genome.fa.s7984.2.7.7.80.10.50.1000.24.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  24  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)
4733120--4733173	20	2.7	21	74	8	58	18	3	1	75	1.03
4741224--4741267	23	1.9	23	86	9	63	0	18	4	77	0.94
4742532--4742573	16	2.6	16	92	0	66	7	11	40	40	1.69
4752803--4752889	25	3.5	23	72	14	66	47	2	5	44	1.39
4752825--4752887	23	2.7	23	75	22	67	44	1	7	46	1.42
4752922--4752992	20	3.8	20	73	14	62	46	2	5	45	1.41
4753005--4753046	22	1.9	22	85	9	59	33	0	2	64	1.07
4752998--4753043	14	3.1	16	75	15	53	32	0	2	65	1.05
4755407--4755478	34	2.1	34	82	7	83	37	9	12	40	1.76
4756340--4756381	22	1.9	22	90	0	66	19	9	0	71	1.13
4758139--4758181	21	2.0	21	95	0	77	32	11	25	30	1.91
4764170--4764270	44	2.3	45	81	5	116	29	19	15	34	1.93
4764980--4765010	13	2.4	13	100	0	62	32	16	0	51	1.44
4765482--4765524	20	2.2	20	87	8	61	53	9	4	32	1.53
4768379--4768404	3	8.7	3	100	0	52	69	30	0	0	0.89
4773776--4773834	30	2.0	29	83	3	73	35	8	22	33	1.84
4774064--4774132	23	3.0	23	89	0	102	17	21	26	34	1.95
4774511--4774570	2	30.0	2	100	0	120	50	0	0	50	1.00
4778331--4778363	17	2.0	17	88	5	50	33	9	18	39	1.82
4778624--4778686	23	2.7	23	85	0	81	15	22	26	34	1.94
4782719--4782824	45	2.3	47	88	6	153	31	9	19	39	1.84
4786440--4786519	29	2.9	27	77	14	83	17	6	1	75	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4786456--4786569	33	3.5	33	74	11	101	17	7	2	71	1.21
4796879--4796912	17	2.0	17	88	0	50	82	0	11	5	0.83
4796950--4797003	21	2.5	21	85	14	74	79	3	16	0	0.87
4798128--4798313	99	1.9	99	85	2	257	37	24	19	19	1.94
4799086--4799130	7	6.9	7	75	14	51	44	0	0	55	0.99
4799085--4799130	20	2.3	20	89	10	69	43	0	0	56	0.99
4799201--4799232	16	2.0	16	100	0	64	18	43	12	25	1.85
4800268--4800293	2	13.0	2	100	0	52	50	0	0	50	1.00
4800347--4800373	2	13.5	2	100	0	54	48	0	0	51	1.00
4800447--4800507	21	2.8	21	78	11	70	36	6	0	57	1.25
4800815--4800853	19	2.0	20	90	5	62	12	2	7	76	1.09
4805250--4805314	32	2.0	32	100	0	130	41	21	9	27	1.83
4805410--4805451	2	21.0	2	100	0	84	50	0	0	50	1.00
4816474--4817180	365	1.9	364	90	1	1130	28	11	16	44	1.81
4827180--4827240	21	2.9	21	74	13	54	18	21	31	29	1.96
4833416--4833446	16	1.9	16	93	0	53	32	0	0	67	0.91
4833413--4833453	16	2.6	16	78	17	50	31	0	0	68	0.90
4834738--4834793	28	2.0	28	86	10	80	75	0	7	17	1.03
4835477--4835661	85	2.2	82	86	4	255	55	12	1	30	1.46
4839263--4839327	35	1.9	35	87	6	98	69	1	3	26	1.12
4839367--4839409	18	2.4	18	92	0	68	72	0	6	20	1.08
4844008--4844038	16	1.9	16	93	0	53	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4844005--4844045	16	2.6	16	78	17	50	31	0	0	68	0.90
4849318--4849388	19	3.6	19	68	18	56	49	1	1	47	1.18
4849410--4849451	2	21.0	2	100	0	84	50	0	0	50	1.00
4850344--4850376	2	16.5	2	100	0	66	51	0	0	48	1.00
4854461--4854524	20	3.2	20	69	8	58	35	28	15	20	1.93
4854553--4854596	20	2.1	21	91	4	72	34	6	22	36	1.81
4854517--4854741	77	2.9	77	83	4	285	27	15	22	35	1.94
4854635--4854683	20	2.5	20	86	0	80	28	16	24	30	1.96
4854658--4854969	57	5.5	57	92	0	507	25	16	22	36	1.94
4854517--4854856	135	2.5	133	70	13	325	27	15	21	35	1.93
4854941--4854986	20	2.3	20	92	0	83	26	15	26	32	1.95
4854885--4855067	77	2.4	77	86	4	244	26	15	21	35	1.94
4855038--4855112	21	3.6	21	80	1	89	32	14	22	30	1.94
4855102--4855139	20	1.9	20	94	0	67	26	15	13	44	1.83
4855103--4855149	20	2.3	20	85	0	58	25	14	19	40	1.90
