genome.fa.s1547.2.7.7.80.10.50.1000.47.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  47  of  51  ( 6083 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)
9151385--9151426	17	2.5	17	88	0	57	21	19	23	35	1.96
9151517--9151679	38	4.4	38	75	12	119	42	6	3	47	1.45
9151554--9151814	64	4.0	62	76	16	217	41	6	3	48	1.44
9151517--9151692	73	2.4	73	80	11	182	42	7	3	46	1.48
9151583--9151692	37	2.9	37	82	5	150	42	9	4	43	1.56
9151659--9151716	25	2.3	24	85	2	71	44	8	5	41	1.57
9151512--9151807	36	8.7	33	67	24	127	41	6	3	48	1.45
9151716--9151781	28	2.5	25	88	11	96	43	6	0	50	1.27
9151623--9151815	64	3.0	63	84	5	248	41	6	3	48	1.45
9152344--9152714	85	4.3	85	80	3	395	27	19	19	33	1.96
9152344--9152715	170	2.2	172	85	3	484	27	19	19	33	1.96
9153690--9153719	14	2.1	14	100	0	60	43	13	6	36	1.70
9158502--9158593	29	3.2	29	92	1	150	30	3	22	43	1.69
9163307--9163339	15	2.2	15	89	10	50	69	3	0	27	1.03
9164848--9164919	3	24.7	3	91	5	121	63	0	0	36	0.94
9165294--9165460	91	1.8	92	87	3	248	23	20	13	42	1.87
9165157--9165594	227	2.0	221	87	4	637	25	20	16	36	1.94
9165386--9165734	136	2.6	135	93	1	583	22	21	18	36	1.95
9166566--9166626	22	2.8	20	85	9	68	9	9	0	80	0.91
9166579--9166626	7	6.7	7	88	4	69	10	6	0	83	0.81
9166566--9166627	14	4.2	14	81	8	70	9	11	0	79	0.95
9178769--9178801	15	2.2	15	89	10	50	69	3	0	27	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9179027--9179070	22	2.0	22	95	0	79	56	9	11	22	1.62
9180135--9180180	3	15.7	3	90	4	76	63	0	0	36	0.95
9184203--9184260	29	2.0	28	93	3	98	31	1	22	44	1.63
9184216--9184277	28	2.2	29	85	2	81	38	0	19	41	1.51
9197487--9197566	21	3.8	21	79	11	67	16	25	36	22	1.94
9197509--9197568	19	2.9	20	85	9	68	16	26	35	21	1.95
9205939--9206088	63	2.4	63	81	9	182	27	22	18	32	1.97
9206100--9206298	92	2.2	93	82	2	249	33	19	18	29	1.95
9206432--9207241	36	22.5	34	74	10	119	42	16	19	21	1.89
9206395--9207241	72	11.8	72	85	2	932	42	16	18	21	1.89
9207035--9207204	36	4.8	33	87	6	133	38	20	20	20	1.93
9207419--9207455	3	12.7	3	88	5	58	37	0	0	62	0.96
9207476--9207526	20	2.5	20	96	0	93	29	23	25	21	1.99
9208811--9208843	2	17.0	2	87	6	50	48	3	0	48	1.17
9215985--9216134	36	4.1	36	88	0	219	36	18	19	26	1.94
9216147--9216415	55	4.9	55	83	2	288	31	17	23	27	1.97
9228077--9228139	18	3.3	18	77	12	72	25	20	28	25	1.99
9228079--9228153	39	1.9	39	91	0	123	26	21	28	24	1.99
9228810--9228853	22	2.0	22	91	4	72	15	25	34	25	1.95
9230010--9230045	2	18.0	2	100	0	72	50	0	0	50	1.00
9230579--9230657	42	1.9	41	85	12	108	40	0	5	54	1.22
9231070--9231102	14	2.3	15	89	5	50	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9232965--9232991	2	13.5	2	100	0	54	48	0	0	51	1.00
9233543--9233572	14	2.1	14	100	0	60	43	13	6	36	1.70
9233902--9233935	17	1.9	17	88	5	50	41	14	5	38	1.70
9236327--9236378	21	2.4	21	90	3	77	23	25	23	28	1.99
9239719--9239790	12	6.0	12	79	12	60	18	15	18	48	1.81
9239723--9239793	24	3.0	24	79	6	81	16	14	18	50	1.78
9239725--9239795	36	2.0	36	85	0	97	16	14	18	50	1.78
9239681--9239794	48	2.4	48	77	5	115	20	14	15	49	1.80
9240798--9240844	6	7.8	6	81	9	51	36	19	2	42	1.63
9240798--9240845	18	2.7	18	81	12	62	35	18	4	41	1.70
9241024--9241084	22	2.8	22	77	2	70	26	22	19	31	1.98
9241804--9241846	21	2.0	21	95	0	77	39	16	4	39	1.69
9245495--9245527	3	11.0	3	93	0	57	63	0	0	36	0.95
9245496--9245626	40	3.3	38	73	20	101	62	1	2	33	1.17
9246922--9246992	3	24.3	3	86	13	96	69	1	0	29	0.98
9246922--9246991	36	1.9	36	91	5	115	68	1	0	30	0.98
