genome.fa.s2647.2.7.7.80.10.50.1000.12.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

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   

This is table  12  of  26  ( 3011 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)
2702383--2702425	19	2.2	20	83	4	52	48	4	2	44	1.36
2702324--2702460	50	2.8	50	77	13	133	47	5	1	45	1.33
2702485--2702547	27	2.2	28	78	13	67	50	0	1	47	1.10
2706575--2706689	60	1.9	60	87	3	169	37	14	14	33	1.87
2712642--2712685	18	2.4	18	88	7	63	54	6	6	31	1.53
2714523--2714555	12	2.6	13	90	4	50	45	6	12	36	1.66
2715132--2715184	20	2.6	21	78	3	63	33	18	15	32	1.92
2724151--2724747	45	13.2	45	90	0	897	46	11	19	21	1.82
2728237--2728303	3	22.3	3	87	0	98	37	1	0	61	1.05
2729792--2729826	15	2.2	17	90	10	56	28	0	0	71	0.86
2730477--2730503	7	3.9	7	100	0	54	85	0	0	14	0.61
2745792--2745839	20	2.4	21	82	10	64	29	14	22	33	1.94
2745804--2745842	20	2.0	20	94	0	69	33	12	23	30	1.92
2745804--2745858	20	2.7	20	86	8	67	32	12	25	29	1.93
2750182--2750383	65	3.1	63	79	12	203	32	23	17	26	1.96
2758825--2758880	20	2.8	20	97	0	103	30	37	16	16	1.90
2758844--2758988	65	2.2	64	80	4	157	31	24	17	26	1.97
2758893--2759054	65	2.5	65	84	6	195	29	23	19	28	1.98
2758893--2759076	65	2.8	64	80	7	185	28	22	20	28	1.98
2760505--2760548	21	2.1	21	100	0	88	36	9	18	36	1.82
2769969--2771939	987	2.0	987	94	0	3451	29	11	20	38	1.88
2785918--2786514	45	13.3	45	90	0	917	44	13	20	21	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2786214--2786282	21	3.2	21	62	22	52	43	13	23	20	1.86
2786359--2786429	24	3.1	24	64	25	62	49	11	16	22	1.78
2788259--2788323	2	32.5	2	100	0	130	50	0	0	49	1.00
2790893--2790954	17	3.6	17	100	0	124	19	6	40	33	1.77
2791401--2791862	45	10.3	45	88	0	692	46	12	19	22	1.83
2794454--2794486	16	2.1	16	100	0	66	6	12	24	57	1.57
2796818--2796864	21	2.2	22	82	17	55	17	2	10	70	1.26
2798222--2798841	235	2.6	233	80	6	642	30	16	17	35	1.92
2798628--2799004	176	2.1	176	83	2	470	31	16	19	32	1.94
2801319--2801405	45	1.9	45	100	0	174	52	13	0	33	1.41
2801436--2801495	25	2.4	25	83	10	70	46	25	1	26	1.62
2801435--2801544	13	8.8	13	71	6	75	49	20	1	29	1.59
2801643--2801681	2	19.5	2	100	0	78	51	0	0	48	1.00
2823370--2823423	20	2.5	23	88	11	80	38	18	16	25	1.92
2842239--2842371	7	19.0	7	100	0	266	28	28	14	28	1.95
2844092--2844185	13	7.0	13	73	11	57	26	2	25	45	1.65
2844092--2844163	21	3.5	20	88	7	99	27	0	23	48	1.51
2844095--2844170	7	11.0	7	76	8	57	27	0	26	46	1.53
2846299--2846346	22	2.2	22	85	3	62	77	6	16	0	0.97
2848074--2848109	18	2.0	18	88	0	54	27	33	19	19	1.96
2849278--2849320	21	2.0	21	86	8	61	34	18	23	23	1.96
2852400--2852431	8	4.0	8	91	0	55	34	50	0	15	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2853732--2853953	83	2.7	82	79	6	232	29	18	18	33	1.95
2856775--2857103	43	7.7	42	83	3	363	27	22	18	31	1.97
2856772--2857123	86	4.1	87	83	3	403	26	23	18	31	1.97
2856784--2857123	129	2.7	128	83	3	416	27	23	17	31	1.97
2864467--2864502	9	4.0	9	85	0	54	25	8	19	47	1.77
2864468--2864502	18	1.9	18	94	0	61	25	5	20	48	1.71
2865076--2865126	26	2.0	26	84	0	66	29	3	17	49	1.65
2865523--2865587	20	3.3	19	80	8	76	27	13	20	38	1.90
2865514--2865576	20	3.0	21	79	11	67	26	15	22	34	1.94
2865646--2865708	30	2.1	30	84	0	81	41	9	17	31	1.82
2865890--2865954	6	10.8	6	75	6	51	40	3	21	35	1.69
2865891--2865954	18	3.6	17	77	8	65	39	3	21	35	1.70
2870346--2870408	31	2.1	31	87	3	92	33	6	25	34	1.81
2870609--2870653	9	5.0	9	83	0	63	24	8	17	48	1.75
2870609--2870653	18	2.5	18	92	0	81	24	8	17	48	1.75
