genome.fa.s1547.2.7.7.80.10.50.1000.28.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   43   44   45   46   47   48   
          49   50   51   

This is table  28  of  51  ( 6083 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)
5611395--5611425	4	7.8	4	100	0	62	0	77	0	22	0.77
5614581--5614608	2	14.0	2	100	0	56	50	0	0	50	1.00
5620272--5620308	18	2.0	19	89	5	58	16	64	13	5	1.45
5620447--5620744	149	2.0	149	100	0	596	24	35	13	26	1.92
5622438--5622494	29	2.0	30	89	6	91	38	3	7	50	1.46
5625992--5626062	27	2.6	27	84	0	79	49	22	7	21	1.73
5627041--5627210	39	4.4	39	75	10	168	24	16	21	37	1.94
5629104--5629139	2	18.0	2	88	11	56	50	0	2	47	1.15
5630504--5630610	45	2.3	46	90	4	164	30	19	15	33	1.93
5636394--5636456	24	2.6	24	94	0	108	20	25	22	31	1.98
5639211--5639370	65	2.5	64	90	8	245	31	21	16	29	1.96
5639211--5639394	65	2.9	62	85	9	237	30	22	17	28	1.97
5643711--5643748	2	19.0	2	100	0	76	50	0	0	50	1.00
5643739--5643991	127	2.0	127	98	0	488	40	7	3	47	1.50
5643866--5644153	147	1.9	155	87	5	430	43	6	2	47	1.45
5644406--5644538	60	2.2	59	80	9	144	48	3	15	33	1.62
5645402--5645448	3	15.7	3	100	0	94	65	0	0	34	0.93
5650175--5650382	39	5.6	38	78	9	180	41	8	3	45	1.53
5650173--5650382	77	2.8	75	78	10	209	41	8	4	45	1.54
5656824--5656925	3	35.3	3	70	18	74	37	2	0	59	1.12
5656838--5656923	33	2.6	33	81	3	93	37	3	0	59	1.15
5656835--5656920	30	2.7	32	76	15	90	37	3	0	59	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5656835--5656925	17	5.5	17	76	13	82	37	3	0	59	1.14
5658157--5658204	25	1.9	25	83	8	62	41	0	2	56	1.11
5660866--5660918	23	2.3	23	86	0	79	18	28	24	28	1.98
5667762--5667820	23	2.6	23	94	0	100	18	28	27	25	1.98
5673665--5673699	2	17.5	2	100	0	70	48	0	0	51	1.00
5676473--5676509	18	2.1	18	100	0	74	27	21	13	37	1.91
5681991--5682015	11	2.3	11	100	0	50	24	8	0	68	1.16
5687223--5687294	33	2.2	33	100	0	144	22	27	5	44	1.75
5698511--5698926	43	9.8	43	73	11	268	26	19	30	23	1.98
5698518--5698998	83	5.7	83	78	10	363	27	19	29	23	1.98
5698704--5698914	46	4.9	45	75	12	192	24	19	30	25	1.98
5698621--5699017	128	3.1	128	87	4	600	25	19	30	24	1.98
5698504--5698825	40	7.7	41	71	14	212	27	18	30	22	1.98
5698676--5698842	82	2.0	84	85	7	230	25	19	29	24	1.98
5699355--5699437	35	2.3	36	82	10	100	38	10	18	32	1.85
5699588--5699772	67	2.9	64	76	10	205	42	12	14	30	1.83
5699721--5700008	29	9.8	28	69	16	138	42	15	11	30	1.82
5699887--5699996	27	3.9	27	77	13	87	42	13	13	30	1.83
5700251--5700354	36	3.0	36	81	4	124	35	11	20	32	1.88
5700252--5700370	36	3.4	36	79	6	111	36	12	21	30	1.90
5708462--5708522	3	21.0	3	80	12	56	65	1	4	27	1.22
5708467--5708529	29	2.2	30	85	8	94	65	3	6	25	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5712525--5712594	34	2.1	34	97	0	131	45	32	8	12	1.73
5712525--5712612	34	2.6	33	87	7	115	40	35	11	12	1.79
5716930--5716970	21	1.9	21	85	5	55	41	12	17	29	1.85
5718273--5718347	31	2.4	31	81	0	87	49	9	9	32	1.67
5720384--5720439	23	2.4	23	84	3	67	60	12	14	12	1.59
5730720--5730770	19	2.7	19	93	0	84	27	31	19	21	1.97
5730862--5730954	21	4.5	21	78	4	100	39	18	24	17	1.91
5730862--5730954	41	2.3	41	100	0	186	39	18	24	17	1.91
5730881--5731015	41	3.3	41	82	6	132	38	20	21	19	1.94
5730943--5731036	20	4.7	20	80	2	89	34	24	18	23	1.96
5731554--5731606	19	2.7	19	79	2	61	47	22	18	11	1.81
5731607--5731772	20	9.1	19	73	16	136	12	22	22	43	1.86
5731606--5731688	39	2.2	39	84	6	116	8	20	27	43	1.81
5731660--5731747	33	2.6	33	90	1	131	12	25	23	38	1.90
5733772--5733894	42	2.9	42	80	2	122	22	36	17	22	1.95
