genome.fa.s4096.2.7.7.80.10.50.1000.4.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: VEPZ01004096.1 Hibiscus syriacus cultivar Beakdansim tig00008957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  961865

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 546 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)
633042--633164	42	3.0	41	76	8	124	28	22	19	29	1.98
633507--633637	57	2.3	57	97	0	244	51	13	6	29	1.65
634707--634812	42	2.5	42	82	10	128	28	21	16	33	1.96
637678--637708	14	2.2	14	100	0	62	51	19	16	12	1.76
637722--637851	26	4.9	26	71	18	106	36	15	10	37	1.81
637699--637927	80	2.8	80	91	2	352	36	16	8	38	1.79
637981--638152	94	1.8	93	83	6	231	40	12	7	39	1.71
638059--638220	66	2.4	68	82	8	199	40	12	8	38	1.72
639398--639679	136	2.1	139	92	2	471	35	22	14	28	1.93
642343--642370	6	4.7	6	100	0	56	35	0	0	64	0.94
644643--644693	25	2.0	25	100	0	102	56	3	7	31	1.46
652584--652625	2	21.0	2	100	0	84	50	0	0	50	1.00
653289--653344	2	28.5	2	96	3	105	50	0	0	50	1.00
657822--657865	22	2.0	22	86	4	61	29	31	22	15	1.95
659291--659358	23	3.0	23	84	0	82	22	23	26	27	1.99
661676--661718	17	2.6	16	78	7	50	34	0	25	39	1.56
662608--662668	21	2.9	21	95	2	104	29	24	27	18	1.98
662702--662746	22	2.0	22	82	4	54	28	28	26	15	1.96
664169--664221	23	2.3	23	96	0	97	18	28	26	26	1.98
664169--664237	23	3.0	23	89	0	84	21	24	24	28	1.99
675623--675681	21	2.8	20	82	12	66	79	1	10	8	1.00
675623--675669	21	2.2	22	88	7	71	80	0	12	6	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
675650--675728	15	5.2	14	74	19	70	78	1	3	16	0.96
675645--675739	5	18.8	5	72	18	63	77	1	6	14	1.01
675636--675749	22	5.1	21	73	19	81	77	0	7	14	1.04
677015--677063	15	3.4	14	83	10	71	53	6	2	38	1.38
677050--677117	25	2.6	26	84	11	86	47	4	2	45	1.38
677079--677191	37	3.0	37	78	11	122	46	6	4	43	1.49
677031--677153	62	1.9	62	85	9	167	47	5	3	43	1.43
677079--677191	36	3.0	38	85	8	151	46	6	4	43	1.49
677141--677165	12	2.1	12	100	0	50	44	8	8	40	1.63
677100--677271	36	5.1	36	75	21	158	43	8	4	43	1.54
677156--677217	26	2.4	26	94	0	106	43	8	1	46	1.42
677181--677290	36	3.0	35	76	9	114	44	8	3	43	1.51
677275--677339	31	2.1	31	86	8	89	44	12	0	43	1.41
677332--677408	2	38.5	2	94	5	138	49	1	0	49	1.09
678088--678753	85	7.8	85	84	2	791	26	18	20	34	1.96
678088--678753	171	3.9	169	86	3	827	26	18	20	34	1.96
678172--678753	256	2.3	256	87	1	844	25	18	20	34	1.96
678992--679147	65	2.5	61	80	9	183	26	14	21	38	1.91
679355--679707	64	5.5	64	89	3	516	30	11	21	36	1.89
679355--679707	192	1.8	192	90	2	575	30	11	21	36	1.89
682559--682879	172	1.9	172	79	7	366	39	12	12	35	1.81
685944--685987	21	2.1	21	87	4	63	61	11	9	18	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
685610--686424	182	4.5	181	87	1	1058	45	12	14	27	1.81
686265--686586	162	2.0	163	86	3	452	47	13	12	27	1.78
686496--686819	162	2.0	159	87	1	468	41	12	16	29	1.85
687291--687335	19	2.4	19	92	3	74	42	0	20	37	1.52
687454--687478	5	5.0	5	100	0	50	20	0	20	60	1.37
688450--688487	15	2.5	15	91	0	58	26	10	34	28	1.90
688599--688653	24	2.5	22	77	16	60	41	1	7	49	1.41
689331--689369	18	2.2	18	90	0	60	53	0	38	7	1.30
690837--690885	19	2.6	19	90	3	73	30	2	10	57	1.43
691235--693499	199	11.5	199	90	3	3537	42	15	14	27	1.86
693855--693889	15	2.3	15	90	0	52	22	54	2	20	1.58
695047--695081	12	2.9	12	91	0	52	40	2	31	25	1.70
696493--697348	199	4.3	199	91	1	1331	41	16	14	27	1.87
