genome.fa.s8539.2.7.7.80.10.50.1000.30.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  30  of  31  ( 3630 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)
5798726--5798771	20	2.3	20	92	0	74	15	19	23	41	1.89
5800165--5800212	25	1.9	25	86	0	69	50	18	10	20	1.76
5800318--5800367	20	2.5	20	90	0	82	14	16	22	48	1.81
5800653--5800688	18	2.0	18	94	0	63	16	2	25	55	1.55
5802951--5802996	24	2.0	24	91	4	76	36	19	21	21	1.95
5803927--5804001	19	3.8	20	87	7	91	29	12	21	37	1.89
5803929--5804061	20	6.7	20	77	7	110	24	12	22	39	1.89
5803950--5804081	60	2.2	61	80	9	146	25	13	21	40	1.90
5803944--5804120	20	8.9	20	75	9	121	22	14	22	40	1.90
5803968--5804120	60	2.5	60	78	11	154	21	15	22	40	1.90
5803989--5804120	40	3.3	40	83	6	144	20	15	23	40	1.90
5804341--5804374	17	1.9	18	88	5	52	55	0	0	44	0.99
5806499--5806561	31	2.0	32	87	3	92	49	4	4	41	1.45
5806490--5806565	31	2.6	29	75	17	75	47	3	5	43	1.44
5806499--5806582	31	2.7	31	78	9	89	48	4	4	41	1.45
5809054--5809089	7	5.3	7	86	6	56	27	27	27	16	1.97
5809080--5809137	17	3.3	17	85	9	64	12	18	46	22	1.82
5809135--5809174	19	2.1	19	90	0	62	30	30	22	17	1.97
5809144--5809202	10	6.1	10	80	11	70	27	30	25	16	1.97
5809144--5809201	19	3.1	18	87	9	73	27	31	25	15	1.96
5821517--5821613	42	2.3	42	82	1	124	24	20	23	30	1.98
5821733--5821825	42	2.2	42	94	0	159	25	23	19	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5821864--5821888	13	1.9	13	100	0	50	32	24	20	24	1.98
5821878--5822159	80	3.5	80	89	1	451	30	18	23	28	1.97
5822117--5822229	42	2.7	41	84	9	140	23	19	23	32	1.97
5822642--5822837	53	3.7	53	86	2	279	29	20	27	22	1.99
5830289--5830367	20	4.1	20	82	11	94	29	30	25	15	1.96
5830293--5830366	10	7.7	9	73	19	51	29	31	25	13	1.94
5830293--5830367	39	1.9	39	84	10	100	29	30	25	14	1.95
5831662--5831692	16	1.9	16	93	0	53	38	6	19	35	1.77
5831771--5831844	38	1.9	38	88	0	112	35	14	8	41	1.76
5833995--5834055	23	2.7	23	81	0	86	19	54	16	9	1.70
5833999--5834068	18	3.6	18	73	17	68	18	50	18	12	1.78
5834049--5834073	13	1.9	13	100	0	50	16	40	24	20	1.91
5836524--5836615	24	3.8	24	90	5	150	25	17	18	39	1.92
5850591--5850719	69	1.9	69	88	3	197	41	17	11	28	1.85
5864540--5864574	18	1.9	18	88	0	52	31	2	17	48	1.61
5865611--5865913	149	2.0	148	91	1	482	26	15	21	35	1.94
5869730--5869765	18	2.0	18	88	0	54	30	8	16	44	1.77
5870804--5871106	149	2.0	148	91	1	491	27	16	20	35	1.94
5871084--5871129	23	2.0	23	91	0	74	21	23	26	28	1.99
5874678--5874714	19	2.0	18	89	5	56	48	0	0	51	1.00
5884748--5884913	85	2.0	84	89	3	253	29	18	22	29	1.97
5884892--5884939	13	3.7	13	94	0	78	33	12	20	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5884885--5884939	26	2.1	26	86	0	74	34	12	21	30	1.91
5896739--5896865	23	5.7	23	90	2	165	21	25	31	22	1.98
5896720--5896865	21	6.7	22	89	2	172	20	26	30	22	1.98
5898101--5898160	18	3.2	18	83	7	75	21	46	16	15	1.83
5900602--5900717	24	4.8	24	87	4	162	25	15	18	40	1.90
5909884--5909930	15	3.1	15	90	0	76	8	17	65	8	1.44
5920065--5920098	16	2.1	16	94	0	59	32	26	8	32	1.87
5920832--5920960	69	1.9	69	88	3	197	41	17	11	28	1.85
5927427--5927453	14	1.9	14	100	0	54	62	0	0	37	0.95
5930536--5930722	20	9.2	20	82	5	200	25	19	16	37	1.93
5930514--5930722	41	5.1	41	83	4	219	25	19	16	38	1.92
5930536--5930722	61	3.1	61	83	6	238	25	19	16	37	1.93
5930687--5930730	20	2.2	20	87	0	61	34	13	20	31	1.92
5931585--5931638	24	2.2	24	93	0	90	20	18	20	40	1.91
5934135--5934261	33	3.8	33	92	0	200	45	16	23	14	1.84
