genome.fa.s9592.2.7.7.80.10.50.1000.29.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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  29  of  39  ( 4673 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)
5679670--5679700	3	10.3	3	92	0	53	35	3	0	61	1.12
5681368--5681428	2	30.5	2	100	0	122	49	0	0	50	1.00
5682933--5682987	28	2.0	28	85	7	76	27	14	20	38	1.91
5685008--5685034	2	13.5	2	100	0	54	48	0	0	51	1.00
5685453--5685478	2	13.0	2	100	0	52	50	0	0	50	1.00
5698284--5698328	22	2.0	22	91	0	72	20	11	11	57	1.63
5698313--5698346	14	2.3	15	95	5	61	23	11	5	58	1.55
5704884--5704931	21	2.2	21	96	3	87	29	20	18	31	1.97
5711270--5711437	59	2.8	59	79	12	166	33	22	6	37	1.80
5717602--5717672	30	2.4	30	90	4	108	40	35	8	15	1.78
5717623--5717672	15	3.3	15	81	10	66	42	36	6	16	1.72
5724334--5724374	2	20.5	2	100	0	82	51	0	0	48	1.00
5726646--5726691	24	1.9	24	86	8	67	52	0	0	47	1.00
5726651--5726690	17	2.3	18	86	4	55	52	0	0	47	1.00
5727084--5727144	21	2.9	20	73	9	59	27	13	26	32	1.93
5728409--5728441	2	16.5	2	100	0	66	48	0	0	51	1.00
5730027--5730067	21	1.9	22	85	14	59	56	2	9	31	1.45
5731673--5731726	22	2.5	21	82	11	65	68	5	1	24	1.21
5734258--5734308	21	2.3	22	83	13	68	33	23	19	23	1.97
5734268--5734307	21	1.9	21	94	0	71	32	27	22	17	1.96
5736653--5736744	30	3.2	30	76	14	111	53	15	0	31	1.42
5736668--5736758	30	3.1	28	77	16	96	46	20	0	32	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5747474--5747523	24	2.1	24	85	7	66	24	2	14	60	1.45
5751852--5751900	20	2.5	20	93	0	80	42	32	6	18	1.75
5752163--5752238	28	2.7	28	100	0	152	48	11	3	35	1.58
5755212--5755306	43	2.2	43	96	0	172	35	36	10	16	1.84
5755421--5755487	24	2.8	24	86	8	109	38	19	14	26	1.91
5757525--5757558	15	2.3	15	94	0	59	26	26	32	14	1.95
5770365--5770449	42	2.0	42	95	0	152	28	31	0	40	1.57
5780026--5780080	16	3.5	16	77	5	58	69	3	1	25	1.15
5784169--5784239	21	3.4	21	78	7	72	46	28	0	25	1.53
5784165--5784235	28	2.5	28	88	4	99	47	28	0	23	1.52
5784165--5784239	7	10.7	7	79	0	60	45	30	0	24	1.53
5786504--5786575	30	2.4	30	90	0	117	31	11	16	40	1.84
5786682--5786754	37	2.0	36	86	2	101	23	8	12	56	1.63
5787435--5787464	15	2.0	15	93	0	51	33	16	6	43	1.74
5787794--5787834	20	2.0	20	86	9	57	39	9	7	43	1.65
5794276--5794305	15	2.0	15	93	0	51	33	16	6	43	1.74
5794635--5794675	20	2.0	20	86	9	57	39	9	7	43	1.65
5794894--5794928	15	2.3	15	95	0	61	28	31	22	17	1.96
5811336--5811369	2	17.0	2	100	0	68	0	50	0	50	1.00
5811369--5811403	2	17.5	2	100	0	70	48	0	0	51	1.00
5817407--5817476	37	1.9	36	88	2	104	54	27	1	17	1.51
5817436--5817511	29	2.6	29	85	2	89	52	27	2	17	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5817444--5817488	15	3.1	15	87	6	74	55	26	0	17	1.42
5817444--5817521	15	5.4	14	78	9	68	51	30	1	16	1.53
5817436--5817524	15	6.1	15	79	6	60	51	29	2	16	1.57
5817570--5817629	15	4.1	15	79	10	70	48	25	0	26	1.52
5817569--5817619	7	6.8	8	78	13	54	52	21	0	25	1.47
5817569--5817641	37	2.0	37	86	5	103	49	26	0	24	1.51
5817739--5817794	29	1.9	29	85	7	78	44	28	1	25	1.64
5817738--5817800	29	2.2	29	80	5	74	46	26	1	25	1.62
5817863--5817902	7	5.7	7	81	0	53	47	32	0	20	1.50
5817864--5817902	14	2.8	14	96	0	69	48	30	0	20	1.50
5817862--5817915	28	1.9	28	85	7	74	44	31	1	22	1.63
5817937--5818001	14	4.7	14	84	1	60	52	23	0	24	1.48
5817937--5818001	21	3.2	20	78	6	60	52	23	0	24	1.48
5817964--5818073	36	3.1	36	72	17	93	53	24	0	20	1.51
5817970--5818080	14	7.8	14	71	18	70	53	26	0	19	1.51
