genome.fa.s2341.2.7.7.80.10.50.1000.3.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: VEPZ01002341.1 Hibiscus syriacus cultivar Beakdansim tig00004779_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1266629

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 574 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)
535611--535655	15	3.0	15	76	0	54	20	37	17	24	1.93
535616--535690	15	5.2	15	67	15	50	17	42	17	22	1.89
538460--538484	12	2.1	12	100	0	50	48	0	0	52	1.00
538421--538482	25	2.4	27	75	5	74	45	1	3	50	1.27
538511--538588	25	3.3	24	70	23	76	37	5	14	43	1.67
538500--538611	45	2.5	45	92	1	188	42	4	12	40	1.63
538502--538570	20	3.2	20	67	25	59	40	4	17	37	1.69
538972--539021	25	2.0	25	88	4	73	52	0	0	48	1.00
538972--539014	13	3.4	12	81	9	50	51	0	0	48	1.00
539430--539490	20	3.0	20	72	6	61	27	24	16	31	1.96
548994--549031	8	4.8	8	93	0	67	36	23	13	26	1.91
558414--558443	15	2.0	15	100	0	60	73	0	26	0	0.84
561026--561142	29	4.2	29	87	11	183	41	0	6	52	1.28
561038--561142	53	2.0	52	96	1	192	41	0	7	50	1.31
561038--561119	24	3.2	24	89	8	110	43	0	7	48	1.30
560903--561321	154	2.7	155	79	10	582	39	6	5	48	1.51
573792--573837	20	2.3	19	89	10	74	54	10	17	17	1.70
573959--574005	20	2.4	19	82	10	67	53	10	17	19	1.72
573968--574010	20	2.3	19	88	11	63	51	11	16	20	1.75
576232--576296	21	3.1	21	81	0	76	38	15	30	15	1.88
576330--576395	33	2.0	33	90	0	105	28	0	48	22	1.51
582113--582152	16	2.5	16	95	0	71	17	30	27	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584205--584299	24	4.0	24	91	0	154	24	13	18	43	1.87
584319--584348	2	15.0	2	100	0	60	50	0	0	50	1.00
587683--587734	26	2.0	26	81	7	61	53	26	5	13	1.62
589854--589895	15	2.6	17	82	17	54	38	0	2	59	1.10
596202--596262	17	3.5	17	75	6	52	36	4	0	59	1.19
596884--596941	2	29.0	2	80	13	66	43	6	0	50	1.29
596884--596941	26	2.2	26	100	0	116	43	6	0	50	1.29
596864--596947	22	3.7	22	87	4	105	39	7	1	52	1.37
597612--597637	2	13.0	2	100	0	52	50	0	0	50	1.00
612453--612495	22	2.0	22	95	0	77	44	4	11	39	1.62
617078--617111	17	2.0	17	94	0	59	38	11	11	38	1.79
617305--617397	33	2.8	33	95	1	161	45	16	6	32	1.72
617392--617433	21	2.0	21	95	0	75	47	7	14	30	1.71
623431--623509	2	40.0	2	97	2	151	49	0	0	50	1.00
626353--626414	22	2.9	21	77	17	56	14	14	4	66	1.41
627263--627619	181	2.0	180	94	0	633	34	18	13	33	1.90
663372--664242	295	3.0	295	97	0	1613	33	16	13	35	1.89
670745--670774	6	5.0	6	100	0	60	33	0	50	16	1.46
673008--673032	2	12.5	2	100	0	50	52	0	0	48	1.00
677853--678070	113	1.9	113	90	3	350	35	10	18	34	1.86
684554--684602	6	8.0	6	84	10	64	34	28	18	18	1.94
691377--691445	25	2.8	25	93	2	122	24	15	7	52	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693049--693112	32	2.0	31	84	3	83	39	6	14	40	1.71
698429--698459	12	2.6	12	94	0	53	19	45	22	12	1.84
707809--707848	19	2.0	20	85	4	55	37	7	15	40	1.75
714424--714457	7	4.9	7	96	0	59	8	32	0	58	1.29
715349--715379	12	2.6	12	100	0	62	9	22	48	19	1.78
715403--715480	2	42.5	2	73	16	71	48	0	0	51	1.00
715377--715480	54	2.0	52	90	3	163	50	0	0	49	1.07
728650--728697	19	2.5	19	93	0	87	25	8	16	50	1.73
736937--737060	51	2.4	51	91	2	196	28	24	22	25	2.00
742711--742931	110	2.0	111	92	0	372	45	9	8	36	1.67
743055--743095	10	4.1	10	84	12	57	39	0	29	31	1.57
749986--750101	42	2.8	42	87	0	178	17	17	16	49	1.81
750313--750463	59	2.6	57	79	15	134	49	1	2	46	1.24