5934115--5934265	19	8.7	18	66	22	65	44	17	23	13	1.85
5934261--5934298	19	2.0	19	89	0	58	13	15	28	42	1.85
5934276--5934369	33	2.8	33	83	3	118	13	17	21	47	1.81
5934271--5934337	19	3.8	18	73	18	70	10	16	23	49	1.77
5934475--5934510	14	2.6	14	86	4	56	44	22	0	33	1.53
5935853--5935932	21	3.8	20	68	12	54	25	22	31	21	1.98
5936353--5936446	19	4.8	19	81	5	107	48	18	20	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5936353--5936450	39	2.5	39	88	1	133	48	17	20	13	1.80
5936377--5936476	33	2.8	36	83	8	116	47	19	21	13	1.82
5936476--5936586	39	2.9	37	85	8	114	9	19	22	47	1.79
5936476--5936586	58	1.9	58	83	3	143	9	19	22	47	1.79
5936486--5936586	19	5.2	19	87	3	130	7	20	21	49	1.74
5936676--5937040	91	4.1	92	90	6	547	46	18	12	21	1.83
5936676--5937040	180	2.0	181	90	6	573	46	18	12	21	1.83
5938705--5938767	20	3.2	20	78	17	76	46	15	23	14	1.83
5938791--5938835	20	2.4	18	79	13	54	13	22	20	44	1.85
5939401--5939446	21	2.2	21	88	0	65	36	17	28	17	1.92
5970421--5970522	21	4.7	21	84	6	132	20	26	31	21	1.98
5970421--5970525	44	2.4	43	84	6	131	20	26	30	22	1.98
5974329--5974381	21	2.5	20	82	11	54	35	9	1	52	1.45
5979019--5979053	14	2.5	14	90	0	52	34	20	17	28	1.95
5987240--5987331	18	4.9	18	77	16	98	41	0	13	45	1.43
5996668--5996782	59	1.9	58	83	10	144	32	21	4	41	1.73
6002041--6002074	16	2.1	17	88	5	52	50	8	0	41	1.34
6002556--6002615	25	2.4	25	81	13	70	68	0	0	31	0.90
6002571--6002621	25	2.0	25	81	7	59	70	0	0	29	0.87
6003263--6003290	14	2.0	14	100	0	56	35	35	21	7	1.81
6004268--6004297	15	2.1	15	93	6	53	26	0	3	70	1.03
6004356--6004420	2	33.5	2	87	6	98	46	1	1	50	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6005464--6005501	15	2.5	15	95	0	67	31	15	0	52	1.43
6007070--6007131	28	2.2	28	82	5	72	20	9	30	38	1.85
6007088--6007135	14	3.4	14	94	0	87	16	8	31	43	1.78
6012154--6012203	2	25.0	2	100	0	100	50	0	0	50	1.00
6013971--6014195	44	5.1	42	68	13	132	32	16	19	32	1.93
6016099--6016150	20	2.5	21	81	3	61	40	19	23	17	1.91
6016139--6016252	20	5.7	20	82	6	113	32	23	18	25	1.97
6016136--6016252	61	1.9	61	85	0	162	34	23	17	24	1.96
6016139--6016232	41	2.3	40	85	5	118	35	22	18	24	1.96
6016812--6016850	19	2.1	19	90	0	60	56	23	15	5	1.59
6016846--6017010	19	9.1	19	75	15	143	12	23	20	44	1.84
6016851--6017010	33	4.5	35	82	10	148	11	22	20	45	1.83
6016891--6016985	33	2.8	33	93	1	154	11	26	22	40	1.88
6019065--6019131	21	3.2	21	66	6	55	23	35	20	19	1.95
6019013--6019131	42	2.8	42	81	5	107	23	36	17	22	1.95
6020490--6020525	14	2.6	14	95	0	63	30	0	25	44	1.54
6020632--6020698	19	3.8	19	75	18	72	46	19	22	11	1.82
6020707--6020866	33	4.8	33	90	3	259	14	23	19	42	1.88
6020794--6020848	14	3.6	14	73	21	56	10	23	20	45	1.82
6023158--6023182	12	2.1	12	100	0	50	0	28	0	72	0.86
6023357--6023410	24	2.2	24	90	0	81	38	20	16	24	1.92
6024399--6024436	20	1.9	20	94	0	67	39	21	21	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6024460--6024513	14	3.5	14	77	22	63	11	20	20	48	1.80
6024442--6024512	33	2.2	33	81	0	79	19	21	21	38	1.94
6024456--6024532	33	2.3	33	90	0	118	12	23	22	41	1.88
6024620--6024670	14	3.6	14	89	7	77	50	19	0	29	1.48
6026537--6026623	20	4.5	19	84	5	104	40	22	22	13	1.90
6026538--6026612	39	1.9	39	86	5	107	38	22	24	14	1.92
6026671--6026728	14	3.9	14	75	16	62	12	17	22	48	1.80
6026654--6026744	32	2.8	33	91	3	157	13	18	20	47	1.82
6026729--6026783	20	2.8	19	83	8	65	16	23	23	36	1.94
6027259--6027303	18	2.5	18	88	0	72	13	15	44	26	1.83

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