genome.fa.s9568.2.7.7.80.10.50.1000.2.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: VEPZ01009568.1 Hibiscus syriacus cultivar Beakdansim tig00116927_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  696633

Tables:   1   2   3   

This is table  2  of  3  ( 335 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)
240568--240630	23	2.7	24	90	2	101	36	22	17	23	1.95
243146--243176	13	2.3	14	94	5	55	12	19	48	19	1.81
243155--243223	23	3.0	23	78	2	84	13	17	52	17	1.75
243189--243236	23	2.1	23	84	0	60	14	20	45	18	1.85
263689--263754	28	2.4	28	92	0	114	22	18	21	37	1.94
266061--266143	32	2.6	32	82	0	103	48	6	8	37	1.58
268931--268957	2	13.5	2	100	0	54	48	0	0	51	1.00
271779--271806	12	2.3	12	100	0	56	60	0	25	14	1.34
274815--274858	22	2.0	22	86	0	61	70	2	0	27	0.99
274852--274903	22	2.3	22	83	9	61	59	0	0	40	0.97
275072--275101	15	2.0	15	93	0	51	56	0	10	33	1.32
276676--276718	21	2.0	21	82	8	52	44	0	0	55	0.99
276841--277335	46	10.8	46	97	0	891	36	18	20	24	1.95
277854--277914	25	2.4	25	97	0	113	34	9	14	40	1.79
282865--283031	75	2.2	75	85	0	226	29	21	17	31	1.96
288426--288452	14	1.9	14	100	0	54	59	3	14	22	1.51
291817--291849	3	11.0	3	93	0	57	63	0	3	33	1.10
293415--293459	3	14.3	3	81	9	54	60	0	0	40	0.97
293415--293459	19	2.4	19	88	0	63	60	0	0	40	0.97
293437--293470	16	2.1	16	89	10	52	47	0	0	52	1.00
296724--296837	41	2.8	41	94	2	196	50	42	0	7	1.29
297228--297292	22	3.0	22	75	11	71	44	7	0	47	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
297228--297289	21	2.9	22	72	18	67	45	8	0	46	1.32
311097--311139	14	3.1	14	96	0	77	48	9	6	34	1.62
315175--315220	22	2.1	22	84	4	58	30	0	15	54	1.41
315263--315442	60	3.0	59	82	3	207	32	18	4	44	1.70
315653--315878	41	5.6	41	80	4	244	29	16	17	36	1.92
315654--315875	80	2.7	80	81	4	214	30	16	16	36	1.91
315937--315995	25	2.4	25	100	0	118	15	28	0	55	1.40
317275--317435	43	3.8	43	77	8	150	37	19	18	24	1.94
317414--317479	34	1.9	34	90	0	105	25	18	27	28	1.98
317447--317563	43	2.7	43	89	0	180	34	22	21	22	1.97
317329--317556	120	1.9	120	80	5	264	35	20	21	23	1.96
322442--322894	41	11.0	41	82	4	498	33	17	19	29	1.95
322442--322895	166	2.7	166	89	2	655	33	17	19	29	1.95
323993--324031	12	3.2	12	85	3	51	5	17	0	76	0.96
325251--325284	18	1.9	17	88	5	50	26	29	26	17	1.98
345828--345875	19	2.6	19	86	3	62	47	14	18	18	1.82
346663--346717	21	2.6	21	100	0	110	18	43	23	14	1.87
347150--347509	181	2.0	179	97	2	686	29	14	24	32	1.94
353486--353531	21	2.2	21	100	0	92	28	30	28	13	1.94
353835--353875	16	2.7	15	85	7	55	17	0	26	56	1.41
356286--356325	18	2.2	18	95	0	71	50	10	15	25	1.74
357064--357111	2	24.0	2	100	0	96	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
364492--364543	23	2.3	23	86	0	68	32	28	32	5	1.81
364819--364860	14	3.0	14	85	0	57	14	7	16	61	1.53
379048--379450	201	2.0	198	97	2	754	27	15	29	27	1.96
383909--383963	21	2.6	21	91	0	83	30	29	20	20	1.97
383972--384058	21	4.2	21	77	4	97	21	21	24	32	1.98
384064--384102	6	6.7	6	97	2	71	35	46	17	0	1.49
384064--384112	18	2.9	17	88	8	73	36	42	20	0	1.52
384093--384126	10	3.3	10	91	4	50	38	29	32	0	1.58
386903--386950	18	2.7	18	96	3	89	27	12	14	45	1.81
387357--387514	80	2.0	77	96	3	289	25	12	21	40	1.88
391188--391437	51	5.0	51	81	3	292	39	22	24	14	1.91
391188--391438	98	2.5	101	81	5	303	39	22	23	14	1.91
416278--416364	36	2.4	36	80	0	93	31	10	16	42	1.81
