genome.fa.s686.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01000686.1 Hibiscus syriacus cultivar Beakdansim tig00001340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1443669

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 696 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493493--493554	23	2.9	21	85	7	81	20	35	25	17	1.95
499028--499096	34	2.0	34	100	0	138	50	8	8	31	1.64
499211--499424	79	2.7	79	91	0	347	37	10	22	28	1.88
503188--503395	110	1.9	110	86	1	299	30	13	20	35	1.92
507308--507383	21	3.6	21	80	3	82	28	23	7	39	1.83
507491--507523	15	2.2	15	89	10	50	18	27	0	54	1.44
508935--508963	2	14.5	2	100	0	58	51	0	0	48	1.00
509105--509183	36	2.2	36	81	0	86	54	15	17	12	1.71
512046--512243	95	2.1	96	84	4	258	35	14	22	28	1.93
512209--512262	22	2.5	22	90	0	81	40	11	16	31	1.84
512280--512732	46	9.8	46	91	0	717	41	13	22	22	1.88
517090--517141	2	26.0	2	92	0	86	48	1	1	48	1.24
518893--519226	156	2.1	158	90	3	523	36	11	25	27	1.90
518868--519240	79	4.8	79	88	4	512	36	10	24	28	1.88
519223--519442	45	4.9	45	85	0	269	41	10	18	29	1.84
523009--523610	301	2.0	300	97	0	1143	31	14	23	29	1.95
524877--524969	9	9.7	9	73	13	78	16	24	29	30	1.96
524876--524950	29	2.5	31	89	8	120	17	25	28	29	1.97
524877--524969	29	3.2	28	86	6	114	16	24	29	30	1.96
524876--524970	19	4.9	19	79	13	86	16	25	28	29	1.97
524974--525025	20	2.6	21	82	11	74	21	46	23	9	1.80
532021--532118	9	10.3	9	71	14	72	15	26	27	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532020--532058	21	1.9	21	94	5	71	15	25	25	33	1.95
532021--532118	28	3.4	29	83	7	119	15	26	27	30	1.96
532115--532167	5	9.8	5	76	15	52	18	50	22	7	1.72
532114--532174	17	3.3	17	79	20	77	18	47	22	11	1.80
532115--532181	22	3.0	22	93	4	107	17	46	23	11	1.82
532164--532194	7	4.4	7	100	0	62	16	29	29	25	1.96
533046--533167	62	2.0	62	82	9	151	17	27	28	26	1.97
535001--535063	21	3.0	20	80	19	74	31	15	26	25	1.96
535639--535801	79	2.1	79	87	2	229	38	10	26	25	1.88
535763--535981	45	4.9	45	86	0	303	40	10	20	28	1.86
541336--541389	21	2.6	21	96	0	99	22	20	31	25	1.98
541412--541461	21	2.4	21	86	3	66	36	28	14	22	1.92
545365--545421	24	2.2	26	78	15	73	45	5	5	43	1.49
545375--545421	24	2.0	24	95	0	85	40	4	6	48	1.48
547762--547920	40	4.0	40	95	0	273	23	15	27	32	1.95
548069--548137	22	3.1	22	64	32	56	40	8	21	28	1.83
548024--548188	45	3.7	45	90	4	244	38	9	21	30	1.85
552410--552751	54	6.3	53	83	3	389	24	15	21	38	1.92
558768--558813	20	2.4	19	85	3	56	41	15	4	39	1.67
559948--559995	19	2.5	19	79	0	51	50	14	2	33	1.55
561794--561833	21	1.9	21	84	0	53	22	22	15	40	1.91
568998--569042	22	2.1	21	83	4	54	33	2	13	51	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583784--583821	20	1.9	20	100	0	76	39	21	10	28	1.86
590137--590347	95	2.2	95	81	3	237	35	16	22	26	1.95
590645--592050	59	23.9	59	89	1	2016	33	14	20	32	1.92
592388--592701	81	3.9	81	88	0	414	37	11	21	28	1.89
592803--592833	2	15.5	2	100	0	62	51	0	0	48	1.00
595192--595230	2	19.0	2	94	5	69	48	2	0	48	1.15
595558--596571	59	17.2	59	87	1	1438	34	14	19	31	1.92
596536--596608	37	2.0	37	91	0	119	30	21	17	30	1.97
596481--596669	98	1.9	96	88	2	279	33	17	18	30	1.94
596418--596728	157	2.0	155	87	2	453	33	16	18	31	1.93
596573--597712	59	19.3	59	86	1	1566	33	14	19	31	1.92
606897--606938	20	2.1	20	86	0	57	35	9	16	38	1.81
608677--609215	59	9.1	59	88	0	747	34	14	20	30	1.93
