genome.fa.s8361.2.7.7.80.10.50.1000.3.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: VEPZ01008361.1 Hibiscus syriacus cultivar Beakdansim tig00111100_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1124086

Tables:   1   2   3   4   

This is table  3  of  4  ( 454 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)
558094--558135	14	3.0	14	79	10	50	78	0	11	9	0.96
559731--559805	29	2.6	29	84	0	96	18	40	26	14	1.90
559732--559819	29	3.0	29	84	0	95	20	37	30	11	1.88
560036--560122	29	3.0	29	84	0	120	14	29	39	16	1.88
561912--562001	46	1.9	47	84	10	123	52	18	10	18	1.73
563918--563980	11	5.9	11	75	14	69	41	1	0	57	1.08
565558--565612	23	2.5	22	81	3	56	52	3	5	38	1.42
568893--568931	16	2.4	16	95	0	69	58	23	10	7	1.56
572476--572525	23	2.2	23	82	13	59	62	12	4	22	1.46
572560--572593	2	17.5	2	93	6	61	50	0	0	50	1.00
573083--573137	28	2.0	27	92	3	92	61	1	3	32	1.24
574365--574410	20	2.3	20	78	14	51	36	2	0	60	1.09
576827--576902	30	2.5	30	79	12	93	50	3	5	40	1.44
581628--581677	2	24.0	2	84	8	64	48	2	6	44	1.39
587430--587622	36	5.4	36	94	0	332	34	30	8	26	1.86
587522--587617	18	5.3	18	64	22	58	35	30	8	26	1.86
596882--596915	17	1.9	18	94	5	61	55	0	5	38	1.24
596981--597005	3	8.3	3	100	0	50	32	0	0	68	0.90
602491--602560	35	2.0	35	100	0	140	42	8	11	37	1.72
604150--604183	16	2.1	16	94	0	59	32	8	26	32	1.87
604933--604964	15	2.1	16	94	5	57	50	18	25	6	1.70
608843--608868	13	2.0	13	100	0	52	23	15	23	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617700--617741	17	2.4	18	80	8	50	66	2	4	26	1.23
618558--618590	16	2.1	16	100	0	66	24	21	18	36	1.95
626861--626919	29	2.0	29	96	0	109	23	11	13	50	1.74
635064--635241	60	3.0	60	83	1	178	33	19	3	42	1.70
635374--635533	60	2.7	57	80	8	153	36	7	23	32	1.83
639051--639084	16	2.1	16	94	0	59	32	8	26	32	1.87
651769--651802	15	2.3	15	100	0	68	38	0	0	61	0.96
651769--651811	15	2.9	15	89	3	52	34	0	4	60	1.17
652303--652356	26	2.1	25	86	10	74	35	16	3	44	1.66
653702--653743	19	2.2	19	100	0	84	38	19	23	19	1.93
659879--659916	18	2.1	18	85	9	51	26	36	21	15	1.93
670088--670171	42	2.0	42	100	0	168	40	7	26	26	1.81
679720--679971	131	1.9	131	97	0	477	32	26	11	29	1.91
682510--682539	14	2.1	14	93	0	51	60	0	0	40	0.97
682731--682798	20	3.4	20	68	8	66	38	2	8	50	1.49
682693--682807	40	2.9	40	84	0	140	40	2	10	46	1.52
683753--683815	24	2.4	27	76	17	78	44	11	6	38	1.66
683765--683815	24	2.1	24	96	0	93	49	9	7	33	1.65
686190--686317	61	2.1	60	82	7	152	35	20	4	39	1.73
696610--696648	19	2.0	20	90	5	62	33	0	0	66	0.92
696742--697134	74	5.4	73	78	10	382	54	4	3	37	1.39
696744--697134	141	2.7	150	77	10	386	54	4	3	37	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
700073--700110	14	2.6	14	95	4	67	52	0	0	47	1.00
700226--700251	2	13.0	2	100	0	52	50	0	0	50	1.00
701463--701508	23	2.0	23	83	8	58	28	6	4	60	1.40
710175--710208	16	2.1	17	88	5	52	61	5	2	29	1.34
718405--718449	17	2.6	18	79	10	58	55	0	0	44	0.99
718996--719035	21	1.9	21	85	10	55	47	0	0	52	1.00
723764--723822	28	2.1	28	87	0	82	35	18	11	33	1.88
727941--727974	16	2.1	16	100	0	68	0	52	17	29	1.45
728600--728663	18	3.5	17	79	14	65	57	0	3	39	1.14
732223--732260	17	2.2	17	90	9	60	34	0	0	65	0.93
732576--732616	21	2.0	20	85	4	55	60	2	4	31	1.30
745514--745580	26	2.4	28	83	14	86	61	0	2	35	1.12
745533--745586	13	3.9	14	78	11	67	62	0	1	35	1.06
747295--747428	14	8.5	15	72	18	94	44	0	4	50	1.27
