genome.fa.s8560.2.7.7.80.10.50.1000.4.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: VEPZ01008560.1 Hibiscus syriacus cultivar Beakdansim tig00111467_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  753118

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 507 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)
580964--581017	27	2.0	28	88	3	83	22	16	16	44	1.86
583978--584101	66	1.9	66	88	3	187	37	21	20	20	1.95
586095--586129	2	17.5	2	100	0	70	48	0	0	51	1.00
587184--587307	60	2.1	60	80	6	135	41	3	22	32	1.70
587666--587828	46	3.5	48	74	8	147	28	32	7	31	1.85
588331--588365	2	18.0	2	94	5	63	51	0	0	48	1.00
588334--588363	15	2.0	15	100	0	60	53	0	0	46	1.00
588332--588365	17	2.0	17	100	0	68	52	0	0	47	1.00
592756--592898	65	2.2	65	85	5	182	32	24	16	27	1.96
592715--592912	65	3.0	63	75	13	172	32	23	16	27	1.96
598131--598211	24	3.5	24	70	20	75	22	24	23	29	1.99
598132--598234	44	2.3	44	82	9	138	22	26	22	29	1.99
600324--600366	2	21.5	2	100	0	86	48	0	0	51	1.00
600893--601052	84	1.9	83	86	7	225	30	25	18	26	1.98
600959--601010	19	2.7	19	90	0	86	26	32	19	21	1.97
603179--603672	62	8.0	62	87	1	652	27	21	15	35	1.94
603852--604563	36	19.8	36	89	4	1019	35	22	22	19	1.96
604729--604768	3	12.7	3	84	10	53	35	0	0	65	0.93
604729--604768	16	2.5	16	95	0	71	35	0	0	65	0.93
609755--609801	18	2.6	19	86	6	62	74	4	4	17	1.14
619775--619832	29	2.0	30	86	3	82	41	6	15	36	1.74
622800--622961	40	4.1	40	95	0	297	33	27	16	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
629134--629215	40	2.0	40	100	0	164	32	26	17	23	1.96
631580--631638	6	9.8	6	80	7	57	40	1	20	37	1.63
631571--631640	24	3.2	24	67	32	66	38	2	20	38	1.67
631581--631650	18	3.6	18	74	20	68	37	1	21	40	1.62
631580--631650	24	3.2	24	73	22	82	38	1	21	39	1.62
634767--636318	772	2.0	774	97	1	2959	34	11	24	29	1.91
638359--638385	11	2.5	11	100	0	54	59	0	14	25	1.36
639372--639453	33	2.5	33	82	3	114	43	14	17	24	1.86
639643--639684	21	2.0	21	90	0	66	35	26	21	16	1.94
639696--639773	21	3.7	21	78	0	93	20	12	24	42	1.87
639696--639785	42	2.1	44	83	4	112	24	12	22	41	1.88
639540--639831	156	1.9	156	86	1	415	27	15	22	34	1.94
642179--642237	15	3.9	15	93	0	91	49	1	0	49	1.11
642261--642412	32	5.4	31	70	28	142	37	0	9	51	1.40
642284--642326	22	2.0	22	95	0	77	37	0	11	51	1.39
642261--642853	54	11.1	54	78	11	616	34	0	13	51	1.45
642283--642853	156	3.6	156	80	7	634	33	0	14	51	1.46
642360--642616	80	3.3	79	88	4	403	33	0	14	51	1.43
642439--642702	32	8.7	32	71	21	171	34	0	14	51	1.45
642472--642638	22	7.0	22	74	17	154	34	0	14	50	1.44
642275--642894	80	7.8	78	73	16	325	33	0	13	51	1.45
642261--642884	134	4.7	132	80	12	647	33	0	13	51	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642762--642804	22	2.0	22	100	0	86	34	0	13	51	1.42
642807--642854	22	2.4	18	73	23	51	31	0	14	54	1.41
642815--642885	22	3.0	23	76	15	90	28	0	18	53	1.45
642909--642967	31	1.9	31	86	6	84	42	10	5	42	1.60
653825--653851	13	2.1	13	100	0	54	48	7	29	14	1.71
654048--654243	103	1.9	104	92	3	333	44	11	17	26	1.83
659978--660005	2	14.0	2	100	0	56	50	0	0	50	1.00
662234--662289	15	3.6	15	79	9	67	42	12	12	32	1.80
662237--662287	17	3.1	17	77	11	61	43	11	9	35	1.75
662685--662739	13	4.2	13	75	13	58	49	12	3	34	1.59
662725--662819	33	2.9	33	93	1	156	44	16	7	31	1.76
663138--663183	12	3.6	12	81	16	56	17	19	17	45	1.85
663137--663176	15	2.9	14	85	14	57	20	17	15	47	1.83
