genome.fa.s8876.2.7.7.80.10.50.1000.4.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: VEPZ01008876.1 Hibiscus syriacus cultivar Beakdansim tig00112114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1683876

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 708 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)
793900--793976	19	4.3	19	76	18	76	15	16	22	45	1.85
793917--794008	33	2.8	33	88	3	132	13	19	20	46	1.83
793910--794008	19	5.7	19	70	22	76	13	20	20	46	1.83
794115--794151	14	2.6	14	91	0	65	45	21	0	32	1.52
795502--795568	21	3.2	21	68	4	55	19	20	35	23	1.95
802750--802789	21	1.9	21	89	0	62	25	40	25	10	1.86
807015--807088	20	3.8	19	82	5	85	40	20	22	16	1.91
807073--807165	33	2.8	33	86	3	134	47	20	19	12	1.82
807006--807170	19	9.1	19	67	17	91	44	18	21	14	1.86
807182--807237	14	3.6	14	74	21	58	12	21	23	42	1.86
807166--807258	33	2.8	33	90	1	132	11	18	24	45	1.83
807230--807280	20	2.5	20	90	0	75	13	13	21	50	1.76
807804--807996	20	9.6	20	77	6	201	18	18	24	37	1.93
807806--807996	40	4.7	41	91	1	305	18	18	24	38	1.93
808005--808057	20	2.7	20	88	5	72	15	15	24	45	1.84
807806--808038	121	1.9	121	86	5	337	18	18	24	38	1.93
808051--808097	21	2.2	22	81	7	53	29	17	21	31	1.96
808819--808857	2	19.0	2	94	5	69	48	2	0	48	1.15
810548--810603	24	2.3	24	87	6	78	17	17	14	50	1.79
811996--812033	3	12.7	3	100	0	76	65	0	0	34	0.93
815773--815855	20	3.9	22	69	21	61	49	6	15	28	1.68
815782--815842	21	2.8	23	73	14	58	50	8	13	27	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
815758--815841	42	2.0	42	88	0	123	46	5	15	32	1.70
816710--816747	2	19.0	2	100	0	76	50	0	50	0	1.00
817064--817097	18	1.9	17	88	5	50	38	0	0	61	0.96
817408--817611	101	2.0	103	88	1	304	34	13	5	46	1.67
818821--818875	28	2.0	28	85	0	74	58	12	10	18	1.63
818854--818915	30	2.1	30	84	3	81	53	12	8	25	1.66
824164--824203	19	2.1	19	95	0	71	50	0	0	50	1.00
828928--828960	16	2.1	16	100	0	66	27	12	12	48	1.76
831254--831380	59	2.2	59	86	2	175	33	14	3	48	1.62
831253--831400	59	2.5	59	78	9	165	33	15	3	47	1.62
831516--831647	60	2.2	60	82	8	153	43	5	17	34	1.72
831716--831761	22	2.2	21	88	7	67	58	0	2	39	1.10
835264--835299	17	2.1	19	85	15	51	30	2	0	66	1.06
850037--850164	62	2.1	62	89	0	193	27	19	17	35	1.94
853347--853422	36	2.1	36	85	7	100	47	1	3	47	1.29
853568--853605	20	1.9	20	88	0	58	21	26	10	42	1.85
855227--855260	18	1.9	17	88	5	50	29	2	5	61	1.34
857035--857074	13	3.2	12	82	10	53	35	5	0	60	1.19
870653--870996	171	2.0	173	98	1	674	41	19	18	21	1.91
873612--873656	19	2.5	18	82	10	56	35	2	0	62	1.08
878143--878186	19	2.4	19	80	3	54	31	0	0	68	0.90
887294--887467	92	1.9	92	82	4	217	25	18	13	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
889915--889946	15	2.1	16	88	11	50	56	6	0	37	1.25
893134--893229	32	3.0	32	90	0	156	40	20	6	32	1.78
894220--894244	12	2.1	12	100	0	50	60	0	0	40	0.97
894314--894383	21	3.2	21	63	11	50	41	5	15	37	1.71
895233--895275	21	2.0	21	86	13	61	37	0	9	53	1.33
895873--895930	4	14.8	4	82	10	75	70	0	1	27	0.97
895879--895931	27	2.0	27	92	7	90	67	0	3	28	1.07
895880--895953	31	2.3	32	82	11	82	71	0	5	22	1.06
895991--896023	16	2.1	15	94	5	57	72	0	12	15	1.12
895991--896060	17	4.1	17	74	10	63	74	0	8	17	1.06
897751--897910	65	2.5	66	86	6	213	19	18	26	35	1.95
897814--898015	106	1.9	107	87	6	302	18	17	26	36	1.94
897744--898080	171	2.0	171	95	0	602	20	18	26	34	1.96
