genome.fa.s8097.2.7.7.80.10.50.1000.3.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: VEPZ01008097.1 Hibiscus syriacus cultivar Beakdansim tig00110621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3094402

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1389 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)
563936--564148	65	3.3	65	82	5	236	30	25	16	27	1.97
566781--566865	37	2.3	37	84	6	111	42	18	4	34	1.72
567140--567171	15	2.0	17	88	11	50	50	6	12	31	1.65
567679--567710	14	2.3	14	100	0	64	46	0	15	37	1.46
568831--568861	4	8.0	4	92	7	55	0	48	0	51	1.00
568824--568863	11	3.5	11	90	6	62	0	42	0	57	0.98
568824--568861	19	2.0	19	94	0	67	0	44	0	55	0.99
572003--572069	31	2.2	31	100	0	134	32	14	19	32	1.92
572117--572178	31	2.0	31	100	0	124	32	16	19	32	1.94
571961--572178	114	2.0	109	94	4	382	32	11	23	33	1.90
574489--574545	24	2.4	24	85	8	80	47	1	3	47	1.29
579480--579518	19	2.1	19	95	0	69	53	0	0	46	1.00
593790--593830	14	3.0	14	85	3	57	46	2	0	51	1.14
594007--594046	21	2.0	20	85	5	53	50	0	2	47	1.14
601910--601988	3	27.0	3	73	19	69	68	2	0	29	1.03
601918--601988	15	4.6	15	80	18	83	67	2	0	29	1.05
601910--601984	18	4.2	18	77	15	77	68	2	0	29	1.04
605405--605493	45	2.0	43	93	4	151	43	14	12	29	1.82
605724--605796	24	3.0	24	84	4	58	10	13	24	50	1.74
605734--605790	14	4.4	14	76	17	59	8	12	24	54	1.65
605735--605809	24	3.1	24	88	3	89	12	10	21	56	1.66
606534--606608	10	7.7	10	69	21	61	9	12	21	57	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606540--606604	16	4.1	16	95	0	121	7	12	23	56	1.61
606674--606706	16	2.1	16	100	0	66	6	12	24	57	1.57
611433--611473	20	2.0	20	86	9	57	58	4	0	36	1.20
611467--611491	13	1.9	13	100	0	50	72	4	0	24	1.02
611641--611680	21	1.9	21	89	0	62	37	2	0	60	1.11
613435--613501	33	2.1	32	91	8	109	26	16	14	41	1.87
631297--631403	41	2.6	41	81	7	119	28	15	20	34	1.94
631450--631588	42	3.4	42	82	3	147	31	20	15	31	1.94
634478--634536	21	2.8	21	84	0	73	18	5	20	55	1.61
634689--634828	43	3.3	43	89	0	217	27	22	22	27	1.99
637254--637310	30	1.9	30	88	0	87	49	0	10	40	1.37
652809--652917	35	3.0	36	86	5	157	44	19	5	31	1.73
652846--652909	20	3.4	20	66	29	59	45	18	3	32	1.65
657414--657530	35	3.2	37	81	6	141	45	18	3	32	1.66
657467--657527	21	3.2	21	68	29	64	42	19	3	34	1.68
657427--657528	35	2.9	35	89	2	150	46	18	3	31	1.67
671284--671374	1	91.0	1	71	0	65	85	14	0	0	0.59
671285--671373	20	4.2	21	76	21	87	85	14	0	0	0.60
671285--671373	25	3.7	24	82	14	96	85	14	0	0	0.60
671284--671374	8	11.2	8	78	14	98	85	14	0	0	0.59
671285--671374	27	3.5	25	80	18	105	85	14	0	0	0.60
672181--672746	105	5.4	105	91	2	879	32	25	18	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
680093--680138	5	9.2	5	80	0	56	8	19	50	21	1.75
680101--680138	15	2.5	15	100	0	76	10	18	50	21	1.76
680183--680650	229	2.0	228	88	8	691	28	13	18	40	1.87
687271--687311	16	2.4	17	80	19	50	31	0	2	65	1.05
705336--705408	23	3.2	23	90	0	110	35	4	20	39	1.72
704913--707281	491	4.8	491	93	1	3999	41	7	10	40	1.67
705826--705898	23	3.2	23	92	0	119	34	5	21	38	1.77
706317--706389	23	3.2	23	88	0	101	34	5	20	39	1.76
706808--706880	23	3.2	23	96	0	128	32	8	21	36	1.83
704913--707281	981	2.4	981	93	1	4112	41	7	10	40	1.67
714613--714834	111	2.0	111	95	0	399	35	8	10	45	1.70
716343--716414	18	4.0	18	92	0	117	30	27	16	25	1.97
720596--720687	41	2.3	40	90	1	139	18	30	33	17	1.94
727655--727689	18	1.9	18	88	0	52	48	0	0	51	1.00