667670--667714	20	2.3	20	85	11	58	64	4	6	24	1.37
667999--668034	5	7.2	5	87	0	54	75	2	2	19	1.06
667999--668042	20	2.1	21	91	4	72	70	2	6	20	1.21
668880--668944	32	2.0	32	100	0	130	35	24	6	33	1.80
669699--669748	3	17.0	3	76	19	52	62	0	2	36	1.07
670386--670558	91	1.9	91	90	2	276	24	18	14	42	1.88
670473--671007	117	4.8	117	85	5	503	24	20	15	39	1.92
670713--670990	105	2.6	105	89	3	414	22	20	16	40	1.91
670970--671178	96	2.2	96	93	0	355	30	20	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
671494--671724	73	3.2	73	90	1	329	36	14	21	27	1.92
671567--671688	37	3.3	37	68	2	102	35	14	21	28	1.93
671531--671725	36	5.4	36	68	2	138	37	15	21	25	1.93
671726--671783	28	2.0	29	90	3	91	46	13	10	29	1.77
671755--671823	36	1.9	36	85	5	95	40	13	20	26	1.88
671755--671874	51	2.3	51	82	5	152	41	13	18	26	1.87
671816--671954	36	3.9	36	87	0	206	41	14	20	24	1.89
671945--672142	40	4.9	40	87	4	283	42	11	15	30	1.82
673588--673820	127	1.8	126	84	0	313	33	18	25	21	1.96
675236--675287	6	8.5	6	80	2	50	75	5	17	1	1.10
675197--675287	18	4.8	18	73	16	69	72	6	18	2	1.17
675197--675269	22	3.1	22	80	9	65	73	5	17	2	1.14
675242--675280	6	6.5	6	87	0	51	74	7	15	2	1.15
675197--675274	12	6.7	12	79	7	72	73	6	17	2	1.17
675570--675860	39	7.5	39	89	1	426	27	19	17	35	1.94
675570--675898	78	4.3	77	86	3	425	28	18	17	35	1.94
676034--676205	39	4.4	38	83	2	200	32	15	14	37	1.87
676034--676205	78	2.2	78	88	2	247	32	15	14	37	1.87
676250--676349	42	2.4	41	83	5	121	28	23	20	29	1.98
682364--682403	20	2.0	20	100	0	80	40	5	5	50	1.46
683579--683616	12	3.2	12	81	3	51	47	0	0	52	1.00
683582--683641	22	2.7	23	87	7	79	45	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
683609--683709	49	2.1	49	85	10	136	49	0	0	50	1.00
683631--683674	19	2.4	18	78	17	54	54	0	0	45	0.99
683705--683772	19	3.7	19	72	18	63	50	1	1	47	1.19
683609--683753	49	2.9	48	79	12	132	49	0	0	49	1.05
683767--683811	23	2.0	23	90	0	72	55	2	2	40	1.24
683907--683946	20	2.0	20	85	9	55	60	0	0	40	0.97
684115--684155	14	2.9	14	88	0	55	36	14	12	36	1.84
684159--684203	14	3.1	14	78	6	54	35	17	6	40	1.76
684370--684439	20	3.4	20	75	7	59	30	28	14	27	1.95
685044--685082	20	2.0	20	94	0	69	53	20	10	15	1.70
685089--685163	20	3.7	20	75	8	71	16	12	22	49	1.78
686655--686754	42	2.4	42	87	0	146	27	33	19	21	1.97
686869--686918	21	2.4	21	82	0	64	18	16	34	32	1.92
686869--686968	42	2.4	41	75	8	103	20	15	36	29	1.92
687318--687389	21	3.4	21	84	3	101	22	37	16	23	1.94
688853--688906	19	2.8	20	82	5	74	40	22	18	18	1.91
688933--688979	20	2.3	20	88	0	67	23	10	19	46	1.80
691713--691921	75	2.8	75	87	2	276	23	32	23	20	1.98
699649--699699	9	6.2	8	76	19	52	13	0	27	58	1.36
699651--699694	17	2.6	17	85	7	63	13	0	29	56	1.38
700300--700504	73	2.7	72	83	6	223	23	30	24	20	1.99
702240--702290	21	2.5	21	81	12	61	35	11	23	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
702334--702388	21	2.6	21	91	0	83	23	12	27	36	1.91
704297--704336	16	2.5	16	87	0	53	55	0	0	45	0.99
712749--712910	81	2.0	81	92	0	270	37	21	22	18	1.94
715090--715119	3	10.0	3	100	0	60	66	33	0	0	0.92
722178--722215	13	3.0	13	88	3	60	44	7	13	34	1.72
722701--722780	23	3.5	23	89	1	117	30	17	33	18	1.94
730722--730796	19	3.8	20	79	10	64	26	32	26	14	1.95
737189--737409	116	1.9	116	79	7	252	28	14	9	47	1.75
738800--738839	16	2.5	16	95	0	71	42	5	15	37	1.68
740443--740485	6	7.2	6	100	0	86	16	51	0	32	1.45

Tables:   1   2   3   4   5