genome.fa.s9585.2.7.7.80.10.50.1000.5.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   

This is table  5  of  35  ( 4106 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)
948989--949050	29	2.1	30	84	3	81	38	4	19	37	1.73
948997--949077	30	2.7	29	75	5	72	43	3	16	37	1.65
950281--950325	20	2.2	20	92	0	72	33	11	24	31	1.90
952569--952622	20	2.7	20	81	16	67	25	37	7	29	1.83
957181--957268	40	2.2	40	81	4	97	32	17	13	36	1.89
957899--958020	60	2.0	60	84	6	158	34	16	13	35	1.88
961289--961437	7	21.4	7	73	4	95	22	2	33	40	1.68
961289--961401	42	2.7	41	82	9	156	23	3	31	41	1.71
961289--961437	42	3.6	42	80	9	153	22	2	33	40	1.68
963799--963853	29	1.9	28	85	3	74	32	0	5	61	1.19
968249--968366	40	3.0	40	96	0	209	44	9	27	19	1.81
969287--969399	36	3.0	37	68	16	115	38	8	11	41	1.73
969287--969437	75	2.0	75	97	0	284	38	8	11	41	1.72
970781--970859	23	3.4	23	65	22	65	43	15	12	29	1.83
970779--970869	47	1.9	47	97	0	173	42	14	13	29	1.83
973197--973230	12	2.8	12	90	4	50	41	2	2	52	1.31
973691--973732	22	1.9	22	85	0	57	30	9	21	38	1.85
983083--983310	98	2.3	98	90	1	359	35	18	9	35	1.84
985383--985428	22	2.2	22	88	7	69	56	2	2	39	1.24
986687--986775	3	29.7	3	90	0	142	65	1	2	31	1.12
987082--987495	114	3.6	114	95	0	731	29	19	13	38	1.89
988175--989216	83	12.6	83	96	0	1834	38	22	12	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
990368--990437	8	8.4	8	84	9	86	0	17	0	82	0.66
990369--990443	19	3.8	19	86	6	105	0	17	0	82	0.67
990367--990444	21	3.8	20	78	17	88	0	19	0	80	0.71
1001112--1001153	19	2.2	19	87	8	59	54	2	2	40	1.26
1002206--1002300	3	31.7	3	91	0	154	65	1	2	31	1.11
1005205--1005284	31	2.6	31	80	2	90	37	1	15	46	1.53
1011739--1011777	13	2.8	14	84	11	53	51	0	0	48	1.00
1013564--1013599	18	1.9	19	94	5	65	38	0	2	58	1.13
1013607--1013642	17	2.1	17	94	0	63	19	0	38	41	1.52
1013802--1013883	30	2.7	30	90	0	119	40	1	13	45	1.51
1013831--1013880	15	3.3	15	72	10	57	44	0	12	44	1.41
1013938--1013971	15	2.2	16	94	5	61	38	0	5	55	1.24
1016200--1016241	17	2.5	17	80	0	57	57	2	0	40	1.12
1016369--1016676	14	22.3	14	70	17	173	46	9	2	41	1.49
1016487--1016717	72	3.2	71	85	6	304	48	11	1	38	1.50
1016599--1016730	8	15.9	8	68	20	58	50	11	0	37	1.44
1016645--1016684	12	3.1	14	75	17	50	50	10	0	40	1.36
1016651--1016737	35	2.5	35	92	3	142	52	11	0	35	1.38
1016783--1016871	14	6.4	14	75	11	76	46	11	1	41	1.47
1016783--1016855	29	2.7	26	83	8	83	43	12	1	42	1.50
1016808--1016934	8	15.4	8	67	21	50	50	11	0	37	1.43
1016788--1016915	35	3.3	40	77	17	146	48	12	0	38	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1016863--1016925	19	3.5	19	73	20	71	49	15	0	34	1.45
1016849--1016935	35	2.5	35	94	3	151	52	12	0	34	1.39
1016969--1017002	14	2.4	14	90	0	50	41	20	0	38	1.53
1016968--1017090	49	2.5	49	95	1	219	43	13	0	43	1.43
1017174--1017210	19	1.9	19	94	0	65	32	29	16	21	1.95
1017245--1017304	21	3.0	20	85	4	93	30	16	20	33	1.94
1017255--1017357	21	5.0	21	76	8	86	37	17	16	28	1.91
1017236--1017329	41	2.3	41	84	0	125	31	19	19	29	1.96
1017924--1017993	20	3.5	20	84	0	77	14	17	21	47	1.82
1017945--1018000	20	2.8	20	86	0	76	10	14	19	55	1.68
1017945--1018007	20	3.2	20	83	0	54	12	14	19	53	1.72
1019167--1019199	16	2.1	16	100	0	66	39	12	12	36	1.80
1019827--1019895	20	3.5	20	91	0	111	34	26	21	17	1.95
1019929--1019971	18	2.3	19	88	4	61	16	16	23	44	1.86
1019976--1020064	20	4.4	20	84	5	108	17	19	24	38	1.93
1019977--1020064	40	2.2	40	91	0	140	18	18	25	38	1.92
