genome.fa.s8280.2.7.7.80.10.50.1000.12.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: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3557051

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  12  of  17  ( 1944 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)
2510839--2510883	22	2.0	22	95	0	81	42	6	4	46	1.50
2514593--2514617	13	1.9	13	100	0	50	72	0	28	0	0.86
2524527--2524577	26	2.0	26	85	14	70	58	0	0	41	0.98
2526758--2526811	21	2.5	21	96	3	99	25	0	27	46	1.53
2526758--2526835	21	3.7	22	85	13	94	26	1	28	43	1.63
2537714--2537773	8	7.5	8	98	0	111	40	25	10	25	1.86
2552307--2552351	23	2.0	22	87	8	65	40	15	20	24	1.91
2553391--2553421	9	3.3	9	91	8	53	9	0	0	90	0.46
2553391--2553421	10	3.2	10	95	4	55	9	0	0	90	0.46
2553391--2553429	19	2.1	19	85	0	51	12	2	2	82	0.89
2561333--2561671	166	2.1	164	97	2	644	19	11	26	41	1.86
2565493--2565758	133	2.0	133	100	0	532	30	12	25	30	1.93
2566678--2566704	13	2.1	13	100	0	54	7	29	7	55	1.55
2581894--2581924	12	2.5	12	94	5	53	48	6	12	32	1.67
2581918--2582342	152	2.8	151	82	7	464	34	18	18	28	1.95
2583247--2583271	7	3.6	7	100	0	50	44	0	0	56	0.99
2585402--2585464	27	2.3	28	86	2	83	23	9	20	46	1.80
2591578--2591627	23	2.2	23	85	0	64	38	18	14	30	1.89
2591667--2591716	26	1.9	26	87	0	73	36	12	10	42	1.76
2591931--2591961	10	3.1	10	100	0	62	48	0	29	22	1.51
2595854--2595899	6	7.5	6	80	4	56	82	2	2	13	0.85
2595858--2595900	13	3.3	13	81	9	52	83	2	2	11	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2595850--2595903	12	4.5	12	75	20	51	81	1	1	14	0.86
2595850--2595899	18	2.7	18	84	3	73	82	2	2	14	0.86
2597191--2597220	13	2.2	14	94	5	53	76	0	10	13	1.01
2597216--2597252	18	2.2	18	85	9	51	62	0	0	37	0.96
2597247--2597389	31	4.4	31	71	16	92	44	5	2	47	1.41
2597240--2597593	39	9.6	37	77	13	281	44	5	3	47	1.42
2597294--2597683	36	10.8	36	75	15	256	44	6	3	45	1.47
2597517--2597642	63	2.0	64	89	4	193	46	7	3	42	1.49
2597553--2597607	27	2.0	27	92	0	92	47	5	5	41	1.49
2597553--2597618	27	2.5	27	87	4	82	46	6	4	42	1.48
2597580--2597655	37	2.1	36	82	2	89	48	11	1	38	1.48
2597731--2597762	14	2.2	14	94	5	55	65	0	0	34	0.93
2597725--2597768	23	1.9	23	85	0	61	65	2	0	31	1.05
2599291--2599379	34	2.6	35	82	5	94	62	16	2	17	1.42
2599303--2599379	34	2.3	34	84	8	95	62	15	2	19	1.44
2601662--2601703	17	2.4	19	80	15	54	64	2	0	33	1.07
2601647--2601724	24	3.3	23	70	24	56	66	1	0	32	1.00
2604347--2604485	35	3.9	35	83	1	179	36	17	25	20	1.94
2604342--2604485	71	2.0	71	90	2	227	38	17	25	19	1.93
2606157--2606190	17	1.9	18	88	5	52	8	8	8	73	1.25
2606999--2607057	22	2.7	22	70	10	59	23	6	3	66	1.32
2608512--2608750	4	59.8	4	99	0	451	25	1	25	48	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2608724--2608770	4	11.8	4	95	0	67	25	17	25	31	1.97
2609963--2610003	20	2.0	20	100	0	82	36	9	19	34	1.85
2615226--2615266	20	2.0	20	100	0	82	36	9	19	34	1.85
2615354--2615399	22	2.0	23	87	4	67	43	6	6	43	1.56
2618829--2618867	6	6.7	6	85	5	53	41	0	0	58	0.98
2620094--2620130	2	18.5	2	100	0	74	51	0	0	48	1.00
2623896--2624318	111	3.8	111	88	2	645	29	16	23	31	1.96
2624718--2624756	17	2.3	17	90	0	60	10	33	10	46	1.72
2634441--2634465	4	6.2	4	100	0	50	76	0	0	24	0.80
2635031--2635076	3	15.7	3	95	4	85	65	0	0	34	0.93
2635021--2635077	23	2.5	23	94	0	96	61	0	0	38	0.96
2637378--2637455	38	2.1	38	100	0	156	37	21	17	23	1.94
2639548--2639639	45	2.0	45	89	0	139	34	20	25	19	1.96
2639675--2639711	15	2.5	15	91	8	58	21	10	51	16	1.74
2643670--2643700	2	15.5	2	100	0	62	48	0	0	51	1.00
