genome.fa.s8094.2.7.7.80.10.50.1000.3.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   40   41   42   43   

This is table  3  of  43  ( 5090 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)
458552--458576	12	2.1	12	100	0	50	32	16	8	44	1.76
458568--458592	13	1.9	13	100	0	50	40	0	16	44	1.47
461309--461348	20	2.0	20	95	0	71	45	7	2	45	1.45
462743--462800	16	3.2	18	68	18	57	55	3	0	41	1.17
462745--462808	21	3.3	21	69	24	68	54	3	1	40	1.25
462738--462811	36	2.1	36	97	0	139	58	2	1	37	1.21
463620--463657	19	2.0	19	89	0	58	28	23	18	28	1.98
470012--470080	23	3.0	23	86	0	93	27	26	26	20	1.99
475352--475420	23	3.0	23	71	12	61	27	23	26	23	2.00
479731--479764	17	2.0	17	100	0	68	23	23	5	47	1.73
481807--481839	16	2.0	17	94	5	59	42	18	0	39	1.50
482171--482242	37	2.0	35	91	5	117	45	15	5	33	1.69
484507--484546	8	5.0	8	96	0	71	40	0	60	0	0.97
484816--485029	104	2.0	105	88	7	319	14	22	19	43	1.87
485793--485832	13	3.0	13	85	3	53	55	0	0	45	0.99
496114--496181	29	2.3	29	82	7	75	32	10	7	50	1.64
503251--503333	29	2.8	29	90	1	130	42	10	14	32	1.80
504996--505067	16	4.3	17	74	11	60	69	0	4	26	1.06
505711--505864	64	2.4	64	81	7	186	54	12	1	31	1.48
507589--507637	20	2.5	20	100	0	98	69	8	0	22	1.14
507674--507698	11	2.3	11	100	0	50	92	8	0	0	0.40
512911--512951	21	2.0	21	95	0	73	26	19	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514580--514663	23	3.7	23	91	0	123	16	20	28	34	1.94
516869--516898	12	2.5	12	88	0	51	66	3	23	6	1.30
516997--517118	64	1.9	63	86	5	174	54	13	0	31	1.44
517032--517094	19	3.2	19	75	4	54	55	11	0	33	1.35
517072--517119	25	2.0	24	83	4	60	60	14	0	25	1.34
517099--517160	32	1.9	32	84	12	83	62	11	0	25	1.28
517041--517215	76	2.3	75	83	5	210	57	10	1	30	1.40
523808--523892	42	2.0	42	86	0	116	27	11	22	38	1.89
529832--529865	15	2.3	15	100	0	68	26	23	23	26	2.00
531894--531980	45	1.9	45	97	0	165	47	4	18	29	1.69
532763--532795	2	16.5	2	100	0	66	48	0	0	51	1.00
534386--534411	8	3.2	8	100	0	52	34	0	0	65	0.93
534348--534445	51	2.0	50	83	13	125	48	2	1	47	1.19
536395--536419	2	12.5	2	100	0	50	52	0	0	48	1.00
536605--536637	17	1.9	17	88	11	50	60	0	3	36	1.12
536720--536744	2	12.5	2	100	0	50	52	0	0	48	1.00
537721--537752	17	1.9	17	93	6	57	65	0	0	34	0.93
537771--537807	17	2.2	17	86	13	51	37	8	0	54	1.30
552263--552375	54	2.1	54	89	0	172	28	13	27	30	1.94
555107--555160	24	2.2	24	96	0	99	25	29	11	33	1.91
569008--569092	29	2.9	29	83	0	107	17	40	28	14	1.88
569235--569321	29	3.0	29	84	3	104	13	28	37	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569738--569775	14	2.5	15	83	12	51	84	10	0	5	0.77
573318--573364	21	2.2	21	85	11	60	38	0	0	61	0.96
573380--573477	29	3.3	28	77	17	92	36	4	2	57	1.30
573401--573476	29	2.6	29	87	0	107	35	3	2	57	1.31
573442--573501	25	2.4	25	83	8	70	35	5	1	58	1.30
573451--573596	72	2.1	70	88	10	219	39	2	2	55	1.26
573496--573596	36	2.8	36	76	11	107	39	1	1	56	1.22
573654--573715	31	2.1	30	88	8	92	56	1	4	37	1.30
573715--573742	2	14.0	2	100	0	56	50	0	0	50	1.00
573792--573835	2	22.0	2	100	0	88	50	0	0	50	1.00
573835--574026	27	7.1	27	71	13	112	51	2	6	40	1.40
573872--574034	30	5.9	30	68	22	97	52	1	5	39	1.35
573950--574049	25	4.0	26	76	17	81	54	1	4	41	1.26
574002--574048	24	1.9	25	86	4	69	57	0	4	38	1.18
573989--574063	25	2.9	26	80	9	75	54	0	5	40	1.23
574850--574959	51	2.2	51	85	1	150	38	8	10	42	1.70
