genome.fa.s8747.2.7.7.80.10.50.1000.30.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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  30  of  51  ( 6054 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)
7763155--7763192	16	2.5	15	91	8	60	71	0	13	15	1.16
7763142--7763217	25	3.0	25	82	1	80	78	0	11	9	0.95
7763184--7763246	18	3.2	20	85	12	78	80	0	19	0	0.70
7763142--7763226	16	5.2	16	76	13	59	77	0	14	8	0.98
7764165--7764227	26	2.5	26	82	7	76	38	7	1	52	1.40
7766524--7767026	82	6.2	81	82	3	447	35	20	18	26	1.95
7766790--7767070	81	3.5	81	81	6	230	38	19	17	24	1.92
7772407--7772444	17	2.3	17	90	4	60	47	5	2	44	1.39
7772613--7772694	29	2.8	29	96	0	146	31	9	12	46	1.74
7772755--7772818	29	2.2	30	85	2	85	32	4	10	51	1.58
7772651--7772869	103	2.2	100	85	4	287	35	11	10	42	1.76
7772897--7773045	79	1.9	80	83	6	196	38	12	6	42	1.68
7773071--7773129	29	2.0	29	90	0	91	30	6	15	47	1.71
7781396--7781439	18	2.4	18	96	0	79	45	18	15	20	1.85
7790088--7790117	14	2.1	15	93	6	53	46	0	33	20	1.51
7794318--7794370	11	4.7	11	82	13	63	81	1	9	7	0.96
7794318--7794369	24	2.2	24	82	0	59	82	1	9	5	0.90
7795359--7795700	173	2.0	169	97	2	639	26	14	15	43	1.85
7799249--7799289	13	3.3	12	87	12	57	82	4	2	9	0.89
7799256--7799289	14	2.5	13	90	4	50	82	5	2	8	0.93
7800132--7800171	21	1.9	21	90	10	64	47	2	27	22	1.64
7801368--7801411	17	2.6	16	82	3	52	40	11	6	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7804739--7804806	31	2.3	30	79	5	75	38	10	19	32	1.85
7809368--7809603	131	1.8	131	90	1	384	34	11	12	41	1.78
7811344--7811377	11	3.1	11	82	0	50	26	26	8	38	1.85
7813068--7813117	9	5.4	9	79	15	50	22	16	0	62	1.33
7813068--7813116	18	2.7	17	84	12	62	22	16	0	61	1.34
7813972--7814245	1	274.0	1	86	0	332	91	0	8	0	0.43
7815961--7816486	223	2.4	223	85	2	689	29	24	15	29	1.96
7815963--7816486	112	4.7	111	84	1	654	29	24	15	29	1.96
7818889--7819204	131	2.4	131	81	1	391	33	9	13	42	1.78
7820144--7820235	2	52.5	2	70	25	57	56	0	0	43	0.99
7820141--7820229	36	2.5	36	96	3	164	58	0	0	41	0.98
7820162--7820231	9	7.6	9	75	16	63	58	0	0	41	0.98
7827904--7827972	33	2.1	33	86	2	95	24	27	15	31	1.96
7828321--7828377	20	2.9	20	92	2	89	15	26	38	19	1.92
7829939--7830066	7	18.0	7	69	8	53	39	34	1	25	1.65
7829977--7830017	21	1.9	22	90	5	66	39	36	0	24	1.56
7829975--7830032	29	2.0	28	87	9	82	37	39	0	22	1.54
7831834--7831923	11	7.9	11	81	7	108	28	23	22	25	1.99
7831834--7831921	23	3.8	23	95	0	158	28	23	21	26	1.99
7838673--7838848	90	2.0	90	91	0	289	44	6	9	39	1.63
7845239--7845389	59	2.5	60	88	1	214	39	21	13	25	1.91
7845353--7845495	66	2.2	66	88	2	207	34	26	14	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7845419--7845645	120	1.9	120	88	3	341	34	25	17	22	1.96
7851185--7851229	21	2.1	21	95	0	81	26	8	24	40	1.84
7851193--7851234	21	2.0	21	95	0	75	23	9	26	40	1.85
7854066--7854107	20	2.1	20	86	0	57	61	2	21	14	1.43
7854185--7854230	19	2.4	19	92	0	74	63	6	4	26	1.38
7854208--7854242	13	2.5	15	90	9	56	60	5	2	31	1.35
7861837--7861861	13	1.9	13	100	0	50	68	0	0	32	0.90
7862751--7862792	16	2.6	16	77	11	50	73	0	21	4	1.01
7862762--7862811	20	2.5	20	87	9	66	74	0	24	2	0.93
7862777--7862843	24	2.7	25	75	15	75	71	0	25	2	1.00
7862828--7862905	15	5.3	15	77	11	72	74	0	20	5	1.01
7862837--7862914	7	10.7	7	74	16	61	75	0	20	3	0.95
7866779--7866817	20	2.0	20	84	0	51	20	10	23	46	1.81
7866986--7867045	20	2.9	21	90	5	86	18	25	35	21	1.96
7873047--7873089	21	2.0	23	86	9	63	41	9	9	39	1.69
