genome.fa.s7960.2.7.7.80.10.50.1000.3.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  3  of  39  ( 4646 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)
405955--406006	24	2.2	24	85	0	68	21	23	26	28	1.99
410416--410462	6	7.8	6	100	0	94	14	34	0	51	1.43
414895--414980	40	2.2	40	100	0	172	30	16	23	30	1.96
418881--418906	13	2.0	13	100	0	52	38	23	30	7	1.83
424649--424684	16	2.4	16	90	9	58	66	2	19	11	1.35
434504--434857	46	8.0	46	77	11	299	23	21	11	44	1.84
434709--434785	34	2.3	34	88	0	109	23	22	10	44	1.83
434617--434853	126	1.9	126	89	0	366	21	21	10	45	1.83
434666--434831	80	2.1	80	94	0	287	24	21	10	43	1.84
434743--434875	20	5.8	25	68	26	89	23	19	12	45	1.84
434835--434880	22	2.1	21	92	4	74	23	13	15	47	1.80
435290--435461	94	1.8	94	85	5	240	26	21	12	38	1.90
441104--441175	30	2.4	30	90	0	108	31	25	19	23	1.98
441162--441286	31	4.0	30	79	13	119	31	19	19	30	1.96
446890--446948	21	2.8	21	84	0	82	23	20	27	28	1.99
451241--451272	16	2.0	16	100	0	64	18	6	31	43	1.75
453557--453602	18	2.6	18	96	3	85	30	21	19	28	1.98
453499--453667	83	2.0	82	86	7	236	28	18	23	28	1.98
453682--453737	20	2.8	20	88	0	85	19	16	30	33	1.94
463857--463936	21	3.8	21	96	0	142	22	21	30	26	1.99
465163--465255	48	1.9	48	86	4	134	26	8	6	58	1.52
465960--466016	20	2.8	20	77	15	64	28	28	8	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466051--466107	20	2.8	19	75	15	53	36	17	10	35	1.84
468327--468367	21	2.0	20	86	13	57	26	17	4	51	1.65
470654--470741	40	2.2	40	83	0	104	32	18	14	34	1.91
471484--471543	30	2.0	31	86	3	86	28	16	13	41	1.86
473151--473190	13	3.1	13	88	0	62	12	30	2	55	1.50
474084--474111	3	9.3	3	100	0	56	67	0	0	32	0.91
474914--474952	17	2.3	17	95	0	69	51	20	5	23	1.67
481794--481838	3	15.3	3	95	4	83	68	0	0	31	0.89
493192--493263	24	3.0	22	74	11	63	58	0	1	40	1.07
493195--493263	36	1.9	36	82	5	86	57	0	1	40	1.07
498104--498181	41	1.9	41	89	0	120	35	7	5	51	1.53
498319--498485	43	3.9	43	85	0	208	35	19	18	26	1.95
503115--503177	25	2.9	22	78	19	69	31	6	30	31	1.83
503151--503187	19	1.9	19	100	0	74	37	5	29	27	1.79
503509--503549	19	2.0	20	86	9	57	31	21	21	24	1.98
503632--503669	19	1.9	19	89	5	58	23	18	28	28	1.98
503641--503679	19	2.1	19	90	0	60	23	12	28	35	1.91
504161--504190	15	2.0	15	93	0	51	30	6	6	56	1.51
506775--506821	20	2.4	19	79	10	58	55	8	17	19	1.67
509110--509175	33	2.0	33	87	0	96	28	1	45	24	1.62
510966--511028	19	3.4	19	95	2	110	31	3	9	55	1.48
511111--512521	199	7.1	199	94	2	2490	37	15	15	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511111--512521	397	3.6	397	96	1	2583	37	15	15	32	1.88
513995--514044	3	17.0	3	83	4	66	36	4	34	26	1.75
515405--516082	184	3.7	184	97	1	1232	35	14	15	34	1.88
518572--518629	23	2.5	23	91	0	89	36	6	18	37	1.78
518572--518639	23	3.0	23	86	4	84	35	5	19	39	1.76
518995--519057	23	2.7	23	90	0	90	36	6	19	38	1.77
518995--519067	23	3.2	23	86	3	85	35	5	19	39	1.75
519823--519847	12	2.1	12	100	0	50	52	0	16	32	1.44
519835--519911	40	1.9	40	91	0	127	51	1	12	33	1.48
520227--520256	13	2.3	13	94	0	51	43	10	16	30	1.81
522140--522200	20	3.0	20	78	19	56	31	1	1	65	1.12
524635--524674	20	2.0	21	85	14	57	42	5	7	45	1.54
524844--525050	65	3.2	63	82	7	220	31	24	16	27	1.96
532354--532397	21	2.1	21	86	0	61	9	36	15	38	1.80
533134--533173	20	2.0	21	85	14	57	42	5	7	45	1.54