2871216--2871268	26	2.0	26	85	0	70	26	3	18	50	1.64
2871227--2871277	26	2.0	26	88	0	75	27	3	19	49	1.66
2871674--2871719	20	2.3	20	88	7	67	26	10	21	41	1.86
2872046--2872076	6	5.2	6	96	0	53	35	0	16	48	1.46
2879631--2879656	13	2.0	13	100	0	52	76	7	7	7	1.15
2882745--2882789	19	2.4	19	84	0	63	24	17	37	20	1.93
2883669--2883708	19	2.0	20	85	4	55	60	12	2	25	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2886804--2886984	53	3.4	52	87	3	220	22	27	19	29	1.98
2887387--2887598	80	2.7	80	91	0	325	30	21	16	32	1.95
2887558--2887641	42	2.0	42	90	0	132	32	23	17	26	1.97
2887482--2887762	122	2.3	122	86	1	384	30	20	17	32	1.95
2887680--2887772	42	2.2	42	88	0	132	31	19	21	27	1.97
2892232--2892270	13	3.0	13	80	0	51	38	20	17	23	1.93
2920065--2920098	11	3.1	11	91	0	50	70	0	2	26	1.01
2922004--2922176	44	4.0	44	87	2	242	39	12	23	24	1.89
2925187--2925242	24	2.2	26	84	6	71	48	3	0	48	1.19
2925170--2925200	2	15.5	2	100	0	62	48	0	0	51	1.00
2925187--2925256	25	2.9	24	80	14	72	42	5	0	51	1.25
2925203--2925272	27	2.6	27	82	13	90	42	5	0	51	1.25
2925436--2925474	19	2.1	19	90	4	62	66	0	0	33	0.92
2932485--2932636	65	2.3	65	85	4	191	28	21	18	31	1.97
2941310--2941466	65	2.4	65	88	2	217	28	22	19	29	1.98
2948373--2948418	22	2.1	22	83	0	56	17	19	23	39	1.92
2949380--2949425	20	2.3	20	100	0	92	30	26	19	23	1.98
2954337--2954498	58	2.8	57	74	12	150	35	6	14	42	1.73
2955819--2955854	2	18.0	2	100	0	72	50	0	0	50	1.00
2956341--2956384	13	3.5	13	90	6	72	18	52	15	13	1.75
2956387--2956487	32	3.1	32	78	13	109	53	0	0	46	1.00
2956508--2956542	12	2.9	12	91	0	52	28	48	11	11	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2956633--2956702	25	2.8	25	100	0	140	20	14	37	28	1.91
2958315--2958355	17	2.4	17	88	12	66	9	31	0	58	1.31
2958307--2958353	14	3.1	14	78	21	51	12	34	0	53	1.39
2958976--2959027	15	3.5	15	79	12	54	9	26	0	63	1.25
2960551--2960601	19	2.5	19	87	9	66	35	15	21	27	1.94
2961038--2961355	54	5.9	54	90	0	456	32	20	16	29	1.95
2964697--2964767	22	3.2	22	74	7	72	25	26	16	30	1.97
2965465--2965501	19	2.0	18	89	5	56	5	35	5	54	1.47
2965531--2965571	21	2.0	20	86	13	57	9	17	9	63	1.51
2967935--2968080	65	2.3	66	85	5	192	26	21	19	31	1.98
2967969--2968123	65	2.4	64	81	6	161	27	21	20	30	1.98
2970024--2970063	21	1.9	21	89	0	62	55	7	7	30	1.56
2976606--2976750	65	2.2	64	81	6	168	28	19	17	34	1.95
2986541--2986701	33	4.9	33	75	6	155	29	24	13	32	1.93
2986541--2986701	66	2.4	65	76	7	171	29	24	13	32	1.93
2989766--2990154	47	8.4	46	87	1	526	23	20	11	45	1.83
2989876--2990094	20	9.7	20	66	22	87	23	21	10	43	1.84
2989777--2990147	93	4.0	93	90	1	539	22	20	10	45	1.82
2996926--2996953	13	2.2	13	100	0	56	42	7	0	50	1.30
3005857--3005902	21	2.2	21	96	0	83	19	8	19	52	1.72
3007490--3007724	59	4.0	59	91	0	353	31	21	11	35	1.89
3007686--3007760	36	2.1	36	94	0	132	28	24	10	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3007627--3007819	95	2.0	95	95	0	350	30	22	11	35	1.90
3007722--3007876	59	2.6	59	100	0	310	29	24	11	34	1.91
3007568--3007872	154	2.0	154	97	0	574	30	22	11	34	1.90
3008162--3008317	53	2.9	53	86	0	213	30	18	18	32	1.95
3011701--3011743	22	2.0	22	90	0	68	25	23	16	34	1.95
3012556--3012594	13	3.0	13	76	0	51	25	23	20	30	1.98
3012751--3012785	2	17.5	2	100	0	70	48	0	0	51	1.00
3021670--3021704	18	1.9	18	94	0	61	37	5	37	20	1.76
3021011--3022346	671	2.0	671	98	0	2582	30	17	18	32	1.94
3023171--3023310	58	2.4	58	81	2	147	34	18	12	34	1.89

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