genome.fa.s8105.2.7.7.80.10.50.1000.14.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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  14  of  30  ( 3521 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)
2599177--2599235	20	3.0	20	80	9	86	27	28	22	22	1.99
2602088--2602140	21	2.5	20	82	11	54	52	1	9	35	1.45
2606636--2606713	2	39.0	2	100	0	156	50	0	0	50	1.00
2607372--2607552	65	2.8	62	83	11	215	29	23	18	28	1.97
2611856--2611895	21	1.9	21	100	0	80	35	30	7	27	1.84
2615571--2615638	34	2.0	34	100	0	136	35	8	26	29	1.87
2615571--2615627	19	3.2	19	63	27	52	38	7	22	31	1.81
2617234--2617344	30	3.6	30	89	4	152	63	9	9	17	1.49
2618830--2618875	3	15.7	3	86	13	69	69	0	0	30	0.89
2618834--2618873	14	3.0	14	89	10	66	72	0	0	27	0.85
2618831--2618875	18	2.6	18	96	3	83	71	0	0	28	0.87
2619040--2619083	20	2.2	20	88	4	63	68	2	0	29	1.02
2623484--2623660	60	2.9	60	77	8	164	44	7	15	32	1.75
2624006--2624033	2	14.0	2	100	0	56	50	0	0	50	1.00
2628339--2628392	6	9.0	6	91	0	81	33	0	51	14	1.43
2628901--2628949	16	3.1	16	96	0	89	26	18	26	28	1.98
2628979--2629037	14	4.3	14	74	8	50	59	13	5	22	1.54
2629037--2629157	44	2.8	44	90	0	188	65	6	4	23	1.36
2629563--2629620	21	2.8	21	79	10	64	27	12	32	27	1.92
2630363--2630391	14	2.1	14	100	0	58	58	6	0	34	1.25
2631700--2631753	27	2.0	27	100	0	108	37	7	29	25	1.83
2631709--2631772	27	2.4	27	83	0	74	37	14	28	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2637156--2637181	11	2.4	11	100	0	52	11	26	0	61	1.30
2640746--2640782	13	2.7	14	91	4	58	40	18	0	40	1.51
2640821--2640876	18	3.2	18	82	5	71	35	16	0	48	1.46
2640844--2640876	16	2.1	16	94	5	59	36	12	0	51	1.39
2640811--2640886	34	2.4	29	83	14	89	35	15	0	48	1.46
2641530--2641807	45	6.2	45	83	2	256	30	21	8	38	1.85
2641554--2641886	90	3.8	87	78	8	229	29	22	10	37	1.87
2641743--2641895	79	1.9	79	91	0	252	26	26	11	35	1.90
2642296--2642339	20	2.2	20	100	0	88	25	22	20	31	1.98
2642302--2642346	20	2.2	20	92	0	72	28	28	15	26	1.96
2642342--2642527	96	1.9	96	82	4	232	30	23	15	31	1.95
2652087--2652168	30	2.7	30	86	0	119	19	21	19	39	1.93
2652350--2652415	2	33.5	2	93	3	116	51	0	0	48	1.00
2653477--2653510	15	2.1	17	89	10	54	32	0	0	67	0.91
2653919--2654013	49	1.9	49	91	0	154	17	35	30	15	1.92
2654596--2654646	21	2.4	21	93	0	84	31	29	17	21	1.96
2654664--2654732	21	3.3	21	83	0	84	21	15	28	33	1.95
2654658--2654744	42	2.1	42	82	0	102	22	18	25	33	1.97
2654789--2654843	21	2.6	21	91	0	83	20	20	27	32	1.97
2654604--2654843	132	1.8	132	81	6	299	26	20	22	30	1.98
2654961--2654997	6	6.5	6	96	3	60	29	54	16	0	1.43
2655553--2655624	21	3.4	21	71	21	78	34	27	16	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2655639--2655692	21	2.6	21	93	0	90	22	22	25	29	1.99
2666853--2666935	29	2.8	29	92	1	139	43	9	14	32	1.78
2670468--2670499	12	2.4	14	90	10	50	9	18	12	59	1.59
2671616--2671698	29	2.8	29	92	1	139	43	9	14	32	1.78
2672763--2672810	12	4.0	12	97	0	87	8	25	27	39	1.84
2674716--2674742	14	1.9	14	100	0	54	44	0	11	44	1.39
2677198--2677223	12	2.2	12	100	0	52	23	19	50	7	1.73
2677483--2677515	3	11.0	3	87	12	50	66	0	0	33	0.92
2678660--2678688	6	4.8	6	100	0	58	17	17	65	0	1.27
2678768--2678828	24	2.5	26	77	17	69	55	0	0	44	0.99
2678786--2678825	19	2.1	19	85	0	53	55	0	0	45	0.99
2678845--2678877	11	2.8	12	90	4	50	33	45	9	12	1.73
2679089--2679160	20	3.6	20	76	10	67	54	0	1	44	1.08
2683087--2683145	21	3.0	19	88	9	91	52	8	10	28	1.64
2687784--2688101	163	1.9	164	89	1	494	31	25	12	30	1.92
