genome.fa.s8591.2.7.7.80.10.50.1000.5.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: VEPZ01008591.1 Hibiscus syriacus cultivar Beakdansim tig00111540_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1730314

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 896 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)
879179--879237	29	2.0	29	100	0	118	49	13	13	23	1.78
883856--883914	29	2.0	29	96	0	109	50	13	11	23	1.74
884937--884980	18	2.3	19	84	11	54	38	0	0	61	0.96
885877--886306	215	2.0	214	99	0	851	21	29	22	26	1.99
892670--892699	9	3.2	9	90	9	51	30	0	0	70	0.88
893821--893860	20	2.0	20	85	9	55	40	5	5	50	1.46
895825--895915	31	2.9	31	88	0	137	25	18	24	31	1.97
896101--896144	5	8.8	5	94	0	52	38	9	20	31	1.84
896105--896143	15	2.6	15	87	0	60	41	10	20	28	1.85
898916--898988	3	24.7	3	86	8	87	41	0	0	58	0.98
898916--898985	30	2.3	30	87	4	106	41	0	0	58	0.98
902256--902317	32	1.9	32	86	0	88	16	12	9	61	1.56
902823--902855	12	2.5	13	90	9	50	18	18	15	48	1.81
906067--906389	101	3.2	103	84	4	413	28	16	12	43	1.83
906046--906389	103	3.4	103	82	6	441	29	15	11	43	1.82
906903--907010	28	3.9	28	83	0	108	24	15	13	46	1.82
907018--907667	131	4.9	132	83	6	728	25	31	19	24	1.98
907562--907663	40	2.5	40	79	7	107	23	31	17	27	1.97
907829--907901	3	24.7	3	86	8	87	41	0	0	58	0.98
907829--907901	27	2.6	28	91	6	112	41	0	0	58	0.98
913734--913779	2	23.0	2	100	0	92	50	0	0	50	1.00
913928--913953	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
914386--914487	34	3.0	34	97	0	186	6	17	29	46	1.74
920114--920311	66	3.0	66	95	1	353	32	29	16	21	1.95
924181--924228	24	2.0	24	87	0	69	52	10	6	31	1.60
924885--925950	228	4.7	225	86	2	1217	22	26	22	28	1.99
924897--925950	227	4.6	227	87	1	1254	22	25	22	28	1.99
926856--926976	60	2.0	59	85	1	161	33	16	7	42	1.76
932307--932778	234	2.0	237	97	2	898	41	19	14	24	1.89
933496--933535	21	1.9	21	89	0	62	40	7	0	52	1.30
933779--933813	17	2.1	17	88	0	52	48	0	5	45	1.26
935145--935300	77	2.0	75	93	6	269	33	15	17	33	1.91
938373--938588	29	7.7	29	78	14	177	24	13	47	14	1.80
938373--938450	24	3.0	24	85	9	93	25	12	48	12	1.77
938373--938479	53	2.0	53	89	7	164	26	14	47	12	1.78
938346--938492	53	2.7	53	79	11	156	26	14	46	12	1.79
938405--938492	24	3.5	24	78	14	95	23	12	50	13	1.76
940484--940570	30	2.9	30	92	0	138	21	13	48	16	1.80
943985--944038	22	2.4	21	76	11	54	70	5	5	18	1.27
944004--944038	18	1.9	18	88	11	54	71	5	0	22	1.07
945893--945931	3	13.3	3	84	15	55	69	0	0	30	0.89
946116--946819	135	5.2	135	93	1	1227	25	17	30	26	1.97
946116--946819	267	2.6	269	94	2	1234	25	17	30	26	1.97
946912--947005	36	2.6	36	83	5	102	39	12	17	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
947195--947264	26	2.6	26	77	6	77	47	11	12	28	1.77
947225--947396	66	2.6	66	81	7	215	43	12	13	30	1.82
947346--947411	29	2.4	28	89	5	98	43	15	9	31	1.77
947346--947413	28	2.4	29	90	4	104	42	14	8	33	1.77
947429--947512	29	2.9	29	87	10	127	46	15	9	28	1.77
947428--947524	28	3.5	28	82	16	121	47	14	9	28	1.75
948359--948395	16	2.3	16	95	0	65	21	0	27	51	1.48
949559--949606	11	4.1	11	80	15	51	4	14	4	77	1.08
950883--950929	14	3.4	14	75	21	53	51	12	19	17	1.77
960703--960747	24	1.9	24	86	4	65	53	15	20	11	1.72
965060--965760	352	2.0	351	99	0	1384	41	13	15	29	1.85
967646--967749	33	3.2	32	87	6	147	45	17	6	30	1.74
967744--967785	21	2.0	21	95	0	75	47	7	14	30	1.71
969662--969878	109	2.0	109	91	3	357	35	12	7	43	1.72
