genome.fa.s9585.2.7.7.80.10.50.1000.25.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  25  of  35  ( 4106 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)
5652564--5652632	33	2.2	30	82	15	77	44	0	2	52	1.16
5652763--5652827	8	8.4	8	71	19	57	40	0	1	58	1.07
5652763--5652825	23	2.8	23	77	13	69	39	0	1	58	1.07
5652749--5652825	5	14.4	5	75	11	55	41	1	1	55	1.16
5653044--5653139	42	2.3	42	90	0	147	51	18	14	15	1.77
5658923--5658968	21	2.2	21	80	3	58	8	6	26	58	1.52
5667397--5667440	22	2.0	22	86	0	61	27	2	9	61	1.38
5675542--5675599	23	2.5	23	88	0	89	36	24	22	17	1.95
5681456--5681509	14	4.0	14	72	13	51	7	3	7	81	0.97
5681463--5681513	26	2.0	25	88	7	75	7	5	5	80	1.02
5682285--5682340	27	2.1	27	93	0	94	33	26	12	26	1.92
5684320--5684364	23	2.0	22	83	12	56	37	8	6	46	1.61
5685692--5686646	475	2.0	475	94	3	1683	44	15	9	30	1.79
5689768--5689848	41	2.0	41	97	0	153	62	3	16	17	1.46
5690792--5690862	34	2.1	34	82	12	83	23	11	18	46	1.81
5694697--5694723	13	2.1	13	100	0	54	40	14	14	29	1.86
5704379--5704412	17	1.9	18	88	5	52	32	0	5	61	1.20
5707356--5707404	2	24.5	2	100	0	98	51	0	0	48	1.00
5722552--5722680	63	2.1	62	84	5	163	43	4	5	46	1.47
5741443--5741546	53	2.0	53	100	0	208	23	19	22	35	1.96
5752736--5752767	3	10.7	3	100	0	64	65	0	34	0	0.93
5761765--5761828	33	1.9	33	93	0	110	39	23	10	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5762934--5762970	2	18.5	2	100	0	74	51	0	0	48	1.00
5764350--5764419	3	23.7	3	82	8	90	65	0	1	32	1.01
5764743--5765300	112	5.0	112	87	2	789	26	19	15	37	1.92
5764743--5765300	224	2.5	224	91	1	911	26	19	15	37	1.92
5766389--5766443	18	2.8	20	78	10	69	58	5	9	27	1.51
5766394--5766468	20	3.8	19	81	10	80	54	5	9	30	1.54
5766795--5766852	18	3.1	18	78	14	64	5	15	0	79	0.90
5766795--5766831	15	2.5	15	84	16	51	2	13	0	83	0.74
5766797--5766851	9	6.0	9	79	12	58	5	12	0	81	0.84
5774134--5774165	15	2.1	15	94	0	55	46	9	18	25	1.79
5779622--5779665	3	15.3	3	82	17	58	70	0	0	29	0.88
5779621--5779649	14	2.1	14	100	0	58	72	0	0	27	0.85
5779622--5779665	17	2.6	17	92	7	72	70	0	0	29	0.88
5786979--5787024	22	2.1	22	95	0	83	26	2	30	41	1.68
5788236--5788267	15	2.1	15	94	0	55	53	15	25	6	1.65
5791450--5791498	17	3.0	15	80	16	53	53	0	12	34	1.39
5792516--5792585	32	2.2	32	97	0	131	41	17	20	21	1.90
5793797--5794007	66	3.3	63	80	10	230	26	18	24	30	1.98
5794667--5794721	23	2.3	24	78	6	67	54	25	1	18	1.53
5795916--5795989	34	2.1	35	95	5	141	27	13	31	28	1.94
5801656--5801736	29	2.8	29	92	3	137	17	20	16	45	1.85
5802109--5802266	64	2.5	63	77	11	169	27	18	18	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5802469--5802501	16	2.1	16	100	0	66	33	36	0	30	1.58
5803671--5803704	12	2.9	12	95	4	61	44	0	26	29	1.55
5807019--5807070	21	2.5	21	83	0	77	26	21	25	26	1.99
5807448--5807485	19	2.0	19	100	0	76	36	31	21	10	1.87
5807450--5807491	19	2.4	17	88	11	59	38	30	21	9	1.85
5807797--5807846	22	2.3	22	100	0	100	24	10	32	34	1.88
5809569--5809612	17	2.6	17	77	0	52	59	0	0	40	0.98
5813942--5814044	52	2.0	52	98	0	197	41	13	23	21	1.88
5818413--5818514	52	2.0	52	96	0	186	42	13	21	22	1.88
5819484--5819787	152	2.0	152	99	0	599	42	15	13	28	1.84
5820246--5820282	13	2.7	14	84	15	51	43	5	0	51	1.24
5820240--5820321	15	5.7	15	67	11	55	43	2	2	51	1.28
5821151--5821237	27	3.1	29	67	26	87	40	14	9	35	1.79
5821131--5821237	55	1.9	55	100	0	214	38	14	9	37	1.79
5821131--5821216	27	3.1	27	67	26	81	37	13	10	38	1.80
5821976--5822021	25	1.9	24	86	8	67	36	6	4	52	1.47
