genome.fa.s8743.2.7.7.80.10.50.1000.2.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: VEPZ01008743.1 Hibiscus syriacus cultivar Beakdansim tig00111832_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  979257

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 512 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)
291820--292004	40	4.5	40	77	13	155	38	23	16	21	1.93
291832--291963	60	2.2	61	82	9	182	38	22	15	22	1.92
291937--291989	26	2.0	26	100	0	106	32	22	18	26	1.97
291917--292004	46	1.9	46	90	0	140	36	22	18	22	1.95
292500--292543	20	2.2	20	88	4	63	11	15	25	47	1.79
294157--294206	21	2.4	21	82	0	64	20	18	30	32	1.96
296072--296149	28	2.8	28	82	3	95	32	0	19	48	1.49
296081--296132	14	3.6	14	97	2	95	30	0	21	48	1.51
296258--296295	20	1.9	20	94	0	67	42	23	18	15	1.89
296644--296679	18	2.0	18	94	0	63	16	2	25	55	1.55
298937--298990	24	2.2	24	93	0	90	44	20	14	20	1.86
299690--299726	16	2.4	16	86	8	51	64	0	5	29	1.15
299876--299955	20	4.1	20	74	8	74	23	11	23	41	1.87
299903--299977	20	3.8	20	89	0	105	20	14	24	41	1.89
299876--300009	60	2.2	61	79	11	161	22	14	23	40	1.90
299983--300029	20	2.3	20	92	0	76	21	17	25	36	1.94
299907--300030	60	2.1	60	82	11	148	20	16	23	39	1.92
300016--300070	20	2.8	19	70	8	56	25	14	32	27	1.95
300490--300529	21	1.9	21	84	0	53	40	5	2	52	1.37
302323--302402	35	2.2	37	93	6	137	22	22	6	48	1.72
307159--307232	37	2.0	37	97	0	139	43	14	10	31	1.80
308340--308397	26	2.2	26	90	0	98	24	3	29	43	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310177--310221	21	2.1	21	83	0	54	35	2	4	57	1.31
318702--318756	23	2.3	23	78	6	56	58	1	0	40	1.09
320396--320458	25	2.6	24	78	16	67	60	14	11	14	1.59
320803--320828	2	13.0	2	100	0	52	50	0	0	50	1.00
322789--322896	50	2.2	50	90	5	166	49	3	2	44	1.34
322806--322904	50	2.0	49	96	2	180	44	4	3	48	1.37
327271--327351	38	2.1	39	84	8	105	45	1	3	49	1.27
329977--330066	14	6.6	14	70	21	59	45	1	1	52	1.15
329978--330066	12	7.7	12	68	22	57	44	1	1	52	1.15
332108--332177	31	2.2	32	85	7	90	25	28	22	22	1.99
336392--336434	16	2.7	15	80	16	50	58	0	32	9	1.30
341337--341374	20	2.0	18	90	10	58	52	10	15	21	1.72
341543--341617	37	2.0	37	82	10	91	52	2	0	45	1.15
342016--342043	14	2.0	14	100	0	56	50	14	0	35	1.43
345313--345372	24	2.5	23	76	15	59	66	0	28	5	1.12
345335--345381	24	2.0	24	83	8	60	65	0	25	8	1.20
348668--348702	2	17.5	2	100	0	70	51	0	0	48	1.00
352192--352220	2	14.5	2	100	0	58	48	0	0	51	1.00
352280--352408	66	2.0	65	92	4	215	41	11	9	37	1.74
355036--355070	3	11.7	3	87	0	52	60	0	5	34	1.21
371102--371158	26	2.2	26	100	0	114	45	12	3	38	1.59
371102--371170	26	2.7	26	93	4	104	49	10	2	37	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372150--372441	117	2.5	116	88	2	424	31	33	15	19	1.93
373401--373539	29	4.9	28	79	10	138	41	20	5	33	1.76
373374--373543	57	3.0	58	79	10	188	40	20	5	34	1.75
373470--373640	87	2.0	87	83	4	220	41	19	5	32	1.76
373402--373642	28	8.4	28	76	6	144	41	20	5	32	1.76
375675--375839	27	5.8	29	83	9	189	40	22	4	32	1.75
375675--375890	29	7.6	29	77	10	187	43	21	5	30	1.74
375654--375891	85	2.8	86	84	6	290	43	21	4	30	1.73
375674--375916	114	2.1	115	80	3	267	43	21	5	30	1.75
375922--375964	22	2.0	22	95	0	77	16	23	41	18	1.89
375973--376022	19	2.6	19	87	6	66	24	28	30	18	1.97
375973--376041	9	7.3	9	77	9	57	27	26	27	18	1.98
377264--377314	21	2.4	21	90	0	84	35	21	15	27	1.94
