genome.fa.s7867.2.7.7.80.10.50.1000.14.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: VEPZ01007867.1 Hibiscus syriacus cultivar Beakdansim tig00110239_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3477501

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  14  of  18  ( 2128 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)
2523867--2523891	2	12.5	2	100	0	50	52	0	0	48	1.00
2527826--2527863	20	1.9	19	89	5	58	36	5	2	55	1.37
2527832--2527872	20	2.0	20	85	0	55	41	4	2	51	1.36
2530512--2530553	18	2.4	17	77	14	50	78	0	7	14	0.95
2531173--2531241	23	3.0	23	75	8	77	28	23	26	21	1.99
2536427--2536495	23	3.0	22	79	8	75	27	24	26	21	1.99
2538879--2539273	168	2.3	168	90	3	589	25	20	24	30	1.98
2538866--2539273	84	4.8	84	82	4	482	25	20	24	30	1.98
2539537--2539680	43	3.3	43	83	3	155	22	15	29	32	1.95
2545729--2545785	12	4.9	12	83	12	75	64	0	3	31	1.10
2545728--2545787	23	2.6	22	82	15	77	66	0	3	30	1.07
2545729--2545833	5	18.8	5	70	20	50	66	0	3	28	1.15
2546158--2546193	15	2.5	14	86	8	54	63	5	0	30	1.17
2547438--2547511	3	24.3	3	89	10	107	62	0	0	37	0.96
2547438--2547511	17	4.6	16	90	9	116	62	0	0	37	0.96
2547631--2548748	45	24.8	45	89	3	1434	34	19	23	22	1.96
2548191--2548300	20	5.2	20	77	14	123	35	21	26	16	1.94
2548146--2548345	65	3.1	65	98	0	382	35	21	25	18	1.95
2548101--2548441	110	3.0	110	76	12	379	33	20	25	20	1.97
2549409--2549488	22	3.6	22	75	18	85	37	12	16	33	1.86
2550725--2550890	75	2.2	75	85	6	237	30	20	17	31	1.96
2554489--2554528	21	1.9	21	89	0	62	10	25	40	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2554511--2554571	20	2.9	21	87	7	79	18	26	34	21	1.96
2563632--2563727	8	12.9	8	75	18	84	0	19	2	78	0.86
2563643--2563726	7	11.7	7	80	14	82	0	19	2	78	0.86
2563633--2563729	15	6.5	15	80	12	101	0	19	2	78	0.85
2563632--2563692	23	2.6	24	92	5	106	0	22	0	77	0.78
2568071--2568161	46	1.9	49	84	6	125	27	20	15	36	1.93
2568687--2569077	193	2.0	196	98	1	761	38	12	16	32	1.87
2569659--2569720	12	5.3	12	80	7	65	66	0	1	32	1.02
2569916--2569951	15	2.5	14	86	8	54	63	5	0	30	1.17
2571191--2571252	3	20.3	3	90	9	99	64	0	0	35	0.94
2574500--2574563	2	33.0	2	90	6	105	50	1	0	48	1.10
2582578--2582616	20	2.0	20	100	0	78	28	30	15	25	1.96
2584222--2584314	32	2.9	34	74	19	90	35	22	12	29	1.91
2585344--2585396	23	2.2	24	83	9	65	3	13	5	77	1.09
2588692--2588735	23	1.9	23	85	0	61	52	0	9	38	1.33
2588822--2588878	14	3.9	15	73	19	50	71	1	0	26	0.95
2588865--2588921	23	2.5	23	82	0	69	66	0	8	24	1.20
2589262--2589373	37	3.0	36	87	5	152	35	9	9	44	1.71
2589972--2590013	21	2.0	21	90	0	66	33	23	19	23	1.97
2590005--2590097	21	4.4	21	94	0	159	21	25	22	30	1.99
2590759--2590812	21	2.6	21	87	0	81	35	20	24	20	1.96
2591432--2591487	3	19.3	3	85	7	80	30	0	1	67	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2592914--2593066	59	2.6	60	89	5	222	20	9	7	62	1.49
2592914--2593069	30	5.2	30	88	4	235	20	9	7	62	1.50
2592914--2593096	89	2.0	89	84	7	237	19	10	8	61	1.54
2594885--2594946	32	1.9	32	93	0	106	16	12	9	61	1.56
2597586--2597664	2	39.5	2	94	0	140	48	0	2	49	1.14
2599376--2599728	131	2.7	131	82	5	372	26	30	19	23	1.98
2599912--2599989	3	26.3	3	92	2	131	30	0	1	67	0.98
2601454--2601558	30	3.5	30	88	0	156	19	11	6	62	1.49
2601508--2601606	49	2.0	48	92	1	162	16	11	7	65	1.45
2601564--2601640	30	2.6	30	76	12	77	19	12	10	57	1.64
2603103--2603135	2	16.5	2	100	0	66	51	0	0	48	1.00
2609171--2609228	21	2.8	21	86	5	73	50	20	6	22	1.72
2611665--2611861	40	4.9	41	83	3	238	37	15	18	28	1.92
2619763--2619835	32	2.2	33	81	13	89	35	6	9	47	1.63