2691097--2691149	12	4.5	12	88	2	81	35	0	37	26	1.57
2698919--2698962	12	3.7	12	85	11	63	36	0	36	27	1.57
2700664--2700707	3	15.0	3	86	13	65	65	0	0	34	0.93
2700672--2700707	14	2.6	14	95	4	65	63	0	0	36	0.94
2700664--2700707	17	2.6	17	92	3	72	65	0	0	34	0.93
2700964--2701012	21	2.2	23	89	7	75	53	0	2	44	1.12
2702010--2702042	3	11.0	3	100	0	66	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2702494--2702519	11	2.4	11	100	0	52	46	0	0	53	1.00
2703394--2703551	21	7.8	20	72	7	86	38	25	17	18	1.92
2703518--2703767	20	12.5	20	81	6	229	37	24	17	20	1.93
2704450--2704496	24	2.0	24	87	8	69	25	14	21	38	1.92
2704671--2704695	12	2.1	12	100	0	50	72	0	28	0	0.86
2707031--2707128	19	5.4	19	84	13	143	14	22	17	45	1.84
2707012--2707128	53	2.2	53	98	1	227	13	23	17	44	1.85
2707187--2707278	33	2.8	33	96	1	166	45	18	22	13	1.84
2707187--2707297	19	6.3	19	75	20	125	45	18	22	13	1.84
2707306--2707441	19	7.6	19	78	17	166	15	24	16	43	1.87
2707306--2707441	33	3.9	33	72	20	125	15	24	16	43	1.87
2707306--2707441	53	2.6	52	94	2	236	15	24	16	43	1.87
2707548--2707584	14	2.6	14	91	0	65	45	21	0	32	1.52
2709566--2709622	14	3.7	14	77	20	60	45	22	21	10	1.82
2709547--2709639	33	2.8	33	95	0	168	47	21	20	10	1.80
2709510--2709644	19	7.6	19	76	16	128	45	23	19	11	1.82
2709640--2709768	19	7.3	19	75	17	125	8	17	28	45	1.77
2709640--2709731	33	2.8	33	93	3	150	7	18	28	45	1.76
2709812--2710378	93	6.1	93	98	0	1098	45	19	12	22	1.84
2712083--2712172	14	5.7	14	74	23	81	42	23	25	8	1.83
2712075--2712189	33	3.5	33	95	0	212	45	20	24	9	1.81
2712082--2712194	19	6.8	18	72	23	88	43	22	24	9	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2712206--2712262	14	3.7	14	75	20	60	8	24	22	43	1.81
2712190--2712269	33	2.5	33	93	2	135	8	22	22	46	1.79
2712247--2712323	20	3.8	21	82	5	104	11	25	16	45	1.82
2712246--2712322	41	1.9	41	94	2	138	12	25	16	44	1.84
2712401--2712471	33	2.2	33	89	0	106	47	16	23	11	1.79
2712653--2712707	22	2.5	22	81	0	74	20	16	40	23	1.91
2712853--2713046	20	9.6	20	82	5	221	19	19	25	35	1.95
2712853--2713046	60	3.2	60	83	0	253	19	19	25	35	1.95
2713033--2713115	21	4.0	21	73	6	78	25	16	24	33	1.96
2713013--2713111	42	2.4	43	77	11	100	21	18	23	37	1.94
2720488--2720522	18	2.1	18	89	10	56	8	25	0	65	1.21
2720935--2721005	16	4.7	16	72	13	60	56	2	0	40	1.14
2720953--2721005	13	3.9	13	76	9	61	58	3	0	37	1.16
2721303--2721335	16	2.0	17	88	5	50	54	0	0	45	0.99
2722012--2722089	29	2.7	29	91	0	129	29	5	15	50	1.65
2722098--2722143	24	1.9	24	82	8	58	58	0	4	36	1.18
2729148--2729200	22	2.6	19	77	19	54	33	16	16	32	1.92
2729470--2729501	15	2.1	15	94	0	55	28	6	15	50	1.68
2729576--2729850	104	2.6	105	87	3	374	31	17	18	32	1.94
2729557--2729850	54	5.5	54	86	3	407	31	18	18	32	1.94
2732368--2732432	3	21.7	3	100	0	130	67	0	0	32	0.91
2737885--2737918	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2741036--2741094	25	2.4	25	94	0	100	59	1	5	33	1.29
2741369--2741417	25	2.0	25	95	0	89	53	4	6	36	1.45
2744183--2744222	13	3.1	13	85	0	53	62	12	10	15	1.54
2744160--2744229	36	1.9	36	85	8	97	58	17	12	11	1.63
2745193--2745236	18	2.4	18	96	0	79	40	4	13	40	1.65
2745211--2745266	27	2.1	27	89	0	85	41	3	12	42	1.60
2745146--2745444	116	2.7	107	89	9	481	36	5	15	43	1.68
2745218--2745272	27	2.0	27	85	0	74	40	3	14	41	1.63
2745296--2745382	27	3.2	27	93	0	147	40	4	13	41	1.65
2745400--2745477	27	2.9	26	79	5	84	41	3	11	43	1.59

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