genome.fa.s7957.2.7.7.80.10.50.1000.28.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   

This is table  28  of  43  ( 5063 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)
5665287--5665336	22	2.3	22	82	6	57	46	6	2	46	1.39
5665309--5665386	26	3.1	26	71	17	76	47	3	2	46	1.34
5665359--5665446	19	4.5	19	71	18	72	46	6	1	45	1.37
5665315--5665408	49	2.0	49	84	16	126	48	3	2	45	1.30
5665361--5665413	17	2.9	18	80	8	63	50	3	1	43	1.30
5665398--5665481	25	3.4	24	76	15	73	44	8	0	47	1.33
5665380--5665456	24	3.3	24	77	12	72	46	6	0	46	1.28
5665395--5665480	26	3.4	26	73	13	74	45	8	0	46	1.33
5666950--5666999	21	2.4	21	83	3	57	34	24	20	22	1.97
5667055--5667100	21	2.2	21	81	14	51	54	2	6	36	1.39
5668848--5668886	14	2.9	14	84	3	53	23	17	33	25	1.96
5669110--5669135	7	3.7	7	100	0	52	42	0	0	57	0.98
5670241--5670302	23	2.7	23	76	18	65	22	3	6	67	1.28
5670418--5670477	21	2.9	21	78	9	68	45	10	5	40	1.60
5670777--5670810	8	4.2	8	96	0	59	8	26	2	61	1.40
5680539--5680601	33	1.9	33	86	0	90	49	6	6	38	1.54
5687198--5687246	25	1.9	26	87	4	73	48	30	0	20	1.50
5695444--5695485	22	1.9	22	95	0	75	26	19	28	26	1.98
5697204--5697255	2	26.0	2	100	0	104	50	0	0	50	1.00
5697698--5697800	23	4.4	23	80	2	107	17	20	25	36	1.94
5702572--5702606	18	1.9	18	88	0	52	54	0	17	28	1.43
5706267--5706295	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5707373--5707421	24	2.0	24	100	0	98	24	12	16	46	1.81
5711876--5712008	70	1.9	70	82	4	169	34	14	15	36	1.87
5712869--5713253	91	4.2	91	87	4	519	39	16	20	24	1.92
5712869--5713253	181	2.1	182	86	3	535	39	16	20	24	1.92
5713260--5713510	98	2.6	96	85	4	339	29	27	15	27	1.96
5719971--5720137	88	1.9	88	94	0	298	50	3	8	36	1.51
5720093--5720147	28	1.9	29	82	10	69	52	0	5	41	1.24
5721861--5721911	21	2.4	21	100	0	102	37	21	15	25	1.93
5729220--5729261	22	1.9	23	90	9	70	52	0	38	9	1.34
5729219--5729259	12	3.6	12	78	21	52	51	0	39	9	1.35
5729607--5729644	16	2.5	15	87	8	51	47	2	0	50	1.15
5729976--5730009	14	2.5	14	85	4	52	38	0	0	61	0.96
5729972--5730017	17	3.0	16	81	18	62	36	0	0	63	0.95
5734300--5735065	75	10.4	76	93	4	1281	34	21	20	24	1.97
5735032--5735095	33	1.9	33	100	0	128	32	18	20	28	1.96
5734882--5735250	184	2.0	184	96	1	686	33	21	20	25	1.97
5735065--5735326	76	3.5	76	97	0	499	33	21	20	24	1.97
5735948--5736002	22	2.5	22	93	0	101	40	14	10	34	1.81
5740696--5740799	11	9.4	10	74	20	75	0	14	1	82	0.80
5740708--5740799	8	12.7	7	82	15	100	0	15	2	82	0.76
5740699--5740814	16	7.2	15	75	20	85	0	17	1	80	0.85
5746061--5746121	20	2.8	20	74	18	52	70	3	3	22	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5746093--5746155	24	2.7	23	71	26	60	63	1	4	30	1.24
5746093--5746156	26	2.7	25	73	22	66	62	1	4	31	1.25
5748393--5748462	3	24.0	3	77	11	74	58	0	0	41	0.98
5748382--5748462	18	4.3	18	82	14	94	56	0	0	43	0.99
5750648--5750719	30	2.4	29	77	6	72	27	26	8	37	1.85
5750654--5750713	30	2.0	30	83	0	75	30	25	8	36	1.85
5752723--5753039	37	8.7	37	82	12	304	45	5	4	44	1.46
5754739--5754813	37	2.0	37	100	0	150	22	24	29	24	1.99
5755647--5755691	12	3.6	13	77	19	51	68	0	0	31	0.89
5756104--5756232	67	2.0	65	81	9	154	36	11	19	32	1.88
5756141--5756387	101	2.4	104	79	6	263	38	12	20	28	1.89
5756299--5756443	36	4.0	36	93	0	236	41	11	20	26	1.86
5756320--5756420	21	5.4	20	65	29	71	41	9	21	26	1.84
5756517--5756646	67	2.0	66	81	7	156	36	11	19	33	1.88
5756713--5756857	36	4.0	36	94	0	254	40	12	20	26	1.88
5756548--5756800	102	2.5	104	77	6	282	37	12	20	29	1.89
