genome.fa.s4846.2.7.7.80.10.50.1000.2.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: VEPZ01004846.1 Hibiscus syriacus cultivar Beakdansim tig00010927_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1467214

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 661 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)
297882--298029	77	1.9	80	92	4	257	47	4	2	45	1.35
298147--298181	17	2.1	17	89	5	54	20	8	0	71	1.11
306104--306228	47	2.8	46	88	7	177	40	7	20	32	1.80
306683--306709	13	2.1	13	100	0	54	22	22	7	48	1.75
307071--307126	28	2.0	27	82	3	67	66	1	14	17	1.34
307247--307278	15	2.1	15	94	0	55	78	0	9	12	0.97
307273--307338	14	4.6	14	77	5	62	62	1	4	31	1.25
307361--307417	2	28.5	2	100	0	114	50	0	0	49	1.00
310110--310140	16	1.9	16	93	0	53	3	12	6	77	1.08
320625--320701	32	2.4	31	80	16	86	71	6	2	19	1.20
320660--320744	20	4.4	19	73	17	59	71	3	7	17	1.23
320697--320727	14	2.2	14	94	0	53	77	0	9	12	0.99
320730--320795	16	4.1	17	76	20	79	65	1	0	33	1.02
320735--320796	31	2.0	31	87	12	92	62	1	0	35	1.05
322479--322520	20	2.1	20	82	8	50	45	7	2	45	1.44
329865--329947	34	2.4	34	88	6	123	37	34	7	20	1.80
330135--330173	20	1.9	20	89	5	60	64	2	15	17	1.41
333307--333349	2	21.5	2	95	0	77	48	0	2	48	1.14
334264--334318	22	2.5	22	90	0	83	23	34	32	9	1.86
334277--334318	13	3.1	14	80	6	52	23	35	33	7	1.82
336287--336376	24	3.8	24	84	8	112	20	13	16	50	1.78
337839--338003	21	7.7	21	74	2	105	35	22	18	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
337867--337924	23	2.5	23	83	5	73	37	24	18	18	1.94
342380--342580	32	6.3	32	94	0	339	37	17	12	31	1.88
344370--344400	3	10.3	3	92	0	53	64	0	0	35	0.94
354943--355002	19	3.2	19	62	9	50	31	16	21	30	1.96
354885--355572	39	17.7	39	87	1	929	35	16	19	28	1.93
360235--360357	64	1.9	64	86	6	178	30	21	17	30	1.97
366121--366177	24	2.6	21	74	15	60	29	22	19	28	1.98
366121--366218	45	2.2	44	87	8	137	27	22	21	28	1.99
373472--373892	57	7.5	57	87	2	473	34	19	10	34	1.86
380089--380263	54	3.2	54	83	2	226	32	20	11	35	1.88
382427--382452	10	2.6	10	100	0	52	50	7	11	30	1.67
386927--386966	21	1.9	21	84	0	53	35	20	15	30	1.93
394253--394296	23	2.0	22	86	13	63	61	4	13	20	1.50
395430--395486	27	2.1	27	80	6	62	31	0	22	45	1.53
396239--396264	12	2.2	12	100	0	52	42	7	23	26	1.81
396320--397000	54	12.6	54	88	2	861	33	21	17	28	1.96
401895--401939	17	2.6	17	92	0	72	24	15	28	31	1.96
402383--402899	54	9.6	54	85	2	621	31	21	18	28	1.97
402387--402899	215	2.4	214	87	1	688	31	21	18	28	1.97
402762--402943	54	3.4	54	81	4	154	31	23	20	24	1.98
404393--404438	21	2.2	21	84	3	58	34	21	17	26	1.95
404504--404563	21	2.8	22	82	7	61	38	26	10	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
406443--406477	15	2.2	16	95	5	63	54	0	14	31	1.40
410040--410091	24	2.2	24	90	6	81	59	13	17	9	1.60
414720--414765	18	2.6	18	89	6	67	28	2	2	67	1.14
415421--415613	96	2.0	96	96	0	359	23	22	24	29	1.99
416355--416424	30	2.3	30	80	11	81	14	8	1	75	1.10
416442--416476	16	2.2	16	90	10	54	17	0	0	82	0.66
416441--416493	22	2.5	22	79	11	58	20	3	0	75	0.96
432436--433559	571	2.0	569	90	2	1792	31	16	16	35	1.92
434388--434449	18	3.3	19	81	16	67	14	27	3	54	1.55
438413--438452	21	1.9	21	90	10	64	20	27	5	47	1.70
450891--450930	20	2.1	19	85	4	53	52	17	2	27	1.57
450910--450980	36	1.9	37	88	2	108	54	14	7	23	1.64
451689--452368	143	4.8	140	81	10	611	36	8	18	36	1.81
