genome.fa.s1547.2.7.7.80.10.50.1000.2.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  2  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)
158930--158962	16	2.1	16	100	0	66	42	12	18	27	1.85
162512--162558	18	2.7	18	86	3	69	34	8	29	27	1.87
162542--162641	44	2.2	46	76	16	111	28	15	21	36	1.93
162906--163495	253	2.3	244	86	8	787	40	20	13	25	1.89
162906--163495	248	2.3	243	86	8	778	40	20	13	25	1.89
165130--165394	107	2.5	106	85	0	350	32	24	19	24	1.97
165662--165895	120	2.0	120	90	1	371	32	26	17	22	1.97
165984--166099	36	3.2	36	90	1	169	31	18	12	37	1.89
166112--166271	37	4.4	37	84	2	207	21	19	16	42	1.89
166112--166272	73	2.2	73	87	0	223	22	19	16	42	1.89
168027--168053	12	2.2	12	100	0	54	37	0	0	62	0.95
170262--170343	40	2.0	40	95	0	146	24	15	25	34	1.95
170262--170356	40	2.4	40	89	3	131	24	16	26	32	1.96
170442--170564	43	2.8	43	77	15	126	42	7	21	29	1.79
170954--171053	49	2.0	49	100	0	200	41	18	11	30	1.84
171317--171407	2	46.0	2	97	2	175	49	0	0	50	1.00
174043--174099	19	3.0	19	100	0	114	42	5	5	47	1.48
175508--175593	21	4.1	21	84	0	118	44	10	29	16	1.81
175630--175684	25	2.2	25	90	0	83	29	0	49	21	1.50
177448--177485	17	2.3	17	81	4	51	31	0	23	44	1.54
177743--179030	197	6.6	201	89	5	1962	36	14	17	32	1.89
180482--180529	3	16.0	3	91	0	78	33	0	31	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
181953--182062	51	2.1	53	82	12	140	37	18	19	25	1.94
181808--182261	251	1.8	251	88	2	707	37	14	15	31	1.89
183794--184489	198	3.5	198	77	11	671	39	14	16	30	1.88
184506--184665	86	1.9	85	94	1	284	33	14	12	40	1.83
184589--184633	23	2.0	23	95	0	81	37	20	8	33	1.83
186829--186888	3	20.0	3	96	0	111	33	1	0	65	1.03
188306--188343	18	2.0	20	85	14	55	50	0	0	50	1.00
199614--199677	16	4.0	15	76	11	56	79	0	20	0	0.73
199610--199674	15	4.0	16	81	16	80	83	0	16	0	0.66
200808--201238	83	5.2	83	98	0	817	25	14	23	36	1.93
201151--201407	105	2.4	105	100	0	514	27	14	23	35	1.93
202132--202928	113	7.0	113	83	4	924	37	14	18	29	1.90
202140--202925	229	3.5	229	90	2	1160	37	13	18	29	1.90
202893--203076	84	2.2	82	80	3	199	38	15	17	28	1.90
203242--203312	3	24.0	3	94	2	126	33	1	0	64	1.02
203800--203834	14	2.4	15	90	4	54	80	2	17	0	0.84
204699--204736	14	2.7	14	91	0	58	60	0	0	39	0.97
204699--204736	18	2.1	18	90	0	58	60	0	0	39	0.97
221623--221647	6	4.2	6	100	0	50	20	16	64	0	1.30
221741--221838	2	52.0	2	71	11	64	52	0	0	47	1.00
226852--226969	40	3.0	40	91	0	191	23	17	26	32	1.97
231118--231252	65	2.1	65	98	0	261	30	12	13	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
233509--233591	19	4.6	19	82	14	113	15	28	36	19	1.93
233501--233585	33	2.6	33	92	0	143	14	28	36	21	1.92
233501--233567	14	4.4	14	77	17	71	13	28	37	20	1.91
234923--234957	18	1.9	18	88	0	52	54	0	17	28	1.43
238715--238797	19	4.6	19	82	14	113	15	28	36	19	1.93
238707--238791	33	2.6	33	92	0	143	14	28	36	21	1.92
238707--238773	14	4.4	14	77	17	71	13	28	37	20	1.91
240129--240163	18	1.9	18	88	0	52	54	0	17	28	1.43
252644--252673	3	9.7	3	92	7	51	36	0	0	63	0.95
252644--252673	13	2.4	13	94	5	53	36	0	0	63	0.95
258474--258503	11	2.7	11	89	0	51	23	20	10	46	1.80
260643--260683	19	2.2	19	100	0	82	26	21	31	19	1.97
262014--262082	25	2.7	25	82	13	70	20	8	1	69	1.23
265622--265671	12	4.5	11	76	16	50	76	0	20	4	0.95
265601--265671	22	3.2	21	79	13	72	76	1	16	5	1.05
265623--265672	22	2.2	23	89	3	75	78	0	18	4	0.91
