genome.fa.s7800.2.7.7.80.10.50.1000.4.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  4  of  23  ( 2671 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)
704560--704600	20	2.0	20	90	0	64	31	12	2	53	1.51
710571--710651	43	1.9	41	82	9	101	46	12	7	33	1.69
711767--711815	24	2.1	23	85	11	64	59	6	0	34	1.22
714463--714501	16	2.5	16	83	4	53	61	0	5	33	1.18
724494--724625	69	1.9	70	88	1	203	28	24	18	28	1.98
733337--733470	29	4.6	29	74	0	115	30	5	23	40	1.77
733337--733488	29	5.3	28	70	9	83	31	5	22	40	1.76
740572--740624	17	3.0	18	88	5	81	18	47	20	13	1.82
740601--740630	13	2.3	13	94	0	51	16	43	23	16	1.87
740643--740800	29	5.5	29	77	0	147	30	5	22	41	1.77
740643--740819	87	2.0	86	87	1	255	31	5	21	41	1.76
740643--740820	29	6.2	29	77	0	142	31	5	21	41	1.76
750529--750569	21	2.1	19	86	13	57	73	2	2	21	1.07
752179--752241	28	2.3	27	83	8	81	28	12	34	23	1.92
754968--755007	16	2.4	16	87	4	53	50	0	2	47	1.14
764461--764494	16	2.1	16	100	0	68	35	5	5	52	1.50
767080--767109	15	2.1	15	93	6	53	43	6	0	50	1.28
767375--767422	19	2.8	16	74	20	51	8	20	0	70	1.12
779685--779854	82	2.1	82	86	4	236	47	17	4	30	1.66
783356--783404	8	5.8	8	81	11	53	67	0	0	32	0.91
783356--783404	18	2.7	18	84	9	64	67	0	0	32	0.91
783361--783404	9	4.9	9	81	10	54	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
784487--784563	32	2.4	32	95	0	136	28	36	11	23	1.90
789824--789881	29	2.0	29	96	0	107	39	6	32	20	1.79
789824--789878	26	2.0	27	89	10	85	38	7	32	21	1.81
790380--790451	37	1.9	37	83	5	92	61	2	6	29	1.36
791177--791207	2	15.5	2	100	0	62	48	0	0	51	1.00
791184--791233	14	3.7	14	81	7	59	48	0	0	52	1.00
791591--791625	17	2.1	17	88	0	52	28	2	0	68	1.04
791907--791953	22	2.1	22	84	7	60	61	0	4	34	1.15
803927--804012	36	2.5	34	84	3	100	33	13	16	36	1.88
805127--805171	22	2.0	22	91	4	72	44	4	6	44	1.50
808474--808536	31	2.0	31	96	0	117	31	9	30	28	1.89
812212--812275	31	2.1	31	82	5	76	32	15	15	35	1.90
827240--827531	20	14.5	20	78	7	225	37	22	19	20	1.94
827240--827489	40	6.2	40	83	4	270	38	22	18	20	1.94
827320--827531	40	5.3	40	87	2	257	37	21	19	21	1.94
827600--827709	20	5.4	20	78	4	112	19	17	24	39	1.92
827593--827709	41	2.9	41	84	1	155	19	17	24	38	1.93
827701--827749	20	2.5	20	86	0	62	18	20	26	34	1.95
827738--827832	21	4.7	20	67	13	59	22	18	26	32	1.97
831774--831811	2	19.0	2	94	0	67	50	2	0	47	1.15
831809--831851	18	2.5	17	85	7	61	67	2	4	25	1.22
832855--833516	105	6.3	105	90	2	947	21	18	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
833685--833760	36	2.1	36	90	0	116	40	15	21	22	1.90
833660--833979	106	3.1	105	89	3	470	36	11	20	30	1.89
834095--834208	36	3.2	35	72	2	102	44	13	16	25	1.84
834050--834224	72	2.4	74	84	8	216	42	12	17	26	1.85
835365--835901	183	2.9	183	94	0	923	31	20	20	28	1.97
839983--840012	2	15.0	2	92	0	51	53	0	0	46	1.00
840500--840542	18	2.5	17	85	7	61	67	2	4	25	1.22
840432--840550	58	2.1	55	80	12	125	61	3	3	31	1.29
840900--841004	37	2.8	37	85	0	138	28	14	15	41	1.86
841052--841096	21	2.2	21	92	4	74	48	6	0	44	1.29
841886--841950	23	2.7	24	78	9	69	44	1	1	52	1.19
844775--844847	20	3.6	20	71	10	76	23	20	19	36	1.95
844775--844955	42	4.4	41	86	6	183	22	19	20	37	1.95
844804--844980	21	8.5	21	70	16	127	22	19	22	35	1.96
844804--844980	42	4.2	42	87	5	245	22	19	22	35	1.96
