genome.fa.s8488.2.7.7.80.10.50.1000.23.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  23  of  54  ( 6450 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)
5769266--5769385	38	3.2	37	68	15	102	40	15	5	38	1.71
5769643--5769923	103	2.7	103	83	4	352	32	16	11	39	1.85
5769856--5769963	37	3.0	36	76	8	85	29	20	9	40	1.83
5775027--5775155	58	2.2	58	95	1	233	28	13	23	34	1.92
5775999--5776031	16	2.1	16	88	5	50	42	3	3	51	1.32
5776834--5776873	16	2.5	16	83	0	53	50	17	17	15	1.79
5777069--5777129	19	3.2	18	73	11	50	45	1	1	50	1.21
5784519--5784572	26	2.1	26	92	0	90	37	27	14	20	1.92
5789829--5789908	21	3.7	21	84	12	117	23	8	26	41	1.83
5789826--5789912	44	2.0	44	97	0	165	25	8	27	39	1.84
5789897--5789938	17	2.5	17	100	0	84	16	16	23	42	1.88
5790478--5790506	3	9.7	3	100	0	58	34	0	0	65	0.93
5798009--5798082	21	3.5	21	72	20	73	27	20	20	32	1.97
5798607--5798639	12	2.6	13	90	4	50	36	12	6	45	1.66
5810436--5810485	20	2.5	20	87	6	66	32	24	14	30	1.94
5811632--5811682	15	3.2	15	76	15	57	60	3	0	35	1.15
5811632--5811691	17	3.6	16	78	12	59	61	3	0	35	1.12
5812572--5812619	25	1.9	25	86	0	69	39	12	10	37	1.77
5813791--5813815	12	2.1	12	100	0	50	16	16	16	52	1.76
5821309--5821343	16	2.2	16	100	0	70	28	25	22	22	1.99
5822621--5822755	36	3.8	36	91	1	211	21	25	21	31	1.98
5822621--5822752	71	1.9	71	90	3	212	21	25	21	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5826010--5826047	2	19.0	2	100	0	76	50	0	0	50	1.00
5829182--5829231	20	2.4	21	83	3	66	30	14	24	32	1.94
5831521--5831556	16	2.2	16	90	0	54	55	5	11	27	1.57
5831730--5831782	16	3.3	16	89	0	79	33	5	30	30	1.81
5833263--5833910	139	4.7	140	80	3	641	26	15	26	31	1.96
5833394--5833910	277	1.9	278	84	2	700	26	15	26	31	1.96
5834083--5834536	67	6.8	67	84	2	581	37	13	18	30	1.89
5834099--5834536	200	2.2	200	87	3	621	38	13	18	30	1.88
5841444--5841692	120	2.1	117	80	6	270	43	16	19	21	1.88
5843011--5843055	20	2.1	21	84	8	56	37	17	20	24	1.93
5843362--5843473	54	2.1	54	89	0	170	34	21	17	25	1.95
5854221--5854443	46	4.8	46	87	6	308	43	9	20	26	1.82
5854221--5854430	20	9.0	25	65	26	113	43	9	20	26	1.82
5854220--5854443	92	2.4	93	90	1	344	43	9	20	26	1.83
5854325--5854602	66	4.2	65	74	14	200	40	10	24	24	1.86
5854325--5854602	20	12.7	20	72	18	162	40	10	24	24	1.86
5854419--5854602	86	2.1	86	85	2	253	39	10	26	23	1.87
5854452--5854648	46	4.4	46	80	11	187	41	9	24	24	1.84
5860272--5860299	11	2.5	11	100	0	56	14	10	14	60	1.58
5862948--5863021	35	2.1	35	87	0	103	44	20	1	33	1.60
5864834--5864882	17	2.5	19	84	15	57	71	6	14	8	1.29
5867047--5867158	21	5.3	20	73	21	79	32	0	2	64	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5867047--5867162	22	5.3	21	76	16	112	31	0	2	64	1.13
5867049--5867183	64	2.1	65	82	12	163	31	1	2	63	1.18
5867481--5867509	13	2.1	14	93	6	51	37	0	0	62	0.96
5867950--5868017	36	1.9	35	90	3	109	42	5	20	30	1.76
5868358--5868408	12	4.5	11	74	16	50	50	0	1	47	1.12
5868358--5868426	23	2.9	23	80	4	66	53	0	1	44	1.09
5868358--5868432	11	6.6	11	70	10	53	52	0	1	46	1.09
5868358--5868430	34	2.1	34	82	9	87	52	0	1	46	1.09
5868493--5868569	31	2.4	32	81	14	88	49	0	1	49	1.09
5868492--5868560	22	3.1	22	76	12	61	46	0	1	52	1.09
5868751--5868864	42	2.7	42	93	0	192	46	19	15	18	1.84
5869366--5869393	6	4.7	6	100	0	56	50	0	0	50	1.00
5869268--5869577	151	2.0	155	95	4	565	46	3	7	42	1.48
5869519--5869552	6	5.7	6	100	0	68	47	0	0	52	1.00
5872669--5872761	35	2.6	35	82	1	105	27	35	3	33	1.73