1020515--1020616	21	4.9	21	71	4	80	21	35	18	24	1.96
1020515--1020637	42	2.9	42	79	0	129	21	36	17	25	1.94
1022184--1022501	20	16.9	20	75	11	226	26	21	20	31	1.98
1022267--1022419	54	2.9	54	84	1	182	24	21	20	33	1.97
1022337--1022472	34	3.9	34	80	13	132	24	19	21	34	1.96
1022321--1022512	74	2.6	73	88	2	269	26	19	20	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1022391--1022492	53	1.9	54	93	2	179	21	19	24	34	1.96
1022447--1022513	20	3.4	19	87	6	82	28	17	19	34	1.95
1022491--1022773	140	2.0	140	94	0	494	44	14	12	28	1.81
1024907--1024957	3	17.0	3	87	0	75	3	29	1	64	1.22
1025148--1025199	24	2.2	24	85	0	68	36	21	17	25	1.94
1026006--1026145	20	6.9	20	79	9	158	26	17	26	29	1.98
1026006--1026196	41	4.7	41	83	4	201	27	18	24	29	1.98
1026209--1026254	19	2.4	19	85	3	56	23	15	30	30	1.95
1026220--1026256	19	1.9	19	94	0	65	21	16	29	32	1.95
1026373--1026406	14	2.4	14	95	0	59	41	11	0	47	1.40
1026340--1026591	49	5.1	49	96	0	450	46	10	0	43	1.38
1026499--1026575	22	3.3	22	65	28	59	45	10	0	44	1.38
1030126--1030196	19	3.7	19	76	16	58	73	4	5	16	1.19
1030379--1030424	16	3.1	15	87	12	60	73	0	6	19	1.04
1030399--1030661	43	6.0	43	68	19	127	63	1	3	31	1.19
1030560--1030584	12	2.1	12	100	0	50	60	0	0	40	0.97
1030558--1030660	14	7.8	13	68	29	51	66	0	1	32	1.03
1030566--1030661	21	4.7	21	70	20	78	66	0	2	31	1.03
1030564--1030654	12	7.5	11	71	24	51	68	0	2	29	1.02
1032064--1032319	109	2.4	105	81	6	307	23	19	23	34	1.96
1033061--1033220	65	2.4	65	84	3	194	39	8	21	31	1.82
1033169--1033475	36	8.9	36	71	15	200	39	13	18	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1033181--1033272	37	2.5	36	87	1	121	42	16	20	20	1.89
1033115--1033373	138	1.9	138	86	0	374	41	12	18	27	1.86
1033203--1033481	101	2.8	101	86	2	362	40	12	17	29	1.87
1033410--1033481	37	1.9	37	88	0	108	38	13	20	26	1.90
1034061--1034086	11	2.4	11	100	0	52	53	0	15	30	1.42
1034813--1034950	69	2.0	69	92	0	231	25	13	22	39	1.90
1035022--1035071	13	3.8	14	80	17	54	6	16	4	74	1.17
1035022--1035073	26	2.0	26	85	7	70	5	15	3	75	1.14
1038225--1038359	45	3.0	43	74	21	109	68	1	4	25	1.16
1038266--1038350	39	2.3	35	86	10	98	69	2	3	24	1.16
1038387--1038437	27	2.0	27	84	7	70	56	1	3	37	1.29
1039366--1039392	14	1.9	14	100	0	54	74	14	3	7	1.18
1039363--1039395	17	1.9	17	88	11	50	72	15	3	9	1.21
1039773--1039835	28	2.2	30	91	5	103	57	11	0	31	1.34
1039777--1039842	28	2.4	28	85	10	98	56	10	0	33	1.34
1039812--1039860	21	2.3	21	85	3	71	53	16	0	30	1.43
1040206--1040298	44	2.1	44	93	0	159	29	22	25	22	1.99
1041132--1041205	33	2.2	33	97	0	139	25	4	43	27	1.72
1046120--1046165	14	3.1	15	78	9	58	65	0	4	30	1.12
1048311--1048380	18	3.9	18	88	0	104	27	31	21	20	1.98
1049201--1049238	20	1.9	20	100	0	76	23	23	21	31	1.98
1052777--1052882	18	5.9	18	88	2	142	29	32	19	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1053160--1053220	15	3.8	16	75	16	54	36	18	0	45	1.49
1053703--1053740	20	1.9	20	100	0	76	23	23	21	31	1.98
1065201--1065252	16	3.2	16	74	15	54	50	7	0	42	1.31
1071154--1071262	58	1.9	57	92	5	184	30	14	21	33	1.93
1071322--1071402	20	4.1	20	95	0	135	39	16	16	28	1.89
1071694--1071722	2	14.5	2	100	0	58	51	0	0	48	1.00
1071922--1071975	2	27.5	2	96	3	101	50	0	0	50	1.00
1072278--1072339	3	20.3	3	86	3	70	37	0	0	62	0.95
1073952--1074010	2	29.5	2	100	0	118	49	0	0	50	1.00
1074070--1074140	26	2.7	27	78	12	76	32	0	1	66	1.01

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35