genome.fa.s8359.2.7.7.80.10.50.1000.2.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: VEPZ01008359.1 Hibiscus syriacus cultivar Beakdansim tig00111098_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1252926

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 669 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)
254614--254667	27	2.0	27	85	0	72	35	24	11	29	1.90
262840--262901	20	3.0	20	88	2	88	0	30	0	69	0.89
262843--262909	15	4.6	15	77	17	61	0	31	0	68	0.90
262857--262909	28	1.9	27	92	3	88	0	32	0	67	0.91
262843--262911	16	4.7	16	67	22	53	0	31	0	68	0.90
263109--263221	39	2.8	40	85	2	138	26	12	41	19	1.87
267290--267610	159	2.0	160	98	0	626	29	19	16	35	1.93
269763--269803	22	1.9	22	85	5	57	56	2	14	26	1.51
270798--270858	25	2.4	25	86	5	79	24	26	24	24	2.00
278320--278363	2	22.0	2	100	0	88	50	0	0	50	1.00
279626--279685	30	2.0	30	90	0	93	35	25	30	10	1.88
279907--279964	24	2.4	24	94	0	98	39	18	15	25	1.91
284148--284192	16	2.8	16	82	0	63	42	8	20	28	1.82
284776--284839	23	2.8	23	95	0	110	35	23	4	35	1.76
285259--285329	23	3.1	23	84	8	90	39	21	4	35	1.73
285747--285819	23	3.2	23	90	0	110	38	19	5	36	1.75
284364--286166	490	3.7	490	97	0	3360	40	10	7	40	1.68
286492--286557	33	2.0	33	87	0	96	24	46	0	28	1.52
286591--286655	21	3.1	21	93	0	103	16	30	10	41	1.83
286794--286818	9	2.8	9	100	0	50	0	56	8	36	1.29
288880--288922	20	2.3	18	85	14	61	20	16	11	51	1.75
288957--289230	146	1.9	147	89	2	426	28	17	13	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
296689--296726	20	1.9	20	84	10	51	55	2	13	28	1.51
296766--296863	31	3.1	32	80	13	98	65	1	9	24	1.28
297132--297185	22	2.6	20	80	11	72	59	9	7	24	1.54
298262--298634	84	4.5	84	86	4	461	24	20	21	33	1.97
298636--299001	124	3.0	124	91	0	572	25	18	24	31	1.97
301254--301298	21	2.1	21	87	0	63	31	28	24	15	1.96
302819--302885	30	2.2	30	94	0	116	25	19	23	31	1.98
307117--307166	24	2.1	23	89	10	75	76	0	4	20	0.95
307112--307167	24	2.3	25	82	17	73	75	0	3	21	0.96
307112--307169	25	2.3	26	80	11	77	74	0	3	22	0.97
307458--307498	22	1.9	21	85	14	57	56	12	9	21	1.65
307737--308313	288	2.0	288	96	0	1073	16	30	26	26	1.97
314922--315173	133	1.9	132	82	4	312	47	4	3	44	1.40
318086--318127	20	2.2	19	86	4	57	64	2	0	33	1.07
317992--318231	120	2.0	120	82	4	297	46	8	7	37	1.63
318322--318351	3	10.0	3	92	0	51	63	0	3	33	1.11
319624--319676	3	17.7	3	84	7	72	64	0	0	35	0.94
319624--319685	21	2.9	21	87	4	79	64	1	0	33	1.03
319624--319683	18	3.2	18	80	13	66	63	1	0	35	1.05
320871--320923	3	17.7	3	84	7	72	64	0	0	35	0.94
320871--320929	18	3.1	18	79	13	64	62	1	0	35	1.05
321149--322038	113	7.8	113	86	5	1072	28	20	13	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
321626--321670	23	1.9	23	82	13	56	15	26	6	51	1.68
324892--325114	114	2.0	114	95	0	401	33	20	13	32	1.92
327288--327329	14	2.9	14	85	3	57	4	11	0	83	0.79
327281--327345	23	2.8	23	77	11	69	3	16	0	80	0.85
327290--327328	20	1.9	21	94	5	71	5	12	0	82	0.83
327287--327337	20	2.6	18	82	17	66	3	13	0	82	0.81
327638--327665	2	14.0	2	100	0	56	50	0	0	50	1.00
329397--329435	15	2.6	15	83	0	51	66	5	15	12	1.41
330909--330947	18	2.1	19	90	4	62	79	0	5	15	0.90
330909--330949	16	2.4	17	88	8	57	78	0	4	17	0.93
331457--331510	23	2.3	23	84	6	65	55	0	3	40	1.17
331557--331598	20	2.2	19	86	4	57	64	2	0	33	1.07
331769--331805	2	18.5	2	100	0	74	48	0	0	51	1.00
333135--333181	3	15.7	3	82	8	60	63	0	0	36	0.94