453574--453632	26	2.3	26	96	0	109	33	16	11	37	1.86
455799--455931	21	6.2	21	72	8	79	40	23	12	24	1.88
455781--455868	44	2.0	44	81	0	104	38	25	9	27	1.86
459625--459661	15	2.5	15	86	0	56	40	0	0	59	0.97
465668--465704	7	5.4	7	93	6	67	24	29	29	16	1.96
465668--465704	13	2.7	14	91	8	67	24	29	29	16	1.96
465694--465734	17	2.4	17	95	0	73	17	24	41	17	1.89
465728--465780	19	2.8	20	88	8	83	24	32	26	16	1.97
465730--465801	10	7.1	10	74	14	67	26	29	25	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
471445--471494	7	7.4	7	91	8	86	24	30	30	16	1.96
471449--471494	13	3.5	13	96	3	83	23	30	30	15	1.95
471445--471494	20	2.5	20	93	6	84	24	30	30	16	1.96
471484--471541	17	3.4	17	97	0	107	17	24	41	17	1.90
472789--472834	22	2.1	22	88	8	67	54	0	0	45	0.99
473159--473268	58	1.9	57	94	5	195	39	4	9	47	1.56
475867--475910	17	2.7	16	79	6	52	75	2	22	0	0.92
479692--479781	32	2.9	31	83	6	112	28	17	20	33	1.95
482361--482427	18	3.6	18	80	11	71	86	8	4	0	0.69
482359--482393	1	35.0	1	100	0	70	100	0	0	0	0.00
482407--482434	13	2.2	13	100	0	56	78	14	7	0	0.95
506688--506809	59	2.1	59	84	0	154	30	18	22	28	1.97
507467--507506	13	3.1	13	85	0	53	15	12	15	57	1.66
517046--517087	22	2.0	21	81	13	50	16	2	2	78	0.96
522359--522384	2	13.0	2	100	0	52	50	0	0	50	1.00
534526--534595	34	2.1	32	86	5	95	21	30	15	32	1.94
534877--534918	21	2.0	21	95	0	75	26	28	21	23	1.99
535116--535175	29	2.0	31	90	6	97	41	16	6	35	1.75
540593--540645	27	1.9	28	92	3	90	35	7	18	37	1.80
556050--556488	179	2.4	176	79	6	454	40	9	12	38	1.74
556605--556864	141	1.9	139	87	3	387	38	7	8	46	1.61
557713--557752	18	2.3	17	86	4	53	35	2	20	42	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562499--562590	41	2.2	41	86	3	123	40	19	6	33	1.77
564414--564476	21	3.0	22	68	17	60	38	9	3	49	1.51
570627--570717	31	3.2	31	62	26	83	24	9	29	36	1.88
570768--570926	28	5.6	29	89	4	225	46	20	1	31	1.61
570768--570928	58	2.8	58	90	0	261	45	20	1	31	1.62
570930--570972	20	2.2	20	91	0	68	20	23	37	18	1.94
577150--577198	22	2.2	23	85	7	66	18	20	28	32	1.96
581745--581789	20	2.2	20	88	0	63	37	13	24	24	1.91
585172--585227	19	2.8	20	83	5	78	41	10	12	35	1.78
589317--589372	19	2.8	20	83	5	78	42	10	8	37	1.71
590278--590318	11	3.8	11	81	15	50	63	2	12	21	1.40
592328--592358	16	2.0	16	93	6	55	41	12	6	38	1.69
596856--597338	161	3.0	161	97	1	927	33	15	19	32	1.93
605078--605112	7	5.1	7	93	6	54	22	0	0	77	0.78
605078--605112	13	2.6	13	90	4	52	22	0	0	77	0.78
605120--605173	24	2.2	24	77	6	56	35	11	3	50	1.56
606517--606645	35	3.6	36	74	9	129	37	16	18	27	1.92
606543--606658	36	3.2	36	73	9	119	38	15	17	28	1.90
612337--612394	5	11.4	5	74	20	50	77	3	0	18	0.91
613314--613355	2	21.5	2	82	4	50	47	2	0	50	1.14
613707--613767	3	20.7	3	86	3	88	63	0	0	36	0.94
615020--615049	15	2.0	15	100	0	60	26	0	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
620030--621552	165	9.2	164	86	4	1484	29	24	21	24	1.99
620152--621392	579	2.1	579	90	1	1993	29	25	21	24	1.99
620030--621556	744	2.1	743	94	0	2635	29	24	21	24	1.99
620152--621556	579	2.4	578	87	2	1910	29	25	21	24	1.99
623399--623471	17	4.6	15	71	21	51	28	2	0	68	1.03
623434--623468	16	2.2	16	94	0	61	34	0	0	65	0.93
626258--626348	32	2.8	32	79	0	110	35	15	12	37	1.84
627302--627339	15	2.4	16	86	4	51	44	31	18	5	1.72
628757--628856	36	2.8	36	98	0	191	39	11	16	34	1.83
631062--631116	25	2.2	25	90	0	83	27	23	18	30	1.97

Tables:   1   2   3   4   5   6