genome.fa.s9624.2.7.7.80.10.50.1000.15.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  15  of  38  ( 4514 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)
2944232--2944293	21	3.0	21	81	11	83	0	12	0	87	0.55
2944235--2944298	12	5.1	12	83	12	76	0	15	0	84	0.63
2951481--2951512	15	2.1	15	94	0	55	46	9	18	25	1.79
2952790--2953099	155	2.0	158	96	3	581	23	20	15	40	1.90
2954934--2954980	18	2.5	20	76	16	55	65	2	4	27	1.22
2956912--2956936	2	12.5	2	100	0	50	48	0	0	52	1.00
2956938--2957061	3	41.0	3	86	1	140	58	0	1	40	1.08
2957261--2957310	25	2.0	25	96	0	91	44	22	8	26	1.80
2957416--2957508	20	4.6	20	89	2	141	43	22	17	17	1.88
2957507--2957550	13	3.3	13	82	17	63	6	13	29	50	1.68
2957855--2957889	6	5.8	6	86	0	52	17	2	20	60	1.49
2960134--2960188	24	2.3	24	80	0	65	36	12	18	32	1.88
2960929--2960966	16	2.5	15	84	12	51	65	0	5	28	1.14
2961125--2961233	19	5.7	19	87	2	148	31	10	22	36	1.87
2961125--2961233	58	1.9	57	84	5	148	31	10	22	36	1.87
2961221--2961307	20	4.3	20	70	21	74	20	16	24	39	1.92
2961241--2961347	20	5.3	20	76	14	80	21	18	23	36	1.95
2961221--2961367	60	2.4	59	86	6	190	21	15	25	38	1.92
2961665--2961701	17	2.1	19	90	10	60	40	2	0	56	1.13
2961659--2961712	18	3.1	17	81	7	56	42	1	1	53	1.22
2964053--2964116	17	3.8	17	93	4	103	25	34	21	18	1.96
2964067--2964117	11	4.5	11	75	20	52	25	35	21	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2965032--2965151	60	2.0	60	83	8	152	40	4	8	47	1.53
2968171--2968220	20	2.5	20	83	0	55	30	22	24	24	1.99
2972671--2972701	15	2.1	15	100	0	62	48	0	25	25	1.52
2972970--2973017	2	23.5	2	95	4	87	50	2	0	47	1.12
2979237--2979280	2	22.0	2	100	0	88	50	0	0	50	1.00
2981352--2981414	27	2.4	26	81	5	74	61	0	4	33	1.17
2981422--2981465	19	2.3	19	80	7	54	9	6	13	70	1.33
2984433--2984671	89	2.7	89	84	4	304	35	9	16	38	1.81
2984432--2984683	45	5.6	45	82	1	301	36	9	16	38	1.81
2984787--2984942	58	2.7	58	86	6	163	33	8	16	41	1.79
2984832--2984942	58	1.9	58	96	0	204	33	8	16	42	1.77
2984947--2985100	58	2.7	57	84	5	202	38	6	11	43	1.66
2984852--2985037	95	2.0	95	89	6	288	37	7	12	43	1.71
2985057--2985145	43	2.1	44	85	4	119	41	5	11	41	1.64
2985002--2985625	97	6.5	96	75	8	269	38	6	12	43	1.68
2985357--2985674	97	3.3	97	88	4	453	35	5	13	45	1.68
2985623--2985722	40	2.5	39	77	3	101	38	4	13	45	1.62
2988344--2988397	12	4.6	12	83	4	74	11	16	48	24	1.79
2988395--2988455	24	2.6	25	78	17	69	44	0	0	55	0.99
2990041--2990070	5	6.0	5	92	0	51	3	16	0	80	0.85
2990038--2990069	15	2.1	15	100	0	64	6	12	0	81	0.87
2990882--2990933	21	2.5	21	81	3	61	38	19	25	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2990922--2991056	20	6.7	20	80	7	121	33	24	17	24	1.96
2990919--2991050	61	2.2	61	87	0	183	35	24	16	23	1.95
2991224--2991267	22	2.0	22	100	0	88	22	45	13	18	1.84
2991551--2991589	20	2.0	20	89	0	60	17	15	17	48	1.81
2991725--2991779	25	2.2	24	78	15	58	20	9	18	52	1.71
2992908--2992952	18	2.5	18	88	0	72	26	44	15	13	1.83
2993435--2993501	20	3.4	20	81	2	73	38	23	22	14	1.92
2993490--2993546	14	3.7	14	75	20	60	50	22	15	10	1.74
2993474--2993565	33	2.8	33	98	0	175	48	20	18	11	1.79
2993474--2993570	19	5.6	19	71	22	97	47	20	19	12	1.81
2993577--2993673	50	1.9	51	91	2	160	12	19	21	46	1.83
2993658--2993713	20	2.8	20	86	7	71	16	23	23	37	1.93
2995584--2995619	14	2.6	14	90	0	54	30	0	22	47	1.52
2995726--2995779	14	3.5	14	75	22	54	48	18	20	12	1.81
2995736--2995772	19	1.9	19	88	0	56	51	16	21	10	1.74
2995811--2995898	20	4.4	20	75	5	97	15	20	25	38	1.92
