genome.fa.s9579.2.7.7.80.10.50.1000.14.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  14  of  29  ( 3390 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)
2589992--2590025	17	1.9	17	88	5	50	32	5	0	61	1.20
2590083--2590120	18	2.1	18	95	0	67	47	13	0	39	1.42
2600830--2600882	1	53.0	1	76	0	52	88	11	0	0	0.51
2600831--2600882	12	4.4	12	87	4	79	88	11	0	0	0.52
2600831--2600882	23	2.2	24	96	3	97	88	11	0	0	0.52
2601709--2602011	105	2.9	105	94	0	552	32	26	19	21	1.97
2601865--2602175	164	1.9	167	84	6	425	33	26	18	21	1.97
2602026--2602375	99	3.5	99	92	0	549	34	25	19	20	1.96
2603948--2604296	174	2.0	174	97	0	653	26	16	9	47	1.76
2604243--2604276	17	1.9	17	88	5	50	32	5	0	61	1.20
2604328--2604371	2	22.0	2	85	0	52	45	6	0	47	1.29
2613025--2613085	23	2.7	23	94	0	104	36	11	19	32	1.88
2613167--2613222	16	3.6	16	92	2	87	33	17	8	39	1.81
2616491--2616523	2	16.5	2	100	0	66	48	0	0	51	1.00
2619417--2619565	63	2.4	63	97	0	280	37	19	8	34	1.83
2629089--2629119	15	2.1	15	93	0	53	12	64	12	9	1.50
2636713--2636884	88	2.0	88	98	0	335	40	6	4	49	1.47
2647006--2647047	12	3.5	12	81	18	52	30	0	0	69	0.89
2660838--2660875	3	12.7	3	89	10	60	31	0	0	68	0.90
2662224--2662285	26	2.4	26	91	0	97	25	25	19	29	1.99
2665001--2665038	19	2.0	20	89	5	60	7	13	2	76	1.11
2665880--2665987	45	2.4	46	84	4	130	30	17	19	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2666413--2666493	16	4.8	17	69	11	60	33	27	0	39	1.57
2666413--2666501	34	2.6	34	91	3	144	30	29	0	40	1.57
2668367--2668411	19	2.4	18	85	10	63	48	6	8	35	1.61
2668375--2668413	19	2.0	20	95	5	71	46	5	10	38	1.60
2674291--2674447	65	2.4	64	86	5	201	28	18	22	31	1.97
2675890--2676022	53	2.5	53	80	9	144	39	22	12	25	1.90
2676382--2676829	84	5.4	84	83	1	480	30	25	20	24	1.98
2677088--2677128	15	2.9	14	83	16	50	24	0	0	75	0.80
2677094--2677128	12	2.8	12	91	4	52	22	0	0	77	0.78
2679107--2679188	15	5.5	15	85	2	112	37	7	19	35	1.80
2679102--2679188	45	2.0	43	90	4	138	40	6	19	33	1.78
2679171--2679261	20	4.5	20	91	2	155	39	8	14	37	1.77
2679171--2679261	41	2.2	40	94	1	155	39	8	14	37	1.77
2679333--2679431	49	2.0	50	80	9	114	47	2	0	50	1.12
2679376--2679560	98	1.9	96	80	8	212	45	1	3	49	1.27
2679666--2679719	14	3.4	16	72	20	51	48	0	1	50	1.11
2679695--2679739	22	2.0	24	86	8	67	57	0	0	42	0.98
2679936--2680055	42	2.9	42	92	0	195	45	18	19	17	1.86
2682573--2682626	26	2.1	26	82	3	65	42	11	1	44	1.50
2683202--2683243	19	2.2	20	86	4	59	30	0	7	61	1.22
2683472--2683505	18	1.9	18	88	5	52	35	17	0	47	1.48
2683544--2683591	2	24.0	2	95	0	87	50	0	2	47	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2684772--2684810	17	2.3	17	90	0	60	51	2	2	43	1.29
2684870--2684945	31	2.4	32	89	4	111	36	6	5	51	1.51
2686154--2686196	20	2.2	20	91	0	68	46	9	23	20	1.79
2690595--2690674	40	1.9	41	90	7	126	41	11	11	36	1.77
2690997--2691036	14	2.9	14	88	3	55	5	12	25	57	1.55
2698083--2698179	21	4.7	20	73	7	59	35	22	19	22	1.96
2698147--2698339	20	9.6	20	83	5	237	34	26	19	19	1.95
2698719--2698789	33	2.2	33	94	0	124	11	23	16	47	1.79
2698868--2698974	21	5.6	20	69	17	84	45	19	20	14	1.84
2698922--2699001	33	2.4	33	93	0	133	47	22	20	10	1.79
2698929--2698985	14	3.7	14	72	20	51	43	22	22	10	1.84
2699026--2699109	41	2.1	41	88	2	125	10	25	16	47	1.79
2699025--2699107	20	4.2	20	81	6	114	12	24	16	46	1.81
2700781--2700998	89	2.4	89	93	5	368	22	13	18	44	1.85
2701112--2701168	14	3.7	14	72	20	51	43	22	22	10	1.84
2701095--2701215	33	3.7	33	88	4	163	45	26	18	9	1.80
