genome.fa.s8647.2.7.7.80.10.50.1000.6.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: VEPZ01008647.1 Hibiscus syriacus cultivar Beakdansim tig00111634_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1422586

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 913 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)
916570--916596	10	2.7	10	100	0	54	40	11	0	48	1.39
916950--916992	21	2.0	21	82	8	52	34	20	4	39	1.74
919900--919932	16	1.9	18	88	11	52	48	15	9	27	1.74
921380--921428	2	24.5	2	100	0	98	51	0	0	48	1.00
923371--923483	25	4.8	24	68	24	80	46	0	16	36	1.54
923427--923482	25	2.2	25	93	3	94	46	0	17	35	1.49
923427--923467	14	3.1	14	77	22	52	43	0	19	36	1.51
924047--924433	213	1.8	213	84	3	537	29	18	15	35	1.92
926524--926557	16	2.1	17	88	5	52	50	8	20	20	1.75
931426--931455	2	15.0	2	100	0	60	50	0	0	50	1.00
938022--938069	19	2.6	18	87	12	62	56	0	12	31	1.37
950738--950786	20	2.5	20	93	0	89	42	24	20	12	1.86
957579--957653	35	2.1	35	100	0	150	45	10	18	25	1.82
959064--959093	5	6.0	5	96	0	51	56	0	0	43	0.99
961071--961124	26	2.1	26	89	0	81	22	14	24	38	1.91
966659--966701	15	2.9	15	89	0	68	23	16	25	34	1.95
969043--969240	58	3.5	58	83	8	264	39	6	11	41	1.67
969044--969260	111	2.0	105	87	5	308	40	7	11	41	1.69
969357--969440	39	2.1	40	86	2	116	32	5	15	46	1.70
969317--969533	97	2.2	98	82	8	248	35	5	12	45	1.66
969465--969596	39	3.4	39	89	2	185	38	6	12	42	1.69
973002--973059	20	2.8	20	82	17	66	39	18	15	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
973165--973205	19	2.1	20	95	4	75	31	14	14	39	1.87
976117--976223	45	2.3	46	90	4	164	30	18	20	29	1.97
977089--977174	42	2.0	42	97	0	163	34	11	32	20	1.89
977852--977891	20	2.0	20	95	0	71	12	30	27	30	1.93
977859--977902	20	2.2	20	87	0	61	22	29	20	27	1.99
983769--983993	65	3.5	64	91	3	337	28	20	22	29	1.98
984634--984683	20	2.5	20	87	6	66	32	22	14	32	1.93
985426--985468	23	2.0	23	90	9	72	60	6	9	23	1.51
986129--986194	2	33.0	2	87	6	80	42	1	0	56	1.08
986149--986205	28	2.0	29	86	3	80	36	1	1	59	1.18
986880--986919	2	20.0	2	100	0	80	50	0	0	50	1.00
986974--986999	2	13.0	2	100	0	52	50	0	0	50	1.00
987329--987427	36	2.6	37	77	14	105	33	5	7	54	1.49
987840--987880	20	2.2	19	83	16	50	26	2	0	70	0.99
987968--988022	18	3.0	18	76	17	60	7	23	0	69	1.14
999349--999380	11	2.9	11	95	0	55	31	0	9	59	1.29
1002433--1002465	13	2.5	14	85	14	52	81	0	6	12	0.85
1002610--1002657	18	2.7	17	81	12	53	75	0	2	22	0.91
1003724--1003780	20	2.8	19	78	19	62	78	0	3	17	0.88
1003801--1004104	36	8.7	35	77	14	218	44	5	3	46	1.45
1003801--1004068	72	3.8	71	77	16	265	45	6	2	45	1.42
1003801--1004105	108	2.9	104	77	13	272	44	5	3	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1003974--1004109	35	3.8	36	80	10	102	44	5	5	44	1.50
1004756--1005216	252	1.8	248	90	1	733	23	19	25	31	1.98
1004756--1005247	84	5.9	84	87	1	652	24	19	24	31	1.98
1005629--1005730	43	2.4	43	83	3	125	22	13	28	35	1.92
1005926--1006047	43	2.8	43	88	4	167	20	18	28	32	1.96
1005390--1006111	317	2.3	319	85	3	957	24	18	23	32	1.97
1006701--1006762	2	31.0	2	100	0	124	50	0	0	50	1.00
1006762--1006786	2	12.5	2	100	0	50	0	0	48	52	1.00
1007276--1007527	95	2.6	95	85	5	285	30	19	18	32	1.95
1008739--1008901	65	2.5	64	81	7	179	30	19	20	29	1.97
1010004--1010047	21	2.1	21	82	0	52	36	15	38	9	1.80
1017464--1017512	19	2.7	17	84	9	53	26	20	28	24	1.99
1017484--1017643	65	2.5	64	80	6	180	29	17	21	31	1.96
1017947--1018002	29	1.9	29	85	7	78	58	12	8	19	1.60
1017992--1018030	20	2.0	20	85	14	55	48	17	10	23	1.78
