genome.fa.s1523.2.7.7.80.10.50.1000.3.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: VEPZ01001523.1 Hibiscus syriacus cultivar Beakdansim tig00002982_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1321709

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 665 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)
477171--477382	64	3.3	63	78	5	221	34	20	17	27	1.95
478047--478110	30	2.1	30	85	0	83	18	18	28	34	1.95
483952--484013	24	2.6	24	97	0	115	24	22	20	32	1.98
484556--484624	33	2.1	33	81	8	77	18	11	14	55	1.69
485843--485893	11	4.8	11	85	7	70	76	3	5	13	1.11
485843--485893	5	9.8	5	81	8	57	76	3	5	13	1.11
485844--485883	21	1.9	21	100	0	80	75	2	7	15	1.14
485843--485893	21	2.4	21	86	0	75	76	3	5	13	1.11
494597--494712	44	2.8	40	75	11	108	23	13	31	31	1.93
494657--494940	134	2.1	134	82	0	352	27	16	26	28	1.97
494964--495086	36	3.6	35	70	17	116	40	13	19	26	1.89
495002--495098	29	3.1	29	70	23	88	39	12	20	27	1.89
494963--495138	65	2.7	65	92	0	280	39	13	19	26	1.89
496702--496763	12	4.7	12	76	20	61	4	9	4	80	1.00
496713--496763	20	2.5	20	83	3	57	3	9	5	80	1.01
520939--521064	62	2.0	62	98	0	243	41	9	21	27	1.84
521575--522000	130	3.2	134	85	5	569	33	23	15	27	1.94
527117--527192	16	4.8	16	74	6	57	53	9	10	26	1.65
527117--527193	32	2.4	32	80	6	86	53	9	10	27	1.65
527556--527616	31	2.0	31	87	3	88	52	8	4	34	1.53
527737--527777	11	3.7	11	86	0	55	58	4	0	36	1.20
527884--527925	18	2.3	18	84	8	50	19	14	30	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527884--527964	36	2.3	36	80	2	92	20	18	25	34	1.96
530619--530693	21	3.6	21	79	0	78	26	36	5	32	1.79
531044--531112	22	3.1	22	71	8	59	23	4	18	53	1.62
533015--533044	16	1.9	16	93	6	53	33	26	13	26	1.93
534551--534601	14	3.6	14	84	7	59	31	29	19	19	1.97
534888--535074	95	2.0	96	87	3	270	27	13	17	41	1.88
536077--536112	18	2.0	18	100	0	72	22	11	22	44	1.84
536272--536305	16	2.1	16	94	0	59	35	5	5	52	1.50
536824--536915	32	2.8	32	85	8	116	19	10	19	50	1.77
536868--536915	16	2.9	16	78	3	60	20	8	18	52	1.71
537406--537479	16	4.5	16	71	14	53	47	0	1	51	1.09
537403--537439	19	1.9	19	89	10	58	48	0	0	51	1.00
537400--537442	23	1.9	22	85	4	59	48	0	0	51	1.00
537864--537893	3	10.0	3	100	0	60	33	0	0	66	0.92
539080--539194	51	2.3	51	80	11	130	21	14	6	56	1.62
541671--541709	20	2.0	20	89	0	60	17	15	20	46	1.84
543042--543098	24	2.4	24	85	8	73	78	3	7	10	1.05
543059--543192	31	4.2	31	75	9	94	77	0	16	5	0.99
543047--543180	10	12.8	10	69	17	76	78	1	14	5	1.01
543088--543165	12	6.4	12	74	14	70	75	1	19	3	1.02
543075--543157	39	2.2	36	83	10	103	79	1	14	4	0.95
543084--543192	20	5.2	22	68	25	76	77	0	18	3	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543059--543192	12	11.4	12	73	16	56	77	0	16	5	0.99
558266--558681	131	3.2	131	90	0	618	32	11	16	40	1.84
561121--561158	15	2.5	15	91	0	58	21	15	13	50	1.78
561141--561244	55	1.9	55	86	2	147	24	24	11	40	1.88
561225--561276	15	3.5	15	89	0	77	17	23	19	40	1.91
562526--562555	15	2.1	14	93	6	51	66	0	26	6	1.16
563049--563088	20	2.0	20	90	0	62	17	5	0	77	0.94
564677--564716	14	2.7	15	84	7	55	5	27	2	65	1.27
570493--570521	13	2.1	14	93	6	51	27	17	13	41	1.87
581725--582571	238	3.6	235	84	5	1076	33	14	17	34	1.90
582969--583420	44	10.2	45	76	5	168	22	15	18	43	1.88
582914--583650	89	8.3	90	74	8	476	23	16	18	41	1.89
582914--583655	45	16.6	45	76	5	589	23	16	18	41	1.89
582917--583655	133	5.5	134	78	7	551	23	16	18	41	1.89
