genome.fa.s9175.2.7.7.80.10.50.1000.2.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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  2  of  51  ( 6037 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)
212159--212200	14	2.9	15	89	10	70	0	16	0	83	0.65
212158--212204	24	2.0	24	91	8	78	0	17	0	82	0.66
219394--219425	15	2.1	15	94	0	55	46	9	18	25	1.79
224784--224851	3	22.0	3	89	3	91	60	0	1	38	1.06
224784--224851	26	2.6	26	90	6	102	60	0	1	38	1.06
225520--225574	25	2.2	25	78	12	60	32	5	3	58	1.38
225564--225617	24	2.2	25	81	12	69	22	0	3	74	0.98
226250--226302	27	2.0	27	92	0	88	28	13	24	33	1.93
234848--234897	11	4.4	11	82	7	55	40	0	0	60	0.97
234868--234927	29	2.0	31	90	6	97	46	1	0	51	1.10
235185--235276	23	4.0	24	76	10	77	26	0	23	50	1.50
235924--236025	36	2.8	36	82	8	120	18	5	17	57	1.59
243266--243367	33	3.1	33	69	16	93	36	5	10	47	1.63
243248--243374	66	1.9	66	91	0	209	36	6	11	46	1.65
243822--243868	23	2.0	23	87	0	67	17	6	12	63	1.48
250437--250489	16	3.1	18	81	10	74	43	18	5	32	1.74
252570--252651	36	2.2	37	86	4	121	35	18	13	32	1.90
253221--253283	31	2.0	31	96	0	117	30	30	9	30	1.89
256399--256495	29	3.4	28	84	5	104	41	24	7	26	1.81
263648--263708	30	2.1	29	87	3	86	39	18	8	34	1.80
267725--267780	27	2.0	28	82	3	69	30	1	5	62	1.28
271890--271928	21	1.9	20	94	5	69	58	0	28	12	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
274309--274388	37	2.1	37	83	2	97	28	20	8	42	1.81
274333--274492	37	4.6	36	70	11	134	29	16	8	45	1.78
274330--274557	103	2.2	103	95	1	404	29	16	9	43	1.80
274448--274623	66	2.7	66	90	4	266	28	15	10	45	1.79
274345--274660	169	1.9	170	91	2	519	28	14	9	47	1.76
274808--274915	36	3.0	36	84	1	135	27	21	13	37	1.91
275133--275324	52	3.7	51	82	3	215	32	11	17	38	1.86
275425--275485	19	2.9	22	78	14	83	24	18	24	32	1.97
276406--276697	105	2.7	105	88	3	424	39	16	20	22	1.92
278219--278274	27	2.0	28	82	3	69	32	0	5	62	1.18
280198--280234	19	1.9	19	100	0	74	21	21	13	43	1.87
280217--280288	36	2.0	36	91	0	117	33	18	15	33	1.92
283438--283485	22	2.2	22	85	14	64	4	22	0	72	1.01
284618--284739	38	3.3	36	78	8	129	41	5	17	35	1.73
284616--284791	36	4.9	36	73	7	124	43	7	16	32	1.77
284616--285030	73	5.7	69	74	10	174	42	9	16	31	1.80
284621--285016	145	2.7	144	78	7	356	42	9	16	30	1.81
284690--285010	73	4.5	72	78	5	328	42	10	16	30	1.82
287102--287170	27	2.5	28	95	4	131	37	0	4	57	1.18
287397--287440	6	7.3	6	84	0	61	0	59	4	36	1.18
287383--287440	12	4.8	12	80	6	55	0	55	8	36	1.31
287397--287441	18	2.5	18	96	0	81	0	57	4	37	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
304544--304583	2	20.0	2	100	0	80	0	50	0	50	1.00
307249--307397	68	2.2	68	93	1	255	24	23	14	38	1.91
312812--312882	10	6.4	10	72	20	52	8	12	22	56	1.63
312822--312875	14	4.2	14	73	26	57	7	12	22	57	1.60
312811--312895	24	3.6	24	92	6	129	10	12	20	56	1.65
313975--314027	16	3.3	16	91	0	88	9	9	20	60	1.55
315339--315395	15	4.1	13	78	13	60	59	1	1	36	1.18
315469--315532	13	4.7	13	90	7	92	57	0	1	40	1.08
315331--315612	137	2.0	134	79	11	293	51	3	5	40	1.42
316333--316357	6	4.2	6	100	0	50	0	16	48	36	1.46
316463--316656	34	5.0	41	79	12	184	39	25	20	14	1.91
316491--316631	20	7.6	20	66	19	90	40	26	21	12	1.88
316594--316660	21	3.2	21	72	4	73	37	28	19	14	1.91
317503--317544	17	2.5	18	81	14	54	38	0	0	61	0.96
317541--317601	21	3.0	21	80	2	70	45	0	1	52	1.10
318607--318646	21	1.9	21	84	0	53	52	12	10	25	1.70
