genome.fa.s2647.2.7.7.80.10.50.1000.21.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

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  21  of  26  ( 3011 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)
5617102--5617146	20	2.2	20	100	0	90	17	11	37	33	1.85
5619858--5619910	23	2.2	24	90	3	81	9	16	11	62	1.54
5621061--5621099	12	3.6	12	80	19	50	17	43	7	30	1.77
5622529--5622558	15	2.0	15	93	0	51	30	0	30	40	1.57
5633730--5633769	19	2.1	19	90	9	64	60	0	15	25	1.35
5634184--5634225	20	2.2	20	91	4	68	42	4	16	35	1.69
5637698--5637739	19	2.2	19	91	8	68	59	0	14	26	1.35
5638152--5638200	19	2.5	20	90	3	73	44	6	14	34	1.70
5639166--5639204	20	2.0	19	85	5	51	41	10	17	30	1.83
5641639--5641685	14	3.1	15	75	12	51	72	6	19	2	1.17
5645502--5645580	35	2.2	35	81	2	86	30	36	2	30	1.71
5647250--5647285	15	2.4	15	90	0	54	55	0	25	19	1.43
5647767--5647819	21	2.7	19	80	11	70	43	5	13	37	1.67
5650244--5650296	21	2.6	21	91	5	83	47	5	13	33	1.66
5652454--5652506	16	3.2	16	77	17	56	66	0	18	15	1.26
5652630--5652672	11	4.2	11	82	14	56	0	18	4	76	0.95
5652630--5652672	5	8.4	5	80	14	52	0	18	4	76	0.95
5652698--5652741	21	2.1	21	87	4	63	2	13	2	81	0.88
5653528--5653579	21	2.6	20	90	6	79	44	5	15	34	1.70
5654288--5654327	20	2.0	21	85	5	55	50	12	17	20	1.78
5654700--5654759	30	2.0	30	100	0	120	30	16	23	30	1.96
5657567--5657634	35	1.9	36	93	3	120	29	2	36	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5660139--5660242	33	3.1	33	82	9	95	30	36	1	30	1.69
5660828--5660879	16	3.3	15	77	17	52	15	17	0	67	1.24
5666467--5666515	17	2.8	18	85	14	68	69	0	14	16	1.19
5667126--5667193	35	1.9	36	93	3	120	29	2	36	30	1.72
5670396--5670448	16	3.2	16	77	17	56	66	0	18	15	1.26
5670646--5670678	17	2.0	17	94	5	59	0	15	0	84	0.61
5670654--5670686	13	2.6	13	85	4	50	0	18	0	81	0.68
5674334--5674386	16	3.2	16	77	17	56	66	0	18	15	1.26
5675020--5675105	13	7.2	12	72	22	58	30	3	36	30	1.74
5675005--5675106	36	2.9	36	92	1	161	30	5	33	30	1.81
5678860--5678964	36	2.9	36	92	1	176	29	4	35	30	1.78
5682166--5682218	16	3.2	16	77	17	56	66	0	18	15	1.26
5682346--5682419	30	2.5	30	80	8	87	4	16	2	77	1.04
5682373--5682418	6	7.7	6	83	13	51	2	15	0	82	0.76
5682797--5682901	36	2.9	36	92	1	176	29	4	35	30	1.78
5685426--5685468	23	1.9	23	85	4	61	6	13	13	65	1.46
5693036--5693078	23	1.9	21	81	13	50	34	13	18	32	1.90
5694294--5694348	24	2.3	24	70	14	60	7	14	10	67	1.41
5704510--5704562	22	2.3	23	93	3	90	32	35	3	28	1.75
5704704--5704739	15	2.4	15	90	0	54	19	25	0	55	1.43
5705622--5705666	20	2.2	21	80	11	58	35	2	15	46	1.58
5716165--5716211	24	2.0	24	82	0	58	31	12	12	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5717356--5717397	5	8.6	5	84	5	59	0	19	2	78	0.86
5717386--5717438	24	2.2	24	86	3	70	15	13	15	56	1.67
5729233--5729281	16	2.9	16	84	6	53	16	22	0	61	1.34
5731001--5731043	21	2.1	20	91	4	68	13	23	0	62	1.31
5731790--5731877	44	2.0	44	97	0	167	27	23	15	32	1.95
5738707--5738755	17	2.9	17	82	14	57	77	8	12	2	1.07
5738780--5738826	14	3.1	15	75	12	51	70	6	19	4	1.26
5744400--5744438	17	2.2	18	86	13	55	76	7	15	0	0.99
5744465--5744509	15	2.9	16	83	12	58	77	2	17	2	0.97
5751365--5751389	11	2.3	11	100	0	50	16	36	8	40	1.77
5759344--5759399	28	2.0	28	92	0	94	46	14	14	25	1.82
5768563--5768617	22	2.5	22	84	0	74	40	14	18	27	1.89
5769019--5769201	46	4.0	46	86	1	260	44	9	21	24	1.81
5769052--5769261	26	9.0	25	74	18	118	45	9	21	23	1.80
5769034--5769222	20	8.6	20	71	21	110	44	8	22	23	1.81
