genome.fa.s1547.2.7.7.80.10.50.1000.49.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  49  of  51  ( 6083 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)
9626744--9626820	22	3.5	22	90	0	127	37	25	14	22	1.92
9627562--9627896	106	3.2	106	94	0	598	33	25	18	22	1.97
9628643--9628747	37	2.8	37	86	0	147	40	15	14	30	1.87
9629206--9629249	21	2.0	22	83	12	56	36	6	0	56	1.26
9629258--9629323	20	3.2	22	75	16	61	31	4	0	63	1.14
9629578--9629609	2	16.5	2	93	6	57	46	0	0	53	1.00
9629557--9629648	4	22.5	4	80	8	60	29	4	0	66	1.11
9629610--9629664	22	2.4	24	80	17	64	18	7	0	74	1.04
9630199--9630234	16	2.2	16	100	0	72	27	0	44	27	1.55
9632149--9632230	37	2.2	38	91	4	132	19	29	20	30	1.97
9632639--9632671	2	16.5	2	100	0	66	48	0	0	51	1.00
9634957--9635007	17	2.9	17	79	5	57	31	0	0	68	0.90
9636740--9636803	30	2.1	30	82	0	74	10	31	21	35	1.88
9639663--9640497	423	2.0	411	96	3	1546	36	13	16	34	1.88
9642070--9642127	14	4.1	15	71	24	54	63	3	0	32	1.11
9642265--9642307	2	22.0	2	95	4	79	51	0	0	48	1.00
9645309--9645413	51	2.1	51	90	0	165	40	11	16	31	1.84
9645518--9645626	53	2.1	53	92	0	182	47	17	9	25	1.77
9645608--9645674	31	2.2	30	82	15	84	34	25	5	34	1.80
9645627--9645690	31	2.1	31	91	5	103	25	28	7	39	1.83
9652598--9652690	21	4.5	21	78	4	100	39	18	24	17	1.91
9652598--9652690	41	2.3	41	100	0	186	39	18	24	17	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9652617--9652751	41	3.3	41	82	6	132	38	20	21	19	1.94
9652679--9652773	20	4.7	20	78	2	82	35	24	16	23	1.95
9652961--9653004	22	2.0	22	95	0	79	20	45	15	18	1.85
9653237--9653274	20	1.9	20	88	0	58	13	15	21	50	1.78
9654067--9654111	18	2.5	18	85	0	63	26	42	15	15	1.87
9654600--9654655	20	2.8	20	81	2	69	39	21	23	16	1.92
9654608--9654691	19	4.6	19	74	15	70	41	22	22	13	1.88
9654698--9654820	20	6.7	19	75	10	87	13	19	23	43	1.86
9656653--9656688	14	2.6	14	90	0	54	30	0	22	47	1.52
9656805--9656872	19	3.8	19	81	14	92	48	16	22	13	1.80
9656862--9656915	19	2.8	19	91	0	90	16	20	16	46	1.84
9657697--9657763	21	3.2	21	68	4	55	20	19	35	23	1.95
9657697--9657819	42	2.9	41	80	7	113	23	17	36	22	1.94
9659820--9660018	19	10.8	19	71	15	123	45	20	20	13	1.84
9659845--9659932	33	2.6	33	90	1	131	38	23	25	12	1.90
9659915--9660023	19	5.7	19	86	2	164	48	19	18	13	1.81
9660603--9660655	20	2.7	20	93	0	88	26	20	28	24	1.99
9660664--9660717	20	2.7	20	88	0	81	27	16	22	33	1.95
9663460--9663535	36	2.1	36	85	7	100	47	1	2	48	1.24
9667994--9668037	22	2.0	22	95	0	79	36	20	22	20	1.95
9668108--9668148	21	2.0	21	95	0	73	39	0	0	60	0.96
9680635--9680674	17	2.4	17	87	4	55	55	2	5	37	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9682583--9682638	24	2.3	24	96	0	103	33	21	12	32	1.91
9682747--9682792	21	2.2	21	84	3	58	47	26	15	10	1.78
9685870--9685904	18	1.9	18	88	0	52	54	11	11	22	1.68
9691092--9691117	8	3.2	8	100	0	52	11	0	0	88	0.52
9703795--9703866	26	3.0	24	68	27	62	26	6	4	62	1.39
9706688--9706822	33	4.2	33	76	6	107	37	4	10	48	1.58
9706959--9707021	32	2.0	32	87	0	90	38	1	6	53	1.36
9709497--9709580	38	2.2	38	89	0	123	36	7	1	54	1.35
9709545--9709585	17	2.4	17	87	4	55	43	4	2	48	1.37
9709661--9709686	2	13.0	2	100	0	52	50	0	0	50	1.00
9710890--9710929	21	1.9	21	84	0	53	55	7	7	30	1.56
9721206--9721250	14	2.9	16	87	9	67	17	22	11	48	1.78
9724410--9724442	17	2.0	17	88	5	50	33	42	3	21	1.68
9729800--9729896	33	2.9	33	89	0	149	38	11	16	34	1.84
9739693--9739743	20	2.6	19	79	14	59	31	1	19	47	1.61
