genome.fa.s8703.2.7.7.80.10.50.1000.2.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: VEPZ01008703.1 Hibiscus syriacus cultivar Beakdansim tig00111742_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1275178

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 639 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)
305725--305766	21	2.0	22	85	4	59	45	11	11	30	1.77
306037--306070	17	1.9	17	88	5	50	35	26	0	38	1.57
312619--312693	39	1.9	39	83	0	96	34	21	29	14	1.93
312660--312959	44	6.8	43	75	12	220	31	21	23	23	1.98
312660--312960	88	3.4	87	76	6	261	31	21	23	23	1.98
312705--312962	44	5.9	44	78	8	276	31	21	22	24	1.98
319422--319454	16	2.0	17	88	5	50	12	0	21	66	1.23
319736--319762	13	2.1	13	100	0	54	40	7	7	44	1.60
319749--319790	20	2.1	20	90	0	66	45	2	9	42	1.49
323167--323200	2	17.0	2	100	0	68	50	0	0	50	1.00
325413--325469	20	2.8	20	91	0	78	22	26	10	40	1.86
325484--325706	34	5.9	34	73	20	185	27	25	11	35	1.90
325475--325761	79	3.6	79	92	0	484	27	25	11	35	1.90
325594--325747	45	3.7	43	70	19	121	27	25	12	35	1.92
326162--326237	19	3.8	19	76	11	71	28	22	13	35	1.92
326262--326312	20	2.5	21	87	9	79	19	27	17	35	1.94
327411--327554	34	3.9	34	71	18	108	27	24	12	36	1.91
327407--327676	79	3.4	79	89	0	423	28	25	11	34	1.90
329762--329810	18	2.8	17	84	9	62	18	42	22	16	1.88
329830--329982	28	5.6	29	74	17	112	34	1	12	50	1.51
329830--329909	30	2.8	29	86	5	108	32	2	12	52	1.52
337083--337124	21	2.0	21	90	0	66	14	38	28	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
341160--341194	18	2.0	17	88	5	52	22	20	25	31	1.98
341554--341590	19	1.9	19	94	0	65	35	16	21	27	1.94
341719--342000	34	7.0	43	67	26	190	36	11	23	28	1.89
341613--342003	157	2.5	157	88	2	595	36	10	24	28	1.89
341613--341994	79	4.8	79	89	1	570	36	10	24	28	1.89
345114--345199	42	2.0	42	100	0	172	52	0	9	38	1.34
347252--347314	32	2.0	32	100	0	126	17	15	9	57	1.65
347286--347426	49	2.9	50	85	4	146	18	13	10	57	1.64
347302--347442	49	2.9	49	83	6	178	19	12	12	56	1.67
352475--352541	29	2.3	29	86	0	98	19	22	32	25	1.97
352475--352539	14	4.5	14	76	5	67	20	23	30	26	1.98
353773--353891	3	39.7	3	100	0	238	66	0	0	33	0.92
363306--363341	18	1.9	19	88	5	56	52	25	0	22	1.47
364382--365072	240	2.9	238	83	2	870	35	17	16	30	1.92
370141--370177	17	2.2	17	100	0	74	35	16	5	43	1.71
371288--371344	29	1.9	30	85	3	80	56	8	19	15	1.65
374786--374827	3	14.3	3	95	5	77	66	0	0	33	0.92
374786--374824	20	2.0	20	100	0	78	66	0	0	33	0.92
385592--385643	21	2.5	21	81	9	54	57	7	21	13	1.61
386699--386762	24	2.5	25	80	7	67	15	14	4	65	1.42
389732--389783	21	2.5	21	87	0	77	34	17	25	23	1.96
391666--392117	165	2.7	165	86	4	622	36	29	12	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392179--392247	24	2.8	24	77	2	66	49	15	13	21	1.79
399017--399060	21	2.1	21	95	0	79	25	27	22	25	2.00
399454--400488	87	12.1	86	87	6	1304	30	21	6	42	1.77
399447--400488	43	24.4	43	86	7	1389	30	21	6	42	1.77
399944--400010	21	3.1	21	67	12	55	29	19	7	43	1.78
400178--400248	22	3.3	22	62	18	58	29	21	2	46	1.65
400303--400456	35	4.2	34	83	12	173	29	20	5	44	1.73
400308--400378	22	3.3	22	62	18	58	28	21	4	46	1.70
400576--401166	59	10.1	57	77	12	488	30	19	10	39	1.85
400664--401160	176	2.8	176	96	0	888	30	19	10	39	1.85
401466--401558	19	4.8	19	90	5	125	24	26	19	29	1.98
403657--403755	43	2.3	43	83	0	126	25	14	33	27	1.94
403720--403773	23	2.3	23	74	3	54	14	11	46	27	1.79
