genome.fa.s8122.2.7.7.80.10.50.1000.2.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: VEPZ01008122.1 Hibiscus syriacus cultivar Beakdansim tig00110676_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2511854

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 956 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)
391084--391242	58	2.7	59	79	6	155	41	11	8	38	1.71
391549--391607	29	2.0	29	96	0	109	54	10	1	33	1.44
396840--396940	42	2.4	42	96	0	184	25	12	3	57	1.53
398257--399760	262	5.8	261	86	4	2009	36	15	18	29	1.92
402263--402365	49	2.1	49	96	0	188	28	23	11	36	1.90
419551--419676	31	4.1	31	88	0	171	20	11	13	53	1.71
420389--420462	31	2.4	31	88	0	103	54	13	12	20	1.71
422603--422628	3	8.7	3	100	0	52	34	30	0	34	1.58
428359--428397	2	19.5	2	100	0	78	48	0	0	51	1.00
429286--429495	104	2.0	102	91	8	338	39	7	11	41	1.69
430736--431053	162	1.9	165	91	8	526	26	19	10	43	1.83
432392--432416	13	1.9	13	100	0	50	64	12	8	16	1.49
435160--435225	28	2.3	28	81	2	69	42	6	6	45	1.53
441015--441054	3	13.3	3	100	0	80	67	0	0	32	0.91
441239--441277	2	19.5	2	100	0	78	48	0	0	51	1.00
447676--447713	20	1.9	20	88	0	58	21	26	10	42	1.85
448439--448496	17	3.4	17	70	2	53	46	8	3	41	1.51
451145--451213	34	2.0	34	94	0	120	40	0	0	59	0.97
451143--451201	25	2.4	25	80	8	68	38	0	0	61	0.96
457520--457559	12	3.6	12	80	12	50	47	0	0	52	1.00
457520--457561	22	2.0	21	86	13	59	47	0	0	52	1.00
457546--457862	22	14.6	22	85	2	435	39	0	11	49	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458525--458577	24	2.2	24	86	0	70	35	0	1	62	1.06
466548--466594	2	23.5	2	100	0	94	48	0	0	51	1.00
467215--467275	22	2.8	22	84	0	77	24	18	9	47	1.78
467685--467726	17	2.5	17	77	11	50	40	0	2	57	1.12
467709--467742	13	2.6	13	90	0	59	41	2	5	50	1.42
474127--474265	36	3.9	36	90	4	187	20	25	22	31	1.98
474127--474265	71	2.0	70	87	4	199	20	25	22	31	1.98
481895--481936	14	3.0	14	79	10	50	26	0	0	73	0.83
482702--482761	31	1.9	32	86	6	88	45	1	1	51	1.21
483935--483963	13	2.2	13	100	0	58	37	13	10	37	1.79
486152--486181	6	5.0	6	100	0	60	16	0	66	16	1.25
489912--489953	14	3.0	14	79	10	50	23	0	2	73	0.94
493995--494019	7	3.6	7	100	0	50	12	0	60	28	1.32
508069--508111	7	6.1	7	100	0	86	13	16	0	69	1.19
512808--512846	2	19.5	2	100	0	78	0	48	0	51	1.00
513831--513866	18	2.0	18	89	10	56	63	0	13	22	1.29
514135--514172	18	2.1	18	90	0	58	73	2	2	21	1.07
521171--521304	65	2.0	66	88	2	198	51	11	4	32	1.57
531773--531837	27	2.4	27	84	0	85	35	16	29	18	1.93
531810--531900	33	2.8	33	77	0	101	29	19	30	19	1.97
534196--534264	33	2.1	33	94	0	120	39	26	26	8	1.85
539873--539945	29	2.4	32	74	17	75	19	27	4	49	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544630--544655	13	2.0	13	100	0	52	53	15	15	15	1.73
547102--547146	22	2.0	22	95	0	81	51	4	8	35	1.54
555853--555898	21	2.2	21	100	0	92	45	26	6	21	1.76
563253--563297	21	2.1	21	87	0	63	31	28	24	15	1.96
565125--565169	23	2.0	23	86	0	63	20	26	26	26	1.99
568567--568603	16	2.3	16	90	0	56	48	0	16	35	1.46
568684--568717	14	2.3	15	95	5	61	23	0	0	76	0.79
569535--569622	38	2.3	38	92	1	142	39	36	11	12	1.79
571188--571221	2	17.0	2	100	0	68	50	0	0	50	1.00
576075--576142	23	2.9	23	79	18	61	45	0	1	52	1.09
577774--577818	22	2.1	21	87	4	63	42	6	4	46	1.50
578605--578697	16	5.8	16	74	9	73	46	30	12	10	1.76
578606--578697	32	2.8	32	74	9	89	46	29	13	10	1.76
