genome.fa.s8072.2.7.7.80.10.50.1000.2.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: VEPZ01008072.1 Hibiscus syriacus cultivar Beakdansim tig00110570_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1263316

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 528 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)
363902--363939	20	1.9	20	100	0	76	39	7	21	31	1.82
366336--366411	15	5.1	15	69	13	59	43	19	9	27	1.81
376356--376430	38	2.0	37	84	5	98	48	4	1	46	1.29
378060--378106	2	23.5	2	100	0	94	51	0	0	48	1.00
394472--394532	30	2.0	30	96	0	113	24	22	8	44	1.80
402658--402745	29	3.0	28	80	6	104	20	19	19	40	1.91
405538--405618	29	2.8	29	84	3	101	24	16	18	40	1.90
407131--407219	3	29.7	3	90	0	142	35	2	0	61	1.08
407130--407231	9	11.1	9	86	7	107	39	1	0	58	1.09
407215--407244	11	2.8	11	95	5	53	56	0	0	43	0.99
409314--409354	18	2.3	18	91	8	66	21	2	0	75	0.92
409313--409362	18	2.8	18	75	19	52	24	2	0	74	0.93
410769--410810	15	3.0	14	83	10	50	19	19	7	54	1.66
416338--416649	83	3.7	83	93	1	509	28	12	22	36	1.90
417034--417592	113	5.0	113	95	0	967	38	14	19	28	1.90
417913--418006	3	31.7	3	91	2	154	35	2	0	62	1.07
418002--418031	11	2.8	11	95	5	53	56	0	0	43	0.99
419396--419436	20	2.0	21	85	4	57	41	2	2	53	1.27
424637--424695	27	2.1	29	84	6	77	49	1	5	44	1.34
427947--427993	6	7.8	6	97	0	76	17	10	55	17	1.69
454570--454597	14	2.0	14	100	0	56	57	7	0	35	1.26
461394--461502	8	12.9	8	70	28	59	70	0	20	8	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461466--461509	16	2.7	16	85	3	61	79	0	13	6	0.92
462773--463181	55	7.6	55	86	5	421	28	17	25	28	1.97
462778--463181	166	2.5	160	82	6	413	28	17	25	28	1.97
466826--466887	2	31.0	2	100	0	124	50	0	0	50	1.00
469893--469936	21	2.1	21	82	0	52	22	18	25	34	1.96
485005--485033	8	3.6	8	100	0	58	79	0	0	20	0.74
487367--487409	16	2.6	16	96	3	77	48	11	18	20	1.79
488588--488635	9	5.1	10	85	10	57	68	0	0	31	0.90
488591--488634	15	2.9	15	86	3	52	70	0	0	29	0.88
493388--493441	25	2.2	25	82	0	63	38	7	5	48	1.55
509158--509186	3	9.7	3	100	0	58	68	0	31	0	0.89
516293--516342	3	17.0	3	83	4	66	62	2	4	32	1.25
516832--516872	21	2.0	21	85	4	57	46	14	17	21	1.84
516938--517116	66	2.8	63	76	8	171	37	14	21	26	1.92
517421--517464	15	2.9	15	93	0	70	43	4	20	31	1.72
517710--517753	15	2.9	15	93	0	70	43	4	20	31	1.72
517313--517996	289	2.4	289	94	2	1187	41	11	16	29	1.84
517899--518114	118	1.8	119	85	5	303	40	12	15	31	1.85
518104--518168	28	2.2	28	84	10	78	43	12	13	30	1.81
518258--518319	30	2.1	30	93	3	108	38	14	12	33	1.84
518210--518379	91	1.8	94	87	7	258	43	14	13	28	1.83
518233--518411	91	2.0	91	85	3	243	45	12	13	27	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518612--518915	104	2.9	103	83	5	382	40	10	16	32	1.82
523055--523116	32	1.9	32	86	0	88	58	11	14	16	1.64
526788--526834	3	16.0	3	82	4	60	61	2	4	31	1.27
534299--534333	17	2.1	17	100	0	70	28	14	17	40	1.88
540445--540479	11	3.0	12	83	8	54	54	0	0	45	0.99
543567--544164	124	4.8	124	96	2	1080	22	26	19	31	1.98
544546--544642	32	3.0	33	79	8	101	39	3	4	53	1.36
544546--544642	33	3.0	34	77	8	112	39	3	4	53	1.36
545159--545252	21	4.5	21	92	5	129	20	26	35	18	1.95
545256--545303	21	2.3	21	85	0	60	22	12	39	25	1.89
546990--547060	32	2.3	31	80	4	81	60	2	0	36	1.11
553217--553802	288	2.0	293	96	3	1092	40	9	23	26	1.85
553715--553743	5	5.8	5	100	0	58	82	0	0	17	0.66
