genome.fa.s7710.2.7.7.80.10.50.1000.2.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: VEPZ01007710.1 Hibiscus syriacus cultivar Beakdansim tig00109925_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  668603

Tables:   1   2   3   

This is table  2  of  3  ( 299 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)
323527--323677	32	4.7	31	84	8	146	27	13	21	37	1.91
324354--324597	135	1.8	134	91	0	407	36	10	5	46	1.62
327712--327742	8	3.8	8	95	4	53	38	0	25	35	1.56
328334--328436	45	2.3	45	85	5	129	34	17	19	28	1.94
328463--328500	20	1.9	20	100	0	76	31	21	23	23	1.98
332378--332480	45	2.3	45	83	5	120	33	17	19	29	1.95
332487--332544	20	2.6	22	84	10	75	32	20	20	25	1.97
333146--333206	31	2.0	31	83	6	79	24	21	19	34	1.96
334476--334513	20	1.9	20	84	10	51	10	0	44	44	1.38
335965--336083	64	1.9	63	91	1	193	31	21	9	37	1.85
356746--356789	23	1.9	23	86	9	63	81	0	9	9	0.87
357467--357531	15	4.5	15	75	19	66	78	0	12	9	0.96
357471--357499	13	2.2	13	100	0	58	79	0	13	6	0.93
359775--359817	20	2.2	20	86	0	59	32	23	13	30	1.93
370558--370725	90	1.9	90	96	0	309	45	8	11	34	1.70
374070--374316	43	5.8	43	83	1	282	33	18	18	29	1.95
374070--374316	129	1.9	128	84	2	325	33	18	18	29	1.95
378051--378256	41	5.0	41	80	4	200	39	16	16	26	1.91
378072--378292	41	5.4	41	82	2	239	37	18	16	28	1.92
378715--378744	3	10.0	3	100	0	60	66	0	0	33	0.92
383792--383853	17	3.7	17	81	10	74	69	3	1	25	1.13
383897--384299	197	2.0	199	92	2	668	47	5	20	25	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388036--388085	6	7.7	6	79	16	55	30	50	18	2	1.58
388041--388078	14	2.7	14	95	0	67	31	50	18	0	1.47
389079--389174	41	2.4	41	89	1	140	32	5	7	55	1.50
389984--390050	30	2.2	30	83	5	80	52	1	7	38	1.39
400844--400876	15	2.1	17	88	11	52	63	0	9	27	1.24
401453--401554	34	2.9	36	89	7	172	27	14	13	44	1.83
402104--402819	105	6.8	104	91	4	1048	22	17	26	33	1.96
403242--403634	72	5.8	65	73	12	213	39	11	20	28	1.88
403242--403399	68	2.4	66	85	6	212	36	8	22	32	1.85
403375--403654	36	8.0	35	76	12	254	40	14	19	25	1.89
403316--403635	137	2.3	136	84	3	428	40	13	20	26	1.89
403413--403598	101	1.8	102	87	3	277	40	13	18	26	1.88
403517--403696	72	2.5	72	84	6	215	39	15	20	25	1.91
404135--404170	18	2.0	18	88	0	54	41	30	8	19	1.81
404585--404633	22	2.2	22	96	0	89	30	14	22	32	1.93
404593--404640	22	2.2	22	88	0	69	31	12	22	33	1.91
405268--405315	20	2.3	20	85	3	60	2	10	8	79	1.02
408548--408582	16	2.1	18	89	10	56	65	0	8	25	1.21
409152--409253	34	2.9	36	89	7	172	27	14	13	44	1.83
413068--413096	12	2.3	13	94	5	51	72	0	0	27	0.85
415171--415663	124	4.0	124	89	1	756	26	18	24	30	1.98
415169--415699	246	2.2	248	88	2	793	26	18	24	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415549--416275	244	3.0	241	86	4	971	26	18	22	32	1.97
420388--420442	9	6.0	9	81	12	67	83	0	1	14	0.73
420394--420443	7	6.9	7	84	15	66	84	0	2	14	0.72
422723--422769	22	2.2	21	82	14	53	46	2	2	48	1.25
425871--425896	3	8.7	3	100	0	52	34	0	65	0	0.93
428012--428036	12	2.1	12	100	0	50	48	0	24	28	1.52
430774--430809	18	2.0	18	94	0	63	27	33	19	19	1.96
445234--445269	19	1.9	18	88	5	54	27	11	0	61	1.30
445889--445918	15	2.0	15	100	0	60	33	0	0	66	0.92
445886--445922	18	2.0	19	94	5	67	35	0	0	64	0.94
448976--449043	35	1.9	35	87	0	100	32	0	23	44	1.54
453509--453560	2	26.0	2	100	0	104	50	0	0	50	1.00
457533--458545	504	2.0	504	100	0	2026	38	14	17	29	1.89
