genome.fa.s8773.2.7.7.80.10.50.1000.4.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: VEPZ01008773.1 Hibiscus syriacus cultivar Beakdansim tig00111881_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1239499

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 660 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)
577588--577897	103	3.0	104	83	5	369	33	18	10	38	1.84
578064--578167	29	3.6	29	82	8	124	32	10	13	43	1.78
578135--578289	62	2.5	61	89	2	240	28	12	16	42	1.85
578196--578391	106	1.8	110	86	6	294	32	12	14	40	1.83
578586--578649	29	2.2	29	82	2	74	35	12	12	39	1.81
578307--578850	243	2.3	239	88	5	794	31	15	11	41	1.83
578307--578850	119	4.5	117	70	14	351	31	15	11	41	1.83
578903--578962	31	1.9	31	86	6	86	30	15	13	41	1.85
578987--579115	65	1.9	65	82	6	159	27	16	15	41	1.88
578922--579313	202	2.0	196	82	9	472	26	18	15	40	1.89
579270--579338	28	2.3	30	87	7	97	24	18	14	42	1.88
579495--579689	40	4.6	40	69	19	119	27	31	17	23	1.97
579624--579737	43	2.8	40	76	8	113	20	34	20	25	1.96
579887--579935	3	16.7	3	82	4	64	32	4	2	61	1.26
586659--586720	19	3.3	19	79	18	76	46	6	17	29	1.73
586670--586725	18	3.1	18	82	14	78	46	7	17	28	1.75
586667--586725	19	3.2	19	83	13	86	45	6	18	28	1.75
586736--586787	19	2.7	19	77	11	52	51	0	25	23	1.48
586743--586787	13	3.5	13	78	3	56	53	0	24	22	1.46
590468--590511	22	2.1	20	91	8	70	31	34	0	34	1.58
592228--592269	20	2.1	20	86	0	57	35	16	14	33	1.89
592631--592740	53	2.1	53	89	0	166	38	18	18	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593219--593355	69	2.0	68	98	1	265	35	13	14	37	1.85
594607--594744	21	6.6	21	97	0	258	27	14	28	29	1.95
594761--594819	19	2.8	22	65	15	52	23	18	18	38	1.93
594756--594845	41	2.2	41	93	0	153	21	18	21	38	1.93
594789--594845	19	2.8	19	73	14	51	21	19	21	38	1.93
594756--594827	22	3.4	22	69	11	78	20	18	22	38	1.93
595664--595759	22	4.5	22	76	8	101	37	25	16	20	1.93
595727--595887	41	3.9	41	93	3	263	39	23	18	18	1.92
595751--595864	20	5.6	20	71	4	102	39	23	20	16	1.92
595771--595885	21	5.6	21	71	4	108	36	25	18	20	1.94
598133--598161	15	1.9	15	100	0	58	20	37	20	20	1.94
602689--602717	15	1.9	15	100	0	58	20	37	20	20	1.94
603992--604025	14	2.4	14	100	0	68	11	0	32	55	1.36
607359--607543	39	5.0	38	85	10	258	36	7	5	50	1.54
607359--607531	76	2.4	73	88	8	246	36	6	4	51	1.50
611252--611305	27	2.0	27	96	0	99	38	16	25	18	1.92
619113--619216	43	2.3	46	82	11	117	52	14	0	31	1.48
622202--622248	22	2.0	22	84	12	58	53	12	2	31	1.51
625818--625878	31	2.0	31	90	0	95	34	16	9	39	1.82
627268--627520	2	124.5	2	67	17	103	46	3	3	45	1.38
627304--627511	9	23.8	9	67	22	79	45	3	3	46	1.39
627304--627612	11	27.7	11	68	16	95	45	3	3	46	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627312--627459	13	11.5	13	72	12	83	47	4	4	43	1.43
627252--627544	116	2.5	115	90	4	441	46	4	4	45	1.42
627252--627606	116	3.1	116	84	7	363	46	4	3	45	1.42
627614--627645	9	3.6	9	100	0	64	68	21	0	9	1.17
627933--628666	27	26.2	28	69	22	156	52	2	5	39	1.39
627942--628677	18	43.1	16	67	22	105	52	2	5	38	1.39
627956--628010	22	2.4	22	81	9	65	54	3	1	40	1.28
628031--628640	8	80.1	8	71	23	147	52	2	6	39	1.39
628105--629357	2	636.0	2	64	23	269	44	4	4	46	1.43
628128--628193	29	2.2	30	82	15	84	53	4	9	33	1.53
628069--628415	35	10.2	35	68	21	138	53	2	6	37	1.42
627942--628664	14	51.6	14	67	23	117	52	2	5	39	1.39
628655--629357	13	50.6	14	66	23	143	38	6	2	52	1.43
