genome.fa.s2879.2.7.7.80.10.50.1000.2.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: VEPZ01002879.1 Hibiscus syriacus cultivar Beakdansim tig00005936_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  492147

Tables:   1   2   3   

This is table  2  of  3  ( 252 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)
269135--269325	31	6.1	31	82	6	140	36	18	16	28	1.93
269189--269323	62	2.2	64	83	4	168	37	17	16	28	1.91
269189--269323	32	4.3	32	90	4	168	37	17	16	28	1.91
275244--275286	20	2.0	21	82	8	52	37	4	9	48	1.56
277475--277520	19	2.4	19	96	0	83	39	15	0	45	1.46
286233--286303	30	2.3	32	77	15	80	45	1	1	52	1.18
286222--286313	30	3.0	28	74	17	78	48	1	1	48	1.15
286652--286701	23	2.2	23	85	0	64	32	16	12	40	1.84
286729--286802	23	3.2	23	92	0	121	35	20	8	36	1.82
286651--286887	110	2.2	110	94	0	411	32	16	11	40	1.84
288773--288838	23	2.9	23	95	0	114	34	24	6	34	1.80
290710--290788	27	2.7	30	83	11	94	37	2	15	44	1.60
298822--299200	189	2.0	186	97	2	715	32	13	17	36	1.89
305587--305644	15	3.6	16	74	21	50	53	3	0	43	1.17
305591--305663	18	3.8	19	72	18	62	53	4	0	42	1.20
305604--305745	18	7.6	18	66	18	76	48	6	2	42	1.43
305640--305814	13	12.8	13	66	21	74	46	6	5	41	1.52
305595--305777	95	1.9	98	93	3	318	48	5	3	42	1.44
305803--305840	17	2.3	17	95	4	69	60	5	7	26	1.46
305867--305954	2	45.5	2	70	18	53	48	2	3	45	1.31
305824--305954	64	2.0	65	86	2	183	49	2	3	44	1.33
313717--313761	21	2.1	21	87	0	63	31	28	24	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
314341--314375	18	1.9	18	88	11	54	54	5	17	22	1.64
314432--314475	22	2.0	22	86	4	63	45	0	22	31	1.53
315248--315551	149	2.0	149	99	0	599	27	17	20	34	1.95
315530--315574	23	2.0	23	81	0	54	17	24	31	26	1.97
318236--318284	2	24.0	2	83	4	62	44	0	6	48	1.27
318303--318353	21	2.5	20	83	3	66	19	0	29	50	1.48
318303--318360	14	4.2	13	76	6	53	20	0	29	50	1.49
318303--318360	21	2.8	21	76	2	64	20	0	29	50	1.49
318589--318633	19	2.3	20	88	3	65	20	35	2	42	1.64
318741--318777	2	18.5	2	100	0	74	51	0	0	48	1.00
319231--319279	2	24.5	2	91	8	82	46	2	0	51	1.12
319388--319432	20	2.3	20	84	3	56	40	2	33	24	1.68
319626--319666	17	2.3	18	83	4	57	56	4	2	36	1.34
319903--319949	14	3.7	14	71	26	50	51	4	0	44	1.21
319901--319950	23	2.1	24	96	3	93	48	4	0	48	1.20
320185--320255	16	4.4	16	89	0	88	39	14	25	21	1.90
320280--320360	31	2.5	32	82	7	103	18	17	25	38	1.92
321790--321828	20	2.0	20	100	0	78	53	15	5	25	1.62
324900--325024	31	4.0	31	92	2	198	37	22	19	20	1.94
325692--325736	21	2.1	21	87	0	63	15	24	28	31	1.96
329067--329189	31	4.0	31	90	5	187	37	21	19	21	1.94
329080--329190	31	3.6	31	93	2	188	38	21	19	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329859--329903	21	2.1	21	87	0	63	15	24	28	31	1.96
330993--331017	12	2.1	12	100	0	50	40	24	16	20	1.91
335430--335454	12	2.1	12	100	0	50	40	24	16	20	1.91
339179--339399	30	7.4	29	73	10	115	58	11	12	17	1.63
339179--339401	60	3.7	60	79	5	209	58	11	12	17	1.63
339232--339401	92	1.9	91	86	3	243	58	11	11	18	1.61
339544--339588	23	1.9	24	86	4	65	53	22	8	15	1.69
339538--339596	24	2.4	23	80	8	64	57	16	8	16	1.63
340255--340301	21	2.2	21	85	11	60	8	12	12	65	1.46
343999--344114	33	3.5	33	77	10	121	27	23	14	34	1.94
343999--344122	34	3.8	33	71	10	110	27	22	15	34	1.94
344190--344931	44	16.7	45	68	9	207	30	20	20	29	1.97
344094--344983	133	6.7	133	92	1	1435	30	19	20	29	1.97
