genome.fa.s7807.2.7.7.80.10.50.1000.4.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: VEPZ01007807.1 Hibiscus syriacus cultivar Beakdansim tig00110126_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2195110

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 993 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)
559080--559268	90	2.1	90	98	0	369	29	15	14	40	1.87
560398--560744	175	2.0	170	86	6	475	30	11	19	38	1.87
561733--561762	3	10.3	3	92	7	53	66	0	0	33	0.92
566180--566237	29	2.1	29	83	6	75	37	13	29	18	1.90
566739--566928	32	6.1	29	72	19	143	55	2	4	37	1.33
567301--567336	17	2.1	17	89	0	54	77	0	11	11	0.99
567344--567389	19	2.4	18	82	10	56	71	0	13	15	1.14
567566--567643	2	39.5	2	81	7	61	58	0	3	37	1.16
568880--568953	2	37.5	2	89	8	116	48	0	2	48	1.15
569719--569980	106	2.5	106	85	1	355	23	17	25	34	1.96
572963--573002	21	1.9	21	94	0	71	27	2	40	30	1.70
579298--579354	28	2.1	27	87	9	80	45	0	5	49	1.24
579281--579366	28	3.2	28	78	12	74	54	1	4	39	1.29
579553--579583	6	5.2	6	100	0	62	0	16	51	32	1.44
581817--582078	30	8.6	29	75	12	150	54	2	5	38	1.36
581952--582069	31	4.0	29	78	15	98	55	0	5	38	1.24
581993--582069	29	2.7	27	78	11	82	51	0	5	42	1.24
582029--582084	28	2.0	28	86	10	78	48	1	7	42	1.41
586525--586611	35	2.5	34	80	12	97	54	10	8	27	1.62
588932--588970	18	2.2	18	95	4	71	64	2	0	33	1.08
590805--590836	12	2.7	12	100	0	64	59	9	25	6	1.52
590983--591021	3	13.0	3	100	0	78	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595155--595195	20	2.0	20	85	4	55	46	12	24	17	1.82
598048--598193	19	7.2	19	77	20	120	77	0	19	2	0.91
598039--598191	21	7.5	21	70	18	99	76	0	20	1	0.93
598048--598178	31	4.3	30	77	11	117	77	0	19	2	0.93
598043--598187	49	3.1	45	76	20	120	76	0	20	2	0.93
598043--598197	40	3.8	41	69	15	115	76	0	21	1	0.93
598055--598193	21	6.8	20	74	16	115	77	0	20	1	0.89
598032--598204	79	2.3	74	80	11	197	75	0	21	2	0.98
599973--600607	38	16.6	38	83	4	769	24	18	16	40	1.90
600555--601056	45	11.4	45	80	6	481	24	16	18	40	1.91
600451--601056	132	4.7	132	77	8	437	24	17	18	39	1.91
600554--601053	177	2.8	176	82	4	486	24	17	18	40	1.91
601848--602173	132	2.5	132	81	5	352	30	18	20	30	1.97
602462--602491	3	10.0	3	92	0	51	30	0	3	66	1.07
604196--604270	35	2.1	35	90	0	114	34	1	20	44	1.60
606695--607032	172	2.0	172	98	1	660	33	19	14	31	1.92
613391--613603	84	2.5	85	86	3	279	33	17	18	30	1.94
613575--613631	13	4.4	13	86	0	69	36	17	19	26	1.94
613575--613630	26	2.2	26	86	0	76	37	16	19	26	1.92
613581--613639	13	4.5	13	86	0	82	33	20	18	27	1.96
615094--615122	15	1.9	15	100	0	58	34	27	6	31	1.83
622043--622067	7	3.6	7	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
622648--622733	43	2.0	43	100	0	172	55	13	9	20	1.66
628682--628721	18	2.1	20	90	9	66	32	15	5	47	1.66
632888--633188	112	2.7	112	84	1	379	35	23	11	28	1.91
633111--633235	48	2.6	48	96	1	225	36	24	11	28	1.90
633012--633339	160	2.1	159	90	2	507	35	26	11	26	1.91
633160--634048	111	8.1	111	84	5	929	32	25	14	27	1.95
632888--633459	272	2.1	273	88	1	846	33	25	13	27	1.93
636505--636552	17	2.8	17	96	3	87	47	0	0	52	1.00
638590--638620	16	1.9	16	93	0	53	67	0	0	32	0.91
638587--638625	21	1.9	21	89	5	62	69	0	0	30	0.89
639459--639526	2	34.0	2	100	0	136	50	0	0	50	1.00
639921--639981	23	2.6	24	82	7	72	6	9	37	45	1.63
640029--640103	3	25.3	3	91	2	125	64	0	2	33	1.08
640367--640794	203	2.1	202	86	3	583	27	20	18	32	1.96
