genome.fa.s8341.2.7.7.80.10.50.1000.3.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: VEPZ01008341.1 Hibiscus syriacus cultivar Beakdansim tig00111067_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1248125

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 617 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)
519640--519723	20	4.5	18	75	19	66	66	0	3	29	1.08
521184--521384	110	1.8	110	88	2	305	21	18	22	36	1.95
522104--522425	65	4.8	65	76	11	254	39	10	19	29	1.86
522173--522563	36	11.4	36	68	17	215	38	12	20	28	1.88
522182--522441	138	1.9	138	90	3	416	40	12	20	27	1.88
522477--522639	37	4.6	37	69	18	132	36	12	20	30	1.90
522274--522639	102	3.6	102	88	1	475	37	12	19	30	1.89
522579--522650	37	1.9	37	88	0	108	40	12	19	27	1.88
523970--524107	69	2.0	69	89	0	213	25	13	23	37	1.92
524199--524233	15	2.3	15	86	13	54	2	11	2	82	0.88
524179--524239	26	2.4	26	89	5	90	4	14	3	77	1.07
527361--527402	19	2.2	19	87	8	59	78	2	2	16	0.96
527361--527402	10	4.4	10	82	8	52	78	2	2	16	0.96
527446--527492	17	2.7	17	81	12	60	72	0	12	14	1.13
527635--527723	38	2.3	38	86	7	117	65	0	4	30	1.13
527588--527702	16	7.2	15	71	19	65	68	0	4	26	1.08
527777--527837	23	2.7	24	77	10	65	68	0	4	26	1.09
531167--531201	17	2.2	16	90	10	54	28	5	0	65	1.15
532849--532908	19	3.2	19	100	0	120	25	25	0	50	1.50
532973--533064	34	2.7	34	86	0	112	40	20	15	23	1.91
536018--536048	16	1.9	16	93	0	53	29	19	19	32	1.96
540013--540049	14	2.7	14	84	16	51	64	0	13	21	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541640--541722	38	2.2	38	80	6	96	27	22	13	36	1.92
543373--543411	19	2.1	19	90	0	60	74	5	0	20	1.01
544805--545034	39	5.9	39	89	4	358	43	8	3	45	1.51
544805--545034	116	2.0	117	89	3	358	43	8	3	45	1.51
544995--545078	28	3.1	28	86	10	129	42	8	3	45	1.51
544995--545102	26	4.1	25	84	11	119	44	6	3	45	1.47
544806--545035	77	3.0	76	89	6	313	43	8	3	44	1.51
545063--545133	2	36.0	2	86	8	92	49	0	1	49	1.09
545010--545124	26	4.7	24	82	11	94	46	4	2	46	1.36
553822--553852	11	2.7	12	90	10	55	87	0	12	0	0.55
553823--553852	14	2.2	13	94	5	51	90	0	10	0	0.47
565188--565353	90	1.9	89	94	1	296	36	12	6	45	1.66
573530--573560	16	1.9	16	93	0	53	12	41	3	41	1.59
574398--574428	11	2.8	11	100	0	62	80	0	0	19	0.71
574384--574439	15	3.6	15	79	13	60	76	0	0	23	0.78
574375--574442	31	2.2	30	84	7	84	77	1	0	20	0.84
574379--574442	20	3.1	20	78	12	58	76	1	0	21	0.87
574369--574442	9	7.4	10	73	15	55	77	2	0	20	0.90
575678--575715	9	4.2	9	100	0	76	78	0	0	21	0.74
575754--575822	28	2.6	27	79	9	79	44	8	2	43	1.50
575769--575975	39	5.4	39	85	7	273	42	7	4	45	1.51
575798--575998	37	5.4	35	76	19	126	42	5	4	47	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578487--578754	26	11.5	24	63	23	83	20	24	14	40	1.90
578425--578759	138	2.4	138	86	0	454	21	24	13	41	1.88
578425--578758	46	7.3	46	85	0	409	21	24	12	41	1.88
590992--591046	23	2.2	26	75	25	71	36	12	10	40	1.79
590999--591054	23	2.4	23	93	0	103	37	16	12	33	1.86
604680--604772	46	2.0	46	100	0	186	31	21	21	25	1.98
608220--608258	18	2.1	19	85	4	53	64	0	7	28	1.21
609148--609186	19	2.1	19	95	0	69	30	35	12	20	1.90
617029--617188	65	2.5	66	84	7	204	31	24	15	28	1.96
623711--623748	20	1.9	20	88	0	58	26	34	26	13	1.93
627588--627625	20	1.9	20	88	0	58	42	18	2	36	1.64
630677--630713	16	2.3	17	86	9	51	35	13	0	51	1.41
630792--630823	10	3.2	10	90	0	55	12	28	0	59	1.34
