genome.fa.s8000.2.7.7.80.10.50.1000.4.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: VEPZ01008000.1 Hibiscus syriacus cultivar Beakdansim tig00110457_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1646480

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 964 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)
604936--605107	65	2.7	63	83	6	206	39	22	11	26	1.88
607233--607257	2	12.5	2	100	0	50	48	0	0	52	1.00
607272--607317	23	2.1	21	84	8	56	4	13	4	78	1.05
607381--607474	36	2.6	34	80	14	91	14	5	7	72	1.25
616659--616694	18	2.0	18	88	0	54	30	16	0	52	1.44
619272--619299	2	14.0	2	100	0	56	50	0	0	50	1.00
619935--619999	29	2.2	30	88	2	96	50	10	1	36	1.47
619988--620025	13	2.9	13	88	0	58	44	18	2	34	1.64
620517--620891	201	1.9	201	87	2	556	27	22	17	32	1.97
629666--629698	10	3.4	10	83	8	50	78	0	0	21	0.75
629736--629820	38	2.3	38	82	12	104	44	11	2	41	1.54
632942--633084	71	2.0	71	93	0	241	18	27	11	41	1.85
634775--634808	17	2.0	17	88	0	50	32	5	2	58	1.37
634838--635092	139	1.8	139	88	1	395	34	16	11	36	1.86
644549--644849	35	7.9	36	78	13	195	45	2	7	44	1.47
644654--644680	12	2.2	12	100	0	54	37	7	7	48	1.59
644696--644754	12	5.0	12	75	4	66	42	0	10	47	1.37
644853--644914	29	2.1	29	82	11	74	25	3	0	70	1.02
646019--646061	17	2.7	16	85	7	52	18	2	4	74	1.10
646048--646139	43	2.2	42	80	9	98	21	13	0	65	1.26
648680--648723	22	2.0	22	82	8	54	63	4	0	31	1.14
655994--656041	19	2.5	20	82	3	62	29	12	6	52	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657299--657340	22	1.9	22	95	0	75	16	28	38	16	1.91
661152--661253	49	2.1	49	100	0	204	45	12	19	22	1.84
673423--673492	10	7.1	10	72	15	65	30	28	24	17	1.97
673421--673492	19	3.7	19	82	12	83	29	27	26	16	1.97
680607--680653	5	9.8	5	77	9	53	6	21	51	21	1.70
680608--680653	14	3.6	14	75	22	55	6	21	50	21	1.71
680607--680653	24	2.0	24	95	0	85	6	21	51	21	1.70
680650--680697	19	2.5	19	90	10	71	27	31	27	14	1.95
680652--680710	10	6.1	10	76	11	61	28	30	23	16	1.97
680650--680709	19	3.2	19	85	4	68	28	30	26	15	1.96
687799--687848	20	2.5	20	80	6	57	30	28	24	18	1.97
687807--687838	13	2.5	13	94	0	55	25	28	28	18	1.98
687799--687845	7	7.0	7	78	9	53	29	27	25	17	1.97
687847--687886	19	2.1	19	90	0	62	7	20	47	25	1.75
694562--694596	10	3.5	10	88	0	52	2	17	8	71	1.23
694804--694890	46	1.9	46	90	6	142	31	18	19	31	1.96
703658--703710	27	2.0	27	88	0	79	28	7	22	41	1.81
704257--704305	26	1.9	25	83	4	62	59	4	2	34	1.28
711188--711270	12	7.1	11	74	10	67	51	16	14	16	1.76
711188--711271	5	14.2	6	69	23	54	52	16	14	16	1.75
711188--711316	24	5.5	23	77	4	141	50	15	13	20	1.77
711191--711316	47	2.7	47	89	1	180	50	15	13	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
711797--711853	27	2.1	27	90	0	87	35	22	10	31	1.88
712849--712914	30	2.2	30	97	0	123	43	10	9	36	1.71
713823--713854	13	2.5	13	94	0	55	40	21	21	15	1.91
715940--716167	20	11.2	20	79	9	223	43	21	19	15	1.87
716016--716159	42	3.5	41	89	1	209	40	22	20	16	1.91
715959--716158	62	3.3	63	77	15	190	42	22	20	16	1.89
716263--716373	6	18.5	6	100	0	222	33	50	16	0	1.45
716869--716913	6	7.5	6	100	0	90	0	15	51	33	1.44
717009--717314	40	7.6	40	84	6	354	16	19	22	41	1.90
717009--717316	20	15.2	20	77	10	243	16	19	22	41	1.90
721570--721694	56	2.2	56	100	0	250	36	20	19	24	1.95
727655--727835	90	2.0	91	95	1	328	29	13	12	44	1.80
729076--729138	19	3.2	21	66	25	64	33	4	14	47	1.65
