genome.fa.s7889.2.7.7.80.10.50.1000.3.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: VEPZ01007889.1 Hibiscus syriacus cultivar Beakdansim tig00110271_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1663484

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1005 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)
412228--412295	20	3.3	20	64	11	57	19	25	14	41	1.89
412215--412297	41	2.0	41	100	0	166	19	26	14	39	1.90
414796--414919	63	2.0	63	80	3	142	18	26	28	26	1.98
416812--417419	304	2.0	307	93	0	1033	25	15	21	37	1.93
422319--422424	31	3.4	31	74	7	90	18	26	27	27	1.98
422319--422404	31	2.7	31	76	1	91	17	29	26	26	1.98
427183--427240	12	4.8	12	91	0	89	43	17	17	22	1.88
427273--427311	21	1.9	21	89	5	62	23	30	20	25	1.98
427694--427746	25	2.1	26	82	10	65	39	16	3	39	1.67
427905--427952	23	2.1	23	100	0	96	29	16	29	25	1.97
427908--427959	23	2.3	23	93	0	86	30	19	23	26	1.98
427963--428021	31	1.9	31	92	0	100	28	18	22	30	1.97
431038--431198	65	2.5	65	85	1	207	32	21	14	31	1.93
436631--436695	21	3.0	21	79	4	76	26	23	23	27	2.00
439103--439201	45	2.2	45	88	1	144	32	19	17	31	1.94
456837--457152	41	7.7	40	79	8	280	29	18	17	34	1.94
456840--457135	123	2.4	124	84	7	336	29	18	17	34	1.94
460429--460695	43	6.2	43	80	10	228	22	21	22	32	1.98
460429--460667	86	2.8	83	85	5	273	22	22	23	32	1.98
460429--460695	129	2.1	129	83	6	328	22	21	22	32	1.98
460429--460695	86	3.1	82	81	8	268	22	21	22	32	1.98
463202--463332	60	2.2	59	83	5	156	33	17	16	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476685--476735	3	17.0	3	80	8	59	39	0	0	60	0.97
476678--476732	18	3.2	18	85	15	80	40	0	0	60	0.97
476687--476729	15	2.9	15	92	0	77	41	0	0	58	0.98
476769--476808	21	1.9	21	85	10	55	27	25	22	25	2.00
480948--480987	21	1.9	21	94	0	71	22	12	10	55	1.67
483526--483559	15	2.2	16	89	5	52	79	0	20	0	0.73
483975--484134	80	2.0	80	100	0	320	43	8	21	26	1.81
485894--486348	114	4.0	114	93	0	750	33	13	19	33	1.91
487485--487656	74	2.3	75	86	4	231	34	16	19	29	1.94
488995--489049	22	2.5	22	90	0	92	32	10	16	40	1.83
489727--490825	76	14.5	76	97	0	2063	22	20	21	35	1.96
490952--491000	3	16.3	3	79	8	55	38	0	0	61	0.96
490945--490999	18	3.2	18	85	15	80	40	0	0	60	0.97
490954--490996	15	2.9	15	92	0	77	41	0	0	58	0.98
491030--491069	21	1.9	21	85	10	55	27	25	22	25	2.00
495081--495142	32	1.9	33	86	3	90	30	14	17	37	1.90
497800--497833	15	2.2	16	89	5	52	79	0	20	0	0.73
500087--500540	114	4.0	114	93	1	750	33	13	19	33	1.91
500087--500540	229	2.0	227	92	1	748	33	13	19	33	1.91
501677--501848	74	2.3	75	86	4	231	34	16	19	29	1.94
503186--503240	22	2.5	22	90	0	92	32	10	16	40	1.83
503917--505011	76	14.5	76	97	0	2036	22	20	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505138--505180	15	2.9	15	96	0	77	39	0	0	60	0.97
505214--505253	21	1.9	21	85	10	55	27	25	22	25	2.00
508715--508783	34	2.0	34	88	5	104	75	8	13	2	1.15
508741--508789	15	3.3	14	81	13	53	77	10	10	2	1.07
509740--510016	4	69.5	4	85	2	297	28	5	46	19	1.72
510060--510089	2	15.0	2	100	0	60	50	0	0	50	1.00
510046--510176	22	5.7	22	65	22	63	44	2	6	46	1.42
510110--510177	22	3.0	22	75	12	75	44	1	7	47	1.40
510147--510307	35	4.8	33	74	12	141	41	3	7	47	1.47
510212--510321	35	3.2	32	77	16	105	42	2	4	50	1.37
510301--510338	19	2.0	19	94	0	67	28	0	0	71	0.87
510321--510354	12	2.9	12	91	4	52	29	0	0	70	0.87
510301--510347	18	2.5	19	89	3	69	29	0	0	70	0.88
