genome.fa.s6550.2.7.7.80.10.50.1000.4.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: VEPZ01006550.1 Hibiscus syriacus cultivar Beakdansim tig00016004_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1576944

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 954 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)
564617--564719	38	2.7	37	77	14	111	16	30	34	18	1.93
566023--566057	18	1.9	18	88	0	52	54	0	17	28	1.43
568626--568663	17	2.3	17	86	4	51	78	5	15	0	0.91
569512--569723	106	2.0	106	83	5	268	33	24	19	22	1.97
570979--571017	19	2.0	20	95	5	71	25	5	0	69	1.09
571284--571322	20	1.9	21	89	5	62	15	10	0	74	1.07
582877--582936	26	2.3	26	100	0	120	11	26	6	55	1.60
583030--583220	41	4.7	41	84	2	152	36	14	18	30	1.91
583061--583369	41	7.6	41	81	6	290	34	14	18	33	1.91
583061--583369	123	2.5	123	85	4	394	34	14	18	33	1.91
584958--584990	14	2.4	14	94	0	57	36	18	18	27	1.94
585132--585189	27	2.1	28	84	15	84	50	1	1	46	1.22
585138--585189	27	1.9	27	92	7	88	48	0	1	50	1.12
585181--585251	33	2.3	30	85	9	90	49	0	2	47	1.16
585193--585262	31	2.2	29	77	20	70	48	0	2	48	1.16
585206--585269	33	1.9	33	81	12	78	51	0	3	45	1.17
585293--585342	23	2.2	22	82	3	55	42	2	4	52	1.31
585332--585379	17	2.8	17	81	6	53	54	0	2	43	1.12
585463--585515	23	2.4	22	83	3	61	47	1	3	47	1.31
585438--585537	28	3.5	28	76	11	98	49	1	2	48	1.19
585483--585547	30	2.2	28	84	13	78	49	0	4	46	1.22
585513--585564	20	2.5	20	77	14	52	51	0	1	46	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585435--585559	53	2.3	55	76	14	136	49	0	2	47	1.20
586045--586074	2	15.0	2	100	0	60	50	0	0	50	1.00
590860--591007	28	5.2	28	75	11	124	75	9	12	2	1.12
590860--590927	13	4.7	15	78	12	72	77	7	11	2	1.07
590906--591033	23	5.9	22	77	14	99	73	10	14	2	1.19
590862--591007	29	5.1	28	78	8	113	75	9	13	2	1.13
590887--591024	11	12.5	11	66	14	61	75	9	13	2	1.13
590860--591027	41	4.0	40	73	19	105	75	8	13	2	1.14
593467--593565	36	2.8	36	78	6	103	37	19	11	32	1.87
593539--593839	105	2.9	105	87	1	426	32	17	10	38	1.85
593922--594003	27	3.0	25	81	15	83	29	14	12	43	1.82
594235--594319	28	3.0	27	84	5	89	25	14	12	47	1.80
594249--594333	28	3.0	28	86	3	100	24	15	12	47	1.81
594352--594453	43	2.5	40	80	15	102	29	31	16	22	1.96
594338--594686	134	2.6	132	82	3	346	26	30	17	24	1.97
594879--594923	3	15.0	3	86	9	65	33	0	0	66	0.92
595784--595822	19	2.1	19	85	9	53	20	0	2	76	0.90
595946--596080	29	4.6	30	72	11	84	17	12	11	59	1.61
598047--598115	9	7.4	9	78	12	68	78	1	5	14	1.01
599119--599178	26	2.3	26	77	5	68	71	3	8	16	1.24
599182--599226	2	22.5	2	82	17	58	48	2	2	46	1.26
599215--599679	37	12.4	34	76	16	224	44	6	4	44	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
599233--599640	38	10.8	36	77	14	344	45	6	4	44	1.48
599377--599401	11	2.3	11	100	0	50	44	8	8	40	1.63
599233--599604	151	2.4	153	88	6	535	45	6	3	44	1.46
600302--601688	84	16.6	84	82	1	1406	25	17	23	33	1.96
600271--601688	168	8.5	168	85	2	1679	25	18	23	33	1.96
600271--601688	335	4.2	336	85	1	1765	25	18	23	33	1.96
602780--603002	111	2.0	111	100	0	446	24	23	22	30	1.99
605596--605643	21	2.3	21	88	0	69	79	2	6	12	1.01
606827--606857	2	16.0	2	93	6	55	51	0	0	48	1.00
606880--607061	35	4.9	37	81	12	187	43	6	2	46	1.44
606840--607069	37	6.1	37	78	13	179	44	6	3	46	1.43
612628--612806	64	2.8	63	82	8	218	29	17	24	28	1.97
616024--616065	21	2.0	21	85	4	57	50	11	0	38	1.40