7874850--7875016	45	3.7	45	79	6	151	25	14	18	41	1.89
7875781--7876333	82	6.7	82	83	2	536	35	20	19	25	1.96
7881717--7881754	17	2.3	17	90	4	60	47	5	2	44	1.39
7881996--7882064	29	2.3	29	85	2	84	31	7	10	50	1.63
7882030--7882191	73	2.2	74	90	3	247	37	11	9	41	1.74
7882098--7882348	111	2.2	113	86	4	357	36	12	10	41	1.77
7882314--7882372	29	2.0	29	96	0	109	37	11	6	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7882393--7882535	68	2.1	68	87	3	200	41	13	7	37	1.73
7886563--7886789	107	2.1	107	90	3	359	37	20	19	22	1.94
7894047--7894095	21	2.3	21	92	0	80	28	14	16	40	1.87
7894876--7894958	30	2.7	29	80	9	94	40	1	3	54	1.26
7894876--7894961	31	2.8	30	78	7	93	41	1	3	53	1.25
7895637--7895720	11	8.3	10	71	20	59	53	2	0	44	1.13
7895640--7895691	19	2.6	21	85	8	74	57	1	0	40	1.10
7895637--7895722	30	2.8	31	82	12	97	53	2	0	44	1.13
7895641--7895703	20	3.2	19	75	18	58	53	1	0	44	1.10
7897131--7897196	20	3.3	20	100	0	132	34	9	19	36	1.84
7897131--7897206	40	1.9	40	86	2	109	36	11	17	34	1.86
7900786--7900836	21	2.4	21	100	0	102	33	27	25	13	1.94
7901595--7901633	20	2.0	20	90	5	62	20	15	20	43	1.88
7903994--7904033	21	1.9	21	94	0	71	30	15	7	47	1.72
7904022--7904127	32	3.3	32	88	3	151	33	7	13	45	1.71
7904561--7904617	15	3.6	15	71	13	51	35	12	10	42	1.77
7904708--7904739	16	2.0	17	88	11	50	43	21	21	12	1.86
7918817--7918841	2	12.5	2	100	0	50	0	0	48	52	1.00
7919981--7920191	37	5.9	37	73	19	171	29	19	10	39	1.86
7920029--7920087	21	3.0	20	67	23	54	30	20	10	38	1.86
7920020--7920300	102	2.8	101	83	7	329	29	20	10	39	1.86
7920331--7920522	74	2.6	73	79	9	194	31	19	12	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7920356--7920598	73	3.3	72	81	6	238	30	21	12	36	1.90
7920356--7920598	37	6.6	36	81	5	245	30	21	12	36	1.90
7920625--7920955	75	4.4	76	84	7	363	33	16	10	40	1.82
7921021--7921263	52	4.5	53	75	6	213	30	10	18	39	1.85
7921548--7922287	133	5.6	133	86	0	933	30	17	20	31	1.96
7922660--7923311	39	16.8	39	92	0	957	35	20	18	26	1.95
7922994--7923058	22	3.2	22	62	20	59	32	20	20	27	1.97
7923283--7923457	76	2.4	77	80	8	184	39	13	14	32	1.85
7928482--7928525	23	2.0	22	86	4	61	77	2	0	20	0.88
7930272--7930299	12	2.3	12	100	0	56	92	0	0	7	0.37
7934558--7934586	13	2.2	13	100	0	58	62	6	0	31	1.22
7939258--7939339	41	2.0	40	88	2	119	15	36	29	18	1.92
7942974--7943045	26	3.0	24	68	27	62	62	4	6	26	1.39
7943160--7943209	9	5.6	9	78	0	55	16	30	18	36	1.92
7943163--7943209	18	2.6	18	86	0	67	14	29	19	36	1.92
7943553--7943587	18	1.9	18	94	0	61	25	17	28	28	1.97
7945542--7945581	18	2.2	18	86	8	55	30	40	10	20	1.85
7946521--7946553	15	2.2	15	100	0	66	33	24	24	18	1.97
7954722--7954787	33	2.0	33	100	0	132	42	15	18	24	1.88
7962215--7962277	21	3.0	21	100	0	126	33	4	28	33	1.78
7964272--7964393	61	2.0	61	98	1	237	29	14	20	35	1.93
7964917--7965055	30	4.7	30	74	10	99	16	12	10	59	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7965836--7965874	17	2.3	17	86	8	53	23	5	10	61	1.48
7967494--7967543	27	1.9	25	88	8	73	16	14	8	62	1.54
7970861--7971002	64	2.2	63	80	6	151	25	14	18	42	1.87
7971280--7971741	133	3.5	131	82	6	556	25	32	16	25	1.96
7977222--7977261	17	2.4	17	100	0	80	40	12	17	30	1.86
7982025--7982194	31	5.5	31	92	0	250	35	2	12	48	1.56
7982236--7982295	28	2.1	27	82	11	68	36	3	8	51	1.49
7982300--7982356	29	1.9	30	86	10	82	35	7	8	49	1.61
7983465--7983958	45	11.1	45	95	1	818	31	24	6	37	1.81
7983465--7983958	89	5.5	89	95	2	821	31	24	6	37	1.81

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