genome.fa.s9639.2.7.7.80.10.50.1000.29.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  29  of  62  ( 7398 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)
6209008--6209189	91	2.0	91	100	0	364	23	13	19	43	1.86
6209892--6210013	63	2.0	62	82	6	149	13	22	11	51	1.73
6219158--6219194	17	2.1	18	90	5	58	72	0	8	18	1.08
6220396--6220439	18	2.3	19	84	11	63	75	0	9	15	1.05
6221022--6221172	74	2.0	74	100	0	302	45	2	11	40	1.55
6222262--6222490	68	3.3	67	77	12	212	42	3	5	48	1.44
6222262--6222490	71	3.3	69	79	8	248	42	3	5	48	1.44
6222226--6222490	139	1.9	138	81	7	322	42	3	5	48	1.43
6222293--6222499	68	3.0	69	79	7	249	42	4	5	47	1.47
6228734--6228822	45	1.9	47	84	4	119	30	11	22	35	1.89
6235276--6235323	14	3.5	13	80	11	51	79	0	14	6	0.92
6236710--6236824	37	3.1	37	87	0	167	39	18	20	21	1.93
6236844--6237311	55	8.6	55	82	3	412	28	14	24	32	1.95
6240132--6240259	59	2.2	59	86	0	175	28	17	23	29	1.97
6240343--6240520	45	4.0	45	94	1	295	41	6	21	30	1.78
6240373--6240446	24	3.2	24	61	24	59	44	2	20	32	1.65
6243340--6243435	15	6.4	14	73	15	68	76	3	17	3	1.06
6243345--6243449	6	15.8	6	72	19	68	75	3	18	2	1.08
6243394--6243451	26	2.2	26	84	9	82	77	3	17	1	0.99
6243468--6243499	2	16.0	2	100	0	64	50	0	0	50	1.00
6247487--6247557	22	3.4	22	69	21	71	33	9	15	40	1.80
6247480--6247556	40	1.9	40	97	0	145	32	10	18	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6248380--6248431	21	2.5	21	81	3	61	38	19	25	17	1.93
6248420--6248520	20	5.0	20	80	7	105	32	24	17	24	1.97
6248522--6248609	33	2.5	35	77	22	103	13	22	21	42	1.88
6248574--6248628	20	2.8	19	83	8	65	16	23	23	36	1.94
6249110--6249154	18	2.5	18	88	0	72	13	15	44	26	1.83
6250470--6250507	20	1.9	20	88	0	58	50	21	15	13	1.78
6250771--6250814	22	2.0	22	90	0	70	20	15	43	20	1.88
6250988--6251117	41	3.2	41	79	6	156	23	16	25	33	1.96
6251002--6251115	20	5.7	20	82	6	122	24	18	26	30	1.98
6251002--6251137	41	3.3	41	79	3	105	22	19	25	32	1.98
6252143--6252218	31	2.5	31	76	4	82	36	13	0	50	1.42
6259003--6259101	29	3.5	27	70	13	74	39	5	3	52	1.39
6259301--6259346	23	2.0	23	91	0	74	50	2	6	41	1.40
6259360--6259525	30	5.6	29	72	12	106	56	3	5	35	1.38
6259301--6259428	27	5.1	24	72	18	91	53	1	6	38	1.35
6264773--6264825	15	3.5	15	92	0	88	9	15	64	11	1.50
6265713--6265755	16	2.7	16	82	7	52	11	11	2	74	1.17
6266636--6266667	16	2.0	16	93	0	55	53	0	0	46	1.00
6269770--6269860	19	4.6	19	70	17	60	31	4	2	61	1.28
6274638--6274678	16	2.6	16	85	11	57	75	12	12	0	1.05
6275490--6275588	22	4.5	22	89	0	144	38	25	14	22	1.91
6276396--6278087	106	16.0	105	90	1	2415	34	24	17	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6276391--6278085	318	5.3	318	92	0	2684	34	24	17	23	1.96
6278813--6278919	37	2.9	37	83	4	135	38	15	14	30	1.89
6281483--6281514	17	1.9	17	93	6	57	21	0	3	75	0.95
6289952--6289992	21	2.0	20	86	9	57	31	24	19	24	1.98
6298941--6298972	16	2.0	16	93	0	55	28	18	6	46	1.73
6301324--6301798	258	1.9	253	83	4	630	41	15	13	29	1.86
6301795--6301833	15	2.6	15	83	0	51	46	15	5	33	1.68
6321845--6321897	18	2.9	18	88	0	79	22	15	32	30	1.94
6328690--6328754	18	3.6	18	85	0	94	13	24	30	30	1.94
6332238--6332280	22	2.0	20	82	8	50	25	34	4	34	1.77
6344862--6344912	2	25.5	2	100	0	102	49	0	0	50	1.00
6357700--6357826	63	2.0	64	84	4	168	55	12	18	14	1.70
6357801--6357841	1	41.0	1	90	0	64	95	0	2	2	0.33
6358927--6359236	106	3.0	105	89	4	452	33	26	19	20	1.96
6361435--6361459	4	6.2	4	100	0	50	24	0	0	76	0.80
6364902--6364974	37	2.0	37	94	2	130	49	0	2	47	1.15
