genome.fa.s8936.2.7.7.80.10.50.1000.2.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: VEPZ01008936.1 Hibiscus syriacus cultivar Beakdansim tig00112254_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  973811

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 559 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)
220099--220151	26	2.0	28	85	7	74	43	1	7	47	1.42
220163--220210	22	2.1	24	84	7	64	47	0	2	50	1.12
221333--221635	151	2.0	151	99	0	597	38	16	12	32	1.87
222016--222076	24	2.5	24	77	15	72	49	14	0	36	1.44
224641--224697	15	3.9	14	78	17	62	22	1	0	75	0.90
224717--224748	2	16.5	2	93	6	57	50	0	0	50	1.00
224720--224745	13	2.0	13	100	0	52	46	0	0	53	1.00
224718--224747	15	2.0	15	100	0	60	46	0	0	53	1.00
224893--224957	26	2.5	25	78	12	60	20	1	6	72	1.14
224940--224988	20	2.4	21	86	3	64	20	4	0	75	0.96
224916--225022	22	5.0	21	75	17	87	16	3	2	76	1.05
224956--225015	21	2.8	21	87	7	77	15	6	0	78	0.95
225064--225097	3	11.3	3	100	0	68	32	0	0	67	0.91
231408--231444	15	2.5	15	87	12	58	81	0	18	0	0.70
232560--232820	110	2.4	109	82	5	298	34	21	18	26	1.96
233097--233600	241	2.1	241	96	0	927	33	23	17	25	1.96
234828--234886	3	20.0	3	77	19	54	28	1	0	69	0.98
235085--235166	36	2.4	35	80	10	89	19	1	4	74	1.07
235118--235170	13	3.9	13	80	9	61	16	0	3	79	0.88
235119--235172	23	2.5	21	85	14	74	16	0	3	79	0.87
235086--235171	24	3.8	23	79	11	81	18	1	4	75	1.04
235087--235173	28	3.1	28	73	6	79	19	1	4	74	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
235131--235181	23	2.2	23	82	6	59	19	3	1	74	1.07
235123--235214	22	4.3	21	71	12	62	14	6	2	77	1.06
235195--235254	31	2.0	31	83	3	77	11	8	10	70	1.35
237387--237421	17	2.1	17	94	0	61	11	20	22	45	1.82
237548--237589	19	2.2	19	86	4	57	59	0	0	40	0.97
238149--238248	29	3.4	29	98	0	191	37	2	7	54	1.39
238370--238504	59	2.3	60	83	6	168	32	18	2	45	1.64
238397--238532	60	2.3	59	81	6	141	31	20	4	43	1.72
238666--238821	60	2.6	59	81	6	154	41	3	19	35	1.68
238693--238840	60	2.5	60	78	7	158	45	3	16	33	1.64
238916--238956	21	1.9	22	85	5	57	7	12	0	80	0.90
240704--240742	19	2.0	20	90	5	62	38	0	2	58	1.12
240886--240931	24	1.9	23	83	16	58	45	0	6	47	1.28
245485--245528	20	2.1	21	87	4	63	68	2	2	27	1.14
245241--246231	505	2.0	506	97	0	1894	43	13	14	28	1.83
246166--246205	20	2.0	21	85	5	55	65	10	10	15	1.48
247288--247358	13	5.1	14	70	17	51	49	7	7	36	1.57
247375--247410	13	2.8	13	86	0	54	52	0	2	44	1.15
248384--248421	14	2.6	15	84	16	53	18	13	13	55	1.69
248451--248483	17	1.9	17	100	0	66	42	15	6	36	1.71
254442--254498	18	3.0	18	80	14	78	28	12	10	49	1.73
254442--254498	21	3.0	20	82	12	75	28	12	10	49	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
254727--254774	20	2.4	21	86	10	73	39	16	16	27	1.90
254737--254789	20	2.7	20	88	2	72	39	15	16	28	1.89
255205--255287	34	2.4	34	93	0	139	32	16	28	21	1.96
271629--271996	131	2.8	131	81	6	417	39	16	8	35	1.79
274103--274145	3	14.3	3	100	0	86	67	0	0	32	0.91
274424--274756	180	1.9	179	85	1	470	33	18	18	30	1.94
274931--275031	42	2.4	41	80	9	134	30	19	22	26	1.98
274603--275156	260	2.1	260	88	3	812	34	16	15	33	1.90
283127--283165	21	1.9	20	84	5	51	43	17	10	28	1.82
294094--294171	18	4.4	18	77	9	81	38	12	11	37	1.80
294128--294180	18	2.9	18	83	10	72	41	15	9	33	1.79
299287--299650	131	2.8	131	83	0	458	39	19	9	31	1.84
300929--301075	5	26.6	5	68	22	55	72	2	8	16	1.22
