genome.fa.s8802.2.7.7.80.10.50.1000.2.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: VEPZ01008802.1 Hibiscus syriacus cultivar Beakdansim tig00111952_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1147353

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 641 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)
285529--285616	32	2.8	32	85	1	124	38	12	14	34	1.84
288147--288199	15	3.5	15	76	0	52	37	7	13	41	1.72
291064--291444	55	6.9	55	89	1	570	32	12	19	34	1.90
291472--291530	14	4.1	14	73	16	50	38	6	16	37	1.76
291474--291532	29	2.0	29	90	0	91	40	8	16	33	1.79
291472--291523	14	3.6	14	79	5	68	38	7	19	34	1.80
291872--291939	23	3.0	22	74	8	55	44	1	1	52	1.19
291928--292032	28	3.5	30	81	15	110	49	0	0	49	1.07
292010--292060	23	2.2	23	86	6	68	43	1	1	52	1.23
292050--292126	31	2.5	31	73	17	81	49	0	1	49	1.09
292300--292391	42	2.2	42	98	0	175	45	17	17	19	1.85
292352--292458	51	2.1	51	87	0	151	42	15	19	21	1.88
299822--299869	22	2.2	22	96	0	87	37	41	10	10	1.74
306664--306695	16	2.0	16	93	0	55	25	15	46	12	1.81
309858--309890	13	2.7	13	86	13	52	60	0	27	12	1.32
314511--314535	12	2.1	12	100	0	50	40	16	24	20	1.91
321162--321503	40	8.6	40	81	5	320	32	14	9	42	1.79
321234--321300	20	3.3	20	63	0	53	37	17	10	34	1.85
321162--321436	80	3.5	79	86	0	361	34	15	8	41	1.78
321262--321404	20	7.1	21	67	12	77	37	13	6	41	1.70
321162--321498	120	2.8	120	82	4	378	32	15	9	42	1.79
321497--321582	39	2.3	36	82	11	93	36	10	8	45	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
321828--322130	40	7.6	40	85	4	391	31	15	13	39	1.87
321921--322070	20	7.5	20	65	8	81	33	16	12	38	1.86
322426--322575	40	3.8	40	82	5	153	30	11	17	40	1.85
322554--322593	18	2.2	19	86	4	55	22	12	12	52	1.72
322573--322676	41	2.5	42	90	1	165	26	14	11	47	1.78
322473--322678	99	2.1	101	82	5	249	27	12	14	45	1.81
322662--322754	38	2.5	37	78	7	98	26	11	18	43	1.85
326778--326859	32	2.6	32	86	3	112	34	13	19	32	1.91
328927--328982	2	27.5	2	96	3	103	48	0	1	50	1.11
332588--332664	23	3.3	23	94	0	127	48	14	14	23	1.80
334340--334429	31	2.9	31	76	12	96	37	18	17	25	1.93
339108--339164	22	2.6	22	80	0	69	28	26	19	26	1.99
339146--339237	31	3.0	31	78	12	109	35	19	17	27	1.94
339663--339703	16	2.6	16	96	0	73	43	29	7	19	1.78
352367--352456	42	2.2	42	84	9	114	23	22	30	24	1.99
355232--355267	17	2.1	17	90	10	56	41	0	5	52	1.24
379094--379135	22	2.0	22	90	4	68	16	4	0	78	0.91
381172--381568	198	2.0	199	99	0	787	29	19	17	33	1.95
390864--390910	20	2.4	18	78	21	51	68	0	2	29	1.02
390942--391053	50	2.2	50	82	0	134	56	8	12	22	1.64
392827--392864	19	2.1	18	85	14	51	42	10	0	47	1.38
392915--392977	19	3.3	19	84	0	81	47	17	1	33	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393479--393541	21	3.0	21	78	17	67	33	0	1	65	1.03
394754--394782	8	3.8	8	95	4	51	89	0	10	0	0.48
395243--395319	31	2.5	31	85	4	93	24	9	14	51	1.70
395620--395733	42	2.7	41	77	10	106	32	26	15	25	1.96
396194--396231	15	2.5	15	95	0	67	28	2	42	26	1.69
397182--397220	19	2.0	20	85	5	53	30	12	5	51	1.62
403009--403054	23	2.0	23	95	0	83	28	0	39	32	1.57
422874--424076	606	2.0	594	95	3	2189	36	21	6	34	1.81
426121--426231	46	2.4	46	95	0	204	35	1	18	44	1.61
426296--426392	44	2.2	46	79	7	110	41	1	12	45	1.49
427583--427611	14	2.1	14	93	6	51	55	0	0	44	0.99
429733--429795	28	2.2	30	94	5	112	57	12	0	30	1.36
429737--429802	28	2.4	28	87	10	107	56	12	0	31	1.36
429772--429820	21	2.3	21	85	3	71	53	16	0	30	1.43
