genome.fa.s8620.2.7.7.80.10.50.1000.63.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   

This is table  63  of  64  ( 7674 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)
12760493--12760540	24	2.0	24	88	8	71	14	25	18	41	1.88
12762035--12762108	24	3.1	24	88	0	94	18	14	29	36	1.91
12765773--12765807	14	2.4	14	90	9	52	71	0	5	22	1.07
12766967--12767019	14	3.5	15	77	12	56	71	0	0	28	0.86
12766968--12767009	18	2.2	20	87	8	61	71	0	0	28	0.86
12766976--12767033	21	2.9	20	82	12	66	67	1	0	31	1.01
12766979--12767033	27	2.1	25	86	10	74	67	1	0	30	1.01
12767035--12767064	14	2.1	14	93	0	51	43	13	0	43	1.43
12767015--12767118	38	2.8	37	77	11	115	47	10	2	39	1.53
12775279--12775395	61	1.9	61	98	0	225	43	13	17	24	1.86
12777138--12777172	18	1.9	18	88	0	52	65	8	2	22	1.34
12777460--12777502	3	15.0	3	90	9	72	69	0	30	0	0.88
12777444--12777499	14	4.1	14	90	2	87	69	0	28	1	0.98
12778116--12778164	2	25.0	2	95	4	91	51	0	0	48	1.00
12780272--12780300	3	9.7	3	100	0	58	34	0	0	65	0.93
12781766--12781908	68	2.2	64	92	5	232	31	4	11	52	1.58
12793520--12793602	24	3.6	24	78	10	68	74	1	16	7	1.10
12793520--12793593	8	9.6	8	71	19	59	75	1	14	8	1.09
12793542--12793602	13	4.8	13	75	15	56	75	0	16	8	1.03
12796068--12796109	2	21.0	2	100	0	84	50	0	0	50	1.00
12796455--12796591	68	2.0	68	95	0	247	35	4	10	50	1.56
12797218--12797337	61	2.0	59	88	3	177	23	27	11	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12801070--12801187	43	2.8	42	67	12	105	29	23	19	27	1.98
12801070--12801236	85	2.0	85	85	4	230	32	23	17	25	1.96
12802255--12802314	15	3.2	21	62	37	55	30	3	21	45	1.68
12802247--12802365	35	3.3	36	84	5	161	31	4	19	45	1.69
12802772--12802805	16	2.1	17	94	5	61	32	0	23	44	1.54
12806836--12806936	35	2.8	36	88	5	152	28	5	21	43	1.76
12810598--12810658	23	2.7	23	89	0	95	29	27	24	18	1.98
12815910--12815955	23	2.0	23	86	0	65	34	26	21	17	1.95
12818972--12819006	17	2.0	18	88	5	54	51	17	8	22	1.72
12819480--12819577	2	49.5	2	97	2	189	48	0	0	51	1.00
12820028--12820066	20	2.0	21	90	10	64	28	2	0	69	1.02
12820654--12821074	227	1.9	227	82	4	544	32	15	12	39	1.85
12825458--12828576	4	791.2	4	96	2	5889	24	0	25	49	1.51
12829006--12829114	56	1.9	57	90	1	175	42	6	21	30	1.78
12829892--12829936	13	3.1	15	87	9	58	31	13	4	51	1.61
12832035--12832073	19	2.1	18	85	4	51	46	5	12	35	1.65
12835086--12835130	17	2.7	17	82	3	56	35	17	17	28	1.93
12837770--12837823	3	18.3	3	92	3	92	35	1	0	62	1.06
12839534--12839574	15	2.7	15	92	0	64	26	21	21	29	1.99
12842814--12842883	31	2.3	31	87	0	95	45	12	20	21	1.84
12844918--12844993	23	3.3	23	92	1	118	30	15	19	34	1.93
12845881--12845942	28	2.2	29	82	8	74	30	3	16	50	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12845933--12845990	30	1.9	31	85	3	82	34	3	12	50	1.57
12851095--12851207	59	1.9	60	85	1	156	38	13	10	37	1.79
12851094--12851218	60	2.1	59	82	4	153	37	15	11	36	1.83
12852965--12853174	10	20.7	10	84	4	206	50	11	0	38	1.40
12852965--12853171	22	9.5	22	85	3	220	50	11	0	38	1.39
12852965--12853173	6	35.0	6	82	0	195	50	11	0	38	1.39
12856923--12856961	2	19.5	2	89	0	60	0	56	0	43	0.99
12856911--12857342	212	2.0	219	96	3	806	28	34	9	28	1.88
12861343--12861374	16	2.0	16	93	0	55	40	6	0	53	1.26
12861626--12861664	21	1.9	21	89	5	62	25	12	10	51	1.71
12865231--12865448	123	1.8	122	83	9	297	41	4	5	49	1.44
12866610--12866738	64	2.0	64	100	0	258	23	28	15	32	1.95
12873685--12873733	18	2.7	18	74	0	53	14	12	30	42	1.82
12876039--12876340	144	2.1	144	93	0	514	35	12	17	35	1.87
12876811--12876860	21	2.5	20	80	9	57	28	12	28	32	1.92
12877528--12877608	15	5.5	15	71	2	65	33	6	20	39	1.78
