genome.fa.s8475.2.7.7.80.10.50.1000.3.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: VEPZ01008475.1 Hibiscus syriacus cultivar Beakdansim tig00111303_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  982705

Tables:   1   2   3   4   

This is table  3  of  4  ( 427 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)
580077--580149	36	2.0	36	100	0	146	16	46	13	23	1.82
580291--580336	23	2.0	23	100	0	92	47	4	39	8	1.54
580291--580351	23	2.6	23	86	5	59	50	6	36	6	1.54
580512--580600	41	2.2	41	78	8	92	42	1	10	46	1.45
580581--580672	46	2.0	48	87	8	136	42	0	11	45	1.41
580850--580912	28	2.2	30	91	5	103	57	11	0	31	1.34
580854--580919	28	2.4	28	85	10	98	56	10	0	33	1.34
580889--580937	21	2.3	21	85	3	71	53	16	0	30	1.43
582447--582477	6	5.2	6	96	0	53	67	3	29	0	1.06
584117--584312	20	9.6	20	77	7	144	26	24	21	27	1.99
584487--584529	22	2.0	22	95	0	77	27	37	16	18	1.92
584677--584724	24	2.0	24	100	0	96	29	8	20	41	1.81
584931--585004	20	3.7	20	85	0	85	13	17	25	43	1.86
584920--585007	20	4.4	20	82	1	79	13	15	25	45	1.83
584971--585014	20	2.2	20	87	0	61	9	13	22	54	1.67
585073--585149	28	2.8	28	97	0	145	35	15	9	40	1.79
586917--586964	20	2.4	20	89	6	71	35	27	18	18	1.95
586990--587059	20	3.6	19	77	7	70	21	20	22	35	1.96
587551--587592	21	2.2	19	87	12	59	21	35	19	23	1.96
587546--587656	42	2.7	43	77	5	120	20	36	18	24	1.94
588707--588768	14	4.3	14	73	6	52	38	1	14	45	1.55
588882--588920	20	2.0	20	89	0	60	48	20	20	10	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
588963--589221	20	13.9	20	70	15	187	26	19	20	33	1.96
588923--589105	94	1.9	94	91	0	294	24	21	21	32	1.98
589005--589213	54	3.9	53	84	5	258	24	18	22	34	1.96
589002--589213	108	2.0	108	85	3	293	24	18	22	34	1.96
588919--589156	74	3.2	72	71	14	198	23	21	21	33	1.97
592652--592718	20	3.3	20	82	0	80	29	20	20	28	1.98
592702--592778	20	3.8	20	94	0	127	27	19	14	38	1.90
592687--592779	40	2.3	41	85	5	136	29	19	13	37	1.90
593282--593423	31	4.6	31	90	0	221	40	21	18	19	1.91
595218--595314	35	2.8	35	85	4	126	29	1	26	42	1.62
595641--595666	13	2.0	13	100	0	52	61	0	0	38	0.96
596100--596134	6	5.8	6	100	0	70	0	65	0	34	0.93
599320--599571	63	4.0	63	90	1	373	30	17	20	30	1.96
599320--599571	31	8.0	31	76	7	240	30	17	20	30	1.96
602730--602951	63	3.5	63	89	2	347	33	17	18	31	1.93
602730--602983	31	8.1	31	73	9	201	32	17	18	31	1.94
606041--606119	35	2.4	33	85	6	97	34	1	0	64	1.02
610590--610668	39	2.0	39	100	0	158	40	21	15	22	1.90
611389--611439	17	3.0	18	75	13	54	62	5	1	29	1.29
611586--611643	2	29.5	2	96	3	109	50	0	0	50	1.00
611690--611748	29	2.0	29	96	0	109	23	11	15	49	1.77
616374--616432	29	2.0	29	100	0	118	23	13	13	49	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617470--617507	14	2.7	14	84	11	51	21	10	28	39	1.86
635947--635982	13	2.8	13	91	0	54	19	22	41	16	1.90
642757--642794	20	2.0	20	89	5	60	23	28	18	28	1.98
643483--644044	137	4.1	137	91	0	878	24	16	25	33	1.95
644426--644622	103	1.9	103	89	2	306	26	14	16	41	1.87
644604--644726	58	2.1	58	92	3	203	29	13	21	35	1.92
649666--649694	3	9.7	3	100	0	58	65	0	0	34	0.93
650211--650243	17	1.9	17	93	0	57	36	6	12	45	1.66
650288--650350	24	2.7	23	78	7	63	20	17	36	25	1.94
668987--669028	16	2.8	16	89	7	61	64	11	9	14	1.50
670121--670173	14	4.1	14	72	18	51	52	22	13	11	1.71
670118--670166	24	2.0	24	96	0	89	55	18	12	14	1.69
672544--672573	14	2.1	14	100	0	60	26	13	36	23	1.92