9747058--9747149	44	2.1	45	87	2	132	53	7	4	34	1.49
9747061--9747159	44	2.3	44	79	8	121	51	8	4	36	1.50
9753455--9753636	94	1.9	94	100	0	364	31	12	25	29	1.93
9758670--9758702	3	11.0	3	100	0	66	33	0	0	66	0.92
9770559--9770610	24	2.2	24	83	10	63	42	5	5	46	1.51
9770613--9770683	25	2.8	26	76	8	74	56	1	0	42	1.08
9771487--9771539	21	2.5	21	78	6	63	20	22	18	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9771529--9771581	21	2.5	21	90	0	88	33	18	26	20	1.96
9771592--9771656	20	3.2	20	73	0	67	24	26	18	30	1.98
9772157--9772215	20	3.0	20	87	0	73	15	18	22	44	1.87
9772352--9772406	25	2.2	24	78	15	58	20	9	18	52	1.71
9773535--9773582	18	2.7	18	93	0	87	27	45	12	14	1.81
9774123--9774189	20	3.4	20	81	2	73	38	23	22	14	1.92
9774162--9774244	19	4.6	19	79	14	113	45	20	20	13	1.84
9774283--9774337	20	2.8	19	83	8	65	16	23	23	36	1.94
9774311--9774362	20	2.6	20	90	0	77	23	11	28	36	1.90
9775813--9775906	20	5.1	19	73	17	81	43	20	23	12	1.86
9775862--9775950	14	5.6	14	69	23	61	40	24	23	11	1.87
9775841--9775956	33	3.5	33	97	1	214	40	24	23	12	1.88
9775998--9776052	20	2.8	20	81	13	78	12	20	21	45	1.84
9776593--9776643	20	2.5	20	83	3	66	19	21	19	39	1.93
9776633--9776681	21	2.3	21	79	6	64	34	18	24	22	1.96
9777886--9777910	6	4.2	6	100	0	50	0	20	32	48	1.50
9780176--9780212	17	2.2	17	90	0	56	64	0	2	32	1.07
9781453--9781516	2	32.0	2	100	0	128	50	0	0	50	1.00
9785454--9785576	51	2.4	50	83	11	160	15	31	29	23	1.95
9786289--9786331	21	2.0	21	81	0	50	30	30	25	13	1.94
9786311--9786462	68	2.2	68	88	3	218	26	26	27	18	1.98
9786767--9786838	29	2.5	29	83	0	90	37	9	13	38	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9787132--9787198	22	3.0	22	100	0	134	19	26	26	26	1.99
9793229--9793271	21	2.0	21	81	0	50	30	30	25	13	1.94
9793251--9793402	68	2.2	68	88	3	218	26	26	27	18	1.98
9793706--9793777	29	2.5	29	83	0	90	37	9	13	38	1.78
9794071--9794137	22	3.0	22	100	0	134	19	26	26	26	1.99
9799980--9800020	18	2.3	18	91	4	66	63	2	4	29	1.28
9803731--9803765	14	2.5	14	90	0	61	40	8	14	37	1.76
9806397--9806457	27	2.3	27	100	0	122	34	26	6	32	1.82
9808245--9808301	2	28.5	2	100	0	114	49	0	0	50	1.00
9810505--9810534	14	2.1	14	93	0	51	13	13	60	13	1.60
9810570--9810727	56	2.8	56	93	0	262	41	11	11	35	1.77
9814686--9814737	15	3.7	15	73	26	60	61	3	0	34	1.14
9814684--9814736	25	2.1	25	100	0	106	60	3	0	35	1.15
9816102--9816750	182	3.6	181	86	3	853	42	12	18	27	1.85
9818966--9819011	21	2.1	21	84	4	56	30	15	10	43	1.81
9818745--9820786	399	5.2	399	85	6	3031	37	16	14	31	1.89
9819144--9820717	391	4.0	385	86	5	2224	37	16	14	31	1.89
9818241--9820785	790	3.2	790	98	0	4909	37	16	14	31	1.89
9820546--9820591	21	2.1	21	84	4	56	30	15	10	43	1.81
9824069--9824122	21	2.5	22	90	3	83	40	7	14	37	1.74
9824341--9824379	20	2.0	20	89	0	60	35	5	15	43	1.69
9824473--9824517	23	2.0	23	86	0	63	37	22	6	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9833558--9833613	2	28.0	2	89	7	87	50	3	0	46	1.19
9834885--9834910	3	8.7	3	100	0	52	30	0	0	69	0.89
9837207--9837232	2	13.0	2	100	0	52	50	0	0	50	1.00
9838397--9838422	5	5.2	5	100	0	52	0	42	0	57	0.98
9839202--9839258	28	2.0	28	96	0	105	42	10	24	22	1.85
9843169--9844259	106	10.3	106	94	0	1857	22	18	25	32	1.97
9843169--9844259	423	2.6	423	95	1	1918	22	18	25	32	1.97
9854077--9854122	17	2.6	17	79	3	56	50	4	2	43	1.34
9857996--9858041	21	2.2	20	81	14	58	50	0	4	45	1.21
9859341--9859394	28	1.9	28	88	0	81	27	14	22	35	1.93

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