genome.fa.s521.2.7.7.80.10.50.1000.4.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: VEPZ01000521.1 Hibiscus syriacus cultivar Beakdansim tig00000999_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1347562

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 591 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)
891572--891610	8	4.6	8	87	9	51	51	0	2	46	1.14
893368--893393	2	13.0	2	100	0	52	50	0	0	50	1.00
894115--894178	29	2.2	29	91	0	101	17	25	37	20	1.93
894132--894238	32	3.4	32	87	7	141	12	15	46	25	1.81
894269--894345	28	2.7	28	87	4	109	22	23	40	14	1.90
903093--903161	10	7.1	10	76	12	72	18	23	30	27	1.98
903093--903163	19	3.7	19	92	1	106	18	25	29	26	1.98
903159--903186	14	2.0	14	100	0	56	21	50	21	7	1.72
904080--904152	31	2.3	32	83	2	94	15	26	32	26	1.95
904076--904198	62	2.0	63	82	7	153	17	26	29	26	1.97
910376--910444	10	7.1	10	76	12	72	18	23	30	27	1.98
910376--910446	19	3.7	19	92	1	106	18	25	29	26	1.98
910442--910469	14	2.0	14	100	0	56	21	50	21	7	1.72
911360--911436	31	2.5	31	82	2	100	14	25	31	28	1.95
915325--915372	19	2.5	19	93	0	78	29	10	25	35	1.89
915932--915982	21	2.5	19	81	12	57	33	13	23	29	1.93
923279--923303	3	8.3	3	100	0	50	32	0	0	68	0.90
923560--923612	27	2.0	27	96	0	97	18	16	15	49	1.80
929606--929640	18	2.0	18	88	5	54	31	2	2	62	1.24
929990--930032	18	2.4	18	85	14	63	34	2	2	60	1.22
930821--930937	62	1.9	63	85	7	168	52	4	3	39	1.38
931386--931431	15	3.1	15	93	6	76	47	4	21	26	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
945917--945950	2	17.0	2	93	0	59	0	47	2	50	1.16
947065--947108	14	3.2	14	90	3	72	9	13	25	52	1.70
947574--947628	24	2.2	26	80	9	60	40	9	14	36	1.78
947584--947633	26	2.0	26	92	7	86	32	8	16	44	1.76
948222--948272	16	3.3	16	89	5	79	11	9	17	60	1.57
948714--948747	16	2.1	16	100	0	68	50	0	5	44	1.26
949817--949874	25	2.4	23	81	15	73	70	0	3	25	1.03
951415--951807	105	3.7	104	85	4	484	21	17	27	33	1.96
951807--952253	104	4.3	105	95	3	813	22	18	25	33	1.97
953063--953102	1	40.0	1	84	0	53	0	0	7	92	0.38
953056--953103	22	2.2	21	85	3	69	0	6	6	87	0.67
953063--953102	17	2.4	17	95	0	71	0	0	7	92	0.38
962482--962515	10	3.4	10	87	0	50	73	0	5	20	1.04
963737--963796	10	5.8	10	75	13	50	70	0	5	25	1.08
963737--963799	25	2.4	25	82	12	83	69	0	4	25	1.07
978765--978805	8	5.2	8	82	5	57	34	0	29	36	1.58
978876--979504	128	4.9	128	94	0	1107	23	24	19	31	1.98
979904--980003	33	3.0	34	82	2	130	39	2	4	55	1.30
980529--980597	21	3.3	21	93	4	113	20	23	37	18	1.94
980529--980615	21	4.2	20	89	5	84	21	24	35	18	1.95
980529--980609	42	1.9	42	85	5	110	23	23	34	18	1.96
980619--980666	21	2.3	21	85	0	60	22	12	39	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982387--982463	31	2.4	32	85	10	95	61	1	0	37	1.05
982388--982469	32	2.4	33	78	19	80	59	2	0	37	1.11
988596--988630	17	2.1	17	100	0	70	22	17	17	42	1.88
996492--996541	2	25.5	2	95	4	93	50	0	0	50	1.00
1001368--1001407	20	2.0	20	100	0	80	55	0	0	45	0.99
1018834--1018902	21	3.3	21	83	4	95	24	20	28	26	1.99
1023733--1023773	14	2.9	14	100	0	82	36	4	0	58	1.20
1025110--1025247	20	6.7	21	75	9	90	36	23	19	21	1.95
1025193--1025447	20	12.6	20	72	8	176	38	23	18	20	1.93
1025254--1025444	40	4.7	41	89	1	269	38	22	18	20	1.94
1025212--1025442	121	1.9	121	83	5	297	38	22	17	20	1.93
1025254--1025444	81	2.4	81	87	1	267	38	22	18	20	1.94
1026003--1026099	20	4.8	20	80	9	108	51	19	16	12	1.76
1026003--1026110	19	5.5	19	81	5	99	50	21	15	12	1.76
1026111--1026216	33	3.2	33	95	0	185	10	19	21	48	1.79
