genome.fa.s9592.2.7.7.80.10.50.1000.30.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   

This is table  30  of  39  ( 4673 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)
5967321--5967449	19	7.3	19	75	17	125	8	17	28	45	1.77
5967321--5967412	33	2.8	33	93	3	150	7	18	28	45	1.76
5967497--5967868	92	4.1	93	97	2	700	45	19	12	22	1.84
5967497--5967868	185	2.0	183	96	2	694	45	19	12	22	1.84
5969558--5969670	32	3.5	33	91	3	185	46	19	22	11	1.81
5969612--5969675	18	3.7	19	68	21	59	45	21	21	10	1.83
5969687--5969743	14	3.7	14	75	20	60	8	24	22	43	1.81
5969671--5969751	33	2.5	33	93	0	135	8	20	22	48	1.77
5969728--5969803	21	3.7	21	87	3	118	11	23	17	47	1.80
5969883--5969953	33	2.2	33	89	0	106	49	18	21	11	1.78
5970329--5970481	20	7.7	20	80	7	159	18	18	26	36	1.94
5970328--5970481	40	3.8	40	81	5	177	18	18	26	37	1.93
5970468--5970550	21	4.0	21	73	6	78	25	16	24	33	1.96
5970448--5970546	42	2.4	43	77	11	100	21	18	23	37	1.94
5970912--5970958	20	2.3	20	88	0	76	46	10	19	23	1.80
5970921--5970965	20	2.4	19	88	7	65	46	6	26	20	1.75
5971305--5971349	22	2.0	22	100	0	90	31	8	8	51	1.64
5986085--5986157	21	3.5	21	85	7	103	17	34	26	21	1.96
5986678--5986775	34	2.9	34	87	0	133	55	4	5	35	1.41
5987849--5988221	128	2.9	128	93	2	633	32	20	23	22	1.98
5988289--5988329	8	5.2	8	82	5	57	36	29	0	34	1.58
5991139--5991175	19	1.9	19	100	0	74	59	13	10	16	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5992176--5992239	7	9.1	7	100	0	128	28	14	29	28	1.95
5992176--5992247	21	3.4	21	96	3	128	29	12	30	27	1.93
5992394--5992425	6	5.3	6	100	0	64	65	15	0	18	1.27
5993926--5993969	14	3.1	14	90	0	70	22	36	31	9	1.86
5994452--5994574	28	4.5	27	81	9	151	28	0	15	55	1.46
5994502--5994544	21	2.0	21	90	0	68	27	0	16	55	1.41
5996543--5996590	11	4.2	11	79	10	60	43	0	8	47	1.33
5996537--5996588	11	4.4	12	80	7	54	42	0	11	46	1.40
5996554--5996599	23	2.0	24	91	4	76	41	0	6	52	1.27
5996542--5996605	24	2.6	25	80	7	78	42	0	6	51	1.27
5996553--5996622	21	3.1	22	80	13	72	38	0	7	54	1.28
5996785--5996841	12	4.7	12	81	10	62	49	5	5	40	1.48
5996775--5996865	26	3.7	25	83	12	109	46	3	8	41	1.51
5996798--5996863	11	5.6	11	80	5	60	45	1	9	43	1.44
5996775--5996873	14	7.8	13	76	14	84	44	3	9	43	1.51
5996863--5996902	21	1.9	21	85	10	55	40	2	7	50	1.44
5999177--5999210	15	2.2	16	94	5	61	55	5	0	38	1.24
5999264--5999351	30	2.9	30	93	1	140	45	13	1	39	1.51
5999268--5999322	15	3.6	16	70	20	55	43	14	0	41	1.45
5999439--5999538	40	2.4	42	79	12	107	44	12	1	43	1.48
5999550--5999589	21	1.9	21	100	0	80	57	15	0	27	1.38
6000274--6000320	22	2.1	22	84	7	60	36	17	25	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6000288--6000337	24	2.2	22	85	7	64	38	18	24	20	1.93
6000362--6000413	22	2.4	21	81	9	59	28	17	46	7	1.75
6001901--6001964	18	3.5	17	80	15	83	20	15	31	32	1.94
6007792--6007816	12	2.1	12	100	0	50	36	0	24	40	1.55
6008121--6008241	64	1.9	63	86	1	170	34	21	19	24	1.96
6008841--6008932	18	5.0	18	84	5	130	19	19	31	29	1.97
6008841--6008932	38	2.5	36	87	8	132	19	19	31	29	1.97
6009586--6009634	14	3.5	14	88	0	71	10	40	26	22	1.86
6010110--6010278	83	2.0	83	97	0	320	32	10	12	44	1.75
6011009--6011171	81	2.0	81	97	0	308	29	13	18	38	1.89
6012415--6012481	16	4.3	15	78	14	73	65	1	0	32	1.02
6012431--6012484	8	6.8	8	79	14	58	68	1	0	29	1.00
6012423--6012491	15	4.5	15	81	15	72	65	1	0	33	1.02
6012414--6012484	31	2.2	32	87	9	101	66	1	0	32	1.01
6012415--6012491	23	3.3	23	82	13	88	64	1	0	33	1.01
