genome.fa.s7993.2.7.7.80.10.50.1000.3.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: VEPZ01007993.1 Hibiscus syriacus cultivar Beakdansim tig00110443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2245901

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1410 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)
523591--523630	21	1.9	21	85	10	55	35	10	2	52	1.48
525580--525737	65	2.4	65	84	1	192	27	16	25	31	1.96
525688--525734	19	2.5	19	83	10	62	25	17	31	25	1.97
526540--526577	20	1.9	20	89	10	60	39	21	15	23	1.92
531129--531189	13	4.7	13	85	0	86	29	21	14	34	1.93
531129--531196	13	5.2	13	81	0	64	29	20	13	36	1.91
536822--536955	42	3.2	42	88	2	189	27	8	41	22	1.84
541766--541811	18	2.5	19	75	10	51	28	8	10	52	1.66
549090--549394	125	2.4	125	86	0	412	34	14	26	24	1.94
550141--550295	35	4.3	35	81	5	186	36	21	17	24	1.95
550446--550564	42	2.8	42	93	0	193	25	22	22	29	1.99
550282--550756	256	1.9	257	92	1	801	33	16	18	32	1.93
551129--551230	42	2.5	41	77	7	100	27	20	20	31	1.98
550488--551448	217	4.4	216	90	0	1467	33	15	18	33	1.92
550488--551448	433	2.2	431	90	1	1467	33	15	18	33	1.92
551354--551483	42	3.1	42	76	8	140	23	16	21	38	1.93
551348--551506	84	1.9	84	84	1	210	25	17	20	36	1.94
551444--551615	80	2.2	80	83	2	229	32	14	19	33	1.92
553568--553649	29	3.1	27	70	29	79	18	17	14	50	1.79
553588--553627	20	2.0	20	100	0	80	15	15	15	55	1.71
556949--557021	12	5.8	12	73	17	58	17	20	15	46	1.84
556949--557029	26	3.1	26	81	12	94	17	18	16	48	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559128--559154	7	3.9	7	100	0	54	88	0	0	11	0.50
559602--559637	15	2.3	16	90	4	56	80	2	16	0	0.83
561112--561255	52	2.8	52	91	1	227	36	17	24	22	1.95
562819--563054	117	2.0	117	89	1	357	38	13	20	27	1.90
562827--563088	117	2.2	117	84	1	355	38	13	20	27	1.90
563242--563396	43	3.5	43	74	6	159	29	29	15	25	1.96
563285--563432	46	3.3	45	67	12	133	27	29	15	27	1.96
563242--563534	89	3.3	89	84	4	340	29	30	15	25	1.96
563586--563712	46	2.8	46	90	0	200	26	23	18	31	1.97
563636--563905	128	2.1	128	82	5	323	26	27	16	30	1.97
564072--564132	3	20.3	3	100	0	122	34	0	0	65	0.93
566949--567492	59	9.2	59	89	2	772	34	18	12	33	1.89
583321--583379	26	2.4	25	75	16	68	59	0	3	37	1.14
583331--583384	27	2.0	26	86	10	74	51	0	7	40	1.30
583334--583395	27	2.3	28	81	10	67	56	1	8	33	1.38
587933--587984	25	2.1	25	82	7	61	53	0	5	40	1.25
595659--595725	28	2.5	28	83	11	79	7	13	5	73	1.24
606069--606110	22	1.9	22	90	9	68	30	16	4	47	1.67
607304--607370	21	3.2	21	68	16	57	41	2	11	43	1.57
607281--607370	42	2.1	42	87	0	126	37	3	13	45	1.60
607952--607999	2	24.0	2	100	0	96	50	0	0	50	1.00
614963--615001	19	2.1	19	85	0	51	15	5	23	56	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615183--615610	104	4.1	104	90	3	659	26	10	17	45	1.80
615182--615610	204	2.1	207	90	3	686	26	10	17	45	1.80
620203--620275	22	3.5	21	67	22	64	53	5	2	38	1.39
620191--620292	40	2.5	40	95	1	177	51	4	2	40	1.38
620708--620740	12	2.8	12	95	0	57	69	0	6	24	1.10
620994--622503	552	2.7	549	84	4	1881	40	10	9	40	1.70
622867--622933	29	2.3	30	76	7	75	46	10	4	38	1.59
625977--626007	16	1.9	16	93	0	53	29	19	3	48	1.64
628885--628958	26	3.2	26	64	28	74	20	20	12	47	1.81
628847--628990	44	3.2	44	95	1	243	20	22	11	45	1.84
630277--630387	51	2.2	52	90	1	170	27	12	27	32	1.93
631369--631445	23	3.3	23	85	0	109	36	24	11	27	1.90
631538--631605	20	3.4	19	82	8	64	58	16	5	19	1.57
