genome.fa.s8428.2.7.7.80.10.50.1000.11.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   

This is table  11  of  30  ( 3508 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)
2711812--2711902	41	2.2	41	80	3	103	21	20	21	35	1.96
2711870--2711921	20	2.5	21	81	3	61	21	25	15	38	1.92
2711911--2711963	21	2.5	22	81	6	74	33	18	26	20	1.96
2714190--2714264	3	25.0	3	86	0	105	38	1	0	60	1.06
2714191--2714264	21	3.5	21	94	0	121	39	1	0	59	1.06
2714266--2714292	2	13.5	2	100	0	54	51	0	0	48	1.00
2731732--2731780	13	3.8	13	86	0	71	28	18	18	34	1.94
2732015--2732047	2	16.5	2	87	12	50	51	3	0	45	1.16
2752927--2753249	160	2.0	162	98	1	623	26	20	19	33	1.96
2753989--2754039	14	3.6	14	77	17	52	84	0	7	7	0.78
2753992--2754039	21	2.3	21	86	10	71	85	0	6	8	0.74
2754000--2754039	16	2.4	17	87	8	55	85	0	5	10	0.75
2754481--2754579	23	4.5	21	78	16	78	75	2	13	9	1.12
2754462--2754567	23	4.6	22	79	9	97	75	1	15	7	1.11
2754582--2754672	41	2.2	41	88	0	128	46	8	26	18	1.78
2754594--2754688	41	2.3	41	89	3	138	40	11	28	20	1.87
2759630--2759943	54	5.8	54	86	0	421	29	17	19	34	1.94
2767955--2768328	54	6.9	54	88	0	498	30	17	16	34	1.93
2773529--2773553	11	2.3	11	100	0	50	40	8	36	16	1.77
2773573--2773628	24	2.3	24	93	0	94	62	16	14	7	1.52
2773615--2773658	16	2.6	17	86	10	56	79	0	18	2	0.83
2788073--2788183	54	2.1	54	100	0	222	30	9	23	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2788995--2789047	13	4.1	13	73	9	54	11	7	9	71	1.30
2795353--2795422	20	3.8	19	72	18	67	21	31	21	25	1.98
2796021--2796121	20	5.1	20	93	0	121	23	31	17	26	1.97
2796171--2796208	20	1.9	20	88	0	58	18	36	21	23	1.95
2797860--2798231	133	2.8	133	82	1	469	38	16	12	32	1.86
2799054--2799278	108	2.1	108	80	5	256	50	16	12	20	1.77
2800075--2800111	3	11.7	3	88	11	56	67	0	0	32	0.91
2800076--2800116	10	4.2	10	90	6	66	68	0	0	31	0.90
2800075--2800112	13	2.9	14	88	11	62	65	0	0	34	0.93
2800597--2800675	31	2.5	31	85	0	113	49	15	12	22	1.78
2801276--2801300	6	4.2	6	100	0	50	16	0	0	84	0.63
2803438--2803552	60	1.9	60	81	10	137	39	3	22	34	1.71
2804320--2804367	21	2.3	21	92	0	78	29	16	10	43	1.81
2807027--2807052	13	2.0	13	100	0	52	30	23	7	38	1.83
2808203--2808300	48	2.0	48	96	0	178	21	22	33	22	1.97
2811134--2811172	20	2.0	20	89	0	60	30	17	0	51	1.46
2813103--2813166	2	32.0	2	100	0	128	50	0	0	50	1.00
2834941--2835015	39	1.9	39	91	0	123	6	25	9	58	1.53
2835719--2835768	3	17.7	3	76	12	52	64	2	2	32	1.16
2835719--2835762	11	4.0	11	85	5	54	61	2	2	34	1.21
2835719--2835751	17	1.9	17	100	0	66	60	0	3	36	1.12
2835719--2835763	14	3.2	14	81	12	56	62	2	2	33	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2835720--2835768	17	2.9	17	87	6	64	65	2	2	30	1.15
2843658--2843692	13	2.6	14	81	9	54	71	0	11	17	1.14
2844278--2844323	22	2.1	22	84	11	60	19	19	8	52	1.72
2844443--2844525	19	4.4	19	90	0	130	53	3	8	34	1.49
2854411--2854453	20	2.0	21	86	8	61	39	23	11	25	1.88
2855386--2855430	21	2.1	21	100	0	90	37	31	8	22	1.85
2857115--2857187	30	2.4	30	88	0	110	36	21	10	30	1.88
2857956--2857998	16	2.8	15	79	6	50	44	0	0	55	0.99
2857944--2858012	34	2.1	33	86	8	95	44	0	0	55	0.99
2857948--2858022	34	2.3	31	80	11	87	40	0	1	58	1.06
2858242--2858276	3	11.7	3	100	0	70	31	0	0	68	0.90
2859260--2859305	22	2.1	22	95	0	83	47	6	17	28	1.72
2860809--2860859	3	16.3	3	84	11	59	66	1	0	31	1.03
2861049--2861363	55	5.8	56	78	9	267	28	23	15	32	1.95
2861151--2861363	110	1.9	110	86	1	302	26	23	15	33	1.95
