genome.fa.s8747.2.7.7.80.10.50.1000.12.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  12  of  51  ( 6054 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)
2826190--2826241	18	2.9	18	85	2	70	30	26	5	36	1.80
2827845--2827894	20	2.5	20	83	6	66	38	2	14	46	1.56
2828052--2828105	20	2.7	21	85	5	67	38	9	11	40	1.73
2829247--2829288	17	2.4	18	80	11	52	33	14	9	42	1.78
2829278--2829320	17	2.5	17	76	0	50	23	11	13	51	1.74
2830654--2830694	21	1.9	22	85	5	57	31	36	0	31	1.58
2831352--2831395	20	2.2	20	84	8	54	36	18	18	27	1.94
2831732--2832168	43	10.2	42	76	7	328	34	20	20	24	1.97
2831758--2832168	85	4.8	84	83	5	400	33	20	20	25	1.97
2831861--2832168	128	2.4	129	81	3	379	34	21	20	23	1.96
2833995--2834053	23	2.6	23	86	2	93	32	6	28	32	1.83
2835527--2835885	41	8.6	41	81	4	344	33	18	19	29	1.95
2835571--2835929	82	4.4	82	77	4	339	32	17	19	30	1.95
2835575--2835920	125	2.8	123	78	10	366	32	17	18	30	1.95
2835527--2835869	166	2.1	166	89	1	526	32	18	19	29	1.96
2843964--2844086	64	1.9	63	86	8	162	28	19	21	30	1.98
2847401--2847491	24	3.8	24	79	5	96	38	19	16	25	1.92
2849399--2850451	525	2.0	525	96	0	1962	35	17	19	27	1.94
2850485--2850516	13	2.5	13	100	0	64	12	25	46	15	1.81
2851510--2851590	23	3.6	22	75	8	74	25	22	25	25	2.00
2857208--2857341	64	2.1	65	81	6	157	28	16	24	30	1.96
2857805--2857843	12	3.4	11	82	10	51	28	0	5	66	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2860576--2860627	17	3.1	17	71	0	59	48	3	0	48	1.20
2860562--2860626	34	1.9	34	93	0	112	50	3	1	44	1.26
2861740--2861826	39	2.2	39	87	0	129	27	18	21	32	1.97
2868279--2868346	32	2.1	32	88	0	100	16	10	33	39	1.82
2869061--2869114	16	3.4	16	78	0	63	5	12	35	46	1.66
2869056--2869125	32	2.2	32	87	2	97	11	11	30	47	1.75
2870860--2870930	10	6.7	10	70	17	54	59	18	11	11	1.61
2870860--2870893	12	3.0	12	91	8	54	58	23	8	8	1.56
2870864--2870924	16	4.1	16	77	12	58	59	19	11	9	1.60
2870862--2870928	22	3.1	21	72	20	57	61	17	10	10	1.56
2871949--2872013	14	4.9	14	74	14	66	56	20	10	12	1.65
2871962--2872023	24	2.6	24	92	0	106	54	24	11	9	1.65
2877235--2877299	13	5.0	13	83	7	69	33	15	21	29	1.94
2877240--2877299	26	2.3	26	85	0	84	33	15	21	30	1.94
2880781--2881296	45	11.4	45	89	1	759	22	21	12	43	1.86
2884752--2884800	2	24.5	2	100	0	98	48	0	0	51	1.00
2886462--2886527	33	2.0	33	100	0	132	45	21	3	30	1.67
2887682--2887720	13	3.2	13	85	14	64	46	46	7	0	1.31
2887684--2887720	11	3.2	11	92	7	56	48	43	8	0	1.32
2893880--2893921	2	21.0	2	95	0	75	47	0	2	50	1.14
2894294--2894333	17	2.4	17	78	0	53	47	32	0	20	1.50
2895638--2895692	22	2.5	22	90	0	92	32	29	20	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2901484--2901646	45	3.6	45	75	9	168	24	14	18	42	1.88
2901443--2901652	92	2.3	91	87	3	298	22	15	19	42	1.88
2901680--2901799	51	2.4	50	76	14	127	24	17	15	42	1.88
2904029--2904074	23	2.0	23	91	0	74	17	26	26	30	1.97
2907552--2907866	161	2.0	161	95	4	581	37	7	12	42	1.72
2914942--2915507	37	15.1	36	75	12	333	36	21	18	22	1.95
2914952--2915507	74	7.4	74	77	9	536	36	21	18	23	1.95
2915141--2915488	111	3.1	110	91	3	556	37	22	16	22	1.94
2915769--2915805	3	13.0	3	83	11	51	37	0	0	62	0.96
2926168--2927143	82	11.9	82	84	1	1195	34	21	17	26	1.95
2927448--2927521	34	2.2	33	80	11	78	51	8	2	37	1.46
2931017--2931077	31	2.0	31	90	0	95	54	18	4	22	1.63
2935872--2937173	5	261.8	5	98	1	2514	60	20	0	19	1.37
2937253--2937401	2	78.5	2	70	19	88	52	5	0	42	1.24
2937259--2937430	9	19.0	9	68	17	90	54	5	0	40	1.25
