genome.fa.s8120.2.7.7.80.10.50.1000.2.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: VEPZ01008120.1 Hibiscus syriacus cultivar Beakdansim tig00110670_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  639723

Tables:   1   2   3   

This is table  2  of  3  ( 306 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)
204895--205140	102	2.4	102	89	0	384	31	18	12	37	1.88
205018--205403	65	5.8	65	74	12	273	30	19	11	39	1.86
205084--205272	36	5.4	36	73	14	164	26	18	13	41	1.87
205234--205402	67	2.5	68	86	4	220	30	21	9	38	1.85
206076--206595	106	5.0	105	80	4	526	35	24	17	22	1.95
208594--208662	23	3.0	23	84	0	93	27	26	26	20	1.99
208678--208995	103	3.1	103	94	0	555	37	22	13	26	1.92
210681--210726	21	2.2	21	84	0	56	13	26	30	30	1.93
211527--211591	31	2.1	31	82	0	76	24	16	23	35	1.95
211577--211649	30	2.4	30	93	0	119	26	20	23	30	1.99
213213--213268	9	6.2	9	78	14	53	14	17	0	67	1.22
222091--222131	8	5.2	8	82	5	57	34	0	29	36	1.58
222202--222815	126	4.9	127	94	3	1050	23	25	18	33	1.97
223214--223311	32	3.0	33	80	4	117	38	2	3	56	1.27
223830--223899	21	3.3	20	90	5	95	18	27	35	18	1.94
223903--223950	21	2.3	21	85	0	60	22	12	39	25	1.89
229027--229063	19	2.0	19	89	5	58	8	5	24	62	1.44
240282--240443	43	3.8	43	93	0	261	40	18	8	33	1.80
240596--240658	31	2.1	28	85	8	81	34	0	12	52	1.40
242368--242398	12	2.6	12	100	0	62	32	6	0	61	1.21
245481--245513	16	2.1	16	94	0	57	57	21	12	9	1.62
245595--245654	6	11.0	6	70	20	51	55	18	13	13	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
245575--245657	16	5.3	16	91	2	134	59	16	10	13	1.62
258305--258394	31	2.9	29	88	8	117	54	8	17	18	1.69
259449--259504	29	1.9	29	82	13	71	28	10	21	39	1.87
260942--260971	15	2.0	15	100	0	60	40	20	0	40	1.52
264899--264930	12	2.7	12	95	0	55	34	43	18	3	1.66
269343--269423	33	2.5	32	86	5	119	25	9	19	44	1.82
270371--270420	16	3.1	16	88	5	75	48	8	6	38	1.57
284073--284131	21	2.8	21	84	0	73	22	40	28	8	1.83
292703--292757	13	4.2	13	95	2	92	54	0	0	45	0.99
296972--297002	15	2.1	15	93	0	53	54	0	0	45	0.99
302915--302983	23	3.0	23	84	0	93	26	24	27	21	1.99
302999--303218	103	2.1	104	90	1	352	36	22	13	27	1.92
304899--304943	21	2.1	21	87	0	63	15	24	28	31	1.96
305805--305831	2	13.5	2	100	0	54	48	0	0	51	1.00
308141--308204	23	2.8	23	85	0	83	28	26	25	20	1.99
308220--308432	103	2.1	103	94	0	372	37	22	13	26	1.91
311719--311796	21	3.7	21	78	0	84	25	12	19	42	1.87
311809--311882	21	3.4	21	83	3	94	20	20	25	33	1.97
320893--320921	10	2.7	11	94	5	51	72	0	0	27	0.85
328034--328129	46	2.1	45	79	11	106	41	4	13	40	1.64
328754--328786	13	2.4	14	90	5	50	60	0	0	39	0.97
328954--328979	2	13.0	2	100	0	52	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)
332444--332593	58	2.6	59	82	3	160	36	14	14	35	1.86
335444--335979	258	2.1	258	90	3	844	25	13	20	40	1.88
336545--336723	75	2.4	74	89	4	277	30	25	18	25	1.98
336688--336765	20	3.7	21	80	16	81	25	32	16	25	1.96
336690--336765	22	3.7	20	81	11	82	25	32	17	25	1.96
342297--342402	23	4.8	20	80	15	97	29	24	17	28	1.98
342297--342425	21	5.8	23	81	11	130	27	27	17	27	1.97
342297--342402	44	2.4	45	84	9	155	29	24	17	28	1.98
342297--342425	44	2.9	44	80	10	140	27	27	17	27	1.97
345002--345188	75	2.5	75	92	2	304	29	25	20	24	1.99
346138--346258	62	2.0	62	88	3	181	28	27	18	26	1.98
359704--359811	42	2.6	41	80	2	108	28	21	20	29	1.98
359918--360009	42	2.2	42	86	0	130	26	19	20	33	1.96
