genome.fa.s9175.2.7.7.80.10.50.1000.46.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  46  of  51  ( 6037 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)
9450264--9450318	20	2.8	20	94	0	101	27	36	27	9	1.87
9450271--9450351	10	7.8	10	75	17	58	27	32	30	9	1.89
9450295--9450388	33	2.8	33	91	0	125	26	27	37	8	1.85
9453114--9453159	19	2.4	19	96	3	83	15	0	32	52	1.43
9457219--9457262	13	3.2	13	78	12	52	27	4	0	68	1.09
9457270--9457319	22	2.5	19	84	15	57	28	10	2	60	1.40
9457280--9457319	22	1.9	22	90	10	66	30	10	2	57	1.45
9457428--9457950	259	2.0	263	98	1	1009	24	13	9	52	1.71
9465104--9465144	20	2.0	22	90	9	68	29	7	2	60	1.36
9465190--9465247	26	2.2	27	81	9	66	29	1	10	58	1.41
9466325--9466385	26	2.3	27	83	10	74	47	1	1	49	1.21
9467101--9467138	14	2.8	14	84	4	51	34	0	2	63	1.09
9467119--9467167	13	4.2	12	75	19	50	42	0	0	57	0.99
9471105--9471197	45	2.1	45	87	0	132	31	18	20	30	1.96
9471153--9471335	54	3.4	54	89	0	276	26	20	20	33	1.97
9493392--9493433	12	3.3	12	81	12	57	66	0	30	2	1.04
9493393--9493435	7	6.6	7	84	12	56	67	0	30	2	1.03
9515144--9515269	46	2.8	43	79	10	137	23	21	21	34	1.97
9516211--9516275	24	2.7	23	78	7	67	36	16	10	35	1.84
9518374--9518412	20	1.9	21	89	5	62	53	7	5	33	1.51
9522952--9523006	2	27.5	2	100	0	110	50	0	0	49	1.00
9524219--9524253	14	2.4	15	90	4	54	2	17	0	80	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9524226--9524257	10	3.1	11	86	13	50	0	21	0	78	0.76
9526920--9526972	3	17.7	3	100	0	106	33	0	0	66	0.92
9531006--9531498	245	2.0	247	91	1	803	30	17	21	30	1.96
9538963--9539000	20	1.9	20	94	0	67	10	21	21	47	1.80
9539679--9539781	50	2.1	50	94	3	181	24	7	15	52	1.69
9543497--9543602	50	2.1	50	96	0	194	25	5	14	54	1.61
9547929--9548207	44	6.4	43	85	3	355	35	24	22	17	1.96
9552099--9552165	25	2.8	24	82	8	84	31	7	1	59	1.34
9552892--9553339	223	2.0	223	98	0	860	27	18	20	33	1.96
9553930--9554047	35	3.3	36	75	3	112	32	18	10	38	1.84
9553899--9554047	72	2.1	73	87	3	212	31	17	11	39	1.85
9554279--9554403	66	1.9	66	91	3	207	28	15	16	40	1.89
9554402--9555035	139	4.5	140	88	1	925	29	29	14	26	1.95
9554402--9555114	279	2.6	279	84	4	947	30	28	14	26	1.95
9554402--9555112	139	5.1	140	85	5	870	30	28	14	26	1.95
9555358--9555394	3	12.3	3	100	0	74	32	0	0	67	0.91
9556502--9556540	2	19.5	2	100	0	78	48	0	0	51	1.00
9556676--9556731	28	2.0	28	85	0	76	28	17	7	46	1.75
9556705--9557092	81	4.8	81	86	2	512	29	21	11	37	1.89
9556704--9557092	161	2.4	161	86	1	548	29	21	11	37	1.89
9557420--9557566	56	2.7	54	87	8	201	32	22	10	34	1.89
9563270--9563298	15	1.9	15	100	0	58	55	3	0	41	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9563294--9563342	26	1.9	25	83	4	62	69	4	2	24	1.17
9567756--9567784	13	2.2	13	100	0	58	27	10	6	55	1.59
9569171--9569210	18	2.3	18	86	4	55	45	2	0	52	1.14
9570407--9570530	39	3.3	39	82	14	154	48	4	3	44	1.37
9570407--9570548	18	7.5	19	86	4	155	47	5	3	42	1.44
9570410--9570530	2	60.0	2	76	16	117	47	3	3	45	1.35
9570407--9570767	20	18.5	19	73	13	161	46	4	4	44	1.44
9570574--9570615	22	1.9	22	90	0	66	45	4	4	45	1.45
9570592--9570669	31	2.5	32	81	6	90	44	2	5	47	1.38
9570656--9570722	26	2.5	26	95	2	116	49	1	4	44	1.31
9570886--9570962	22	3.3	22	76	9	64	45	6	5	42	1.52
9571028--9571164	14	9.8	13	67	15	60	45	5	5	43	1.50
9571098--9571213	27	4.3	27	85	5	121	41	5	4	49	1.45
9571277--9571327	16	3.1	16	82	5	57	39	5	5	49	1.51
9571272--9571317	18	2.6	19	76	13	53	41	6	4	47	1.49
