genome.fa.s5466.2.7.7.80.10.50.1000.3.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: VEPZ01005466.1 Hibiscus syriacus cultivar Beakdansim tig00012523_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1151987

Tables:   1   2   3   4   

This is table  3  of  4  ( 456 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)
517485--517525	20	2.0	21	86	13	59	51	0	0	48	1.00
517487--517529	22	2.0	22	86	9	61	53	0	0	46	1.00
517552--517592	21	2.0	21	85	0	55	51	4	4	39	1.45
517544--517599	15	3.6	16	81	15	64	50	3	3	42	1.37
527824--527893	20	3.5	20	94	0	113	20	18	12	48	1.80
528272--528301	14	2.1	14	100	0	60	36	6	23	33	1.81
534847--534958	35	3.2	35	84	0	134	36	0	21	41	1.60
537272--537425	78	2.0	78	98	0	299	35	14	12	37	1.83
538984--539059	31	2.5	31	89	4	109	31	11	10	46	1.75
541167--541212	15	3.1	15	73	17	51	43	8	13	34	1.74
541537--541599	23	2.7	23	77	5	63	47	1	1	49	1.20
541584--541674	29	3.2	28	79	15	107	53	1	0	45	1.07
541583--541741	29	5.9	27	71	16	100	54	0	0	44	1.09
541575--541651	19	4.0	20	70	17	65	53	1	0	45	1.08
541915--542033	42	2.9	42	88	1	168	47	16	17	18	1.84
544521--544554	16	2.1	16	88	0	50	23	0	0	76	0.79
553875--554059	60	3.1	60	79	3	203	32	21	3	42	1.71
554213--554365	60	2.5	60	80	8	159	42	5	20	32	1.74
554517--554549	11	2.8	12	81	9	50	60	0	0	39	0.97
564993--565019	2	13.5	2	100	0	54	48	0	0	51	1.00
581316--581388	36	2.0	36	94	0	128	47	6	17	27	1.73
592788--592880	21	4.7	21	67	26	60	38	2	10	48	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592821--592857	18	2.2	18	85	9	51	43	2	5	48	1.40
592821--592883	23	2.7	23	76	11	65	38	3	9	49	1.51
593004--593159	81	1.9	81	94	1	278	41	10	10	36	1.75
596948--597016	20	3.3	20	79	4	75	33	20	11	34	1.89
596969--597268	97	3.1	96	64	18	255	28	15	18	38	1.91
597020--597322	91	3.3	91	65	17	251	27	13	20	38	1.90
597136--597204	20	3.3	20	79	4	75	33	20	11	34	1.89
597322--597372	20	2.5	20	93	0	93	27	17	25	29	1.98
597265--597508	77	3.1	76	75	9	245	27	14	23	34	1.94
597210--597508	160	1.8	163	85	6	424	27	13	22	36	1.92
597439--597558	57	2.1	57	90	1	186	30	14	19	36	1.91
604769--604843	31	2.4	31	97	0	141	48	1	10	40	1.46
609446--609471	6	4.3	6	100	0	52	19	19	15	46	1.85
615524--615589	31	2.1	31	88	0	96	24	21	9	45	1.80
616590--616659	31	2.3	30	76	9	72	58	1	4	35	1.26
617056--617168	60	1.9	60	90	3	183	38	7	15	38	1.76
625783--625824	14	3.0	14	89	0	57	14	16	14	54	1.71
625773--625830	24	2.4	24	85	0	71	17	13	12	56	1.66
631055--631095	20	2.0	20	100	0	82	51	14	19	14	1.77
633240--633352	60	1.9	60	83	7	149	36	7	13	42	1.73
637256--637326	31	2.3	31	92	2	115	19	23	8	47	1.77
643364--643438	29	2.6	29	81	12	91	36	13	9	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
644137--644250	60	1.9	59	81	1	138	38	14	14	33	1.85
648675--648812	60	2.3	60	81	2	179	31	18	17	33	1.94
649009--649147	60	2.3	60	82	4	156	36	11	15	36	1.83
650568--650623	20	2.7	21	80	5	69	35	14	8	41	1.77
661337--661380	2	22.0	2	100	0	88	50	0	0	50	1.00
673816--673840	10	2.5	10	100	0	50	20	32	20	28	1.97
676255--676294	18	2.2	18	90	0	62	0	42	0	57	0.98
676270--676376	33	3.2	33	89	5	146	1	37	6	54	1.37
676321--676378	18	3.4	18	68	20	52	1	36	6	55	1.37
685914--685988	38	2.0	37	82	5	89	46	4	1	48	1.29
689536--689569	17	2.0	17	88	0	50	35	26	14	23	1.94
692595--692646	7	7.3	7	78	4	50	19	0	30	50	1.48
692595--692640	15	3.1	15	84	3	58	19	0	28	52	1.47
692595--692643	14	3.4	14	83	5	62	20	0	30	48	1.50