344678--344888	89	2.4	89	75	0	181	29	20	20	28	1.98
345786--345827	22	1.9	22	90	9	68	0	19	0	80	0.70
345786--345828	6	7.5	6	87	12	56	0	18	0	81	0.69
345787--345829	16	2.7	16	85	10	61	0	20	0	79	0.74
357790--357893	37	2.8	36	82	8	102	51	6	8	32	1.59
378901--378970	21	3.3	21	93	0	122	28	21	20	30	1.98
379000--379160	63	2.5	63	78	3	153	34	18	18	27	1.95
379803--379863	23	2.7	23	86	0	86	18	26	26	29	1.98
382122--382174	22	2.3	23	81	18	67	71	5	0	22	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382336--382422	40	2.2	38	76	15	86	59	2	3	34	1.27
382323--382472	63	2.4	61	79	6	149	59	3	5	32	1.36
382895--382999	37	2.8	37	83	0	147	31	14	14	40	1.86
383730--384998	106	12.0	105	89	2	1809	23	17	24	34	1.96
385802--385878	22	3.5	22	94	0	136	20	14	27	37	1.91
386466--386556	47	2.0	47	88	2	139	4	14	9	71	1.28
386466--386549	23	3.6	23	70	12	64	3	14	9	72	1.23
386479--386552	15	4.7	15	72	20	53	2	14	9	72	1.20
391063--391089	2	13.5	2	100	0	54	51	0	0	48	1.00
391282--391320	2	19.5	2	100	0	78	51	0	0	48	1.00
391344--391397	19	2.8	18	78	13	54	62	1	1	33	1.16
391921--392024	36	2.8	36	82	2	127	31	14	14	39	1.86
394002--394056	24	2.3	24	83	0	65	18	12	21	47	1.82
396591--396632	18	2.3	19	87	4	59	28	4	16	50	1.66
396936--396993	22	2.6	23	88	2	91	13	31	25	29	1.94
397024--397078	24	2.3	24	87	0	74	25	14	18	41	1.88
397182--397251	6	11.7	6	79	0	68	40	1	21	37	1.62
397182--397263	18	4.6	18	81	0	74	40	2	20	36	1.66
397205--397284	6	13.3	6	78	5	63	33	1	26	38	1.64
397182--397266	12	6.8	12	73	12	64	40	2	21	36	1.66
399493--399544	16	3.4	15	75	20	54	34	13	26	25	1.93
399491--399550	30	2.0	30	93	0	102	35	13	26	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
403505--403765	43	6.1	42	85	3	301	31	21	22	24	1.98
403845--403899	27	2.0	27	85	0	74	49	20	3	27	1.65
407620--407758	42	3.3	42	88	1	199	24	22	20	33	1.97
412235--412309	38	2.0	37	84	5	98	46	4	1	48	1.29
413518--413605	3	29.7	3	95	2	160	34	1	0	64	1.01
414046--414089	23	1.9	23	86	9	63	68	6	25	0	1.14
414046--414089	22	2.0	24	82	13	58	68	6	25	0	1.14
415017--415045	14	2.0	15	93	6	51	48	0	0	51	1.00
426763--426799	19	2.0	19	94	5	67	35	5	5	54	1.47
427561--428033	83	5.7	83	93	0	786	27	12	22	37	1.91
427576--428035	249	1.8	249	98	0	893	27	12	22	37	1.90
428792--429759	113	8.6	113	97	1	1775	36	12	21	30	1.90
430013--430074	3	20.7	3	100	0	124	33	0	0	66	0.92
432527--432577	12	4.3	12	76	18	54	31	0	1	66	1.03
432535--432692	12	12.8	12	70	19	94	41	0	2	56	1.13
432535--432692	63	2.6	63	92	6	254	41	0	2	56	1.13
432884--432916	7	4.7	7	100	0	66	72	0	0	27	0.85
433236--433295	31	1.9	31	89	0	93	45	10	5	40	1.60
433684--433750	35	1.9	35	82	11	84	40	1	4	53	1.30
438517--438554	2	19.0	2	100	0	76	50	0	0	50	1.00
440690--440750	24	2.5	24	86	7	97	45	13	18	22	1.83
440797--440848	23	2.1	26	82	10	65	65	13	3	17	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440738--440834	10	9.1	10	68	12	50	59	19	9	11	1.58
445312--445355	17	2.3	19	85	14	56	68	4	0	27	1.09
447146--447179	17	2.1	17	88	5	52	50	0	0	50	1.00
448168--448209	3	14.0	3	89	0	66	35	2	0	61	1.09
449254--449296	17	2.5	17	100	0	86	34	0	4	60	1.17
455521--455582	32	1.9	32	93	0	106	43	16	19	20	1.88
457823--458054	75	3.1	75	92	0	376	31	18	20	29	1.96
459402--459456	22	2.5	21	85	8	83	34	14	14	36	1.87
459831--460377	113	4.8	112	82	9	586	38	15	18	27	1.91
459818--460377	234	2.4	225	85	6	700	38	15	18	27	1.91

Tables:   1   2   3