416630--416699	24	2.9	24	97	0	131	47	22	12	17	1.81
416639--416699	12	5.1	12	91	0	104	45	26	11	16	1.81
416621--416697	36	2.1	36	87	0	109	45	20	15	18	1.85
420915--420946	16	2.0	16	100	0	64	37	0	25	37	1.56
423148--423227	39	2.0	40	97	2	153	23	7	32	36	1.83
424051--424158	56	2.0	54	96	3	198	39	11	5	43	1.64
424241--424279	19	2.0	20	90	5	62	33	0	0	66	0.92
425681--425732	22	2.3	23	86	10	79	40	9	9	40	1.71
428311--428502	92	2.1	92	96	2	350	43	6	4	45	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
436145--436193	16	2.9	17	75	3	55	51	2	0	46	1.12
440009--441332	106	12.6	106	93	2	1976	23	18	25	33	1.97
440734--441229	105	4.9	96	89	5	609	23	18	24	33	1.97
440811--441339	211	2.5	211	88	1	792	24	18	24	33	1.97
440811--441333	105	5.0	106	91	0	782	24	17	24	33	1.97
448011--448078	17	4.1	17	74	12	61	54	1	4	39	1.30
452291--452334	13	3.4	13	80	0	52	15	2	13	68	1.31
461895--461962	31	2.2	31	81	5	75	27	5	14	51	1.65
461988--462068	29	2.8	29	70	17	78	39	8	7	44	1.63
472834--472869	2	18.0	2	100	0	72	50	0	0	50	1.00
476372--476438	32	2.1	32	85	0	89	35	23	13	26	1.92
477290--477320	15	2.1	15	93	0	53	35	12	41	9	1.76
477595--477636	2	20.5	2	95	4	75	50	0	2	47	1.14
480894--480954	24	2.5	24	78	0	59	62	14	8	14	1.54
483534--483565	2	16.0	2	100	0	64	50	0	0	50	1.00
495465--495494	14	2.1	14	93	0	51	23	33	6	36	1.81
500730--500773	22	2.1	20	83	8	52	61	0	4	34	1.16
500967--500999	16	2.1	16	88	11	50	63	6	0	30	1.18
501541--501605	31	2.1	31	86	11	89	47	1	15	35	1.55
502457--502505	19	2.6	19	83	0	53	32	22	14	30	1.93
502479--502533	19	2.8	19	72	2	56	32	21	9	36	1.85
503419--503460	2	21.0	2	95	0	75	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504095--504141	18	2.6	18	86	0	67	25	59	10	4	1.49
510285--510386	21	4.9	21	78	4	107	20	34	20	24	1.97
510285--510406	42	2.9	42	76	4	129	21	35	18	24	1.96
511839--511889	2	27.0	2	84	11	72	47	0	0	52	1.00
511958--512003	19	2.3	21	85	7	60	56	2	2	39	1.24
512919--512980	19	3.3	19	79	0	61	41	14	12	30	1.83
514322--514389	30	2.3	30	81	0	82	23	58	10	7	1.56
514433--514465	17	1.9	17	93	0	57	24	57	12	6	1.57
515410--515488	35	2.3	35	85	10	103	24	11	36	27	1.90
518132--518156	2	12.5	2	100	0	50	52	0	0	48	1.00
528801--528836	18	2.0	18	88	0	54	25	0	2	72	0.98
534807--534851	14	3.1	14	84	12	63	46	15	0	37	1.46
536507--536549	18	2.5	17	85	7	61	25	4	2	67	1.22
536547--536615	2	34.5	2	100	0	138	49	0	0	50	1.00
537076--537176	38	2.6	37	79	14	114	30	4	5	58	1.43
537076--537176	40	2.6	38	77	14	116	30	4	5	58	1.43
537218--537242	9	2.8	9	100	0	50	20	0	0	80	0.72
545398--546148	106	7.0	105	85	3	973	35	23	17	23	1.96
547437--547480	18	2.6	17	85	7	63	25	4	2	68	1.20
547540--547584	2	22.5	2	100	0	90	48	0	0	51	1.00
547908--547984	41	1.9	39	84	5	100	16	27	6	49	1.70
548068--548106	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548164--548188	9	2.8	9	100	0	50	20	0	0	80	0.72
551162--551203	22	1.9	22	95	0	75	26	7	33	33	1.83
557925--557951	2	13.5	2	100	0	54	51	0	0	48	1.00
560526--560903	190	2.0	190	100	0	756	29	18	21	30	1.97
562110--562170	9	5.8	10	78	21	63	37	0	0	62	0.96
562110--562158	3	16.7	3	83	12	66	34	0	0	65	0.93
568165--568248	20	4.0	20	74	18	71	27	25	10	36	1.89
568154--568248	46	2.1	46	88	4	138	27	26	9	36	1.87
570043--570117	12	5.6	12	70	22	51	46	26	0	26	1.53
570042--570117	16	5.2	16	75	23	87	47	26	0	26	1.52

Tables:   1   2   3