4866411--4866442	17	1.9	17	93	6	57	9	9	0	81	0.88
4866447--4866484	20	1.9	19	89	5	58	21	5	2	71	1.19
4866450--4866650	9	23.5	8	70	18	63	25	3	2	67	1.22
4866592--4866648	3	20.0	3	78	10	57	26	1	1	70	1.07
4866584--4866639	26	2.2	26	83	6	69	25	3	1	69	1.14
4866601--4866683	20	4.3	20	70	14	75	20	4	6	68	1.30
4866559--4866683	37	3.4	39	77	17	124	20	4	5	68	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4866581--4866648	17	3.9	17	71	21	52	23	2	1	72	1.07
4866692--4866718	2	13.5	2	100	0	54	48	0	0	51	1.00
4866718--4866748	4	7.5	4	92	7	53	22	0	0	77	0.77
4866721--4866935	9	22.4	9	68	19	55	17	11	2	68	1.31
4866868--4866939	11	7.3	10	73	20	53	19	6	2	70	1.22
4866868--4866934	30	2.3	30	78	2	73	17	7	2	71	1.22
4868239--4868629	201	1.9	201	100	0	782	32	21	19	26	1.97
4872212--4872248	19	1.9	19	88	0	56	24	35	29	10	1.89
4872730--4873050	103	3.1	103	97	0	606	25	13	24	36	1.92
4873067--4873129	23	2.7	23	85	4	83	20	25	26	26	1.99
4879735--4880055	103	3.1	103	95	0	597	25	13	24	36	1.92
4880072--4880134	23	2.7	23	80	4	74	20	23	26	28	1.99
4885989--4886038	14	3.9	13	80	17	52	80	2	18	0	0.82
4885983--4886041	23	2.8	22	80	12	70	83	1	15	0	0.74
4885982--4886041	6	9.8	6	77	22	63	81	1	16	0	0.77
4885982--4886041	13	4.8	13	76	17	65	81	1	16	0	0.77
4886913--4887560	120	5.5	120	85	4	818	34	22	16	26	1.95
4886913--4887560	232	2.7	232	86	5	832	34	22	16	26	1.95
4889470--4889594	37	3.2	37	78	15	112	20	4	6	68	1.28
4889619--4889655	12	3.2	12	88	11	60	29	0	0	70	0.88
4889638--4889707	6	11.2	6	76	14	70	18	2	1	77	0.97
4889790--4889861	9	7.3	10	71	22	55	16	8	2	72	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4889790--4889862	30	2.5	29	80	8	85	16	8	2	72	1.20
4890456--4890577	63	1.9	63	83	6	158	42	6	6	44	1.56
4892581--4892617	20	1.9	20	88	5	58	21	2	2	72	1.09
4892643--4892671	9	3.3	9	95	4	51	31	0	0	68	0.89
4892643--4892748	8	13.0	8	72	8	54	25	2	2	68	1.16
4892763--4892809	2	23.5	2	100	0	94	48	0	0	51	1.00
4892812--4892868	4	13.8	4	90	7	62	17	0	3	78	0.88
4892830--4892915	5	17.6	5	77	9	56	17	3	1	77	0.96
4892831--4893069	9	25.3	9	70	17	78	16	10	2	71	1.23
4892812--4892925	38	3.0	36	78	13	104	16	3	2	77	1.03
4892831--4892929	34	3.0	33	78	12	89	17	5	1	76	1.01
4892998--4893069	11	7.3	10	75	22	64	18	8	1	72	1.17
4892998--4893070	30	2.5	29	80	8	85	17	8	1	72	1.16
4893667--4893788	63	1.9	63	83	6	158	42	6	6	44	1.56
4897951--4897986	18	1.9	19	88	5	56	36	36	2	25	1.70
4899069--4899109	16	2.5	16	88	4	55	48	0	2	48	1.14
4899068--4899106	17	2.3	18	82	13	55	48	0	2	48	1.15
4904997--4905035	18	2.2	18	86	9	53	38	0	2	58	1.12
4912588--4912714	32	4.0	32	83	0	146	31	14	14	39	1.86
4912805--4912848	22	2.0	22	95	0	79	36	18	11	34	1.86
4930687--4930719	11	2.8	12	86	4	50	72	3	0	24	0.98
4934465--4934492	14	2.0	14	100	0	56	7	21	7	64	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4942016--4942052	18	2.1	18	90	10	58	5	32	5	56	1.45
4953337--4953370	17	1.9	18	88	5	52	52	2	0	44	1.16
4953921--4953966	3	15.3	3	100	0	92	32	0	0	67	0.91
4956376--4956507	63	2.1	63	82	1	167	24	18	14	42	1.88
4958941--4959012	31	2.3	31	81	9	85	43	9	16	30	1.80
4959589--4959636	21	2.3	21	92	0	78	41	2	20	35	1.64
4959779--4959843	30	2.2	30	81	10	71	35	7	23	33	1.83
4961272--4961360	31	2.9	31	82	0	115	21	16	21	40	1.91
4961656--4961702	6	7.8	6	81	9	51	42	2	19	36	1.63
4961655--4961702	18	2.7	18	81	12	62	41	4	18	35	1.70

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