637811--638097	143	2.0	144	93	0	486	40	9	16	33	1.82
648492--648568	31	2.5	31	78	2	82	27	29	27	15	1.96
649443--649602	29	5.6	29	79	11	159	35	20	5	38	1.76
664679--665811	566	2.0	566	98	0	2212	37	13	19	28	1.91
667555--667780	55	4.1	55	85	0	281	30	18	20	30	1.96
668057--668112	26	2.2	26	80	6	60	50	1	1	46	1.22
673275--673374	48	2.1	48	90	5	157	27	17	12	44	1.83
673275--673374	49	2.1	48	92	5	166	27	17	12	44	1.83
677198--677236	11	3.5	11	96	3	69	30	0	43	25	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
678192--678242	20	2.5	20	90	0	75	35	11	29	23	1.90
678192--678259	20	3.4	20	85	0	73	35	13	25	26	1.92
681162--681555	46	8.6	45	91	3	617	45	10	23	21	1.81
681162--681556	138	2.9	137	93	1	682	45	10	23	21	1.81
685064--685149	44	2.0	44	92	0	145	36	18	26	18	1.94
685223--685309	44	2.0	44	93	0	147	35	19	26	18	1.95
684954--685519	161	3.5	161	92	0	900	31	20	25	22	1.98
688589--688633	14	3.0	15	84	15	58	40	0	0	60	0.97
688638--688685	22	2.1	23	88	3	71	47	0	0	52	1.00
688612--688689	26	3.1	25	75	21	74	43	0	0	56	0.99
688925--688973	19	2.6	19	100	0	98	42	10	14	32	1.79
688987--689048	17	3.4	17	69	26	54	51	1	11	35	1.47
688960--689048	39	2.3	39	100	0	178	50	2	11	35	1.51
688965--689031	22	3.3	22	69	26	74	50	2	10	35	1.52
689752--689954	31	6.5	31	97	0	379	29	18	18	33	1.95
690293--690365	24	2.7	27	75	25	75	50	1	1	46	1.18
691257--691323	28	2.4	28	97	0	125	44	32	8	13	1.75
692111--692162	2	26.0	2	100	0	104	50	0	0	50	1.00
692381--692449	36	1.9	36	82	11	88	49	1	0	49	1.09
692400--692488	18	4.7	18	75	13	72	51	0	0	48	1.00
695038--695079	18	2.4	18	92	4	68	64	0	2	33	1.07
695626--695676	26	2.0	26	88	0	75	31	19	7	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
698153--698196	19	2.3	19	92	0	70	22	6	13	56	1.61
704302--704339	20	1.9	20	94	0	67	28	18	28	23	1.98
706044--706107	31	2.0	32	82	8	78	48	7	18	25	1.75
711000--711035	15	2.4	15	90	0	54	33	0	63	2	1.08
715530--715615	2	42.5	2	93	6	147	50	1	1	47	1.16
715950--716005	24	2.3	24	82	17	80	48	17	7	26	1.73
716127--716242	60	1.9	61	84	10	157	39	18	8	33	1.81
719072--719107	12	3.1	12	96	4	65	52	22	0	25	1.47
724313--724357	19	2.4	18	85	3	54	62	6	0	31	1.21
726134--726175	20	2.0	21	86	4	59	52	14	9	23	1.71
726770--726859	31	3.0	29	80	7	99	36	13	7	42	1.73
737770--737817	3	16.0	3	95	0	60	58	0	0	41	0.98
737974--738254	124	2.3	120	86	5	363	24	18	16	40	1.90
738174--738586	113	3.7	113	88	4	568	29	18	14	37	1.90
738174--738586	229	1.8	222	85	5	578	29	18	14	37	1.90
738549--738614	20	3.3	20	65	23	57	15	24	10	50	1.75
738529--738626	40	2.5	40	98	0	187	18	22	9	50	1.75
738567--738774	113	1.8	113	89	0	326	25	18	15	40	1.90
738413--738911	153	3.1	155	81	6	491	26	19	13	40	1.88
739682--739995	115	2.7	115	95	1	567	30	21	16	32	1.95
740955--740994	19	2.0	20	90	9	64	50	5	5	40	1.46
741337--741393	6	9.0	6	85	14	71	0	17	0	82	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
741338--741394	7	8.7	7	83	9	68	0	15	0	84	0.63
741338--741395	26	2.2	27	90	3	91	0	15	0	84	0.62
748713--748744	15	2.1	15	94	0	55	46	6	18	28	1.73
754248--754282	2	17.5	2	100	0	70	48	0	0	51	1.00
754284--754334	3	17.0	3	91	0	84	62	0	0	37	0.95
756687--756734	20	2.4	20	80	10	53	37	6	2	54	1.38
758289--758319	15	2.1	15	93	0	53	45	19	9	25	1.81
758640--758692	19	2.8	19	97	0	97	20	20	32	26	1.98
758661--758738	27	2.9	27	94	0	129	24	21	29	24	1.99
759978--760017	2	20.0	2	100	0	80	50	0	0	50	1.00

Tables:   1   2   3   4   5   6