genome.fa.s9633.2.7.7.80.10.50.1000.3.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: VEPZ01009633.1 Hibiscus syriacus cultivar Beakdansim tig00117032_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2608659

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  3  of  13  ( 1552 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)
349898--350052	20	7.7	20	81	2	175	21	21	16	40	1.92
349898--350052	41	3.8	41	82	4	179	21	21	16	40	1.92
349905--350052	61	2.4	61	97	0	278	20	20	17	40	1.91
350049--350108	20	2.9	21	77	5	68	41	16	21	20	1.90
350048--350114	21	3.2	21	76	4	73	38	16	22	22	1.92
351248--351351	44	2.5	40	80	14	113	24	32	31	11	1.91
351248--351343	10	9.3	9	75	20	66	23	32	31	12	1.92
351290--351342	21	2.7	19	82	8	70	26	30	30	13	1.94
351299--351387	31	2.9	30	85	11	101	26	28	34	10	1.89
351455--351543	10	8.5	10	72	10	54	10	32	32	24	1.89
351420--351499	32	2.5	31	86	8	99	8	37	27	26	1.86
351483--351511	13	2.2	13	100	0	58	6	34	34	24	1.82
363473--363610	68	2.0	70	95	4	253	25	11	21	41	1.87
377982--378006	13	1.9	13	100	0	50	52	0	0	48	1.00
378970--379488	260	2.0	260	94	4	915	35	17	18	28	1.94
379794--379822	12	2.3	13	94	5	51	27	3	6	62	1.37
383882--383915	16	2.1	16	88	5	50	58	2	8	29	1.43
383959--383996	10	3.8	10	89	0	58	42	0	28	28	1.56
389169--389258	29	3.1	29	70	10	76	48	0	5	45	1.25
389215--389249	17	1.9	17	88	11	52	54	0	2	42	1.15
390673--390750	20	3.9	21	83	6	99	26	26	17	28	1.98
392059--392219	64	2.5	63	83	5	207	31	18	25	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
392207--392264	20	2.6	22	89	10	84	31	20	22	25	1.98
394810--394847	17	2.3	17	86	4	51	28	7	13	50	1.69
398047--398108	23	2.9	21	85	7	81	22	35	24	17	1.95
402758--402811	23	2.4	23	84	3	65	14	24	25	35	1.94
405646--405736	23	4.0	23	86	0	128	17	26	26	29	1.98
411908--411968	6	10.2	6	89	0	50	16	31	0	52	1.44
411941--411966	3	8.7	3	100	0	52	0	34	0	65	0.93
413309--413400	30	3.0	31	90	6	136	19	18	22	39	1.93
416857--417012	64	2.5	63	83	6	197	33	18	23	24	1.97
418459--418515	22	2.5	23	94	5	107	17	28	24	29	1.97
421240--421274	18	1.9	18	94	0	61	20	20	34	25	1.96
421555--423427	6	323.8	6	86	11	2694	32	0	17	49	1.49
428610--428653	21	2.0	22	95	4	81	38	18	20	22	1.93
431208--431247	21	1.9	21	84	0	53	25	7	15	52	1.68
437523--437565	3	14.7	3	95	4	79	34	0	0	65	0.93
444739--444977	105	2.3	102	84	7	297	30	19	12	37	1.88
444923--445041	36	3.4	34	79	6	114	30	20	12	36	1.90
444941--445042	36	2.9	36	82	4	129	33	19	11	35	1.88
445302--445409	29	3.8	29	92	3	166	26	8	13	50	1.70
445302--445409	56	1.9	58	88	7	168	26	8	13	50	1.70
445501--445564	30	2.1	30	88	5	94	37	10	12	39	1.78
445522--445717	67	2.9	67	87	5	274	31	13	12	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446139--446182	15	2.9	15	93	0	70	31	20	4	43	1.72
446582--446663	28	2.9	28	83	3	94	23	13	14	48	1.79
446689--447010	40	7.6	40	70	15	209	25	31	18	23	1.98
446676--447052	40	8.8	45	71	16	205	25	31	19	23	1.98
446682--447010	86	3.9	83	73	14	215	25	31	19	23	1.98
446692--447010	129	2.5	128	95	0	557	26	31	19	23	1.98
454419--454656	104	2.3	102	84	8	297	30	19	12	37	1.89
454602--454720	36	3.4	34	79	6	114	30	20	12	36	1.90
454620--454721	36	2.9	36	82	4	129	33	19	11	35	1.88
454980--455087	29	3.8	29	92	3	166	26	8	13	50	1.70
454980--455087	56	1.9	58	88	7	168	26	8	13	50	1.70
454961--455088	29	4.5	28	85	9	161	29	9	12	48	1.72
455179--455242	30	2.1	30	85	5	85	39	9	12	39	1.75
455200--455395	67	2.9	67	87	5	265	31	12	12	42	1.81