608667--610756	177	11.6	177	75	9	1696	33	15	19	31	1.93
609180--609252	37	2.0	37	91	0	119	30	21	17	30	1.97
609125--609312	97	1.9	96	90	1	295	32	17	18	30	1.94
609062--609369	156	2.0	155	90	0	490	32	16	19	31	1.94
609217--610756	59	26.2	59	87	1	2088	33	15	19	31	1.93
612131--612336	95	2.2	95	79	2	207	30	14	26	29	1.95
612714--612801	27	3.2	27	63	24	67	36	21	15	26	1.94
612768--612966	28	7.2	28	63	21	89	36	20	15	27	1.92
612906--612993	27	3.2	27	66	20	74	36	17	17	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612675--613043	55	6.7	55	90	2	555	35	18	16	28	1.93
617655--617819	73	2.2	74	80	1	188	32	17	20	29	1.96
618187--618511	55	5.9	55	86	0	436	32	18	19	29	1.96
635550--635584	9	4.0	9	88	7	54	74	0	2	22	0.95
635552--635584	17	1.9	17	93	0	57	75	0	3	21	0.93
636734--636774	16	2.6	16	96	0	73	36	26	19	17	1.94
638626--638696	18	4.2	16	75	15	63	39	12	9	38	1.77
644190--644257	17	3.9	17	82	7	75	38	10	11	39	1.76
645498--645547	22	2.3	22	100	0	100	34	26	0	40	1.56
646224--647249	246	4.3	245	79	9	1065	21	22	19	36	1.95
646613--647028	222	1.9	222	88	3	640	20	22	19	37	1.95
646367--647249	468	1.9	468	84	3	1195	22	22	18	37	1.95
658288--658329	2	21.0	2	100	0	84	50	0	0	50	1.00
664997--665035	20	2.0	20	89	0	60	33	23	10	33	1.88
672875--672939	23	2.8	23	83	0	85	20	26	23	30	1.98
676330--676380	19	2.8	18	80	14	68	29	19	31	19	1.97
677561--677610	4	12.5	4	95	0	64	58	0	0	42	0.98
678042--678109	23	3.0	23	80	0	82	19	25	25	30	1.98
682806--682835	12	2.5	12	100	0	60	16	36	6	40	1.75
684376--684495	30	4.1	30	89	2	181	25	25	15	34	1.94
684392--684507	60	1.9	59	83	3	142	27	25	14	32	1.95
690521--690554	8	4.2	8	96	0	50	0	17	0	82	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
690525--690584	16	3.9	16	73	6	61	3	16	1	78	0.97
690854--690893	21	1.9	21	85	10	55	62	0	17	20	1.33
690916--690956	22	1.9	21	90	5	64	26	0	36	36	1.57
694789--694833	22	2.2	20	88	8	63	35	33	2	28	1.70
699344--699877	264	2.0	264	93	0	915	28	25	8	38	1.84
701295--701335	22	1.9	21	90	5	64	34	36	2	26	1.70
701397--701430	18	1.9	17	88	5	50	26	17	0	55	1.42
701653--701707	26	2.0	27	83	13	69	69	5	16	9	1.34
704617--704664	23	2.1	23	100	0	96	16	8	14	60	1.57
710693--710742	18	2.8	17	87	6	64	6	16	6	72	1.25
712528--712568	22	1.9	21	90	5	64	34	36	2	26	1.70
712879--712947	28	2.6	27	80	10	81	71	4	17	7	1.26
717019--717059	22	1.9	21	90	5	64	34	36	2	26	1.70
718657--718697	22	1.9	21	90	5	64	34	36	2	26	1.70
720297--720338	22	2.0	21	90	4	66	38	35	2	23	1.68
720650--720716	18	3.8	18	72	20	61	76	4	14	4	1.11
720689--720713	13	1.9	13	100	0	50	80	0	16	4	0.87
720669--720726	17	3.4	17	75	13	57	75	1	13	8	1.10
725441--725480	21	1.9	21	94	0	71	35	35	2	27	1.71
726206--726251	24	1.9	24	86	0	65	34	13	30	21	1.91
727142--727182	22	1.9	21	90	5	64	26	2	36	34	1.70
728316--728368	27	2.0	27	88	0	79	47	3	11	37	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
730728--730775	23	2.0	24	96	4	89	20	35	20	22	1.96
734055--734086	2	16.0	2	100	0	64	50	0	0	50	1.00
734265--734318	26	2.1	26	82	0	63	37	12	18	31	1.89
734730--734754	2	12.5	2	100	0	50	48	0	0	52	1.00
737350--737383	13	2.6	13	95	0	59	29	14	32	23	1.94
738863--738905	20	2.2	20	100	0	86	41	13	18	25	1.88
741241--741284	23	1.9	23	81	9	54	22	2	11	63	1.38
748582--748653	32	2.2	32	100	0	144	30	25	19	25	1.98
750980--751024	15	2.9	15	77	6	54	82	2	4	11	0.91
750980--751024	8	5.8	8	81	5	56	82	2	4	11	0.91

Tables:   1   2   3   4   5   6