genome.fa.s8979.2.7.7.80.10.50.1000.3.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: VEPZ01008979.1 Hibiscus syriacus cultivar Beakdansim tig00112339_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1115631

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 693 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)
313384--313452	31	2.3	31	82	7	79	26	26	13	34	1.92
313397--313457	31	2.0	31	90	6	97	22	27	14	34	1.94
313708--313764	27	2.1	27	96	0	105	38	12	28	21	1.89
313717--313775	27	2.2	27	84	0	73	37	16	30	15	1.90
313723--313782	27	2.2	27	81	0	66	35	18	28	18	1.94
315426--315483	30	1.9	31	85	3	82	34	15	22	27	1.94
316713--316756	18	2.4	18	80	3	52	65	2	0	31	1.05
319517--319541	11	2.3	11	100	0	50	20	20	0	60	1.37
321599--321641	20	2.2	20	83	8	52	55	11	4	27	1.55
322860--322884	2	12.5	2	100	0	50	48	0	0	52	1.00
325964--326010	19	2.5	19	76	13	53	46	0	6	46	1.28
328086--328144	31	1.9	31	92	0	100	40	3	10	45	1.54
328169--328211	22	2.0	22	100	0	86	51	13	0	34	1.42
328171--328219	22	2.2	22	88	3	71	55	14	0	30	1.40
328159--328903	54	13.4	54	72	16	528	53	12	0	33	1.41
328191--328903	32	25.4	32	72	24	559	53	13	0	33	1.41
328174--328489	80	3.9	80	89	7	510	52	14	0	32	1.44
328225--328298	22	3.2	22	74	12	76	55	14	0	29	1.40
328334--328376	22	2.0	22	100	0	86	51	13	0	34	1.42
328336--328384	22	2.2	22	88	3	71	55	14	0	30	1.40
328458--328543	14	5.6	14	70	20	64	55	6	0	37	1.27
328532--328574	22	2.0	22	100	0	86	51	13	0	34	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
328468--328858	86	4.6	86	84	6	469	52	13	0	34	1.40
328534--328582	22	2.2	22	85	3	62	57	14	0	28	1.38
328650--328692	22	2.0	22	100	0	86	51	13	0	34	1.42
328652--328700	22	2.2	22	88	3	71	55	14	0	30	1.40
328160--328903	316	2.4	305	90	6	1198	53	12	0	33	1.41
328706--328780	22	3.2	23	75	17	82	54	17	0	28	1.43
328784--328826	22	2.0	22	95	0	77	51	11	0	37	1.39
328786--328834	22	2.2	22	85	3	62	55	12	0	32	1.37
328883--329101	15	13.5	15	78	16	215	50	3	0	46	1.17
328838--328938	22	4.5	22	70	7	85	52	9	0	37	1.35
328829--328970	69	2.1	66	84	6	178	52	7	0	40	1.28
337599--337661	23	2.9	20	72	23	56	17	9	19	53	1.70
339053--339141	19	4.3	20	75	17	92	35	6	28	29	1.83
339249--339408	49	3.2	49	80	11	214	37	10	21	30	1.88
339533--339559	6	4.5	6	100	0	54	0	14	51	33	1.43
339619--339659	19	2.0	20	86	9	57	31	21	21	24	1.98
339717--339816	20	5.0	20	73	9	96	26	21	18	35	1.95
339697--339816	40	3.0	40	91	2	179	25	20	20	34	1.96
344271--344355	24	3.5	24	85	0	98	42	18	15	23	1.88
348893--348950	24	2.4	24	82	0	71	46	18	10	24	1.80
348906--348964	24	2.5	24	86	5	75	37	20	15	27	1.92
353574--353658	24	3.5	24	78	0	71	42	18	15	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358167--358224	2	29.0	2	100	0	116	50	0	0	50	1.00
369021--369193	90	1.9	89	91	1	283	36	10	7	45	1.67
376146--376177	15	2.1	15	94	0	55	6	25	15	53	1.65
381574--381634	32	1.9	32	83	3	79	18	31	27	22	1.97
383823--383872	2	25.0	2	100	0	100	50	0	0	50	1.00
383915--383994	25	3.2	25	90	1	124	48	1	20	30	1.57
384341--384392	23	2.2	24	80	10	63	51	0	3	44	1.19
384938--384962	11	2.3	11	100	0	50	24	0	8	68	1.16
388040--388072	2	16.5	2	100	0	66	51	0	0	48	1.00
395562--395636	21	3.6	21	77	0	78	30	18	20	30	1.96
395606--395655	20	2.4	21	83	9	59	38	20	12	30	1.88
397616--397640	3	8.3	3	100	0	50	32	0	0	68	0.90
398386--398424	19	2.1	19	85	9	53	30	0	2	66	1.05
