genome.fa.s260.2.7.7.80.10.50.1000.18.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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   

This is table  18  of  26  ( 3102 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)
3640963--3641221	54	4.8	54	84	2	333	35	19	16	27	1.94
3647327--3647369	22	2.0	22	86	9	61	34	13	30	20	1.92
3647335--3647379	22	2.1	21	84	8	56	33	17	28	20	1.95
3650422--3650455	2	17.0	2	100	0	68	50	0	0	50	1.00
3650605--3650696	2	47.0	2	68	8	55	50	3	5	41	1.42
3656623--3656678	19	2.9	19	91	2	85	17	14	10	57	1.65
3661230--3661260	2	15.5	2	100	0	62	51	0	0	48	1.00
3661802--3661918	61	1.9	61	85	3	164	34	27	14	23	1.94
3662656--3662717	29	2.1	29	85	5	81	38	20	4	35	1.74
3668703--3668743	21	1.9	22	90	5	66	21	24	29	24	1.99
3668752--3668792	2	20.5	2	100	0	82	51	0	0	48	1.00
3672023--3672070	22	2.2	22	96	0	87	12	16	35	35	1.87
3672540--3672584	20	2.2	20	85	11	65	44	28	11	15	1.81
3673731--3673776	19	2.2	20	82	17	51	71	0	21	6	1.08
3673806--3673890	45	1.9	44	80	2	98	38	16	28	16	1.90
3686750--3686802	24	2.2	24	86	0	70	52	15	9	22	1.70
3689288--3689329	17	2.4	18	88	4	59	28	28	28	14	1.95
3690829--3690874	23	2.0	23	100	0	92	39	13	4	43	1.63
3691638--3691729	24	3.5	24	68	18	67	50	16	8	25	1.73
3691692--3691731	12	3.3	12	78	0	53	50	17	15	17	1.79
3691669--3691734	24	2.8	24	85	0	87	50	18	10	21	1.77
3691678--3691755	24	3.2	24	85	3	86	50	17	11	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3695887--3695912	2	13.0	2	100	0	52	50	0	0	50	1.00
3697497--3697595	52	1.9	52	89	0	153	36	19	11	33	1.87
3698084--3698149	6	11.0	6	96	0	105	37	50	0	12	1.40
3698163--3698205	20	2.2	20	91	8	70	27	9	11	51	1.69
3699949--3700010	4	15.5	4	86	0	79	51	0	3	45	1.17
3699949--3700010	6	10.3	6	91	0	79	51	0	3	45	1.17
3702668--3702696	2	14.5	2	100	0	58	48	0	0	51	1.00
3705594--3705735	27	5.4	27	84	5	175	30	26	9	33	1.89
3705594--3705736	51	2.7	51	86	5	180	30	26	9	32	1.89
3705614--3705749	27	5.1	27	86	7	165	30	30	8	30	1.86
3718107--3718167	23	2.9	21	82	7	70	21	32	26	19	1.97
3718150--3718189	21	1.9	21	89	0	62	25	40	25	10	1.86
3725414--3725438	10	2.5	10	100	0	50	8	0	20	72	1.10
3725474--3725510	18	2.1	18	85	14	51	21	16	10	51	1.74
3725731--3725757	12	2.2	12	100	0	54	37	7	7	48	1.59
3727784--3727837	22	2.5	22	76	11	58	42	16	18	22	1.89
3728416--3728446	14	2.2	14	94	0	53	22	6	22	48	1.73
3735821--3735861	20	2.0	21	85	4	57	36	4	7	51	1.51
3738819--3739201	190	2.0	191	99	0	759	35	13	22	28	1.92
3741355--3741403	24	2.0	24	92	0	80	30	14	12	42	1.82
3742173--3742213	20	2.0	21	86	13	59	41	4	7	46	1.53
3744108--3744237	54	2.4	54	82	6	138	30	22	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3744530--3745988	81	18.1	81	83	1	1769	36	11	21	30	1.89
3749378--3749572	96	2.0	98	96	3	367	42	3	23	30	1.69
3750514--3751238	81	9.0	81	86	5	945	36	11	21	30	1.88
3750514--3751557	162	6.6	162	85	5	1340	36	11	21	30	1.88
3750514--3751557	243	4.4	242	84	5	1268	36	11	21	30	1.88
3751171--3751306	68	2.0	68	100	0	272	35	8	23	32	1.86
3751090--3751537	149	2.9	149	80	5	394	36	10	21	31	1.88
3751009--3751456	230	1.9	230	86	0	637	36	11	21	31	1.88
3751243--3751537	81	3.6	81	83	0	367	36	11	21	30	1.89
3754735--3754759	13	1.9	13	100	0	50	72	0	4	24	1.02
3754804--3754863	13	4.9	12	78	8	59	80	3	0	16	0.85
3754799--3754841	20	2.2	20	95	0	77	81	4	0	13	0.84
3754811--3754889	25	3.1	25	76	3	68	79	1	3	15	0.93
3754843--3754906	10	5.9	10	78	12	65	76	1	4	17	1.03
3754909--3754935	4	6.8	4	100	0	54	77	0	0	22	0.76
