genome.fa.s8094.2.7.7.80.10.50.1000.4.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   

This is table  4  of  43  ( 5090 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)
645538--646254	228	3.1	228	97	0	1346	44	7	8	39	1.63
646303--646349	20	2.4	19	82	10	58	53	8	19	19	1.70
646475--646530	20	2.8	19	84	7	76	51	12	16	19	1.75
646493--646535	20	2.3	19	88	11	63	51	11	16	20	1.75
648740--648783	21	2.1	21	91	0	70	40	11	31	15	1.83
648817--648882	33	2.0	33	90	0	105	28	0	48	22	1.51
649076--649124	15	3.0	17	74	17	50	48	0	46	4	1.20
649083--649125	15	2.9	14	81	18	52	48	0	44	6	1.29
650076--650100	4	6.2	4	100	0	50	24	0	28	48	1.52
650680--650728	19	2.6	19	93	0	80	30	2	10	57	1.43
650847--651538	199	3.5	198	96	0	1276	37	14	16	31	1.90
652633--653125	183	2.7	182	94	1	851	34	15	17	33	1.90
655236--655301	30	2.2	29	81	5	78	42	10	7	39	1.68
655238--655295	30	1.9	30	85	0	80	43	10	6	39	1.66
655248--655304	30	1.9	30	89	3	89	42	8	8	40	1.67
655691--655715	11	2.3	11	100	0	50	32	8	24	36	1.84
655962--656675	228	3.1	228	97	0	1328	44	7	8	39	1.63
656724--656770	20	2.4	19	82	10	58	53	8	19	19	1.70
656896--656951	20	2.8	19	84	7	76	51	12	16	19	1.75
656914--656956	20	2.3	19	88	11	63	51	11	16	20	1.75
659161--659204	21	2.1	21	91	0	70	40	11	31	15	1.83
659238--659303	33	2.0	33	90	0	105	28	0	48	22	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659499--659547	15	3.0	17	74	17	50	48	0	46	4	1.20
659506--659548	15	2.9	14	81	18	52	48	0	44	6	1.29
660501--660533	4	8.2	4	100	0	66	24	0	27	48	1.51
661113--661161	19	2.6	19	93	0	80	30	2	10	57	1.43
661280--661970	199	3.5	199	97	0	1294	37	14	17	30	1.90
663061--663553	183	2.7	182	94	1	851	34	15	17	33	1.90
666021--666085	25	2.6	25	80	0	85	35	9	13	41	1.77
666432--666504	23	3.2	23	88	0	101	34	4	21	39	1.73
666912--666969	30	1.9	30	82	6	73	29	3	17	50	1.62
666923--666973	24	2.1	24	88	0	75	31	3	17	47	1.66
667700--667772	23	3.2	23	84	0	92	35	4	20	39	1.72
668130--668202	23	3.2	23	84	7	94	34	2	20	42	1.67
667497--668981	430	3.5	431	97	0	2827	41	7	11	38	1.70
668558--668630	23	3.2	23	84	0	92	34	4	20	41	1.72
676782--676823	2	21.0	2	100	0	84	50	0	0	50	1.00
680984--681040	26	2.2	26	81	6	71	47	22	5	24	1.72
681274--681333	31	1.9	31	96	0	111	26	36	13	23	1.92
681944--682004	2	30.5	2	100	0	122	49	0	0	50	1.00
685126--685231	45	2.3	45	88	7	153	31	19	17	31	1.96
691004--691096	44	2.2	43	86	7	127	30	27	18	23	1.98
692459--692501	19	2.3	19	95	0	77	16	11	20	51	1.75
693719--693900	56	3.0	60	74	21	173	31	23	18	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693766--693883	57	2.1	56	81	12	136	31	22	18	27	1.97
696893--696952	32	1.9	31	82	3	75	35	3	1	60	1.23
696930--696988	25	2.4	24	78	21	68	32	10	1	55	1.43
703401--703524	64	2.0	63	90	1	194	45	12	9	32	1.75
703445--703631	87	2.1	87	94	0	320	42	11	12	32	1.79
706592--708559	200	9.8	200	93	0	3269	28	14	13	43	1.84
706592--708559	399	4.9	400	93	0	3278	28	14	13	43	1.84
706592--708559	599	3.3	598	93	0	3303	28	14	13	43	1.84
711113--711153	15	2.7	15	84	0	55	26	2	48	21	1.63
711532--714179	199	13.3	199	93	0	4459	26	14	16	41	1.87
714507--714573	19	3.6	19	84	8	75	53	11	0	34	1.38
716047--716078	15	2.1	15	94	0	55	6	37	0	56	1.25
716732--716787	24	2.5	21	76	20	60	48	7	1	42	1.41
718039--718088	19	2.6	20	84	9	68	38	16	0	46	1.47
718479--719485	183	5.6	181	79	9	1064	27	14	13	44	1.83
