genome.fa.s8027.2.7.7.80.10.50.1000.3.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  3  of  38  ( 4505 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)
394995--396089	38	28.8	38	80	3	1121	38	18	18	23	1.93
398704--398828	31	4.0	31	93	2	198	38	23	18	20	1.93
406376--406423	3	16.3	3	95	4	89	68	0	0	31	0.90
406819--407785	76	12.7	76	84	1	984	37	17	19	24	1.93
406819--407758	38	24.7	38	78	3	886	38	17	19	24	1.93
409039--409107	3	23.3	3	88	8	106	68	0	0	31	0.90
413098--413158	21	2.9	21	77	0	68	39	27	14	18	1.90
414084--414153	35	2.0	35	83	10	90	27	24	15	32	1.95
415416--415467	25	2.0	26	88	3	79	48	13	5	32	1.66
417243--417280	19	2.0	19	89	0	58	57	0	0	42	0.98
417321--417373	14	3.9	14	82	9	56	58	0	0	41	0.98
417328--417372	13	3.4	13	81	6	54	60	0	0	40	0.97
417380--417469	42	2.1	42	83	4	119	54	1	2	42	1.20
417650--417728	30	2.6	32	78	10	92	53	2	0	44	1.14
419897--419988	2	47.0	2	95	4	170	51	0	0	48	1.00
423201--423294	2	51.0	2	73	19	62	50	1	3	45	1.24
423867--423912	24	1.9	24	86	8	67	15	43	2	39	1.59
424530--424867	141	2.4	138	81	4	392	44	12	13	29	1.80
426841--427302	117	3.9	117	78	4	450	27	18	13	40	1.88
427412--427528	24	5.3	23	75	19	115	43	0	4	52	1.21
427417--427528	44	2.5	46	83	9	162	43	0	3	52	1.18
427417--427525	21	5.0	22	80	18	129	44	0	3	52	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
427535--427565	3	10.3	3	100	0	62	32	0	0	67	0.91
429063--429099	19	2.1	19	90	10	60	37	0	0	62	0.96
429734--429774	17	2.4	17	88	12	57	12	19	0	68	1.21
441214--441317	30	3.4	29	79	10	104	46	2	3	47	1.35
441169--441322	59	2.6	58	79	7	139	43	1	5	48	1.38
441348--441396	13	3.8	13	86	2	55	24	0	2	73	0.94
441355--441396	13	3.3	13	86	3	59	23	0	0	76	0.79
442894--442918	12	2.1	12	100	0	50	36	0	0	64	0.94
443202--443651	117	3.9	116	78	4	390	26	18	14	40	1.89
444109--444190	8	10.2	8	71	10	51	14	6	1	78	1.01
444123--444151	9	3.3	9	90	9	51	10	0	0	89	0.48
444157--444183	14	1.9	14	100	0	54	14	11	0	74	1.08
444131--444221	46	2.0	47	82	6	114	9	10	1	78	1.03
444130--444226	8	12.2	8	70	18	51	10	11	1	77	1.05
444897--444954	16	3.8	15	75	11	55	3	15	3	77	1.04
444897--444938	8	5.4	8	85	2	50	2	16	2	78	0.96
444897--444966	7	9.7	7	78	10	61	2	15	4	77	1.05
448573--448623	19	2.5	20	81	6	68	31	21	15	31	1.95
454644--454683	21	1.9	21	84	0	53	40	20	10	30	1.85
456545--456642	21	4.8	21	84	2	110	32	23	18	25	1.97
462206--462252	19	2.5	19	89	3	69	31	6	0	61	1.21
462231--462267	13	2.7	14	84	15	51	37	2	0	59	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462828--462882	23	2.4	23	87	0	74	40	27	10	21	1.87
465443--465505	31	2.0	31	90	6	101	55	1	3	39	1.25
465493--465539	21	2.2	22	81	11	62	42	2	6	48	1.40
465416--465585	88	1.9	89	83	10	224	48	3	4	42	1.41
465691--465822	20	6.3	21	78	13	139	44	6	5	43	1.51
465723--465796	2	36.0	2	80	10	78	44	4	4	47	1.41
465691--465778	24	3.9	23	81	8	92	46	3	5	44	1.43
465909--465947	17	2.3	17	86	0	51	33	5	2	58	1.33
465967--466079	2	56.5	2	100	0	226	49	0	0	50	1.00
466162--466268	13	8.2	13	70	15	62	43	3	5	46	1.44
465960--466219	24	9.9	26	78	12	85	45	3	2	48	1.33
466235--466270	18	2.1	17	94	5	63	47	0	5	47	1.25
466345--466543	18	10.8	18	68	24	105	40	7	9	42	1.64
466348--466535	38	5.1	38	78	17	141	40	6	9	43	1.63
466404--466504	33	3.0	33	89	5	123	41	6	8	42	1.63