970310--970348	14	2.8	14	81	14	53	12	7	15	64	1.49
970456--970493	10	3.8	10	89	0	58	13	5	15	65	1.43
970456--970494	20	2.0	20	94	0	69	12	5	15	66	1.41
970658--970747	24	3.8	24	73	8	76	13	14	14	57	1.65
971960--972000	21	2.0	20	95	4	73	68	0	7	24	1.15
971964--972006	21	2.0	21	86	8	61	67	2	9	20	1.30
972345--972422	22	3.7	21	74	15	72	34	3	29	32	1.76
972342--972422	19	3.9	19	75	17	72	33	3	29	33	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
977038--977220	91	2.0	91	100	0	366	39	20	13	26	1.89
980121--980168	20	2.4	20	100	0	96	33	25	25	16	1.96
980121--980175	20	2.8	20	91	0	65	36	25	21	16	1.94
985341--985381	18	2.3	18	100	0	82	29	9	36	24	1.87
985417--985932	258	2.0	256	95	1	935	35	23	10	30	1.89
986239--986295	21	2.7	21	86	0	78	28	21	12	38	1.89
986238--986316	41	1.9	42	84	7	108	27	20	13	37	1.91
986363--986415	20	2.7	20	81	0	61	33	22	9	33	1.86
994719--994757	16	2.4	16	87	8	53	43	0	0	56	0.99
994828--994872	19	2.4	19	96	0	81	44	0	0	55	0.99
1000342--1000437	2	54.5	2	71	24	56	57	0	0	42	0.98
1000342--1000433	44	2.1	44	97	0	175	57	0	0	42	0.98
1001284--1001308	13	1.9	13	100	0	50	28	0	16	56	1.41
1006884--1007067	91	2.0	93	97	2	354	41	19	16	21	1.90
1010202--1010248	13	3.5	13	85	8	51	65	2	0	31	1.04
1011473--1011543	3	24.3	3	86	11	87	69	0	0	30	0.89
1011473--1011543	31	2.3	30	88	9	108	69	0	0	30	0.89
1011473--1011542	19	3.8	19	85	10	92	70	0	0	30	0.88
1011477--1011543	28	2.4	27	90	7	100	70	0	0	29	0.88
1011572--1011638	32	2.1	33	97	2	127	10	31	14	43	1.80
1012387--1012510	22	5.6	22	88	0	185	36	12	17	33	1.88
1013831--1014085	75	3.4	75	81	7	302	28	18	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1013854--1014082	76	3.0	73	83	5	262	30	16	17	36	1.92
1014658--1014872	43	5.0	43	94	0	376	32	8	32	26	1.87
1016613--1016638	7	3.7	7	100	0	52	0	23	0	76	0.78
1018553--1018594	13	3.2	13	77	16	50	61	4	11	21	1.48
1020653--1020683	2	15.5	2	100	0	62	51	0	0	48	1.00
1020823--1020873	11	4.5	11	81	13	59	70	0	0	29	0.87
1020823--1020888	34	1.9	34	84	6	89	68	1	1	28	1.08
1022155--1022217	3	21.0	3	93	0	108	66	0	0	33	0.92
1026862--1026918	2	28.5	2	100	0	114	50	0	0	49	1.00
1027512--1027575	21	3.3	21	62	20	57	26	10	21	40	1.86
1027504--1027575	37	1.9	37	94	0	126	26	9	22	41	1.84
1029800--1029848	19	2.7	17	84	9	53	26	20	28	24	1.99
1029819--1029924	45	2.3	45	87	4	142	29	20	20	29	1.98
1039570--1039674	45	2.3	45	100	0	210	27	16	21	34	1.95
1043122--1043185	21	3.3	21	62	20	57	28	10	20	40	1.86
1046186--1046220	18	1.9	18	88	0	52	31	0	0	68	0.90
1046548--1046585	20	1.9	20	89	10	60	44	0	0	55	0.99
1046543--1046589	20	2.5	18	78	18	51	44	2	0	53	1.12
1046713--1046769	21	2.8	21	89	2	80	42	1	0	56	1.10
1052254--1052725	117	4.1	116	80	6	449	13	21	14	50	1.77
1052301--1052696	171	2.3	174	86	2	548	13	22	14	49	1.78
1052793--1053052	57	4.5	57	80	4	304	11	23	16	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052798--1053052	117	2.2	117	85	0	348	11	23	16	48	1.79
1052474--1053123	327	2.0	327	92	0	1095	14	23	16	45	1.84
1053576--1053659	33	2.5	34	80	3	100	21	30	14	33	1.93
1060703--1060756	24	2.2	23	78	12	54	40	11	9	38	1.73
1066934--1067279	114	3.0	113	81	0	413	23	13	32	29	1.94
1068220--1068453	114	2.1	114	94	1	407	30	18	19	31	1.95
1070440--1070467	6	4.7	6	100	0	56	35	17	17	28	1.93
1078125--1078216	40	2.3	40	83	5	116	22	13	15	48	1.79
1078512--1078571	29	2.0	31	90	6	97	41	16	6	35	1.75
1081723--1081764	21	2.0	21	95	0	75	26	28	21	23	1.99

Tables:   1   2   3   4   5   6   7   8