727786--727860	27	3.0	25	79	14	75	53	0	0	46	1.00
727815--727859	24	1.9	24	86	13	67	55	0	0	44	0.99
731679--731739	26	2.3	26	91	0	104	34	1	11	52	1.47
732212--732245	5	6.8	5	100	0	68	82	0	17	0	0.67
736578--736626	24	2.0	24	96	0	89	28	12	28	30	1.93
738922--739010	29	3.1	29	85	0	124	17	40	28	13	1.88
739227--739310	29	2.9	29	83	0	96	13	29	39	17	1.88
741770--741800	15	2.1	15	100	0	62	74	0	6	19	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
743330--743717	184	2.1	184	91	2	620	44	2	7	45	1.46
743723--743756	9	3.7	9	92	4	50	23	8	14	52	1.69
748467--748509	18	2.5	17	85	7	61	67	2	4	25	1.22
748867--748967	36	2.8	37	86	6	134	30	15	14	38	1.88
749024--749501	174	2.7	179	91	4	754	46	7	3	42	1.51
751666--751708	20	2.3	19	84	11	61	23	27	9	39	1.85
751671--751708	20	1.9	20	94	0	67	23	26	10	39	1.87
755148--755209	31	2.0	32	87	3	90	43	6	1	48	1.38
755378--755416	16	2.5	16	87	4	53	38	5	20	35	1.75
765687--765833	76	1.9	77	97	2	278	15	17	35	31	1.91
766611--766665	25	2.2	25	100	0	110	27	27	14	30	1.95
768461--768878	209	2.0	208	96	2	777	31	22	18	26	1.97
769491--769525	17	2.2	17	90	10	56	45	0	0	54	0.99
774914--774938	2	12.5	2	100	0	50	52	0	0	48	1.00
786567--786605	19	2.1	19	90	4	62	43	2	5	48	1.38
786784--786832	16	3.1	16	96	0	89	48	12	0	38	1.41
790106--790159	20	2.7	20	94	0	90	1	46	0	51	1.11
791056--791140	29	3.0	28	96	3	152	15	38	28	17	1.90
791353--791413	15	4.1	15	73	26	67	19	24	37	18	1.94
791369--791439	29	2.4	29	97	0	133	21	25	33	19	1.97
791433--791457	12	2.1	12	100	0	50	16	0	60	24	1.36
791497--791564	35	1.9	35	96	0	127	29	29	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
792001--792044	21	2.1	21	86	0	61	29	0	18	52	1.46
792447--792473	14	1.9	14	100	0	54	7	3	14	74	1.18
792444--792476	17	1.9	17	88	11	50	9	3	15	72	1.21
792843--792907	26	2.6	25	79	13	62	50	6	1	41	1.36
794390--794478	41	2.2	40	78	8	90	46	10	1	42	1.45
794514--794552	16	2.3	18	86	8	55	56	5	0	38	1.22
794868--794962	29	3.3	29	95	0	163	23	32	30	13	1.93
794949--795030	32	2.6	32	100	0	164	9	36	26	26	1.88
795121--795180	29	2.1	29	93	0	102	18	26	28	26	1.98
795278--795329	2	26.0	2	100	0	104	50	0	0	50	1.00
809505--809533	2	14.5	2	100	0	58	48	0	0	51	1.00
812690--812743	20	2.6	20	75	16	56	42	0	0	57	0.98
812839--812890	23	2.3	23	86	0	68	46	3	0	50	1.20
812965--813070	21	5.1	22	72	15	82	45	0	0	52	1.13
813000--813094	23	4.2	24	72	18	60	47	1	2	49	1.20
812995--813059	28	2.3	28	78	5	78	43	1	1	53	1.19
813106--813154	24	2.0	25	88	4	73	48	0	0	51	1.00
817002--817027	10	2.6	10	100	0	52	30	50	19	0	1.48
817535--817616	24	3.5	24	93	1	130	57	21	13	7	1.61
817555--817616	10	5.5	10	72	23	52	58	22	12	6	1.58
817538--817624	14	6.9	14	66	22	50	57	24	12	5	1.57
817881--817926	14	3.6	14	77	22	64	56	15	13	15	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
826676--826741	26	2.5	26	95	4	116	34	10	1	53	1.45
832762--832814	24	2.2	24	86	0	70	58	16	11	13	1.63
832800--832837	20	1.9	20	100	0	76	52	13	18	15	1.74
833971--834022	17	3.2	17	75	10	54	32	3	13	50	1.60
834622--835009	184	2.1	184	91	3	622	40	3	8	46	1.51
836131--836393	87	3.0	87	96	0	490	37	18	12	31	1.88
838392--838445	26	2.1	26	96	0	99	50	9	3	37	1.52
838909--838955	2	23.5	2	100	0	94	48	0	0	51	1.00
844488--844542	17	3.5	17	72	23	66	52	14	0	32	1.42
844485--844545	29	2.1	29	96	0	113	54	13	0	32	1.39

Tables:   1   2   3   4   5   6   7   8   9   10   11   12