301127--301169	18	2.4	18	96	0	77	72	0	4	23	1.04
304415--304574	63	2.5	63	83	5	196	23	25	18	32	1.97
307300--307357	21	2.8	21	91	0	98	31	27	24	17	1.97
307372--307432	18	3.4	18	90	0	95	29	32	21	16	1.95
308194--308333	62	2.2	62	83	6	167	22	24	19	33	1.97
311121--311192	18	4.0	18	83	7	83	31	31	16	19	1.94
311121--311192	36	2.0	36	86	0	99	31	31	16	19	1.94
311947--311984	20	1.9	20	94	0	67	26	23	18	31	1.97
311995--312152	64	2.5	64	79	6	167	24	24	17	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
313791--313969	85	2.1	84	80	10	195	31	19	16	32	1.94
313989--314042	2	27.5	2	96	3	101	50	0	0	50	1.00
319945--320011	10	6.4	10	71	25	50	76	1	7	14	1.08
320051--320092	12	3.8	12	84	9	54	71	0	9	19	1.13
320051--320107	5	10.4	5	75	17	51	71	0	8	19	1.11
320051--320107	27	2.1	28	86	3	80	71	0	8	19	1.11
320076--320114	12	3.5	11	86	13	53	76	0	2	20	0.90
320157--320199	18	2.4	18	92	0	68	72	0	6	20	1.08
320800--320828	12	2.3	13	94	5	51	58	3	0	37	1.15
322715--322762	26	1.9	24	87	8	69	33	4	12	50	1.59
322783--322816	2	17.5	2	93	6	61	50	0	0	50	1.00
323793--323838	22	2.1	21	84	11	58	6	8	4	80	1.01
323941--323966	2	13.0	2	100	0	52	50	0	0	50	1.00
323942--323984	14	3.1	14	86	0	50	34	0	6	58	1.25
323963--324059	46	2.1	45	81	12	110	15	10	6	68	1.38
324067--324105	5	7.8	5	83	11	53	15	0	2	82	0.79
324055--324108	15	3.6	14	80	11	63	14	0	1	83	0.73
324046--324105	26	2.3	26	86	8	79	13	1	3	81	0.89
327413--327467	23	2.4	23	75	6	58	18	14	3	63	1.44
331598--331646	19	2.7	17	84	9	53	26	18	30	24	1.98
331709--331748	21	1.9	21	94	0	71	22	15	30	32	1.94
334266--334345	24	3.5	23	75	14	85	27	22	26	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
334243--334365	44	2.8	42	74	12	113	24	20	28	26	1.99
337868--337920	24	2.2	24	100	0	106	16	16	26	39	1.91
339669--339832	64	2.5	65	83	5	206	26	15	24	32	1.95
339794--339833	21	1.9	21	94	0	71	22	15	30	32	1.94
345574--345667	46	2.0	46	95	0	170	36	23	21	19	1.95
350831--350856	11	2.4	11	100	0	52	84	0	15	0	0.62
350896--350945	8	6.5	8	84	15	70	88	0	12	0	0.53
350894--350951	15	3.9	15	85	14	84	86	0	13	0	0.58
350899--350951	16	3.3	17	74	15	67	86	0	13	0	0.56
350894--350951	31	1.9	30	96	3	107	86	0	13	0	0.58
353887--353935	4	12.8	4	78	8	57	24	2	2	71	1.07
353887--353934	19	2.5	19	86	6	62	25	2	2	70	1.09
354093--354154	19	3.2	18	76	14	61	14	3	4	77	1.06
354102--354155	15	3.5	15	78	14	56	16	1	3	77	1.00
354177--354210	13	2.6	13	90	0	50	17	5	2	73	1.16
354168--354221	24	2.3	23	78	15	56	14	7	3	74	1.18
357268--357332	28	2.3	27	81	5	67	50	3	1	44	1.26
359791--359863	25	2.7	27	74	20	71	39	9	17	32	1.82
363132--363204	35	2.1	35	94	0	128	45	17	9	27	1.80
365181--365253	4	17.5	4	74	22	53	69	1	4	24	1.13
365182--365250	28	2.6	26	84	9	77	69	1	4	24	1.15
365210--365262	26	2.2	24	86	10	72	67	0	1	30	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365231--365270	16	2.3	18	87	8	57	62	0	2	35	1.09
365232--365272	12	3.4	12	86	6	57	60	0	2	36	1.10
366605--366657	24	2.3	24	83	6	65	32	13	20	33	1.91
367095--367309	40	5.0	42	72	16	156	24	18	33	23	1.97
366960--367320	134	2.7	134	89	1	535	24	19	31	24	1.98
367206--367530	162	2.0	163	98	0	634	31	16	27	24	1.97
367741--367785	22	2.1	21	84	8	56	51	13	13	22	1.75
367769--368008	29	8.0	30	69	21	121	44	13	12	29	1.81
367690--367915	91	2.5	91	79	9	257	45	14	12	28	1.81
367888--368020	29	4.4	30	82	10	155	43	13	12	30	1.81

Tables:   1   2   3   4   5