581750--581775	9	2.9	9	100	0	52	46	23	7	23	1.78
588924--589176	132	1.9	132	85	1	346	23	19	20	36	1.95
602798--602823	2	13.0	2	100	0	52	50	0	0	50	1.00
608636--608747	59	1.9	59	83	3	145	37	9	21	31	1.86
608866--608948	31	2.7	31	96	0	148	18	18	24	39	1.92
610362--610402	20	2.0	20	95	0	73	19	19	21	39	1.93
613175--613207	15	2.1	16	88	5	50	33	0	3	63	1.10
613202--613274	14	5.8	12	70	20	51	42	0	1	56	1.08
613776--613836	31	2.0	31	83	0	77	47	8	3	40	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621025--621050	13	2.0	13	100	0	52	0	30	0	69	0.89
621091--621123	17	1.9	17	100	0	66	18	15	18	48	1.81
631348--631379	15	2.1	15	100	0	64	9	56	21	12	1.64
632260--632347	2	43.5	2	87	6	79	43	2	5	48	1.39
632331--632416	34	2.5	35	84	3	129	47	6	0	45	1.29
632400--632436	2	18.5	2	100	0	74	48	0	0	51	1.00
632313--632508	89	2.2	90	90	6	292	47	6	0	45	1.31
632416--632536	38	3.1	38	83	11	149	44	8	1	45	1.43
637910--638085	60	2.9	59	74	12	155	30	19	6	43	1.76
642585--642618	9	3.8	9	92	0	50	14	26	41	17	1.88
644752--644809	29	2.0	30	89	3	91	15	20	18	44	1.86
644883--644929	14	3.0	16	78	15	53	61	0	0	38	0.96
663527--663615	21	4.2	21	100	0	178	48	0	38	13	1.43
665456--665495	4	10.0	4	83	0	53	25	7	25	42	1.80
665444--665494	8	6.4	8	93	0	84	25	11	25	37	1.90
675629--675671	21	2.0	21	86	0	59	30	27	25	16	1.97
675651--675804	69	2.2	69	86	1	202	27	27	27	18	1.98
676107--676178	29	2.5	29	88	0	99	37	11	12	38	1.79
676192--676269	30	2.6	29	80	8	84	34	8	20	35	1.84
676470--676536	22	3.0	22	100	0	134	19	26	26	26	1.99
682572--682614	21	2.0	21	86	0	59	30	27	25	16	1.97
682594--682745	68	2.2	69	85	2	200	27	26	26	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
683048--683119	29	2.5	29	88	0	99	37	11	12	38	1.79
683133--683210	30	2.6	29	80	8	84	34	8	20	35	1.84
683413--683479	22	3.0	22	100	0	134	19	26	26	26	1.99
685860--685892	15	2.1	16	88	5	50	9	24	15	51	1.72
687095--687170	16	4.8	16	100	0	152	31	25	23	19	1.98
689478--689703	13	16.4	14	67	19	59	47	4	3	43	1.41
689491--689554	31	2.1	30	88	2	92	50	1	0	48	1.10
689501--689682	97	1.9	97	89	3	287	46	3	4	45	1.41
689508--689645	18	7.2	20	72	18	87	47	4	2	45	1.37
689623--689690	28	2.5	27	83	4	93	44	4	7	44	1.52
689523--689771	97	2.6	99	79	10	234	46	3	5	44	1.43
689754--689789	15	2.4	15	95	0	63	50	5	2	41	1.40
689953--690006	2	26.0	2	81	7	63	44	1	5	48	1.37
689939--690022	20	4.2	20	82	11	91	39	5	7	47	1.55
690438--690488	2	25.5	2	80	7	59	50	1	3	43	1.31
690879--690922	19	2.3	19	92	7	72	43	0	34	22	1.54
690891--690929	19	2.1	19	85	4	53	48	0	28	23	1.51
691124--691156	9	3.8	9	88	8	50	57	3	6	33	1.38
691455--691507	22	2.3	22	87	9	70	37	3	0	58	1.16
706768--706913	58	2.5	57	78	4	159	38	6	17	37	1.75
706997--707060	23	2.7	23	78	2	74	18	23	21	35	1.95
706997--707068	24	3.0	23	74	6	65	23	22	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
706997--707098	47	2.2	47	82	10	120	22	23	20	33	1.97
712872--712932	22	2.6	22	82	12	77	45	6	0	47	1.28
712867--712930	24	2.6	25	83	11	80	42	6	0	51	1.27
713101--713171	31	2.3	31	90	0	106	49	18	8	23	1.75
714414--714489	36	2.1	36	97	0	143	31	10	14	43	1.79
714912--714941	15	2.0	15	100	0	60	13	26	46	13	1.80
719335--719410	36	2.1	36	97	0	143	31	10	14	43	1.79
720813--720861	24	2.0	24	84	0	62	12	32	8	46	1.71
722187--722224	17	2.2	18	90	4	60	47	0	0	52	1.00
723793--723868	35	2.2	35	92	0	125	39	23	1	35	1.63

Tables:   1   2   3   4   5   6   7   8