genome.fa.s7860.2.7.7.80.10.50.1000.3.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: VEPZ01007860.1 Hibiscus syriacus cultivar Beakdansim tig00110223_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2941097

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

This is table  3  of  16  ( 1828 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)
349511--349567	19	2.9	20	84	5	80	17	21	22	38	1.93
349520--349570	20	2.6	19	90	3	75	19	21	23	35	1.96
350623--350676	24	2.2	24	90	0	81	24	16	20	38	1.92
350851--350875	12	2.1	12	100	0	50	72	0	28	0	0.86
353166--353292	33	3.8	33	86	4	193	42	18	22	15	1.89
353167--353298	66	2.0	66	95	0	237	41	18	22	16	1.90
353292--353336	20	2.2	20	84	7	56	13	20	26	40	1.89
353476--353512	14	2.6	14	91	0	65	45	24	0	29	1.53
354860--354926	21	3.2	21	68	4	55	19	20	35	23	1.95
354860--354982	42	2.9	41	80	7	113	22	17	36	22	1.95
356982--357133	19	8.1	19	79	11	152	46	21	21	11	1.83
357044--357133	39	2.3	38	96	1	162	47	22	18	11	1.80
357123--357173	19	2.7	19	84	0	66	11	17	21	49	1.79
357766--357819	20	2.7	20	97	0	99	25	18	24	31	1.97
357890--357930	21	2.0	21	85	0	55	34	31	17	17	1.93
375534--375737	24	8.5	24	77	9	193	37	17	21	23	1.94
375556--375731	48	3.7	48	97	0	325	36	17	21	24	1.94
375534--375737	72	2.8	72	81	7	227	37	17	21	23	1.94
378897--378973	39	1.9	39	82	12	95	37	7	6	48	1.58
379616--379658	16	2.6	17	82	7	54	23	0	2	74	0.93
381111--381146	5	6.8	5	87	12	54	75	2	0	22	0.94
386221--386249	9	3.3	9	95	4	51	82	0	0	17	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
387542--387594	3	19.0	3	81	14	69	64	0	0	35	0.94
387544--387598	16	3.4	16	80	14	69	65	0	0	34	0.93
387542--387597	19	3.0	18	87	7	85	64	0	0	35	0.94
387520--387598	22	3.8	21	80	11	90	60	0	0	39	0.97
389532--389582	23	2.2	23	96	0	93	23	19	23	33	1.97
390486--390544	11	5.4	10	80	15	55	67	1	3	27	1.16
390486--390544	22	2.7	22	84	5	75	67	1	3	27	1.16
391766--391818	3	19.0	3	81	14	60	66	1	0	32	1.03
391766--391821	19	3.0	18	79	7	67	66	1	0	32	1.03
391744--391822	22	3.8	21	77	14	74	62	1	0	36	1.04
391766--391844	22	3.7	22	77	14	69	69	3	1	25	1.12
392152--392575	113	3.8	113	88	1	629	29	18	14	37	1.90
392154--392565	226	1.8	225	92	0	698	28	19	13	38	1.90
392580--393341	76	10.1	76	96	0	1411	34	21	20	24	1.97
396491--396708	113	1.9	114	91	4	361	29	21	15	33	1.94
398872--398986	16	7.1	16	78	13	96	3	22	0	73	1.04
398872--399012	24	5.7	24	78	8	115	3	21	2	72	1.13
398872--398980	42	2.7	40	88	7	150	3	22	0	73	1.05
398872--399012	8	17.3	7	73	23	75	3	21	2	72	1.13
401837--401865	12	2.3	13	94	5	51	51	6	13	27	1.66
401938--401976	14	2.8	14	88	0	60	53	5	12	28	1.60
404576--404634	11	5.4	10	80	15	55	67	1	3	27	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404576--404634	22	2.7	22	84	5	75	67	1	3	27	1.16
405855--405916	3	22.0	3	84	12	78	66	1	0	32	1.02
405833--405920	25	3.6	26	79	13	89	62	1	0	36	1.03
405856--405922	22	3.1	21	80	6	89	68	1	0	29	0.98
410501--410553	3	18.0	3	84	11	74	66	0	0	33	0.92
410761--411220	129	3.6	129	91	2	690	23	20	30	26	1.98
410841--411173	43	7.7	42	71	12	219	22	20	31	25	1.98
411484--411563	35	2.2	36	82	8	92	28	8	20	42	1.81
411505--411584	36	2.3	35	80	6	90	38	12	16	32	1.86
411960--412039	40	2.0	40	85	4	108	36	12	20	31	1.89
412336--412454	36	3.4	36	79	9	113	35	12	21	30	1.91
412370--412454	36	2.4	36	86	4	118	35	11	22	30	1.90
412406--412642	105	2.3	103	85	5	300	39	12	18	29	1.87
412658--412766	38	2.9	37	80	9	114	34	11	20	33	1.88