897922--898138	65	3.5	65	88	6	283	19	18	27	34	1.96
899200--899246	22	2.3	19	80	19	67	23	10	25	40	1.87
899205--899259	22	2.5	22	100	0	110	23	12	27	36	1.91
902971--903028	4	14.8	4	82	10	75	70	0	1	27	0.97
902977--903029	27	2.0	27	92	7	90	67	0	3	28	1.07
902986--903052	27	2.5	27	83	9	75	71	0	5	22	1.07
903090--903122	16	2.1	15	94	5	57	72	0	12	15	1.12
903090--903159	17	4.1	17	74	10	63	74	0	8	17	1.06
910691--910781	20	4.6	19	84	2	65	32	18	23	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
910705--910803	40	2.5	39	80	11	112	36	19	21	23	1.95
910704--910783	20	4.1	20	85	1	108	37	17	21	23	1.94
910770--910817	20	2.4	20	100	0	96	31	25	18	25	1.98
910811--910855	20	2.2	20	88	0	63	26	22	15	35	1.94
910819--910858	20	2.0	20	95	0	71	22	20	17	40	1.92
911467--911520	22	2.5	22	93	0	90	25	11	35	27	1.90
911678--911798	20	6.1	20	75	18	58	24	19	23	32	1.98
911694--911798	40	2.6	40	79	11	133	23	20	23	32	1.98
915571--915674	30	3.5	30	72	17	99	57	14	6	21	1.60
920374--920406	17	2.1	17	88	11	52	54	0	0	45	0.99
920389--920446	22	2.6	22	83	5	64	50	1	0	48	1.11
920392--920451	30	1.9	32	83	6	79	51	1	0	46	1.10
920777--920819	23	1.9	23	90	4	70	46	2	0	51	1.13
920855--920898	22	2.0	22	86	4	63	59	6	6	27	1.49
922196--922296	31	3.3	30	71	10	89	45	3	15	34	1.65
926403--926466	25	2.7	22	77	13	56	46	15	20	17	1.83
926410--926466	25	2.4	23	77	11	60	43	17	21	17	1.88
928060--928096	2	19.0	2	94	5	67	51	0	0	48	1.00
930333--930398	35	1.9	33	93	6	114	45	15	9	30	1.77
931255--931326	33	2.2	33	85	12	94	20	20	6	51	1.70
931265--931332	33	2.1	32	89	8	102	19	23	5	51	1.68
935208--935242	18	1.9	18	88	11	54	45	5	2	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
937559--937599	12	3.4	12	93	0	64	24	24	26	24	2.00
950440--950487	23	2.0	25	88	12	73	39	8	18	33	1.81
953497--953544	23	2.0	25	88	12	73	39	8	18	33	1.81
956561--956608	23	2.0	25	88	12	73	39	8	18	33	1.81
957199--957259	24	2.6	23	80	10	70	54	1	1	42	1.20
962632--962699	14	4.9	13	82	13	75	51	0	1	47	1.09
962670--962697	2	14.0	2	100	0	56	50	0	0	50	1.00
962635--962704	16	5.0	14	71	21	58	51	0	1	47	1.09
969048--969101	22	2.5	22	90	6	83	64	9	3	22	1.38
970956--971001	24	1.9	24	90	0	74	8	15	19	56	1.65
971846--971892	20	2.3	21	85	10	62	44	21	0	34	1.52
973166--973302	60	2.3	59	84	5	168	43	7	14	34	1.73
973682--973729	23	2.1	23	88	7	71	35	8	0	56	1.30
974134--974171	19	2.0	19	89	0	58	36	2	7	52	1.45
974427--974456	2	15.0	2	100	0	60	50	0	0	50	1.00
978199--978260	30	2.1	30	100	0	124	25	22	16	35	1.94
988642--988701	25	2.5	24	83	8	68	20	1	33	45	1.61
989453--989625	46	3.8	46	82	1	204	35	12	17	35	1.87
989531--989618	45	2.0	45	88	0	131	37	11	15	35	1.84
989453--989625	91	1.9	92	82	1	222	35	12	17	35	1.87
990360--990425	27	2.4	28	87	7	91	45	10	19	24	1.82
991291--991378	30	2.9	31	79	6	90	37	11	7	43	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
993469--993505	18	2.0	20	89	10	60	56	2	2	37	1.28
1000548--1000737	6	31.7	6	100	0	380	33	0	16	50	1.46
1000733--1001275	7	77.7	7	99	0	962	28	0	40	31	1.57
1004404--1004538	44	3.1	44	83	8	168	40	22	12	25	1.89
1021493--1021518	2	13.0	2	100	0	52	50	0	0	50	1.00
1031804--1031834	2	16.0	2	93	6	55	48	0	0	51	1.00
1031857--1032050	97	2.0	97	100	0	388	34	8	20	37	1.83
1033966--1034047	15	5.5	15	88	2	121	37	7	19	35	1.80
1033966--1034047	30	2.8	30	94	1	139	37	7	19	35	1.80
1033962--1034047	45	1.9	44	92	2	145	40	6	18	33	1.78

Tables:   1   2   3   4   5   6