2701126--2701206	14	4.8	18	69	26	61	46	25	18	8	1.77
2701159--2701215	19	3.3	19	76	23	79	47	29	15	7	1.72
2701218--2701335	19	6.5	19	80	9	131	8	19	24	47	1.77
2701218--2701335	51	2.2	54	86	8	161	8	19	24	47	1.77
2702783--2703421	320	2.0	319	97	2	1212	26	15	25	33	1.95
2703561--2703596	14	2.6	14	95	0	63	33	0	22	44	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2703687--2703774	19	4.8	19	82	14	123	47	15	22	13	1.81
2703687--2703793	53	2.0	53	98	1	207	45	16	24	13	1.83
2703783--2704025	19	13.7	19	77	18	274	13	22	17	45	1.84
2703827--2703915	14	5.6	14	69	25	61	11	24	19	44	1.83
2703789--2704025	53	4.5	54	75	18	239	13	22	17	46	1.83
2703807--2703972	34	4.8	33	91	7	260	13	23	17	45	1.83
2703783--2703972	67	2.7	70	88	8	289	14	23	17	44	1.85
2703841--2704025	91	2.1	86	90	5	289	13	21	17	47	1.82
2703927--2704039	33	3.2	33	86	8	145	13	20	18	47	1.81
2706314--2706338	12	2.1	12	100	0	50	0	28	0	72	0.86
2706513--2706559	24	2.0	24	87	8	69	38	21	14	25	1.92
2707249--2707477	20	11.4	20	84	1	226	19	17	25	37	1.93
2707445--2707543	21	4.8	20	76	6	81	22	19	21	37	1.94
2708356--2708593	27	8.8	27	88	1	271	23	43	18	14	1.87
2714591--2714639	22	2.2	22	85	3	62	55	12	0	32	1.37
2714594--2715217	80	7.9	79	78	14	452	52	12	0	34	1.40
2714674--2715262	54	11.1	54	74	14	349	52	12	0	35	1.39
2714674--2715262	98	5.6	98	69	25	399	52	12	0	35	1.39
2714723--2714809	22	4.0	22	96	3	158	50	9	0	40	1.34
2714745--2715105	76	4.6	76	86	8	515	52	12	0	35	1.39
2714821--2714885	22	3.0	22	100	0	130	50	13	0	35	1.42
2714967--2715020	14	3.6	14	72	18	54	57	5	0	37	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2714945--2715140	32	6.8	33	73	25	176	53	12	0	34	1.39
2714594--2715262	188	3.6	185	82	10	623	52	12	0	35	1.39
2715009--2715051	22	2.0	22	100	0	86	51	13	0	34	1.42
2715011--2715059	22	2.2	22	88	3	71	55	14	0	30	1.40
2715063--2715105	22	2.0	22	100	0	86	51	13	0	34	1.42
2715065--2715113	22	2.2	22	88	3	71	55	14	0	30	1.40
2715119--2715193	22	3.2	23	75	17	82	54	17	0	28	1.43
2715165--2715262	32	3.4	31	73	26	115	53	10	0	36	1.35
2715197--2715239	22	2.0	22	95	0	77	51	11	0	37	1.39
2715199--2715247	22	2.2	22	85	3	62	55	12	0	32	1.37
2715242--2715277	15	2.5	15	95	4	65	58	0	0	41	0.98
2715660--2715719	28	2.1	29	81	9	70	45	1	1	51	1.21
2716844--2716980	43	3.2	43	78	7	145	37	21	18	21	1.94
2719751--2719885	41	3.3	41	71	10	112	36	17	16	30	1.91
2719739--2720049	82	3.8	81	80	4	320	30	16	19	32	1.95
2720164--2720189	12	2.2	12	100	0	52	46	30	15	7	1.74
2720881--2721038	79	2.0	79	100	0	316	35	15	21	27	1.93
2723256--2723296	18	2.4	18	88	8	59	36	4	14	43	1.67
2725588--2725641	20	2.7	20	75	11	65	27	29	12	29	1.94
2725631--2725696	20	3.2	21	68	4	55	31	21	19	27	1.97
2725690--2725736	20	2.3	20	85	7	60	40	27	14	17	1.89
2725705--2725763	20	2.9	20	84	2	64	40	20	16	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2725877--2725949	22	3.3	22	92	0	119	21	38	13	26	1.91
2726158--2726189	13	2.5	13	100	0	64	0	6	15	78	0.95
2726221--2726260	20	2.0	20	90	4	64	47	25	17	10	1.78
2729742--2729781	14	2.9	14	80	0	53	30	0	17	52	1.45
2729692--2729831	66	2.2	62	85	7	176	31	0	17	50	1.51
2729890--2729947	20	2.9	20	100	0	116	41	20	18	18	1.91
2730019--2730064	17	2.7	17	100	0	92	50	19	8	21	1.75
2730203--2730289	39	2.2	39	93	0	147	18	14	18	48	1.82
2730987--2731021	11	2.9	12	84	16	54	48	8	8	34	1.64
2731096--2731137	20	2.1	20	100	0	84	42	19	23	14	1.87

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