genome.fa.s9189.2.7.7.80.10.50.1000.3.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: VEPZ01009189.1 Hibiscus syriacus cultivar Beakdansim tig00112762_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  966119

Tables:   1   2   3   4   

This is table  3  of  4  ( 434 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)
555213--555263	22	2.3	22	96	0	93	33	25	23	17	1.96
558146--558183	13	3.0	13	84	3	51	55	0	0	44	0.99
561182--561222	8	5.2	8	82	5	57	34	0	29	36	1.58
561293--561921	128	4.9	128	98	0	1222	23	25	19	31	1.98
562320--562419	33	3.0	34	83	2	139	39	3	4	54	1.35
562930--563023	21	4.5	21	92	5	129	20	26	35	18	1.95
563027--563074	21	2.3	21	85	0	60	22	12	39	25	1.89
564799--564887	34	2.7	31	81	6	97	59	2	0	38	1.10
564802--564876	31	2.4	33	77	11	84	60	1	0	38	1.06
564834--564910	34	2.2	32	80	13	82	66	3	0	29	1.10
570294--570330	2	18.5	2	94	0	65	54	0	0	45	1.00
570758--570821	23	2.8	23	80	0	83	32	23	25	18	1.97
572646--572693	19	2.5	20	86	3	71	54	4	12	29	1.56
581588--581649	26	2.5	24	70	15	56	32	29	8	30	1.86
587498--587554	30	2.0	28	86	6	78	17	15	21	45	1.85
592740--592773	2	17.0	2	100	0	68	50	0	0	50	1.00
599343--599478	67	2.0	67	97	2	256	34	17	12	35	1.88
607189--607253	21	3.1	21	72	14	62	35	29	4	30	1.78
610010--610293	142	2.0	142	100	0	568	21	14	30	33	1.93
629878--630523	113	5.7	113	94	0	1087	38	13	19	29	1.89
630844--630936	3	31.3	3	91	2	152	34	3	0	62	1.11
637945--637971	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640143--640186	20	2.3	19	84	7	54	40	6	27	25	1.80
642645--642684	12	3.6	12	83	12	50	45	5	0	50	1.23
642671--643211	22	24.6	22	86	1	708	42	0	9	47	1.36
643235--643293	31	1.9	31	89	0	91	42	8	6	42	1.61
647721--647928	48	4.3	48	83	3	233	34	15	22	27	1.94
647721--647928	96	2.2	96	85	5	269	34	15	22	27	1.94
647951--648085	46	2.9	46	91	1	216	32	17	21	28	1.96
647795--648193	157	2.5	158	90	3	604	32	18	22	27	1.97
647998--648304	113	2.8	111	91	2	499	30	18	23	27	1.98
648221--648357	46	2.9	46	90	3	202	33	18	20	27	1.96
648233--648357	48	2.7	46	89	2	187	33	19	19	28	1.96
649478--649546	19	3.7	18	78	18	70	7	14	0	78	0.96
659744--659836	40	2.3	40	85	1	125	59	13	9	17	1.61
664907--664945	20	2.0	20	90	10	62	12	30	33	23	1.92
666301--666473	31	5.6	31	90	0	256	20	16	21	40	1.91
666301--666473	93	1.9	93	92	0	292	20	16	21	40	1.91
675167--675211	22	2.0	22	86	4	63	40	8	15	35	1.79
681059--681333	144	1.9	144	84	3	369	27	17	4	50	1.66
681494--681545	26	2.0	26	88	0	77	48	13	1	36	1.54
687079--687119	19	2.2	19	86	4	57	60	0	17	21	1.35
691133--691166	18	1.9	18	88	5	52	52	5	20	20	1.67
693508--693543	17	2.2	17	90	5	56	25	8	2	63	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
697251--697300	20	2.5	20	83	0	64	32	22	12	34	1.90
706011--706051	16	2.6	16	88	3	57	31	19	9	39	1.84
708752--708902	20	7.4	20	83	4	185	37	17	25	20	1.94
708731--708902	63	2.8	63	87	2	233	37	17	25	20	1.94
708704--708904	20	9.7	20	76	8	134	36	18	24	19	1.94
709830--710188	177	2.0	175	97	2	574	28	22	17	31	1.96
713639--713675	19	1.9	19	100	0	74	40	10	5	43	1.63
716201--716233	13	2.6	13	90	4	50	36	0	0	63	0.95
722329--722566	42	5.7	42	70	14	170	32	15	21	30	1.95
722335--722590	82	3.1	80	81	8	280	31	14	21	31	1.94
724036--724173	44	3.3	42	80	5	152	34	26	13	25	1.93
728394--728437	21	2.1	21	83	8	54	43	13	40	2	1.57
728828--729136	43	7.2	43	79	4	266	33	24	19	21	1.97