5769020--5769248	66	3.4	66	74	16	191	44	8	22	24	1.80
5769034--5769268	92	2.6	90	80	9	246	45	8	22	24	1.79
5769212--5769268	26	2.2	26	87	0	78	49	3	22	24	1.66
5775627--5775889	20	11.9	20	69	17	112	44	10	23	20	1.83
5775615--5776035	46	9.3	46	86	4	568	45	10	23	20	1.81
5775781--5776035	26	10.9	26	66	22	145	46	9	24	19	1.79
5775615--5776035	178	2.3	181	87	4	591	45	10	23	20	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5779817--5779865	20	2.4	20	86	3	62	34	10	22	32	1.88
5782605--5782648	18	2.4	18	92	0	70	34	20	22	22	1.97
5801187--5801319	60	2.2	59	78	7	144	45	3	18	32	1.67
5802009--5802083	22	3.4	22	100	0	150	34	0	8	57	1.28
5802489--5802535	24	2.0	24	91	0	76	38	12	8	40	1.74
5803281--5803358	24	3.3	23	72	13	68	19	6	15	58	1.58
5803370--5803420	23	2.2	23	89	0	75	27	13	15	43	1.85
5803377--5803424	23	2.1	23	96	0	87	22	12	18	45	1.83
5803377--5803442	23	2.9	23	86	0	69	25	13	16	43	1.85
5806814--5806859	23	2.0	23	91	0	74	50	4	17	28	1.65
5806827--5806873	23	2.1	23	84	11	62	53	4	17	25	1.62
5809194--5809826	116	5.4	116	88	4	893	34	20	12	32	1.90
5809194--5809817	59	10.7	59	89	2	892	34	20	12	32	1.89
5809192--5809826	175	3.6	174	89	3	915	34	20	12	32	1.90
5816002--5816028	13	2.1	13	100	0	54	48	7	22	22	1.75
5816556--5816691	43	3.2	43	86	7	172	30	22	6	40	1.79
5819431--5819545	57	2.0	57	100	0	230	36	22	12	28	1.90
5819784--5820352	116	4.9	118	90	3	843	35	20	12	31	1.89
5819785--5820352	59	9.7	59	92	2	866	35	20	12	31	1.89
5819785--5820352	175	3.2	173	91	3	833	35	20	12	31	1.89
5819784--5820352	234	2.4	234	90	3	731	35	20	12	31	1.89
5820775--5820826	20	2.6	21	84	6	72	17	30	17	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5822113--5822148	18	2.1	17	89	5	54	44	0	8	47	1.33
5822271--5822318	2	24.5	2	91	4	80	52	0	0	47	1.00
5822457--5822577	15	7.9	15	69	23	58	51	4	0	44	1.20
5822541--5822671	35	3.7	35	71	13	106	50	3	0	46	1.17
5822674--5822709	18	2.0	18	89	10	56	47	5	0	47	1.25
5822559--5822701	74	1.9	74	81	8	175	48	3	0	48	1.18
5822963--5823016	21	2.6	21	100	0	108	50	5	3	40	1.44
5822963--5823033	21	3.4	21	90	1	90	47	7	7	38	1.58
5823462--5823529	31	2.2	31	84	5	84	27	25	11	35	1.91
5823477--5823535	31	1.9	31	96	0	109	23	25	15	35	1.94
5826114--5826175	31	2.0	31	90	0	97	40	12	20	25	1.89
5827065--5827160	14	7.0	14	68	11	56	53	0	2	44	1.12
5827127--5827217	42	2.3	39	78	14	105	48	2	2	47	1.26
5827138--5827235	42	2.4	42	81	5	119	52	2	2	43	1.24
5827269--5827306	18	2.1	18	85	9	51	57	0	0	42	0.98
5827429--5827453	11	2.3	11	100	0	50	52	0	8	40	1.31
5829495--5829551	21	2.6	22	81	8	64	31	12	15	40	1.85
5829807--5829876	23	3.0	23	80	0	86	18	24	24	32	1.97
5830060--5830166	6	17.8	6	98	0	178	50	12	16	20	1.77
5832501--5832537	3	12.3	3	100	0	74	35	0	0	64	0.94
5833081--5833118	14	2.6	15	79	4	51	31	13	0	55	1.38
5833738--5833805	33	2.0	34	82	2	84	30	13	22	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5834959--5835040	38	2.2	38	84	0	110	26	18	15	39	1.91
5835011--5835147	62	2.2	62	82	0	166	28	22	18	30	1.97
5835284--5835981	36	19.1	36	85	4	900	39	18	20	21	1.92
5835986--5836413	47	8.6	48	71	14	260	26	18	20	33	1.96
5836035--5836494	102	4.5	102	83	3	570	26	19	20	33	1.96
5836035--5836494	204	2.3	203	86	3	629	26	19	20	33	1.96
5836644--5836669	3	8.7	3	100	0	52	34	0	0	65	0.93
5838751--5838794	2	22.0	2	100	0	88	50	0	0	50	1.00
5840332--5840424	25	3.8	24	87	5	125	23	22	27	25	2.00
5840326--5840422	11	8.0	12	68	21	51	23	21	26	27	1.99

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