genome.fa.s9602.2.7.7.80.10.50.1000.2.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: VEPZ01009602.1 Hibiscus syriacus cultivar Beakdansim tig00116982_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1420948

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 718 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)
218350--218420	25	2.9	24	74	12	65	63	0	5	30	1.17
219329--219378	17	2.9	17	76	8	57	62	6	0	32	1.20
220577--220610	14	2.4	14	90	5	50	14	17	29	38	1.90
220631--220697	3	22.0	3	85	8	91	64	0	1	34	1.03
223561--223619	29	2.0	29	96	0	109	32	27	8	32	1.87
228216--228284	20	3.5	20	68	7	68	62	17	1	18	1.41
228185--228290	40	2.7	40	95	0	185	56	17	1	23	1.51
229857--229903	20	2.3	20	92	3	76	12	36	34	17	1.87
233656--233716	21	3.0	21	87	2	88	13	27	36	22	1.92
240644--240683	21	1.9	21	89	0	62	25	40	25	10	1.86
248109--248224	39	3.0	38	77	6	117	30	20	28	20	1.98
249158--249280	26	4.7	26	93	1	192	26	15	19	38	1.92
256805--256877	35	2.1	35	92	0	119	27	13	32	26	1.94
262047--262093	23	2.1	23	84	4	60	14	10	2	72	1.21
262129--262177	8	6.2	8	81	13	66	16	2	0	81	0.78
265068--265120	12	4.2	13	83	9	65	79	3	13	3	1.01
266210--266281	32	2.2	32	82	0	90	30	15	23	30	1.95
266805--267194	110	3.5	110	93	0	665	34	23	16	25	1.95
268307--268415	37	2.9	37	95	0	200	39	14	13	32	1.86
268780--268880	3	34.3	3	75	21	81	27	1	1	68	1.11
268980--269040	2	31.0	2	96	3	115	49	0	0	50	1.00
269163--269200	3	12.7	3	100	0	76	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)
269166--269215	21	2.6	19	87	9	66	28	2	0	70	0.99
269242--269324	19	4.3	18	74	10	58	16	7	2	73	1.16
269330--269366	3	11.7	3	91	5	56	32	0	2	64	1.07
270496--270533	20	1.9	20	88	0	58	39	5	0	55	1.23
271127--271187	21	2.9	21	90	0	104	21	22	27	27	1.99
271132--271199	21	3.2	21	87	4	66	25	23	22	29	1.99
271664--271701	18	2.1	18	90	5	58	31	0	2	65	1.06
271717--271770	26	2.2	24	87	9	74	20	0	7	72	1.08
274076--274194	60	2.0	59	90	1	184	26	24	24	25	2.00
275589--275630	18	2.3	19	84	12	52	50	2	2	45	1.27
277395--277454	16	3.9	15	76	8	57	25	1	1	71	1.04
277872--277904	15	2.2	15	94	0	57	27	6	0	66	1.15
280087--280285	95	2.1	93	88	4	292	36	14	17	32	1.90
280087--280332	94	2.6	94	82	7	250	36	15	16	31	1.90
281497--282637	85	13.4	85	85	3	1319	35	22	18	24	1.96
283331--283375	2	23.0	2	95	4	83	48	0	0	51	1.00
284560--284605	24	1.9	24	91	8	76	13	6	0	80	0.89
284558--284603	12	3.8	12	80	11	58	13	6	0	80	0.89
286912--287551	80	8.1	80	92	1	1027	31	24	21	22	1.98
286912--287551	159	4.0	159	92	1	1032	31	24	21	22	1.98
286914--287551	239	2.7	239	91	2	1023	31	24	21	22	1.98
292555--293007	80	5.7	80	90	1	671	30	25	21	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
292555--293007	159	2.8	159	91	1	694	30	25	21	22	1.99
295321--295374	28	1.9	28	96	0	99	35	20	16	27	1.94
317859--317914	23	2.5	23	85	2	78	25	33	21	19	1.97
328178--328238	21	2.8	22	85	5	70	22	36	24	16	1.94
331711--331772	2	31.0	2	100	0	124	50	0	0	50	1.00
337971--338024	2	27.0	2	96	0	99	50	1	0	48	1.11
338746--338772	13	2.1	13	100	0	54	22	25	14	37	1.93
346383--346417	18	1.9	18	88	0	52	28	17	0	54	1.43
347710--347768	8	7.6	8	71	21	54	18	23	42	15	1.88
347703--347749	15	3.3	15	88	5	62	21	23	38	17	1.93
347731--347801	18	4.3	18	76	18	82	14	21	47	16	1.81
347724--347801	31	2.6	30	89	4	129	15	21	46	16	1.84
347710--347754	13	3.3	13	90	6	63	17	24	42	15	1.88
347806--347851	9	4.9	9	79	10	56	34	32	19	13	1.90