464403--464502	22	4.5	22	91	0	155	29	29	26	16	1.96
465091--465161	19	3.7	19	98	0	133	21	30	15	32	1.94
465027--465226	102	1.9	103	82	9	248	25	23	17	33	1.96
470759--470803	20	2.2	20	92	0	72	31	8	22	37	1.85
470766--470811	20	2.3	20	88	0	65	36	13	15	34	1.86
472153--472201	19	2.5	20	90	3	73	48	4	16	30	1.64
474033--474071	20	2.0	20	90	10	62	35	2	15	46	1.60
474140--474232	40	2.3	40	88	0	141	31	15	16	37	1.89
474147--474224	20	3.9	20	96	0	138	32	16	14	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474341--474388	19	2.5	20	86	10	64	33	20	10	35	1.87
474544--474587	20	2.2	20	83	0	52	27	34	20	18	1.96
478028--478098	3	23.7	3	100	0	142	33	0	0	66	0.92
486889--486938	3	16.3	3	82	12	57	70	0	0	30	0.88
486889--486937	10	4.9	10	80	9	55	69	0	0	30	0.89
487085--487269	32	5.8	32	84	3	207	27	15	21	36	1.93
487954--488000	12	3.9	12	85	0	58	19	17	23	40	1.91
488278--488332	16	3.4	16	89	0	83	58	20	10	10	1.62
489403--489440	20	1.9	20	89	10	60	65	10	5	18	1.41
492605--492757	32	4.8	32	84	4	179	28	16	20	34	1.94
492605--492757	64	2.4	62	84	6	209	28	16	20	34	1.94
495309--495378	34	2.1	32	86	5	95	22	30	15	31	1.95
495661--495702	21	2.0	21	95	0	75	26	28	21	23	1.99
495836--495887	21	2.5	21	93	0	95	15	25	38	21	1.92
499489--499548	23	2.9	20	87	9	77	21	33	26	18	1.96
503553--503604	11	4.7	11	92	0	86	32	13	26	26	1.94
503555--503604	22	2.3	22	100	0	100	32	14	26	28	1.94
503690--503731	22	1.9	22	90	0	66	19	16	16	47	1.83
505917--506015	47	2.1	47	86	3	137	25	19	12	43	1.85
508089--508127	17	2.3	17	100	0	78	46	23	23	7	1.78
508519--508598	41	1.9	40	82	7	97	53	6	3	36	1.44
511330--511361	12	2.7	12	100	0	64	59	0	40	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511363--511393	12	2.6	12	100	0	62	32	6	35	25	1.82
513508--513647	68	2.0	70	90	4	221	34	17	15	32	1.91
514759--514800	10	4.4	10	82	11	52	61	0	2	35	1.09
515121--515155	18	1.9	18	88	11	54	28	0	0	71	0.86
524153--524178	2	13.0	2	100	0	52	50	0	0	50	1.00
539069--539121	20	2.7	20	87	0	79	30	24	20	24	1.99
539028--539143	61	1.9	61	83	3	153	35	18	18	26	1.95
539654--539683	14	2.1	14	93	0	51	43	23	23	10	1.83
539649--539755	40	3.0	34	78	15	124	39	23	23	14	1.91
539668--539743	20	3.8	20	96	0	134	39	23	22	14	1.91
539762--539902	19	7.7	19	88	5	211	13	21	17	48	1.81
540042--540079	14	2.7	14	87	0	58	47	15	0	36	1.46
541894--541946	20	2.7	20	87	0	70	33	28	13	24	1.93
541900--542005	40	2.7	38	78	5	104	39	24	19	16	1.91
541900--541972	20	3.7	20	86	0	92	35	27	20	16	1.94
541920--542039	19	6.5	19	78	12	97	43	23	20	13	1.86
541975--542043	33	2.1	32	91	2	111	53	20	14	11	1.71
541959--542054	19	5.3	19	74	14	69	50	22	15	11	1.76
542050--542146	19	5.6	19	67	22	79	13	18	20	47	1.82
542055--542146	33	2.8	33	93	0	148	13	17	20	48	1.80
542131--542185	20	2.8	19	83	8	65	16	23	23	36	1.94
542726--542773	18	2.7	18	93	0	87	14	12	45	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544073--544115	20	2.2	20	87	8	61	53	20	16	9	1.70
544385--544428	22	2.0	22	95	0	79	18	15	45	20	1.85
544615--544728	20	5.7	20	81	6	113	22	18	26	32	1.97
544595--544730	41	3.3	41	79	6	159	22	17	25	34	1.96
544655--544750	41	2.3	41	83	3	113	18	20	25	35	1.95
544759--544811	21	2.5	22	81	6	74	33	18	26	20	1.96
545598--545639	20	2.1	20	86	0	57	30	33	0	35	1.58
545654--545687	17	1.9	18	88	5	52	29	0	5	64	1.17
545655--545730	30	2.5	32	77	18	81	30	0	2	67	1.05
545684--545717	17	1.9	18	88	5	52	32	0	0	67	0.91

Tables:   1   2   3