694508--695123	309	2.0	308	99	0	1207	41	12	14	31	1.83
696207--696249	17	2.4	18	80	3	52	53	0	4	41	1.21
697943--697987	21	2.1	21	100	0	90	44	13	4	37	1.64
707003--707033	6	5.2	6	100	0	62	16	16	35	32	1.91
707705--707785	41	2.0	42	85	7	112	34	11	4	49	1.60
712090--712118	13	2.2	13	100	0	58	44	0	0	55	0.99
715936--716032	48	2.0	48	96	4	178	22	18	44	14	1.86
716015--716056	22	2.0	22	95	4	77	26	38	23	11	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
719872--720162	145	2.0	146	95	0	530	25	8	18	48	1.76
734276--734443	60	2.8	60	80	7	198	31	23	5	38	1.79
738297--738341	2	22.5	2	100	0	90	48	0	0	51	1.00
745308--745439	37	3.7	36	86	8	171	41	14	13	30	1.84
745850--745882	2	16.5	2	100	0	66	48	0	0	51	1.00
748899--748944	16	3.1	16	82	17	55	80	8	10	0	0.91
749628--749671	22	2.0	22	91	8	72	38	22	11	27	1.88
750623--750901	36	7.9	36	78	10	290	24	20	14	40	1.90
750679--750867	102	1.9	102	87	4	283	26	19	14	39	1.90
750643--750967	138	2.4	137	81	4	411	26	20	13	39	1.90
751640--752712	105	10.3	104	90	4	1549	32	26	18	21	1.97
751640--752712	205	5.2	205	92	2	1619	32	26	18	21	1.97
751640--752712	310	3.4	311	90	4	1576	32	26	18	21	1.97
753258--753389	37	3.7	36	86	8	171	41	14	13	30	1.84
758423--758472	25	2.0	25	92	0	82	18	26	8	48	1.75
765518--765593	40	1.9	40	100	0	152	11	11	32	43	1.78
765941--766245	156	2.0	153	90	1	475	23	15	17	42	1.88
778282--778418	67	2.0	67	100	0	274	25	15	11	47	1.79
780999--781069	35	2.0	35	89	5	108	43	19	0	36	1.51
781065--781141	35	2.2	35	83	4	102	37	0	20	41	1.53
786490--786535	24	1.9	24	90	0	74	32	8	6	52	1.58
790342--790434	36	2.6	36	96	0	168	30	9	19	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
790652--790710	31	2.0	29	86	6	82	40	6	20	32	1.78
790651--790723	29	2.4	31	79	4	87	41	5	24	28	1.77
795163--795218	19	3.1	17	92	5	67	46	0	1	51	1.11
795165--795212	19	2.5	19	100	0	96	47	0	0	52	1.00
797196--797230	2	17.5	2	100	0	70	51	0	0	48	1.00
806442--806523	29	2.8	29	94	1	137	32	14	9	42	1.79
811004--811085	29	2.8	29	94	1	137	32	14	9	42	1.79
830712--830765	23	2.3	23	96	0	99	27	14	25	31	1.95
834290--834324	17	2.1	17	88	0	52	51	0	0	48	1.00
837830--837859	12	2.5	12	94	0	51	6	30	6	56	1.51
838450--838515	19	3.5	19	100	0	132	22	16	34	25	1.95
838504--838561	20	2.6	22	86	10	75	31	18	22	27	1.97
839275--839312	2	19.0	2	100	0	76	50	0	0	50	1.00
839469--839576	31	3.5	31	70	6	92	29	16	16	37	1.91
847280--847517	115	2.1	116	84	9	317	54	5	10	29	1.56
847483--847545	29	2.2	29	85	0	81	57	9	7	25	1.58
852026--852075	24	2.4	19	78	21	55	6	38	0	56	1.24
852529--852571	21	2.0	21	86	0	59	30	27	25	16	1.97
852551--852702	68	2.3	67	88	1	214	28	27	26	17	1.97
853006--853077	29	2.5	29	93	0	117	38	9	12	38	1.76
853092--853151	30	2.0	31	90	3	95	36	6	23	33	1.81
853371--853415	22	2.0	22	100	0	90	20	26	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
853371--853423	22	2.4	22	93	0	79	20	24	24	30	1.99
859451--859493	21	2.0	21	86	0	59	30	27	25	16	1.97
859472--859624	68	2.3	67	86	1	207	30	27	25	16	1.97
859589--859630	21	2.0	21	85	0	57	30	30	26	11	1.92
859928--859999	29	2.5	29	93	0	117	38	9	12	38	1.76
860014--860073	30	2.0	31	90	3	95	36	6	23	33	1.81
860293--860359	22	3.0	22	100	0	134	19	26	26	26	1.99
863554--863588	18	1.9	18	94	0	61	28	25	5	40	1.78
869494--869534	8	5.2	8	82	5	57	34	0	29	36	1.58
869605--869949	128	2.7	128	94	0	602	22	25	20	31	1.98

Tables:   1   2   3   4