510297--510375	31	2.5	31	82	10	81	27	1	1	69	1.04
510544--510594	19	2.6	20	84	6	77	33	29	27	9	1.89
511421--511455	18	1.9	18	88	0	52	17	5	0	77	0.96
511531--511578	13	3.7	13	80	8	53	14	16	0	68	1.21
511526--511578	25	2.2	24	86	10	72	13	16	0	69	1.18
514539--514790	126	2.0	126	99	0	495	42	16	11	28	1.83
528489--528559	7	10.1	7	100	0	142	14	28	14	43	1.83
531179--531311	20	6.7	20	89	0	203	41	18	18	21	1.90
531507--531572	22	3.0	22	90	0	105	24	39	15	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533940--533973	14	2.4	15	85	14	54	55	23	11	8	1.63
533848--534050	20	10.8	20	80	14	200	41	21	18	17	1.90
534074--534161	20	4.3	20	91	2	104	22	20	21	35	1.96
535897--536096	100	2.0	100	96	3	368	24	7	24	44	1.78
536438--536531	20	4.7	20	89	2	145	19	22	24	34	1.97
538926--538979	24	2.2	24	93	0	90	40	20	18	20	1.91
538926--538993	24	2.8	24	84	0	64	38	20	17	23	1.93
539814--539900	20	4.3	20	97	0	156	24	19	25	31	1.98
539894--540043	20	7.5	20	90	3	230	21	20	18	39	1.93
540036--540082	21	2.2	20	85	10	67	36	17	25	21	1.94
545688--545712	11	2.3	11	100	0	50	0	8	0	92	0.40
546821--546870	3	16.7	3	83	8	66	70	2	0	28	0.99
546821--546861	14	2.7	15	92	7	66	68	2	0	29	1.03
546827--546871	23	2.0	23	90	0	72	71	2	0	26	0.98
546834--546866	17	1.9	17	100	0	66	72	0	0	27	0.85
548367--548430	33	1.9	33	87	0	92	15	31	9	43	1.78
548357--548440	33	2.5	33	80	0	87	21	27	9	41	1.84
548678--548732	27	2.0	28	92	3	94	20	30	5	43	1.74
549942--550010	10	7.1	10	73	12	63	18	21	30	28	1.97
549942--550012	19	3.7	19	88	1	97	18	23	29	28	1.98
550006--550072	17	3.9	17	92	0	116	19	38	23	17	1.93
550078--550131	13	4.2	13	80	0	63	16	27	27	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550070--550128	26	2.2	26	87	3	91	15	27	27	30	1.96
550070--550128	7	8.9	7	72	10	52	15	27	27	30	1.96
553629--553679	18	2.7	20	85	11	63	19	25	25	29	1.99
553673--553736	17	3.8	17	91	0	101	18	40	23	17	1.91
553738--553799	7	9.3	7	74	8	58	20	27	24	27	1.99
553741--553800	20	3.0	20	92	0	93	20	25	25	30	1.99
554657--554733	31	2.5	31	78	2	82	14	25	31	28	1.95
556024--556094	20	3.5	20	79	11	67	35	12	25	26	1.92
556962--557031	23	3.0	23	78	12	81	30	17	20	32	1.95
559623--559672	22	2.2	22	92	3	82	52	8	8	32	1.60
563324--563354	2	15.5	2	100	0	62	51	0	0	48	1.00
564082--564122	21	2.0	21	85	0	55	51	14	0	34	1.43
564076--564129	21	2.8	20	71	20	51	51	12	0	35	1.40
573057--573132	24	3.2	24	80	0	89	25	13	19	42	1.87
575934--575973	21	1.9	21	85	10	55	32	10	2	55	1.47
576529--576581	15	3.6	14	77	10	52	3	26	1	67	1.17
577945--577984	20	2.0	21	90	5	64	25	17	22	35	1.95
578181--578242	31	2.2	28	78	16	65	30	27	22	19	1.98
578536--578590	11	5.0	11	87	12	78	18	25	36	20	1.94
578537--578592	5	10.4	5	85	14	76	17	25	35	21	1.95
578537--578592	16	3.4	16	97	2	103	17	25	35	21	1.95
579611--580087	2	237.0	2	64	22	128	46	4	4	44	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579618--579878	116	2.3	114	79	10	271	44	3	4	47	1.40
579841--579986	11	13.5	11	68	21	78	45	2	4	47	1.36
579907--579952	17	2.8	16	80	9	56	43	0	4	52	1.21
580133--580218	15	5.3	15	74	19	75	48	6	1	43	1.37
580155--580218	17	3.6	17	83	6	83	50	7	0	42	1.31
580603--580641	18	2.2	18	86	9	53	56	5	0	38	1.22
580730--580773	15	2.7	17	82	10	56	61	0	0	38	0.96
584250--584303	27	2.0	27	85	0	72	14	51	7	25	1.68
590351--590386	6	6.2	6	90	6	56	36	44	0	19	1.51
599577--599690	42	2.7	42	86	4	151	27	20	22	29	1.98

Tables:   1   2   3   4   5   6   7   8   9