699882--700420	198	2.7	194	84	5	629	40	13	14	31	1.85
700448--700479	14	2.4	13	94	5	55	43	12	12	31	1.80
700490--700533	23	1.9	23	85	0	61	38	22	6	31	1.81
706658--706682	13	1.9	13	100	0	50	36	8	8	48	1.62
707150--707249	14	6.7	15	76	14	68	79	1	5	15	0.96
707151--707229	7	11.4	7	74	15	67	79	1	2	16	0.90
710138--710216	20	3.8	20	76	17	70	22	20	34	22	1.97
713405--713857	182	2.5	182	89	2	678	28	15	13	43	1.84
713728--714077	111	3.1	112	94	2	605	25	15	14	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
723764--723807	19	2.2	20	80	11	56	40	0	2	56	1.11
727695--727728	2	17.0	2	100	0	68	50	0	0	50	1.00
729182--729282	32	3.2	32	72	2	96	33	11	22	31	1.91
737954--738000	20	2.3	20	85	7	60	21	8	4	65	1.37
738683--738719	17	2.2	17	95	4	67	27	5	10	56	1.55
745717--745748	14	2.2	15	94	5	57	78	0	15	6	0.95
745716--745751	14	2.6	13	87	12	54	75	0	16	8	1.04
745732--745774	23	1.9	23	85	4	61	67	4	13	13	1.38
745841--745881	2	20.5	2	100	0	82	51	0	0	48	1.00
745998--746081	2	43.5	2	79	15	79	52	2	3	41	1.31
748185--748361	37	4.8	37	91	0	293	37	14	23	25	1.92
748783--748986	110	1.9	110	86	0	291	23	16	21	38	1.93
750050--750232	95	1.9	95	88	2	278	30	18	18	32	1.95
754094--754129	14	2.6	14	87	12	56	72	2	16	8	1.21
754110--754152	23	1.9	23	85	4	61	67	4	13	13	1.38
754303--754337	18	1.9	18	88	0	52	77	2	2	17	1.02
754474--754521	2	23.0	2	83	8	60	50	4	2	43	1.33
757217--757246	2	15.5	2	93	6	53	0	0	50	50	1.00
775487--775569	42	2.0	42	92	0	139	36	25	20	18	1.95
777723--777797	33	2.3	33	88	8	111	41	8	8	42	1.63
777652--777978	36	9.3	35	75	12	201	44	6	5	43	1.53
777801--778036	37	6.4	36	76	12	176	45	7	5	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
777924--777949	13	2.0	13	100	0	52	46	7	7	38	1.61
777834--777972	73	1.9	73	81	8	167	48	7	5	38	1.55
778026--778063	2	20.0	2	89	10	62	52	0	0	47	1.00
778561--779390	165	5.0	165	89	2	1157	23	20	25	29	1.99
778561--779390	331	2.5	330	88	2	1186	23	20	25	29	1.99
785873--785947	33	2.3	33	88	8	111	41	8	8	42	1.63
785803--786188	36	10.8	35	72	15	217	44	6	5	43	1.53
785802--786122	73	4.6	72	73	14	192	46	6	4	42	1.50
786074--786099	13	2.0	13	100	0	52	46	7	7	38	1.61
786781--786905	31	4.0	31	95	2	216	38	23	19	19	1.93
789354--789451	30	3.4	29	80	10	103	46	15	2	35	1.57
789358--789540	29	6.3	29	70	11	97	51	14	2	31	1.57
789566--789617	19	2.7	20	77	14	54	25	25	26	23	2.00
791615--791650	18	2.0	18	100	0	72	27	5	0	66	1.13
791945--792314	123	3.0	123	95	0	652	22	26	17	33	1.96
792279--792368	46	1.9	47	88	2	137	23	16	18	41	1.90
796527--796617	2	48.5	2	79	16	88	47	0	2	50	1.13
797343--797389	23	2.0	24	84	12	62	25	12	2	59	1.45
797851--797898	23	2.1	23	84	0	60	39	6	20	33	1.78
797929--797976	23	2.1	23	84	7	62	37	10	18	33	1.85
797815--797976	87	1.9	87	93	0	279	41	11	15	31	1.83
799637--799670	17	1.9	17	88	5	50	52	11	0	35	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
801598--801637	21	1.9	21	94	0	71	12	25	37	25	1.91
801620--801680	20	2.9	20	82	7	68	22	26	29	21	1.99
802531--802556	11	2.4	11	100	0	52	65	23	0	11	1.25
803185--803800	182	3.4	182	89	2	909	27	16	12	43	1.83
825276--825377	32	3.2	32	82	12	97	33	0	3	62	1.13
825323--825359	19	1.9	19	88	0	56	35	0	2	62	1.10
825295--825377	32	2.5	32	84	11	98	37	0	2	60	1.10
827098--827145	21	2.3	21	85	0	60	25	39	12	22	1.89
827149--827242	21	4.5	21	92	5	129	18	35	26	20	1.95
827764--827860	33	2.9	34	85	3	133	55	4	3	37	1.35

Tables:   1   2   3   4   5