genome.fa.s8245.2.7.7.80.10.50.1000.24.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  24  of  33  ( 3922 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)
4853032--4853289	5	53.4	5	65	19	61	13	10	2	73	1.18
4852968--4853168	74	2.7	74	76	11	180	16	6	2	74	1.13
4853032--4853269	83	2.9	81	76	16	195	13	10	2	73	1.20
4853076--4853187	52	2.2	51	85	10	149	15	5	3	75	1.11
4853235--4853300	20	3.2	20	78	10	53	16	12	0	71	1.15
4859636--4859921	64	4.5	64	88	3	404	36	21	12	29	1.90
4860000--4860222	109	2.0	109	91	1	358	34	26	13	24	1.93
4861542--4861764	41	5.7	38	73	16	152	14	4	2	78	1.02
4861542--4861855	19	15.4	20	67	17	114	13	7	1	76	1.08
4861586--4861715	7	16.8	8	77	20	59	14	3	2	79	0.98
4861540--4861774	65	3.7	64	76	16	193	14	5	2	77	1.06
4861538--4861718	56	3.2	56	75	18	148	15	3	2	78	0.99
4861599--4861781	44	4.1	44	76	16	134	12	6	2	78	1.03
4861609--4861768	40	3.9	41	77	15	127	12	6	2	78	1.03
4861553--4861755	96	2.1	96	79	10	222	14	4	2	78	1.02
4861553--4861873	9	33.9	9	69	18	131	13	8	1	76	1.08
4861582--4861751	4	42.0	4	69	20	70	15	4	2	78	1.01
4861817--4861855	15	2.6	14	88	12	51	15	5	0	79	0.90
4869665--4869785	62	2.0	62	96	0	224	37	4	22	35	1.76
4877553--4877601	24	2.0	24	96	0	89	42	10	12	34	1.76
4877912--4877976	31	2.1	31	88	0	94	21	26	16	35	1.95
4880002--4880078	31	2.5	31	86	0	109	25	22	12	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4880989--4881034	15	2.8	17	87	12	69	32	4	32	30	1.77
4881594--4881681	34	2.6	33	82	8	106	44	35	9	11	1.72
4881596--4881798	110	1.8	111	85	3	284	38	32	9	18	1.84
4881596--4881823	110	2.1	111	81	7	268	39	31	10	18	1.84
4882559--4882586	2	14.0	2	100	0	56	50	0	0	50	1.00
4882910--4883091	37	4.7	37	80	10	177	43	11	3	40	1.59
4882910--4883091	38	4.7	38	81	6	204	43	11	3	40	1.59
4884453--4884557	50	2.1	51	89	1	158	42	11	15	30	1.82
4888020--4888057	20	1.9	20	88	0	58	26	10	31	31	1.90
4888619--4888652	2	17.0	2	100	0	68	50	0	0	50	1.00
4889432--4889494	26	2.4	26	97	0	117	39	0	6	53	1.26
4889487--4889529	15	2.7	16	85	10	61	37	0	0	62	0.95
4890440--4890487	20	2.3	20	76	16	53	41	4	2	52	1.32
4891216--4891256	21	2.0	21	100	0	82	36	34	14	14	1.87
4894140--4894258	60	2.0	60	86	3	168	26	18	24	31	1.98
4897196--4897240	6	7.5	6	84	0	54	17	2	44	35	1.62
4898006--4898068	15	4.0	15	74	25	67	39	28	3	28	1.72
4899599--4899671	36	2.0	36	97	0	137	32	34	9	23	1.87
4900385--4900542	21	7.8	20	72	7	86	38	25	17	18	1.92
4900509--4900738	20	11.5	20	80	5	223	36	24	18	20	1.94
4901641--4901665	12	2.1	12	100	0	50	72	0	28	0	0.86
4903945--4904179	19	13.4	19	78	16	267	46	17	22	12	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4903945--4904201	33	7.5	33	72	19	204	46	17	22	12	1.83
4903945--4904201	52	4.9	52	97	0	487	46	17	22	12	1.83
4904208--4904289	38	2.3	35	84	13	114	14	23	18	43	1.86
4904226--4904289	19	3.4	19	100	0	128	15	20	17	46	1.83
4904396--4904432	14	2.6	14	91	0	65	45	21	0	32	1.52
4906364--4906420	19	3.0	20	87	7	82	49	24	15	10	1.76
4906371--4906489	19	6.8	18	74	18	101	47	25	18	8	1.76
4906392--4906484	33	2.8	33	91	0	150	48	24	18	8	1.76
4906411--4906467	14	3.7	14	72	20	51	45	28	19	7	1.76
4906371--4906489	52	2.3	52	79	16	131	47	25	18	8	1.76
4906485--4906612	19	7.3	19	73	19	116	8	16	28	46	1.76
4906485--4906575	32	2.8	34	90	6	143	7	17	28	46	1.76
4906660--4907120	91	5.1	93	95	3	841	45	19	13	21	1.84
4906660--4907120	183	2.5	184	95	3	837	45	19	13	21	1.84
4908818--4908907	14	5.7	14	72	23	72	44	22	24	8	1.81