747390--747446	18	3.4	18	68	22	52	33	0	10	56	1.34
747376--747767	32	12.4	32	69	24	160	35	0	11	52	1.39
747376--748197	80	10.2	83	82	13	909	34	0	12	52	1.41
747565--747703	22	6.0	22	78	15	145	38	0	11	50	1.39
747645--747705	21	2.9	21	88	9	97	37	0	13	49	1.42
747706--747763	18	3.4	18	70	18	61	29	0	13	56	1.38
747823--747938	22	4.9	22	71	20	99	36	0	12	50	1.41
747399--747973	128	4.4	128	74	13	457	35	0	12	51	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
747847--748005	32	4.7	32	73	14	138	35	0	12	52	1.40
747879--747938	21	2.8	22	89	5	104	35	0	13	51	1.41
747944--748001	18	3.5	17	70	18	50	29	0	13	56	1.38
748056--748103	22	2.4	18	73	23	51	33	0	14	52	1.42
748145--748187	22	2.0	22	100	0	86	34	0	13	51	1.42
748212--748270	31	1.9	31	92	0	100	42	10	6	40	1.65
748289--748330	16	2.7	16	92	3	68	23	7	7	61	1.47
748755--748831	26	2.8	26	88	9	100	49	1	0	49	1.09
748763--748879	41	3.0	41	78	10	138	48	0	2	47	1.21
748755--748883	15	8.5	15	77	18	133	46	0	2	50	1.19
748934--749017	32	2.7	32	94	1	143	34	0	11	53	1.38
748958--749013	18	3.3	18	71	19	57	30	0	12	57	1.36
749051--749126	31	2.4	32	89	6	120	35	0	11	52	1.38
749051--749234	32	6.4	32	75	20	169	35	0	11	52	1.37
749106--749170	22	3.0	22	95	0	121	36	0	12	50	1.40
749159--749212	14	3.6	14	72	18	54	37	0	5	57	1.22
748863--749419	217	2.4	221	85	11	759	34	0	12	52	1.40
749283--749355	22	3.3	22	69	16	53	28	0	16	54	1.42
749372--749414	22	2.0	22	100	0	86	34	0	13	51	1.42
749438--749496	31	1.9	31	92	0	100	42	10	6	40	1.65
749514--749544	16	1.9	16	100	0	62	25	6	6	61	1.45
749929--750042	21	5.6	20	74	11	81	34	26	15	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
750573--750640	32	2.1	32	91	0	109	29	10	22	38	1.87
772427--772520	32	3.1	30	80	7	109	45	1	2	51	1.20
778651--778704	15	3.7	14	81	15	65	29	1	1	66	1.12
778660--778703	16	2.9	15	90	10	63	29	2	0	68	1.02
787719--787758	2	20.0	2	100	0	80	50	0	0	50	1.00
793400--793531	60	2.2	60	82	8	153	32	18	16	31	1.94
802706--802735	14	2.2	13	94	5	51	50	0	0	50	1.00
805820--805865	23	2.0	23	100	0	92	30	26	4	39	1.75
812424--812466	22	2.0	22	86	9	61	46	13	2	37	1.57
814740--814791	2	26.5	2	82	3	61	42	3	53	0	1.19
817273--817365	21	4.5	21	75	4	91	39	19	24	16	1.91
817354--817445	20	4.6	20	78	2	76	33	23	18	23	1.97
817274--817365	41	2.2	41	98	0	175	40	19	25	15	1.90
817636--817679	22	2.0	22	90	0	70	20	43	15	20	1.88
817923--817966	20	2.2	20	87	0	61	11	18	20	50	1.77
819286--819330	18	2.5	18	88	0	72	26	44	15	13	1.83
819812--819878	20	3.4	20	81	2	73	38	23	22	14	1.92
819867--819925	14	3.9	14	76	20	64	49	23	16	10	1.77
819851--819909	19	3.4	19	73	22	74	47	20	18	13	1.82
819851--819930	33	2.4	33	97	0	151	47	22	18	11	1.80
819937--820058	19	6.6	19	76	11	101	13	20	23	41	1.88
819985--820039	20	2.8	19	89	5	83	16	25	23	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
822038--822115	19	4.7	16	78	18	56	47	19	20	12	1.82
822048--822115	19	3.8	19	81	14	92	48	17	20	13	1.80
822135--822191	20	2.8	20	94	0	96	15	22	22	38	1.92
823481--823505	12	2.1	12	100	0	50	72	0	28	0	0.86
824852--824894	20	2.2	20	87	4	61	16	18	23	41	1.89
824880--824913	14	2.4	14	85	0	50	8	23	20	47	1.78
825035--825071	14	2.6	14	86	0	56	45	21	0	32	1.52
826427--826493	21	3.2	21	68	4	55	19	20	35	23	1.95
826427--826549	42	2.9	41	79	7	113	22	17	36	23	1.94
828574--828672	33	3.0	33	87	1	135	39	25	23	12	1.89

Tables:   1   2   3   4