6365206--6365247	22	1.9	22	85	9	59	38	2	16	42	1.61
6366041--6366232	97	2.0	98	82	9	241	41	6	0	51	1.31
6366117--6366193	29	2.7	29	72	11	70	46	3	0	49	1.20
6366285--6366429	29	5.0	28	76	13	134	54	4	6	34	1.46
6366281--6366431	58	2.6	62	79	10	174	54	3	6	35	1.45
6368117--6368166	20	2.5	20	80	0	55	34	16	24	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6371878--6371945	35	1.9	35	90	0	109	48	22	0	29	1.51
6373736--6373793	23	2.5	23	97	0	107	50	13	18	17	1.79
6375210--6375361	20	7.7	20	72	12	91	30	23	10	36	1.88
6375230--6375357	40	3.3	39	82	7	136	29	23	10	35	1.89
6375495--6375532	15	2.4	16	91	4	60	31	5	0	63	1.17
6378586--6378621	18	2.0	18	94	0	63	55	25	2	16	1.55
6378823--6378951	20	6.4	20	77	8	111	43	20	17	18	1.88
6381018--6381115	42	2.3	42	94	0	169	16	19	36	27	1.93
6382613--6382688	20	3.8	20	82	3	100	50	18	15	15	1.79
6382612--6382698	39	2.2	39	91	0	138	48	19	14	17	1.81
6382725--6382763	20	2.0	20	89	0	60	17	12	17	51	1.76
6383314--6383401	20	4.3	20	82	2	104	28	15	21	34	1.94
6383314--6383472	41	3.9	41	76	6	117	33	13	22	31	1.92
6383611--6383640	13	2.2	14	94	5	53	83	3	0	13	0.77
6386495--6386534	15	2.6	16	80	11	57	60	5	10	25	1.49
6386510--6386617	31	3.6	29	79	13	105	60	4	13	21	1.52
6386509--6386626	30	3.9	31	79	8	118	61	5	12	21	1.51
6399258--6399309	23	2.4	21	83	6	59	19	15	30	34	1.93
6400523--6400597	23	3.2	24	75	9	75	14	22	22	40	1.91
6401960--6402095	39	3.5	39	89	0	191	22	26	15	36	1.94
6406347--6406381	14	2.4	14	95	4	61	40	40	0	20	1.52
6408298--6408331	9	3.8	9	88	0	50	76	0	5	17	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6413808--6413856	21	2.3	21	89	0	71	28	30	10	30	1.90
6413816--6413858	21	2.0	21	95	0	77	25	39	11	23	1.88
6415646--6415710	23	2.8	23	95	0	112	24	23	10	41	1.86
6415691--6416656	81	11.9	80	88	2	1346	30	19	12	37	1.89
6415691--6416656	485	2.0	485	90	1	1506	30	19	12	37	1.89
6415691--6416656	242	4.0	243	89	1	1431	30	19	12	37	1.89
6422413--6422502	23	3.9	23	92	0	144	30	25	22	22	1.99
6429369--6429430	30	2.1	30	93	0	106	35	22	17	24	1.95
6430484--6430641	64	2.5	62	83	9	183	26	20	17	34	1.95
6435637--6435696	32	1.9	32	83	6	79	51	8	6	33	1.58
6444446--6444484	21	1.9	21	89	5	62	48	10	10	30	1.70
6445434--6446044	226	2.7	225	87	2	904	39	13	15	31	1.86
6446275--6446770	199	2.5	199	82	5	583	33	13	12	40	1.83
6446737--6446781	21	2.1	21	95	0	81	20	13	22	44	1.85
6454617--6454667	21	2.4	21	86	0	75	29	13	25	31	1.94
6454785--6454857	20	3.7	20	81	0	74	28	12	13	45	1.80
6455796--6455876	2	44.5	2	71	18	61	50	2	2	44	1.28
6455798--6455876	27	3.0	27	87	7	117	50	2	2	44	1.29
6457640--6457674	17	2.0	17	88	5	52	65	0	5	28	1.15
6458115--6458210	34	2.9	34	73	14	83	42	12	4	40	1.62
6460425--6460574	32	4.6	32	82	7	178	27	10	18	44	1.82
6460410--6460574	67	2.5	66	83	5	201	26	10	18	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6460805--6460997	80	2.4	79	85	0	251	38	11	21	27	1.89
6460805--6461048	80	3.1	80	82	2	224	38	13	20	27	1.91
6462787--6462840	20	2.7	19	83	13	65	29	16	31	22	1.96
6462825--6462906	34	2.4	34	95	0	146	43	17	14	24	1.86
6462896--6462966	20	3.5	20	81	9	72	30	16	23	28	1.97
6462910--6462966	20	2.7	22	86	7	75	33	15	22	28	1.95
6463300--6463450	55	2.7	55	90	3	232	34	14	18	32	1.91
6465004--6465057	21	2.6	21	100	0	108	31	29	9	29	1.88
6467513--6467566	14	3.9	14	80	0	63	24	33	22	20	1.97
6467507--6467568	28	2.2	28	85	0	88	29	33	19	17	1.95

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