621670--621721	19	2.7	19	96	0	95	13	21	30	34	1.92
621624--621778	83	1.9	83	80	2	186	28	18	23	30	1.97
623951--624009	23	2.6	22	86	5	82	25	28	23	22	1.99
623993--624032	17	2.3	18	86	4	55	25	30	25	20	1.99
623972--624017	23	2.0	23	83	8	58	26	26	26	21	2.00
626517--626557	19	2.1	20	86	4	57	21	43	21	12	1.85
627643--627795	65	2.4	65	89	2	218	30	18	22	28	1.98
628316--628420	6	16.8	6	75	11	61	18	10	0	70	1.21
628394--628438	6	7.7	6	92	2	65	17	13	4	64	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636343--636381	16	2.4	16	82	0	51	43	7	20	28	1.79
636499--637253	226	3.3	226	87	0	1064	36	14	17	31	1.90
637474--637507	2	17.0	2	93	0	59	50	2	0	47	1.16
641354--641445	6	15.2	6	79	6	78	51	7	11	29	1.66
641355--641443	24	3.7	24	83	3	99	52	7	10	29	1.63
641354--641419	30	2.2	30	94	0	114	53	9	9	28	1.63
644441--644898	200	2.3	201	87	0	666	33	14	13	38	1.85
645808--646271	230	2.0	230	87	2	673	35	20	7	36	1.81
648900--649269	131	2.8	131	83	5	462	39	14	11	34	1.82
651253--651370	3	39.3	3	92	0	173	61	0	2	34	1.15
651667--652037	133	2.8	132	85	1	501	30	14	24	30	1.95
653126--653175	8	6.8	8	78	17	63	0	22	0	78	0.76
653126--653175	14	3.4	14	88	5	73	0	22	0	78	0.76
653126--653175	22	2.3	21	86	10	73	0	22	0	78	0.76
653182--653208	14	1.9	14	100	0	54	18	7	0	74	1.05
662858--663079	111	2.0	111	88	3	331	32	11	15	40	1.83
665997--666027	3	10.3	3	100	0	62	64	0	0	35	0.94
666285--666355	32	2.2	33	84	2	90	29	8	7	54	1.57
666378--666444	31	2.3	31	82	7	77	28	10	8	52	1.66
666307--666653	166	2.1	165	96	2	660	29	9	10	50	1.67
666544--666610	31	2.3	31	82	7	77	28	10	8	52	1.66
666544--666651	29	3.7	29	79	6	110	28	9	11	50	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
666605--666661	29	2.0	29	89	0	87	26	8	14	50	1.71
671590--671626	13	2.8	13	91	0	56	18	18	27	35	1.95
673192--673414	95	2.4	95	82	5	256	34	16	21	26	1.94
673853--674228	80	4.9	80	84	7	465	36	10	22	30	1.88
675241--675363	52	2.4	52	95	0	219	28	14	31	25	1.95
675790--675835	20	2.3	20	85	14	60	26	10	8	54	1.64
689050--689093	19	2.3	19	88	4	61	11	20	0	68	1.20
688705--689175	241	2.0	228	93	6	793	16	25	8	49	1.74
695811--695853	16	2.7	15	85	7	50	20	13	0	65	1.27
702488--702660	90	1.9	89	90	5	278	38	9	6	45	1.63
709999--710037	11	3.2	12	82	10	53	15	10	0	74	1.07
715797--715839	22	2.0	22	100	0	86	51	13	0	34	1.42
715799--715847	22	2.2	22	88	3	71	55	14	0	30	1.40
715819--715974	32	5.4	32	75	22	166	53	14	0	32	1.41
715805--715952	80	1.9	80	100	0	296	52	16	0	31	1.45
715904--715960	18	3.4	18	67	18	59	54	14	0	31	1.40
715855--715928	22	3.2	22	69	23	62	54	18	0	27	1.44
715954--716041	15	5.5	15	79	18	97	53	3	0	43	1.17
715922--716041	52	2.4	49	90	8	183	53	5	0	40	1.25
719282--719314	15	2.1	16	94	5	59	57	0	18	24	1.40
719408--719478	15	4.7	15	75	3	61	49	5	14	30	1.66
719411--719477	31	2.2	32	86	8	102	47	5	13	32	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
719408--719463	16	3.6	16	80	9	71	51	5	14	28	1.64
720544--720593	10	5.0	10	82	0	55	26	30	0	44	1.55
726635--726740	53	2.1	49	85	7	140	32	21	19	26	1.97
726893--726953	29	2.1	29	84	9	79	31	14	24	29	1.95
727535--727563	6	4.8	6	100	0	58	31	0	17	51	1.45
743567--743604	15	2.8	13	88	11	51	50	0	5	44	1.24
745472--745514	22	2.0	22	85	0	59	23	11	23	41	1.87
753397--753440	15	2.9	15	86	0	70	36	29	13	20	1.91
758531--758575	18	2.5	18	96	0	81	17	11	24	46	1.81
759998--760046	24	2.0	24	100	0	98	38	16	8	36	1.78

Tables:   1   2   3   4   5   6   7   8