5874496--5874534	19	2.0	20	90	5	62	15	35	20	28	1.93
5878670--5878735	16	3.7	17	72	21	55	9	9	7	74	1.23
5879380--5879699	158	2.0	158	99	0	631	37	16	19	26	1.93
5880484--5880531	18	2.7	18	96	3	89	70	0	8	20	1.12
5880501--5880559	24	2.4	24	85	5	73	76	0	5	18	0.97
5883762--5883828	22	3.0	21	66	26	57	40	13	17	28	1.88
5886883--5886931	3	16.0	3	91	4	80	63	2	0	34	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5887978--5888014	16	2.3	16	85	0	56	29	0	0	70	0.88
5887980--5888020	16	2.6	16	78	17	50	31	0	0	68	0.90
5894259--5894327	33	2.1	34	91	2	113	40	7	4	47	1.51
5900085--5900311	118	1.9	116	84	5	305	39	12	14	33	1.84
5900279--5900673	108	3.6	108	70	12	296	37	12	16	33	1.86
5900465--5900512	23	2.0	23	84	11	62	33	12	22	31	1.91
5900182--5900665	226	2.1	223	85	3	648	38	13	15	33	1.85
5900801--5900856	2	28.0	2	100	0	112	50	0	0	50	1.00
5911481--5911686	45	4.6	45	92	0	340	30	18	9	41	1.82
5912218--5912274	22	2.8	20	78	19	71	22	28	17	31	1.97
5912218--5912291	19	3.7	19	81	15	78	22	28	17	31	1.97
5918406--5918641	45	5.2	45	92	0	364	32	18	9	39	1.83
5918406--5918674	45	6.0	45	84	6	226	31	18	9	39	1.84
5918406--5918674	90	3.0	89	84	5	344	31	18	9	39	1.84
5918406--5918668	135	1.9	135	85	1	357	32	19	9	39	1.83
5922521--5922651	39	3.4	39	90	0	181	16	27	25	31	1.96
5924010--5924049	20	1.9	21	90	10	64	12	10	37	40	1.77
5924079--5924119	21	2.0	21	90	0	64	24	26	17	31	1.97
5924149--5924201	17	2.9	18	88	5	72	20	18	37	22	1.94
5927413--5927480	17	4.0	17	81	12	77	22	36	13	27	1.91
5927415--5927480	34	2.0	32	85	5	87	21	37	13	27	1.91
5927510--5927550	21	2.0	21	95	0	73	31	19	26	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5927580--5927619	20	1.9	22	90	10	66	37	35	10	17	1.83
5931659--5931697	20	2.0	20	89	0	60	33	23	10	33	1.88
5931971--5932100	62	2.1	62	98	1	251	20	17	20	41	1.90
5944428--5944479	21	2.5	21	100	0	104	11	23	42	23	1.86
5945220--5945289	3	23.0	3	88	8	106	34	0	0	65	0.93
5946672--5946723	27	1.9	27	84	7	70	46	1	0	51	1.12
5946979--5947618	323	2.0	310	94	4	1129	29	21	16	32	1.95
5951019--5951050	15	2.1	15	94	0	55	25	18	9	46	1.79
5958314--5958377	1	64.0	1	77	0	65	89	0	9	1	0.56
5958315--5958378	12	5.0	12	86	9	83	87	0	10	1	0.61
5958309--5958377	29	2.4	29	90	4	104	86	0	11	1	0.62
5958309--5958378	17	4.2	16	82	8	77	85	0	12	1	0.66
5959357--5959715	93	3.9	93	92	3	591	29	14	21	34	1.93
5959357--5959712	184	1.9	184	93	2	615	29	14	21	34	1.93
5960414--5961171	228	3.3	226	84	6	890	39	13	18	29	1.89
5960912--5960956	24	1.9	23	82	13	56	48	6	26	17	1.72
5960406--5961083	113	6.0	113	83	3	821	38	13	18	30	1.89
5961426--5961485	3	20.0	3	86	13	88	33	0	0	66	0.92
5961421--5961485	18	3.6	18	93	6	105	32	0	0	67	0.91
5966240--5966279	21	1.9	21	90	10	64	55	7	7	30	1.56
5970032--5970114	23	3.8	22	76	12	80	24	31	25	19	1.98
5985231--5985298	3	22.0	3	94	5	118	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5987865--5987930	33	2.0	33	90	0	105	40	6	4	48	1.48
6003098--6003145	17	2.7	18	93	6	73	33	0	18	47	1.49
6003107--6003145	17	2.3	17	100	0	78	38	0	15	46	1.46
6011908--6011994	38	2.3	38	92	6	140	65	2	5	26	1.27
6011933--6012020	18	4.8	18	76	16	74	64	3	3	28	1.25
6011908--6011996	20	4.6	19	75	10	83	65	2	5	26	1.27
6020502--6020527	13	2.0	13	100	0	52	15	0	15	69	1.20
6024968--6025024	13	4.4	13	88	0	87	26	19	19	35	1.95
6024968--6025032	13	5.0	13	85	7	78	24	18	20	36	1.94
6025004--6025161	85	1.9	85	85	5	221	31	18	16	32	1.94

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