750309--750463	57	2.7	58	78	15	151	50	1	2	45	1.23
750457--750501	23	2.0	23	86	0	63	53	2	2	42	1.25
750794--750834	14	2.9	14	85	0	55	39	14	12	34	1.84
750824--750862	20	2.0	20	84	0	51	33	12	7	46	1.71
755605--755812	75	2.8	76	85	3	260	24	31	23	21	1.98
761581--761641	20	2.9	21	90	7	88	21	31	26	21	1.98
761582--761663	20	3.9	19	78	10	56	23	34	23	19	1.97
764246--764451	74	2.7	75	84	3	254	24	31	23	20	1.98
767740--767780	19	2.2	19	95	0	73	34	29	12	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
768003--768040	2	19.0	2	100	0	76	50	0	0	50	1.00
768411--768471	25	2.4	25	91	0	95	40	29	14	14	1.86
768625--768692	2	34.0	2	100	0	136	50	0	0	50	1.00
770202--770251	22	2.3	22	80	12	59	28	6	6	60	1.44
777715--777760	22	2.1	22	84	8	58	30	0	2	67	1.03
779705--779808	31	3.4	29	76	7	100	39	6	17	36	1.76
779883--779923	21	2.0	21	85	0	55	56	7	12	24	1.61
789544--789601	29	2.0	29	100	0	116	37	34	10	17	1.84
792644--792712	7	9.9	7	83	12	79	0	24	0	75	0.81
792664--792712	13	3.7	13	88	2	71	0	24	0	75	0.80
794747--794819	35	2.0	37	84	10	98	49	4	1	45	1.29
796386--796458	35	2.1	35	84	5	94	47	1	4	46	1.30
798591--798630	21	2.0	20	85	5	53	0	45	2	52	1.14
806687--806725	20	2.0	20	89	0	60	17	41	35	5	1.72
807141--807179	19	2.0	20	85	14	55	25	5	5	64	1.35
808095--808190	50	1.9	51	89	6	151	43	2	11	42	1.52
811516--811553	20	1.9	20	88	0	58	21	26	10	42	1.85
811865--811904	15	2.9	15	75	24	52	25	17	5	52	1.64
812552--812603	24	2.1	26	85	7	72	53	17	11	17	1.72
814376--814411	2	18.0	2	100	0	72	0	50	0	50	1.00
814470--814497	2	14.0	2	100	0	56	50	0	0	50	1.00
820585--820610	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
821895--821924	2	15.5	2	93	6	53	46	0	0	53	1.00
823975--824013	17	2.4	17	91	4	62	43	0	2	53	1.14
824991--825060	33	2.1	33	92	5	115	8	40	22	28	1.84
825004--825075	33	2.2	33	84	0	90	11	37	25	26	1.89
825065--825113	14	3.8	14	74	20	61	10	28	40	20	1.85
825065--825116	24	2.2	24	96	0	95	11	26	40	21	1.87
825161--825239	29	2.7	29	96	0	140	21	27	35	15	1.93
833984--834089	50	2.1	51	85	5	144	39	10	9	40	1.72
838476--838517	21	2.0	21	86	9	59	35	2	0	61	1.09
839653--839718	21	3.1	21	84	0	87	43	16	21	18	1.87
840451--840579	59	2.2	59	83	6	154	44	6	16	32	1.72
843693--843744	24	2.2	24	82	0	59	57	1	5	34	1.33
846106--846165	31	2.0	31	87	6	88	55	3	6	35	1.43
859242--859338	35	2.8	35	83	0	122	42	23	1	32	1.61
874261--874299	20	2.0	20	85	10	53	66	0	2	30	1.05
882618--882785	42	4.0	42	85	3	162	42	11	21	24	1.86
883583--883634	18	2.8	19	80	8	63	51	21	13	13	1.74
885864--886089	115	2.0	115	99	0	443	29	9	22	38	1.86
895265--895355	40	2.3	40	92	0	146	25	25	23	26	2.00
897745--897782	16	2.4	16	95	0	67	36	28	15	18	1.92
900344--900370	2	13.5	2	100	0	54	48	0	0	51	1.00
901138--901200	21	3.0	21	70	9	56	46	17	1	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
901148--901218	35	2.1	34	86	7	99	46	18	1	33	1.58
901148--901240	34	2.7	35	81	5	91	44	20	1	34	1.59
901741--901788	2	24.0	2	100	0	96	50	0	0	50	1.00
903634--903660	2	13.5	2	100	0	54	51	0	0	48	1.00
905012--905065	5	11.2	5	81	15	53	75	0	1	22	0.89
905016--905078	4	15.0	4	88	6	74	73	0	3	23	0.98
905088--905431	37	8.9	38	73	19	191	49	6	0	42	1.35
905226--905259	16	2.1	16	100	0	68	58	11	0	29	1.33
905152--905315	90	1.8	90	89	5	260	51	6	0	42	1.31
905235--905379	39	3.8	40	75	12	110	49	6	1	42	1.38

Tables:   1   2   3   4   5