genome.fa.s6856.2.7.7.80.10.50.1000.2.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: VEPZ01006856.1 Hibiscus syriacus cultivar Beakdansim tig00017446_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1184065

Tables:   1   2   3   4   

This is table  2  of  4  ( 400 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)
389960--390158	104	1.9	105	90	1	319	30	11	24	34	1.90
392209--392251	17	2.5	17	96	0	77	23	9	30	37	1.86
404909--404935	14	1.9	14	100	0	54	22	25	22	29	1.99
406967--407035	2	34.5	2	100	0	138	50	0	0	49	1.00
408444--408547	24	4.3	24	80	0	100	50	15	10	23	1.74
412873--412976	24	4.3	24	80	4	93	52	15	10	21	1.72
412913--412977	12	5.4	12	72	7	60	52	13	15	18	1.75
417213--417249	18	2.1	18	100	0	74	32	16	16	35	1.91
427184--427227	3	14.7	3	86	9	63	34	27	2	36	1.70
444406--444574	90	1.9	90	91	2	277	36	13	5	44	1.68
448141--448195	23	2.3	24	81	3	76	65	10	14	9	1.47
449401--449443	23	1.9	21	81	13	50	32	16	13	37	1.88
456132--456166	17	2.1	17	88	0	52	11	5	17	65	1.43
457297--457560	54	4.9	53	77	10	250	39	19	9	31	1.84
457297--457555	107	2.4	107	80	8	294	39	19	9	30	1.84
457575--457865	55	5.3	55	80	3	262	42	16	8	32	1.78
459859--459900	22	1.9	22	85	0	57	4	16	0	78	0.91
459908--459962	15	3.7	15	81	15	69	9	9	1	80	0.99
461208--461257	20	2.4	19	81	15	55	52	12	20	16	1.75
463177--463258	41	2.0	41	95	0	146	46	8	21	23	1.79
463495--463564	29	2.3	30	80	11	81	47	7	11	34	1.67
464777--464895	39	3.1	39	82	3	125	21	23	22	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469652--469842	77	2.5	77	82	5	208	17	26	24	31	1.97
469651--469844	39	5.0	39	83	6	200	17	26	24	31	1.97
470375--470420	24	1.9	24	90	0	74	71	6	0	21	1.08
472456--473248	203	3.9	202	86	2	1067	27	20	17	34	1.95
472449--473248	402	2.0	403	88	2	1174	27	20	17	34	1.95
474827--475135	54	5.8	53	77	4	255	40	19	10	29	1.84
474827--475103	54	5.2	53	79	4	263	40	19	10	28	1.85
474827--475133	107	2.9	107	80	4	298	40	19	10	29	1.85
477579--477650	36	2.0	36	100	0	144	27	13	11	47	1.77
477581--477642	20	3.3	20	66	25	62	29	14	11	45	1.80
477887--477916	10	2.9	10	95	5	51	50	0	3	46	1.18
478913--478953	18	2.3	18	86	0	55	17	21	12	48	1.79
480805--480846	21	2.0	22	90	4	68	64	9	0	26	1.24
487868--487928	27	2.3	27	80	8	70	26	13	11	49	1.75
489197--489282	13	6.7	12	73	13	64	76	5	1	16	1.03
489197--489282	6	13.3	6	74	11	64	76	5	1	16	1.03
489194--489255	31	2.0	30	87	3	88	75	6	0	17	1.00
490687--490747	21	2.9	22	75	9	63	24	21	22	31	1.98
494919--494949	16	1.9	16	100	0	62	38	12	3	45	1.59
495336--495453	60	2.0	59	91	1	191	26	17	22	33	1.96
501855--501967	59	1.9	59	88	0	172	25	20	20	33	1.97
515385--515421	18	2.0	19	89	5	58	32	10	10	45	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537649--537690	21	2.0	22	90	4	68	45	4	0	50	1.23
537654--537697	21	2.1	22	87	8	65	50	4	0	45	1.22
537659--537702	21	2.2	21	84	8	56	50	6	0	43	1.29
542346--542370	13	1.9	13	100	0	50	24	44	0	32	1.54
542349--542463	36	3.2	36	88	1	169	29	37	3	29	1.74
542605--542640	15	2.4	15	90	0	54	19	27	0	52	1.46
545992--546042	20	2.6	20	90	3	77	33	13	5	47	1.67
546442--546539	13	8.1	13	69	19	52	28	36	3	31	1.73
546439--546558	35	3.4	35	82	9	154	29	35	3	31	1.74
549992--550030	18	2.2	18	85	0	51	41	35	10	12	1.77
550666--550700	17	2.0	18	88	5	54	14	0	25	60	1.35
555089--555140	24	2.2	24	100	0	104	7	15	19	57	1.62
560681--560719	18	2.2	18	85	0	51	43	33	7	15	1.75
566848--566891	21	2.1	21	91	0	70	25	25	25	25	2.00