628727--629360	47	13.4	47	67	24	172	38	6	2	52	1.42
628682--629343	130	5.2	124	70	18	384	37	7	2	52	1.44
628725--629204	138	3.2	148	76	18	353	37	6	3	53	1.43
628816--629359	218	2.4	227	81	11	570	38	6	2	52	1.41
629113--629357	29	8.3	30	74	17	142	39	6	2	51	1.42
629432--629476	2	23.0	2	95	4	83	48	0	0	51	1.00
629775--629820	24	1.9	24	86	8	67	36	13	0	50	1.41
629922--629950	3	9.7	3	100	0	58	68	31	0	0	0.89
630103--630153	20	2.5	20	78	15	59	43	11	1	43	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
630448--630493	24	1.9	24	82	8	58	32	10	0	56	1.34
630570--630834	22	12.2	23	75	14	176	51	1	9	37	1.44
630614--630834	65	3.4	64	76	15	208	52	0	9	37	1.39
630613--630834	87	2.6	86	80	11	226	53	0	9	36	1.39
630830--630918	21	4.4	21	67	16	62	46	3	1	49	1.26
630990--631045	16	3.5	16	76	13	53	41	10	21	26	1.86
631045--631118	32	2.3	32	81	4	87	36	17	24	21	1.95
631068--631112	16	2.8	16	75	0	54	42	15	20	22	1.89
638890--638967	30	2.6	29	84	6	93	34	17	6	41	1.76
642425--642465	18	2.3	18	95	0	73	19	51	19	9	1.74
646257--646520	43	6.1	43	75	7	191	27	18	21	31	1.97
646295--646520	86	2.6	87	74	8	212	29	18	20	30	1.97
646853--646929	21	3.7	21	87	0	109	3	37	18	40	1.69
646853--646971	21	5.7	21	82	2	105	4	37	18	39	1.70
657439--657594	30	5.0	29	64	19	82	32	5	7	55	1.51
657439--657612	63	2.8	63	92	3	296	31	5	8	54	1.54
658272--658375	54	1.9	54	96	0	190	35	10	13	40	1.79
661020--661046	6	4.5	6	100	0	54	33	14	0	51	1.43
665415--665514	24	4.2	24	74	5	94	49	17	13	21	1.79
665413--665514	48	2.1	48	79	0	114	50	16	12	20	1.78
671285--671310	2	13.0	2	100	0	52	50	0	0	50	1.00
677053--677078	13	2.0	13	100	0	52	30	0	7	61	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679468--679558	45	2.0	45	86	2	128	28	18	24	28	1.98
685740--685779	17	2.4	17	95	0	71	20	27	15	37	1.92
685805--686992	592	2.0	591	96	0	2198	29	18	12	39	1.87
688782--688873	46	2.0	46	87	4	132	28	18	26	27	1.98
688893--688930	20	1.9	20	94	0	67	18	15	34	31	1.92
696759--696794	18	2.0	18	88	0	54	50	8	0	41	1.33
699789--699857	2	35.0	2	97	2	131	49	0	0	50	1.00
703928--703976	24	2.0	24	96	0	89	36	20	14	28	1.92
706618--706665	24	2.0	24	92	8	80	8	41	8	41	1.65
717448--717486	20	2.0	20	84	0	51	23	7	23	46	1.78
717661--717721	20	2.9	21	87	7	79	18	26	34	21	1.96
718421--718787	183	2.0	183	97	0	689	37	20	15	26	1.93
727169--727217	24	2.0	24	88	0	71	12	38	8	40	1.72
727937--728013	3	25.7	3	84	10	77	41	0	0	58	0.98
728800--728886	39	2.2	39	100	0	174	26	13	29	29	1.94
729751--729803	21	2.4	23	81	9	74	58	0	0	41	0.98
729749--729822	21	3.3	22	80	12	71	56	0	2	40	1.13
731719--731743	12	2.1	12	100	0	50	32	8	24	36	1.84
733601--733632	15	2.1	15	94	0	55	25	18	9	46	1.79
740967--741052	7	13.8	6	73	19	70	81	0	16	2	0.79
740963--741055	37	2.6	36	90	6	138	80	0	17	2	0.81
741384--741423	20	1.9	22	90	10	66	30	12	2	55	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
742843--742888	23	2.0	22	84	12	58	52	10	21	15	1.73
742600--743031	112	3.9	112	93	0	729	36	14	19	29	1.91
743329--743405	3	25.7	3	80	15	61	42	0	0	57	0.99
743812--743851	19	2.1	19	85	0	53	65	2	30	2	1.19
746230--746268	20	2.0	20	89	0	60	30	25	0	43	1.55
759692--759743	20	2.6	20	96	0	95	38	26	13	21	1.90
759799--759991	60	3.2	60	82	0	242	35	25	19	19	1.96
759799--759991	20	9.6	20	80	5	210	35	25	19	19	1.96
760374--760444	33	2.2	33	92	0	115	11	22	18	47	1.80
760565--760619	14	3.6	14	73	21	56	41	23	25	9	1.83

Tables:   1   2   3   4   5   6