genome.fa.s7960.2.7.7.80.10.50.1000.25.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  25  of  39  ( 4646 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)
4881858--4882008	19	7.7	20	84	7	152	34	23	11	30	1.91
4885256--4885297	6	7.0	6	88	0	66	61	19	2	16	1.44
4885818--4885842	13	1.9	13	100	0	50	0	0	40	60	0.97
4885891--4886032	61	2.3	61	90	0	221	35	10	7	47	1.65
4886060--4886141	26	2.9	27	81	13	94	46	1	6	46	1.35
4886089--4886191	18	6.1	18	67	19	60	43	5	5	44	1.52
4886089--4886201	32	3.5	32	86	4	140	42	6	6	45	1.54
4886188--4886242	18	2.8	18	86	10	65	43	5	9	41	1.59
4886118--4886249	18	7.8	17	68	24	59	43	6	6	43	1.55
4886419--4886507	7	13.1	7	72	11	53	50	3	5	40	1.42
4886408--4886519	20	5.8	18	70	20	66	48	3	6	41	1.45
4886402--4886507	20	5.2	20	71	18	85	48	4	5	41	1.48
4886402--4886506	2	49.0	2	69	17	52	47	4	5	41	1.48
4886575--4886619	23	2.0	23	82	8	56	37	13	6	42	1.70
4886726--4886783	27	2.1	27	87	6	82	50	5	8	36	1.56
4886712--4886814	20	5.2	20	71	9	68	46	3	7	41	1.51
4886851--4886940	22	4.2	22	70	16	62	41	4	7	46	1.53
4887068--4887117	22	2.3	22	86	6	66	48	6	2	44	1.39
4887075--4887398	24	13.5	24	66	19	94	45	4	4	46	1.41
4887090--4887228	11	12.7	11	65	17	67	47	3	1	47	1.28
4887275--4887325	20	2.6	20	81	3	59	39	3	7	49	1.51
4887317--4887405	2	44.5	2	76	16	87	47	1	3	48	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4887314--4887405	9	9.9	9	75	13	71	47	1	3	47	1.25
4887299--4887408	25	4.4	24	82	15	127	44	1	4	49	1.33
4887506--4888112	195	3.0	196	85	8	722	29	10	8	51	1.66
4887699--4888207	218	2.3	217	93	0	858	29	10	8	51	1.64
4890226--4890281	29	2.0	28	82	3	67	35	21	12	30	1.90
4890353--4890458	3	35.0	3	92	1	176	35	0	0	63	1.01
4890966--4891007	15	2.8	15	89	7	59	76	0	21	2	0.90
4890966--4891007	20	2.1	20	86	8	59	76	0	21	2	0.90
4903263--4903322	12	4.9	12	79	16	70	81	0	18	0	0.69
4903263--4903321	29	2.1	28	90	9	93	81	0	18	0	0.69
4903263--4903321	28	2.1	27	87	9	82	81	0	18	0	0.69
4904466--4905022	83	6.7	83	98	0	1078	25	13	24	37	1.91
4905889--4906966	113	9.5	113	90	0	1607	37	13	18	30	1.89
4905889--4906966	227	4.8	226	92	0	1625	37	13	18	30	1.89
4905889--4906966	340	3.2	340	94	0	1782	37	13	18	30	1.89
4907230--4907340	3	37.0	3	88	0	168	36	0	0	62	1.08
4907848--4907889	15	2.8	15	89	7	59	76	0	21	2	0.90
4907848--4907889	20	2.1	20	86	8	59	76	0	21	2	0.90
4909457--4909583	60	2.1	60	81	7	150	35	15	13	35	1.87
4909471--4909603	60	2.2	60	81	5	144	33	15	14	36	1.87
4922340--4922373	17	2.0	17	100	0	68	41	29	0	29	1.57
4929965--4930186	117	1.9	116	82	7	279	27	15	10	47	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4932451--4932516	29	2.3	29	76	5	71	30	22	12	34	1.91
4933296--4933352	20	2.9	19	77	15	62	68	3	5	22	1.25
4933289--4933351	29	2.1	30	85	8	85	71	3	4	20	1.18
4933867--4933964	30	3.1	31	75	7	90	42	1	3	53	1.23
4933838--4933964	65	2.0	60	80	13	139	41	3	3	51	1.33
4933915--4933999	43	2.0	43	81	9	102	52	0	3	43	1.18
4934603--4934656	21	2.5	20	75	19	56	51	5	1	40	1.36
4934779--4934821	19	2.1	21	87	8	63	27	0	4	67	1.10
4940048--4940107	31	1.9	31	93	0	102	41	8	8	41	1.65
4940573--4940634	19	3.2	20	78	15	60	61	0	0	38	0.96
4940584--4940635	19	2.9	18	81	15	63	57	0	0	42	0.98
4940614--4940694	24	3.0	26	78	21	78	54	2	0	43	1.13
4940683--4940789	12	8.7	12	69	16	58	57	2	0	38	1.19
4940626--4940785	64	2.5	63	90	6	245	57	2	0	39	1.17
4940695--4940759	24	2.5	27	82	12	82	53	1	1	43	1.19
4940747--4940797	12	4.3	12	76	18	54	66	1	0	31	1.03