359915--359989	20	3.7	20	67	13	62	24	20	22	33	1.97
360058--360144	42	2.1	41	85	4	113	26	17	22	33	1.96
360214--360385	53	3.2	53	86	1	256	29	21	26	22	1.99
360533--360566	14	2.3	15	90	5	52	47	0	0	52	1.00
360538--360602	20	3.3	20	80	8	80	47	3	0	49	1.17
360540--360631	3	31.3	3	69	4	53	44	2	1	52	1.20
366047--366086	20	2.1	19	86	9	55	52	5	15	27	1.63
368462--368501	11	3.5	11	83	6	53	75	5	0	20	0.99
372601--372666	31	2.1	32	91	2	107	42	18	15	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
374781--374867	20	4.8	17	73	18	61	17	10	0	72	1.11
374825--374884	18	3.3	18	78	17	63	15	13	0	71	1.14
374843--374873	9	3.4	9	90	0	53	12	16	0	70	1.16
384599--384641	3	14.3	3	100	0	86	67	0	0	32	0.91
386179--386215	20	1.9	19	89	10	58	45	10	24	18	1.81
387031--387072	20	2.2	20	86	4	59	61	7	9	21	1.50
392010--392100	27	3.2	27	73	14	92	54	15	6	23	1.64
397017--397045	14	2.0	15	93	6	51	62	0	0	37	0.96
399991--400029	20	1.9	21	89	5	62	56	2	2	38	1.27
405949--406051	33	3.2	31	86	8	118	29	18	3	48	1.66
405958--406051	32	2.9	32	87	7	120	29	18	3	48	1.63
407238--407330	41	2.3	41	96	0	168	25	15	15	44	1.85
407249--407315	22	3.2	22	60	20	52	20	16	14	47	1.82
410300--410326	2	13.5	2	100	0	54	48	0	0	51	1.00
410528--410619	27	3.2	27	71	14	85	55	14	6	23	1.62
415576--415604	14	2.0	15	93	6	51	62	0	0	37	0.96
418553--418591	20	1.9	21	89	5	62	56	2	2	38	1.27
424477--424579	33	3.2	31	86	8	118	29	18	3	48	1.66
424486--424579	32	2.9	32	87	7	120	29	18	3	48	1.63
427849--427877	14	2.0	15	93	6	51	62	0	0	37	0.96
430819--430857	20	1.9	21	89	5	62	56	2	2	38	1.27
431407--431619	103	2.1	103	99	0	417	41	11	15	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
436895--436988	32	2.9	32	85	7	111	29	17	3	50	1.61
441264--441358	9	9.7	9	72	18	66	8	26	25	40	1.84
441264--441358	20	4.8	20	92	2	147	8	26	25	40	1.84
456668--456706	19	1.9	19	90	10	60	71	7	0	20	1.10
456704--456758	16	3.4	16	77	7	58	58	0	0	41	0.98
456713--456791	30	2.4	32	83	14	90	56	0	0	43	0.99
458758--458815	2	29.0	2	100	0	116	50	0	0	50	1.00
472056--472120	30	2.1	30	82	8	76	75	3	10	10	1.15
472230--472264	13	2.7	13	86	0	52	71	0	2	25	1.00
472311--472458	14	9.9	14	70	19	68	67	2	5	25	1.22
473719--473771	4	13.0	4	88	4	79	69	0	5	24	1.09
473719--473771	21	2.6	21	90	3	81	69	0	5	24	1.09
473781--474111	36	8.7	36	75	16	258	47	7	2	42	1.45
473797--473960	84	2.0	84	92	2	278	50	7	1	41	1.38
473828--473925	47	2.1	46	94	3	171	50	6	1	42	1.34
473872--474114	37	6.5	37	85	8	330	46	7	2	43	1.45
473900--474111	75	2.8	75	97	0	397	46	8	2	43	1.46
473869--474114	75	3.2	74	92	2	339	46	7	2	43	1.44
483179--483220	22	1.9	21	85	9	57	52	19	7	21	1.69
500647--500693	22	2.1	22	84	7	60	17	17	4	61	1.49
500895--500936	16	2.5	17	84	7	59	26	4	0	69	1.08
501790--501821	16	2.1	16	94	5	57	28	25	6	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507938--507966	13	2.2	13	100	0	58	58	0	6	34	1.25
514003--514050	21	2.3	21	96	0	87	27	18	12	41	1.86
524190--524291	35	2.8	36	88	5	152	43	16	5	34	1.72
531102--531161	20	3.0	20	100	0	120	30	0	30	40	1.57
531664--531710	2	23.5	2	100	0	94	48	0	0	51	1.00
534939--534982	20	2.3	20	84	7	56	38	11	29	20	1.87
538932--539332	201	2.0	199	94	1	696	32	17	12	36	1.88
558944--559262	161	2.0	161	87	3	464	38	8	21	31	1.82
563161--563332	60	2.8	59	75	6	166	41	5	19	33	1.75
564352--564424	27	2.6	28	82	8	96	23	5	20	50	1.69

Tables:   1   2   3