genome.fa.s7799.2.7.7.80.10.50.1000.3.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: VEPZ01007799.1 Hibiscus syriacus cultivar Beakdansim tig00110109_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1433344

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 657 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)
547355--547402	21	2.3	21	96	0	87	29	0	0	70	0.87
547367--547398	13	2.5	13	94	0	55	31	0	0	68	0.90
549673--549725	3	17.7	3	84	0	52	28	33	3	33	1.75
552651--552690	20	2.0	20	95	0	71	37	30	2	30	1.71
558766--558801	15	2.3	15	90	4	54	16	11	30	41	1.83
558775--558815	15	2.6	16	88	7	57	14	7	29	48	1.71
559457--559530	23	3.3	23	75	19	75	41	2	0	55	1.14
560630--560696	28	2.4	28	80	5	73	55	7	8	28	1.58
563753--563792	14	3.1	13	82	10	55	60	0	0	40	0.97
563766--563810	17	2.6	17	85	3	54	46	0	0	53	1.00
565023--565053	16	1.9	16	100	0	62	16	19	58	6	1.59
565179--565244	3	22.0	3	87	0	96	60	0	1	37	1.06
568439--568556	59	2.0	59	96	0	218	43	14	11	31	1.80
571481--571517	17	2.2	16	90	4	56	54	0	0	45	1.00
572372--572413	22	2.0	21	90	4	66	45	2	2	50	1.27
573057--573094	2	19.0	2	100	0	76	50	0	0	50	1.00
577136--577197	16	3.7	16	70	19	54	29	0	1	69	0.98
577125--577197	29	2.4	29	86	8	94	28	0	2	68	1.03
591424--591453	14	2.1	15	93	6	53	33	0	0	66	0.92
599686--599727	2	21.0	2	100	0	84	50	0	0	50	1.00
603794--603843	22	2.3	22	89	6	75	78	10	2	10	1.06
603852--603904	27	2.0	27	89	7	83	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603844--603888	21	2.1	22	88	12	67	33	0	2	64	1.06
604581--604654	33	2.3	33	81	6	89	25	4	12	58	1.52
606688--606723	18	2.0	18	88	0	54	25	2	13	58	1.49
614611--614638	2	14.0	2	100	0	56	0	50	0	50	1.00
614949--614984	18	2.0	18	100	0	72	38	16	0	44	1.48
618391--618420	12	2.5	12	94	0	51	63	6	3	26	1.35
621551--621594	2	22.0	2	90	0	52	50	0	40	9	1.34
621547--621594	16	3.0	16	100	0	96	50	0	37	12	1.41
622557--622630	31	2.3	32	76	2	78	29	20	14	35	1.93
622601--622662	27	2.3	27	88	2	88	29	20	17	32	1.96
625461--625485	12	2.1	12	100	0	50	32	36	8	24	1.84
629459--629910	147	3.1	147	99	0	897	25	22	5	46	1.73
631130--631173	21	2.0	22	82	4	54	63	0	2	34	1.07
631258--631307	2	25.0	2	100	0	100	50	0	0	50	1.00
639976--640018	15	2.8	16	82	13	54	32	2	2	62	1.20
640982--641050	10	6.7	10	73	18	61	62	0	0	37	0.96
640968--641059	32	3.3	27	77	21	93	63	0	0	36	0.95
640979--641065	19	4.8	19	74	20	80	63	0	0	36	0.95
640968--641041	32	2.3	32	97	0	139	60	0	0	39	0.97
645340--645371	13	2.5	13	95	5	57	62	6	0	31	1.20
646511--646576	26	2.5	27	82	7	73	60	0	0	39	0.97
646523--646576	27	2.0	26	89	3	81	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646527--646591	27	2.4	27	85	10	80	63	1	0	35	1.04
646568--646602	16	2.1	18	89	10	56	65	2	0	31	1.07
653177--653259	31	2.7	31	90	5	141	37	6	4	51	1.48
660841--660907	34	1.9	34	82	14	84	19	11	20	47	1.81
669356--669387	2	16.0	2	100	0	64	50	0	0	50	1.00
672517--672565	2	25.5	2	91	8	84	48	0	0	51	1.00
674454--674586	60	2.2	61	83	1	160	36	15	16	31	1.91
674776--674829	15	3.7	15	72	20	51	46	0	1	51	1.11
679366--679398	5	6.6	5	100	0	66	63	0	0	36	0.95
682255--682292	19	2.0	20	85	15	53	50	0	0	50	1.00
692536--692609	22	3.3	21	70	20	60	31	1	2	64	1.15
697131--697234	33	3.2	33	91	1	165	21	19	27	31	1.97
697167--697217	17	3.1	17	67	16	52	19	21	27	31	1.97
697156--697206	16	3.1	16	68	15	50	23	15	33	27	1.95
