genome.fa.s6710.2.7.7.80.10.50.1000.4.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: VEPZ01006710.1 Hibiscus syriacus cultivar Beakdansim tig00016725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2941931

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

This is table  4  of  11  ( 1236 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)
778459--778594	61	2.2	62	87	6	188	47	16	7	29	1.73
779640--779706	24	2.8	25	77	11	68	43	37	13	5	1.69
779692--779735	23	1.9	23	86	9	63	38	34	13	13	1.84
792694--792740	22	2.1	22	100	0	94	44	17	21	17	1.86
794194--794241	19	2.6	18	83	6	60	27	22	25	25	2.00
809490--809524	17	2.0	18	88	5	54	22	11	0	65	1.24
809761--809838	39	2.0	39	90	5	122	24	17	12	44	1.84
810652--810727	36	2.1	36	97	0	143	43	14	10	31	1.79
826781--826815	18	1.9	18	100	0	70	22	17	34	25	1.96
833352--833378	2	13.5	2	100	0	54	48	0	0	51	1.00
839631--839686	28	2.0	28	96	0	103	44	28	12	14	1.81
843640--843687	25	2.0	25	88	8	73	18	8	4	68	1.31
843641--843687	12	3.8	12	75	13	51	19	6	4	70	1.26
848626--848731	42	2.5	42	86	6	169	27	6	16	50	1.69
850255--850334	29	2.8	27	83	9	97	20	1	1	77	0.91
850238--850309	20	3.7	20	76	10	69	20	2	1	75	1.01
850240--850331	9	9.3	10	74	17	77	20	2	1	76	0.96
850127--850313	87	2.3	84	77	14	194	27	2	2	67	1.13
850165--850334	10	17.8	9	70	18	60	24	1	1	72	1.04
853473--853530	13	4.6	12	77	16	55	75	3	17	3	1.07
855541--855703	87	1.9	87	92	0	272	43	11	12	33	1.77
856563--856635	23	3.2	23	86	0	110	36	17	8	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
859804--860520	184	3.9	184	97	1	1314	33	16	13	36	1.88
863423--864208	200	3.9	200	96	0	1430	31	17	15	36	1.91
864438--864486	19	2.6	19	96	0	89	55	10	2	32	1.45
866191--866234	10	4.7	9	83	10	61	13	25	31	29	1.94
866191--866242	19	2.7	19	91	5	79	15	26	30	26	1.96
866210--866242	10	3.4	10	83	8	50	18	30	30	21	1.97
873447--873488	9	4.4	9	85	8	57	14	26	30	28	1.95
873457--873498	19	2.2	19	95	0	75	19	28	28	23	1.98
873486--873540	24	2.2	25	87	9	76	21	45	21	10	1.82
873517--873549	17	1.9	17	100	0	66	18	45	24	12	1.83
875676--875763	33	2.7	33	92	3	142	3	44	0	52	1.18
875951--876014	33	1.9	33	90	0	101	23	46	0	29	1.52
876051--876094	21	2.1	21	91	0	70	15	31	11	40	1.83
876176--876208	15	2.2	15	94	0	57	15	63	3	18	1.43
878346--878392	20	2.4	19	79	10	58	17	17	12	53	1.73
878313--878728	181	2.3	182	90	1	656	28	17	13	40	1.87
885895--885975	2	40.5	2	100	0	162	50	0	0	49	1.00
886015--886193	85	2.1	84	89	1	268	31	17	17	32	1.94
886015--886226	85	2.5	85	86	2	266	31	17	18	32	1.95
886198--886249	13	4.0	13	84	0	68	32	17	21	28	1.96
890405--890442	2	19.5	2	94	5	69	50	0	0	50	1.00
890521--890563	18	2.4	18	81	11	54	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
890800--890826	2	13.5	2	100	0	54	48	0	0	51	1.00
890943--890984	2	21.0	2	95	0	75	47	0	0	52	1.00
892395--892492	3	33.0	3	85	8	121	68	1	0	30	0.97
892942--893250	113	2.8	111	85	8	418	26	19	16	37	1.93
893283--894075	111	6.7	118	69	19	324	27	17	16	38	1.91
892688--894076	477	2.9	476	94	0	2393	27	17	16	38	1.91
893420--893709	113	2.6	111	88	4	405	27	18	15	37	1.91
893776--894076	120	2.6	117	86	7	393	26	19	15	38	1.92
894018--894117	40	2.5	40	91	3	157	21	22	11	46	1.82
894517--894569	20	2.5	22	81	12	74	35	11	13	39	1.80
894777--894930	54	2.9	55	79	11	158	27	19	14	38	1.90
895839--895978	75	1.9	75	87	0	208	33	21	14	30	1.93
899264--899398	72	1.9	72	90	3	218	35	18	20	25	1.95
901684--901760	14	5.5	14	70	11	50	58	11	14	15	1.63