5757129--5757322	36	5.2	36	86	7	262	41	12	19	26	1.87
5756027--5757279	414	3.0	414	95	1	2231	36	12	20	30	1.90
5757150--5757214	21	3.4	20	68	24	59	43	10	21	24	1.84
5757157--5757313	78	2.0	78	92	0	260	45	12	19	22	1.83
5757539--5757764	116	1.9	116	90	1	364	24	20	23	31	1.98
5763111--5763187	30	2.6	30	85	4	93	49	15	15	19	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5764132--5764235	31	3.4	30	77	5	93	56	8	1	32	1.41
5765520--5765632	37	3.0	37	80	12	124	42	3	7	46	1.48
5765561--5765685	32	3.7	33	78	13	121	43	3	7	46	1.47
5765599--5765811	32	6.8	31	70	18	106	43	4	7	45	1.50
5765647--5765835	43	4.5	42	67	16	124	45	5	6	42	1.53
5765727--5765756	15	1.9	16	93	6	53	40	0	6	53	1.27
5765699--5765775	25	3.0	25	72	7	73	45	2	5	46	1.39
5765622--5765862	123	2.0	118	95	4	437	44	4	6	43	1.52
5765742--5765920	33	5.1	34	74	14	141	42	5	6	45	1.52
5765743--5765916	71	2.5	70	81	8	203	43	5	6	44	1.51
5765584--5765891	155	2.0	153	78	14	321	43	4	6	45	1.50
5765882--5765931	27	1.9	27	84	8	68	40	2	6	52	1.38
5766932--5766968	2	18.5	2	100	0	74	48	0	0	51	1.00
5771462--5771496	17	2.0	18	94	5	63	28	31	17	22	1.96
5772311--5773475	164	7.1	165	83	4	1333	30	23	20	24	1.99
5772295--5773457	81	14.2	81	76	8	952	30	23	20	25	1.99
5774040--5774164	36	3.5	34	81	12	135	42	3	7	47	1.47
5774127--5774185	24	2.6	21	73	21	57	44	1	6	47	1.39
5774066--5774433	35	10.1	36	74	15	258	44	4	6	44	1.50
5774126--5774372	119	2.1	118	92	6	410	45	4	6	43	1.51
5774248--5774429	73	2.6	70	80	10	194	45	3	6	43	1.48
5775451--5775486	2	18.5	2	94	5	65	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5778815--5778868	15	2.9	19	69	25	53	61	0	0	38	0.96
5778834--5778889	26	2.1	27	83	3	69	60	1	1	35	1.17
5790441--5790479	19	2.1	19	85	0	51	48	0	7	43	1.31
5791666--5791705	21	2.0	20	85	5	53	55	5	0	40	1.22
5791714--5791752	16	2.3	17	86	8	53	51	0	15	33	1.44
5794943--5795573	312	2.0	315	82	6	766	39	18	15	25	1.90
5804317--5804369	18	2.9	18	91	0	88	18	18	33	28	1.95
5805844--5806272	220	1.9	221	86	2	603	34	24	11	29	1.90
5818733--5818769	10	3.7	10	92	0	65	56	18	13	10	1.66
5819055--5819089	14	2.5	14	90	0	52	48	14	22	14	1.79
5819036--5819093	24	2.4	24	76	0	62	51	13	18	15	1.76
5819518--5819621	31	3.4	31	91	0	163	39	4	19	36	1.73
5822043--5822073	3	10.3	3	100	0	62	32	0	0	67	0.91
5828066--5828092	2	13.5	2	100	0	54	48	0	0	51	1.00
5829589--5829626	20	1.9	20	84	10	51	15	18	10	55	1.68
5830101--5830155	27	2.1	26	86	3	74	18	12	14	54	1.71
5830109--5830183	27	2.8	27	80	6	73	20	17	14	48	1.82
5830132--5830296	63	2.6	63	87	1	233	22	18	15	43	1.87
5832368--5832444	8	10.0	8	71	13	54	77	6	15	0	0.95
5832368--5832444	23	3.4	22	78	8	82	77	6	15	0	0.95
5832381--5832454	19	3.5	20	79	17	78	78	6	14	0	0.95
5833464--5833547	32	2.6	32	90	0	123	28	15	22	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5833787--5833837	22	2.3	22	96	0	93	31	11	9	47	1.73
5833976--5834094	42	2.9	41	68	20	104	28	31	15	23	1.96
5833922--5834098	82	2.2	82	87	2	248	28	31	16	23	1.97
5834079--5834411	46	7.6	45	72	13	243	24	30	18	26	1.97
5834127--5834320	40	4.6	40	69	13	129	25	32	17	25	1.96
5833995--5834454	129	3.6	129	86	4	556	25	31	17	25	1.97
5833997--5834502	130	3.9	127	85	5	547	24	30	17	26	1.97
5835855--5835912	2	30.5	2	78	16	52	43	0	1	55	1.10
5837671--5837792	16	7.5	16	68	16	72	74	2	7	15	1.14
5837691--5837748	27	2.2	27	84	9	75	77	1	8	12	1.06

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