533390--533541	57	2.5	60	77	14	159	30	25	15	28	1.96
533425--533533	57	1.9	57	90	1	175	31	24	15	28	1.96
536687--537166	182	2.6	183	92	2	770	42	13	16	27	1.86
538186--538802	200	3.1	195	79	8	602	39	14	15	30	1.87
538228--538802	199	2.9	198	80	8	576	39	14	15	30	1.88
538896--538945	23	2.2	23	92	0	82	32	22	8	38	1.83
540166--540265	50	2.0	48	83	13	121	42	1	2	55	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544359--544399	20	2.1	20	86	4	57	39	0	7	53	1.29
544706--544755	3	17.7	3	82	12	61	36	0	0	64	0.94
544706--544755	20	2.5	20	90	3	75	36	0	0	64	0.94
544704--544767	17	3.8	17	80	12	62	39	0	0	60	0.97
547522--547585	18	3.6	18	68	21	53	6	12	28	53	1.62
552964--553139	69	2.6	69	86	0	235	39	19	14	26	1.90
553390--553517	2	73.5	2	73	26	123	42	0	0	57	0.98
553390--553565	5	34.4	5	84	15	204	40	0	0	59	0.98
553392--553565	12	14.2	12	79	20	168	40	0	0	59	0.98
553395--553565	26	6.5	26	85	13	196	40	0	0	59	0.98
553404--553557	21	6.9	23	82	16	75	40	0	0	59	0.97
566505--566532	11	2.5	11	100	0	56	78	7	14	0	0.95
566483--566551	11	6.1	11	72	12	50	82	2	11	2	0.88
567827--568843	54	19.8	53	79	11	939	31	18	26	22	1.97
567827--568744	155	6.0	153	83	9	967	31	19	27	22	1.98
567830--568843	206	4.9	206	81	10	1080	31	18	26	22	1.97
567830--568690	456	1.9	451	84	8	1154	31	19	27	22	1.98
568806--569166	55	6.7	55	88	6	512	35	16	21	27	1.94
574337--574386	24	2.0	27	84	11	70	68	4	8	20	1.32
576570--576625	17	3.7	15	79	13	53	60	1	0	37	1.07
576578--576625	11	4.4	11	76	10	53	60	2	0	37	1.09
576568--576610	22	2.0	21	82	13	52	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576580--576627	19	2.5	18	77	12	51	62	2	0	35	1.07
577887--577972	3	28.7	3	88	9	131	68	1	0	30	0.97
580178--580235	24	2.3	25	85	11	75	44	6	3	44	1.47
580178--580239	26	2.5	25	82	15	76	45	6	3	45	1.45
581830--581854	2	12.5	2	100	0	50	52	0	0	48	1.00
583524--583590	15	4.3	15	74	12	64	53	17	8	19	1.70
583524--583590	31	2.2	31	83	5	82	53	17	8	19	1.70
588703--588748	21	2.1	21	88	4	65	50	2	13	34	1.53
599177--599216	21	1.9	21	90	10	64	25	15	30	30	1.95
601132--601171	2	19.0	2	90	10	62	47	0	5	47	1.24
605845--605903	21	2.8	21	80	16	61	54	6	1	37	1.37
606021--606112	30	3.0	30	83	4	103	41	2	6	50	1.40
606059--606135	35	2.3	32	82	10	84	42	0	7	49	1.31
607066--607099	9	3.9	9	84	7	52	55	0	0	44	0.99
608553--608592	16	2.5	16	100	0	80	20	20	10	50	1.76
608946--609358	122	3.5	121	84	8	494	24	18	15	41	1.89
609160--609378	111	2.0	111	88	3	325	25	16	15	41	1.89
609733--609791	22	2.7	22	89	0	82	33	13	13	38	1.84
610418--610468	22	2.4	21	90	3	75	56	3	9	29	1.49
610821--610873	7	7.6	7	89	6	81	11	15	0	73	1.09
610821--610873	22	2.5	21	90	6	81	11	15	0	73	1.09
610820--610903	7	12.3	7	77	14	59	8	14	0	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610864--610903	13	3.0	13	92	3	62	2	12	0	85	0.71
610865--610903	19	2.1	18	90	4	60	2	12	0	84	0.72
616934--616973	21	1.9	21	89	0	62	10	25	40	25	1.86
620819--620858	21	1.9	21	85	10	55	35	10	2	52	1.48
624090--624120	8	4.0	8	91	8	55	61	0	12	25	1.32
624090--624120	15	2.0	16	93	6	55	61	0	12	25	1.32
628593--628617	12	2.1	12	100	0	50	24	0	52	24	1.48
637455--637484	15	2.0	15	93	0	51	50	3	20	26	1.64
641026--641059	9	3.9	9	84	7	52	55	0	0	44	0.99
642279--642367	27	3.3	27	72	9	90	14	10	43	31	1.79

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39