genome.fa.s7984.2.7.7.80.10.50.1000.64.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   
          65   

This is table  64  of  65  ( 7696 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)
12599934--12599979	23	2.0	23	91	0	74	21	23	26	28	1.99
12599664--12599967	143	2.1	141	93	3	387	26	16	22	34	1.95
12603729--12603817	43	2.0	45	95	4	164	32	7	25	33	1.85
12606612--12606902	143	2.0	144	92	5	495	27	15	20	36	1.93
12606882--12606924	22	1.9	23	85	4	61	23	25	25	25	2.00
12611227--12611307	29	2.7	30	77	11	87	45	4	14	34	1.67
12615962--12616047	35	2.5	35	84	0	100	40	20	1	37	1.61
12616016--12616058	21	2.0	21	100	0	86	46	13	0	39	1.44
12616180--12616216	15	2.4	16	86	13	51	32	2	5	59	1.34
12616703--12616748	22	2.1	22	84	4	58	36	19	10	32	1.87
12616676--12616919	128	1.9	128	91	1	400	36	13	14	35	1.85
12626789--12626901	60	1.9	60	87	3	165	11	23	30	34	1.90
12626791--12626927	60	2.3	60	83	2	159	11	24	30	33	1.91
12627957--12627994	19	2.0	20	84	5	51	55	2	0	42	1.14
12628036--12628074	14	2.8	14	81	14	53	46	20	0	33	1.51
12629956--12629993	16	2.4	16	90	0	58	15	2	23	57	1.51
12629980--12630040	31	2.0	31	83	0	77	22	9	19	47	1.79
12630896--12630920	10	2.5	10	100	0	50	8	0	0	92	0.40
12634065--12634168	31	3.4	31	67	12	81	48	7	16	27	1.73
12645370--12645415	23	2.0	23	87	8	67	21	13	8	56	1.63
12647981--12648005	2	12.5	2	100	0	50	52	0	0	48	1.00
12648563--12648602	19	2.2	19	86	13	57	45	0	15	40	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12652000--12652103	31	3.4	31	75	5	86	28	30	25	14	1.95
12663256--12663288	17	1.9	17	93	0	57	27	0	0	72	0.85
12663256--12663294	17	2.5	15	87	8	51	33	0	0	66	0.92
12664466--12664505	17	2.4	17	95	0	71	10	7	5	77	1.11
12664465--12664523	17	3.2	19	81	13	61	8	8	6	76	1.16
12664642--12664670	13	2.1	14	93	6	51	65	0	0	34	0.93
12669370--12669570	112	1.8	109	88	5	305	50	5	1	42	1.37
12669423--12669775	54	6.4	56	76	12	290	48	4	1	44	1.34
12670711--12670750	19	2.0	20	85	4	55	55	0	5	40	1.22
12680831--12680988	21	7.8	20	72	7	86	38	25	17	18	1.92
12680955--12681148	20	9.6	20	80	5	212	35	25	20	19	1.95
12680955--12681148	60	3.2	60	82	0	244	35	25	20	19	1.95
12681531--12681601	33	2.2	33	92	0	115	11	22	18	47	1.80
12681680--12681757	41	1.9	41	97	0	147	44	16	25	12	1.83
12681681--12681756	21	3.7	21	83	3	109	46	17	25	11	1.82
12681741--12681797	14	3.7	14	75	20	60	42	22	24	10	1.85
12681736--12681800	33	2.0	33	100	0	130	43	21	24	10	1.84
12681739--12681813	33	2.3	33	92	0	123	45	24	21	9	1.81
12681809--12681906	19	5.7	19	70	22	90	10	23	22	43	1.83
12681831--12681920	14	5.7	14	70	23	63	10	23	23	43	1.83
12681814--12681928	33	3.5	33	96	0	212	10	22	20	46	1.81
12683624--12683906	93	3.1	93	98	0	541	22	12	19	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12683971--12684063	33	2.8	32	91	4	150	47	27	17	7	1.74
12683954--12684063	19	6.3	19	71	20	87	46	28	16	9	1.77
12684059--12684193	19	7.6	19	75	16	128	11	19	23	45	1.82
12684081--12684137	14	3.7	14	77	20	60	10	21	22	45	1.82
12684064--12684156	33	2.8	33	95	0	168	10	20	21	47	1.80
12686117--12686152	14	2.6	14	95	0	63	33	0	22	44	1.53
12686259--12686356	19	5.4	19	82	13	134	46	16	21	15	1.83
12686259--12686374	53	2.2	53	95	1	207	44	17	23	14	1.85
12686381--12686533	33	4.5	33	74	16	159	13	22	17	45	1.84
12686403--12686619	19	12.4	19	77	19	240	13	21	18	46	1.83
12686381--12686591	52	4.0	52	99	0	413	13	23	17	45	1.83
12686422--12686619	33	5.8	33	76	14	197	13	21	18	46	1.83
12688842--12688866	12	2.1	12	100	0	50	0	28	0	72	0.86
12689770--12689979	20	10.5	20	85	2	215	19	18	24	37	1.94
12689966--12690048	21	4.0	21	73	6	78	25	16	24	33	1.96