466432--466504	33	2.2	33	100	0	146	39	5	10	43	1.63
466460--466544	42	2.1	41	93	4	145	38	5	10	44	1.63
466508--466553	18	2.6	17	79	3	56	41	6	8	43	1.61
466848--467227	207	1.8	204	90	4	571	29	11	8	50	1.68
467972--468024	15	3.9	13	85	14	56	24	0	1	73	0.93
467991--468028	3	13.0	3	94	5	69	31	0	0	68	0.90
469879--469920	22	2.0	22	85	4	59	35	2	7	54	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482745--483020	146	1.9	147	89	0	428	26	29	18	25	1.98
483252--483304	15	3.9	13	85	14	56	24	0	1	73	0.93
483271--483308	3	13.0	3	94	5	69	31	0	0	68	0.90
485148--485189	22	2.0	22	85	4	59	35	2	7	54	1.41
488662--488727	20	3.0	24	80	12	70	30	10	13	45	1.77
488725--488768	19	2.2	20	84	4	54	27	13	18	40	1.88
488914--488977	26	2.5	26	89	0	92	45	4	6	43	1.50
488983--489012	2	15.5	2	93	6	53	53	0	0	46	1.00
488927--488989	26	2.4	26	92	5	101	42	4	7	44	1.54
488993--489215	38	5.9	37	80	12	242	45	3	7	43	1.48
488882--489168	114	2.5	111	79	10	314	47	2	6	43	1.43
488953--489051	49	2.0	50	90	5	157	46	3	7	43	1.46
489228--489294	23	3.0	22	82	4	62	20	1	0	77	0.85
489236--489297	8	8.2	8	79	15	53	17	0	0	82	0.67
489226--489297	12	6.0	12	76	11	58	19	1	0	79	0.81
489251--489297	6	8.0	6	84	15	55	14	0	0	85	0.61
489237--489297	29	2.1	29	84	6	79	18	0	0	81	0.68
489236--489297	23	2.8	21	87	9	79	17	0	0	82	0.67
489775--489825	23	2.2	23	80	10	59	64	23	9	1	1.34
494754--494812	2	31.0	2	90	10	97	50	0	0	49	1.00
496262--496676	201	2.1	201	90	0	652	32	19	21	26	1.97
497192--497319	34	3.7	36	80	12	144	46	5	7	39	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497360--497435	2	41.0	2	85	15	110	48	0	0	51	1.00
497320--497443	29	4.4	29	76	16	102	45	0	4	50	1.20
497360--497436	19	3.9	20	85	11	106	48	0	0	51	1.00
497418--497567	36	4.2	36	86	10	200	46	2	6	45	1.39
497416--497613	36	5.4	36	81	13	194	44	3	7	44	1.47
497194--497605	72	6.1	71	74	16	240	45	2	7	44	1.45
497626--497666	12	3.5	12	78	15	50	17	4	0	78	0.93
497616--497688	24	3.1	23	86	9	87	19	4	0	76	0.94
497618--497689	16	4.2	16	80	16	74	20	4	0	75	0.97
497616--497689	33	2.3	32	86	9	98	20	4	0	75	0.96
498165--498216	24	2.2	23	80	12	61	63	25	9	1	1.35
499361--499469	39	2.7	41	75	9	109	33	18	22	25	1.97
499343--499466	40	3.1	39	73	11	108	33	20	21	24	1.97
506289--506360	18	3.9	18	68	21	60	30	30	11	27	1.91
510567--510597	2	15.5	2	100	0	62	0	0	48	51	1.00
511347--511415	2	34.5	2	100	0	138	50	49	0	0	1.00
511415--511456	2	21.0	2	100	0	84	50	0	0	50	1.00
511732--511782	23	2.2	23	78	0	57	29	21	25	23	1.99
512389--512423	18	1.9	18	100	0	70	25	34	22	17	1.96
519947--519992	19	2.4	19	88	0	65	32	26	13	28	1.93
519956--519994	19	2.1	19	95	0	69	28	33	12	25	1.93
524440--524509	21	3.3	21	79	16	72	67	5	1	25	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526251--526312	24	2.6	24	86	0	88	12	11	22	53	1.71
527779--527833	16	3.4	16	92	0	92	9	10	21	58	1.60
527900--527947	16	3.0	16	100	0	96	6	12	25	56	1.59
528507--528567	26	2.5	23	73	21	61	18	1	9	70	1.23
530054--530110	22	2.5	22	75	13	53	43	5	1	49	1.35
532125--532180	15	3.6	15	83	9	76	44	12	12	30	1.79
532128--532178	17	3.1	17	83	11	70	45	11	9	33	1.74
532575--532629	13	4.2	13	75	13	58	49	12	3	34	1.59
532615--532713	33	3.0	33	94	1	164	45	15	7	32	1.73
532708--532747	21	1.9	21	94	0	71	47	7	15	30	1.72

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