genome.fa.s2663.2.7.7.80.10.50.1000.2.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: VEPZ01002663.1 Hibiscus syriacus cultivar Beakdansim tig00005465_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  975815

Tables:   1   2   3   4   

This is table  2  of  4  ( 463 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)
248941--249064	63	2.0	63	91	0	203	39	14	9	36	1.79
268789--268864	29	2.5	31	72	18	70	56	6	6	30	1.50
271987--272022	7	5.1	7	93	0	63	0	55	0	44	0.99
272415--272459	22	2.0	22	86	4	63	64	6	4	24	1.37
275100--275541	220	2.0	220	99	0	875	39	23	15	21	1.92
281971--282225	127	2.0	127	98	0	492	29	18	5	45	1.73
282517--282567	20	2.5	20	83	3	66	43	23	15	17	1.88
291444--291541	20	4.9	21	80	12	93	39	23	18	18	1.92
293584--293692	45	2.4	45	96	0	200	21	45	6	26	1.75
294282--294329	21	2.3	21	85	7	62	25	31	22	20	1.98
295699--295838	66	2.2	62	86	7	185	30	0	17	51	1.50
295921--296017	20	5.2	20	72	14	98	16	20	22	40	1.91
296196--296262	20	3.3	20	87	0	98	20	16	22	40	1.91
296196--296274	40	2.0	40	87	5	115	20	15	24	40	1.90
296679--296766	34	2.6	34	85	5	106	27	22	13	36	1.92
298227--298415	36	5.4	35	70	18	142	43	4	3	48	1.42
298216--298407	70	2.7	70	80	7	237	43	5	4	47	1.45
303753--303859	34	3.1	33	78	14	85	34	0	3	61	1.14
303786--303864	34	2.4	34	85	8	101	37	0	1	60	1.05
303984--304032	18	2.8	17	81	9	53	32	0	4	63	1.13
305643--305736	21	4.5	21	88	5	127	18	31	27	22	1.97
309959--310029	21	3.4	21	94	1	117	23	19	15	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
309919--310037	21	5.8	21	79	3	80	29	21	15	32	1.95
309942--310037	42	2.3	41	78	1	111	26	20	17	35	1.95
310022--310072	20	2.5	20	83	0	75	39	23	15	21	1.92
310060--310110	19	2.7	19	93	0	93	39	23	7	29	1.83
310854--310887	12	2.8	12	90	0	50	55	29	0	14	1.40
313645--313706	20	3.1	20	90	0	106	19	20	25	33	1.96
313797--313846	25	2.0	25	96	0	91	26	8	22	44	1.80
314224--314275	24	2.2	24	89	0	77	36	3	15	44	1.65
316395--316490	21	4.6	21	74	8	88	23	18	33	23	1.97
316395--316494	42	2.4	42	81	9	123	24	18	34	24	1.96
328305--328480	95	1.8	93	86	7	255	43	7	11	36	1.71
328606--328641	18	2.1	17	89	5	54	63	0	2	33	1.08
335864--335945	25	3.4	24	71	15	71	29	21	25	23	1.99
335901--335958	23	2.5	22	76	20	64	32	20	24	22	1.98
336180--336252	31	2.4	31	90	2	112	30	23	6	39	1.81
337312--337337	8	3.2	8	100	0	52	15	38	0	46	1.46
339605--339668	31	2.1	31	94	2	112	32	23	4	39	1.75
348864--348961	46	2.1	46	100	0	196	38	6	9	45	1.61
361078--361110	2	16.5	2	93	0	57	48	0	3	48	1.17
361123--361172	24	2.2	24	89	7	77	52	2	4	42	1.31
361124--361198	24	3.1	23	83	7	71	49	2	4	44	1.35
361124--361205	26	3.2	25	75	16	64	51	2	3	42	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365698--365722	3	8.3	3	100	0	50	36	0	0	64	0.94
366528--366595	22	3.0	22	95	2	118	27	27	25	19	1.98
367355--367388	2	17.0	2	93	0	59	47	2	0	50	1.16
367624--367658	18	1.9	18	88	11	54	22	17	5	54	1.64
368220--368264	21	2.1	21	87	0	63	15	24	28	31	1.96
371399--371466	22	3.0	22	95	2	118	27	27	25	19	1.98
372221--372245	2	12.5	2	100	0	50	48	0	0	52	1.00
372482--372516	18	1.9	18	88	11	54	22	17	5	54	1.64
373078--373122	21	2.1	21	87	0	63	15	24	28	31	1.96
374104--374304	39	5.2	39	82	3	208	16	21	23	37	1.93
376133--376177	18	2.6	18	85	3	65	37	6	4	51	1.49
380895--380968	10	7.6	10	66	22	50	59	21	9	9	1.57
380902--380970	16	4.3	16	90	0	102	59	21	8	10	1.57
