genome.fa.s9610.2.7.7.80.10.50.1000.3.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: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3811333

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  3  of  18  ( 2160 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)
501134--501186	15	3.8	14	80	14	56	56	0	11	32	1.35
501134--501186	27	1.9	28	85	11	74	56	0	11	32	1.35
501246--501295	26	1.9	26	83	0	64	62	4	2	32	1.25
502912--503487	106	5.4	106	87	5	813	21	18	26	33	1.96
504981--505025	21	2.1	21	87	0	63	31	28	24	15	1.96
517960--518002	19	2.3	18	80	11	50	74	0	16	9	1.06
518321--518360	15	2.7	15	96	3	73	57	0	10	32	1.32
518323--518375	15	3.8	14	80	14	56	56	0	11	32	1.35
518323--518375	27	1.9	28	85	11	74	56	0	11	32	1.35
518437--518486	26	1.9	26	83	0	64	62	4	2	32	1.25
520385--520456	32	2.2	32	92	0	117	33	23	11	31	1.90
523199--523238	13	3.1	13	88	0	53	72	0	22	5	1.04
530547--530577	15	2.1	15	100	0	62	29	12	12	45	1.80
532457--532509	26	2.0	28	85	7	74	39	3	3	52	1.37
536509--536542	18	1.9	18	88	5	52	23	14	2	58	1.50
542617--542650	16	2.2	16	89	5	52	35	0	0	64	0.94
542621--542702	37	2.2	37	86	0	119	47	1	3	47	1.27
544694--544786	21	4.6	20	79	4	105	39	18	23	18	1.92
544691--544786	41	2.3	41	96	0	174	40	17	22	18	1.91
544713--544847	41	3.3	41	81	6	123	38	20	20	20	1.94
544775--544869	20	4.7	20	80	2	91	34	24	17	23	1.96
545057--545100	22	2.0	22	95	0	79	20	45	15	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545363--545400	20	1.9	20	88	0	58	13	15	21	50	1.78
546720--546764	18	2.5	18	85	0	63	26	42	15	15	1.87
547236--547302	20	3.4	20	81	2	73	38	23	22	14	1.92
547291--547348	14	3.9	14	79	16	71	48	25	17	8	1.75
547275--547365	32	2.8	33	94	3	166	47	23	18	10	1.80
547236--547370	19	7.6	19	71	19	85	42	23	20	12	1.86
547377--547487	32	3.4	32	97	1	204	9	18	24	46	1.79
547377--547528	14	8.9	18	73	18	121	11	20	24	44	1.84
547472--547526	20	2.8	19	89	5	83	16	25	23	34	1.95
549394--549429	14	2.6	14	90	0	54	30	0	22	47	1.52
549546--549613	19	3.8	19	85	14	101	47	17	22	13	1.82
549632--549688	20	2.8	20	94	0	96	21	22	17	38	1.93
550055--550090	14	2.6	14	90	0	54	30	0	22	47	1.52
550645--550680	14	2.6	14	90	0	54	30	0	22	47	1.52
549652--551056	590	2.4	590	99	0	2749	32	12	18	36	1.89
551924--551982	24	2.5	24	82	0	73	28	16	18	35	1.93
552157--552181	12	2.1	12	100	0	50	72	0	28	0	0.86
554478--554575	19	5.7	19	67	22	81	43	18	24	13	1.85
554478--554571	33	2.8	33	96	0	170	43	18	24	13	1.86
554571--554613	20	2.2	20	87	4	61	16	18	23	41	1.89
554754--554790	14	2.6	14	91	0	65	45	24	0	29	1.53
556148--556214	21	3.2	21	68	4	55	19	20	35	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
556148--556270	42	2.9	41	80	7	113	22	17	36	22	1.95
558295--558429	33	3.9	33	87	5	144	42	20	24	12	1.87
558365--558434	19	3.7	19	98	0	131	45	21	21	11	1.83
558430--558496	19	3.5	19	83	2	80	10	16	23	49	1.77
559017--559110	20	4.7	20	78	2	80	23	18	23	35	1.96
559038--559172	41	3.3	41	80	4	121	20	20	20	39	1.93
559099--559191	20	4.6	20	75	4	87	18	23	18	39	1.92
559099--559194	41	2.3	41	96	0	174	18	22	17	40	1.91
562708--562820	56	2.0	56	100	0	226	26	15	20	37	1.93
563055--563087	2	16.5	2	100	0	66	48	0	0	51	1.00
570859--570897	8	4.9	8	93	0	51	61	0	0	38	0.96
570859--570895	12	3.1	12	92	0	56	59	0	0	40	0.97
573347--573391	24	2.0	23	91	8	74	42	4	2	51	1.34
574718--574840	23	5.3	23	77	6	104	43	17	16	22	1.88