583609--583751	51	2.8	51	79	11	152	24	20	17	37	1.93
584492--585308	134	6.1	133	81	3	850	31	16	18	33	1.93
584489--585304	402	2.0	401	82	2	992	31	16	18	33	1.93
587447--587488	15	2.6	16	82	17	52	33	4	0	61	1.17
589552--589589	2	19.0	2	100	0	76	50	0	0	50	1.00
608122--608161	8	5.2	8	85	14	50	75	0	2	22	0.93
609087--609147	25	2.4	25	91	5	97	50	9	4	34	1.57
617579--617612	6	5.5	6	86	6	50	17	14	14	52	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617579--617615	12	3.0	12	88	7	56	21	16	13	48	1.80
619216--619287	35	2.1	35	89	0	108	37	13	22	26	1.92
622287--622384	42	2.4	41	82	1	124	25	22	21	30	1.99
622029--622977	258	3.7	256	85	2	1195	31	16	18	33	1.93
622542--622653	41	2.7	41	82	6	129	25	21	20	32	1.98
623293--623430	51	2.7	51	84	3	163	25	18	21	34	1.96
623713--624300	135	4.5	135	84	4	670	31	19	18	30	1.95
623718--624300	263	2.2	261	83	6	730	31	19	18	30	1.96
633225--633265	17	2.4	17	84	8	57	12	29	31	26	1.92
636803--636849	16	3.0	15	79	11	58	19	2	19	59	1.48
637793--637863	3	23.7	3	97	0	106	28	0	5	66	1.14
641551--641793	20	12.2	20	70	19	127	41	22	18	17	1.90
641632--641709	22	3.6	22	73	13	81	37	24	19	19	1.94
641551--641793	40	6.1	40	75	15	202	41	22	18	17	1.90
641648--641793	35	3.8	37	82	10	161	39	23	18	18	1.92
641649--641793	77	1.9	75	91	2	236	40	23	18	17	1.92
641889--641931	6	7.2	6	100	0	86	34	48	16	0	1.46
642431--642511	6	13.5	6	100	0	162	0	16	50	33	1.45
642693--642727	2	18.0	2	94	5	63	48	0	0	51	1.00
647309--647445	39	3.6	38	78	10	145	38	16	4	40	1.69
647544--647808	58	4.5	58	83	9	304	40	12	9	38	1.75
647564--647801	121	2.0	122	88	2	363	39	13	8	38	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
650265--650312	17	2.8	17	72	12	53	60	0	0	39	0.97
653046--653089	3	13.7	3	81	13	52	2	29	0	68	1.02
653048--653088	10	4.1	10	96	0	73	2	26	0	70	0.99
653046--653089	13	3.7	12	82	17	56	2	29	0	68	1.02
656245--656293	19	2.6	19	76	0	53	38	14	4	42	1.64
657188--657236	19	2.6	19	80	6	55	30	18	8	42	1.79
658157--658199	19	2.3	19	87	0	59	32	16	6	44	1.74
659129--659177	19	2.6	19	86	0	71	34	16	6	42	1.73
655272--663878	972	9.0	953	87	3	10947	34	11	20	32	1.89
663133--664670	773	2.0	769	89	1	2348	34	12	22	30	1.91
664719--664767	19	2.6	19	86	0	71	34	16	8	40	1.78
665690--665736	19	2.5	19	82	0	58	29	17	8	44	1.78
666348--666372	13	1.9	13	100	0	50	52	0	24	24	1.48
666510--666552	21	2.0	21	100	0	86	37	13	23	25	1.92
668558--668606	19	2.6	19	83	0	62	30	18	8	42	1.79
666357--670044	970	3.8	972	89	0	5296	35	11	20	32	1.88
670464--670514	19	2.7	19	84	0	66	35	15	7	41	1.76
671419--671472	19	2.8	19	77	0	54	35	18	7	38	1.79
672402--672445	19	2.3	19	88	0	61	34	13	6	45	1.70
675292--675340	19	2.6	19	90	0	71	30	16	10	42	1.81
670089--682284	971	12.6	971	88	2	17516	35	11	20	33	1.89
677207--677250	19	2.3	18	81	11	61	34	13	6	45	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
678172--678239	19	3.6	19	83	0	82	33	13	7	45	1.71
679171--679219	19	2.6	19	83	0	53	30	14	8	46	1.73
680140--680190	19	2.7	19	84	6	59	37	15	5	41	1.72
681116--681161	19	2.4	19	92	0	74	30	13	10	45	1.77
685646--685766	44	2.8	44	82	5	122	34	13	19	33	1.90
689633--689910	151	1.8	151	84	3	380	38	10	14	36	1.80
699621--699738	60	2.0	60	83	3	148	30	20	21	27	1.98
702399--702498	3	33.0	3	75	2	92	57	1	1	41	1.12
702391--702450	18	3.3	18	82	17	79	56	0	0	43	0.99
702399--702453	21	2.6	21	100	0	110	60	0	0	40	0.97

Tables:   1   2   3   4   5   6