1026143--1026203	19	3.5	19	70	21	69	9	18	22	49	1.77
1026111--1026265	33	4.5	33	86	6	184	11	21	20	46	1.82
1026201--1026256	20	2.8	20	84	10	87	14	26	19	39	1.90
1027563--1027645	41	2.0	41	81	9	98	24	37	18	20	1.94
1028516--1028569	28	1.9	28	100	0	108	38	20	22	18	1.93
1028998--1029036	14	2.8	13	85	11	51	33	0	17	48	1.48
1029130--1029188	19	3.4	19	71	22	56	45	22	22	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1029132--1029209	33	2.4	33	91	0	120	46	23	21	8	1.79
1029221--1029379	19	9.4	18	69	23	82	12	21	21	44	1.85
1029216--1029399	31	5.6	31	78	16	144	11	20	20	46	1.82
1030609--1030940	172	2.0	168	96	3	612	34	22	15	27	1.95
1031703--1031732	15	2.0	15	100	0	60	40	26	13	20	1.89
1031907--1031988	27	3.3	27	64	22	79	40	7	9	42	1.66
1031904--1032001	47	2.1	47	98	0	187	40	9	9	40	1.69
1032232--1032377	60	2.5	60	85	5	172	32	26	6	34	1.83
1032260--1032377	60	2.0	59	88	5	175	33	27	6	33	1.83
1043950--1044029	29	2.8	28	77	9	90	53	6	1	38	1.34
1054235--1054456	50	4.4	50	94	0	390	37	22	13	25	1.92
1057907--1057937	2	15.5	2	93	0	53	48	0	0	51	1.00
1068719--1068789	32	2.2	32	97	0	133	42	21	8	28	1.82
1081014--1081152	44	3.2	44	64	8	120	39	15	5	38	1.72
1081007--1081176	88	1.9	88	98	0	331	38	15	5	39	1.72
1084309--1084454	23	6.4	24	75	13	123	50	0	27	21	1.53
1084333--1084418	45	1.9	45	83	4	111	51	1	24	23	1.56
1084309--1084454	68	2.1	68	81	5	170	50	0	27	21	1.53
1087853--1087878	2	13.0	2	100	0	52	50	0	0	50	1.00
1091557--1092216	217	3.0	223	88	9	1002	44	17	14	23	1.85
1093993--1094044	23	2.3	22	90	6	77	44	19	1	34	1.62
1094003--1094065	23	2.7	23	90	0	90	38	19	6	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094466--1094591	39	3.2	39	97	0	234	17	13	20	48	1.81
1094848--1094884	18	2.1	18	89	0	56	51	10	5	32	1.60
1095133--1095183	25	2.0	25	92	0	84	39	19	7	33	1.81
1095449--1095500	23	2.3	22	90	6	77	44	19	1	34	1.62
1095459--1095516	23	2.5	23	91	0	89	37	18	6	36	1.78
1095832--1095871	21	2.0	21	85	5	55	47	7	15	30	1.72
1095884--1095917	16	2.1	16	100	0	68	38	17	0	44	1.49
1095215--1096461	424	2.9	423	95	3	2248	39	12	8	39	1.74
1096293--1096344	23	2.3	22	90	6	77	44	19	1	34	1.62
1096303--1096360	23	2.5	23	91	0	89	37	18	6	36	1.78
1099465--1099506	22	1.9	22	90	9	68	42	14	11	30	1.81
1099569--1099623	21	2.5	21	85	11	67	36	16	14	32	1.89
1099465--1099695	117	2.0	118	99	0	455	35	14	13	35	1.86
1099619--1100308	181	3.8	183	95	1	1203	33	16	14	36	1.88
1099619--1100308	364	1.9	362	93	2	1204	33	16	14	36	1.88
1101483--1101556	3	25.0	3	79	2	78	25	35	5	33	1.79
1101504--1101568	30	2.2	30	88	0	94	21	35	9	33	1.85
1103017--1104390	198	6.9	199	89	8	2133	30	16	16	36	1.91
1103441--1103495	27	2.0	27	100	0	110	34	21	3	40	1.71
1103243--1103685	217	2.0	222	94	4	781	31	16	15	36	1.90
1103468--1104390	192	4.7	197	93	5	1582	29	16	17	36	1.91
1104510--1104556	19	2.6	19	90	6	71	57	10	2	29	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106424--1106466	21	2.0	21	86	0	59	13	30	16	39	1.87
1106452--1106491	21	1.9	21	94	0	71	20	22	15	42	1.88
1108694--1108736	20	2.3	18	82	17	61	18	16	11	53	1.72
1108699--1108745	20	2.3	20	89	10	78	17	17	10	55	1.69
1108866--1108909	20	2.4	17	82	17	52	15	18	11	54	1.70
1109887--1109919	16	2.0	17	88	5	50	39	6	0	54	1.25
1110410--1110440	14	2.2	14	94	0	53	32	25	19	22	1.97
1115840--1115866	5	5.4	5	100	0	54	81	0	0	18	0.69
1125017--1125334	103	3.1	103	96	0	582	27	11	24	36	1.90
1125344--1125421	23	3.3	23	81	1	93	24	20	23	32	1.98

Tables:   1   2   3   4   5