12689946--12690044	42	2.4	43	77	11	100	21	18	23	37	1.94
12693634--12693683	21	2.3	22	82	6	66	40	2	2	56	1.22
12696197--12696227	4	7.5	4	96	3	53	74	0	0	25	0.82
12708193--12708259	32	2.1	33	94	2	118	50	5	8	34	1.58
12711853--12711878	2	13.0	2	100	0	52	50	0	50	0	1.00
12712231--12712296	33	1.9	35	82	11	84	51	4	0	43	1.22
12713014--12713059	2	23.0	2	100	0	92	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12715129--12715164	18	2.0	18	88	0	54	38	0	5	55	1.23
12718065--12718135	2	35.5	2	100	0	142	49	0	0	50	1.00
12726534--12726737	103	2.0	103	86	0	282	23	12	23	41	1.88
12727936--12728075	48	3.0	48	91	6	218	42	16	15	26	1.87
12733008--12733048	21	1.9	22	90	5	66	36	19	21	21	1.95
12733924--12733963	21	2.1	19	86	13	55	52	12	0	35	1.39
12734454--12734578	31	4.0	31	91	2	189	37	24	18	20	1.94
12738750--12738861	31	3.6	31	93	0	188	38	19	19	22	1.94
12740931--12741072	76	1.9	74	82	8	180	30	23	18	28	1.97
12747105--12747214	4	26.0	4	68	17	62	65	3	4	26	1.28
12747109--12747181	15	4.8	15	75	9	76	65	2	5	26	1.27
12747138--12747239	30	3.3	30	75	9	80	66	2	3	26	1.23
12747326--12747354	14	2.0	15	93	6	51	51	0	27	20	1.47
12747638--12747729	46	2.0	46	100	0	184	23	10	28	36	1.89
12750519--12750567	10	4.9	10	84	0	62	20	30	0	48	1.50
12750526--12750564	20	2.0	20	100	0	78	20	30	0	48	1.50
12750519--12750576	30	1.9	30	85	0	80	22	29	0	48	1.51
12750531--12750574	20	2.2	20	87	0	61	22	34	0	43	1.54
12750524--12750584	30	2.0	30	81	6	70	24	29	0	45	1.53
12750621--12750654	9	3.9	9	84	7	52	35	0	2	61	1.11
12750620--12750653	17	2.0	17	100	0	68	35	0	5	58	1.22
12750621--12750670	17	3.1	16	88	8	66	36	0	4	60	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12752888--12752948	25	2.4	25	83	5	70	19	3	13	63	1.42
12752909--12752954	12	3.8	12	80	5	56	17	4	15	63	1.47
12757432--12757466	2	17.5	2	88	11	54	48	2	0	48	1.16
12760969--12761003	17	2.1	17	89	5	54	40	5	2	51	1.40
12761201--12761241	16	2.5	17	80	11	50	36	0	2	60	1.10
12765030--12765058	13	2.2	13	100	0	58	41	13	31	13	1.84
12772967--12773145	89	2.0	89	95	0	322	32	11	11	44	1.76
12778471--12778515	23	2.0	23	90	0	72	42	8	15	33	1.78
12783380--12783429	21	2.3	23	82	10	68	46	14	10	30	1.77
12783394--12784749	198	6.8	197	86	5	1725	30	13	15	39	1.86
12785720--12785775	24	2.4	24	77	14	64	51	8	0	39	1.33
12787645--12787691	20	2.3	20	75	7	51	17	21	12	48	1.79
12787619--12788268	182	3.6	180	84	3	793	27	16	13	43	1.85
12810438--12810479	20	2.1	20	100	0	84	19	21	9	50	1.75
12815085--12815181	48	2.0	48	100	0	194	20	18	18	42	1.90
12818062--12818101	20	2.0	20	100	0	80	40	25	10	25	1.86
12821228--12821282	28	2.0	28	81	0	65	41	3	14	40	1.63
12822097--12822134	15	2.5	15	84	12	51	65	2	2	28	1.19
12822276--12822308	18	1.9	18	88	11	52	72	0	12	15	1.12
12828240--12828311	31	2.3	31	85	4	90	25	30	11	33	1.90
12854339--12854500	60	2.7	59	82	5	184	40	7	19	32	1.79
12855427--12855503	37	2.1	37	85	4	102	48	1	3	46	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12857484--12857555	27	2.6	28	75	4	83	26	8	19	45	1.78
12863707--12863751	23	2.0	23	90	0	72	48	15	22	13	1.79
12864711--12864874	56	2.9	56	85	2	197	31	15	14	39	1.87
12865842--12865885	20	2.1	21	88	12	65	68	2	0	29	1.02
12866823--12866854	2	16.0	2	100	0	64	50	0	0	50	1.00
12871016--12871171	65	2.4	65	84	7	185	32	16	21	29	1.96
12874692--12874774	20	4.1	20	87	7	114	18	39	30	12	1.86
12874695--12874774	41	2.0	41	87	5	117	17	38	31	12	1.87
12874695--12874774	21	3.8	22	86	4	78	17	38	31	12	1.87
12878667--12878707	16	2.6	16	88	3	57	36	7	21	34	1.82

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   
          65