435402--435442	18	2.2	20	86	8	59	39	0	9	51	1.35
443158--443330	59	2.9	59	77	5	163	31	23	6	39	1.80
445029--445079	6	8.0	6	80	10	57	15	5	0	78	0.93
445043--445116	22	3.5	22	75	21	68	20	6	0	72	1.06
448867--449048	91	2.0	90	93	1	310	32	22	20	24	1.98
449076--449231	43	3.4	43	66	16	125	33	25	18	22	1.96
448953--449978	106	10.0	106	92	6	1768	33	25	18	23	1.96
449165--449978	105	7.8	106	93	4	1437	33	25	18	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449484--449639	43	3.4	43	65	16	116	33	24	18	23	1.96
448867--449978	408	2.7	409	96	2	2011	33	24	18	23	1.97
449573--449975	211	1.9	212	97	0	763	33	25	18	22	1.97
449573--450029	106	4.3	105	94	0	752	32	25	18	23	1.97
450551--450577	13	2.1	13	100	0	54	37	0	0	62	0.95
452091--452141	6	8.0	6	80	10	57	15	5	0	78	0.93
452105--452178	22	3.5	22	75	21	68	20	6	0	72	1.06
453645--453684	20	2.0	20	85	5	53	42	2	0	55	1.13
455532--455611	31	2.4	33	79	14	92	38	25	13	22	1.91
455669--455712	23	1.9	23	85	0	61	25	20	20	34	1.97
455704--455744	17	2.4	17	95	0	73	36	29	12	21	1.90
458393--458427	6	5.7	6	93	6	61	14	0	48	37	1.44
458367--458429	7	9.6	7	91	3	53	15	0	34	49	1.45
459946--459973	2	14.0	2	100	0	56	50	0	0	50	1.00
461604--461668	22	2.9	22	88	2	85	27	27	20	24	1.99
461739--461962	75	3.0	74	90	3	317	26	0	13	58	1.41
461770--461878	19	5.8	19	70	14	57	28	0	12	57	1.42
461816--461981	74	2.4	66	73	20	158	26	1	15	57	1.46
470220--470432	73	2.9	75	85	4	263	28	1	12	57	1.46
470227--470441	75	2.9	74	84	4	238	28	1	13	56	1.47
471011--471047	4	9.0	4	90	3	56	21	2	2	72	1.09
471193--471233	21	1.9	21	85	5	55	48	19	2	29	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478117--478377	141	1.9	141	98	1	506	27	15	22	34	1.94
478759--478800	21	2.0	21	90	0	66	42	2	7	47	1.43
478857--478919	6	11.2	6	83	10	80	60	0	3	36	1.13
478857--478919	28	2.3	27	86	10	83	60	0	3	36	1.13
478859--478919	16	3.7	16	83	14	79	60	0	3	36	1.13
480120--480289	90	1.9	88	95	2	304	44	6	11	38	1.66
486971--487143	90	1.9	89	92	1	292	43	5	10	39	1.64
489002--489026	2	12.5	2	100	0	50	48	0	0	52	1.00
492098--492546	108	4.2	107	85	2	571	35	19	16	28	1.94
492089--492547	54	8.5	54	80	6	500	35	19	16	28	1.94
499057--499561	54	9.3	54	81	2	539	36	19	15	28	1.93
499050--499531	162	3.0	158	83	4	595	37	18	15	28	1.91
500358--500507	64	2.4	63	88	5	214	30	16	21	32	1.95
503191--503277	23	3.9	22	71	14	70	25	22	22	28	1.99
503195--503292	45	2.2	45	84	12	123	26	21	22	29	1.99
503229--503292	24	2.9	21	69	24	51	28	18	20	32	1.96
509070--509225	64	2.5	63	85	5	208	34	18	18	28	1.95
510835--511272	58	7.8	57	74	12	302	36	19	11	33	1.87
510977--511061	43	2.0	43	95	0	152	38	23	9	28	1.86
511020--511272	59	4.4	59	88	5	367	35	18	10	34	1.86
510921--511120	102	2.0	99	90	4	312	37	21	11	30	1.88
510837--511233	217	1.8	214	89	1	623	36	20	10	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511598--511649	22	2.5	21	84	6	61	28	26	13	30	1.94
511608--511650	22	2.0	22	90	0	68	25	27	13	32	1.94
511690--511745	22	2.7	20	81	10	67	26	28	16	28	1.97
511599--511820	95	2.4	94	89	0	318	26	25	14	33	1.95
517222--517439	103	2.1	103	95	0	400	25	13	23	37	1.91
517456--517518	23	2.7	23	95	0	108	19	26	26	26	1.99
521970--522126	64	2.5	64	76	10	160	33	21	19	26	1.97
522854--523071	103	2.1	103	97	0	409	25	13	23	36	1.92
523087--523150	23	2.8	23	86	9	87	18	23	26	31	1.98
530036--530106	33	2.2	33	92	0	115	32	14	14	39	1.85

Tables:   1   2   3   4   5   6