6012486--6012537	2	26.0	2	96	0	95	50	0	1	48	1.12
6014299--6014370	28	2.6	28	80	12	85	37	2	19	40	1.66
6015346--6015643	149	2.0	149	100	0	596	28	15	15	40	1.87
6018952--6019101	64	2.3	62	84	7	176	34	20	17	28	1.95
6019585--6019622	19	2.0	19	90	10	60	42	5	13	39	1.66
6019756--6019863	31	3.5	31	78	3	94	24	16	22	37	1.94
6019809--6019884	30	2.5	30	82	2	89	19	19	26	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6023116--6023266	64	2.3	63	85	6	187	34	19	17	28	1.95
6023922--6024029	31	3.5	31	78	3	94	24	17	22	36	1.95
6023975--6024050	30	2.5	30	82	2	89	19	19	26	34	1.96
6025341--6025389	24	2.0	24	92	4	80	26	20	22	30	1.98
6033008--6033065	24	2.4	24	79	0	71	46	13	22	17	1.83
6034941--6034989	19	2.7	17	84	9	53	26	20	28	24	1.99
6034961--6035170	65	3.2	64	80	8	214	26	18	24	30	1.97
6035629--6035653	2	12.5	2	100	0	50	52	0	0	48	1.00
6037269--6037307	13	3.1	13	92	3	62	51	0	7	41	1.31
6043653--6043758	45	2.3	45	85	4	133	30	20	20	28	1.98
6043698--6043824	65	2.0	63	83	10	159	27	18	22	31	1.97
6044156--6044198	22	2.0	22	90	0	68	32	27	16	23	1.96
6050978--6051028	21	2.6	19	84	9	66	49	7	19	23	1.74
6052826--6052863	20	1.9	20	94	0	67	34	18	21	26	1.96
6054188--6054283	20	5.0	20	72	10	92	22	20	29	27	1.99
6054189--6054281	18	4.9	18	79	7	96	21	20	30	27	1.98
6054189--6054283	38	2.5	38	82	0	127	23	20	29	27	1.98
6056499--6056531	12	2.7	13	90	9	52	63	0	30	6	1.18
6059339--6059658	159	2.0	160	99	0	633	37	21	15	25	1.92
6066388--6066418	16	1.9	16	93	0	53	41	22	16	19	1.89
6065592--6066954	693	2.0	677	91	2	2233	38	11	13	36	1.81
6070086--6070434	174	2.0	170	92	4	578	31	12	15	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6070479--6070563	33	2.6	33	92	3	136	11	10	36	41	1.76
6089968--6090020	21	2.5	21	81	6	72	20	26	18	33	1.96
6090051--6090163	20	5.7	20	90	0	154	30	26	17	25	1.98
6090656--6090714	20	3.0	20	87	0	73	15	18	22	44	1.87
6090851--6090905	25	2.2	24	78	15	58	20	9	18	52	1.71
6091400--6091490	41	2.2	42	84	2	121	23	40	14	21	1.90
6092900--6092938	14	2.8	14	84	0	51	35	0	17	46	1.49
6093043--6093080	20	1.9	20	94	0	67	39	23	21	15	1.92
6093065--6093118	14	3.5	14	77	22	63	48	20	20	11	1.80
6093142--6093217	20	3.8	20	98	0	143	14	23	23	38	1.92
6093130--6093233	40	2.9	34	80	15	127	12	24	24	39	1.89
6093202--6093231	14	2.1	14	93	0	51	10	23	23	43	1.83
6093768--6093855	20	4.4	20	89	0	131	28	20	27	23	1.99
6093830--6093918	41	2.2	41	85	4	117	22	19	22	35	1.95
6093886--6093937	20	2.5	21	87	3	70	21	23	17	38	1.93
6093927--6093979	21	2.5	22	81	6	74	33	18	26	20	1.96
6094578--6094632	2	27.5	2	100	0	110	50	0	0	49	1.00
6096041--6096068	4	7.0	4	100	0	56	50	25	0	25	1.50
6106983--6107035	23	2.3	23	100	0	106	22	9	15	52	1.70
6107357--6107459	52	2.0	52	94	0	179	39	16	12	31	1.86
6107585--6107714	59	2.2	59	82	5	163	36	16	14	32	1.89
6116124--6116166	2	21.5	2	95	0	77	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6117538--6117585	24	1.9	26	87	8	73	35	14	2	47	1.56
6118319--6118712	201	2.0	203	85	4	546	32	14	19	34	1.91
6118714--6118792	33	2.4	34	73	14	83	30	13	10	45	1.77
6126677--6126715	19	2.1	19	95	0	69	20	38	15	25	1.92
6126614--6126822	65	3.2	64	82	8	203	29	25	17	27	1.97
6126663--6126825	65	2.5	65	83	3	213	30	26	15	27	1.96
6128172--6128384	116	1.8	117	81	7	263	50	7	16	25	1.71
6128921--6128960	20	2.0	21	85	14	57	37	15	5	42	1.68
6128920--6128964	20	2.2	20	80	11	56	40	13	4	42	1.64
6133868--6133906	19	2.1	19	95	0	69	20	38	15	25	1.92

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