4942121--4942186	33	2.0	33	100	0	132	51	15	9	24	1.72
4942637--4942671	2	17.5	2	100	0	70	48	0	0	51	1.00
4944340--4944395	18	3.1	18	92	0	85	44	25	14	16	1.84
4949053--4949104	23	2.3	23	89	0	77	32	17	15	34	1.91
4949061--4949115	23	2.4	23	90	3	85	32	20	14	32	1.92
4952323--4952361	20	1.9	21	94	5	71	30	20	12	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4952326--4952372	20	2.3	20	85	0	58	29	25	10	34	1.90
4953710--4953779	29	2.4	30	73	2	70	50	2	7	40	1.45
4956085--4956327	21	11.8	21	83	6	277	31	22	22	23	1.98
4956102--4956327	62	3.7	63	77	13	254	32	21	22	24	1.98
4956085--4956320	83	2.9	83	89	3	345	31	22	22	23	1.98
4956230--4956282	19	2.7	19	91	2	79	37	16	20	24	1.93
4956597--4956752	21	7.4	21	70	16	117	37	22	18	21	1.94
4956593--4956789	42	4.7	42	91	0	313	38	22	17	21	1.93
4961060--4961113	27	2.0	28	88	3	83	31	11	18	38	1.86
4961062--4961131	30	2.5	27	86	6	86	30	12	20	37	1.90
4961335--4961398	20	3.1	21	68	17	53	37	3	1	57	1.24
4961328--4961425	44	2.3	42	78	15	103	43	2	1	53	1.19
4961224--4961591	187	2.0	186	93	1	630	44	8	3	44	1.51
4964839--4964917	39	2.0	39	85	4	106	16	34	16	32	1.91
4966918--4967059	44	3.3	41	77	18	144	13	5	5	75	1.16
4966995--4967077	36	2.5	31	74	18	87	9	6	6	78	1.09
4966925--4967077	44	3.5	42	71	17	116	13	5	5	75	1.17
4967020--4967108	18	4.7	19	68	15	60	13	5	6	74	1.21
4967261--4967338	32	2.5	32	95	2	140	29	5	25	39	1.77
4967370--4967464	17	5.4	17	73	14	61	20	2	4	73	1.10
4967366--4967443	20	3.8	20	74	14	63	16	3	3	75	1.10
4969762--4969895	57	2.4	57	96	0	241	24	17	11	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4969957--4969990	17	2.0	17	100	0	68	29	0	11	58	1.33
4970047--4970112	22	3.0	21	82	6	78	24	9	27	39	1.85
4970080--4970140	22	2.8	22	82	9	79	26	8	24	40	1.83
4970729--4970765	19	1.9	19	94	0	65	45	2	10	40	1.53
4970966--4971011	16	2.9	16	93	0	74	30	10	28	30	1.91
4975106--4975150	10	4.8	9	81	10	54	20	26	26	26	1.99
4975106--4975143	9	3.9	10	86	13	53	21	26	23	28	1.99
4975152--4975196	12	2.9	17	69	30	55	17	46	24	11	1.81
4975158--4975190	12	2.8	12	100	0	66	18	45	24	12	1.83
4975198--4975227	7	4.3	7	100	0	60	16	30	26	26	1.97
4982382--4982449	10	6.9	9	84	12	64	17	25	23	33	1.96
4982382--4982449	11	6.8	10	85	8	77	17	25	23	33	1.96
4982414--4982482	19	3.7	19	75	9	70	14	27	28	28	1.95
4982403--4982467	29	2.2	30	89	8	98	15	24	27	32	1.95
4982414--4982482	9	7.3	9	76	14	50	14	27	28	28	1.95
4982479--4982543	22	3.0	22	90	4	105	20	46	23	10	1.81
4982534--4982563	7	4.3	7	100	0	60	16	30	26	26	1.97
4988113--4988164	18	2.8	20	86	11	67	44	0	1	53	1.11
4988134--4988234	2	50.0	2	75	11	64	49	0	7	42	1.32
4991537--4991573	17	2.1	19	85	10	51	32	0	5	62	1.18
4992040--4992118	39	2.0	39	97	0	149	55	15	7	21	1.64
4992197--4992250	28	1.9	28	96	0	99	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4992197--4992257	28	2.2	28	90	0	95	62	1	0	36	1.05
4993738--4993781	21	2.0	22	83	16	56	40	0	4	54	1.21
4999879--4999917	20	2.0	20	89	0	60	46	17	17	17	1.85
4999896--4999957	30	2.1	30	87	0	88	38	24	24	12	1.90
5001563--5001605	20	2.3	19	88	11	63	51	11	16	20	1.75
5001164--5001633	182	2.6	182	87	2	644	43	13	15	27	1.84
5002797--5002845	19	2.5	20	90	9	84	30	2	10	57	1.43
5003080--5003667	200	2.9	200	96	0	1079	35	13	18	31	1.91
5005939--5005983	23	2.0	23	86	0	63	26	28	24	20	1.99
5005962--5006263	149	2.0	149	96	0	559	34	19	17	28	1.95

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