genome.fa.s9617.2.7.7.80.10.50.1000.14.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: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3386631

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  14  of  16  ( 1887 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)
2796951--2797013	19	3.3	19	82	4	74	47	25	14	12	1.79
2797013--2797111	33	2.9	34	78	3	128	16	20	20	43	1.88
2799024--2799076	20	2.7	20	96	0	97	43	26	16	13	1.85
2799464--2799516	22	2.4	22	90	0	88	16	16	45	20	1.86
2799677--2799768	20	4.6	20	82	5	114	25	19	27	28	1.99
2801932--2801976	20	2.2	20	84	7	56	48	4	0	46	1.22
2818707--2818745	9	3.8	10	84	15	53	41	0	2	56	1.13
2818741--2818832	3	30.7	3	83	4	114	58	0	3	38	1.14
2819278--2819329	17	3.1	17	72	10	61	23	23	7	46	1.78
2819149--2819707	113	5.0	112	85	6	740	30	18	14	37	1.90
2820491--2821422	83	11.3	83	94	2	1522	36	21	13	27	1.92
2822185--2822228	16	2.5	18	89	10	65	50	9	9	31	1.65
2822185--2822237	16	3.1	16	76	17	54	49	9	9	32	1.67
2822558--2822594	10	3.8	10	89	3	58	0	13	0	86	0.57
2833208--2833246	15	2.9	13	88	11	53	66	2	7	23	1.30
2835253--2835291	9	3.8	10	84	15	53	41	0	2	56	1.13
2835287--2835360	3	24.7	3	85	0	103	59	0	4	36	1.16
2835287--2835370	18	4.9	17	81	10	91	57	0	3	39	1.16
2843476--2843510	18	1.9	18	88	0	52	40	0	0	60	0.97
2851437--2851463	2	13.5	2	100	0	54	0	48	0	51	1.00
2851463--2851490	2	14.0	2	100	0	56	50	0	0	50	1.00
2852553--2852620	32	2.1	32	86	0	91	35	13	8	42	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2854578--2854636	14	4.5	14	68	23	56	57	0	1	40	1.09
2854565--2854630	23	3.0	23	71	20	59	54	0	3	42	1.15
2857451--2857486	16	2.2	17	95	5	65	41	8	22	27	1.82
2857609--2858278	200	3.4	198	86	3	848	32	14	14	39	1.86
2860114--2860152	20	1.9	21	89	5	62	17	15	15	51	1.77
2859994--2860551	182	3.1	181	89	1	821	28	14	13	44	1.82
2867271--2867309	20	2.0	20	100	0	78	38	10	10	41	1.73
2867311--2867352	21	2.0	20	86	4	57	40	7	14	38	1.73
2874072--2874216	48	3.0	48	97	0	281	28	20	21	28	1.98
2875162--2875209	24	2.0	25	84	8	64	31	6	18	43	1.75
2876889--2876931	19	2.3	19	95	0	77	23	25	30	20	1.99
2881883--2882222	170	2.0	170	98	0	662	27	28	15	29	1.96
2882905--2882959	27	2.0	27	100	0	110	25	18	16	40	1.91
2886429--2886494	17	4.0	17	69	21	50	39	12	7	40	1.71
2892208--2892235	2	14.0	2	100	0	56	50	0	0	50	1.00
2892359--2892422	31	2.1	31	88	5	94	34	7	7	50	1.60
2892600--2892673	24	3.0	26	76	9	82	54	0	2	43	1.14
2906779--2906870	23	4.0	23	84	0	112	29	23	27	19	1.98
2906779--2906868	46	2.0	46	86	0	126	28	23	27	20	1.99
2907260--2907294	2	17.5	2	100	0	70	48	0	0	51	1.00
2908405--2908482	20	3.8	20	75	18	70	24	25	19	30	1.98
2912859--2912912	27	2.0	27	92	0	90	14	3	37	44	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2913358--2913453	47	2.1	46	96	2	174	42	13	13	30	1.83
2915847--2916135	153	1.9	154	91	0	481	43	13	7	35	1.72
2919168--2919208	17	2.4	17	95	0	73	43	41	4	9	1.59
2919373--2919432	29	2.1	29	87	0	84	36	8	11	43	1.71
2919517--2919595	28	2.8	28	92	0	122	37	10	10	41	1.73
2920273--2920385	45	2.6	45	87	2	167	54	0	7	36	1.36
2920860--2920924	29	2.2	31	81	10	73	47	4	6	41	1.49
2923659--2924131	239	2.0	236	97	2	889	40	11	11	36	1.78
2927908--2927947	19	2.1	19	100	0	80	42	17	0	40	1.49
2929790--2929823	17	2.0	17	94	0	59	50	2	5	41	1.42
2930150--2930207	21	2.8	21	94	0	98	12	24	39	24	1.89
2930150--2930252	21	4.9	21	82	8	86	15	24	35	24	1.94
2930190--2930252	20	2.9	21	79	9	65	17	23	34	23	1.96
2931952--2931996	22	2.0	22	100	0	90	8	17	13	60	1.58
