genome.fa.s260.2.7.7.80.10.50.1000.13.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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  13  of  26  ( 3102 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)
2471689--2471727	15	2.6	16	84	15	57	17	17	0	64	1.30
2475228--2475273	14	3.2	14	93	3	74	2	50	0	47	1.13
2475565--2475625	24	2.6	24	84	7	72	37	1	0	60	1.07
2475585--2475628	22	2.0	22	90	0	70	40	0	0	59	0.98
2475573--2475662	26	3.7	24	75	19	71	40	1	1	57	1.13
2475715--2475763	2	24.5	2	87	8	73	48	0	2	48	1.12
2477601--2477656	21	2.6	21	78	16	62	39	0	5	55	1.23
2487494--2487550	24	2.4	24	76	2	62	29	17	17	35	1.93
2488788--2488822	18	1.9	18	94	0	61	20	20	20	40	1.92
2502751--2502816	23	2.9	23	76	0	78	19	16	24	39	1.92
2504481--2504521	19	2.2	19	90	0	64	53	4	19	21	1.63
2505230--2505353	46	2.7	46	88	1	187	42	12	20	23	1.87
2505235--2505467	118	2.0	118	91	0	376	44	13	20	21	1.86
2505340--2505608	46	5.8	46	84	2	353	44	13	20	21	1.85
2505340--2505599	138	1.9	138	88	3	398	45	13	19	21	1.85
2505505--2505577	20	3.3	20	71	20	65	46	12	19	21	1.82
2505281--2505563	72	4.0	71	68	19	205	44	13	19	22	1.85
2511760--2511829	22	3.5	20	79	9	79	30	14	28	27	1.95
2512225--2512657	46	9.5	46	88	1	638	45	11	20	22	1.83
2512647--2512820	96	1.8	96	92	0	294	43	11	20	24	1.85
2512719--2512786	12	5.5	12	67	19	50	41	13	25	20	1.88
2512649--2512829	46	3.9	47	86	7	251	43	11	21	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2515012--2515077	25	2.6	27	81	16	86	75	1	19	3	1.01
2515015--2515075	26	2.3	26	86	10	81	77	1	18	3	0.99
2515012--2515091	26	3.1	26	74	15	76	76	1	16	6	1.05
2516290--2516897	134	4.5	134	79	4	593	31	18	19	31	1.95
2516289--2516897	268	2.3	266	81	3	677	31	18	19	31	1.95
2519220--2519308	34	2.6	34	80	7	101	41	15	11	31	1.83
2521206--2521234	2	14.5	2	100	0	58	48	0	0	51	1.00
2536331--2536371	21	2.0	21	100	0	82	48	2	29	19	1.61
2538331--2538395	29	2.2	29	94	0	112	26	13	12	47	1.78
2546421--2546454	11	3.0	11	91	4	50	29	2	0	67	1.05
2546465--2546509	2	23.0	2	90	4	74	51	0	0	48	1.00
2546466--2546755	147	2.0	148	80	4	336	42	4	6	46	1.50
2546910--2546956	24	2.0	23	88	12	69	53	2	0	44	1.12
2547539--2547725	64	2.9	64	81	3	162	31	24	16	28	1.96
2547567--2547726	64	2.5	64	85	2	205	30	25	16	28	1.96
2547567--2547745	64	2.8	63	80	8	200	29	25	17	28	1.97
2555153--2555196	21	2.1	21	82	0	52	9	43	15	31	1.79
2555189--2555213	3	8.3	3	100	0	50	0	68	0	32	0.90
2555891--2555930	19	2.0	20	85	9	55	37	0	37	25	1.56
2556313--2556492	64	2.8	63	79	9	202	31	23	17	27	1.97
2559712--2559747	14	2.6	14	95	0	63	25	19	11	44	1.83
2559754--2559803	14	3.6	14	79	15	59	18	16	12	54	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2559753--2559804	6	7.6	7	79	16	56	17	15	11	55	1.68
2564777--2564938	54	3.0	54	91	0	270	37	14	22	25	1.93
2565968--2566905	45	20.7	45	94	0	1626	25	21	19	33	1.97
2566632--2566755	26	5.2	26	61	28	78	26	22	17	33	1.96
2567096--2567156	3	20.0	3	93	3	104	34	1	0	63	1.04
2568447--2568480	11	3.0	11	91	4	50	29	2	0	67	1.05
2568523--2568801	149	1.9	149	79	4	323	40	6	6	47	1.53
2568887--2568932	18	2.6	18	82	3	58	58	2	0	39	1.10
2568893--2568935	18	2.3	18	88	11	61	51	2	0	46	1.13
2577594--2577650	22	2.6	22	83	5	62	21	31	35	12	1.90
2587979--2588038	24	2.4	24	88	5	93	36	0	35	28	1.58
2591835--2591865	14	2.2	14	94	0	53	58	25	12	3	1.50
2602168--2602226	28	2.1	28	93	0	100	30	11	23	33	1.91
2604112--2604219	3	35.7	3	88	1	162	37	0	0	62	1.02
2604970--2605010	13	3.2	13	85	0	55	4	21	58	14	1.55