575567--575628	23	2.7	23	79	2	61	46	1	6	45	1.38
575638--575716	23	3.5	23	76	19	69	51	0	0	48	1.00
575630--575687	11	5.0	12	78	16	52	48	1	0	50	1.11
578754--578811	29	2.0	29	96	0	107	41	22	17	18	1.90
579655--579759	50	2.1	50	89	3	158	39	10	5	44	1.63
579666--579761	50	1.9	50	93	4	167	39	8	5	46	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582233--582265	2	16.5	2	100	0	66	51	0	0	48	1.00
595162--595244	26	3.2	26	64	16	71	26	4	19	49	1.68
598301--598370	23	3.0	23	89	8	99	32	2	0	64	1.08
598387--598459	18	3.9	18	75	19	53	49	0	1	49	1.09
598782--598816	11	3.3	10	85	14	52	71	0	2	25	1.00
599845--599900	27	2.1	27	86	6	78	35	17	5	41	1.73
599953--600026	20	3.6	20	75	12	78	60	0	1	37	1.05
605124--605177	21	2.6	21	93	0	99	24	14	29	31	1.95
605210--605253	19	2.3	19	96	0	79	18	18	18	45	1.86
605342--605371	6	5.0	6	91	0	51	16	63	16	3	1.44
605859--605907	5	9.0	5	86	8	53	2	18	59	20	1.48
605861--605911	6	9.0	6	89	2	63	1	17	60	19	1.45
607005--607038	17	2.0	17	94	0	59	20	41	23	14	1.89
608569--608643	22	3.4	22	96	0	141	53	1	17	28	1.52
612540--612587	23	2.1	23	88	11	73	22	31	20	25	1.98
612540--612594	23	2.4	23	85	8	69	23	29	20	27	1.99
614703--614765	22	2.8	24	85	11	96	20	42	22	14	1.88
614807--614863	22	2.6	22	100	0	114	17	40	22	19	1.91
617982--618013	16	2.0	16	93	0	55	40	18	0	40	1.51
620151--620200	23	2.2	23	96	0	91	68	14	6	12	1.39
620411--620468	2	30.0	2	86	6	84	50	0	1	48	1.11
620409--620473	25	2.6	24	85	7	85	47	0	1	50	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626280--626341	31	2.2	28	83	13	74	29	29	24	17	1.97
627325--627379	29	1.9	28	82	10	67	54	0	10	34	1.36
628211--628284	3	25.0	3	78	13	82	35	1	1	62	1.12
633023--633790	105	7.4	105	90	4	1130	33	25	18	22	1.96
633023--633790	211	3.7	209	90	3	1137	33	25	18	22	1.96
633023--633790	316	2.5	313	90	2	1248	33	25	18	22	1.96
633549--633727	93	1.9	93	91	0	295	35	25	17	21	1.95
634707--634777	3	24.0	3	73	13	58	36	2	1	59	1.21
636932--636979	24	2.0	24	91	0	78	45	4	0	50	1.21
636954--637008	17	3.3	17	74	5	67	45	3	0	50	1.19
636944--637012	33	2.1	33	100	0	138	44	5	0	49	1.26
637434--637560	42	3.0	42	88	3	132	18	20	22	38	1.93
637459--637692	20	11.8	20	67	20	91	17	19	23	39	1.92
637482--637554	22	3.4	22	76	14	89	16	20	26	36	1.93
637462--637560	42	2.4	42	94	0	171	15	21	23	40	1.90
637596--637847	41	6.3	40	76	14	193	21	18	25	35	1.96
637640--637707	19	3.4	19	76	11	82	19	19	22	39	1.92
637755--637910	22	7.4	22	69	12	121	20	18	25	35	1.95
637596--637804	115	1.8	114	85	6	296	20	19	24	35	1.95
637734--637910	84	2.1	84	98	0	345	21	18	25	34	1.96
637749--637928	41	4.3	41	87	3	261	21	18	24	35	1.95
637860--637928	19	3.5	19	67	11	57	18	18	23	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638020--638055	6	6.0	6	100	0	72	33	50	16	0	1.46
638560--638602	6	7.2	6	100	0	86	0	16	48	34	1.46
638723--638815	20	4.6	20	83	2	132	39	23	22	13	1.90
638743--638886	41	3.4	41	79	11	173	35	24	21	18	1.96
638850--638890	21	2.0	21	85	0	55	34	31	17	17	1.93
639266--639309	17	2.6	17	100	0	88	54	0	4	40	1.21
644812--644877	30	2.2	29	81	5	78	42	10	7	39	1.68
644814--644871	30	1.9	30	85	0	80	43	10	6	39	1.66
644824--644880	30	1.9	30	89	3	89	42	8	8	40	1.67
645267--645291	11	2.3	11	100	0	50	32	8	24	36	1.84

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   40   41   42   43