729066--729154	38	2.4	38	94	3	155	31	5	13	49	1.65
737676--737723	25	1.9	25	83	8	62	35	6	14	43	1.71
738995--739030	18	2.0	18	88	0	54	27	0	2	69	1.02
739956--739984	3	9.7	3	100	0	58	34	34	0	31	1.58
741531--741563	14	2.3	15	89	5	50	60	3	0	36	1.12
745233--745291	31	1.9	31	82	0	73	57	5	1	35	1.31
745287--745361	22	3.1	23	81	11	89	52	1	4	42	1.28
745287--745372	25	3.4	25	77	16	90	52	1	3	43	1.26
745335--745391	25	2.3	26	81	6	64	49	0	5	45	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
746267--746453	60	3.1	60	76	9	166	40	5	21	32	1.76
748147--748201	14	3.9	14	83	7	67	67	1	1	29	1.11
748139--748217	23	3.5	24	77	16	71	65	2	1	30	1.13
748131--748221	7	12.3	7	71	13	58	65	2	1	30	1.11
748149--748220	21	3.3	23	74	14	71	65	2	1	30	1.15
748161--748226	23	3.0	22	74	12	62	63	3	1	31	1.19
749102--749157	23	2.5	22	78	13	53	66	7	0	26	1.18
749270--749334	20	3.2	20	79	12	62	29	0	3	67	1.05
749286--749334	7	7.1	7	76	21	50	28	0	2	69	1.00
754967--754994	2	14.0	2	100	0	56	50	0	0	50	1.00
756879--756938	22	2.6	23	81	5	68	16	16	31	35	1.92
756960--757003	3	14.3	3	95	4	79	63	0	0	36	0.95
757185--757579	129	3.0	126	81	8	418	29	18	27	25	1.98
765755--765781	13	2.1	13	100	0	54	55	14	14	14	1.70
771640--771699	22	2.6	23	81	5	68	16	16	31	35	1.92
771719--771752	10	3.2	10	84	15	50	55	0	0	44	0.99
772357--772500	78	1.8	78	91	2	236	43	5	9	40	1.61
772579--772611	16	2.1	16	88	11	50	39	0	0	60	0.97
772791--772815	2	12.5	2	100	0	50	48	0	0	52	1.00
772938--772996	31	1.9	31	86	6	84	40	0	25	33	1.56
772938--772997	32	1.9	31	86	3	84	40	0	25	35	1.56
773335--773363	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
773487--773513	14	1.9	14	100	0	54	37	7	3	51	1.48
773507--773553	20	2.3	21	85	10	62	44	2	6	46	1.40
773522--773551	13	2.2	14	94	5	53	46	0	6	46	1.29
774598--774637	21	1.9	21	94	0	71	27	30	17	25	1.97
774797--774856	29	2.0	31	90	6	97	41	16	6	35	1.75
777682--777706	13	1.9	13	100	0	50	20	16	16	48	1.82
780082--780123	21	2.0	21	95	0	75	30	14	7	47	1.71
780118--780216	33	3.0	33	94	1	164	32	7	15	45	1.73
780202--780256	13	4.2	13	75	13	58	34	3	12	49	1.59
780931--780986	15	3.6	15	79	9	67	32	12	12	42	1.80
780950--780983	18	1.9	18	94	5	61	38	11	11	38	1.79
781077--781108	16	2.0	17	88	11	50	43	21	21	12	1.86
781617--781641	4	6.2	4	100	0	50	24	0	0	76	0.80
781987--782035	20	2.5	20	86	0	71	48	14	14	22	1.79
782041--782079	20	2.0	20	85	10	53	35	12	17	33	1.88
784683--784721	21	1.9	20	89	5	60	71	2	0	25	0.98
785325--785374	19	2.5	20	90	6	75	18	26	26	30	1.98
787517--787623	21	5.2	21	72	4	110	17	18	26	37	1.93
787521--787669	41	3.9	41	81	18	221	19	19	24	36	1.95
787546--787618	20	3.6	20	77	3	92	15	21	24	38	1.92
787591--787654	30	2.2	30	97	2	121	15	18	25	40	1.90
787682--787728	19	2.5	19	96	3	87	17	21	19	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
788146--788208	21	3.0	21	67	4	65	34	23	17	23	1.96
790956--791089	37	3.6	37	77	6	121	42	2	7	47	1.47
791213--791494	42	6.6	42	87	5	336	32	20	24	21	1.98
794003--794061	24	2.5	24	78	10	66	30	23	25	20	1.98
794048--794104	23	2.4	24	79	5	71	33	26	19	21	1.97
794217--794248	16	1.9	17	93	6	57	53	18	6	21	1.67
799766--799808	14	3.1	14	83	3	52	83	4	11	0	0.78
808184--808247	32	2.0	32	100	0	128	37	12	12	37	1.81
810037--810080	18	2.4	18	96	0	79	22	11	13	52	1.72
813502--813530	12	2.4	12	100	0	58	20	20	34	24	1.97

Tables:   1   2   3   4   5   6   7   8   9