genome.fa.s8269.2.7.7.80.10.50.1000.4.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: VEPZ01008269.1 Hibiscus syriacus cultivar Beakdansim tig00110926_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  799769

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 529 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)
496358--496458	22	4.6	22	88	4	150	35	13	12	37	1.84
497162--497273	45	2.4	45	85	2	143	25	20	20	33	1.97
497115--497351	121	1.9	122	90	3	379	24	19	21	33	1.97
497207--497804	76	7.9	76	91	2	954	25	19	20	34	1.96
497207--497804	150	4.0	152	91	2	936	25	19	20	34	1.96
497207--497796	153	3.9	153	91	2	956	25	18	20	34	1.96
497744--497840	45	2.2	45	88	0	140	27	22	17	31	1.97
498102--498158	3	19.3	3	87	3	80	38	1	0	59	1.08
498412--498452	19	2.2	19	91	4	66	24	19	24	31	1.98
502795--502842	3	16.0	3	91	0	78	37	0	0	62	0.95
504682--504848	83	2.0	83	86	5	230	45	2	8	42	1.51
505134--505241	20	4.7	23	73	23	86	53	0	1	43	1.17
505169--505246	26	3.2	26	68	20	87	55	1	0	43	1.08
505161--505261	46	2.2	46	92	3	168	50	2	0	45	1.23
505429--505522	2	47.0	2	100	0	188	50	0	0	50	1.00
507482--507637	65	2.4	65	82	7	176	32	17	22	28	1.96
510385--510423	20	1.9	21	84	5	53	25	17	7	48	1.74
512476--512631	65	2.4	64	82	5	163	31	16	21	30	1.96
514279--514306	7	4.0	7	100	0	56	28	14	28	28	1.95
514525--514580	18	3.1	18	94	0	103	16	19	33	30	1.94
517803--517846	18	2.4	18	96	0	79	13	20	34	31	1.92
520949--520981	16	2.0	17	88	5	50	24	9	18	48	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523796--523837	21	2.0	21	100	0	84	28	28	19	23	1.98
527247--527505	135	1.9	135	88	1	385	26	15	26	31	1.96
530256--530287	13	2.4	14	90	10	50	53	0	0	46	1.00
537964--537994	16	1.9	16	93	0	53	41	29	9	19	1.83
543646--543697	25	2.1	25	100	0	104	36	11	11	40	1.78
546392--546440	2	24.5	2	100	0	98	51	0	0	48	1.00
548536--548569	16	2.1	16	100	0	68	50	0	11	38	1.39
550781--550811	2	15.5	2	100	0	62	51	0	0	48	1.00
551361--551401	2	20.5	2	100	0	82	51	0	0	48	1.00
554786--554812	2	13.5	2	100	0	54	51	0	0	48	1.00
564066--564105	20	2.1	20	86	9	57	25	17	2	55	1.55
566234--566277	21	2.1	21	82	0	52	36	15	38	9	1.80
567807--567888	23	3.6	22	77	8	85	24	24	26	24	2.00
567807--567905	44	2.2	44	80	7	112	24	22	27	26	2.00
573362--573449	45	2.0	45	93	4	151	27	19	27	26	1.99
579328--579397	26	2.6	27	82	8	81	71	0	7	21	1.09
579443--579486	18	2.4	18	88	7	63	70	0	4	25	1.06
580064--580252	75	2.6	74	86	6	260	58	11	0	29	1.38
580071--580288	75	3.0	72	79	11	237	57	10	1	30	1.41
583003--583051	24	2.0	26	84	8	66	55	0	6	38	1.25
586891--586975	42	2.0	42	97	0	161	32	27	23	16	1.96
589472--589538	14	5.4	14	77	17	51	8	26	37	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589477--589542	34	1.9	34	90	0	105	10	25	37	25	1.88
589581--589638	29	2.0	29	89	0	89	22	27	36	13	1.92
590072--590182	24	4.7	24	73	5	73	59	18	10	10	1.59
590113--590182	34	2.1	33	84	7	88	60	17	11	11	1.59
590136--590173	20	1.9	19	89	5	58	60	15	13	10	1.59
592569--592601	17	1.9	17	88	11	50	30	3	3	63	1.24
593811--593843	15	2.2	15	94	0	57	6	15	69	9	1.34
595321--595389	34	2.0	34	91	0	111	42	27	10	20	1.84
604296--604320	12	2.1	12	100	0	50	36	16	16	32	1.90
604720--604861	45	3.2	45	91	2	232	30	23	6	40	1.79
604996--605107	59	1.9	59	85	3	154	33	21	9	34	1.86
605025--605360	118	2.9	114	78	7	336	30	22	10	36	1.88
605084--605360	58	4.7	58	81	6	290	29	23	10	36	1.88