728842--729136	86	3.4	85	81	2	349	35	24	18	21	1.96
731636--731780	60	2.4	60	80	6	161	34	22	4	39	1.73
735366--735782	212	2.0	205	94	5	739	39	17	15	27	1.90
739451--739519	23	3.0	23	89	0	102	28	24	26	20	1.99
744688--744713	12	2.2	12	100	0	52	57	15	0	26	1.38
744937--745005	23	3.0	23	89	0	102	26	26	27	20	1.99
747551--747653	21	4.7	21	66	11	71	47	5	16	30	1.70
747535--747681	68	2.1	68	98	1	285	43	6	18	31	1.76
747823--747862	18	2.2	18	86	0	53	27	17	30	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
752219--752258	20	2.0	20	95	0	71	22	25	27	25	2.00
752885--752952	35	1.9	35	84	0	91	22	19	20	38	1.94
756429--756589	81	2.0	80	98	1	313	33	13	29	23	1.92
766733--766779	2	24.5	2	91	8	80	53	0	0	46	1.00
766733--766779	15	3.2	15	96	3	87	53	0	0	46	1.00
768998--769051	22	2.4	23	76	17	60	37	9	0	53	1.33
770613--770663	19	2.6	20	90	3	77	43	23	17	15	1.88
770613--770870	20	12.6	20	75	9	153	39	19	22	17	1.92
770717--770860	63	2.3	63	96	0	261	36	17	26	19	1.94
770958--770990	6	5.5	6	100	0	66	33	51	15	0	1.43
771668--771743	6	13.5	6	97	1	108	0	17	55	27	1.42
771833--772004	20	8.3	20	82	5	191	22	23	16	37	1.94
771833--771983	40	3.7	40	85	5	212	22	23	16	37	1.94
771841--771963	63	2.0	63	88	0	183	22	24	16	36	1.94
771831--772004	83	2.1	83	94	0	303	21	24	17	36	1.94
771833--772004	63	2.8	61	81	9	181	22	23	16	37	1.94
771831--772108	20	13.6	20	75	8	157	19	21	19	39	1.92
772058--772108	19	2.6	20	90	3	77	15	17	23	43	1.88
777682--777748	33	2.0	35	82	11	86	50	2	0	46	1.16
780007--780036	12	2.6	11	90	10	51	90	10	0	0	0.47
781130--781191	21	2.8	23	85	11	94	30	3	19	46	1.65
788469--788512	23	1.9	24	86	9	65	34	6	2	56	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
789269--789316	24	2.0	24	100	0	96	16	12	33	37	1.86
790770--790841	24	3.0	24	79	4	83	52	16	11	19	1.73
790770--790876	24	4.4	25	73	11	71	50	15	12	21	1.77
793347--793377	13	2.5	13	94	5	55	6	9	38	45	1.63
793427--793511	34	2.5	34	98	0	161	40	0	0	60	0.97
793413--793482	23	3.0	25	75	14	69	41	0	0	58	0.98
794774--794842	29	2.4	29	95	0	129	43	14	15	26	1.85
795448--795488	21	2.0	21	85	9	57	17	9	2	70	1.25
797184--797212	6	4.8	6	100	0	58	0	65	0	34	0.93
798282--798423	21	6.9	21	70	4	110	21	19	22	36	1.95
798282--798423	41	3.5	41	95	0	257	21	19	22	36	1.95
798307--798420	20	5.6	20	72	4	102	19	21	21	37	1.94
806534--806579	22	2.0	24	87	8	69	39	0	17	43	1.49
807723--807854	29	4.6	29	88	3	178	29	3	17	50	1.61
807724--807854	57	2.3	58	90	4	203	29	3	16	50	1.60
808488--808560	24	3.0	24	81	0	92	24	15	20	39	1.91
811989--812047	2	29.5	2	100	0	118	50	0	0	49	1.00
812527--812583	23	2.5	23	82	0	69	21	26	22	29	1.99
820304--820341	12	3.2	12	85	3	51	78	0	21	0	0.74
820295--820337	19	2.1	21	87	8	63	76	0	23	0	0.78
820295--820341	17	2.9	16	81	6	51	76	0	23	0	0.78
840504--840541	17	2.2	18	85	4	51	50	5	5	39	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
853170--853214	18	2.5	18	85	0	63	40	2	0	57	1.11
854730--854762	13	2.4	14	90	5	50	78	6	0	15	0.93
864165--864305	76	1.9	75	95	4	257	31	18	31	18	1.95
868307--868355	19	2.6	19	83	0	62	34	20	26	18	1.95
868344--868458	20	5.7	20	82	6	115	31	26	18	24	1.97
868643--868686	22	2.0	22	95	0	79	20	45	15	18	1.85
868928--868991	20	3.2	20	86	0	83	15	18	21	43	1.87
870307--870351	18	2.5	18	88	0	72	26	44	15	13	1.83
872677--872712	14	2.6	14	90	0	54	30	0	22	47	1.52
872819--872891	19	4.4	16	78	21	64	49	19	19	12	1.79

Tables:   1   2   3   4