genome.fa.s9587.2.7.7.80.10.50.1000.12.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  12  of  29  ( 3457 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)
2833137--2833237	30	3.4	30	90	2	159	33	19	21	24	1.97
2834762--2834815	21	2.5	22	82	17	78	48	16	0	35	1.47
2841903--2841943	10	4.1	10	84	9	57	41	0	39	19	1.52
2846798--2846838	10	4.1	10	83	0	55	39	0	41	19	1.52
2853868--2853957	27	3.5	25	78	15	87	57	1	1	40	1.13
2853913--2853951	17	2.3	17	86	8	53	58	2	0	38	1.12
2853894--2853957	23	2.6	23	83	11	74	56	1	0	42	1.09
2854462--2854663	99	2.0	99	96	0	368	43	13	7	35	1.73
2854774--2854847	22	3.4	22	77	19	66	50	0	0	50	1.00
2854816--2854844	11	2.6	11	100	0	58	51	0	0	48	1.00
2854774--2854844	21	3.2	22	78	9	58	49	0	0	50	1.00
2854791--2854861	31	2.2	32	82	7	92	49	0	1	49	1.09
2859256--2859315	29	2.1	27	82	11	68	53	1	1	43	1.20
2859474--2859504	15	2.0	16	93	6	55	41	0	0	58	0.98
2860290--2860363	21	3.4	21	73	15	62	27	4	0	68	1.07
2860323--2860387	14	4.4	14	79	9	67	35	3	0	61	1.12
2860272--2860377	25	4.4	25	74	16	71	29	3	0	66	1.08
2860337--2860387	27	2.0	25	88	7	75	37	3	0	58	1.16
2860495--2860550	5	12.8	4	87	10	51	26	1	0	71	0.96
2860495--2860550	8	6.4	8	82	17	51	26	1	0	71	0.96
2860545--2860569	13	1.9	13	100	0	50	12	8	0	80	0.92
2860520--2860564	18	2.5	19	82	10	58	22	4	0	73	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2860496--2860567	31	2.3	31	80	4	83	23	2	0	73	0.96
2860558--2860643	38	2.3	38	84	7	106	23	4	4	67	1.28
2860758--2860799	9	4.4	10	88	5	52	14	2	0	83	0.75
2860758--2860799	19	2.2	19	86	0	57	14	2	0	83	0.75
2860766--2860798	14	2.4	14	85	15	50	15	0	0	84	0.61
2860767--2860800	10	3.5	10	88	8	52	11	0	0	88	0.52
2862077--2862114	20	1.9	20	88	0	58	42	15	15	26	1.87
2862115--2862442	175	1.9	175	86	0	476	32	15	20	32	1.94
2862458--2862510	26	2.0	26	100	0	106	26	26	24	22	2.00
2869478--2869811	114	2.9	114	94	0	560	30	19	14	35	1.92
2871951--2872005	8	6.5	8	76	12	56	3	18	0	78	0.90
2871995--2872039	23	2.0	23	95	0	81	6	13	11	68	1.37
2874871--2874912	7	6.0	7	78	10	50	54	14	16	14	1.71
2876401--2876465	26	2.5	28	83	11	77	60	1	4	33	1.27
2878793--2878836	3	16.0	3	82	17	51	68	2	0	29	1.02
2878793--2878839	16	3.0	15	81	3	58	68	2	0	29	1.02
2881853--2881915	31	2.0	31	100	0	126	25	14	19	41	1.89
2884778--2884954	43	4.1	43	78	0	165	36	16	18	28	1.93
2884778--2884954	86	2.1	86	81	4	205	36	16	18	28	1.93
2888516--2888544	2	14.5	2	100	0	58	51	0	0	48	1.00
2890453--2890505	23	2.3	23	96	0	97	11	3	30	54	1.53
2896810--2896868	31	1.9	31	92	0	100	40	6	10	42	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2896893--2896935	22	2.0	22	95	0	77	51	11	0	37	1.39
2896895--2896943	22	2.2	22	85	3	62	55	12	0	32	1.37
2896898--2897374	80	5.8	80	87	7	706	52	13	0	33	1.44
2896995--2897301	32	10.8	32	72	22	256	52	13	0	33	1.45
2896883--2897374	166	3.0	166	95	0	880	52	13	0	33	1.43
2897165--2897222	18	3.4	18	70	18	61	56	13	0	29	1.38
2897144--2897478	54	6.1	54	75	17	343	52	12	0	34	1.42
2897280--2897354	22	3.2	23	71	17	73	54	16	0	29	1.42
2897326--2897478	32	5.4	32	72	27	173	52	11	0	35	1.37
2897360--2897408	22	2.2	22	85	3	62	55	12	0	32	1.37
2897458--2897599	15	9.5	15	76	20	129	50	1	0	47	1.09
2897457--2897599	54	2.7	52	82	7	173	50	1	0	48	1.09
2899636--2899683	24	2.0	24	83	0	60	41	0	8	50	1.33
2900055--2900083	5	6.0	5	92	8	51	20	0	0	79	0.74
2901359--2901383	2	12.5	2	100	0	50	48	0	0	52	1.00
2906381--2907279	170	5.3	171	86	3	1123	35	20	18	26	1.95