2644830--2644908	41	1.9	41	94	0	140	31	18	17	31	1.95
2649527--2649578	20	2.6	20	81	6	61	32	15	30	21	1.94
2650063--2650301	47	5.1	47	87	2	356	45	11	21	22	1.83
2650174--2650296	20	5.5	20	72	22	102	43	10	25	21	1.84
2650063--2650308	93	2.6	93	91	1	404	45	10	20	23	1.83
2656468--2656519	20	2.6	20	81	0	59	36	13	26	23	1.92
2656543--2656596	19	2.6	21	82	8	67	31	16	22	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2656693--2656738	22	2.1	22	100	0	92	36	0	26	36	1.57
2656700--2656748	22	2.2	22	82	7	55	38	4	22	34	1.73
2657029--2657318	47	6.2	47	90	2	433	45	11	21	22	1.83
2657034--2657318	93	3.1	93	90	0	462	45	11	20	22	1.83
2657041--2657325	140	2.0	139	92	0	471	45	10	20	23	1.82
2657594--2657641	21	2.3	21	96	0	87	56	8	16	18	1.65
2670601--2670762	80	2.0	81	98	1	317	38	11	22	27	1.89
2671130--2671197	8	8.0	8	74	19	50	76	0	13	10	1.02
2671141--2671192	18	2.8	18	78	13	61	78	0	13	7	0.94
2671134--2671197	26	2.4	28	84	10	89	76	0	14	9	1.01
2671145--2671203	19	3.2	19	83	9	68	76	0	15	8	1.01
2671134--2671205	26	2.8	26	85	8	85	76	0	15	8	1.01
2672517--2672802	115	2.6	110	87	9	381	39	15	20	24	1.91
2673150--2673570	221	1.9	219	97	2	792	46	18	20	14	1.83
2677384--2677778	149	2.6	143	78	16	422	25	15	21	37	1.93
2677470--2677935	153	3.0	155	83	6	534	25	15	22	36	1.94
2677526--2678086	154	3.7	154	79	10	436	24	12	23	39	1.90
2696153--2696183	15	2.1	15	100	0	62	45	32	0	22	1.53
2704475--2704514	20	2.0	20	100	0	80	35	10	25	30	1.88
2704834--2704881	20	2.5	20	96	3	89	20	20	16	41	1.90
2707490--2707578	28	3.1	28	84	9	115	33	11	21	33	1.89
2710060--2710192	59	2.2	60	82	6	173	40	15	10	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2712653--2712695	21	2.0	21	95	0	77	55	4	30	9	1.52
2714897--2714970	30	2.5	30	97	0	139	44	10	31	13	1.78
2716669--2716766	3	32.7	3	91	0	160	32	2	1	64	1.12
2718941--2718991	18	2.9	17	72	18	50	25	0	1	72	0.95
2718982--2719018	15	2.7	15	88	12	53	24	5	8	62	1.44
2722331--2722363	14	2.3	15	94	5	59	45	0	3	51	1.16
2729617--2729675	16	3.5	16	78	17	66	79	0	16	3	0.86
2729617--2729676	15	4.0	14	79	18	59	78	0	18	3	0.89
2730709--2731101	83	4.7	84	94	1	686	26	13	22	37	1.91
2731834--2732504	113	5.9	112	89	2	916	37	12	19	29	1.89
2732100--2732144	24	1.9	23	82	13	56	48	6	26	17	1.72
2731826--2732504	225	3.0	225	88	3	963	37	13	19	29	1.90
2731826--2732504	338	2.0	340	88	2	1024	37	13	19	29	1.90
2732822--2732934	3	37.7	3	94	0	199	33	1	0	63	1.11
2739435--2739609	87	2.0	87	97	2	334	40	19	13	26	1.89
2741183--2741216	9	3.8	9	88	11	52	76	0	2	20	0.92
2741182--2741216	13	2.6	13	90	4	52	77	0	2	20	0.90
2741715--2741757	18	2.5	17	81	7	52	69	2	2	25	1.12
2741717--2741755	14	2.8	13	88	11	51	71	2	2	23	1.10
2742754--2743794	105	10.0	105	90	3	1567	21	17	26	33	1.96
2742754--2743825	209	5.1	208	92	3	1569	21	18	26	33	1.96
2742754--2743794	314	3.3	314	90	4	1576	21	17	26	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2744093--2744149	29	2.0	27	83	10	69	28	15	8	47	1.75
2744572--2744843	36	7.9	35	70	18	187	37	13	21	27	1.91
2744563--2744697	67	2.0	67	94	0	234	37	12	20	30	1.89
2744639--2744825	101	1.9	101	87	4	279	37	12	21	28	1.90
2745286--2745321	18	2.0	18	88	0	54	41	30	8	19	1.81
2745733--2745803	22	3.2	22	87	0	106	29	12	22	35	1.91
2746450--2746498	17	2.9	17	75	24	50	0	20	6	73	1.04
2746460--2746533	22	3.2	22	78	19	71	0	16	6	77	0.98
2746467--2746540	16	4.6	16	77	17	57	0	14	8	77	0.99
2749582--2749615	9	3.8	9	88	11	52	76	0	2	20	0.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17