genome.fa.s8278.2.7.7.80.10.50.1000.2.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: VEPZ01008278.1 Hibiscus syriacus cultivar Beakdansim tig00110937_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  776496

Tables:   1   2   3   

This is table  2  of  3  ( 344 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)
263194--263268	30	2.5	29	87	10	107	26	4	2	66	1.22
263486--263576	29	3.2	29	79	4	87	51	0	6	41	1.28
263510--263576	27	2.4	28	85	5	82	56	0	5	37	1.24
263575--263604	15	1.9	16	93	6	53	46	0	3	50	1.18
263417--263990	188	3.0	188	85	8	738	49	2	6	42	1.40
263671--263743	29	2.4	31	80	13	89	52	0	4	43	1.20
263698--263764	29	2.3	29	89	5	100	55	0	7	37	1.28
263765--263794	15	1.9	16	93	6	53	46	0	3	50	1.18
264040--264091	28	2.0	27	85	11	72	59	0	3	36	1.16
264185--264216	2	16.0	2	93	0	55	53	0	0	46	1.00
264181--264216	12	3.0	12	95	0	63	55	0	0	44	0.99
264177--264211	16	2.2	16	94	0	61	60	0	0	40	0.97
264370--264421	19	2.7	19	100	0	104	57	0	0	42	0.98
265890--265942	25	2.2	24	83	10	63	41	7	1	49	1.42
268790--268828	18	2.1	19	85	4	53	69	2	25	2	1.14
273789--273818	15	1.9	16	93	6	53	80	3	0	16	0.85
291198--291223	3	8.7	3	100	0	52	0	30	0	69	0.89
292361--292386	3	8.7	3	100	0	52	0	30	0	69	0.89
301851--301882	2	16.0	2	100	0	64	50	0	0	50	1.00
314544--314574	15	2.1	15	100	0	62	12	19	35	32	1.90
314559--314716	31	5.2	31	86	4	214	20	19	21	38	1.93
315248--315346	21	4.7	21	96	0	180	25	14	31	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
315398--315436	20	2.0	20	89	0	60	25	15	20	38	1.92
315835--315877	20	2.2	20	83	8	52	44	6	0	48	1.29
322561--322703	39	3.8	38	82	8	154	48	4	0	47	1.21
326452--326490	17	2.4	17	91	4	62	51	2	0	46	1.14
326798--326853	19	3.0	19	97	2	105	41	5	5	48	1.49
327598--327648	9	5.6	9	75	11	50	50	1	0	47	1.12
337357--337389	14	2.4	14	100	0	66	36	45	6	12	1.66
337726--337758	12	2.8	12	95	0	57	36	6	57	0	1.23
339160--339235	36	2.1	36	97	0	143	43	14	10	31	1.79
368298--368368	33	2.2	33	100	0	142	19	21	25	33	1.97
368412--368486	37	2.0	37	94	0	132	41	14	16	28	1.87
371756--371841	31	2.8	30	89	5	120	44	1	4	50	1.30
382912--382938	13	2.1	13	100	0	54	29	0	0	70	0.88
385957--385988	15	2.1	15	94	0	55	50	6	0	43	1.27
387102--387135	17	2.1	17	88	5	52	38	2	2	55	1.30
394331--394379	21	2.3	21	83	13	57	63	2	12	22	1.39
396332--396370	18	2.2	18	90	0	60	71	5	0	23	1.05
397107--397148	13	2.8	16	75	24	54	59	0	0	40	0.97
397233--397275	16	2.6	17	81	7	52	51	2	2	44	1.27
397753--397802	16	3.0	15	78	21	55	50	2	0	48	1.12
398660--398686	6	4.5	6	100	0	54	55	0	0	44	0.99
400032--400086	21	2.5	22	83	13	69	69	0	1	29	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400032--400086	20	2.8	21	89	8	80	69	0	1	29	0.99
400032--400093	20	3.1	20	86	9	65	69	0	1	29	0.98
401000--401075	31	2.4	31	80	2	89	26	31	27	14	1.95
400953--401075	63	2.0	63	82	6	151	25	29	28	17	1.97
402587--402621	18	1.9	18	88	0	52	28	17	0	54	1.43
403910--403941	7	4.4	7	92	7	55	25	28	34	12	1.92
403911--403957	8	6.5	8	79	20	59	21	25	38	14	1.92
403911--403957	15	3.3	15	91	5	71	21	25	38	14	1.92
403918--403962	13	3.3	13	90	6	63	17	24	42	15	1.88
403939--403979	18	2.3	17	91	8	64	9	21	51	17	1.74
403957--403989	13	2.5	13	100	0	66	12	24	48	15	1.78
405955--405986	7	4.4	7	92	7	55	25	28	34	12	1.92
405956--406002	8	6.5	8	79	20	59	21	25	38	14	1.92
405956--406002	15	3.3	15	91	5	71	21	25	38	14	1.92