676699--676754	27	2.1	27	89	0	85	35	26	10	26	1.89
676966--677030	30	2.2	30	83	5	78	12	30	23	33	1.91
678585--678657	21	3.5	21	88	1	103	38	17	26	17	1.92
678643--678720	41	1.9	41	86	0	111	38	21	15	24	1.92
678688--678739	20	2.6	20	93	0	86	26	28	19	25	1.98
679257--679304	19	2.5	19	77	12	53	45	27	16	10	1.80
679300--679450	19	8.1	19	82	10	177	11	21	21	45	1.84
679300--679450	39	4.1	38	78	10	177	11	21	21	45	1.84
681454--681576	42	2.9	42	80	2	122	22	36	17	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
681510--681576	21	3.2	21	66	6	55	23	35	20	19	1.95
682933--682968	14	2.6	14	95	0	63	30	0	25	44	1.54
683075--683142	20	3.8	19	72	21	74	45	19	22	13	1.84
683147--683277	19	7.7	19	65	23	85	14	22	19	42	1.88
683151--683277	33	3.9	32	84	8	175	14	22	19	42	1.88
683144--683276	66	2.0	66	94	0	230	16	22	19	41	1.90
685546--685570	12	2.1	12	100	0	50	0	28	0	72	0.86
685745--685798	24	2.2	24	90	0	81	38	20	16	24	1.92
686833--686890	20	2.9	20	94	0	98	37	22	22	17	1.93
686909--687029	19	6.6	19	89	6	180	14	21	18	46	1.84
689018--689084	19	3.5	19	83	4	89	37	23	23	14	1.93
689073--689130	14	3.9	14	79	16	71	48	25	17	8	1.75
689057--689135	32	2.4	33	95	2	142	46	24	18	10	1.80
689142--689237	19	5.7	16	71	22	65	11	18	22	46	1.81
689164--689221	14	3.9	14	79	16	71	8	17	25	48	1.75
689147--689237	32	2.8	33	93	3	157	10	17	23	48	1.79
689223--689275	20	2.7	19	85	5	70	16	22	24	35	1.95
689748--689792	18	2.5	18	85	0	63	11	15	46	26	1.79
691326--691369	22	2.0	22	95	0	79	18	15	45	20	1.85
691537--691650	20	5.7	20	75	10	81	26	16	23	33	1.96
691639--691714	21	3.7	21	83	3	109	14	25	19	40	1.89
691578--691712	41	3.3	41	82	4	139	20	20	21	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
691658--691731	20	3.7	20	83	3	103	16	22	20	40	1.91
691639--691731	41	2.3	41	96	0	177	16	24	19	39	1.91
702264--702435	60	2.9	60	78	4	177	30	20	5	43	1.74
707913--707944	16	2.0	16	100	0	64	43	12	31	12	1.80
710807--710842	18	1.9	18	94	5	63	83	0	11	5	0.80
710801--710854	25	2.2	25	80	6	56	81	1	11	5	0.93
710820--710844	13	1.9	13	100	0	50	80	0	12	8	0.92
711898--711974	32	2.4	32	80	2	82	33	11	19	35	1.88
712553--712810	64	4.0	64	94	0	426	34	21	13	30	1.92
713003--713254	83	3.0	84	86	2	335	35	21	17	25	1.95
722313--722473	78	2.1	79	92	1	270	32	14	8	43	1.77
724942--724977	15	2.5	15	95	4	65	58	36	0	5	1.22
737491--737532	7	5.6	7	84	15	57	42	0	0	57	0.99
737492--737534	17	2.6	17	96	3	79	41	0	0	58	0.98
738512--738548	15	2.6	14	91	4	56	13	8	16	62	1.54
738514--738558	14	3.1	14	87	3	54	17	8	13	60	1.58
748696--748732	4	9.0	4	96	3	65	27	0	24	48	1.51
749341--749407	31	2.2	31	89	5	102	46	4	5	43	1.48
755815--755857	21	2.0	21	81	0	50	27	27	25	18	1.98
756585--756681	31	3.2	30	72	13	90	27	19	19	32	1.96
756664--756822	30	5.3	30	95	0	266	22	22	25	30	1.99
760562--760604	21	2.0	21	81	0	50	27	27	25	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
761329--761424	31	3.1	31	78	3	104	26	16	21	35	1.95
761410--761568	30	5.3	30	96	0	284	22	23	25	29	1.99
766550--766615	31	2.1	30	83	10	80	42	18	4	34	1.70
769858--769930	37	2.0	37	97	0	137	27	17	6	47	1.73
786399--786444	18	2.6	18	93	3	76	30	19	15	34	1.93
786414--786511	45	2.2	45	85	7	128	28	25	18	27	1.98
809257--809305	20	2.5	20	100	0	98	16	24	14	44	1.84
811592--811760	62	2.7	62	88	3	234	11	26	31	30	1.92
811592--811760	31	5.5	31	83	0	167	11	26	31	30	1.92
837180--837259	35	2.3	35	88	0	124	42	22	0	35	1.54

Tables:   1   2   3   4