3754929--3755024	34	2.7	35	78	16	108	72	0	9	17	1.09
3754858--3755024	18	9.8	17	67	18	64	73	0	8	17	1.11
3754969--3755036	23	2.9	24	75	4	66	76	1	4	17	1.03
3754999--3755027	13	2.2	13	100	0	58	79	0	0	20	0.74
3759328--3759422	47	2.0	47	100	0	190	33	10	23	32	1.89
3760133--3760184	20	2.6	20	84	6	61	30	15	30	23	1.95
3760603--3761143	55	9.8	55	88	1	717	33	17	19	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3767098--3767143	20	2.3	20	88	0	65	34	17	28	19	1.94
3767561--3767995	55	7.9	55	84	1	505	33	17	17	30	1.94
3767561--3767995	110	4.0	110	85	1	559	33	17	17	30	1.94
3769596--3769634	5	7.8	5	83	11	53	0	17	0	82	0.68
3769591--3769634	16	2.9	14	80	12	52	2	18	0	79	0.83
3769682--3769722	7	5.9	7	85	8	57	0	17	0	82	0.66
3769682--3769722	14	2.9	14	92	7	66	0	17	0	82	0.66
3780333--3780458	11	12.0	10	72	20	55	72	3	3	20	1.15
3780277--3780372	18	5.2	18	71	12	68	69	1	7	21	1.19
3780277--3780409	54	2.4	52	84	12	151	70	2	6	20	1.21
3780349--3780461	36	3.0	36	80	11	129	71	3	5	19	1.20
3780362--3780458	12	7.8	12	71	19	56	72	4	5	18	1.20
3780400--3780459	20	3.0	20	69	11	59	70	3	6	20	1.25
3780387--3780561	51	3.4	52	77	13	159	70	2	7	19	1.24
3780515--3780561	16	2.9	16	84	9	60	74	2	2	21	1.03
3781704--3781753	22	2.3	22	82	6	57	68	0	2	30	1.01
3782346--3782386	17	2.4	17	84	11	57	63	4	0	31	1.15
3787766--3787831	34	1.9	35	84	3	89	65	7	18	9	1.45
3787987--3788122	68	2.0	68	100	0	272	26	20	14	38	1.91
3792153--3792192	14	2.8	14	84	3	53	45	2	0	52	1.14
3792291--3792366	19	3.8	19	73	13	64	47	2	0	50	1.15
3794425--3794458	17	1.9	18	94	5	61	50	0	2	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3804764--3804793	12	2.4	12	94	5	51	13	16	3	66	1.37
3808120--3808202	29	2.8	29	96	1	148	40	13	14	31	1.84
3811509--3811538	15	2.0	15	93	0	51	13	0	30	56	1.37
3814536--3814631	31	3.2	31	66	11	81	36	23	17	21	1.95
3814509--3814668	60	2.7	60	89	0	241	36	19	15	28	1.92
3814503--3814707	60	3.4	59	84	5	234	32	18	18	30	1.95
3822485--3822556	3	23.7	3	94	2	126	66	0	0	33	0.92
3822724--3823028	136	2.3	134	86	4	409	27	22	16	34	1.95
3823878--3823919	21	2.0	21	90	0	66	26	26	21	26	1.99
3824100--3824159	30	2.0	31	90	6	97	41	15	6	36	1.73
3831134--3831342	60	3.5	61	83	7	241	30	17	18	33	1.94
3831226--3831320	31	3.1	30	64	17	70	25	14	21	38	1.91
3833615--3834264	136	4.8	136	88	0	904	26	21	18	33	1.96
3834305--3834429	42	3.0	41	89	3	187	32	20	20	25	1.97
3834411--3834728	90	3.5	90	93	0	519	34	22	17	25	1.96
3839780--3839861	26	3.1	26	80	3	65	48	12	18	20	1.79
3839814--3839861	12	3.8	12	76	15	51	45	10	22	20	1.81
3840562--3840614	27	1.9	28	92	3	90	58	11	16	13	1.63
3844408--3844477	20	3.2	23	62	15	58	35	24	22	17	1.95
3844397--3844756	44	8.3	44	92	3	538	31	23	27	17	1.97
3844396--3844756	87	4.2	87	91	2	548	31	23	27	17	1.97
3844396--3844756	131	2.8	130	91	2	564	31	23	27	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3847471--3847513	13	3.3	13	93	0	77	16	20	46	16	1.84
3847938--3848003	3	22.3	3	96	3	125	66	0	0	33	0.92
3848460--3848565	21	5.3	21	72	18	59	41	1	0	55	1.17
3848480--3848566	11	8.8	10	68	24	51	41	1	1	56	1.14
3848491--3848532	18	2.3	18	88	8	59	40	2	0	57	1.12
3848470--3848537	9	7.3	9	73	20	52	39	1	0	58	1.07
3848583--3848609	11	2.5	11	100	0	54	25	0	0	74	0.83
3850753--3850954	95	2.1	94	81	7	239	36	16	21	25	1.94
3851526--3851640	24	4.8	24	89	4	178	40	20	14	25	1.90
3851502--3851657	48	3.2	48	81	7	138	44	19	12	24	1.84

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