341550--341628	31	2.5	31	81	0	95	30	10	16	43	1.81
342587--342612	4	6.5	4	100	0	52	0	23	0	76	0.78
345418--345489	30	2.4	30	97	0	135	27	16	27	27	1.97
346411--346473	30	2.1	31	93	3	110	25	17	3	53	1.58
349002--349031	2	15.0	2	100	0	60	50	0	0	50	1.00
356662--356899	114	2.1	112	92	1	386	31	12	13	42	1.81
356797--356991	91	2.1	91	97	0	363	28	14	14	42	1.85
356887--357126	115	2.1	113	89	2	374	31	11	12	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357093--357130	21	1.9	20	89	10	60	36	7	10	44	1.68
357212--357457	73	3.4	72	88	3	341	34	10	14	40	1.81
357525--357898	158	2.4	158	90	0	568	32	12	11	43	1.79
357829--357873	23	2.0	23	90	0	72	37	17	8	35	1.81
361331--361377	21	2.2	21	96	0	85	19	34	17	29	1.94
362034--362059	6	4.3	6	100	0	52	50	19	15	15	1.79
363564--363707	61	2.3	64	86	4	195	28	25	15	31	1.95
366804--366891	29	3.0	30	96	3	169	26	17	10	46	1.79
373814--373858	18	2.5	18	96	0	81	13	17	17	51	1.77
380454--380576	38	3.3	36	79	12	133	45	17	4	32	1.68
380502--380568	21	3.4	21	66	16	61	49	17	2	29	1.62
384640--384675	16	2.2	17	95	5	65	44	19	0	36	1.51
385050--385167	35	3.3	37	83	11	149	44	16	3	34	1.65
387528--387588	17	3.4	17	70	16	59	39	1	6	52	1.37
388092--388138	20	2.3	20	82	14	60	40	2	0	57	1.11
399203--399262	22	2.7	22	86	0	84	23	30	25	21	1.99
399245--399279	18	1.9	18	88	0	52	25	31	28	14	1.95
405305--405339	3	11.7	3	100	0	70	31	0	0	68	0.90
405878--405904	14	1.9	14	100	0	54	66	7	0	25	1.17
406720--406819	50	2.0	51	90	2	157	48	12	4	36	1.59
412792--412972	89	2.0	89	100	0	362	37	18	14	29	1.91
414182--414421	51	4.6	52	84	4	290	24	12	14	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415638--415709	35	2.1	35	91	0	117	31	8	18	41	1.80
416327--416399	24	3.0	24	90	4	85	10	16	24	47	1.78
416337--416392	14	4.3	14	76	17	66	8	16	25	50	1.74
416338--416399	24	2.6	24	94	0	106	9	14	24	51	1.72
417428--417486	10	5.7	10	73	15	57	10	11	20	57	1.63
417434--417490	16	3.7	16	88	4	82	10	10	19	59	1.59
422897--422957	23	2.7	23	89	0	95	31	26	22	19	1.98
427915--428001	24	3.9	23	82	11	110	25	26	18	29	1.98
429549--429605	2	28.5	2	100	0	114	50	0	0	49	1.00
430051--430328	89	3.1	88	87	2	369	30	24	23	22	1.99
431806--431986	88	2.1	88	98	0	353	24	13	17	44	1.85
436323--436347	12	2.1	12	100	0	50	8	8	0	84	0.79
437427--437451	2	12.5	2	100	0	50	52	0	0	48	1.00
438074--438197	29	4.3	29	84	7	162	43	18	10	27	1.83
438074--438197	58	2.1	58	92	0	203	43	18	10	27	1.83
443239--443444	65	3.2	65	86	4	272	30	15	20	33	1.93
444316--444572	65	3.9	65	81	1	282	30	14	21	33	1.93
445342--445546	65	3.2	65	85	0	284	31	14	20	33	1.93
445783--445836	23	2.4	22	79	14	56	66	5	12	14	1.41
453037--453096	30	2.0	30	90	0	93	26	23	16	33	1.96
455704--455770	30	2.2	30	86	0	89	26	20	11	40	1.88
456582--456622	16	2.6	16	88	3	57	36	12	21	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456701--456764	23	2.8	23	90	0	101	26	23	17	32	1.96
465020--465084	27	2.4	26	82	10	69	46	1	3	49	1.27
465847--465887	22	1.9	22	85	5	57	31	2	17	48	1.60
466520--466568	20	2.5	20	100	0	98	22	30	16	30	1.96
471246--471285	17	2.3	18	83	16	57	5	7	2	85	0.83
471855--471890	3	12.0	3	93	0	63	66	30	0	2	1.06
473738--473768	2	15.5	2	100	0	62	48	0	0	51	1.00
478473--478518	2	23.0	2	100	0	92	50	0	0	50	1.00
483789--483845	15	3.7	15	75	9	60	22	33	26	17	1.96
485288--485350	23	2.7	23	92	0	99	38	20	4	36	1.74

Tables:   1   2   3   4   5   6