2996112--2996161	20	2.5	20	80	0	73	22	18	22	38	1.94
2996192--2996239	20	2.3	20	85	3	60	22	20	16	39	1.92
2997012--2997065	24	2.2	24	90	0	81	22	16	20	40	1.91
2997240--2997276	12	3.1	12	96	0	65	72	0	24	2	0.97
2999568--2999698	19	7.7	19	66	23	94	42	19	22	14	1.88
2999568--2999694	33	3.8	33	88	4	202	42	19	22	14	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2999569--2999701	66	2.0	66	97	0	248	41	19	22	16	1.90
2999694--2999772	33	2.4	33	93	0	131	13	21	18	45	1.84
2999723--2999783	19	3.5	19	70	21	60	11	21	21	45	1.82
2999709--2999765	14	3.7	14	72	20	51	10	24	21	43	1.83
2999694--2999783	33	2.7	33	91	0	126	14	21	20	44	1.86
2999890--2999926	14	2.6	14	91	0	65	45	24	0	29	1.53
3001322--3001401	42	1.9	42	86	0	115	23	17	37	21	1.94
3001623--3001807	91	2.0	90	90	6	291	46	18	12	21	1.83
3003494--3003639	19	8.1	19	72	17	114	44	20	22	12	1.85
3003519--3003616	33	2.9	33	92	1	151	42	23	22	11	1.85
3003635--3003701	19	3.5	18	82	8	71	14	16	22	46	1.84
3004219--3004271	20	2.7	20	93	0	88	26	20	28	24	1.99
3004280--3004333	20	2.7	20	97	0	99	25	18	24	31	1.97
3004220--3004336	61	1.9	61	85	0	162	23	17	24	33	1.97
3004220--3004354	61	2.2	61	81	2	155	22	20	24	32	1.98
3004404--3004444	21	2.0	21	85	0	55	34	29	17	19	1.94
3007376--3007402	14	1.9	14	100	0	54	0	11	7	81	0.87
3009549--3009594	16	2.8	16	83	6	56	28	26	6	39	1.81
3009615--3009759	72	2.0	72	100	0	290	35	15	13	35	1.87
3010266--3010483	109	2.0	111	83	3	280	43	4	24	28	1.73
3017888--3017987	23	4.3	23	79	9	98	17	25	24	34	1.96
3017878--3017970	46	2.0	46	87	4	134	18	24	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3020309--3020350	20	2.2	20	86	4	59	50	2	0	47	1.14
3021967--3022052	31	2.8	31	78	0	91	33	11	19	34	1.88
3025061--3025115	21	2.7	20	77	8	56	34	23	20	21	1.97
3025103--3025275	20	8.6	20	83	7	127	34	28	18	19	1.95
3025103--3025276	40	4.3	39	84	6	215	34	28	18	18	1.95
3025121--3025275	60	2.6	60	88	3	231	32	27	18	20	1.96
3025655--3025725	33	2.2	33	94	0	124	11	23	16	47	1.79
3025805--3025878	21	3.5	20	80	8	94	47	17	20	14	1.83
3025859--3025938	33	2.4	33	93	0	133	48	22	20	8	1.76
3025866--3025922	14	3.7	14	70	20	51	45	22	22	8	1.80
3025934--3026061	19	7.1	19	71	19	78	11	25	17	45	1.82
3025956--3026012	14	3.7	14	75	20	60	10	24	21	43	1.83
3025939--3026062	33	3.5	33	86	10	158	12	24	17	45	1.82
3025997--3026061	21	3.1	21	82	4	96	10	26	15	47	1.78
3027743--3028058	93	3.4	93	98	0	614	22	13	18	45	1.84
3028172--3028279	33	3.3	33	92	0	171	47	25	18	8	1.77
3028188--3028279	19	5.4	18	69	24	74	46	27	17	8	1.77
3028205--3028263	14	3.9	14	72	20	55	47	27	16	8	1.76
3028275--3028428	19	8.6	19	73	14	130	11	20	22	45	1.83
3028280--3028410	33	3.8	33	82	9	172	10	21	21	46	1.81
3030354--3030389	14	2.6	14	95	0	63	33	0	22	44	1.53
3030496--3030575	20	4.4	19	80	16	98	45	17	23	13	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3030590--3030826	53	4.5	53	84	10	315	14	22	17	45	1.84
3030608--3030773	86	1.9	86	100	0	332	13	23	17	45	1.83
3030661--3030840	34	5.2	33	83	11	245	13	22	17	46	1.84
3030590--3030859	53	5.1	52	80	10	241	14	22	18	45	1.84
3033124--3033148	12	2.1	12	100	0	50	0	28	0	72	0.86
3033323--3033369	24	2.0	24	87	8	69	38	21	14	25	1.92
3034062--3034290	20	11.4	20	82	1	208	20	17	24	37	1.93
3034258--3034355	21	4.8	20	75	10	81	21	19	21	37	1.94
3034258--3034356	42	2.4	43	77	11	100	21	19	22	37	1.94
3036342--3036372	7	4.6	7	92	8	55	61	0	0	38	0.96

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