569169--569213	16	2.8	16	96	0	81	31	6	8	53	1.58
582667--582721	22	2.5	22	100	0	110	69	0	7	23	1.14
584414--584489	24	3.3	22	75	14	55	47	1	3	47	1.29
587968--588034	18	3.6	18	87	4	80	28	23	22	25	1.99
590359--590514	45	3.5	45	89	0	242	37	7	21	32	1.82
599820--599956	43	3.2	44	72	12	129	35	17	21	26	1.95
600571--600617	19	2.6	18	87	12	69	0	21	2	76	0.89
616792--617001	80	2.6	80	88	0	312	29	24	11	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617242--617577	54	6.2	55	85	1	381	28	18	17	35	1.93
617271--617577	109	2.8	108	88	1	434	28	18	17	34	1.94
617491--617664	87	2.0	87	89	2	269	28	20	17	32	1.96
617578--617975	54	7.3	54	86	3	548	26	18	20	33	1.96
617437--617718	141	2.0	141	88	1	422	28	20	18	32	1.96
617578--617975	164	2.4	163	89	2	586	26	18	20	33	1.96
618314--618474	74	2.2	74	86	3	216	26	21	16	35	1.95
620614--620668	2	27.5	2	100	0	110	49	0	0	50	1.00
622377--622469	47	2.0	47	82	4	116	20	18	8	52	1.71
622472--622680	80	2.6	80	83	0	238	30	22	11	35	1.90
622947--623753	54	14.8	55	87	1	1124	27	18	19	33	1.95
622947--623753	109	7.4	110	88	1	1124	27	18	19	33	1.95
622947--623753	164	4.9	164	88	2	1133	27	18	19	33	1.95
624171--624224	22	2.6	20	76	5	54	29	20	14	35	1.93
624079--624297	94	2.3	95	87	2	316	26	25	15	32	1.95
637198--637252	24	2.3	25	81	6	60	32	16	21	29	1.95
640345--640406	29	2.1	29	91	5	99	33	4	20	40	1.74
642749--643000	27	9.5	27	70	19	181	18	19	13	48	1.81
642674--643011	49	6.6	49	77	15	337	19	20	13	47	1.82
646997--647190	97	2.0	97	98	0	379	17	24	21	36	1.94
649954--649995	7	6.0	7	97	0	75	57	0	26	16	1.40
650496--650528	15	2.2	15	94	0	57	54	15	24	6	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
652554--652590	19	2.1	18	90	10	58	40	8	5	45	1.56
654649--654728	35	2.3	35	95	0	142	25	40	2	32	1.69
660694--660773	35	2.3	35	88	0	115	26	37	2	33	1.70
662468--662507	2	20.0	2	100	0	80	50	0	0	50	1.00
665371--665418	21	2.3	21	88	0	69	31	12	37	18	1.88
669178--669254	39	2.0	39	81	0	91	22	25	19	32	1.97
674277--674306	11	2.7	11	100	0	60	16	33	30	20	1.94
675539--675601	2	31.0	2	87	9	83	46	1	4	47	1.33
675545--675608	33	1.9	33	100	0	128	42	3	7	46	1.48
675588--676657	541	2.0	545	90	2	1675	33	9	14	41	1.78
681654--681683	15	2.0	15	100	0	60	33	13	6	46	1.69
683957--684059	36	2.9	36	91	1	163	33	36	2	27	1.72
683974--684058	11	7.2	12	71	19	63	32	36	2	28	1.70
683958--684040	13	6.8	13	75	16	81	33	36	2	27	1.70
684496--684539	14	2.9	15	76	10	54	79	4	13	2	0.98
687754--687803	19	2.6	19	90	0	73	32	16	6	46	1.71
688148--688232	11	7.2	11	72	22	66	31	36	3	28	1.74
688145--688247	36	2.9	36	95	1	181	30	35	4	29	1.78
689703--690243	258	2.1	253	82	5	651	34	14	15	35	1.88
689703--690255	257	2.2	253	82	5	657	34	14	15	35	1.88
690215--690667	237	1.9	236	80	5	520	30	15	18	35	1.91
691496--691546	18	2.6	20	78	15	61	41	5	15	37	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693628--693674	23	2.0	23	83	0	58	31	19	17	31	1.94
694939--694993	28	2.0	28	86	10	78	9	21	1	67	1.28
695809--695859	19	2.6	19	81	3	66	41	3	17	37	1.68
698092--698276	45	4.1	45	87	0	255	31	23	7	37	1.83
701766--701816	20	2.6	20	93	3	86	33	13	5	47	1.67
702315--702369	25	2.1	26	80	12	60	14	25	0	60	1.35
707419--707470	24	2.2	24	100	0	104	7	15	19	57	1.62
710319--710384	31	2.1	31	83	10	82	68	6	1	24	1.21
717243--717337	50	1.9	50	88	0	145	34	25	24	15	1.95
717416--717456	22	2.0	21	85	9	57	34	7	9	48	1.64

Tables:   1   2   3   4