413109--413156	12	3.7	12	75	20	51	22	0	27	50	1.50
413109--413156	16	3.2	16	72	22	59	22	0	27	50	1.50
414331--414403	12	6.5	11	77	13	60	4	15	8	72	1.23
414326--414372	12	3.8	12	80	8	51	4	12	10	72	1.25
414338--414408	32	2.2	32	82	7	90	4	15	7	73	1.21
414990--415083	46	2.1	45	83	2	116	37	10	26	25	1.89
416467--416528	32	2.0	32	96	3	117	61	9	14	14	1.57
420267--420319	3	18.0	3	84	11	74	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420945--421035	31	2.9	31	79	9	96	35	18	20	25	1.96
422252--422288	19	2.0	19	89	5	58	13	24	0	62	1.31
424129--424190	2	31.0	2	100	0	124	50	0	0	50	1.00
425243--425293	18	2.8	18	100	0	102	52	0	0	47	1.00
430026--430187	76	2.1	76	89	3	247	28	16	13	41	1.86
430199--430501	39	7.8	39	83	2	342	27	18	18	35	1.94
430526--430606	37	2.2	36	82	6	101	34	17	8	39	1.80
430619--430845	36	6.5	36	76	13	197	25	19	14	40	1.90
430722--430794	21	3.8	20	72	22	66	21	21	15	41	1.90
430720--430812	15	5.2	17	66	27	50	23	20	13	41	1.88
430683--430843	36	4.4	36	87	4	218	24	21	14	39	1.91
431172--434529	134	25.2	134	83	4	3977	29	19	20	30	1.97
431179--434412	44	72.8	45	65	7	782	29	19	20	30	1.97
431172--434529	267	12.6	267	90	0	4798	29	19	20	30	1.97
432468--433118	89	7.3	89	65	7	210	28	20	21	29	1.98
435761--435791	2	15.5	2	100	0	62	51	0	0	48	1.00
446723--446761	20	2.0	20	84	0	51	35	2	0	61	1.10
446923--446962	11	3.5	11	80	6	53	55	10	2	32	1.47
446917--446963	23	2.0	23	95	0	85	48	8	4	38	1.53
447080--447119	2	20.0	2	100	0	80	50	0	0	50	1.00
448363--448437	39	1.9	39	88	0	114	45	18	8	28	1.78
448544--448591	19	2.5	19	89	0	69	27	22	12	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
448569--448629	19	3.3	18	75	6	59	29	21	6	42	1.78
450555--450617	18	3.5	18	72	8	56	38	19	1	41	1.61
450868--450928	22	2.8	22	87	0	86	24	26	19	29	1.99
451055--451119	33	2.0	33	100	0	130	29	15	12	43	1.83
451134--451184	20	2.5	20	100	0	102	37	21	7	33	1.82
453158--453220	31	2.1	31	84	3	83	36	17	7	38	1.79
459961--460327	197	1.9	197	96	0	680	33	10	17	39	1.83
461462--461516	23	2.4	23	84	0	56	32	23	20	23	1.98
461546--461866	103	3.1	103	96	1	599	36	23	13	26	1.91
467236--467304	23	3.0	23	78	4	59	31	24	20	23	1.98
467320--467640	103	3.1	103	97	0	606	36	23	13	25	1.92
471587--471727	32	4.4	32	79	7	142	32	19	13	34	1.91
474292--474354	30	2.1	29	83	13	76	47	1	11	39	1.49
478195--478236	17	2.4	18	84	4	50	54	2	2	40	1.26
478668--478825	21	7.8	20	70	7	77	38	24	17	19	1.92
478792--478985	20	9.6	20	81	5	221	35	25	19	19	1.95
478792--478985	60	3.2	60	83	0	253	35	25	19	19	1.95
479367--479437	33	2.2	33	89	0	106	11	23	16	47	1.79
479517--479626	21	5.8	20	74	17	108	45	18	24	11	1.83
479510--479626	41	3.1	38	81	14	145	46	17	25	11	1.81
479577--479633	14	3.7	14	75	20	60	43	22	24	8	1.81
479569--479638	33	2.1	33	100	0	140	47	20	24	8	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
479644--479727	19	4.7	19	78	14	97	10	23	22	42	1.85
479666--479741	19	4.7	15	74	22	57	9	25	23	42	1.83
479644--479749	52	2.0	52	94	0	185	10	24	20	44	1.83
481445--481825	93	4.1	93	98	0	744	22	12	18	45	1.83
481886--482016	52	2.5	51	93	3	226	46	29	17	6	1.74
481869--482016	19	8.3	19	78	15	163	45	29	16	8	1.76
482012--482146	19	7.6	19	73	16	119	11	18	23	46	1.81
482034--482090	14	3.7	14	75	20	51	10	19	22	47	1.80
482017--482109	33	2.8	33	93	0	159	10	19	21	48	1.79
484069--484104	14	2.6	14	95	0	63	33	0	22	44	1.53

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