848865--848924	22	2.8	22	97	2	113	16	11	0	71	1.14
852899--852959	3	20.3	3	100	0	122	0	0	32	67	0.91
859754--859803	18	2.8	18	78	0	55	68	0	8	24	1.16
859854--859896	3	13.3	3	90	4	50	62	2	0	34	1.08
859853--859896	15	2.6	17	79	13	56	61	2	0	36	1.09
859828--859938	46	2.2	51	81	12	124	55	7	3	33	1.44
859957--859997	20	2.1	19	86	4	55	58	0	2	39	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
860989--861029	16	2.6	16	82	17	50	56	0	0	43	0.99
861240--861281	20	2.1	20	90	0	66	33	16	23	26	1.96
861362--862286	105	8.8	105	98	0	1769	22	19	25	32	1.97
862479--862503	1	25.0	1	100	0	50	0	0	0	100	0.00
869688--869736	20	2.3	22	75	13	57	16	20	2	61	1.44
874296--874344	18	2.8	17	78	3	53	67	0	8	24	1.18
874374--874474	46	2.0	54	81	14	128	54	7	3	33	1.48
874491--874529	13	2.9	14	81	14	55	53	0	2	43	1.14
875521--875561	16	2.6	16	82	17	50	56	0	0	43	0.99
878406--878514	57	1.9	57	82	0	137	35	9	16	38	1.81
887397--887427	13	2.4	13	100	0	62	80	0	0	19	0.71
887397--887436	14	2.9	14	92	3	64	75	2	0	22	0.93
889422--889504	12	6.9	12	68	15	64	48	15	15	20	1.81
889463--889518	24	2.3	24	78	6	69	46	16	17	19	1.84
891992--892028	15	2.5	15	95	0	65	37	27	21	13	1.91
891992--892028	7	4.9	8	83	12	51	37	27	21	13	1.91
892945--892973	2	14.5	2	100	0	58	51	0	0	48	1.00
894993--895070	23	3.3	23	81	1	93	33	21	19	25	1.97
895081--895296	105	2.1	103	92	1	360	36	22	12	28	1.91
900310--900349	21	1.9	21	94	0	71	32	30	15	22	1.94
900375--900413	19	2.1	19	90	0	60	17	38	17	25	1.92
900310--900519	64	3.2	63	80	8	201	31	25	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
906333--906412	24	3.5	22	78	14	92	22	25	23	28	1.99
906313--906435	44	2.8	42	74	13	115	26	27	21	25	1.99
908842--908881	21	1.9	21	89	0	62	35	30	12	22	1.91
908907--908945	19	2.1	19	95	0	69	20	38	15	25	1.92
908842--909071	64	3.5	65	80	9	204	31	26	15	26	1.96
909023--909071	19	2.6	19	84	9	57	24	30	18	26	1.98
913308--913343	5	7.2	5	87	0	54	2	36	41	19	1.66
919742--919767	11	2.4	11	100	0	52	53	7	15	23	1.67
919782--919860	39	2.0	39	100	0	158	50	0	5	44	1.24
923322--923352	2	15.5	2	100	0	62	48	0	0	51	1.00
924175--924200	2	13.0	2	100	0	52	50	0	0	50	1.00
924662--924747	35	2.5	35	98	0	163	23	6	25	44	1.78
924854--924883	15	2.0	15	93	0	51	56	0	0	43	0.99
928023--928053	2	15.5	2	100	0	62	48	0	0	51	1.00
931180--931216	11	3.4	11	88	0	56	67	10	13	8	1.41
931761--931802	21	2.0	20	86	4	57	73	0	0	26	0.83
934045--934128	26	3.2	26	96	0	159	40	0	0	59	0.97
934136--934175	21	1.9	21	85	10	55	35	2	10	52	1.48
937443--937489	24	1.9	25	86	4	69	23	17	8	51	1.72
938181--938327	76	1.9	76	91	2	242	28	23	10	38	1.87
948357--948421	25	2.7	25	77	18	66	58	4	1	35	1.28
952403--952439	19	1.9	19	88	0	56	18	18	37	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
953867--953932	20	3.3	20	89	0	96	27	27	21	24	1.99
954948--955107	65	2.5	65	83	1	205	28	15	25	30	1.96
955324--955363	20	2.0	21	85	14	57	47	7	2	42	1.45
957352--957447	44	2.2	43	83	7	113	29	18	23	28	1.98
963231--963390	65	2.5	65	83	1	205	28	15	25	30	1.96
963607--963646	20	2.0	21	85	14	57	47	7	2	42	1.45
963928--963983	20	2.8	20	97	0	103	39	23	23	14	1.91
964002--964066	19	3.7	19	82	13	86	15	21	16	46	1.84
965643--965721	42	1.9	42	84	7	108	20	13	40	25	1.89
966069--966155	20	4.4	20	82	4	88	37	25	20	16	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23