2605099--2605198	7	14.7	7	92	6	170	44	0	56	0	0.99
2611132--2611170	13	3.0	13	85	11	53	79	0	15	5	0.90
2611132--2611169	18	2.1	18	85	9	51	81	0	15	2	0.80
2613384--2613625	82	2.9	82	97	0	448	25	14	23	36	1.92
2613577--2613892	114	2.8	114	94	2	530	31	16	20	31	1.94
2617210--2618006	76	10.5	76	97	0	1488	22	21	21	35	1.96
2617210--2618006	379	2.1	381	97	0	1508	22	21	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2618129--2618236	3	35.0	3	81	9	128	38	0	0	61	0.96
2618134--2618236	22	4.6	22	85	3	116	38	0	0	61	0.96
2625515--2625557	16	2.8	16	79	6	54	67	4	11	16	1.38
2626152--2626196	18	2.5	18	96	0	81	28	20	13	37	1.90
2627956--2628018	31	2.0	31	87	0	90	23	7	11	57	1.60
2629390--2629442	22	2.5	20	73	8	52	66	3	15	15	1.40
2650298--2650963	335	2.0	334	86	1	929	37	15	11	35	1.83
2651632--2651671	22	1.9	22	90	10	66	45	2	0	52	1.14
2653736--2653810	28	2.7	27	76	13	73	37	0	2	60	1.11
2654640--2654688	20	2.5	20	82	0	62	38	4	20	36	1.72
2655446--2655496	20	2.5	20	87	0	66	41	9	17	31	1.82
2655488--2655559	21	3.4	21	96	0	135	38	16	19	25	1.92
2655608--2655663	21	2.7	21	77	0	58	41	10	12	35	1.78
2659021--2659069	21	2.3	22	82	10	66	38	20	18	22	1.93
2659118--2659178	21	2.9	21	92	0	104	36	19	18	26	1.94
2659224--2659266	20	2.2	20	86	0	59	41	6	13	37	1.72
2664197--2664232	14	2.5	15	90	9	65	38	0	0	61	0.96
2664233--2664277	22	2.0	22	100	0	90	37	0	13	48	1.42
2664212--2664309	32	3.4	32	72	26	117	36	0	10	53	1.35
2664212--2665113	54	16.4	54	78	14	879	34	0	12	52	1.41
2664336--2664475	32	4.7	32	79	16	183	33	0	13	52	1.41
2664369--2664411	22	2.0	22	100	0	86	34	0	13	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2664398--2664453	14	3.7	14	73	17	58	33	0	8	57	1.30
2664255--2664969	166	4.3	166	86	9	782	33	0	13	52	1.42
2664502--2665001	32	16.7	32	75	19	490	34	0	12	52	1.41
2664635--2664721	22	3.8	22	79	11	111	32	0	16	51	1.44
2664740--2664830	22	3.7	22	70	25	74	35	0	9	54	1.34
2664841--2664883	22	2.0	22	95	0	77	37	0	11	51	1.39
2664895--2664937	22	2.0	22	100	0	86	34	0	13	51	1.42
2665061--2665103	22	2.0	22	90	0	68	39	0	9	51	1.34
2665128--2665186	31	1.9	31	89	0	91	42	11	5	40	1.64
2667937--2667979	20	2.2	19	83	4	50	46	4	11	37	1.61
2670909--2670979	17	4.1	17	83	5	81	38	8	12	40	1.74
2670909--2670979	34	2.1	35	84	7	92	38	8	12	40	1.74
2672742--2672779	16	2.5	15	87	8	58	60	7	5	26	1.46
2672920--2672959	16	2.5	16	91	0	62	45	0	20	35	1.51
2672920--2672965	16	3.0	15	84	12	58	43	0	17	39	1.49
2677803--2677842	21	1.9	21	89	0	62	55	7	7	30	1.56
2681465--2681530	18	3.6	18	76	11	71	53	12	18	16	1.73
2682979--2683012	17	1.9	18	94	5	61	35	0	2	61	1.11
2689125--2689503	188	2.0	190	98	1	744	27	22	13	36	1.92
2692917--2692956	20	2.0	20	85	9	55	45	0	0	55	0.99
2692949--2692983	18	1.9	18	94	0	61	48	0	2	48	1.16
2694494--2694537	15	2.9	17	78	21	53	54	13	4	27	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2698980--2699028	23	2.1	23	96	0	89	34	22	22	20	1.97
2699130--2699292	2	81.5	2	97	0	308	50	48	0	0	1.05
2699292--2699354	2	32.0	2	96	3	119	50	0	0	49	1.00
2701934--2701963	15	2.1	14	93	6	51	23	20	43	13	1.86
2705430--2705454	13	1.9	13	100	0	50	32	8	4	56	1.47
2708174--2708240	16	4.3	15	84	15	75	76	0	22	1	0.87
2708159--2708217	17	3.3	19	74	13	61	74	0	22	3	0.96
2708179--2708235	8	7.1	8	86	13	82	75	0	22	1	0.90
2708168--2708245	25	3.2	25	82	15	92	76	0	20	2	0.90
2708159--2708245	18	4.9	17	80	12	72	75	0	20	3	0.94

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