9247005--9247093	5	17.8	5	100	0	178	60	0	20	19	1.36
9247459--9248273	123	6.7	124	87	6	1066	26	19	14	39	1.90
9247459--9248144	370	1.9	371	91	0	1133	26	19	14	39	1.90
9248057--9248277	113	2.0	111	90	5	347	28	18	15	38	1.91
9248564--9248627	22	2.9	22	88	6	94	40	14	9	35	1.78
9249600--9249651	15	3.4	15	89	7	70	7	15	0	76	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9253721--9253769	11	4.1	11	76	19	53	26	38	4	30	1.75
9256966--9256999	15	2.3	15	100	0	68	47	5	20	26	1.73
9260592--9260626	17	2.1	17	89	5	54	42	0	0	57	0.99
9260592--9260644	22	2.4	22	78	6	54	43	0	1	54	1.11
9260947--9260985	2	19.5	2	100	0	78	48	0	0	51	1.00
9262417--9262484	3	23.0	3	85	11	88	67	1	0	30	0.99
9262417--9262484	28	2.4	29	90	4	104	67	1	0	30	0.99
9262494--9262571	5	15.6	5	98	0	102	61	11	19	7	1.53
9264264--9264291	14	2.0	14	100	0	56	35	14	7	42	1.73
9265305--9265374	21	3.3	21	97	0	131	45	11	22	20	1.82
9265305--9265389	21	4.0	21	88	11	106	47	9	21	22	1.79
9265919--9266206	59	4.9	59	88	0	407	30	5	17	46	1.71
9265944--9266153	30	7.1	29	64	20	87	30	5	17	47	1.69
9265919--9266206	117	2.4	118	87	1	409	30	5	17	46	1.71
9267903--9267936	12	2.8	12	86	0	50	79	14	5	0	0.91
9268753--9268818	2	33.0	2	100	0	132	50	0	0	50	1.00
9268902--9268959	18	3.3	18	63	18	50	22	6	6	63	1.43
9268877--9268964	34	2.5	35	90	5	133	26	4	5	63	1.36
9269150--9269183	18	1.9	18	88	5	52	41	5	8	44	1.60
9271696--9271784	45	2.0	45	93	2	153	22	28	21	28	1.99
9273785--9273811	12	2.2	12	100	0	54	14	44	25	14	1.84
9276349--9276520	57	3.0	57	86	3	220	16	18	29	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9278596--9278651	2	28.0	2	100	0	112	50	0	0	50	1.00
9281356--9281417	2	30.5	2	96	3	115	48	1	0	50	1.10
9285757--9285855	22	4.7	22	90	4	134	27	28	19	25	1.98
9290254--9290282	8	3.6	8	100	0	58	24	0	37	37	1.56
9291986--9292019	2	17.0	2	100	0	68	50	0	0	50	1.00
9292402--9292477	40	1.9	40	84	15	104	40	0	5	53	1.23
9292746--9292784	20	2.0	20	100	0	78	41	15	7	35	1.76
9294891--9294930	2	20.0	2	100	0	80	50	0	0	50	1.00
9295480--9295509	14	2.1	14	100	0	60	43	13	6	36	1.70
9299255--9299338	24	3.5	24	76	15	84	30	15	15	38	1.89
9299297--9299376	40	2.0	40	90	2	126	35	13	11	40	1.81
9301962--9302056	24	4.0	24	77	0	91	21	11	15	51	1.75
9301965--9302056	48	1.9	48	86	0	130	20	11	15	52	1.74
9303048--9303094	6	7.8	6	81	9	51	36	19	2	42	1.63
9303048--9303095	18	2.7	18	81	12	62	35	18	4	41	1.70
9303270--9303322	22	2.4	22	87	0	79	20	22	16	39	1.92
9304055--9304097	21	2.0	21	100	0	86	39	18	4	37	1.72
9307399--9307721	146	2.1	148	80	11	375	47	7	6	39	1.57
9307747--9307801	10	5.4	11	75	16	64	63	1	0	34	1.05
9308787--9308823	12	3.3	12	78	21	53	59	0	0	40	0.97
9308896--9308972	29	2.6	29	87	2	109	46	14	6	32	1.70
9308872--9309090	117	1.9	117	90	1	350	42	12	10	33	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9309013--9309089	29	2.6	29	85	6	93	48	11	5	35	1.62
9309026--9309089	29	2.2	29	88	5	94	48	9	4	37	1.56
9314920--9315013	47	2.0	47	85	2	125	31	14	18	35	1.91
9320910--9321680	220	3.5	217	89	2	1159	39	12	13	33	1.83
9320910--9321680	73	10.6	73	88	2	1122	39	12	13	33	1.83
9321683--9321959	111	2.5	112	88	4	416	43	12	15	28	1.84
9321683--9321981	113	2.7	111	89	2	438	42	12	15	29	1.84
9323477--9323537	5	10.8	5	78	16	50	72	4	3	19	1.18
9323475--9323532	24	2.5	24	83	10	84	70	5	3	20	1.21
9329543--9329593	21	2.4	21	100	0	102	37	11	19	31	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51