9571346--9571457	18	6.5	18	76	13	94	45	3	8	42	1.50
9571466--9571832	5	73.2	5	91	8	581	40	0	0	59	0.97
9571923--9572049	61	2.1	60	92	1	209	48	6	9	36	1.61
9572277--9572590	103	2.9	103	85	6	360	32	31	5	30	1.79
9572781--9572892	6	18.7	6	76	3	91	44	42	5	7	1.54
9572844--9572938	18	5.3	18	72	0	82	45	37	4	12	1.62
9572843--9572934	36	2.6	36	78	0	103	43	39	4	13	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9574651--9574684	16	2.1	16	88	0	50	50	0	0	50	1.00
9578917--9579298	189	2.0	190	96	0	703	30	15	18	35	1.92
9581236--9581280	18	2.2	21	70	25	51	26	33	20	20	1.97
9581247--9581316	18	3.7	18	78	10	77	30	30	21	18	1.97
9584625--9584834	65	3.3	63	80	11	212	30	24	19	25	1.98
9589163--9589253	32	2.7	33	86	10	107	43	0	24	31	1.54
9589188--9589253	32	2.1	32	94	0	114	43	0	21	34	1.53
9589635--9589794	65	2.5	63	86	8	207	30	23	19	26	1.98
9593064--9593114	2	25.5	2	100	0	102	49	0	0	50	1.00
9594909--9594977	20	3.5	20	79	0	75	17	10	14	57	1.63
9595082--9595188	23	4.7	23	91	0	169	32	12	22	32	1.91
9595771--9595808	13	2.8	13	82	17	51	60	0	2	36	1.11
9595824--9595881	18	3.1	19	72	18	66	56	3	0	39	1.16
9595788--9595871	19	4.5	19	74	14	68	58	1	4	35	1.27
9596763--9596834	21	3.4	22	70	14	71	48	0	0	51	1.00
9596764--9596860	42	2.3	43	84	12	128	45	0	1	53	1.07
9613137--9613190	19	2.8	19	78	18	58	79	1	14	3	0.95
9615036--9615225	36	5.2	36	87	1	263	38	17	19	23	1.93
9615036--9615225	73	2.6	72	85	1	272	38	17	19	23	1.93
9615245--9615809	55	10.3	55	84	3	631	31	19	21	27	1.97
9615333--9615809	165	2.9	165	88	0	695	30	19	21	27	1.98
9615336--9615863	110	4.8	108	84	5	512	30	19	21	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9616070--9616109	2	20.0	2	100	0	80	50	0	0	50	1.00
9616162--9616196	17	2.1	16	94	5	61	22	0	22	54	1.45
9616151--9616205	17	2.9	21	72	27	59	23	3	18	54	1.59
9616219--9616262	2	22.0	2	90	0	70	47	2	2	47	1.27
9621047--9621081	16	2.2	16	89	0	52	51	2	0	45	1.16
9631956--9631985	16	1.9	15	93	6	51	36	0	0	63	0.95
9632561--9632632	31	2.3	31	76	7	74	50	13	2	33	1.57
9633362--9633409	21	2.3	21	96	3	89	39	14	8	37	1.76
9633367--9633613	136	1.8	135	88	4	381	38	11	15	34	1.84
9633514--9633570	21	2.7	21	97	0	105	38	10	19	31	1.86
9634514--9634579	28	2.4	28	92	0	114	27	21	24	27	1.99
9643103--9643144	21	2.0	21	85	4	57	35	7	0	57	1.26
9646372--9646439	35	1.9	35	96	0	127	54	2	22	20	1.58
9659183--9659261	32	2.5	32	89	0	122	40	16	15	27	1.88
9672866--9672931	3	22.0	3	81	6	80	37	0	1	60	1.06
9674369--9674415	24	2.0	23	84	12	60	44	0	0	55	0.99
9678325--9678358	16	2.1	16	94	0	59	29	20	5	44	1.75
9686650--9687239	93	6.1	93	82	10	747	27	17	21	33	1.96
9686843--9687342	207	2.4	208	95	0	887	30	16	20	32	1.95
9688028--9688712	112	6.0	113	84	5	792	38	14	17	29	1.90
9688509--9688791	124	2.3	119	83	8	365	40	16	18	24	1.90
9688940--9689000	12	4.8	12	81	16	70	37	1	1	59	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9688938--9688999	27	2.3	27	91	5	99	35	1	1	61	1.16
9691934--9691984	13	3.9	13	78	0	57	25	15	21	37	1.93
9692055--9692097	2	21.5	2	100	0	86	48	0	0	51	1.00
9697191--9697318	4	30.8	4	73	16	73	73	0	2	23	1.00
9697190--9697318	13	9.6	13	68	14	59	73	0	2	23	0.99
9697191--9697321	17	7.9	17	68	16	71	74	0	2	22	0.99
9697191--9697330	21	5.9	24	66	20	89	72	0	3	22	1.04
9697362--9697388	2	13.5	2	100	0	54	51	0	0	48	1.00
9698611--9698844	36	6.6	36	77	16	195	39	13	20	26	1.89
9698612--9698724	37	3.1	35	85	8	145	40	13	20	25	1.89

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