1020179--1020215	13	2.6	15	83	16	60	67	0	0	32	0.91
1020284--1020332	15	3.1	16	80	11	57	79	2	8	10	1.01
1020337--1020393	24	2.3	24	82	14	64	75	1	3	19	1.04
1021529--1021682	32	4.6	33	75	14	129	46	5	2	44	1.41
1021567--1021832	38	7.3	38	72	20	162	45	6	3	45	1.46
1021530--1021769	38	6.8	35	78	14	196	46	7	2	44	1.44
1021771--1021849	38	2.1	37	81	11	90	46	5	6	41	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1021937--1022060	38	3.3	38	89	2	178	26	29	19	24	1.98
1022214--1022248	16	2.2	16	90	10	54	51	8	5	34	1.56
1031734--1031794	21	3.2	21	65	29	64	42	21	4	31	1.74
1031685--1031801	35	3.3	36	92	4	204	44	18	5	31	1.72
1031927--1032257	166	2.0	166	100	0	662	29	19	17	33	1.94
1036032--1036064	16	2.1	16	94	0	57	33	27	6	33	1.81
1036523--1036583	21	3.2	21	65	29	64	42	21	4	31	1.74
1036494--1036584	35	2.5	35	94	3	155	46	17	5	30	1.71
1037239--1037560	161	2.0	161	100	0	644	27	22	18	31	1.97
1037829--1037873	18	2.5	18	88	0	72	35	15	28	20	1.93
1038078--1038110	2	16.5	2	100	0	66	48	0	0	51	1.00
1044649--1044728	38	2.1	39	88	6	119	56	3	2	37	1.31
1044723--1044762	18	2.2	18	86	0	53	37	2	2	57	1.26
1045725--1046145	217	1.9	216	92	0	707	39	18	15	26	1.90
1046413--1046459	17	2.6	18	76	6	51	29	0	4	65	1.11
1046901--1047040	69	2.0	69	95	0	253	46	20	10	23	1.80
1048924--1048984	20	3.1	19	77	13	61	54	9	14	21	1.69
1048727--1049198	181	2.6	182	88	1	671	42	12	16	27	1.85
1049119--1049165	20	2.4	19	79	10	58	55	10	14	19	1.68
1052284--1052854	183	3.1	183	94	1	968	35	13	16	33	1.88
1055553--1056065	255	2.0	244	88	7	746	36	14	17	31	1.89
1056178--1056225	23	2.1	23	92	0	78	37	18	8	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056178--1056341	87	1.9	87	90	0	265	35	13	9	42	1.76
1056262--1056306	23	2.0	23	86	0	63	40	13	6	40	1.71
1061244--1061317	37	2.0	37	82	7	89	50	4	1	44	1.29
1061976--1062221	77	3.1	77	78	10	246	37	9	15	37	1.79
1062279--1062491	74	2.9	73	76	7	223	44	7	15	32	1.74
1062503--1062549	20	2.3	20	96	0	85	19	10	12	57	1.64
1062742--1063053	100	3.1	101	82	6	364	37	15	11	34	1.84
1063463--1063975	77	6.6	77	82	4	552	36	17	9	36	1.83
1067043--1067082	6	6.3	6	86	11	53	17	20	12	50	1.78
1070830--1070856	2	13.5	2	100	0	54	51	0	0	48	1.00
1073952--1073991	2	20.0	2	94	0	71	52	0	0	47	1.00
1074396--1074436	17	2.5	17	84	4	57	68	0	2	29	1.03
1074864--1074968	37	2.8	37	86	0	147	29	13	14	42	1.83
1075511--1076141	105	6.0	105	90	2	896	22	17	26	33	1.96
1076244--1076482	88	2.8	83	85	6	293	36	12	21	29	1.90
1076518--1076592	39	1.9	38	84	7	98	38	13	22	25	1.90
1076394--1076615	105	2.1	104	94	0	390	37	11	20	30	1.88
1076316--1076670	195	1.9	187	87	5	523	36	12	21	29	1.91
1076731--1076844	36	3.2	36	73	2	113	43	14	16	25	1.85
1076686--1076860	72	2.4	74	84	8	216	41	13	18	26	1.87
1078001--1078537	183	2.9	183	94	0	914	30	21	20	27	1.98
1082526--1082559	13	2.5	13	90	4	50	76	0	2	20	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1082619--1082654	2	18.0	2	94	0	63	52	0	0	47	1.00
1082845--1082903	15	4.0	15	71	16	52	71	0	3	25	1.02
1083555--1083659	37	2.8	37	85	0	138	29	14	14	41	1.85
1085733--1085769	17	2.1	19	85	10	51	43	2	0	54	1.14
1088012--1088127	20	5.7	20	74	18	89	31	28	12	27	1.92
1087987--1088117	60	2.2	61	82	10	162	32	28	12	27	1.92
1088050--1088218	20	8.4	20	73	7	101	31	24	11	31	1.91
1088375--1088411	16	2.4	16	86	8	51	29	5	0	64	1.15
1089003--1089036	12	2.8	12	95	0	59	55	26	0	17	1.42
1089157--1089227	24	3.0	24	87	0	97	28	19	16	35	1.94

Tables:   1   2   3   4   5   6   7   8