5822717--5822871	82	1.9	83	85	4	215	37	19	18	24	1.94
5822749--5822917	42	4.1	41	75	15	141	36	17	16	28	1.92
5822717--5822902	82	2.2	80	80	9	212	37	18	17	25	1.93
5822883--5823064	41	4.5	41	80	4	199	37	15	16	30	1.90
5822864--5823041	82	2.2	82	82	4	216	35	15	16	32	1.90
5824441--5824610	42	4.1	42	75	6	141	27	14	22	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5831962--5832029	21	3.3	20	86	8	66	45	20	32	1	1.60
5831975--5832030	21	2.7	21	97	0	103	44	23	30	1	1.63
5832435--5832772	43	7.9	43	80	3	279	34	23	16	24	1.95
5832526--5832772	129	1.9	128	83	4	318	32	25	16	25	1.96
5843830--5843859	10	3.0	10	100	0	60	20	0	0	80	0.72
5845209--5845394	43	4.3	42	76	10	153	22	21	22	34	1.97
5845792--5845832	21	2.0	21	90	0	64	0	41	19	39	1.52
5845821--5845868	21	2.5	20	90	10	73	2	39	22	35	1.66
5845827--5845878	21	2.5	21	83	0	77	1	44	17	36	1.60
5848592--5848626	14	2.5	14	100	0	70	31	8	17	42	1.79
5849637--5849757	42	2.9	42	85	6	140	44	23	8	23	1.80
5849793--5849870	41	1.9	41	86	0	111	33	20	21	24	1.97
5849811--5849909	41	2.4	41	84	0	126	34	23	14	28	1.93
5850263--5850301	18	2.2	18	85	0	51	48	17	2	30	1.61
5851207--5851251	22	2.0	22	91	0	72	35	13	8	42	1.75
5852080--5852124	23	2.0	23	81	0	54	28	26	24	20	1.99
5852820--5852862	21	2.0	21	86	0	59	16	25	27	30	1.97
5860649--5860907	82	3.1	79	77	8	250	34	22	13	29	1.92
5872614--5872646	12	2.6	13	85	9	50	21	0	0	78	0.75
5873251--5873297	17	2.8	17	81	12	53	27	23	0	48	1.51
5882367--5882505	72	1.9	72	83	2	181	38	13	18	29	1.89
5882505--5882848	170	2.0	170	92	1	564	36	18	15	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5883612--5883652	22	1.9	21	90	5	64	70	4	0	24	1.06
5883738--5883778	22	1.9	21	90	5	64	70	2	0	26	0.99
5883563--5883815	126	2.0	126	96	0	470	44	12	12	30	1.80
5893239--5893412	29	5.9	29	95	4	305	14	37	27	19	1.91
5893435--5893499	31	2.1	31	100	0	130	3	29	32	35	1.73
5893697--5893721	12	2.1	12	100	0	50	16	0	60	24	1.36
5893761--5893828	35	1.9	35	100	0	136	29	29	14	26	1.95
5894257--5894316	21	2.9	21	75	7	61	35	0	13	51	1.41
5894696--5894722	14	1.9	14	100	0	54	7	3	14	74	1.18
5894693--5894725	17	1.9	17	88	11	50	9	3	15	72	1.21
5894889--5894913	11	2.3	11	100	0	50	40	8	16	36	1.77
5896228--5896254	2	13.5	2	100	0	54	51	0	0	48	1.00
5896342--5896374	2	16.0	2	93	6	57	3	48	0	48	1.17
5904759--5904787	7	4.3	7	91	8	51	86	0	0	13	0.58
5904759--5904787	13	2.1	14	93	6	51	86	0	0	13	0.58
5905853--5905895	13	3.3	13	86	0	68	18	41	20	18	1.90
5905848--5905895	26	2.0	24	88	12	71	18	43	20	16	1.88
5905831--5905875	18	2.5	18	92	0	72	20	51	17	11	1.75
5908412--5908473	22	2.8	22	85	2	79	19	14	17	48	1.81
5909901--5910203	154	2.0	149	94	4	536	43	9	8	38	1.67
5917430--5917476	24	2.0	24	87	8	69	44	19	21	14	1.86
5933019--5933087	36	1.9	36	93	0	120	47	0	4	47	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5937415--5937464	23	2.1	24	82	10	59	32	12	2	54	1.49
5937908--5937972	30	2.2	30	83	5	78	38	16	9	35	1.81
5940240--5940281	18	2.3	18	95	0	75	28	11	33	26	1.92
5943627--5943696	12	5.8	12	73	6	52	15	14	20	50	1.78
5943590--5943694	48	2.2	48	81	6	115	18	17	17	47	1.83
5943627--5943698	24	3.0	24	83	0	99	16	13	19	50	1.79
5945426--5945572	74	2.0	74	93	2	251	29	15	32	22	1.95
5953726--5953773	20	2.3	21	82	7	62	31	0	16	52	1.45
5953751--5953812	28	2.2	29	88	8	92	32	0	11	56	1.35
5957337--5957554	26	8.6	26	77	12	202	45	3	9	42	1.52

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