genome.fa.s7926.2.7.7.80.10.50.1000.20.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  20  of  42  ( 5024 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)
4126295--4126474	18	10.0	18	70	7	87	2	19	28	48	1.63
4126293--4126473	72	2.5	72	86	3	231	2	19	29	48	1.63
4126293--4126473	36	5.0	36	80	3	186	2	19	29	48	1.63
4130816--4130875	2	30.0	2	100	0	120	50	0	0	50	1.00
4134499--4134573	30	2.6	29	76	6	80	41	10	10	37	1.75
4134551--4134596	24	1.9	24	86	0	65	52	13	6	28	1.65
4136608--4136711	51	2.0	51	94	0	181	54	12	11	21	1.68
4143483--4143564	29	2.8	29	88	1	110	32	13	9	43	1.77
4144799--4144849	24	2.1	24	81	0	57	25	11	49	13	1.76
4145456--4145484	15	1.9	15	100	0	58	20	20	17	41	1.90
4148187--4148268	29	2.8	29	86	1	110	32	12	10	43	1.77
4158874--4158898	13	1.9	13	100	0	50	36	0	0	64	0.94
4159198--4159238	15	2.9	15	79	17	52	58	0	0	41	0.98
4169388--4169430	21	2.0	22	82	13	54	44	0	4	51	1.22
4169583--4169641	31	1.9	31	86	6	84	20	25	11	42	1.86
4184851--4184957	33	3.3	33	88	1	135	22	20	17	39	1.93
4194863--4195213	128	2.7	128	96	0	648	20	24	21	33	1.97
4195617--4195717	34	3.0	34	86	0	148	38	3	3	53	1.38
4196898--4196955	22	2.5	23	83	10	66	58	6	1	32	1.35
4197860--4197914	17	3.2	17	78	0	56	58	3	0	38	1.16
4198059--4198138	32	2.3	37	81	14	98	60	0	0	40	0.97
4200983--4201043	31	2.0	31	100	0	122	36	11	13	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4202814--4202935	52	2.5	47	75	18	133	25	13	13	47	1.79
4202843--4203002	52	3.1	52	86	2	205	26	13	11	48	1.75
4206519--4206548	12	2.5	12	94	0	51	26	30	6	36	1.82
4206627--4206655	13	2.1	14	93	6	51	34	3	13	48	1.60
4206941--4206995	29	1.9	28	85	3	74	43	14	1	40	1.56
4213566--4213600	3	11.0	3	88	11	52	34	0	0	65	0.93
4213566--4213600	16	2.2	16	94	0	61	34	0	0	65	0.93
4213561--4213600	13	3.1	13	85	10	55	37	0	0	62	0.95
4213566--4213610	19	2.4	19	88	7	65	33	2	0	64	1.06
4214553--4214593	21	2.0	21	85	9	57	21	17	0	60	1.35
4215673--4215729	22	2.8	21	76	15	66	43	1	0	54	1.10
4215690--4215754	19	3.4	19	70	16	53	44	3	3	49	1.33
4215674--4215755	40	2.1	39	84	11	105	46	2	2	48	1.28
4216065--4216089	5	5.0	5	100	0	50	40	0	0	60	0.97
4218049--4218124	35	2.2	35	87	0	116	39	22	1	36	1.63
4218678--4218724	23	2.1	21	88	7	67	31	14	17	36	1.90
4218524--4218782	130	2.0	129	80	6	290	38	13	13	33	1.84
4219222--4219255	16	2.0	18	88	11	54	64	5	2	26	1.30
4220905--4220942	18	2.1	18	100	0	76	47	31	21	0	1.51
4221385--4221443	31	1.9	31	92	0	100	42	5	8	44	1.57
4221467--4221545	22	3.6	22	96	3	142	51	6	0	41	1.27
4221510--4221559	12	4.3	12	72	10	50	52	2	2	44	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4236312--4236344	10	3.2	10	91	8	57	87	0	12	0	0.53
4236312--4236344	11	3.1	11	86	4	50	87	0	12	0	0.53
4237393--4237435	6	6.8	6	97	2	68	13	0	0	86	0.58
4238508--4238574	31	2.2	31	88	0	98	34	11	7	46	1.69
4238515--4238582	31	2.2	31	89	0	100	32	14	7	45	1.73
4243301--4243327	10	2.7	10	100	0	54	11	0	62	25	1.28
4246932--4246961	2	15.5	2	93	6	53	50	0	0	50	1.00
4249858--4249892	16	2.2	16	94	0	61	42	17	8	31	1.79
4250202--4250362	40	4.1	40	96	1	288	24	16	26	33	1.95
4250202--4250362	79	2.0	80	95	1	288	24	16	26	33	1.95
4250467--4250816	45	7.8	45	92	0	549	40	6	22	30	1.80
4252234--4252358	47	2.8	45	85	6	171	31	23	8	36	1.85
4252463--4252544	40	2.0	40	100	0	164	32	26	17	23	1.96
4252761--4252865	27	3.9	27	92	2	174	33	14	17	35	1.90
4252761--4252865	55	1.9	55	94	0	183	33	14	17	35	1.90
