genome.fa.s7952.2.7.7.80.10.50.1000.2.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: VEPZ01007952.1 Hibiscus syriacus cultivar Beakdansim tig00110377_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3169409

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  2  of  16  ( 1872 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)
202134--202192	29	2.0	29	96	0	109	50	13	11	23	1.74
204001--204073	23	3.3	23	80	3	87	31	21	21	24	1.98
204292--204327	18	2.0	18	100	0	72	33	33	22	11	1.89
204082--204427	118	2.9	118	90	5	583	36	25	14	24	1.93
209385--209434	23	2.2	23	82	3	57	30	30	24	16	1.96
209601--209796	62	3.2	63	65	23	155	37	22	14	25	1.92
209449--209813	121	3.0	119	91	2	559	36	23	14	25	1.93
209675--209710	18	2.0	18	100	0	72	33	33	22	11	1.89
211089--211132	21	2.1	21	86	0	61	15	27	27	29	1.96
214631--214693	30	2.1	30	100	0	126	28	9	15	46	1.78
215363--215421	29	2.0	29	96	0	109	47	13	15	23	1.81
220775--220827	16	3.4	16	73	5	54	41	7	16	33	1.77
220732--220898	62	2.7	62	84	2	219	41	7	17	32	1.78
220732--220897	31	5.3	31	83	3	199	42	7	16	33	1.77
221083--221149	21	3.1	22	69	16	68	28	16	25	29	1.97
221086--221158	21	3.5	21	72	7	67	27	19	23	30	1.98
225933--225998	23	2.9	22	82	6	78	24	24	28	22	1.99
225927--225987	23	2.7	22	82	9	79	22	26	29	21	1.99
225916--225998	22	3.7	22	75	13	80	21	24	30	24	1.99
235034--235075	2	21.0	2	100	0	84	50	0	0	50	1.00
244313--244347	3	11.7	3	100	0	70	65	0	0	34	0.93
244986--245010	2	12.5	2	100	0	50	0	48	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
251213--251253	22	1.9	21	90	5	64	70	4	0	24	1.06
252797--252836	6	6.7	6	91	8	64	32	0	0	67	0.91
262491--262531	18	2.3	18	100	0	82	9	4	29	56	1.53
266094--266147	18	2.9	18	75	8	56	62	1	1	33	1.16
267386--267470	42	2.0	43	86	9	120	32	18	16	31	1.94
270022--270063	18	2.3	19	80	12	52	71	4	2	21	1.16
271153--271250	33	2.9	35	89	8	159	35	20	12	31	1.89
273756--273837	35	2.6	30	79	20	105	62	0	0	37	0.96
273764--273819	25	2.2	26	80	3	69	64	0	0	35	0.94
274413--274458	21	2.2	21	88	7	67	45	15	4	34	1.66
275903--275965	25	2.5	24	74	7	63	60	7	1	30	1.35
276656--276778	34	3.6	34	79	5	126	32	19	14	33	1.92
281935--282016	23	3.6	22	72	8	76	26	21	25	25	2.00
287782--287831	19	2.6	19	87	0	73	30	20	26	24	1.98
287819--288025	64	3.2	62	78	12	222	26	17	24	31	1.97
289901--289957	18	3.4	18	76	16	68	38	0	0	61	0.96
290151--290183	13	2.5	13	95	0	57	45	15	0	39	1.46
291153--291186	2	17.0	2	100	0	68	50	0	0	50	1.00
294081--294331	128	2.0	128	86	1	351	25	18	29	27	1.98
303516--303590	30	2.5	30	78	4	80	61	9	13	16	1.56
303810--303876	29	2.4	28	77	20	70	56	10	11	20	1.64
305025--305058	3	11.7	3	93	6	61	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
305658--305700	21	2.1	20	86	4	59	44	13	20	20	1.86
305564--305975	66	6.3	66	88	2	508	39	13	21	25	1.90
306024--306100	36	2.1	37	80	9	86	40	12	14	32	1.84
307337--307388	21	2.5	22	84	6	72	1	11	5	80	0.96
307337--307388	22	2.5	20	81	12	61	1	11	5	80	0.96
311058--311139	30	2.8	28	85	7	92	62	8	10	18	1.53
312572--312605	3	11.7	3	87	6	52	64	2	0	32	1.08
313469--313562	32	3.0	31	84	6	109	60	7	11	20	1.55
313987--314044	29	2.0	29	100	0	116	34	17	13	34	1.89
314016--314588	112	5.1	112	94	0	959	45	14	15	25	1.83
314460--314914	182	2.5	182	91	0	705	43	13	15	27	1.84
315346--315393	23	2.1	23	88	0	69	37	16	8	37	1.79
315856--315922	11	5.3	13	71	18	52	41	1	0	56	1.08