605058--605360	117	2.6	118	81	5	330	29	22	11	36	1.89
613871--613954	21	3.9	21	69	19	57	23	35	23	16	1.95
620901--621038	45	3.1	45	92	2	233	30	23	7	39	1.82
620904--621039	44	3.1	44	93	1	227	30	22	7	38	1.82
621202--621472	116	2.3	117	81	4	298	29	21	11	37	1.89
621175--621472	59	5.1	57	76	6	197	29	21	12	37	1.89
626020--626050	15	2.0	16	93	6	55	58	16	0	25	1.38
631792--631840	24	2.0	26	84	8	66	55	0	6	38	1.25
632220--632271	26	2.0	26	100	0	104	26	34	15	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634396--634462	27	2.5	27	87	0	89	29	16	11	41	1.84
634451--634513	23	2.7	23	92	0	99	26	22	17	33	1.96
643457--643507	20	2.5	20	90	0	75	35	25	23	15	1.94
644671--644735	16	4.1	16	93	0	103	56	21	10	10	1.63
645670--645696	14	1.9	14	100	0	54	59	25	7	7	1.51
646735--646817	3	27.7	3	90	0	130	36	2	0	61	1.09
646729--646826	21	4.7	21	85	7	128	39	2	0	58	1.10
648141--648173	15	2.3	15	89	5	50	54	3	0	42	1.15
648827--648874	18	2.7	18	78	9	55	25	0	2	72	0.95
648865--648901	15	2.7	15	88	12	53	24	5	8	62	1.44
659445--659538	10	10.1	9	75	23	54	80	0	19	0	0.70
659446--659538	29	3.2	29	80	11	111	81	0	18	0	0.69
659452--659537	44	2.0	45	90	4	140	82	0	17	0	0.67
659865--659909	18	2.6	18	89	6	67	31	6	6	55	1.52
660478--661214	52	14.1	52	94	1	1235	24	15	22	37	1.93
661987--662091	40	2.5	41	89	8	160	46	9	25	18	1.79
662035--662431	113	3.5	113	91	1	652	39	13	19	27	1.89
662689--662762	3	24.7	3	91	0	121	35	2	0	62	1.10
683566--683614	3	16.3	3	100	0	98	0	0	67	32	0.91
691486--691546	31	2.0	31	83	0	77	29	9	22	37	1.87
695123--695229	29	3.8	28	81	1	106	35	19	27	17	1.94
695887--695915	9	3.3	9	95	4	51	79	0	20	0	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
696465--696510	12	4.1	12	75	16	53	47	0	0	52	1.00
697860--697885	7	3.7	7	100	0	52	46	0	0	53	1.00
704995--705040	12	4.1	12	75	16	53	47	0	0	52	1.00
706138--706162	13	1.9	13	100	0	50	16	0	12	72	1.13
706323--706382	31	1.9	31	83	10	77	31	3	5	60	1.35
707018--707044	2	13.5	2	100	0	54	51	0	0	48	1.00
707156--707187	15	2.2	14	94	5	55	46	3	0	50	1.17
708088--708147	29	2.0	30	87	3	86	45	15	20	20	1.86
716440--716510	25	2.9	25	91	2	108	28	15	16	39	1.89
716600--716660	3	21.0	3	77	12	65	67	1	3	27	1.16
716864--717097	40	5.6	42	74	13	171	26	18	32	23	1.97
716825--717159	128	2.6	128	97	0	625	25	18	30	24	1.98
717884--718143	63	4.2	63	70	11	200	43	13	12	30	1.80
718001--718229	29	8.0	26	71	16	134	46	14	10	27	1.78
718001--718081	28	2.9	27	82	10	101	46	16	9	27	1.78
717927--718195	120	2.2	119	95	2	477	46	14	10	28	1.78
718121--718229	29	3.9	27	86	8	139	47	15	10	26	1.77
718121--718218	29	3.5	29	88	4	148	46	15	9	28	1.76
718459--718575	35	3.4	35	80	3	112	35	11	21	30	1.90
718528--718747	104	2.1	102	83	9	270	38	12	19	29	1.89
719220--719265	4	11.5	4	95	0	74	21	0	28	50	1.49
720881--720921	20	2.0	20	90	0	64	36	17	21	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
723154--723215	32	2.0	32	96	3	117	61	9	14	14	1.57
726839--726910	25	2.9	25	93	2	119	26	15	19	38	1.91
726999--727059	3	21.0	3	77	12	65	67	1	3	27	1.16
727221--727298	23	3.3	23	73	8	86	48	8	21	20	1.77
727222--727312	46	2.0	47	91	6	150	46	8	23	21	1.79
727960--728010	24	2.1	24	96	0	93	56	3	27	11	1.52
736676--736723	23	2.1	23	88	0	69	35	12	18	33	1.89
737105--737156	23	2.3	22	90	6	77	44	19	1	34	1.62
737115--737177	23	2.7	23	90	0	90	38	19	6	36	1.77
737581--737667	39	2.2	39	95	0	156	17	13	20	48	1.81

Tables:   1   2   3   4   5