390622--390775	77	2.0	77	87	7	224	41	8	7	42	1.64
402258--402301	5	8.2	5	85	9	52	18	4	2	75	1.09
402260--402301	11	3.8	11	78	9	50	16	4	2	76	1.07
403384--403459	38	2.1	35	85	7	98	30	10	36	22	1.88
407314--407844	106	5.0	106	92	1	854	33	25	19	22	1.97
409363--409406	5	8.2	5	85	9	52	18	4	2	75	1.09
409365--409406	11	3.8	11	78	9	50	16	4	2	76	1.07
411537--411573	2	18.5	2	100	0	74	51	0	0	48	1.00
413625--413699	29	2.5	30	82	4	107	14	26	37	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419634--419658	2	12.5	2	100	0	50	52	0	0	48	1.00
420633--420681	8	5.7	9	77	13	50	53	2	0	44	1.12
421201--421326	31	3.9	31	74	17	105	29	11	21	38	1.88
421303--421442	36	3.9	36	96	0	253	37	15	23	23	1.92
421314--421442	15	7.1	19	64	27	75	39	15	22	22	1.91
421756--421871	43	2.7	43	97	0	214	21	18	31	29	1.97
422143--422211	36	1.9	36	90	0	111	40	14	20	24	1.90
422152--422341	70	2.7	70	80	8	183	41	15	16	26	1.89
422228--422344	36	3.3	36	73	3	112	41	15	15	28	1.87
423080--423135	22	2.5	23	88	5	96	21	10	28	39	1.87
423757--423812	11	4.9	11	75	20	53	0	14	5	80	0.88
423742--423801	13	4.8	13	76	15	56	1	13	6	78	1.02
423748--423812	33	2.0	33	82	11	80	1	13	6	78	1.01
430422--430467	16	2.8	17	83	9	69	58	0	0	41	0.98
430733--430789	22	2.7	22	82	12	66	21	8	7	63	1.47
431014--431053	21	1.9	21	94	0	71	30	20	27	22	1.98
431062--431112	21	2.4	21	93	0	84	27	25	23	23	2.00
431602--431674	20	3.5	20	69	3	56	52	1	2	43	1.24
446340--446444	37	2.8	37	86	0	147	40	15	14	30	1.87
446987--447024	2	19.0	2	100	0	76	50	0	0	50	1.00
447093--447124	2	16.5	2	93	6	57	46	0	0	53	1.00
447171--447211	11	3.6	11	87	6	55	24	4	4	65	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447434--447464	2	15.5	2	100	0	62	48	0	0	51	1.00
452137--452218	7	11.6	7	77	11	69	80	4	13	1	0.93
452138--452218	20	3.9	21	75	20	73	80	4	13	1	0.94
452144--452188	24	1.9	24	90	4	74	80	4	15	0	0.87
452137--452195	31	1.9	31	86	6	84	81	3	15	0	0.82
452826--452901	22	3.5	22	94	0	134	39	26	13	21	1.89
453092--453154	24	2.6	24	84	2	90	36	19	3	41	1.67
453727--455102	106	13.0	106	91	1	2097	34	24	18	23	1.96
455833--455929	37	2.6	37	85	0	140	42	15	11	30	1.82
456584--456629	16	2.9	16	83	6	58	30	0	2	67	1.03
456514--456632	21	5.6	21	71	22	70	26	5	1	66	1.22
456645--456683	11	3.5	11	86	6	51	23	5	5	66	1.32
456692--456740	2	24.5	2	100	0	98	48	0	0	51	1.00
462057--462082	3	8.7	3	100	0	52	0	34	0	65	0.93
462953--463035	29	2.8	29	92	1	139	43	9	14	32	1.78
467709--467791	29	2.8	29	92	1	139	43	9	14	32	1.78
469187--469230	22	2.1	20	87	8	61	36	0	0	63	0.95
478328--478375	18	2.8	17	84	12	62	72	6	2	18	1.15
478326--478368	19	2.3	18	84	4	59	72	6	2	18	1.19
479165--479225	26	2.4	25	82	17	72	1	21	9	67	1.29
479734--479792	3	19.7	3	100	0	118	66	0	0	33	0.92
479929--480580	117	5.7	112	89	4	837	29	19	14	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
479929--480580	228	2.8	230	88	3	915	29	19	14	36	1.92
481199--481304	52	2.1	50	85	11	139	35	22	15	26	1.93
481137--481434	130	2.3	130	98	0	578	36	22	13	27	1.92
481346--481486	52	2.7	52	100	0	282	38	24	14	22	1.92
494082--494132	19	2.8	18	82	8	68	72	5	1	19	1.15
494909--494971	26	2.4	25	82	12	72	1	20	9	68	1.26
494917--494970	28	1.9	28	84	0	72	1	20	9	68	1.27
494985--495016	10	3.2	10	100	0	64	0	9	0	90	0.45
494988--495020	11	3.1	11	95	4	59	0	9	0	90	0.44
495486--495550	3	21.7	3	100	0	130	66	0	0	33	0.92

Tables:   1   2   3   4   5