699692--700082	78	5.1	78	68	7	318	32	19	22	24	1.97
699762--700142	78	5.0	75	69	4	246	32	18	23	25	1.97
699660--700185	153	3.5	153	90	1	808	32	18	22	25	1.97
699775--700157	75	5.0	75	68	6	205	32	18	22	25	1.97
705706--705733	2	14.0	2	100	0	56	50	0	0	50	1.00
706914--706938	6	4.2	6	100	0	50	52	16	16	16	1.76
707743--707784	8	5.1	8	78	16	50	66	0	2	30	1.04
716747--716785	3	13.0	3	100	0	78	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
718424--718466	13	3.5	13	78	12	54	46	4	0	48	1.22
718406--718466	24	2.5	24	83	0	77	50	3	1	44	1.28
719925--719967	14	2.9	15	80	16	54	41	0	2	55	1.12
719960--720009	19	2.6	19	83	0	55	72	6	4	18	1.22
721179--721247	34	2.0	34	97	0	129	17	21	23	37	1.94
724533--724562	6	5.0	6	100	0	60	16	16	0	66	1.25
727536--727576	2	21.0	2	90	5	66	46	0	0	53	1.00
728298--728754	228	2.0	226	98	0	878	41	9	7	41	1.66
730055--730136	39	2.1	39	86	2	110	47	0	0	52	1.00
730677--730764	3	29.3	3	80	13	101	32	1	2	63	1.14
730677--730764	13	6.8	13	82	7	99	32	1	2	63	1.14
730677--730764	16	5.4	16	77	15	92	32	1	2	63	1.14
730678--730764	19	4.6	19	79	12	74	33	1	2	63	1.15
736573--736801	56	4.1	56	93	1	388	34	16	21	26	1.95
736573--736801	111	2.1	112	93	0	388	34	16	21	26	1.95
737360--737393	2	17.5	2	93	6	61	50	0	0	50	1.00
739919--739955	16	2.3	16	95	0	65	37	27	13	21	1.91
741914--741970	24	2.4	24	88	8	82	63	5	3	28	1.33
741920--741970	15	3.8	15	66	28	51	60	5	3	29	1.38
743690--743730	21	2.0	21	90	0	64	41	19	0	39	1.52
746238--746266	12	2.4	12	100	0	58	10	0	68	20	1.18
750058--750102	20	2.4	18	86	13	72	22	26	4	46	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
750064--750114	20	2.5	20	93	6	86	27	23	3	45	1.70
753132--753443	55	5.7	55	82	3	276	28	23	18	28	1.98
753132--753443	110	2.9	108	80	8	323	28	23	18	28	1.98
754698--754836	7	17.6	7	72	21	55	8	17	0	72	1.14
754696--754746	17	2.9	17	80	5	57	7	17	0	74	1.05
754748--754803	10	6.1	10	80	19	61	14	17	1	66	1.34
754745--754810	17	3.8	17	78	21	75	13	16	1	68	1.29
754745--754810	26	2.6	25	86	13	98	13	16	1	68	1.29
758399--758423	2	12.5	2	100	0	50	52	0	0	48	1.00
764741--764790	19	2.5	19	83	6	64	30	12	8	50	1.68
766354--766466	47	2.4	47	82	10	140	41	20	11	26	1.86
769529--769574	2	23.0	2	100	0	92	50	0	0	50	1.00
773863--773984	60	2.0	60	93	0	208	19	13	19	47	1.82
784438--784473	2	18.0	2	100	0	72	50	0	0	50	1.00
784542--784592	24	2.1	24	82	7	59	37	7	11	43	1.71
792167--792206	21	1.9	21	89	0	62	45	12	17	25	1.83
792702--792757	29	1.9	30	88	3	87	14	3	17	64	1.43
794048--794237	100	1.9	98	96	2	353	20	18	22	38	1.93
796967--797007	20	2.2	19	86	8	57	36	9	29	24	1.87
797158--797230	35	2.0	37	84	10	98	49	4	1	45	1.29
799324--799369	23	2.0	23	100	0	92	34	13	17	34	1.88
802365--802400	18	2.0	18	100	0	72	44	27	16	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
807467--807528	21	3.0	21	73	4	63	32	16	17	33	1.92
807515--807561	21	2.2	21	92	0	76	38	6	17	38	1.75
814945--814971	2	13.5	2	100	0	54	51	0	0	48	1.00
821596--821634	19	2.1	19	90	4	62	46	0	0	53	1.00
824381--824598	108	2.0	108	92	0	364	28	16	11	44	1.82
837603--837644	15	2.9	14	89	7	57	0	21	2	76	0.90
837603--837644	20	2.1	20	86	8	59	0	21	2	76	0.90
838099--838143	3	15.3	3	90	4	74	64	0	0	35	0.94
838394--839375	113	8.6	113	83	3	1135	28	19	14	37	1.91
838392--839363	229	4.3	227	91	2	1344	28	19	14	37	1.91

Tables:   1   2   3   4   5   6