315852--315912	19	3.3	19	80	8	65	39	0	0	60	0.97
315853--315912	5	12.0	5	78	18	54	40	0	0	60	0.97
318109--318179	33	2.2	32	82	12	83	54	5	2	36	1.38
318853--319001	73	2.0	73	100	0	298	46	8	16	28	1.76
320108--320151	23	1.9	23	95	0	79	15	29	27	27	1.96
320136--320349	98	2.2	98	97	0	401	23	14	23	38	1.92
320331--320405	18	3.9	18	68	13	51	22	14	30	32	1.94
322069--322154	21	3.9	21	78	14	84	32	5	4	56	1.43
322098--322200	16	6.9	14	66	24	50	31	7	3	57	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
321963--322200	3	76.7	3	63	23	59	31	5	4	58	1.41
324269--324308	3	13.3	3	89	0	62	37	0	0	62	0.95
324306--324334	2	14.5	2	100	0	58	48	0	0	51	1.00
325731--325801	23	3.1	23	80	8	90	32	5	1	60	1.29
325733--325798	11	5.8	11	73	16	55	28	6	1	63	1.27
328654--328741	46	1.9	46	90	0	140	37	11	21	29	1.88
330406--330471	27	2.5	26	80	2	78	18	15	10	56	1.67
332795--332841	11	4.5	10	77	17	51	80	0	19	0	0.70
332781--332841	8	7.9	8	77	18	58	80	0	19	0	0.72
332781--332830	15	3.5	15	81	10	68	82	0	18	0	0.68
332783--332830	18	2.7	18	87	9	71	83	0	16	0	0.65
332784--332837	21	2.6	21	80	16	67	81	0	18	0	0.69
336155--336684	74	7.1	74	69	17	279	33	16	20	28	1.95
336466--336700	74	3.2	74	83	6	296	32	15	21	30	1.95
337986--338065	22	3.6	22	96	1	133	33	15	13	37	1.86
338784--338886	45	2.3	45	84	3	127	28	19	18	33	1.95
338904--339570	89	7.5	89	92	0	1050	24	22	19	33	1.97
338904--339570	134	5.0	134	90	1	1045	24	22	19	33	1.97
339728--339787	3	19.7	3	80	10	52	41	0	0	58	0.98
341651--341695	2	23.5	2	86	8	67	51	0	0	48	1.00
355167--355200	16	2.1	16	88	5	50	61	0	0	38	0.96
355198--355265	2	34.5	2	80	14	79	50	1	2	45	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360399--360474	22	3.4	22	71	18	75	63	5	14	17	1.48
369480--369512	16	2.0	17	88	5	50	60	0	0	39	0.97
370413--370444	15	2.1	15	94	0	55	28	12	40	18	1.87
372929--372961	14	2.4	14	100	0	66	45	21	15	18	1.85
375139--375179	2	21.5	2	85	9	59	46	0	0	53	1.00
375179--375287	31	3.7	29	79	15	84	44	4	0	51	1.22
375214--375287	31	2.4	31	84	6	98	45	5	0	48	1.25
375323--375384	19	2.9	21	79	18	58	45	1	0	53	1.10
375332--375384	19	2.6	20	85	8	63	47	0	0	52	1.00
375744--375772	9	3.2	9	100	0	58	34	0	0	65	0.93
375844--375875	2	16.0	2	93	0	55	46	0	0	53	1.00
376766--376828	29	2.2	29	80	5	74	22	22	39	15	1.92
377285--377370	21	4.2	20	71	14	77	24	0	19	55	1.43
377347--377437	28	3.2	28	96	3	164	29	0	13	57	1.37
377347--377457	56	2.0	55	81	8	127	34	0	11	54	1.37
378398--378440	14	2.9	14	86	6	50	39	0	13	46	1.44
378369--378548	11	14.8	12	66	22	67	42	0	10	46	1.42
378487--378531	21	2.1	22	88	12	67	37	0	8	53	1.32
378404--378667	59	4.5	59	83	9	274	42	0	10	46	1.42
378463--378687	59	3.8	59	84	9	282	42	0	10	46	1.42
378579--378608	10	3.0	10	95	0	51	46	0	10	43	1.37
378463--378687	116	1.9	118	84	8	307	42	0	10	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378638--378706	11	5.6	12	77	16	61	46	1	5	46	1.35
378404--378714	116	2.6	115	80	10	283	43	0	10	45	1.42
380394--380431	20	1.9	20	94	0	67	23	28	28	18	1.98
380395--380477	43	2.0	43	83	7	107	20	33	26	19	1.96
380398--380479	21	3.9	21	78	9	78	19	34	25	20	1.96
381757--381804	19	2.5	20	82	3	62	52	4	12	31	1.58
383256--383317	20	3.0	20	75	9	70	19	35	29	16	1.93
385304--385359	21	2.6	23	78	10	66	55	10	0	33	1.35
385374--385416	21	2.0	22	86	4	61	58	11	0	30	1.34
385629--385674	22	2.0	23	91	8	76	36	17	28	17	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16