265630--265680	22	2.4	22	76	3	59	80	0	15	3	0.86
265694--265757	21	2.9	22	70	15	60	37	18	28	15	1.92
266763--267311	113	4.9	114	91	2	813	27	22	16	32	1.96
267507--267536	3	9.7	3	92	7	51	33	3	0	63	1.11
267507--267542	13	2.8	13	91	4	56	33	5	0	61	1.19
267427--267755	163	2.0	165	98	1	635	30	19	14	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
267670--267699	3	9.7	3	92	7	51	33	3	0	63	1.11
267670--267705	13	2.8	13	91	4	56	33	5	0	61	1.19
270007--270166	80	2.0	80	100	0	320	31	16	16	36	1.91
278149--278221	30	2.4	30	86	2	110	27	4	1	67	1.17
278276--278456	60	3.0	59	82	4	177	30	20	7	40	1.80
281140--281164	11	2.3	11	100	0	50	32	24	8	36	1.84
284686--284857	41	4.1	41	74	10	136	29	18	19	31	1.96
284633--284827	41	4.7	41	73	11	114	33	17	20	28	1.96
287179--287211	11	3.0	11	83	16	50	36	42	3	18	1.66
289853--289956	19	5.5	19	100	0	208	25	21	31	21	1.98
289950--290108	65	2.5	64	82	9	189	30	16	21	32	1.95
290462--290490	13	2.2	13	100	0	58	51	6	6	34	1.55
296595--296754	65	2.5	65	84	5	200	26	18	24	30	1.98
297234--297281	2	24.5	2	95	4	89	52	0	0	47	1.00
302883--302934	24	2.2	24	82	0	59	50	17	11	21	1.77
302903--303020	24	4.9	24	88	6	159	40	19	17	22	1.91
302906--303037	48	2.8	48	81	6	160	43	18	15	21	1.88
305439--305494	10	6.7	9	84	15	52	25	23	33	17	1.96
305460--305503	7	6.3	7	80	19	56	25	25	36	13	1.92
305459--305506	15	3.3	15	94	5	82	22	25	37	14	1.92
305467--305511	13	3.3	13	90	6	63	20	24	40	15	1.91
305488--305528	18	2.3	18	91	0	64	12	21	46	19	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
305506--305554	13	3.8	13	91	0	80	16	18	46	18	1.84
305482--305541	31	1.9	31	89	0	93	16	20	45	18	1.86
309472--309661	65	3.0	63	79	11	208	27	17	24	30	1.97
310815--310861	17	2.9	16	79	17	53	27	4	6	61	1.39
310613--311398	276	2.9	276	94	0	1380	37	7	8	46	1.63
311562--311592	15	2.1	15	93	0	53	61	9	0	29	1.28
314801--314857	22	2.6	22	75	8	62	50	7	3	38	1.46
314877--315006	32	4.0	32	74	8	109	50	10	2	36	1.50
318237--318397	65	2.5	65	87	6	220	29	17	21	31	1.96
320757--320839	39	2.2	39	93	2	141	55	0	1	43	1.07
321302--321398	51	1.9	51	93	0	167	27	15	12	44	1.82
321358--321430	32	2.3	32	95	0	128	30	12	15	42	1.83
321304--321481	83	2.1	83	96	0	329	28	14	14	43	1.83
321387--321763	51	7.4	51	95	1	686	25	16	14	43	1.85
321387--321763	101	3.7	102	95	1	686	25	16	14	43	1.85
321387--321763	152	2.5	152	100	0	754	25	16	14	43	1.85
322296--322744	229	2.0	227	94	2	785	44	8	7	39	1.62
322810--322855	20	2.3	19	89	10	74	54	10	17	17	1.70
322975--323021	20	2.4	19	79	10	58	55	8	17	19	1.67
323980--324835	184	4.7	184	97	0	1622	35	14	15	34	1.89
340444--340504	23	2.7	23	92	2	97	24	26	27	21	1.99
340480--340935	147	3.1	149	96	1	853	35	21	15	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344757--344821	23	2.9	23	93	4	107	36	16	3	43	1.64
345086--345204	43	2.8	43	85	2	152	23	11	5	59	1.52
345069--345394	42	7.6	43	78	7	232	24	18	6	50	1.70
357014--357071	29	2.0	29	100	0	116	48	10	6	34	1.64
363658--363724	31	2.2	31	81	2	82	37	10	22	29	1.88
368510--368871	180	2.0	180	100	0	724	37	16	16	30	1.90
375133--375392	3	86.3	3	69	16	146	61	1	4	31	1.26
375142--375368	47	4.6	46	70	21	124	62	2	4	31	1.27
375132--375392	16	15.5	16	64	24	60	62	1	4	31	1.25
375822--376399	118	4.9	118	85	4	747	27	22	13	37	1.91

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