398377--398470	17	5.8	17	67	20	51	31	1	4	62	1.21
402147--402208	2	32.5	2	90	9	103	48	0	0	51	1.00
402164--402280	51	2.3	49	75	17	112	38	4	0	56	1.25
402261--402330	26	2.8	24	72	16	63	31	2	1	64	1.17
402237--402338	25	4.2	25	66	27	60	30	4	0	63	1.22
403207--403231	3	8.3	3	100	0	50	36	0	0	64	0.94
406123--406243	60	2.0	60	88	3	181	38	9	22	29	1.86
417000--417139	20	6.8	20	86	8	183	22	37	18	20	1.94
417159--417202	21	2.1	21	82	0	52	18	34	25	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420231--420347	21	5.9	21	85	8	165	27	9	11	52	1.67
420231--420347	39	3.0	36	88	7	117	27	9	11	52	1.67
420231--420347	60	2.0	60	98	0	225	27	9	11	52	1.67
420409--420460	19	2.7	19	100	0	104	38	5	38	17	1.74
420500--420540	21	2.0	21	90	0	64	26	12	9	51	1.70
422547--422581	15	2.3	15	90	0	52	45	17	17	20	1.85
429118--429272	30	5.2	30	79	6	143	59	10	16	14	1.61
435491--435530	21	1.9	21	89	0	62	25	40	25	10	1.86
440692--440958	131	2.0	130	84	6	344	24	17	32	25	1.96
441028--441097	35	2.0	35	83	5	88	34	10	20	35	1.86
442328--442358	13	2.5	12	94	5	53	3	6	6	83	0.88
442342--442378	18	1.9	19	89	10	58	2	8	8	81	0.97
446378--446424	3	15.3	3	82	12	60	63	0	0	36	0.94
446378--446424	16	2.9	16	87	3	67	63	0	0	36	0.94
450838--450877	21	1.9	21	100	0	80	35	15	22	27	1.94
463057--463119	22	2.9	22	79	11	67	26	17	23	31	1.97
463078--463117	21	2.0	21	90	5	64	27	17	27	27	1.98
465846--465898	21	2.5	21	78	6	63	20	26	16	35	1.94
465888--465961	20	3.7	20	89	3	112	40	17	21	20	1.91
466512--466549	20	1.9	20	94	0	67	36	26	23	13	1.91
466565--466652	20	4.8	20	73	18	75	11	23	19	45	1.83
468330--468541	94	2.3	90	90	5	318	22	13	18	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468986--469052	21	3.2	21	68	6	55	23	34	20	20	1.97
471132--471156	12	2.1	12	100	0	50	0	28	0	72	0.86
471331--471384	24	2.3	23	87	6	81	38	20	16	24	1.92
472128--472208	20	4.1	20	87	6	110	28	20	25	24	1.99
472184--472304	62	2.0	62	94	0	215	20	19	21	38	1.93
472123--472278	20	7.7	20	78	8	100	25	19	23	32	1.97
472308--472360	21	2.5	22	75	6	65	35	18	24	20	1.95
475759--475798	12	3.2	12	82	6	53	50	0	0	50	1.00
476690--476907	113	1.9	113	89	1	339	32	19	17	30	1.95
478067--478165	51	1.9	52	81	6	121	34	13	16	36	1.87
478811--478844	16	2.1	17	88	5	52	8	8	5	76	1.15
479847--479882	18	1.9	19	88	5	56	8	13	8	69	1.36
481504--481558	15	3.7	15	78	11	60	25	1	1	70	1.06
482300--482338	2	19.5	2	100	0	78	48	0	0	51	1.00
483047--483173	38	3.3	39	76	12	120	35	14	8	40	1.77
484875--484987	60	1.9	60	82	10	142	37	11	12	38	1.79
490599--490645	2	24.0	2	95	4	87	48	0	0	51	1.00
490614--490657	21	2.1	21	82	0	52	50	2	0	47	1.13
492300--492327	13	2.2	13	100	0	56	35	0	0	64	0.94
493659--493766	2	56.0	2	89	7	170	47	0	0	50	1.13
493891--493923	13	2.5	13	86	13	50	33	0	9	57	1.30
494063--494098	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498487--499082	300	2.0	300	96	0	1111	36	14	18	30	1.91
501594--501637	18	2.4	18	92	0	70	15	50	20	13	1.78
501614--501643	13	2.3	13	94	0	51	16	43	23	16	1.87
503998--504050	12	4.5	11	79	11	52	18	15	18	47	1.83
503995--504066	24	3.0	24	83	2	92	20	11	18	50	1.77
505357--505443	34	2.6	34	96	0	156	29	21	19	28	1.98
505412--505579	79	2.1	79	85	4	223	29	22	19	27	1.98
505581--506121	111	4.9	110	86	2	704	31	22	15	30	1.95
505581--506121	222	2.4	224	87	2	795	31	22	15	30	1.95
507686--507790	2	53.5	2	70	17	69	40	3	5	49	1.45

Tables:   1   2   3   4   5   6