351576--351610	18	1.9	18	88	0	52	28	17	0	54	1.43
352904--352962	8	7.6	8	71	21	54	18	23	42	15	1.88
352897--352943	15	3.3	15	88	5	62	21	23	38	17	1.93
352925--352996	18	4.3	18	76	16	91	13	20	48	16	1.80
352919--352996	31	2.5	31	93	0	138	15	20	47	16	1.83
352904--352948	13	3.3	13	90	6	63	17	24	42	15	1.88
356764--356798	18	1.9	18	88	0	52	28	17	0	54	1.43
358085--358117	15	2.2	15	94	0	57	24	21	36	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358092--358136	13	3.3	13	84	6	54	17	22	42	17	1.89
358113--358184	18	4.3	18	74	16	82	13	19	48	18	1.81
358107--358184	31	2.5	31	91	0	129	15	19	47	17	1.83
358131--358167	13	2.8	13	83	0	56	16	21	45	16	1.84
359595--359628	13	2.6	13	90	9	52	47	5	17	29	1.71
360060--360130	23	3.3	22	78	7	74	23	19	35	21	1.96
360060--360141	23	3.7	22	76	7	69	23	20	32	23	1.98
365543--365581	20	2.0	20	95	5	71	15	20	41	23	1.90
365819--365857	20	2.1	19	85	9	53	56	7	0	35	1.28
366936--367014	3	26.7	3	97	2	151	65	0	0	34	0.93
369416--369503	32	2.8	32	75	13	83	34	15	17	32	1.91
370657--370694	20	1.9	20	94	0	67	26	18	15	39	1.91
370872--370909	20	1.9	20	94	0	67	26	13	15	44	1.83
371516--371577	21	2.9	21	81	11	72	30	0	3	66	1.08
371523--371577	21	2.7	20	83	8	74	29	0	3	67	1.08
371574--371622	23	2.1	23	85	7	64	38	0	4	57	1.18
372138--372188	25	2.0	25	100	0	102	49	7	0	43	1.32
372929--372993	30	2.2	29	81	8	76	35	15	10	38	1.82
372938--373002	30	2.2	30	88	0	94	32	16	10	40	1.84
374374--374519	73	2.0	73	95	0	265	44	11	9	34	1.73
378702--378742	18	2.2	18	86	4	55	70	4	0	24	1.06
389499--389569	36	2.0	35	91	2	115	15	18	4	61	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394073--394112	20	2.0	20	100	0	80	20	15	20	45	1.86
402597--402648	24	2.2	24	83	13	63	71	5	0	23	1.07
402696--402749	27	2.0	27	81	0	63	61	5	1	31	1.30
403041--403287	123	2.0	123	95	0	449	55	11	13	19	1.68
410216--410282	29	2.3	29	85	7	84	41	4	7	46	1.52
410364--410416	26	2.0	25	85	10	70	45	3	3	47	1.39
410355--410426	29	2.6	27	78	13	74	50	4	4	41	1.41
410406--410438	17	1.9	18	88	11	52	60	6	3	30	1.36
411345--411399	22	2.5	22	96	0	101	43	12	16	27	1.84
416852--416899	19	2.5	19	100	0	96	18	10	4	66	1.37
433351--433399	16	3.1	16	87	0	80	22	36	14	26	1.92
436525--436554	15	1.9	16	93	6	53	3	13	0	83	0.77
438531--438588	17	3.4	17	88	4	89	37	1	31	29	1.67
439166--439259	38	2.5	37	91	3	152	38	39	11	10	1.77
444184--444209	13	2.0	13	100	0	52	53	7	7	30	1.57
445259--445354	33	2.7	33	82	12	102	46	3	5	44	1.41
445259--445719	37	12.2	36	77	12	367	44	3	6	45	1.46
445421--445445	11	2.3	11	100	0	50	40	8	8	44	1.63
445537--445561	11	2.3	11	100	0	50	40	8	8	44	1.63
445247--445719	116	4.1	115	86	6	540	44	3	6	45	1.47
445736--445765	3	10.0	3	100	0	60	33	0	0	66	0.92
446940--447000	25	2.4	26	81	13	65	18	6	0	75	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450376--450417	22	1.9	22	85	9	59	33	16	4	45	1.69
450589--452054	319	4.6	318	94	0	2453	33	25	18	22	1.96
450589--452054	106	13.9	106	94	1	2397	33	25	18	22	1.96
452202--452878	84	8.1	84	86	4	780	32	25	18	23	1.97
452202--452878	169	4.0	168	82	3	664	32	25	18	23	1.97
452202--452878	85	8.1	85	87	3	807	32	25	18	23	1.97
453448--453485	2	20.0	2	84	10	53	50	2	0	47	1.15
453448--453485	19	2.0	19	89	0	58	50	2	0	47	1.15
453512--453607	33	2.7	33	82	12	102	46	3	5	44	1.41
453512--453972	37	12.2	36	78	12	376	44	3	6	45	1.48

Tables:   1   2   3   4   5   6