2906381--2907278	256	3.5	256	86	1	1149	35	20	18	26	1.95
2910326--2910358	2	16.5	2	100	0	66	51	48	0	0	1.00
2911502--2911579	30	2.6	30	83	2	95	51	11	3	33	1.56
2911412--2911610	29	6.8	29	73	5	105	49	11	4	34	1.58
2911501--2911643	59	2.4	57	77	12	130	48	11	4	35	1.59
2911471--2911634	29	5.7	29	72	15	99	48	10	3	37	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2911876--2911947	36	2.0	36	100	0	144	36	13	22	27	1.92
2912829--2912880	23	2.4	22	81	12	63	51	11	9	26	1.68
2913694--2913752	17	3.5	16	72	19	57	50	30	6	11	1.65
2913687--2913758	34	2.1	34	97	0	135	48	27	9	13	1.74
2916283--2916316	17	2.0	17	88	0	50	58	14	5	20	1.57
2922515--2922573	21	2.8	21	78	0	64	28	13	11	45	1.79
2922623--2922678	23	2.5	22	75	11	60	17	17	21	42	1.89
2930322--2930369	21	2.3	21	86	10	71	52	12	0	35	1.40
2934928--2935019	33	2.8	32	88	6	139	35	20	15	28	1.93
2936492--2936531	13	3.0	13	83	16	55	45	5	7	42	1.54
2937690--2937752	31	2.0	31	96	0	117	34	19	19	26	1.95
2946111--2946174	18	3.6	18	93	0	101	15	18	34	31	1.93
2946111--2946182	36	2.0	36	86	5	101	18	18	34	29	1.94
2950265--2950334	18	3.9	18	80	0	86	20	20	32	27	1.97
2954039--2954107	36	1.9	36	88	5	104	20	20	31	27	1.97
2954039--2954099	18	3.4	18	95	0	104	18	21	31	29	1.96
2954687--2954846	65	2.5	64	83	1	176	30	23	19	26	1.98
2954818--2954866	19	2.7	17	79	14	53	26	28	18	26	1.98
2963331--2963510	65	2.8	63	84	5	218	30	24	18	26	1.98
2963462--2963510	19	2.7	17	79	14	53	26	28	18	26	1.98
2965275--2965481	76	2.8	71	83	7	243	28	1	11	57	1.42
2969055--2969123	5	13.6	5	79	8	77	20	4	2	72	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2969060--2969090	14	2.2	14	94	0	53	19	3	0	77	0.90
2970689--2970914	76	3.1	75	83	8	225	30	1	11	56	1.45
2971010--2971039	12	2.5	12	94	0	51	10	20	0	70	1.16
2971491--2971524	17	2.0	17	88	0	50	23	0	2	73	0.97
2971592--2971630	8	5.0	8	96	3	71	25	0	0	74	0.82
2973499--2973560	20	3.0	20	76	2	61	59	3	4	32	1.34
2973640--2973724	44	1.9	44	100	0	170	16	18	4	60	1.53
2986513--2986613	52	1.9	54	85	4	143	46	8	14	29	1.75
2989312--2989387	36	2.1	36	85	7	100	47	1	3	47	1.29
2989663--2989689	14	1.9	14	100	0	54	44	7	0	48	1.31
2990368--2990417	19	2.5	20	87	6	66	66	0	2	32	1.03
2990368--2990417	20	2.5	20	83	6	57	66	0	2	32	1.03
2993856--2993892	15	2.4	16	86	13	60	0	16	5	78	0.93
2994131--2994221	27	3.4	27	98	0	173	19	18	42	18	1.89
2994339--2994456	3	38.7	3	84	3	155	61	0	1	36	1.12
2995100--2996321	118	10.7	113	88	6	1609	30	20	13	35	1.91
2995098--2996321	230	5.3	230	90	4	1769	30	20	13	35	1.91
2996791--2996845	22	2.5	22	90	0	92	38	14	12	34	1.84
2997217--2997417	54	3.8	54	85	6	252	24	21	14	38	1.92
2999577--2999967	84	4.7	84	97	1	705	36	21	13	28	1.91
3008708--3008744	15	2.4	16	86	13	60	0	16	5	78	0.93
3008983--3009073	27	3.4	27	98	0	173	19	18	42	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3009191--3009308	3	38.7	3	84	3	155	61	0	1	36	1.12
3010385--3010663	144	1.9	144	85	0	387	22	16	17	43	1.87
3011689--3011735	23	2.1	23	84	7	62	25	12	21	40	1.89
3019242--3019360	63	1.9	63	85	3	168	38	17	20	23	1.93
3019330--3019404	20	3.6	20	78	18	82	32	20	24	24	1.98
3019909--3020093	31	6.0	31	86	1	237	25	17	20	36	1.94
3026575--3026640	30	2.2	28	77	12	69	48	9	13	28	1.73
3034060--3034100	2	20.5	2	94	0	73	48	0	0	51	1.00
3034571--3034625	17	3.1	18	76	10	60	67	0	3	29	1.08
3034573--3034637	34	1.9	35	84	6	89	66	0	6	27	1.15

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