554406--554442	19	1.9	19	94	0	65	59	2	10	27	1.44
571272--571311	19	2.0	20	85	4	55	47	0	2	50	1.14
571416--571480	22	3.0	21	80	10	60	56	1	0	41	1.08
579438--579489	5	10.4	5	83	8	52	46	1	0	51	1.12
582489--582528	16	2.4	16	83	8	53	70	2	2	25	1.13
582570--582770	108	1.8	110	92	5	345	55	5	6	31	1.51
583128--583184	6	9.5	6	94	0	78	42	5	52	0	1.24
587405--587451	18	2.6	18	86	0	67	12	34	19	34	1.89
587405--587454	9	5.6	9	78	0	55	12	34	20	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587793--587832	18	2.2	18	95	0	71	20	15	32	32	1.93
589317--589538	111	2.0	111	92	0	372	44	10	9	36	1.70
589590--589644	15	3.4	17	72	20	55	60	1	3	34	1.25
589661--589699	20	2.0	19	90	5	60	43	0	23	33	1.54
603249--603280	4	7.8	4	93	6	55	0	0	25	75	0.81
605553--605602	5	10.0	5	100	0	100	60	0	20	20	1.37
605609--605766	74	2.1	74	89	0	235	48	19	12	20	1.80
610065--610105	18	2.3	18	86	0	55	12	4	34	48	1.62
610998--611047	10	5.1	10	79	11	50	44	0	0	56	0.99
611002--611054	25	2.0	27	82	7	65	41	0	0	58	0.98
612296--612335	19	2.1	19	86	9	55	25	7	20	47	1.75
615003--615033	15	2.1	15	100	0	62	48	0	0	51	1.00
617359--617412	12	4.6	12	83	4	74	11	16	48	24	1.79
617410--617519	2	57.5	2	75	8	95	48	0	0	51	1.00
617531--617579	13	3.8	13	94	2	82	12	16	55	16	1.70
617531--617579	25	1.9	25	91	4	80	12	16	55	16	1.70
621879--621910	13	2.5	13	94	0	55	18	15	50	15	1.79
621956--621980	6	4.2	6	100	0	50	0	64	16	20	1.30
622519--622583	23	2.8	24	86	9	98	46	16	29	7	1.75
624817--624904	46	1.9	46	92	0	149	27	17	19	36	1.94
630653--630691	17	2.2	17	86	4	51	41	10	17	30	1.83
648419--648516	35	2.7	35	87	6	124	44	14	6	34	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
654763--654790	14	2.0	14	100	0	56	71	7	0	21	1.09
654246--654983	368	2.0	366	95	4	1335	37	18	10	33	1.85
663034--663094	29	2.2	28	88	5	88	45	13	4	36	1.64
663446--663487	22	1.9	22	90	0	66	54	4	4	35	1.42
668285--668377	12	7.8	12	69	9	55	17	13	19	49	1.79
668288--668379	24	3.8	24	81	2	96	17	14	18	50	1.79
668271--668379	48	2.3	49	79	6	125	17	13	18	50	1.78
670971--670996	3	8.7	3	100	0	52	65	0	0	34	0.93
671359--671404	12	4.0	12	80	11	51	67	2	2	28	1.14
671392--671453	21	3.0	21	83	6	74	51	4	1	41	1.33
671408--671464	20	2.8	20	82	12	71	49	3	1	45	1.29
671405--671464	21	3.0	20	80	11	77	46	3	1	48	1.28
671489--671572	22	3.8	21	80	14	89	46	4	1	47	1.31
676886--676945	29	2.0	31	90	6	97	51	8	8	31	1.62
678621--678744	43	2.9	42	83	7	126	22	18	7	51	1.70
678780--678906	45	2.9	43	74	15	116	33	16	3	47	1.63
682274--682553	38	7.6	37	75	13	195	43	4	8	44	1.53
682274--682526	34	6.9	37	77	12	177	43	3	8	44	1.53
682399--682423	12	2.1	12	100	0	50	40	8	8	44	1.63
682329--682541	36	5.8	36	74	14	161	42	5	8	42	1.59
682329--682526	35	5.5	34	72	14	139	43	5	9	42	1.58
682614--682651	3	12.3	3	94	5	67	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
687718--688844	248	4.5	249	86	1	1560	31	23	20	25	1.98
687718--688780	497	2.1	497	98	0	2045	31	23	20	25	1.98
689444--689670	39	6.2	37	78	13	204	44	3	7	44	1.49
689568--689592	12	2.1	12	100	0	50	40	8	8	44	1.63
689477--689720	39	6.6	36	79	11	210	43	4	8	42	1.56
689483--689720	73	3.2	69	81	9	226	43	5	8	42	1.57
689782--689816	3	11.3	3	93	6	61	31	0	0	68	0.90
689782--689813	16	2.0	16	100	0	64	31	0	0	68	0.90
691331--691374	20	2.2	20	91	0	70	56	2	11	29	1.46
691520--691605	36	2.6	32	74	25	88	46	4	0	48	1.22

Tables:   1   2   3   4   5