455817--455860	15	2.9	15	93	0	70	31	20	4	43	1.72
456262--456343	28	2.9	28	83	3	94	23	13	14	48	1.79
456369--456691	40	7.6	40	71	14	218	26	31	18	23	1.97
456356--456733	40	8.8	45	72	15	214	25	32	19	23	1.98
456372--456691	129	2.5	129	95	0	568	26	31	18	23	1.98
472080--472123	21	2.0	22	86	4	63	36	9	2	52	1.46
475701--475737	5	7.4	5	90	0	56	37	37	2	21	1.68
506972--507029	30	1.9	30	89	0	89	53	10	13	22	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507076--507102	2	13.5	2	100	0	54	51	0	0	48	1.00
510168--510231	23	2.8	23	82	0	92	32	26	25	15	1.95
510696--510761	2	33.5	2	96	3	125	50	0	0	50	1.00
516136--516172	19	1.9	19	94	0	65	32	29	16	21	1.95
516366--516690	83	3.9	83	81	9	344	27	17	20	34	1.95
516372--516652	41	6.8	40	70	12	160	27	18	20	34	1.95
516372--516688	164	1.9	166	82	6	403	27	18	19	34	1.95
520575--520712	43	3.2	43	82	0	141	32	24	19	23	1.97
520910--520957	20	2.4	20	85	0	60	29	29	18	22	1.98
520924--520979	20	2.8	20	88	0	76	26	30	19	23	1.98
521799--521852	24	2.2	24	93	0	90	20	18	20	40	1.91
522042--522079	14	2.7	14	84	8	51	52	21	18	7	1.70
524115--524149	18	1.9	18	94	0	61	54	25	0	20	1.45
524209--524478	140	1.9	140	96	0	495	29	13	14	42	1.85
524449--524707	20	13.9	20	73	14	212	34	21	18	25	1.96
524481--524574	34	2.8	34	86	0	134	38	24	14	22	1.92
524565--524747	74	2.5	74	91	0	276	33	19	20	25	1.97
524457--524707	94	2.7	93	83	4	298	34	21	18	25	1.96
524610--524741	34	3.7	34	74	11	111	34	18	21	24	1.96
524914--524969	14	4.0	14	81	4	51	50	12	1	35	1.51
524902--524963	14	4.3	14	81	6	70	45	12	1	40	1.52
526339--526461	42	2.9	42	79	7	142	21	18	37	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526339--526453	21	5.5	21	73	4	97	20	19	37	22	1.94
526936--526978	19	2.2	20	91	4	70	48	23	13	13	1.79
526965--527013	20	2.5	20	96	0	89	36	26	22	14	1.92
527085--527123	19	2.0	20	90	5	62	12	15	20	51	1.76
527128--527176	20	2.5	20	89	0	71	18	22	26	32	1.97
529084--529199	20	6.2	20	74	11	93	39	24	18	18	1.92
529083--529185	53	1.9	54	86	2	145	41	24	18	15	1.89
529575--529632	22	2.6	22	80	0	80	18	12	43	25	1.85
529776--529877	41	2.5	41	91	0	159	22	14	23	39	1.91
529770--529886	21	5.7	21	71	11	89	23	14	23	39	1.91
529791--529924	20	6.6	20	71	13	85	24	16	23	35	1.95
530069--530201	62	2.1	62	95	0	239	51	7	10	30	1.64
530303--530498	101	1.9	101	80	2	223	34	20	17	27	1.95
530465--530647	41	4.3	41	72	12	140	39	20	17	22	1.92
530466--530682	62	3.5	62	80	7	224	39	21	17	22	1.92
530464--530682	21	10.4	21	71	11	153	39	21	16	22	1.92
530787--530824	12	3.5	11	85	7	51	26	52	18	2	1.58
531131--531220	19	4.3	20	75	16	94	31	26	4	37	1.76
535195--535264	34	2.1	34	86	5	99	22	30	15	31	1.95
535548--535589	21	2.0	21	95	0	75	26	28	21	23	1.99
535766--535824	29	2.0	31	90	6	95	42	16	5	35	1.71
537981--538050	34	2.1	34	86	5	99	22	30	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538334--538375	21	2.0	21	95	0	75	26	28	21	23	1.99
538585--538644	29	2.0	31	90	6	97	41	15	3	40	1.63
539033--539079	20	2.3	20	96	0	85	14	21	10	53	1.71
542641--542684	22	2.0	22	83	16	56	81	2	13	2	0.88
542642--542689	18	2.7	18	84	9	64	83	2	12	2	0.83
544198--544326	52	2.6	51	80	6	147	32	18	24	24	1.97
544200--544322	49	2.5	50	81	5	133	32	17	26	23	1.97
545508--545546	20	2.0	20	89	0	60	28	23	17	30	1.97
545502--545746	100	2.5	100	85	2	296	32	16	18	32	1.93
545712--545786	20	3.8	20	81	0	87	29	20	18	32	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13