335654--335827	87	2.0	87	96	0	321	26	18	24	31	1.98
346946--346972	2	13.5	2	100	0	54	48	0	0	51	1.00
357289--357332	21	2.1	21	86	0	61	25	22	13	38	1.91
357345--357417	20	3.7	20	70	23	64	38	19	16	26	1.92
357351--357539	40	4.7	41	73	18	159	38	22	13	25	1.91
357326--357459	60	2.2	60	82	5	164	41	23	13	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357411--357497	20	4.4	19	81	7	93	40	25	12	21	1.89
357368--357539	60	2.9	61	79	11	169	39	22	13	25	1.90
357465--357537	21	3.7	19	83	8	92	35	21	10	31	1.88
358348--358381	12	2.8	12	90	0	50	55	29	0	14	1.40
361064--361115	20	2.6	20	93	0	86	36	25	21	17	1.94
361140--361177	20	1.9	20	94	0	67	18	21	23	36	1.95
361277--361452	66	2.6	65	88	10	250	52	16	2	28	1.55
362697--362819	42	2.9	42	83	4	124	24	17	35	21	1.95
362721--362821	21	4.8	21	79	7	98	23	16	35	23	1.95
363097--363146	21	2.4	21	86	0	73	30	24	20	26	1.98
363112--363269	63	2.5	64	79	8	155	31	35	13	19	1.90
363173--363272	42	2.4	41	75	8	103	32	38	12	18	1.87
365347--365411	22	3.0	21	82	4	60	20	16	43	20	1.89
365354--365411	22	2.6	22	86	0	89	17	18	43	20	1.89
365564--365830	20	13.3	21	75	11	204	20	15	23	40	1.90
365564--365830	40	6.7	40	82	10	255	20	15	23	40	1.90
365564--365830	60	4.4	59	80	12	258	20	15	23	40	1.90
365824--365863	20	2.0	20	95	0	71	22	20	22	35	1.96
365827--365904	20	3.8	20	72	3	57	30	20	19	29	1.97
365564--365848	100	2.8	99	82	9	364	20	15	23	40	1.90
368144--368191	23	2.1	23	88	0	69	35	8	18	37	1.81
368619--368681	23	2.7	23	92	0	99	38	20	4	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
369037--369108	23	3.2	22	84	4	90	40	20	4	34	1.72
368265--370599	429	5.4	429	97	0	4383	39	11	7	40	1.71
369476--369538	23	2.7	23	92	0	99	38	20	4	36	1.74
369908--369967	23	2.6	23	91	0	93	38	20	5	36	1.74
370323--370395	23	3.2	23	88	0	101	41	21	2	34	1.68
373238--373723	181	2.7	181	95	1	857	32	17	15	34	1.91
375700--375744	3	15.0	3	90	0	72	28	33	2	35	1.70
377215--378574	199	6.9	200	95	2	2466	31	17	14	36	1.91
378692--378740	19	2.6	19	93	0	80	59	10	0	30	1.31
380505--380570	33	2.0	33	90	0	105	22	48	0	28	1.51
380604--380668	21	3.1	21	93	0	103	16	30	10	41	1.83
382648--382700	24	2.2	24	83	6	63	26	7	13	52	1.66
382841--382886	20	2.3	19	78	10	56	21	17	10	50	1.77
383022--383068	20	2.3	20	89	10	78	17	17	10	55	1.69
382808--383276	181	2.6	182	89	3	673	26	17	13	42	1.87
383619--383660	20	2.1	20	82	8	50	50	16	9	23	1.75
384130--384669	178	3.0	177	88	4	768	42	12	17	27	1.85
386588--386633	23	2.0	23	86	0	65	41	0	0	58	0.98
386940--387066	21	6.1	21	80	7	127	26	24	14	34	1.93
387010--387073	20	3.2	20	78	8	67	26	21	14	37	1.92
386948--387073	40	3.1	40	78	8	130	26	23	15	34	1.94
387948--387994	24	2.0	24	91	0	76	25	23	14	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390134--390169	18	2.0	18	94	0	63	55	22	2	19	1.56
390371--390431	29	2.1	29	87	0	86	31	31	16	21	1.95
390415--390459	20	2.2	20	88	0	72	22	17	22	37	1.94
390518--390668	64	2.4	64	90	1	232	52	16	1	29	1.55
390649--390679	14	2.3	14	94	5	55	48	19	0	32	1.49
392031--392130	21	4.8	21	79	11	98	25	18	34	23	1.96
392031--392130	41	2.4	42	83	5	123	25	18	34	23	1.96
392272--392313	12	3.5	12	83	6	50	66	7	0	26	1.17
393900--393934	14	2.5	14	100	0	70	45	17	11	25	1.81
394662--394707	22	2.1	22	83	0	56	23	17	39	19	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   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51