5733828--5733894	21	3.2	21	66	6	55	23	35	20	19	1.95
5735253--5735288	14	2.6	14	95	0	63	30	0	25	44	1.54
5735467--5735617	19	8.7	19	64	21	80	15	21	20	42	1.89
5735471--5735597	33	3.9	32	87	8	193	14	22	19	42	1.88
5735464--5735596	66	2.0	66	97	0	248	16	22	19	41	1.90
5738710--5738777	19	3.8	19	83	12	92	13	20	17	48	1.80
5740242--5740347	19	5.9	18	72	16	85	43	22	20	13	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5740314--5740358	18	2.4	18	88	3	63	46	26	17	8	1.78
5740376--5740433	14	3.9	14	77	16	62	10	15	24	50	1.75
5740359--5740449	32	2.8	33	93	3	157	12	17	21	48	1.80
5740434--5740488	20	2.8	19	83	8	65	16	23	23	36	1.94
5740961--5741000	18	2.2	18	90	0	62	15	10	47	27	1.77
5742325--5742362	20	1.9	20	88	0	58	50	21	15	13	1.78
5742626--5742669	22	2.0	22	90	0	70	20	15	43	20	1.88
5742857--5742906	20	2.5	20	93	0	82	24	18	28	30	1.97
5742837--5742951	20	5.7	20	76	5	79	23	16	24	35	1.95
5742877--5742954	41	1.9	41	83	0	102	21	15	23	39	1.91
5742940--5743032	41	2.3	41	98	0	141	17	23	18	40	1.90
5742940--5743032	20	4.6	20	81	4	105	17	23	18	40	1.90
5743638--5743751	59	1.9	59	96	0	210	45	1	7	45	1.40
5743638--5743728	29	3.1	29	75	9	103	45	2	7	45	1.44
5747127--5747174	15	2.8	18	71	28	59	66	2	0	31	1.03
5749482--5749519	17	2.2	18	85	4	51	50	0	0	50	1.00
5749481--5749531	19	2.5	21	81	12	61	47	0	0	52	1.00
5749482--5749527	20	2.5	17	86	10	56	47	0	0	52	1.00
5756566--5756678	55	2.1	55	89	0	172	42	13	23	21	1.87
5756574--5756696	55	2.2	55	85	0	156	44	16	21	17	1.86
5757358--5757508	72	2.1	72	94	0	266	36	13	27	23	1.92
5760829--5761054	125	1.8	125	91	0	371	30	14	26	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5760832--5761086	125	2.0	125	87	1	359	31	15	26	27	1.96
5762288--5762401	37	3.1	37	84	5	151	34	22	16	26	1.95
5762784--5763081	54	5.5	54	95	0	515	36	20	25	17	1.94
5763076--5763257	51	3.5	51	90	1	283	32	17	24	25	1.97
5770063--5770152	3	30.7	3	91	4	139	35	0	0	64	0.94
5771365--5771410	21	2.1	22	84	4	58	19	10	10	58	1.61
5773060--5773120	20	3.0	20	92	0	104	21	34	29	14	1.93
5773804--5774235	216	2.0	216	100	0	864	34	24	15	25	1.94
5776103--5776163	20	3.0	20	80	4	79	22	36	26	14	1.93
5777832--5777918	23	3.8	23	86	3	113	17	22	25	34	1.96
5780021--5780073	21	2.5	21	81	6	72	20	26	18	33	1.96
5780063--5780114	18	2.8	18	72	16	52	42	17	21	19	1.89
5780142--5780194	20	2.7	20	90	0	88	28	26	20	24	1.99
5780116--5780197	20	4.1	20	76	9	67	34	24	18	23	1.96
5783340--5783441	40	2.8	35	78	16	118	37	25	22	14	1.92
5783359--5783427	20	3.5	19	88	7	102	37	26	20	15	1.93
5783419--5783453	14	2.5	14	100	0	70	42	22	25	8	1.82
5783435--5783508	33	2.2	34	92	2	123	43	20	25	10	1.84
5783523--5783618	33	2.9	34	85	3	131	12	25	20	41	1.87
5783718--5783754	14	2.6	14	86	0	56	48	21	0	29	1.50
5785084--5785194	42	2.6	42	75	8	102	23	18	36	21	1.94
5785695--5785775	33	2.4	33	79	2	90	46	23	18	11	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5785675--5785808	20	7.3	20	75	21	107	44	23	18	14	1.86
5787704--5787792	20	4.5	20	85	1	99	44	23	16	14	1.85
5788130--5788191	18	3.0	22	72	18	69	19	16	38	25	1.92
5788366--5788499	20	6.7	20	87	1	178	20	20	21	36	1.95
5788368--5788499	40	3.3	40	93	1	201	19	21	21	37	1.95
5788366--5788499	61	2.2	61	87	1	189	20	20	21	36	1.95
5788496--5788541	21	2.2	21	84	0	56	39	17	26	17	1.91
5792784--5792832	19	2.5	19	84	15	57	51	2	0	46	1.12
5792984--5793012	14	2.1	14	100	0	58	44	6	0	48	1.29
5795461--5795572	36	3.1	36	98	1	217	40	8	6	45	1.59

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   43   44   45   46   47   48   
          49   50   51