901940--902026	43	2.0	44	84	2	113	34	22	12	29	1.92
903775--903803	2	15.0	2	92	7	51	48	0	0	51	1.00
903885--903927	18	2.4	18	81	11	54	65	0	0	34	0.93
905505--905545	16	2.6	16	96	0	73	26	24	31	17	1.97
905734--905874	3	47.0	3	86	8	180	65	0	0	34	0.93
905734--905874	25	5.3	26	79	13	164	65	0	0	34	0.93
906937--907010	30	2.5	30	80	4	96	22	27	16	33	1.95
914381--914415	8	4.4	8	92	0	61	34	0	65	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
914385--914419	4	8.8	4	87	0	52	31	0	68	0	0.90
914381--914423	12	3.6	12	90	0	68	34	0	65	0	0.93
914385--914419	16	2.2	16	100	0	70	31	0	68	0	0.90
914764--914895	39	3.5	37	87	7	178	45	3	5	45	1.44
914764--914899	37	3.6	38	87	9	199	45	3	5	44	1.45
914899--914941	2	21.5	2	90	0	68	51	0	2	46	1.13
914925--915011	38	2.3	37	82	7	113	48	3	4	43	1.40
914973--915037	30	2.2	31	83	5	80	43	6	7	43	1.58
916288--916329	19	2.2	20	83	8	52	16	7	0	76	1.00
924504--924573	34	2.1	34	89	5	108	22	28	15	32	1.95
928156--928185	13	2.3	13	94	0	51	50	13	3	33	1.58
931967--932026	22	2.7	23	92	7	106	21	23	21	33	1.97
935502--935634	39	3.4	39	85	2	169	31	21	27	18	1.97
936426--936457	16	2.0	16	100	0	64	25	25	37	12	1.91
936427--936461	16	2.2	16	94	0	61	25	22	37	14	1.92
936941--937001	30	2.1	29	81	3	77	36	11	8	44	1.71
937343--937389	18	2.6	18	86	0	58	34	21	23	21	1.97
937446--937473	9	3.1	9	100	0	56	25	21	21	32	1.98
944439--944521	24	3.5	23	72	6	67	49	15	13	21	1.79
955471--955591	51	2.5	47	80	12	120	41	6	19	32	1.78
956881--956925	21	2.1	21	95	0	81	35	13	17	33	1.89
957557--957587	15	2.0	16	93	6	55	35	6	12	45	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
959197--959243	21	2.2	21	92	0	76	48	27	6	17	1.71
960883--961004	51	2.4	50	84	4	154	50	7	3	39	1.47
965114--965146	2	16.5	2	100	0	66	48	0	0	51	1.00
965138--965463	118	2.8	118	88	1	456	24	11	20	42	1.85
971130--971433	119	2.6	118	84	0	383	25	13	20	41	1.88
973870--973987	19	6.0	20	78	12	120	22	34	27	15	1.94
973873--973987	39	2.9	38	83	10	135	22	34	26	15	1.94
974718--974765	20	2.5	19	80	6	60	50	6	12	31	1.65
976211--976332	20	6.1	20	83	5	147	21	39	26	13	1.90
976211--976332	61	2.0	60	91	1	199	21	39	26	13	1.90
984213--984381	57	3.0	57	89	1	241	14	20	28	35	1.93
986397--986626	57	4.0	57	86	3	266	17	19	29	33	1.95
991374--991546	57	3.0	57	83	0	184	17	16	31	35	1.92
993243--993276	2	17.0	2	100	0	68	50	0	0	50	1.00
999268--999311	12	3.4	13	81	9	54	2	13	6	77	1.07
1000214--1000460	30	8.2	30	86	5	320	62	8	12	16	1.52
1000224--1000468	89	2.7	90	86	6	336	63	7	12	16	1.50
1002402--1002687	67	4.3	65	78	7	196	40	15	18	26	1.90
1002442--1002687	67	3.6	68	80	4	230	40	15	17	26	1.89
1002804--1002868	34	1.9	34	87	6	96	38	13	18	29	1.89
1004219--1004288	2	35.0	2	100	0	140	50	0	0	50	1.00
1009112--1009518	108	3.8	107	84	5	498	33	15	18	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009112--1009518	54	7.6	54	80	6	398	33	15	18	32	1.92
1014868--1015161	54	5.4	55	83	3	330	35	14	16	33	1.90
1014868--1015161	162	1.8	162	85	2	412	35	14	16	33	1.90
1014859--1015161	108	2.8	108	85	3	385	35	15	16	33	1.90
1015522--1015557	17	2.1	18	89	5	56	8	27	0	63	1.23
1019700--1020020	176	1.8	176	83	2	430	38	20	15	25	1.92
1020735--1020799	27	2.3	29	84	5	80	49	4	7	38	1.52
1020762--1020942	52	3.7	49	76	13	167	43	3	9	43	1.55
1020823--1020919	29	3.6	29	75	16	80	44	4	8	43	1.53
1020841--1020894	23	2.4	23	84	9	67	46	3	5	44	1.44

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