649764--649804	18	2.2	19	83	12	50	58	4	0	36	1.20
650829--650890	27	2.4	25	81	10	70	70	4	4	19	1.23
652544--653217	134	5.0	134	82	3	725	32	20	18	29	1.96
652579--653217	267	2.4	268	85	4	819	32	19	17	29	1.95
655721--656030	131	2.4	131	81	0	370	33	10	13	42	1.79
660643--661398	111	6.8	111	85	2	930	32	25	14	27	1.95
660639--661390	329	2.3	330	86	3	1030	32	25	14	27	1.95
667322--667974	111	5.9	109	83	3	711	32	24	15	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
667324--667921	218	2.7	218	84	4	745	33	24	15	27	1.95
667322--667921	329	1.8	329	86	4	879	33	24	15	27	1.95
671354--671489	51	2.7	49	82	8	157	36	16	22	24	1.94
671346--671530	51	3.6	49	76	9	142	37	17	20	24	1.94
671483--671783	45	6.7	45	76	6	220	41	17	15	24	1.89
671520--671734	89	2.4	89	79	6	247	44	17	15	22	1.87
671481--671769	134	2.1	133	77	9	307	42	17	15	23	1.88
672046--672105	30	2.0	30	83	6	77	5	20	0	75	0.99
672046--672102	28	2.0	29	82	6	71	5	19	0	75	0.99
672228--672307	42	1.9	42	86	0	115	32	18	23	25	1.97
672151--672717	250	2.2	254	83	4	707	34	17	14	32	1.91
690729--690758	7	4.3	7	100	0	60	0	13	0	86	0.57
692004--692142	69	2.0	70	91	1	226	40	17	12	30	1.86
693041--693129	44	2.0	44	93	0	151	21	34	17	25	1.96
693646--693764	3	40.0	3	98	1	231	66	0	0	33	0.92
698152--698206	28	2.0	28	85	7	76	29	1	9	60	1.38
698327--698416	2	45.0	2	89	8	121	44	2	3	50	1.31
707619--707668	19	2.7	18	82	14	57	22	2	4	72	1.12
707626--707678	25	2.0	25	82	10	61	24	1	3	69	1.15
707660--707701	22	1.9	22	85	9	59	28	0	2	69	1.01
719149--719213	6	10.7	6	84	12	80	80	1	18	0	0.80
719149--719215	7	9.7	7	73	13	59	79	1	19	0	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
720076--720553	44	10.8	44	67	3	152	30	21	20	28	1.98
720047--720552	133	3.8	133	92	2	813	30	20	20	28	1.98
720541--720619	33	2.4	33	79	10	90	34	16	21	27	1.95
721829--721878	19	2.7	18	82	14	57	22	2	4	72	1.12
723270--723322	26	2.0	28	88	7	83	43	3	1	50	1.30
723257--723339	23	3.5	22	76	19	69	40	2	1	55	1.21
725558--725608	22	2.3	22	96	0	93	29	25	11	33	1.91
725587--726241	81	8.1	81	90	1	988	31	23	10	33	1.89
725630--726241	325	1.9	324	93	1	1046	31	23	10	33	1.89
741935--741985	20	2.5	20	96	0	93	29	19	23	27	1.98
750398--750442	20	2.2	20	100	0	90	35	35	11	17	1.86
755209--755699	81	6.1	81	90	0	676	32	22	9	35	1.87
758724--758789	26	2.5	26	100	0	132	18	24	28	28	1.98
760513--760569	28	2.1	28	83	6	73	38	1	1	57	1.19
761923--761959	17	2.2	17	90	0	56	40	10	8	40	1.70
765687--765746	17	3.5	17	84	6	68	31	15	16	36	1.90
765686--765746	16	3.6	17	80	13	63	32	14	16	36	1.89
765782--765851	18	4.0	17	79	5	77	38	15	8	37	1.78
767510--767541	11	2.8	12	90	9	50	21	0	0	78	0.76
767682--767772	31	2.9	31	91	0	137	41	10	0	47	1.39
767799--767835	18	2.1	18	100	0	74	24	16	10	48	1.77
775952--776063	55	2.1	55	82	1	136	23	26	16	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
780283--780333	18	3.0	18	72	16	54	39	1	0	58	1.09
781671--781706	18	1.9	19	88	5	56	63	0	0	36	0.94
781674--781724	24	2.1	24	85	7	68	64	1	0	33	1.05
782348--782476	33	3.9	32	79	5	123	27	27	15	29	1.96
782622--782700	33	2.4	33	91	0	122	31	13	27	26	1.94
789675--789734	21	2.9	21	95	2	104	36	15	13	35	1.86
793892--793949	20	2.9	20	89	0	80	37	20	6	34	1.80
794278--794358	19	4.5	19	74	21	68	69	0	6	24	1.11
794278--794328	20	2.5	21	81	15	63	72	0	5	21	1.05
794278--794355	35	2.3	35	78	10	90	69	0	6	24	1.12

Tables:   1   2   3   4   5   6   7   8   9