genome.fa.s9605.2.7.7.80.10.50.1000.23.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   

This is table  23  of  35  ( 4090 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)
5320724--5320805	29	2.8	29	88	1	119	32	13	10	42	1.79
5325475--5325556	29	2.8	29	88	1	119	32	13	10	42	1.79
5326437--5326497	31	2.0	31	100	0	122	19	13	26	40	1.88
5331272--5331711	45	9.8	45	89	0	630	32	19	9	39	1.83
5332161--5332231	19	3.5	22	81	14	80	35	22	11	30	1.89
5333165--5333237	32	2.3	32	88	4	103	20	28	24	26	1.99
5333468--5333553	30	2.8	32	80	10	97	24	23	23	29	1.99
5335589--5335634	23	2.0	24	91	4	76	34	13	19	32	1.90
5335739--5337388	118	14.6	117	72	13	1092	36	13	16	33	1.88
5335576--5336149	226	2.5	226	88	2	841	36	14	15	33	1.88
5336091--5337514	225	6.3	225	89	1	2072	36	13	16	33	1.88
5336091--5337514	673	2.1	674	89	2	2171	36	13	16	33	1.88
5337684--5337713	14	2.1	14	100	0	60	36	0	13	50	1.42
5337818--5337847	13	2.2	14	94	5	53	23	20	6	50	1.71
5339796--5339836	19	2.1	19	86	4	55	21	26	4	46	1.72
5340265--5340296	2	16.0	2	100	0	64	50	0	0	50	1.00
5341204--5341447	55	4.5	55	85	1	319	36	18	14	29	1.91
5341204--5341447	110	2.2	109	90	0	371	36	18	14	29	1.91
5346224--5346496	55	5.0	55	87	0	366	34	16	17	31	1.92
5354828--5354902	33	2.3	33	97	0	141	21	46	17	14	1.83
5360217--5360269	20	2.7	20	88	2	72	37	5	16	39	1.73
5367913--5368044	42	3.2	41	85	8	180	28	25	25	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5369982--5370078	46	2.1	47	82	5	117	23	22	20	32	1.98
5378412--5378469	22	2.6	23	83	8	75	62	3	0	34	1.12
5384812--5384847	14	2.3	17	86	13	51	61	13	0	25	1.33
5384823--5384866	22	2.0	22	82	4	54	63	9	2	25	1.35
5394039--5394076	20	1.9	20	89	10	60	28	0	34	36	1.58
5395825--5395887	19	3.4	18	84	6	65	44	7	15	31	1.76
5395835--5395887	19	2.8	19	85	2	72	47	5	15	32	1.68
5397130--5397673	54	10.1	54	87	1	707	33	13	15	38	1.85
5401275--5401320	13	3.5	13	84	0	56	30	21	17	30	1.96
5401297--5401339	13	3.3	13	93	0	68	27	18	13	39	1.89
5405209--5405378	91	1.9	91	86	2	243	48	11	13	25	1.76
5406110--5406618	253	2.0	254	99	0	1011	35	11	20	32	1.89
5409258--5409631	54	6.9	54	87	0	507	32	13	15	37	1.87
5409250--5409631	162	2.4	162	90	1	568	32	14	15	37	1.87
5410179--5410232	19	2.8	19	72	10	56	53	0	22	24	1.46
5410181--5410232	13	4.1	13	82	5	70	53	0	23	23	1.46
5411775--5411819	22	2.0	22	86	0	63	46	11	4	37	1.60
5414383--5414589	75	2.7	74	84	4	245	24	30	23	21	1.99
5422257--5422307	9	6.2	8	76	19	52	13	0	27	58	1.36
5422259--5422302	17	2.6	17	85	7	63	13	0	29	56	1.38
5422577--5422619	21	2.0	21	100	0	86	37	0	32	30	1.58
5422906--5423115	75	2.8	75	86	1	278	25	31	23	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5426881--5426913	11	2.8	12	90	4	50	9	30	0	60	1.27
5429901--5429983	21	4.0	21	87	0	112	31	20	19	28	1.97
5430994--5431042	18	2.7	18	96	0	89	32	0	14	53	1.41
5437370--5437777	136	3.0	138	81	2	480	27	16	25	30	1.96
5440758--5440815	23	2.5	24	83	8	75	0	27	3	68	1.05
5442092--5442136	22	2.1	22	88	12	67	66	4	0	28	1.11
5442095--5442146	21	2.3	23	80	16	63	67	1	0	30	1.02
5443491--5443558	3	22.0	3	85	5	91	60	0	1	38	1.06
5448824--5448857	13	2.6	13	85	0	50	50	0	0	50	1.00
5451965--5452024	29	2.0	31	83	6	79	43	0	13	43	1.43
5452429--5452470	17	2.5	17	77	11	50	69	4	0	26	1.08
5454570--5454665	27	3.5	27	73	15	81	29	0	2	68	1.01
5454590--5454654	21	3.2	20	80	8	78	30	0	3	66	1.07
5454569--5454661	28	3.4	26	74	11	80	30	0	2	67	1.02
5462016--5462147	66	2.0	66	100	0	264	31	22	12	33	1.91