5817977--5818080	28	3.6	28	77	13	81	53	25	0	20	1.51
5818162--5818208	22	2.1	22	92	0	76	53	21	0	25	1.46
5818205--5818253	22	2.2	21	85	7	62	48	28	4	18	1.66
5818496--5818564	15	4.7	15	75	8	61	55	24	0	20	1.44
5818467--5818530	21	3.0	22	86	11	89	50	26	1	21	1.58
5818503--5818559	30	1.9	30	92	0	96	54	28	0	17	1.43
5818489--5818628	22	6.4	22	70	8	79	50	26	2	20	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5818642--5818698	15	3.9	14	74	19	53	50	22	3	22	1.64
5818879--5818957	7	11.1	7	82	2	68	45	20	0	34	1.51
5818913--5818974	28	2.2	28	85	5	81	48	20	1	29	1.59
5818849--5819013	71	2.3	70	81	13	169	47	22	2	27	1.64
5828573--5828597	13	1.9	13	100	0	50	32	28	16	24	1.96
5842813--5842838	8	3.2	8	100	0	52	11	11	0	76	1.01
5857341--5857481	42	3.4	42	85	1	196	32	15	21	29	1.95
5857477--5857658	82	2.2	81	84	3	202	35	18	17	29	1.94
5860788--5860851	32	2.0	31	81	3	74	34	37	7	20	1.81
5862087--5862151	25	2.6	25	95	0	112	61	4	9	24	1.45
5862430--5862676	122	2.0	123	91	3	399	34	18	10	36	1.85
5863028--5863061	15	2.3	15	89	0	50	50	5	0	44	1.26
5873166--5873482	156	2.0	155	84	6	417	25	18	20	35	1.95
5873122--5873456	80	4.3	79	84	7	386	25	17	20	35	1.95
5876560--5876613	18	3.0	18	94	0	99	16	18	33	31	1.93
5879331--5879433	36	2.9	36	98	0	197	23	17	17	41	1.90
5888938--5888996	20	3.4	17	80	15	75	50	8	0	40	1.33
5889576--5889660	4	21.8	4	80	7	86	2	27	1	69	1.08
5892823--5892979	76	2.1	76	96	0	287	50	17	12	18	1.77
5892823--5893013	76	2.6	74	85	7	180	54	16	10	17	1.70
5893947--5894035	29	3.1	29	83	4	101	51	10	8	29	1.66
5895037--5895086	2	25.0	2	100	0	100	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5895687--5895717	16	2.0	16	93	6	55	83	0	0	16	0.64
5904026--5904067	14	2.9	14	82	13	50	54	2	9	33	1.46
5905870--5905921	25	2.0	26	82	10	63	46	5	3	44	1.45
5918982--5919069	29	3.0	29	71	3	68	38	15	3	42	1.64
5927194--5927276	2	43.5	2	81	9	102	48	0	2	49	1.14
5927194--5927276	15	5.6	15	84	2	105	48	0	2	49	1.14
5927840--5929303	84	17.7	83	76	6	1217	25	19	25	30	1.98
5927840--5929303	164	8.9	163	81	5	1329	25	19	25	30	1.98
5927948--5929303	248	5.5	248	84	3	1493	25	19	24	30	1.98
5930031--5930088	26	2.2	26	87	0	80	24	18	12	44	1.84
5942007--5942066	31	1.9	31	93	0	102	43	6	6	43	1.57
5942531--5942579	18	2.6	19	78	18	57	63	0	0	36	0.95
5942640--5942720	12	6.4	12	71	20	67	56	1	0	41	1.07
5942607--5942719	14	8.8	14	66	24	70	55	0	0	43	1.05
5942588--5942741	64	2.4	64	91	6	244	57	1	0	40	1.10
5942705--5942746	17	2.4	18	88	7	61	64	2	0	33	1.07
5943735--5943799	28	2.3	27	76	12	69	44	0	4	50	1.22
5945807--5945837	15	2.1	15	93	0	53	54	6	3	35	1.42
5952102--5952163	23	2.9	21	85	7	81	20	35	25	17	1.95
5955918--5955961	22	2.0	22	95	0	79	29	11	13	45	1.79
5956448--5956491	12	3.8	12	78	6	54	61	11	2	25	1.41
5956652--5956977	160	2.0	162	97	1	620	36	18	6	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5961330--5961484	21	7.7	20	71	7	80	38	25	16	19	1.92
5961454--5961763	20	15.5	20	86	1	352	37	24	17	20	1.94
5962443--5962489	24	2.0	24	87	8	69	25	14	21	38	1.92
5964909--5965025	19	6.7	19	71	21	103	44	19	20	15	1.87
5965034--5965130	19	5.4	19	81	12	132	14	21	17	46	1.84
5965016--5965130	52	2.2	52	95	0	203	13	24	18	43	1.86
5965237--5965273	14	2.6	14	91	0	65	45	21	0	32	1.52
5967247--5967303	14	3.7	14	77	20	60	45	22	21	10	1.82
5967228--5967320	33	2.8	33	95	0	168	47	21	20	10	1.80
5967191--5967325	19	7.6	19	76	16	128	45	23	19	11	1.82

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