4257922--4257950	6	4.8	6	100	0	58	31	34	17	17	1.93
4259656--4259780	47	2.8	45	85	6	171	31	23	8	36	1.85
4259885--4260006	40	3.0	40	100	0	244	32	27	17	22	1.96
4266176--4266214	20	2.0	20	84	0	51	23	7	23	46	1.78
4266369--4266430	22	3.0	21	78	4	63	14	24	38	22	1.91
4270176--4270228	21	2.6	21	82	11	65	35	9	1	52	1.45
4272195--4272271	10	7.5	10	71	11	57	79	2	15	2	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4272195--4272242	23	2.0	24	88	4	71	83	2	14	0	0.74
4272203--4272272	30	2.4	29	79	9	81	77	1	18	2	0.97
4272205--4272272	6	11.8	6	74	13	54	77	1	17	2	0.96
4274565--4274626	2	31.0	2	96	0	115	48	0	1	50	1.10
4274565--4274639	8	9.4	8	94	0	78	46	0	4	49	1.20
4275195--4275284	32	2.8	32	79	11	105	33	16	16	33	1.92
4275193--4275301	31	3.5	31	72	9	96	30	16	17	35	1.92
4275196--4275317	63	2.0	61	83	8	156	30	17	18	33	1.94
4275279--4275353	30	2.5	30	78	6	80	20	16	26	37	1.93
4278787--4278988	40	5.1	40	97	0	377	23	16	26	33	1.96
4279093--4279392	45	6.7	45	87	0	431	41	7	20	31	1.79
4288760--4288819	27	2.2	28	79	8	70	11	21	5	61	1.49
4289681--4289719	17	2.4	17	95	4	71	51	5	0	43	1.24
4289783--4289807	11	2.3	11	100	0	50	40	0	8	52	1.31
4294043--4294084	21	2.0	21	95	0	75	45	14	16	23	1.84
4298698--4298745	21	2.3	21	96	0	87	41	12	18	27	1.86
4300464--4300529	33	2.0	32	88	2	96	66	4	1	27	1.20
4300465--4300518	14	3.4	15	78	19	56	68	3	1	25	1.16
4300489--4300518	7	4.1	7	95	4	51	70	3	0	26	1.03
4302731--4302789	31	1.9	31	85	0	82	37	6	8	47	1.61
4303103--4303134	14	2.1	16	88	11	50	40	0	18	40	1.51
4306238--4306298	3	20.3	3	100	0	122	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)
4308972--4309001	2	15.0	2	100	0	60	50	0	0	50	1.00
4312655--4312706	24	2.0	28	85	14	76	44	0	0	55	0.99
4312652--4312722	27	2.6	27	77	18	67	45	0	0	54	0.99
4314736--4314771	2	18.0	2	100	0	72	50	0	0	50	1.00
4318705--4318746	21	2.0	21	86	9	59	47	0	9	42	1.36
4325636--4325683	19	2.6	19	96	3	89	20	47	4	27	1.68
4339450--4339898	229	2.0	227	94	0	790	44	7	7	39	1.61
4339964--4340009	20	2.3	19	85	10	65	56	10	15	17	1.67
4340131--4340177	20	2.4	19	82	10	67	53	10	17	19	1.72
4340140--4340182	20	2.3	19	88	11	63	51	11	16	20	1.75
4342409--4342473	21	3.1	21	80	6	69	40	15	29	15	1.88
4342507--4342572	33	2.0	33	87	0	96	28	0	46	24	1.52
4344359--4344407	19	2.6	19	93	0	80	30	2	10	57	1.43
4344532--4346010	198	7.5	198	97	0	2811	36	15	16	31	1.90
4344532--4346010	394	3.7	395	98	0	2825	36	15	16	31	1.90
4347469--4347530	18	3.4	18	79	0	79	37	9	35	17	1.83
4347469--4347554	6	14.3	6	77	0	64	37	8	34	19	1.82
4347484--4347558	3	25.0	3	73	0	60	36	6	34	22	1.81
4347472--4347550	36	2.2	36	90	0	122	35	8	35	20	1.84
4347472--4347554	12	6.9	12	83	0	94	36	8	34	20	1.83
4348973--4349017	22	2.0	22	82	0	54	40	8	11	40	1.72
4349024--4349870	183	4.6	183	96	0	1552	34	14	15	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4353428--4353456	14	2.0	15	93	6	51	13	13	17	55	1.70
4353721--4353776	23	2.4	23	87	0	76	14	7	16	62	1.52
4353736--4353776	13	3.4	13	74	19	52	12	7	19	60	1.54
4353737--4353787	23	2.2	23	92	0	84	11	9	17	60	1.57
4357999--4358028	14	2.1	14	93	0	51	10	26	10	53	1.66
4359810--4359861	21	2.5	21	81	3	61	38	19	25	17	1.93
4359850--4359963	20	5.7	20	83	6	113	31	25	18	24	1.97
4359847--4359963	61	1.9	61	85	0	162	33	24	17	23	1.97
4360532--4360735	19	11.1	19	77	13	185	13	21	21	44	1.86
4360623--4360710	33	2.6	33	89	1	122	13	25	23	37	1.92

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