genome.fa.s9611.2.7.7.80.10.50.1000.26.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   

This is table  26  of  27  ( 3214 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)
6387691--6388409	76	9.5	76	96	1	1316	34	22	19	23	1.96
6388412--6388918	167	3.0	168	95	2	872	37	13	12	36	1.82
6389428--6389482	22	2.5	22	88	5	85	40	14	10	34	1.81
6392024--6392475	114	4.0	114	93	0	744	31	19	15	34	1.93
6394624--6394671	22	2.0	24	84	11	64	2	18	0	79	0.84
6394624--6394667	21	2.0	22	83	12	56	2	18	0	79	0.83
6397500--6397540	14	2.9	14	86	10	57	58	9	14	17	1.62
6397501--6397550	21	2.4	22	90	6	77	58	8	14	20	1.61
6401664--6401716	3	17.0	3	84	7	70	62	0	0	37	0.96
6404026--6404094	34	2.0	34	97	0	129	49	11	10	28	1.72
6413651--6413698	22	2.1	23	92	3	80	41	16	18	22	1.90
6414591--6414615	2	12.5	2	100	0	50	0	48	0	52	1.00
6417984--6418045	3	20.7	3	100	0	124	33	0	0	66	0.92
6418425--6418482	27	2.1	29	90	6	93	27	15	15	41	1.87
6419058--6419123	30	2.2	30	91	2	107	46	10	10	31	1.72
6422057--6422091	16	2.3	15	90	5	52	25	0	2	71	1.00
6422210--6422234	12	2.1	12	100	0	50	52	8	8	32	1.60
6422469--6422507	19	2.1	19	95	0	69	20	38	15	25	1.92
6422455--6422617	65	2.5	65	82	3	204	29	26	16	27	1.97
6423962--6424174	117	1.8	117	81	8	263	49	7	16	25	1.72
6424709--6424748	20	2.0	21	85	14	57	37	15	5	42	1.68
6424708--6424752	20	2.2	20	80	11	56	40	13	4	42	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6429726--6429764	19	2.1	19	95	0	69	20	38	15	25	1.92
6429712--6429855	65	2.2	64	83	3	173	31	26	15	27	1.96
6433671--6433708	20	1.9	19	85	15	51	18	26	0	55	1.43
6435940--6436007	23	2.8	26	80	17	83	60	0	0	39	0.97
6435928--6435997	18	3.6	18	72	22	61	61	0	0	38	0.96
6435935--6436014	34	2.5	31	78	15	81	60	0	1	38	1.05
6435936--6436014	16	4.8	17	76	20	69	59	0	1	39	1.06
6450355--6450405	25	2.0	25	92	0	84	39	19	7	33	1.81
6450663--6450714	23	2.3	23	93	0	86	46	19	0	34	1.50
6451082--6451150	21	3.2	22	85	8	88	40	18	5	34	1.75
6450431--6451248	419	2.0	417	93	5	1422	40	12	8	39	1.73
6451833--6451904	3	24.0	3	78	0	72	25	34	5	34	1.79
6451833--6451919	12	7.0	12	75	7	66	22	34	6	35	1.81
6451852--6451916	30	2.2	30	88	0	94	21	35	9	33	1.85
6453471--6454604	191	5.9	196	92	7	1902	30	15	17	36	1.91
6454723--6454770	19	2.6	19	90	3	71	58	10	2	29	1.43
6456516--6456556	21	1.9	22	90	5	66	19	24	14	41	1.89
6458748--6458790	20	2.3	18	82	17	61	18	16	11	53	1.72
6458753--6458799	20	2.3	20	89	10	78	17	17	10	55	1.69
6458921--6458966	20	2.3	20	89	10	76	17	17	10	54	1.70
6459032--6459473	224	2.0	225	91	4	725	40	7	7	44	1.61
6461713--6461742	3	10.0	3	100	0	60	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6462949--6463114	83	2.0	83	96	0	305	23	25	24	26	2.00
6467689--6467722	15	2.3	15	100	0	68	5	35	26	32	1.81
6467950--6468216	55	4.8	56	79	11	286	25	27	21	25	2.00
6467974--6468216	27	8.8	27	68	17	135	24	27	22	25	2.00
6467974--6468270	109	2.7	110	83	3	330	24	26	21	26	1.99
6468936--6469100	83	2.0	83	92	0	276	25	26	20	27	1.99
6473407--6473440	12	2.8	12	90	4	50	38	29	17	14	1.90
6478531--6478594	28	2.4	28	80	17	73	28	15	7	48	1.73
6478652--6478774	51	2.4	51	89	2	176	35	37	1	25	1.66
6478652--6478777	25	5.0	25	72	7	101	37	36	1	24	1.65
6479755--6479797	12	3.7	11	78	9	50	32	0	2	65	1.06
6479749--6479915	64	2.7	62	89	7	243	41	0	1	56	1.14
6479778--6479950	65	2.7	63	86	10	185	42	1	1	55	1.15
6480429--6480488	31	1.9	31	89	0	93	45	6	5	43	1.52
6487040--6487111	33	2.2	33	92	7	128	45	11	16	26	1.81
