209840 CAAGCATATTTATGATGGGGG
65 CAAGCATATTTATGACGGGGA
* *
1209861 CTTCAATGACGCTCAATGTAAGTCATACATGCGTG-CTATAAATTTATGACAAACAAATGTGTGT
1 CTTCAATGAAGCTCAATGTAAGTCATACATGCGTGTC-ATAAATTTATGACAAACAAATGTATGT
* *
1209925 C-ATCTTAATTTATGACGGGGA
65 CAAGCAT-ATTTATGACGGGGA
* * * * *
1209946 CTTCAATGAATCTCATTG-AACGTCATAAATGTGCGTCATAAAT
1 CTTCAATGAAGCTCAATGTAA-GTCATACATGCGTGTCATAAAT
1209989 GCGTGTCATA
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
84 6 0.06
85 101 0.94
86 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (85 bp):
CTTCAATGAAGCTCAATGTAAGTCATACATGCGTGTCATAAATTTATGACAAACAAATGTATGTC
AAGCATATTTATGACGGGGA
Found at i:1209984 original size:13 final size:13
Alignment explanation
Indices: 1209966--1210024 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
1209956 TCTCATTGAA
*
1209966 CGTCATAAATGTG
1 CGTCATAAATGAG
*
1209979 CGTCATAAATGCG
1 CGTCATAAATGAG
*
1209992 TGTCATAAATGAG
1 CGTCATAAATGAG
*
1210005 TGTCATAAATGCA-
1 CGTCATAAATG-AG
1210018 CGTCATA
1 CGTCATA
1210025 GATTTATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
13 40 0.98
14 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (13 bp):
CGTCATAAATGAG
Found at i:1210022 original size:26 final size:26
Alignment explanation
Indices: 1209965--1210024 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
1209955 ATCTCATTGA
*
1209965 ACGTCATAAATGTGCGTCATAAATGC
1 ACGTCATAAATGAGCGTCATAAATGC
** *
1209991 GTGTCATAAATGAGTGTCATAAATGC
1 ACGTCATAAATGAGCGTCATAAATGC
1210017 ACGTCATA
1 ACGTCATA
1210025 GATTTATGAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (26 bp):
ACGTCATAAATGAGCGTCATAAATGC
Found at i:1216373 original size:32 final size:32
Alignment explanation
Indices: 1216333--1216416 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
1216323 GCATGGTAGT
* * *
1216333 GTTAGTGTTGCATTCAAATAATGTACATCAGA
1 GTTAGTGTTGCATTCAAATAATGTAAAACAAA
* * *
1216365 GTTGGTGTTGCATTCAGATTATGTAAAACAAA
1 GTTAGTGTTGCATTCAAATAATGTAAAACAAA
1216397 GTTAGTGTTGCATTCAAATA
1 GTTAGTGTTGCATTCAAATA
1216417 GTGCATAGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (32 bp):
GTTAGTGTTGCATTCAAATAATGTAAAACAAA
Done.