633927--634048	64	1.9	66	86	3	176	22	20	24	32	1.98
636423--636500	35	2.2	35	90	0	120	35	21	16	25	1.94
640039--640100	23	2.7	23	79	0	88	27	27	27	17	1.98
643214--643279	24	2.8	24	75	6	71	12	6	37	43	1.67
643249--643353	6	17.7	6	73	2	77	8	3	43	43	1.53
643310--643350	17	2.4	17	87	0	55	0	7	46	46	1.30
643519--643725	111	1.9	111	88	4	319	32	5	27	33	1.81
643541--643767	111	2.0	110	83	8	282	34	5	26	33	1.79
644077--644165	31	2.8	32	83	11	94	42	5	4	47	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644064--644152	18	5.1	18	73	17	64	43	5	4	46	1.47
644137--644175	13	3.0	13	84	0	51	35	5	5	53	1.45
644177--644223	18	2.6	18	86	6	60	48	6	6	38	1.54
644242--644275	15	2.3	15	90	10	52	44	14	0	41	1.45
644238--644277	15	2.5	17	76	23	50	45	12	0	42	1.42
644287--644327	15	2.9	14	82	7	55	53	2	0	43	1.13
644413--644501	7	13.1	7	77	11	71	51	2	5	40	1.38
644369--644500	20	5.9	20	73	20	77	47	3	6	43	1.43
644302--644486	27	7.2	26	76	12	134	48	4	4	42	1.44
644562--644659	31	3.1	31	82	10	103	35	2	11	51	1.49
644566--644612	22	2.1	23	84	4	60	36	2	10	51	1.49
644584--644659	11	7.0	11	69	19	61	35	1	11	51	1.47
644715--644987	2	133.5	2	64	21	77	45	4	4	45	1.45
644739--644962	20	11.4	20	72	13	137	45	4	5	44	1.49
644869--644942	34	2.2	34	85	4	98	48	2	4	44	1.35
650027--650056	2	15.0	2	100	0	60	50	0	0	50	1.00
651113--651225	60	1.9	60	81	7	140	30	15	17	36	1.91
651442--651555	59	1.9	59	87	0	165	36	17	15	29	1.91
662348--662387	16	2.4	17	83	4	55	22	5	25	47	1.71
662907--662994	23	3.8	23	78	16	101	19	23	25	31	1.98
663616--663661	22	2.1	23	88	8	69	17	23	30	28	1.97
667640--667664	12	2.1	12	100	0	50	44	0	16	40	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
668363--668402	16	2.4	17	83	4	55	22	5	25	47	1.71
668945--668990	23	2.0	23	91	0	74	17	26	26	30	1.97
669657--669699	22	2.0	23	86	9	63	16	23	32	27	1.96
670732--670819	21	4.2	21	82	0	113	36	26	17	20	1.94
670722--670821	42	2.4	42	91	0	155	33	27	18	22	1.96
671227--671274	13	3.9	12	82	15	55	52	18	0	29	1.46
671229--671274	18	2.6	18	100	0	92	52	19	0	28	1.47
671227--671274	7	7.8	6	80	19	55	52	18	0	29	1.46
674765--674808	23	2.0	22	86	4	61	54	13	0	31	1.39
674754--674808	13	4.6	12	71	15	51	52	12	0	34	1.40
674827--674868	18	2.3	18	87	0	57	35	19	0	45	1.50
675109--675172	23	2.8	23	85	4	76	31	26	20	21	1.98
675098--675251	21	7.1	21	73	10	105	33	23	18	24	1.96
679383--679421	20	2.0	20	84	0	51	23	7	23	46	1.78
683357--683419	31	2.0	31	100	0	126	26	15	9	47	1.76
685484--685531	20	2.4	20	96	0	87	27	18	14	39	1.90
688269--688305	2	18.5	2	100	0	74	51	0	0	48	1.00
688638--688701	31	2.1	29	85	5	83	32	7	0	59	1.26
688649--688715	28	2.3	31	84	7	86	32	8	0	58	1.29
688662--688722	28	2.1	29	81	3	70	32	8	0	59	1.27
690266--690290	13	1.9	13	100	0	50	32	8	24	36	1.84
690554--690609	22	2.5	21	91	8	85	55	0	1	42	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
690840--690935	42	2.3	42	83	1	129	55	16	9	18	1.68
696777--696843	16	4.2	16	71	22	52	43	1	0	55	1.09
696776--696847	32	2.3	33	79	13	91	45	1	0	52	1.09
698510--698695	70	2.7	69	81	5	234	45	15	13	25	1.83
699138--699339	30	6.7	30	72	7	124	24	44	9	20	1.82
699462--699531	30	2.3	30	80	4	79	27	48	7	17	1.72
699385--699499	48	2.4	48	95	0	203	28	49	4	17	1.65
699550--699596	24	2.0	24	82	0	58	25	55	4	14	1.58
701449--701496	2	24.0	2	100	0	96	50	0	0	50	1.00
701497--701532	2	18.0	2	100	0	72	50	50	0	0	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12