405963--406007	13	3.3	13	90	6	63	17	24	42	15	1.88
415889--415995	30	3.5	31	85	6	137	26	11	5	57	1.56
415889--415995	31	3.5	30	87	6	135	26	11	5	57	1.56
415889--415995	32	3.5	31	81	13	114	26	11	5	57	1.56
420784--420899	21	5.6	21	69	7	67	34	25	18	20	1.96
420887--421139	61	4.2	60	74	7	170	37	23	18	20	1.94
420928--421141	20	10.6	20	77	6	180	37	22	18	21	1.94
420928--421139	41	5.2	41	88	1	293	37	22	18	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
421211--421265	21	2.6	21	79	0	65	18	25	20	36	1.94
421253--421318	20	3.3	20	89	4	98	34	19	19	25	1.96
422181--422234	24	2.2	24	96	0	99	20	16	20	42	1.89
422999--423077	40	2.0	41	84	2	106	45	18	22	12	1.84
423008--423083	20	3.7	21	87	5	111	43	19	25	11	1.85
423153--423229	21	3.8	20	78	13	79	11	19	18	50	1.77
423181--423226	18	2.4	18	85	7	56	15	15	23	45	1.84
423742--423952	20	10.4	20	77	7	183	18	17	23	40	1.91
423742--423952	41	5.2	41	88	1	291	18	17	23	40	1.91
424001--424079	21	3.8	21	70	14	65	22	20	24	32	1.97
423959--424077	20	5.8	20	70	13	73	21	18	21	37	1.94
424042--424115	20	3.7	20	71	10	62	21	18	25	33	1.96
424548--424582	19	1.9	18	88	11	54	48	5	5	40	1.51
425140--425176	20	1.9	19	89	10	58	45	10	24	18	1.81
425345--425415	36	2.0	35	86	5	99	50	1	1	46	1.18
425814--425850	20	1.9	19	89	10	58	48	10	18	21	1.78
425111--427111	678	3.0	673	88	4	2906	38	11	14	35	1.83
426694--426751	26	2.3	27	85	8	77	48	3	1	46	1.29
434248--434277	2	15.0	2	100	0	60	50	0	0	50	1.00
434289--434349	22	2.7	22	73	12	61	45	0	0	54	1.00
434302--434335	11	3.1	11	100	0	68	35	0	0	64	0.94
438040--438069	7	4.3	7	100	0	60	0	26	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438855--438930	24	3.0	24	76	14	73	32	1	2	63	1.17
438855--438920	17	4.0	16	71	19	55	31	1	3	63	1.19
440180--440326	76	1.9	75	98	1	285	42	9	10	36	1.73
442631--442682	3	17.3	3	92	7	88	32	0	0	67	0.91
449049--449167	36	3.6	34	71	24	110	23	22	16	36	1.94
454450--454529	28	2.8	29	88	7	119	33	15	10	41	1.80
455733--456076	177	1.9	177	100	0	688	38	17	23	19	1.92
459191--459291	29	3.4	29	97	1	184	32	14	8	43	1.77
467138--467169	16	2.0	16	93	0	55	34	25	6	34	1.81
470806--470883	30	2.6	30	93	0	129	19	20	41	19	1.91
471581--471658	30	2.6	30	89	0	120	17	41	21	19	1.91
477935--477996	31	2.0	31	93	0	106	37	25	22	14	1.92
482839--482958	39	3.2	38	81	5	109	35	14	0	50	1.43
483394--483423	3	10.0	3	100	0	60	33	0	33	33	1.58
490080--490232	60	2.5	60	86	4	209	32	23	5	38	1.77
493236--493287	21	2.5	22	75	6	54	46	11	0	42	1.40
494502--494539	18	2.1	18	100	0	76	34	0	0	65	0.93
494518--494631	60	1.9	60	85	3	158	54	3	1	40	1.28
499924--499958	15	2.3	15	90	0	52	48	17	5	28	1.69
501734--501798	31	2.1	31	82	0	76	50	13	12	23	1.75
504151--504194	22	2.0	22	81	0	52	52	15	4	27	1.63
506546--506597	3	17.3	3	80	7	61	61	1	3	32	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
506752--506879	43	3.0	42	74	11	136	25	19	31	23	1.98
506794--507035	40	5.8	40	75	11	168	24	19	32	23	1.98
506836--506947	46	2.5	43	82	4	116	25	20	28	25	1.99
506935--507035	41	2.5	40	88	1	139	25	15	35	22	1.94
507438--507517	35	2.2	36	82	8	92	30	8	20	41	1.82
508221--508418	67	3.0	67	87	3	249	45	11	12	29	1.77
508263--508457	67	3.0	67	84	5	256	44	12	11	31	1.78
508405--508509	52	2.0	53	90	3	167	37	16	12	34	1.86
508506--508585	28	2.8	29	83	5	92	48	13	10	27	1.74
508937--509041	36	3.0	36	81	2	124	35	11	20	33	1.88

Tables:   1   2   3