381619--381693	38	2.0	38	91	0	123	56	24	9	10	1.63
381625--381694	14	5.3	14	83	13	76	54	24	11	10	1.66
382684--382724	2	20.5	2	100	0	82	0	48	0	51	1.00
382928--382954	3	9.0	3	100	0	54	0	33	0	66	0.92
387234--387326	35	2.7	34	82	9	100	35	7	17	39	1.78
387268--387341	35	2.1	35	94	0	130	35	5	17	41	1.72
387969--387999	7	4.4	7	100	0	62	16	0	32	51	1.44
394916--394997	15	5.5	15	85	2	112	39	7	18	35	1.78
394916--394997	30	2.8	30	90	1	130	39	7	18	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394910--394997	45	2.0	44	93	2	149	42	6	18	32	1.76
394980--395049	20	3.5	20	96	0	122	40	10	12	37	1.77
395210--395277	24	2.8	24	81	16	79	58	1	1	38	1.16
395209--395285	24	3.2	24	78	14	70	58	1	1	38	1.15
395256--395350	50	1.9	50	81	12	115	51	1	1	46	1.15
395308--395360	29	2.0	26	85	14	72	54	0	0	45	0.99
395312--395370	9	6.2	9	75	11	55	54	0	0	45	0.99
395557--395673	41	2.9	40	88	6	173	46	17	19	16	1.85
402409--402446	19	2.0	19	100	0	76	21	15	15	47	1.82
411445--411529	30	2.9	29	77	10	84	47	9	12	30	1.74
411576--411659	29	2.8	29	85	7	107	61	7	3	27	1.38
415532--415604	25	3.0	24	90	5	112	49	1	4	45	1.29
423913--423956	22	1.9	24	90	9	74	34	6	18	40	1.77
426792--426843	23	2.3	23	93	0	86	38	5	13	42	1.68
434362--434451	23	3.9	23	91	0	126	26	23	26	23	2.00
440379--441415	268	3.9	269	81	7	1140	31	21	14	32	1.93
443736--443762	2	13.5	2	100	0	54	48	0	0	51	1.00
449194--449240	14	3.4	14	81	0	58	10	34	34	21	1.88
452289--452336	21	2.3	21	100	0	96	25	18	14	41	1.88
461569--461601	16	2.0	17	88	5	50	48	0	0	51	1.00
461872--461919	15	3.5	15	68	26	52	12	10	33	43	1.77
461869--461924	25	2.2	25	96	0	103	10	12	32	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464731--465045	157	2.0	157	100	0	630	33	17	21	27	1.96
474748--474803	2	28.5	2	96	3	105	50	0	0	50	1.00
474748--474813	23	2.9	23	88	6	73	50	1	1	46	1.20
477523--477642	57	2.1	57	88	0	177	10	13	36	40	1.78
478945--478974	2	15.0	2	100	0	60	50	0	50	0	1.00
483419--483468	14	3.7	14	82	15	61	62	2	10	26	1.38
490822--490877	27	2.1	27	89	0	85	35	26	10	26	1.89
493675--493781	34	3.1	35	87	2	162	16	35	14	33	1.89
494497--494567	21	3.2	20	74	16	52	42	1	1	54	1.17
501366--501412	25	1.9	24	82	4	58	46	0	2	51	1.13
507920--508058	60	2.3	60	86	4	183	38	16	12	33	1.86
524814--524865	3	17.3	3	79	0	50	55	0	34	9	1.32
524814--524865	21	2.5	21	90	0	86	55	0	34	9	1.32
526350--526641	149	2.0	146	91	4	482	51	5	5	37	1.49
531257--531298	20	2.1	20	95	0	75	33	26	7	33	1.83
535964--536025	23	2.9	21	85	7	81	20	35	25	17	1.95
536007--536046	21	2.0	21	85	5	55	27	37	25	10	1.88
540437--540468	12	2.7	12	100	0	64	6	25	25	43	1.77
540467--540606	42	3.3	42	93	4	212	15	21	24	39	1.91
540536--540668	62	2.1	62	100	0	266	12	22	23	41	1.88
540492--540765	104	2.6	106	90	6	412	15	21	24	38	1.92
540657--540708	21	2.5	21	100	0	104	23	17	30	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540553--540740	62	2.9	65	85	8	174	15	20	25	37	1.93
541395--541438	6	7.5	6	97	2	81	0	15	52	31	1.44
541549--541588	22	1.9	21	90	10	64	25	25	25	25	2.00
541609--541735	20	6.1	21	70	6	89	37	23	18	20	1.95
541606--541732	41	3.1	41	95	3	229	36	24	20	18	1.95
544379--544423	3	15.0	3	95	0	63	26	0	6	66	1.16
549919--550003	33	2.6	33	86	3	109	8	37	27	27	1.85
550060--550117	29	2.0	29	89	0	89	24	27	34	13	1.93
554553--554633	35	2.3	35	84	0	108	39	0	16	44	1.47
556404--556636	125	1.9	124	82	0	295	36	11	18	33	1.87

Tables:   1   2   3   4