genome.fa.s9587.2.7.7.80.10.50.1000.26.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  26  of  29  ( 3457 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)
5724317--5724349	17	1.9	17	93	0	57	15	42	6	36	1.71
5726450--5726554	53	2.0	54	98	1	203	21	6	10	60	1.52
5726635--5726686	21	2.5	21	93	0	86	30	3	0	65	1.10
5727220--5727255	18	1.9	19	88	5	56	36	5	2	55	1.38
5732644--5732684	2	20.5	2	100	0	82	51	0	0	48	1.00
5733210--5733280	27	2.6	27	79	0	88	67	0	0	32	0.91
5733235--5733279	21	2.2	20	88	11	65	68	0	0	31	0.89
5752895--5752919	7	3.6	7	100	0	50	16	12	56	16	1.68
5768298--5768322	2	12.5	2	100	0	50	52	0	0	48	1.00
5768601--5768680	3	26.3	3	97	2	151	33	0	0	66	0.92
5769797--5769821	11	2.3	11	100	0	50	84	0	0	16	0.63
5774054--5774104	20	2.5	20	100	0	102	19	25	35	19	1.95
5774219--5774260	22	1.9	22	95	0	75	11	23	40	23	1.88
5776833--5776872	21	1.9	21	89	0	62	10	25	40	25	1.86
5776855--5776912	23	2.8	21	84	12	75	18	25	34	20	1.96
5779332--5779361	15	2.0	15	100	0	60	40	26	6	26	1.81
5786852--5786902	20	2.5	20	87	12	70	27	11	29	31	1.92
5790068--5790107	2	20.0	2	100	0	80	50	0	0	50	1.00
5799329--5799390	24	2.7	23	78	9	72	46	14	27	11	1.78
5805500--5805556	24	2.4	24	96	0	105	28	19	33	19	1.96
5807601--5807644	17	2.4	18	85	14	56	4	15	0	79	0.89
5810888--5810945	26	2.2	26	90	0	98	31	18	17	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5813247--5813279	16	2.0	17	88	5	50	9	30	24	36	1.86
5817533--5817610	31	2.5	32	87	6	115	28	20	11	39	1.87
5819063--5819105	12	3.7	11	81	9	50	51	0	0	48	1.00
5823194--5823250	28	2.0	28	80	12	64	28	5	7	59	1.45
5823599--5823637	21	1.9	20	85	15	53	53	5	0	41	1.23
5826431--5826474	21	2.1	21	100	0	88	13	31	18	36	1.90
5827522--5827581	20	3.1	19	76	9	59	78	0	3	18	0.89
5827569--5827628	25	2.4	25	91	2	95	68	6	6	18	1.35
5827761--5827793	16	2.1	16	94	0	57	51	21	6	21	1.69
5830263--5830290	14	2.0	14	100	0	56	35	14	7	42	1.73
5830961--5831000	20	2.0	20	85	9	55	32	0	0	67	0.91
5841145--5841169	6	4.2	6	100	0	50	16	0	52	32	1.44
5843986--5844016	2	15.5	2	100	0	62	51	0	0	48	1.00
5846208--5846296	3	29.3	3	83	10	101	64	0	1	34	1.01
5846855--5847455	217	2.8	216	80	1	632	29	15	19	35	1.93
5852894--5852931	19	2.0	19	100	0	76	15	21	21	42	1.89
5853364--5853420	24	2.5	21	81	13	60	33	5	0	61	1.18
5853378--5853445	22	3.0	22	76	20	68	32	4	1	61	1.24
5854831--5854855	13	1.9	13	100	0	50	16	16	24	44	1.86
5855730--5855764	18	1.9	18	100	0	70	11	28	34	25	1.91
5856326--5856665	31	11.0	31	96	1	623	19	18	22	39	1.93
5856328--5856665	184	1.8	184	96	1	633	19	18	22	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5868760--5868795	18	2.0	18	88	0	54	50	0	16	33	1.46
5868766--5868803	18	2.1	18	90	0	58	47	0	10	42	1.38
5875318--5875381	30	2.1	30	82	5	76	39	26	15	18	1.91
5875993--5876140	64	2.3	64	84	5	192	28	17	20	33	1.96
5878116--5878164	21	2.4	20	86	10	64	30	12	26	30	1.92
5878266--5878298	14	2.4	14	100	0	66	24	9	33	33	1.87
5878782--5878851	23	3.0	23	76	0	77	21	20	28	30	1.98
5882378--5882410	12	2.8	12	90	4	50	36	3	0	60	1.12
5894832--5894880	20	2.3	22	86	10	66	36	8	20	34	1.82
5897791--5897829	20	2.0	20	90	10	62	15	0	5	79	0.90
5897792--5897843	21	2.5	20	79	17	52	17	3	3	75	1.11
5913501--5913543	20	2.2	20	91	0	68	34	20	11	32	1.89
5918599--5919258	136	4.9	136	88	1	950	34	18	20	25	1.96
5919411--5919510	47	2.1	48	92	5	168	43	28	0	29	1.56
5920965--5921010	21	2.2	21	88	7	67	15	2	4	78	1.01
5921597--5921634	14	2.7	14	91	0	58	13	13	23	50	1.76