574718--574840	47	2.6	46	72	7	113	43	17	16	22	1.88
586464--586507	21	2.1	21	87	4	63	29	0	2	68	1.02
587080--587106	8	3.4	8	100	0	54	51	0	0	48	1.00
587828--587866	16	2.4	16	78	0	51	20	7	2	69	1.26
587950--587996	7	6.9	7	90	7	53	36	0	0	63	0.94
587942--588010	3	23.3	3	76	19	65	31	0	0	68	0.90
587945--588002	17	3.3	18	83	13	77	32	0	0	67	0.91
587945--588011	14	5.2	13	77	19	70	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587942--588009	19	3.6	18	79	15	75	32	0	0	67	0.91
589553--589593	17	2.3	18	87	8	66	21	24	21	31	1.98
589576--589609	12	2.8	12	95	0	59	32	17	14	35	1.91
590767--590917	60	2.5	60	89	0	212	36	17	11	34	1.86
613101--613135	17	2.0	18	88	5	54	48	2	2	45	1.32
614076--614158	2	41.5	2	100	0	166	0	49	0	50	1.00
614641--614686	16	2.9	15	84	9	56	30	2	2	65	1.16
615184--615459	136	2.0	136	99	0	545	27	15	25	31	1.96
616377--616477	50	2.0	51	98	1	195	23	19	21	34	1.96
618242--618328	35	2.5	34	77	18	90	55	9	8	27	1.60
618323--618406	34	2.5	33	81	12	91	61	14	2	21	1.43
618319--618395	34	2.2	34	84	11	95	61	16	1	20	1.42
620654--620708	17	3.2	18	78	19	55	65	1	1	30	1.13
622666--622920	20	12.6	20	72	8	131	38	23	17	20	1.93
622666--622920	40	6.3	39	74	11	149	38	23	17	20	1.93
622704--622795	41	2.3	39	83	14	116	39	25	16	19	1.92
622746--622916	60	2.8	60	81	4	193	38	22	16	22	1.93
623197--623234	20	1.9	20	88	0	58	39	21	15	23	1.92
623236--623274	20	2.0	20	95	5	71	25	12	20	41	1.88
624139--624185	24	2.0	24	95	0	85	27	21	17	34	1.95
626725--626761	14	2.6	14	91	0	65	45	21	0	32	1.52
628679--628762	19	4.7	19	80	14	106	46	21	21	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
628650--628762	52	2.2	50	93	3	190	44	22	23	10	1.83
628759--628802	19	2.3	19	92	0	70	11	15	29	43	1.82
628768--628835	19	3.9	18	79	18	81	7	17	27	47	1.74
628774--628898	33	3.8	33	89	2	182	8	20	24	46	1.79
628826--628883	14	3.8	14	75	20	62	8	24	20	46	1.78
628986--629365	94	4.1	94	94	1	638	47	18	12	21	1.81
631135--631203	20	3.4	20	86	6	86	14	18	20	46	1.84
631805--631971	20	8.2	20	77	5	156	21	18	22	37	1.94
631766--631971	40	5.2	40	84	3	233	19	17	23	38	1.93
632082--632135	20	2.7	19	75	8	63	16	18	31	33	1.93
636620--636666	23	2.0	23	87	0	67	36	12	29	21	1.91
638664--638736	33	2.2	33	95	0	128	58	1	30	9	1.38
638886--638932	23	2.0	23	91	0	76	34	12	31	21	1.91
645643--646033	195	2.0	196	99	0	775	36	19	15	28	1.92
651344--651390	4	11.8	4	86	0	67	27	2	21	48	1.61
652326--652379	22	2.5	22	81	0	72	29	3	12	53	1.56
657366--657446	37	2.2	38	93	6	139	51	2	3	41	1.32
658273--658394	45	2.7	45	86	6	174	32	17	13	36	1.89
666244--666283	21	1.9	21	100	0	80	55	2	7	35	1.42
666243--666289	11	4.2	12	76	17	57	59	2	8	29	1.39
666527--666569	21	2.0	21	100	0	86	27	53	0	18	1.45
666756--666815	30	2.0	31	93	3	104	41	15	8	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672352--672376	12	2.1	12	100	0	50	64	0	8	28	1.22
673637--673732	38	2.5	38	93	0	156	27	17	29	26	1.98
673986--674026	18	2.3	18	86	0	55	43	0	19	36	1.51
676210--676315	53	2.0	53	92	0	176	45	16	12	26	1.82
676368--676406	14	2.7	14	88	4	51	51	0	0	48	1.00
683166--683228	31	2.0	31	84	0	81	41	3	11	44	1.56
686712--686820	55	2.0	55	80	10	125	29	26	25	18	1.98
689034--689058	5	5.0	5	100	0	50	0	20	60	20	1.37
693433--693460	11	2.5	11	100	0	56	0	10	0	89	0.49
695491--695548	2	30.5	2	73	16	52	51	1	0	46	1.11

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18