2937757--2937819	21	3.0	21	86	4	90	25	26	22	25	2.00
2938364--2938419	21	2.6	21	94	2	94	26	16	32	25	1.96
2938459--2938511	22	2.4	22	87	0	70	22	20	15	41	1.89
2939639--2939663	3	8.3	3	100	0	50	68	32	0	0	0.90
2941722--2941759	19	2.0	19	94	0	67	44	10	7	36	1.68
2942862--2942954	48	1.9	48	93	0	159	21	27	11	38	1.89
2947429--2947527	15	6.5	15	91	1	153	28	23	12	36	1.90
2953320--2953496	92	1.9	93	87	1	257	44	13	19	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2959478--2959566	46	1.9	46	100	0	178	29	8	23	38	1.85
2961900--2961966	33	2.0	33	100	0	134	29	14	2	52	1.57
2962339--2962386	22	2.2	22	82	14	55	37	4	6	52	1.46
2972593--2972627	17	2.0	17	88	5	52	20	5	37	37	1.76
2974062--2974133	35	2.0	36	86	5	101	4	13	20	61	1.49
2975291--2975319	13	2.2	13	100	0	58	31	17	13	37	1.89
2977976--2978010	14	2.3	15	90	9	54	34	0	0	65	0.93
2977974--2978022	16	2.9	17	74	22	50	32	2	0	65	1.04
2985113--2985193	29	2.8	29	92	0	135	22	11	23	43	1.85
2985171--2985245	29	2.6	29	85	4	89	30	6	22	40	1.80
2988196--2988227	16	2.0	16	100	0	64	43	6	12	37	1.68
2996857--2997154	151	2.0	147	96	3	544	33	14	8	42	1.76
2997354--2997406	21	2.5	20	72	19	54	20	26	18	33	1.96
2997413--2997489	21	3.7	21	98	0	145	38	16	23	20	1.92
2997478--2997592	20	5.7	20	82	6	124	32	28	17	21	1.96
2997475--2997612	41	3.4	41	83	6	172	34	26	16	21	1.95
2997968--2998022	19	2.9	19	86	0	65	16	18	23	41	1.89
2998154--2998208	25	2.2	24	78	15	58	20	9	18	52	1.71
2998719--2998913	97	2.0	97	100	0	390	32	19	21	26	1.97
2999260--2999305	18	2.6	17	87	12	67	28	43	13	15	1.83
2999834--2999880	21	2.3	21	85	3	60	38	23	21	17	1.93
2999843--2999884	21	2.0	21	95	0	75	35	19	26	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2999900--2999950	19	2.7	19	90	3	86	45	19	21	13	1.85
2999969--3000027	18	3.4	18	68	31	56	13	16	16	52	1.75
2999957--3000036	33	2.4	34	91	4	128	12	18	20	48	1.80
2999962--3000019	14	3.9	14	76	22	55	12	17	20	50	1.78
2999977--3000036	16	3.3	20	72	27	71	13	18	18	50	1.78
3000906--3000984	31	2.5	31	80	10	97	36	21	20	21	1.95
3001628--3001789	64	2.5	64	82	4	202	29	16	19	33	1.94
3004209--3004242	18	1.9	18	88	5	52	47	23	0	29	1.52
3005389--3005483	31	3.1	30	80	8	95	32	26	22	18	1.97
3005431--3005508	31	2.5	31	85	4	95	34	23	20	21	1.97
3006155--3006317	65	2.5	65	81	5	199	30	16	19	33	1.94
3007431--3007509	42	1.9	41	86	2	113	24	41	13	20	1.88
3008069--3008100	13	2.5	13	100	0	64	46	15	21	15	1.83
3008941--3008979	14	2.8	14	84	0	51	35	0	17	46	1.49
3009119--3009183	19	3.7	19	80	15	86	47	18	20	13	1.82
3009209--3009277	20	3.5	20	95	0	120	15	23	24	36	1.94
3009190--3009293	40	2.9	34	73	15	91	14	24	23	38	1.92
3009525--3009579	21	2.6	21	100	0	110	14	16	25	43	1.86
3009509--3009599	21	4.5	19	82	8	65	19	17	26	36	1.94
3009629--3009681	21	2.5	22	75	6	56	33	16	24	24	1.96
3011338--3011464	60	2.1	60	81	5	141	35	22	5	36	1.78
3019169--3019217	22	2.2	22	89	7	73	48	2	6	42	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3022433--3022474	21	2.0	21	85	0	57	33	14	28	23	1.94
3033259--3033316	14	4.1	13	79	18	62	63	0	1	34	1.04
3034118--3034168	14	3.5	14	75	19	59	43	1	0	54	1.11
3034095--3034207	30	3.6	30	87	4	136	46	2	0	50	1.15
3034132--3034184	16	3.4	16	75	19	67	47	3	0	49	1.19
3036243--3036328	31	2.8	31	82	3	102	38	18	12	30	1.88
3037114--3037151	16	2.3	17	86	4	51	42	2	5	50	1.39
3037606--3037696	39	2.3	40	81	9	105	50	1	3	45	1.25
3053525--3053647	21	5.8	21	76	12	101	24	29	15	30	1.96
3053554--3053690	65	2.1	64	95	1	247	24	29	14	31	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16