407898--407948	24	2.4	20	81	18	59	27	15	33	23	1.95
413979--414020	21	2.0	20	86	4	57	38	14	7	40	1.73
417122--417167	16	2.8	17	77	12	51	43	0	2	54	1.12
418813--419453	113	5.7	113	93	1	1029	28	20	14	36	1.92
420174--420507	114	2.9	114	94	0	553	31	19	14	35	1.92
420804--420852	16	2.8	17	78	12	55	46	6	10	36	1.63
421207--421269	1	63.0	1	80	0	72	0	9	0	90	0.45
421207--421269	16	3.9	16	95	2	108	0	9	0	90	0.45
421205--421272	23	2.9	23	91	8	102	0	11	0	88	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434611--434639	15	2.0	15	93	6	51	55	0	0	44	0.99
435197--435298	30	3.4	30	80	4	98	45	10	4	39	1.61
437001--437033	16	2.1	16	94	5	59	33	0	0	66	0.92
442750--442831	40	2.0	40	88	4	121	36	12	8	42	1.73
445745--445820	36	2.1	36	97	0	143	31	10	14	43	1.79
448986--449021	3	12.0	3	100	0	72	33	0	0	66	0.92
452742--452793	25	2.1	25	100	0	104	40	9	19	30	1.83
458622--458656	18	1.9	18	100	0	70	17	0	14	68	1.21
460915--461011	44	2.2	44	83	3	115	30	20	16	31	1.95
464053--464118	15	4.3	15	83	14	73	83	6	10	0	0.81
464053--464117	35	1.9	34	90	9	107	83	6	10	0	0.82
465357--465436	35	2.2	36	82	10	101	28	18	15	37	1.91
465402--465625	64	3.5	64	84	4	263	29	19	12	38	1.88
465416--465625	66	3.2	65	86	2	269	28	19	13	38	1.89
465568--465673	50	2.1	50	91	0	167	24	18	12	44	1.84
465618--465845	65	3.6	65	76	15	185	26	20	12	40	1.88
465707--465795	21	4.7	20	70	18	73	23	21	14	40	1.90
465706--465812	55	1.9	55	96	3	198	25	20	14	39	1.91
465745--465795	19	2.5	20	84	6	59	25	19	13	41	1.88
465893--466031	40	3.4	40	70	13	120	25	31	17	24	1.97
465893--466069	83	2.1	83	88	2	257	25	32	17	24	1.97
466366--466395	3	10.0	3	100	0	60	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472608--472683	2	38.5	2	97	2	145	50	0	0	50	1.00
486936--486998	3	20.7	3	83	3	54	66	11	0	22	1.22
486973--486998	13	2.0	13	100	0	52	69	0	0	30	0.89
487186--487635	131	3.4	130	80	4	458	25	15	30	28	1.96
487678--487968	66	4.4	66	80	3	291	38	13	21	26	1.90
489305--489339	16	2.2	16	89	0	52	2	17	0	80	0.84
489350--489397	13	3.7	13	76	20	55	2	14	6	77	1.06
489350--489413	26	2.5	26	82	14	78	3	12	6	78	1.06
490679--490737	27	2.1	27	87	9	84	54	10	16	18	1.70
493556--493595	20	2.0	20	85	9	55	20	7	5	67	1.34
494072--494105	3	11.3	3	100	0	68	64	0	0	35	0.94
501241--501418	90	2.0	89	92	1	293	37	8	7	46	1.65
505011--505042	2	16.0	2	100	0	64	50	0	0	50	1.00
509727--509927	98	2.0	99	87	2	289	33	15	16	33	1.91
510845--510917	32	2.3	32	87	0	101	31	34	20	13	1.92
513235--513773	110	4.9	109	78	5	496	30	20	18	30	1.97
513333--513769	164	2.7	165	82	4	472	29	21	19	29	1.98
513234--513770	55	9.8	54	77	5	420	29	20	18	30	1.97
516515--516722	105	2.0	104	82	2	256	30	15	14	38	1.88
533442--533472	12	2.5	13	94	5	55	83	9	0	6	0.79
534206--534236	15	2.1	15	93	0	53	54	0	0	45	0.99
537546--537591	20	2.3	20	84	0	56	41	23	23	10	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540642--540697	24	2.3	24	87	0	85	39	21	16	23	1.92
540654--540703	24	2.1	24	84	0	64	44	22	10	24	1.83
541408--541574	29	5.8	28	86	5	201	51	12	4	31	1.60
541402--541574	58	3.0	58	86	5	242	50	14	4	30	1.63
541402--541574	87	2.0	87	87	4	251	50	14	4	30	1.63
541595--541647	22	2.4	22	83	0	70	15	22	43	18	1.87
543596--543643	17	3.1	16	80	14	64	66	4	6	22	1.32
545387--545428	21	2.0	21	100	0	84	47	14	19	19	1.82
553209--553382	95	1.8	95	83	2	233	37	12	21	28	1.90
558596--558624	11	2.6	11	100	0	58	24	17	10	48	1.78

Tables:   1   2   3   4   5   6