12877707--12877786	23	3.4	24	89	3	119	18	22	25	33	1.97
12885099--12885180	23	3.6	23	94	0	137	19	28	24	28	1.99
12890570--12890652	23	3.6	23	83	0	112	20	26	24	28	1.99
12896565--12896616	23	2.3	23	83	9	63	28	11	25	34	1.91
12897392--12897513	23	5.7	21	75	18	103	22	32	20	23	1.98
12897392--12897513	20	5.8	20	75	18	95	22	32	20	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12897392--12897513	43	2.8	43	93	1	208	22	32	20	23	1.98
12899112--12899149	18	2.2	17	90	4	58	55	5	31	7	1.51
12899480--12899520	19	2.1	20	86	4	57	51	17	2	29	1.58
12900722--12900761	21	1.9	21	89	0	62	30	10	10	50	1.69
12900975--12901034	23	2.8	21	85	10	68	21	38	20	20	1.94
12907021--12907063	18	2.4	18	100	0	86	32	20	6	39	1.80
12907590--12907629	21	1.9	21	89	0	62	30	10	10	50	1.69
12909422--12909457	17	2.1	17	89	5	54	52	5	30	11	1.59
12909786--12909829	20	2.3	19	84	11	54	54	13	0	31	1.39
12911032--12911071	21	1.9	21	84	0	53	32	10	10	47	1.70
12911294--12911349	21	2.7	21	94	0	103	21	37	19	21	1.94
12911785--12911854	34	2.1	32	86	5	95	31	15	30	22	1.95
12914407--12914450	14	3.0	14	83	6	52	43	6	13	36	1.71
12914653--12914702	15	3.4	14	78	8	55	32	8	22	38	1.83
12914808--12914876	24	2.9	24	89	2	104	23	26	23	27	2.00
12915681--12915713	13	2.4	14	85	10	50	57	6	0	36	1.23
12923393--12923441	24	2.0	24	84	4	62	32	0	6	61	1.21
12923912--12924066	64	2.4	64	83	4	179	27	20	19	32	1.97
12929223--12929286	24	2.9	21	78	13	74	25	20	23	31	1.98
12932223--12932336	56	2.0	56	98	0	219	37	20	10	31	1.86
12939639--12939686	22	2.2	22	82	10	55	20	4	4	70	1.21
12942076--12942169	39	2.4	39	87	0	134	18	27	23	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12947880--12948108	112	2.1	111	87	0	323	36	16	17	30	1.92
12957239--12957365	39	3.3	39	83	2	175	15	26	24	33	1.95
12962933--12962994	18	3.4	18	86	0	88	11	16	27	45	1.81
12963955--12963990	14	2.5	14	86	4	54	47	0	0	52	1.00
12964405--12964456	26	2.0	26	88	0	77	42	1	3	51	1.31
12968202--12968486	158	1.8	157	79	6	333	24	20	4	49	1.69
12968932--12969000	20	3.4	20	72	4	66	36	26	14	23	1.93
12969839--12969884	24	1.9	24	95	0	83	21	23	21	32	1.98
12969838--12969891	24	2.2	24	86	0	81	20	20	20	38	1.93
12972264--12972373	20	5.5	20	92	0	184	30	22	20	26	1.98
12972445--12972502	20	2.9	20	86	0	80	17	17	22	43	1.88
12972265--12972476	53	3.8	52	76	10	158	32	22	19	25	1.98
12972606--12972658	27	1.9	28	84	3	72	49	18	0	32	1.48
12972622--12972658	14	2.6	14	95	0	65	51	18	0	29	1.47
12972557--12972729	85	2.1	79	81	14	190	49	16	1	31	1.56
12974033--12974155	42	2.9	42	78	2	122	25	17	34	22	1.95
12974033--12974124	21	4.4	21	73	6	71	21	17	36	23	1.94
12974631--12974668	20	1.9	20	100	0	76	50	23	10	15	1.75
12974661--12974708	20	2.4	20	86	6	62	35	27	16	20	1.94
12974772--12974809	20	1.9	20	94	0	67	13	21	18	47	1.82
12974776--12974871	33	2.9	34	80	3	113	14	20	20	43	1.87
12974843--12974891	20	2.5	20	93	0	80	16	22	24	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12976786--12976824	20	2.0	20	100	0	78	58	20	10	10	1.59
12976789--12976857	20	3.5	20	81	0	75	46	24	13	15	1.82
12977287--12977329	22	2.0	22	86	8	63	23	18	41	16	1.89
12977537--12977583	21	2.2	21	80	0	58	34	19	21	25	1.96
12978676--12978736	32	1.9	32	86	6	88	40	0	13	45	1.43
12980685--12980738	24	2.2	24	90	6	83	31	18	24	25	1.97
12981388--12981457	34	2.1	32	86	5	95	22	30	15	31	1.95
12981814--12981886	20	3.7	20	88	0	101	30	21	30	17	1.97
12981926--12981967	21	2.0	21	95	0	75	23	26	26	23	2.00
12981935--12981998	21	3.0	21	84	4	67	21	23	31	23	1.99

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   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64