718466--719157	194	3.7	182	84	6	859	28	15	12	43	1.83
718999--719321	164	2.0	163	83	3	416	27	12	12	47	1.78
719413--719451	20	1.9	21	89	5	62	15	15	23	46	1.83
718840--719484	346	1.9	346	88	1	981	26	14	13	44	1.83
720105--720259	83	1.8	85	82	10	203	30	11	18	39	1.86
720645--720704	30	1.9	32	83	6	79	46	0	1	51	1.10
720678--720733	17	3.1	19	80	12	73	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
720640--720744	43	2.5	43	81	10	110	45	0	0	53	1.06
720838--720906	33	2.0	35	83	10	90	42	1	1	55	1.18
720661--720948	149	1.9	150	87	5	422	44	2	1	52	1.19
720836--720906	28	2.5	28	78	19	76	42	1	1	54	1.17
720931--721008	32	2.3	36	75	14	87	43	2	0	53	1.14
724197--724263	32	2.1	32	100	0	134	32	8	25	32	1.87
725347--725835	244	2.0	240	88	4	732	24	10	16	48	1.77
727497--727584	30	2.9	29	81	3	86	47	18	5	28	1.71
727855--727885	16	1.9	16	93	0	53	58	19	0	22	1.40
728685--728813	41	3.1	41	72	14	113	28	16	21	33	1.95
730540--730647	41	2.6	41	80	2	110	31	19	19	29	1.96
730579--730656	41	1.9	41	86	0	111	28	23	16	32	1.96
730581--730677	41	2.4	41	82	0	104	24	19	19	36	1.95
736693--736750	19	3.3	19	63	22	54	20	1	10	67	1.29
736693--736757	33	2.0	33	100	0	130	18	3	12	66	1.37
736875--736974	43	2.3	42	83	10	114	33	20	17	30	1.95
736964--737160	44	4.6	43	78	3	173	28	22	14	34	1.94
736990--737195	44	4.7	44	74	9	111	28	23	14	33	1.94
737139--737296	43	3.6	42	77	6	138	30	20	19	29	1.97
737721--737890	84	2.0	84	100	0	340	38	11	19	30	1.88
738826--738859	2	17.0	2	100	0	68	50	0	0	50	1.00
740298--740336	19	2.0	20	95	5	71	41	2	5	51	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
742160--742186	13	2.1	13	100	0	54	22	25	14	37	1.93
745371--745443	36	2.0	36	97	0	137	42	17	13	26	1.87
750210--750235	3	8.7	3	100	0	52	65	0	0	34	0.93
751191--751267	34	2.3	33	80	10	84	50	2	10	36	1.50
751692--751757	28	2.3	29	84	5	80	30	7	27	34	1.85
753226--753296	31	2.6	25	75	20	70	23	1	14	60	1.42
753289--753330	18	2.2	20	83	8	52	28	0	4	66	1.12
753271--753350	29	2.8	28	82	5	79	27	0	5	67	1.11
753311--753381	13	5.2	13	86	8	97	23	0	7	69	1.13
757519--757613	50	1.9	50	86	4	138	44	11	13	30	1.80
757560--757994	75	5.8	75	82	2	500	40	18	8	32	1.80
757586--757849	25	10.6	24	65	11	102	42	18	7	31	1.79
767839--767906	23	3.0	23	86	0	100	16	26	27	29	1.97
771046--771099	25	2.2	25	96	0	99	27	29	3	38	1.74
772321--772601	92	3.0	93	79	4	325	37	11	16	34	1.84
773451--773490	17	2.4	17	100	0	80	50	0	0	50	1.00
773483--773538	21	2.5	22	80	13	62	53	1	1	42	1.21
773452--773538	21	4.2	20	75	15	61	50	1	1	47	1.16
775879--775923	23	2.0	23	86	0	63	51	2	2	44	1.26
777499--777532	8	4.2	8	84	0	50	38	32	0	29	1.58
780585--780633	13	3.6	13	81	8	53	59	10	2	28	1.41
782877--782905	10	2.9	10	100	0	58	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
784169--784357	62	2.9	62	85	5	216	48	7	3	40	1.48
787192--787235	22	2.0	22	95	4	81	18	13	4	63	1.46
788165--788204	12	3.2	12	85	3	53	42	0	2	55	1.13
788240--788284	14	3.0	15	80	9	56	46	0	0	53	1.00
788526--788597	32	2.3	32	80	2	83	40	5	15	38	1.70
788891--789018	60	2.1	60	85	2	168	34	18	3	42	1.69
790634--790661	2	14.0	2	100	0	56	50	0	0	50	1.00
804314--804385	20	3.6	20	84	3	92	34	15	18	31	1.92
804431--804602	95	1.8	95	90	0	281	38	15	18	27	1.91
805774--805835	25	2.4	25	85	15	83	43	3	1	51	1.27

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43