5464494--5464542	24	2.0	24	92	0	80	32	14	10	42	1.79
5465655--5465712	27	2.1	28	84	9	75	46	13	17	22	1.83
5465712--5465750	20	2.0	20	90	5	62	20	15	20	43	1.88
5465795--5465840	12	3.6	12	81	16	56	45	17	19	17	1.85
5465801--5465841	12	3.1	13	80	19	57	46	14	17	21	1.84
5468143--5468182	21	1.9	21	94	0	71	30	15	7	47	1.72
5468177--5468275	33	3.0	33	92	1	155	32	6	15	46	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5468261--5468315	13	4.2	13	75	13	58	34	3	12	49	1.59
5468511--5468588	21	3.7	21	94	0	129	21	25	25	26	2.00
5468756--5468810	17	3.6	15	81	11	67	30	12	12	43	1.80
5468774--5468807	17	2.0	17	100	0	68	35	11	11	41	1.78
5468901--5468932	16	2.0	17	88	11	50	43	21	21	12	1.86
5472403--5472446	6	7.3	6	89	0	70	20	29	0	50	1.49
5473874--5473914	2	20.5	2	94	0	73	51	2	0	46	1.14
5475534--5475662	31	4.3	31	77	13	108	19	12	17	51	1.76
5480187--5480235	20	2.5	19	77	6	53	32	14	4	48	1.62
5487075--5487105	15	2.1	15	100	0	62	38	25	16	19	1.92
5497991--5498022	14	2.3	14	100	0	64	40	0	0	59	0.97
5498007--5498045	18	2.2	18	85	0	51	41	2	0	56	1.13
5510636--5511660	182	5.6	182	92	1	1589	42	15	15	26	1.87
5517696--5517745	23	2.2	23	88	0	73	32	16	12	40	1.84
5517573--5518091	158	3.3	157	91	3	828	32	13	12	41	1.81
5517854--5517903	23	2.2	23	88	0	73	32	18	10	40	1.83
5518002--5518052	23	2.2	23	89	0	75	31	21	9	37	1.86
5518012--5518061	23	2.2	23	92	0	82	32	18	12	38	1.87
5518089--5518139	23	2.2	23	89	0	75	33	19	7	39	1.81
5517994--5518161	87	1.9	87	95	0	300	32	14	10	42	1.80
5519991--5520024	16	2.2	15	89	5	50	29	29	17	23	1.97
5521318--5521356	2	19.5	2	100	0	78	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5522378--5522460	41	2.0	41	100	0	166	42	4	21	31	1.74
5523196--5523544	118	2.9	117	85	4	439	29	10	20	38	1.87
5523196--5523565	41	9.1	41	83	5	389	29	11	20	38	1.87
5535198--5535242	20	2.2	20	92	0	72	22	31	11	35	1.89
5535205--5535249	20	2.2	20	92	0	72	24	26	6	42	1.79
5535610--5535661	19	2.7	20	85	8	63	28	26	15	28	1.96
5535560--5535788	74	3.1	74	93	0	388	30	22	13	33	1.93
5536566--5537059	247	2.0	246	99	0	979	30	20	12	36	1.89
5541169--5541290	27	5.0	27	63	28	67	23	24	10	40	1.86
5541121--5541336	47	4.6	47	88	2	299	24	22	10	42	1.84
5541821--5541874	22	2.6	21	80	8	65	27	27	14	29	1.95
5541750--5541947	95	2.1	96	82	2	238	29	23	14	32	1.94
5551754--5552203	216	2.1	217	86	2	618	34	16	14	34	1.89
5560234--5560281	7	6.9	7	83	9	53	35	0	0	64	0.94
5560234--5560275	13	3.2	13	83	6	57	35	0	0	64	0.94
5560236--5560275	21	2.0	21	90	5	64	37	0	0	62	0.95
5567736--5567775	20	2.0	20	85	9	55	47	2	5	45	1.38
5574339--5574514	90	2.0	89	90	1	280	39	9	6	44	1.62
5574476--5574522	21	2.3	20	85	10	60	51	0	2	46	1.13
5596088--5596135	24	2.0	25	84	15	66	52	16	8	22	1.71
5602424--5602846	221	1.9	222	83	3	548	40	9	21	28	1.85
5604156--5604233	13	5.9	14	67	15	58	21	7	19	51	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5612937--5613044	54	2.0	54	100	0	216	42	12	20	24	1.87
5615440--5615574	67	2.0	67	100	0	270	26	14	26	31	1.95
5628091--5628386	149	2.0	149	100	0	592	25	10	29	35	1.90
5629897--5629932	2	18.0	2	100	0	72	50	0	0	50	1.00
5637448--5637788	170	2.0	172	98	1	668	39	16	17	26	1.91
5643926--5643964	18	2.1	19	90	4	62	41	10	2	46	1.51
5643926--5643964	9	4.2	9	86	3	51	41	10	2	46	1.51
5652598--5652655	20	2.9	20	92	0	98	18	13	34	32	1.91
5666297--5666406	42	2.8	38	76	14	114	50	0	1	46	1.18
5676590--5676621	15	2.3	15	89	10	50	37	28	18	15	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