4908810--4908923	33	3.5	33	97	1	212	46	20	22	10	1.81
4908832--4908928	14	5.7	19	69	23	81	44	21	22	11	1.84
4908940--4908996	14	3.7	14	72	20	51	12	22	22	42	1.87
4908937--4909001	33	2.0	33	96	0	121	12	23	21	43	1.86
4908953--4909001	14	2.9	17	72	27	59	14	20	20	44	1.86
4908980--4909057	41	1.9	41	94	0	138	14	24	16	44	1.84
4908981--4909056	21	3.7	21	82	3	100	13	23	17	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4909134--4909204	33	2.2	33	92	0	115	47	18	22	11	1.80
4909386--4909440	22	2.5	22	81	0	74	20	16	40	23	1.91
4909587--4909780	20	9.6	20	78	7	187	20	18	25	36	1.95
4909587--4909780	60	3.2	60	78	6	221	20	18	25	36	1.95
4909767--4909849	21	4.0	21	73	6	78	25	16	24	33	1.96
4909747--4909845	42	2.4	43	77	11	100	21	18	23	37	1.94
4911872--4911994	60	2.0	60	84	0	156	31	15	13	39	1.87
4912950--4913058	35	3.1	35	68	11	107	41	2	7	48	1.45
4912939--4913077	69	2.0	70	97	1	262	42	2	7	46	1.47
4916435--4916548	41	2.8	40	86	4	165	36	25	16	21	1.94
4916415--4916573	20	7.8	20	74	15	130	37	25	17	20	1.94
4916524--4916574	21	2.4	21	86	0	66	39	25	19	15	1.91
4917548--4917606	21	2.8	21	92	0	91	23	37	27	11	1.90
4917713--4917883	20	8.6	20	77	8	127	20	14	26	38	1.91
4917794--4917883	19	4.6	19	79	9	83	23	11	28	36	1.89
4921719--4921767	25	2.0	25	87	0	71	32	0	8	59	1.27
4928849--4928944	35	2.7	35	83	3	122	40	27	2	30	1.68
4929059--4929154	46	2.1	46	94	0	165	28	9	18	43	1.81
4932740--4932801	20	2.9	21	80	9	63	16	25	35	22	1.94
4938124--4938174	20	2.5	20	100	0	102	19	25	35	19	1.95
4939071--4939282	103	2.1	103	91	1	345	24	5	28	42	1.76
4939254--4939370	36	3.3	36	90	5	184	34	1	21	42	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4950025--4950342	158	2.0	158	98	0	609	32	11	32	23	1.91
4951692--4951803	59	1.9	59	88	0	170	41	13	18	25	1.87
4955999--4956053	3	18.7	3	92	3	94	32	1	0	65	1.03
4956495--4957098	301	2.0	299	94	0	1046	35	10	20	33	1.86
4957083--4957284	55	3.7	55	94	0	350	34	11	18	35	1.88
4957074--4957317	110	2.3	109	85	2	314	36	12	18	32	1.88
4957498--4958159	68	9.8	68	88	1	916	31	14	24	29	1.94
4958109--4958346	81	3.0	80	88	1	325	36	11	22	29	1.89
4958374--4958635	45	5.8	45	87	5	384	47	7	20	24	1.76
4958373--4958634	91	2.9	91	91	0	427	47	7	20	24	1.76
4958534--4958606	23	3.2	23	69	18	71	50	4	17	27	1.64
4958556--4958630	22	3.4	22	67	10	62	49	8	21	21	1.75
4958374--4958694	136	2.4	135	83	6	353	45	8	21	24	1.80
4961724--4961794	15	4.5	15	70	20	56	56	8	29	5	1.52
4961724--4961796	33	2.2	33	95	0	128	57	8	28	5	1.50
4961741--4961796	18	3.3	18	73	14	64	58	7	28	5	1.46
4966663--4966695	12	2.6	13	90	4	50	33	12	9	45	1.73
4972203--4972254	20	2.6	19	90	6	77	32	17	30	19	1.95
4972277--4972317	19	2.2	19	86	0	55	34	14	24	26	1.94
4972495--4972654	55	2.9	54	87	2	232	37	10	18	34	1.84
4972863--4973472	68	9.0	68	91	0	965	29	13	26	30	1.94
4972863--4973634	135	5.5	136	86	6	967	30	13	25	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4973405--4973641	81	2.9	81	94	0	402	35	13	22	29	1.92
4973669--4973928	45	5.8	45	85	8	375	48	7	21	23	1.75
4973669--4973922	136	1.9	135	90	5	406	47	7	21	23	1.76
4973850--4973924	22	3.4	22	68	17	64	48	8	21	22	1.76
4973669--4973981	90	3.5	91	86	3	416	46	7	21	23	1.77
4973669--4973988	136	2.4	136	83	5	337	46	7	21	24	1.78
4976511--4976561	23	2.5	20	81	12	59	49	1	3	45	1.32
4979309--4979384	12	6.4	11	72	15	53	77	3	14	3	1.06
4979310--4979388	16	4.9	16	78	9	65	77	3	15	3	1.06
4979309--4979386	14	5.3	14	68	15	50	78	3	14	3	1.04

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