6487284--6487309	3	8.7	3	100	0	52	30	0	0	69	0.89
6493613--6493663	20	2.5	22	81	12	63	29	1	7	60	1.36
6494123--6494187	27	2.4	27	80	14	64	41	3	0	55	1.15
6494829--6494867	16	2.4	16	95	0	69	7	17	17	56	1.64
6494882--6494944	24	2.6	24	82	0	72	53	20	12	12	1.71
6495469--6495493	2	12.5	2	100	0	50	52	0	0	48	1.00
6497094--6497118	12	2.1	12	100	0	50	16	36	0	48	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6499615--6499647	2	16.5	2	100	0	66	48	0	0	51	1.00
6499871--6499919	21	2.3	21	85	0	62	36	8	18	36	1.81
6502139--6502190	20	2.6	20	96	0	95	38	26	13	21	1.90
6502180--6502278	21	4.8	20	72	6	72	36	23	19	21	1.95
6502245--6502438	20	9.6	20	81	5	221	35	25	19	19	1.95
6502245--6502438	60	3.2	60	83	0	253	35	25	19	19	1.95
6502820--6502890	33	2.2	33	92	0	115	11	22	18	47	1.80
6503009--6503063	14	3.6	14	73	21	56	40	23	27	9	1.85
6503009--6503079	33	2.2	33	92	0	115	43	23	23	8	1.81
6503097--6503186	14	5.7	14	72	23	72	10	25	22	42	1.84
6503080--6503194	33	3.5	33	93	0	203	10	24	20	45	1.82
6503075--6503187	19	6.8	18	70	23	79	10	24	21	43	1.84
6504887--6505262	92	4.1	93	97	2	708	22	12	18	45	1.83
6505306--6505434	19	7.3	19	73	17	116	45	29	17	7	1.76
6505342--6505434	33	2.8	32	88	4	141	46	29	18	6	1.74
6505306--6505434	52	2.5	52	73	14	131	45	29	17	7	1.76
6505430--6505564	19	7.6	19	76	16	137	10	19	24	45	1.81
6505452--6505508	14	3.7	14	77	20	60	8	21	24	45	1.80
6505435--6505527	33	2.8	33	98	0	177	9	20	22	47	1.79
6507371--6507440	37	1.9	37	94	2	124	30	1	17	51	1.54
6507422--6507457	14	2.6	14	95	0	63	33	0	22	44	1.53
6507562--6507663	19	5.6	19	84	13	151	44	17	23	14	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6507692--6508000	19	17.4	19	77	18	312	14	20	17	47	1.82
6507670--6507933	52	4.9	53	79	10	299	15	20	16	47	1.82
6507850--6507887	12	2.9	14	84	15	62	13	21	10	55	1.67
6507670--6507972	126	2.4	122	83	10	416	15	21	16	47	1.82
6507692--6508000	90	3.5	90	81	11	358	14	20	17	47	1.82
6510354--6510760	20	20.5	20	84	6	468	20	18	26	34	1.96
6512871--6512908	17	2.2	18	86	13	53	71	5	7	15	1.28
6514390--6514427	19	2.1	18	85	14	51	28	21	0	50	1.49
6518937--6519283	189	1.8	189	87	6	515	39	5	9	45	1.59
6523437--6523475	15	2.7	14	84	7	51	7	25	12	53	1.65
6523443--6523474	15	2.1	15	94	0	55	6	25	15	53	1.65
6528888--6528944	25	2.2	24	82	17	71	42	5	0	52	1.24
6528898--6528953	27	2.2	24	81	12	67	41	5	0	53	1.24
6530427--6530508	29	2.7	29	75	17	78	30	10	7	51	1.64
6530820--6530868	22	2.3	22	79	10	57	34	12	2	51	1.51
6532685--6532957	20	13.5	20	73	9	124	38	22	18	20	1.94
6532746--6532955	41	5.2	41	90	1	316	38	22	18	20	1.94
6532761--6532957	40	4.9	41	91	1	308	38	22	18	20	1.94
6533034--6533073	21	1.9	21	89	0	62	20	22	17	40	1.92
6533420--6533508	20	4.4	20	82	2	117	34	24	22	17	1.96
6533513--6533613	19	5.5	19	83	12	140	46	16	20	15	1.84
6533623--6533690	19	3.8	19	72	21	74	13	22	20	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6533628--6533712	33	2.5	33	92	1	134	14	23	20	42	1.88
6533915--6534003	20	4.4	20	87	2	126	35	24	21	17	1.95
6533283--6534271	495	2.0	495	97	0	1852	32	18	19	30	1.95
6534008--6534106	19	5.4	19	82	12	136	47	17	20	15	1.83
6533995--6534108	38	3.3	33	81	14	140	45	18	21	14	1.84
6534118--6534185	20	3.8	19	75	20	83	14	22	17	45	1.85
6534125--6534218	33	2.8	34	88	3	136	13	23	20	42	1.88
6534320--6534356	14	2.6	14	86	0	56	48	21	0	29	1.50
6535720--6535821	42	2.4	42	77	3	116	23	20	33	22	1.97
6536302--6536370	20	3.5	20	87	0	93	36	21	20	21	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