5924522--5924578	28	2.1	27	83	9	71	52	0	0	47	1.00
5924582--5924611	10	3.1	10	90	9	53	26	0	0	73	0.84
5924623--5924664	12	3.6	12	80	6	50	50	0	0	50	1.00
5933631--5933666	14	2.6	14	95	0	63	5	19	25	50	1.69
5933785--5933829	14	3.1	14	78	15	56	62	0	0	37	0.96
5936521--5936636	44	2.7	43	80	4	126	30	20	16	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5936700--5936780	43	1.9	42	82	7	101	29	17	19	33	1.95
5936718--5936894	43	4.1	43	76	5	137	32	21	18	27	1.97
5936816--5936894	42	1.9	41	87	7	115	35	17	21	25	1.95
5937436--5937475	18	2.2	18	90	0	62	62	0	5	32	1.17
5950302--5950348	2	23.5	2	91	0	76	55	0	44	0	0.99
5950622--5950651	14	2.1	14	93	0	51	36	6	20	36	1.79
5950843--5950868	7	3.7	7	100	0	52	26	0	0	73	0.84
5950964--5951015	23	2.4	21	76	14	61	42	0	1	55	1.10
5951096--5951135	18	2.2	18	86	0	53	57	0	0	42	0.98
5951110--5951199	18	5.1	17	72	17	60	48	0	1	50	1.08
5951173--5951235	23	2.8	22	80	7	65	53	0	1	44	1.10
5951172--5951228	22	2.6	22	81	10	64	54	0	1	43	1.10
5951442--5951533	41	2.2	41	90	1	139	47	18	15	18	1.82
5953673--5953706	18	1.9	17	88	5	50	29	29	23	17	1.97
5966804--5966934	25	5.6	24	70	15	105	38	15	3	43	1.62
5966812--5966852	13	3.2	13	74	19	50	36	9	0	53	1.34
5966893--5966934	13	3.4	13	80	12	52	35	19	0	45	1.50
5972865--5972954	27	3.2	27	68	11	72	30	16	13	40	1.87
5976211--5976299	39	2.3	39	80	7	101	37	19	17	25	1.94
5981826--5981953	64	2.0	64	100	0	256	29	18	18	32	1.95
5984848--5984906	25	2.4	25	94	0	100	35	18	18	27	1.94
5985115--5985173	17	3.5	17	68	13	50	28	16	8	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5988780--5988822	20	2.3	19	88	11	70	23	30	9	37	1.86
5988785--5988822	20	1.9	20	100	0	76	23	28	10	36	1.88
5994908--5994965	18	3.3	18	63	18	50	48	8	17	25	1.75
5994907--5994974	34	2.0	34	100	0	136	44	11	17	26	1.83
6000545--6000585	22	1.9	21	90	5	64	56	0	0	43	0.99
6005704--6005766	32	2.0	31	84	3	81	23	28	25	22	1.99
6007146--6007217	31	2.3	31	100	0	144	37	16	16	29	1.91
6009941--6010006	32	2.0	33	88	2	98	40	9	22	27	1.84
6012486--6012563	20	3.8	20	83	5	95	17	25	28	28	1.98
6018663--6018825	77	2.1	77	87	0	236	34	15	23	25	1.95
6018730--6019091	116	3.2	113	83	5	417	37	16	21	24	1.94
6022378--6022562	69	2.8	66	86	6	246	19	11	41	27	1.85
6022525--6022592	30	2.3	30	97	0	127	25	13	36	25	1.92
6022384--6022598	66	3.2	66	77	11	181	20	12	39	27	1.88
6022457--6022649	96	2.0	97	89	3	298	21	11	42	24	1.86
6023367--6023441	17	4.6	17	74	15	61	58	1	1	38	1.15
6023368--6023428	15	3.9	15	77	12	61	60	0	1	37	1.07
6027187--6027806	324	1.9	323	87	1	920	35	15	17	30	1.92
6028084--6028198	50	2.3	50	83	1	149	53	11	3	32	1.54
6028860--6028932	31	2.3	32	80	7	85	23	5	36	34	1.78
6029031--6029081	21	2.4	21	86	0	75	33	7	15	43	1.76
6037860--6038173	36	9.0	36	67	14	190	23	12	37	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6037846--6038173	66	4.7	71	80	8	343	22	11	38	26	1.89
6038891--6038974	15	5.2	15	76	13	71	58	2	2	36	1.24
6038891--6038974	8	10.4	8	70	25	52	58	2	2	36	1.24
6038891--6038951	16	3.9	15	77	12	61	60	1	1	36	1.16
6041693--6041762	32	2.2	32	84	0	86	28	27	14	30	1.95
6043083--6043143	26	2.3	26	94	0	104	52	27	1	18	1.54
6043429--6044038	326	1.9	326	88	2	920	34	15	18	30	1.92
6045049--6045090	17	2.4	17	96	4	75	73	0	0	26	0.83
6045692--6045886	64	2.9	64	82	15	191	58	11	1	28	1.42
6055192--6055681	243	2.0	243	100	0	980	38	8	11	40	1.73

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