2937253--2937427	14	11.5	15	71	15	110	53	5	0	40	1.25
2937253--2937427	43	4.3	41	74	17	118	53	5	0	40	1.25
2937328--2937401	25	2.8	27	80	10	91	56	6	0	36	1.26
2937374--2937430	7	8.4	7	79	14	66	59	3	0	36	1.14
2938347--2938677	156	2.1	155	78	9	352	27	17	17	37	1.92
2958119--2958180	33	1.9	33	86	3	90	32	22	25	19	1.97
2958232--2958413	68	2.7	67	78	3	168	41	20	15	21	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2958482--2958520	19	2.1	19	90	0	60	58	7	23	10	1.56
2959142--2959170	2	14.5	2	100	0	58	51	0	0	48	1.00
2959371--2959430	27	2.2	28	84	3	77	16	5	21	56	1.59
2960255--2960279	13	1.9	13	100	0	50	40	20	24	16	1.91
2961356--2961639	132	2.0	143	88	11	437	23	15	25	35	1.94
2964095--2964145	25	2.1	23	82	13	59	29	27	1	41	1.67
2981468--2981507	9	4.3	9	84	6	53	15	30	30	25	1.95
2981467--2981505	19	2.1	19	100	0	78	17	25	30	25	1.97
2981503--2981544	22	1.9	22	95	0	75	21	50	19	9	1.75
2981504--2981555	27	1.9	27	92	0	86	21	46	23	9	1.80
2988561--2988607	20	2.4	20	89	3	69	19	23	21	36	1.95
2988646--2988721	27	2.8	27	87	0	107	22	46	19	11	1.82
2993152--2993199	20	2.5	20	89	3	71	37	0	25	37	1.56
2994430--2994472	22	2.0	21	86	4	59	39	4	13	41	1.66
2995660--2995718	31	1.9	31	86	10	86	30	6	27	35	1.83
2997215--2997248	17	1.9	18	88	5	52	52	0	0	47	1.00
3005378--3005465	26	3.3	26	88	1	131	12	42	20	25	1.87
3007892--3008122	114	2.0	115	99	0	455	24	12	19	42	1.87
3019140--3019183	21	2.1	21	82	0	52	34	18	22	25	1.96
3023487--3024588	552	2.0	551	94	0	1934	32	23	14	29	1.94
3032810--3032873	28	2.3	26	78	7	65	17	23	1	57	1.48
3035538--3035590	24	2.2	24	96	0	97	41	9	24	24	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3036743--3036797	28	2.0	27	85	3	74	18	23	1	56	1.51
3036745--3036803	28	2.1	28	81	3	66	20	22	1	55	1.52
3039825--3039957	5	26.0	5	69	19	71	51	3	3	42	1.32
3039828--3039955	2	69.5	2	65	26	61	50	3	3	42	1.33
3039841--3039954	11	10.9	11	70	23	52	50	3	3	42	1.36
3040069--3040122	20	2.9	17	81	13	54	57	9	1	31	1.41
3040084--3040120	17	2.2	17	90	9	58	56	10	0	32	1.34
3045777--3045986	65	3.3	63	75	9	183	27	18	23	30	1.98
3049161--3049480	159	2.0	159	100	0	640	35	18	15	31	1.91
3054145--3054231	17	5.1	17	90	0	138	42	29	5	21	1.76
3054695--3054743	19	2.7	17	84	9	53	26	20	28	24	1.99
3054689--3054875	65	2.9	64	81	7	209	26	19	22	31	1.98
3054689--3054924	129	1.8	130	81	6	300	26	18	23	31	1.98
3054715--3054924	65	3.2	65	79	9	209	26	18	23	31	1.97
3060059--3060101	15	2.7	16	89	10	70	48	2	0	48	1.14
3060067--3060112	15	3.1	15	93	0	74	52	0	0	47	1.00
3060104--3060203	45	2.3	43	84	3	128	51	6	2	41	1.38
3063365--3063394	12	2.5	12	94	0	51	63	6	0	30	1.20
3066300--3066334	14	2.5	14	90	0	52	48	2	0	48	1.16
3074755--3074793	19	2.1	19	95	0	69	30	15	23	30	1.95
3076489--3076535	24	2.0	24	86	0	67	25	19	21	34	1.96
3078633--3078710	25	3.1	25	100	0	156	20	24	19	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3081329--3081370	22	1.9	22	90	0	66	26	16	11	45	1.82
3084006--3084167	40	4.1	40	92	0	279	25	16	25	32	1.96
3085038--3085107	31	2.3	31	84	0	86	28	28	30	12	1.93
3085048--3085113	31	2.1	31	88	0	96	30	28	28	12	1.93
3087752--3087776	13	1.9	13	100	0	50	44	24	16	16	1.86
3087787--3087828	17	2.5	17	92	0	75	30	16	33	19	1.94
3089913--3090025	31	3.7	30	72	16	106	28	27	26	17	1.98
3092642--3092681	13	3.1	13	92	0	62	40	17	25	17	1.91
3094217--3094258	20	2.1	20	86	0	57	47	19	2	30	1.62
3094375--3094404	7	4.3	7	95	0	51	70	0	0	30	0.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51