2873876--2873905	12	2.5	12	100	0	60	43	0	6	50	1.28
2873964--2874009	22	2.1	22	95	0	83	47	6	17	28	1.72
2875304--2875356	3	17.3	3	81	11	63	64	1	0	33	1.05
2876279--2876352	30	2.5	30	86	0	103	37	20	10	31	1.87
2876918--2876962	22	2.0	22	100	0	90	28	22	13	35	1.92
2877124--2877181	22	2.6	21	83	8	71	37	0	0	62	0.96
2877132--2877207	17	4.2	18	76	14	68	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2877129--2877202	36	2.0	39	84	7	100	41	0	0	58	0.98
2878657--2878702	22	2.1	22	95	0	83	28	6	0	65	1.17
2878846--2878910	31	2.1	31	91	0	103	32	3	27	36	1.72
2879170--2879229	26	2.3	27	85	8	88	63	1	1	33	1.14
2883352--2883451	52	1.9	53	91	2	166	41	14	24	21	1.89
2883903--2883948	19	2.4	19	100	0	92	52	17	21	8	1.71
2884251--2884279	15	1.9	15	100	0	58	34	20	17	27	1.95
2887865--2887966	52	2.0	52	88	0	150	43	14	21	20	1.88
2888573--2888754	91	2.0	91	100	0	364	25	16	24	34	1.95
2895979--2896108	54	2.4	54	90	1	208	51	12	11	24	1.72
2897423--2897456	16	2.1	16	89	10	52	41	0	0	58	0.98
2899406--2899455	3	16.7	3	100	0	100	34	0	0	66	0.92
2903348--2903402	28	1.9	29	85	3	76	38	3	7	50	1.48
2903330--2903375	19	2.4	19	96	0	83	43	2	6	47	1.41
2903499--2903602	37	2.8	37	88	0	145	41	13	14	30	1.84
2904114--2904162	14	3.2	14	78	18	53	18	8	4	69	1.30
2904227--2904287	13	4.5	13	77	10	52	27	1	4	65	1.22
2906108--2906427	160	2.0	160	100	0	640	36	21	23	18	1.94
2909189--2909243	18	3.0	18	76	10	58	80	7	10	1	0.99
2909178--2909232	15	3.6	14	83	13	65	78	9	12	0	0.97
2910824--2912236	106	13.3	106	91	0	2139	33	24	18	22	1.97
2913465--2913511	23	2.0	23	84	15	62	27	2	0	70	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2913756--2913812	26	2.1	28	81	18	68	31	1	0	66	1.02
2920336--2920391	2	28.0	2	96	0	103	50	1	0	48	1.11
2920452--2920502	19	2.7	18	74	17	50	37	7	5	49	1.56
2923188--2923314	64	2.0	62	96	3	236	33	30	17	18	1.94
2929783--2929899	2	58.5	2	83	0	117	51	9	0	38	1.40
2937814--2937853	20	2.0	20	100	0	80	15	10	25	50	1.74
2939376--2939457	40	2.0	40	85	0	110	25	23	26	24	2.00
2939945--2940005	2	31.0	2	96	3	115	49	0	0	50	1.00
2948753--2948798	18	2.5	19	85	3	58	73	0	15	10	1.08
2948918--2948947	12	2.5	12	94	0	51	73	0	3	23	0.98
2952741--2952868	56	2.5	50	70	20	118	33	25	10	30	1.89
2952753--2952862	56	2.0	56	89	3	168	36	21	10	30	1.88
2962929--2962958	16	1.9	16	93	6	53	33	20	13	33	1.91
2966098--2966152	25	2.2	24	78	15	60	45	5	1	47	1.36
2965984--2966128	77	1.9	78	84	7	197	42	5	8	43	1.57
2968623--2968773	49	3.1	49	83	3	189	29	22	15	33	1.94
2968649--2968793	49	3.0	48	87	5	193	28	22	15	33	1.94
2969295--2969321	13	2.1	13	100	0	54	29	18	14	37	1.91
2987420--2987465	20	2.3	20	96	0	83	23	21	21	32	1.98
2995772--2995803	15	2.2	15	94	5	57	21	21	43	12	1.86
3010181--3010602	207	2.0	215	96	3	788	39	16	15	29	1.89
3010977--3011012	14	2.6	14	86	0	54	30	22	25	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3011005--3011043	17	2.3	17	95	0	69	20	23	35	20	1.96
3015051--3015083	16	2.1	16	88	11	50	0	9	3	87	0.63
3015482--3015506	2	12.5	2	100	0	50	48	0	0	52	1.00
3029781--3029849	20	3.5	20	91	0	111	28	17	18	34	1.94
3029780--3029879	20	5.0	20	85	0	110	26	16	21	37	1.93
3029780--3029879	40	2.5	40	86	0	128	26	16	21	37	1.93
3030026--3030120	39	2.5	38	78	9	106	35	18	18	26	1.95
3030178--3030366	39	5.1	38	83	6	217	37	18	20	23	1.94
3029957--3030284	160	2.0	164	89	2	502	35	18	19	26	1.95
3030587--3030639	14	3.5	15	87	12	74	39	0	0	60	0.97

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