2619851--2619940	30	3.1	28	74	15	83	46	4	3	45	1.39
2620696--2620721	2	13.0	2	100	0	52	0	50	0	50	1.00
2624240--2624276	2	18.5	2	100	0	74	48	0	0	51	1.00
2625378--2625440	19	3.5	17	79	16	56	65	1	1	31	1.12
2625905--2625940	7	4.9	7	90	10	54	41	0	0	58	0.98
2625933--2625966	17	2.0	17	88	0	50	29	0	2	67	1.05
2627115--2627157	12	3.8	12	81	12	63	67	4	9	18	1.36
2627110--2627168	10	5.5	10	77	15	64	72	3	8	15	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2627110--2627167	22	2.6	22	100	0	116	72	3	8	15	1.23
2628546--2628633	29	2.8	32	76	16	94	50	0	7	42	1.32
2628524--2628712	73	2.7	73	77	14	175	47	1	7	43	1.39
2628880--2628913	17	2.0	17	88	0	50	32	5	2	58	1.37
2630340--2630913	223	2.6	222	92	1	907	46	13	14	26	1.81
2630824--2630878	20	2.8	20	71	0	56	58	10	12	18	1.63
2630340--2630913	111	5.1	112	90	1	866	46	13	14	26	1.81
2630786--2631239	182	2.5	182	91	0	721	43	13	15	27	1.84
2637441--2637480	18	2.2	18	86	8	55	22	5	7	65	1.38
2652854--2652883	10	3.0	10	100	0	60	90	0	10	0	0.47
2652859--2652899	18	2.3	18	86	0	55	85	2	7	4	0.81
2654813--2654855	23	1.9	22	81	13	52	25	6	2	65	1.30
2657772--2658136	179	2.0	184	97	2	695	36	7	18	37	1.80
2659370--2659423	19	2.8	19	83	5	65	66	1	29	1	1.12
2659580--2659626	21	2.2	21	96	0	85	36	14	8	40	1.77
2662297--2662864	296	1.9	297	89	1	870	33	17	20	28	1.95
2665748--2666160	134	3.1	133	83	2	488	34	21	14	29	1.93
2667214--2667261	21	2.3	21	89	7	71	64	0	33	2	1.05
2667216--2667263	10	4.7	10	85	14	71	64	0	33	2	1.05
2667214--2667276	21	3.0	20	79	9	63	65	0	31	3	1.09
2674324--2674348	13	1.9	13	100	0	50	60	24	0	16	1.36
2675991--2676028	20	1.9	20	88	0	58	13	26	36	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2679682--2679725	21	2.2	20	84	12	54	27	13	6	52	1.66
2679837--2679876	21	1.9	21	85	10	55	35	10	2	52	1.48
2682431--2682501	31	2.2	32	90	7	110	25	33	22	18	1.96
2690627--2690673	20	2.3	21	82	10	62	42	0	21	36	1.53
2691311--2691358	25	1.9	25	83	8	62	39	0	4	56	1.19
2705593--2705664	34	2.1	34	92	0	117	31	8	18	41	1.80
2706267--2706485	45	4.9	45	80	2	242	29	21	9	38	1.85
2706275--2706518	90	2.7	89	78	7	217	30	22	10	36	1.88
2707012--2707074	21	3.0	22	77	11	69	25	25	14	34	1.94
2707111--2707184	21	3.8	19	74	13	62	25	29	17	27	1.97
2714626--2714656	16	1.9	16	100	0	62	32	48	6	12	1.67
2719476--2719536	2	30.5	2	100	0	122	50	0	0	49	1.00
2719520--2719830	37	8.4	37	88	7	452	46	2	6	44	1.42
2719516--2719830	112	2.8	112	88	6	473	46	2	6	44	1.42
2719516--2719830	149	2.1	152	88	8	491	46	2	6	44	1.42
2719842--2719919	5	16.2	5	71	19	51	23	1	0	75	0.87
2719850--2719896	15	3.2	15	90	3	69	25	0	0	74	0.82
2719834--2719917	20	4.0	21	75	20	79	23	1	1	73	0.97
2719847--2719919	15	5.0	15	78	17	66	21	1	0	76	0.86
2728751--2728806	4	13.0	4	85	7	67	71	0	5	23	1.06
2728907--2729029	37	3.3	37	83	13	173	45	7	2	44	1.44
2728806--2729024	112	2.0	109	89	4	332	47	8	1	42	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2728816--2729223	75	5.4	74	79	13	365	46	7	2	43	1.46
2728806--2729178	112	3.3	110	77	12	330	46	7	2	43	1.45
2729060--2729153	35	2.7	35	79	15	97	45	5	4	44	1.45
2729011--2729108	45	2.1	47	83	9	123	45	2	4	47	1.33
2729060--2729153	37	2.7	33	85	12	118	45	5	4	44	1.45
2729804--2730399	84	7.2	82	77	5	536	25	20	25	29	1.99
2729800--2730362	169	3.4	165	80	5	562	24	19	25	30	1.99
2729800--2730364	248	2.3	250	85	4	771	24	19	25	29	1.98
2729800--2730399	165	3.6	164	81	4	614	25	20	25	29	1.99
2736838--2736890	4	13.0	4	86	7	63	69	0	1	28	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18