genome.fa.s2890.2.7.7.80.10.50.1000.3.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  3  of  21  ( 2516 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)
614502--614844	138	2.5	138	85	1	447	22	21	14	41	1.89
615249--615410	75	2.2	75	90	0	252	27	20	11	41	1.86
619489--619538	24	2.2	24	85	7	68	14	2	32	52	1.53
619703--619759	27	2.1	27	90	0	87	26	33	19	21	1.97
626422--626478	20	2.8	20	86	5	80	26	15	24	33	1.95
629668--629699	16	2.0	16	93	0	55	40	6	9	43	1.62
636303--636336	16	2.1	16	88	0	50	29	2	2	64	1.22
637234--637258	2	12.5	2	100	0	50	48	0	0	52	1.00
637235--637937	146	4.9	146	85	6	904	43	14	3	37	1.65
637234--639649	298	8.0	295	73	16	1778	42	15	4	37	1.67
637244--637937	150	4.9	135	85	7	757	43	14	4	37	1.65
637393--637924	280	1.9	274	88	2	803	43	15	3	37	1.65
637810--637834	2	12.5	2	100	0	50	52	0	0	48	1.00
637912--637993	28	2.9	28	98	0	155	36	28	9	25	1.88
637772--638139	202	1.8	196	84	3	493	40	17	6	35	1.76
638152--638180	2	14.5	2	100	0	58	51	0	0	48	1.00
637968--638939	154	6.3	154	79	10	1005	43	14	4	37	1.66
638448--638473	2	13.0	2	100	0	52	50	0	0	50	1.00
638162--639649	144	10.0	144	78	12	1397	43	14	4	37	1.66
638746--638795	2	25.0	2	100	0	100	50	0	0	50	1.00
637968--639649	296	5.6	292	83	8	2039	42	15	4	37	1.67
639060--639087	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639351--639377	2	13.5	2	100	0	54	51	0	0	48	1.00
639497--639526	2	15.0	2	100	0	60	50	0	0	50	1.00
639648--639675	2	14.0	2	100	0	56	50	50	0	0	1.00
639369--639684	152	2.1	153	83	1	409	43	18	4	33	1.71
639948--640010	32	2.0	32	87	0	90	25	19	22	33	1.97
641157--641187	14	2.1	15	94	5	55	61	0	0	38	0.96
643947--644023	35	2.2	35	85	0	109	41	0	16	41	1.49
645382--645413	2	16.5	2	93	6	57	50	0	0	50	1.00
651009--651185	90	2.0	89	94	1	309	38	10	6	44	1.64
652020--652562	272	2.0	268	96	1	987	33	15	14	36	1.88
655907--655948	2	21.0	2	100	0	84	50	0	0	50	1.00
671800--671871	36	2.0	36	88	0	108	20	20	8	50	1.74
673301--673343	22	2.0	22	90	9	70	23	2	32	41	1.67
678712--679452	54	13.9	54	84	4	844	27	16	20	35	1.94
679011--679093	27	3.1	27	61	19	64	28	19	21	30	1.98
695296--695341	20	2.3	20	96	0	83	50	13	6	30	1.66
704164--704211	20	2.4	20	82	0	60	31	14	8	45	1.74
704535--704587	14	3.9	14	92	2	90	22	45	0	32	1.53
708235--708272	19	2.0	20	84	5	51	23	0	28	47	1.52
708456--708612	41	3.8	41	72	11	140	31	16	22	29	1.96
708462--708644	83	2.2	81	85	7	244	30	15	22	31	1.95
708517--708644	41	3.1	39	72	16	116	30	17	21	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
708462--708644	82	2.2	82	85	7	246	30	15	22	31	1.95
708842--709221	82	4.7	80	75	8	309	32	17	17	33	1.93
708842--709052	41	5.1	43	67	18	142	32	17	17	32	1.93
708807--709221	164	2.5	162	78	8	428	31	17	18	32	1.94
716907--717008	21	4.9	21	83	0	96	41	17	32	8	1.80
716932--717011	42	1.9	42	86	0	115	42	16	33	7	1.76
717434--717591	85	1.9	85	86	2	228	37	23	18	20	1.94
717418--717667	43	5.9	42	75	9	175	38	24	15	21	1.92
717641--717788	43	3.5	42	86	5	199	34	24	12	28	1.92
717510--717800	130	2.2	129	79	7	288	36	23	13	26	1.92
717621--717807	86	2.2	86	80	5	218	33	22	12	31	1.92
721759--721838	40	2.0	40	92	0	133	27	16	18	37	1.92
724435--724800	149	2.5	150	83	3	445	30	18	12	38	1.88
724535--724800	99	2.7	100	85	3	322	30	16	12	40	1.86
724435--724800	50	7.4	50	78	5	357	30	18	12	38	1.88
724771--724828	29	2.0	29	86	0	80	31	18	10	39	1.85
724721--724868	79	1.9	79	84	2	199	29	15	12	42	1.84
724800--724960	50	3.2	50	79	6	173	27	17	18	37	1.93
725610--725644	13	2.7	13	90	0	61	25	20	0	54	1.45
725677--725750	37	2.0	37	83	0	94	29	14	10	44	1.80
725677--725752	19	4.1	19	81	3	91	30	15	10	43	1.81
731871--731930	13	4.7	13	79	4	68	23	25	0	51	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
731871--731947	25	2.9	25	84	11	84	23	24	1	50	1.57
733509--734887	713	1.9	713	97	0	2598	36	19	10	33	1.86
735421--735499	29	2.6	31	74	6	81	30	21	6	41	1.78
737461--737576	60	2.0	58	83	6	144	24	25	24	26	2.00
739963--740001	19	2.1	19	85	0	51	58	7	0	33	1.26
742114--742171	27	2.2	28	81	9	68	60	6	0	32	1.23
742268--742300	16	2.0	17	88	5	50	60	0	0	39	0.97
746536--746582	21	2.2	21	96	0	85	34	29	12	23	1.92
748640--748669	6	5.0	6	100	0	60	16	16	16	50	1.79
752759--752855	42	2.3	41	80	1	113	25	22	22	28	1.99
753094--753146	20	2.7	20	90	0	88	22	26	22	28	1.99
752969--753244	142	1.9	142	91	0	453	30	19	20	28	1.97
753216--753294	42	1.9	41	84	2	104	24	18	21	35	1.96
753669--753977	53	5.9	53	88	1	437	30	21	26	21	1.98
753669--754033	105	3.5	105	86	3	450	30	20	26	23	1.98
753669--753977	158	2.0	156	88	1	456	30	21	26	21	1.98
753669--754033	53	6.9	53	85	2	434	30	20	26	23	1.98
753669--754024	158	2.3	156	85	2	453	30	19	26	23	1.98
757633--757690	23	2.5	23	82	2	71	15	8	15	60	1.58
757637--757739	33	3.1	32	72	5	89	16	6	17	59	1.58
760166--760195	2	15.0	2	100	0	60	50	0	0	50	1.00
763934--763988	19	2.9	19	88	0	74	30	20	29	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
765292--765335	13	3.5	13	84	6	54	15	9	2	72	1.19
768490--768736	123	2.0	123	90	6	389	21	7	9	61	1.52
768635--768690	23	2.5	22	82	2	67	21	5	1	71	1.15
768626--768691	8	8.2	8	72	11	55	22	4	1	71	1.13
785659--785735	32	2.5	31	78	2	82	51	15	15	16	1.76
788205--788230	2	13.0	2	100	0	52	50	0	0	50	1.00
792435--792486	22	2.4	22	96	0	95	28	11	19	40	1.86
798414--798448	18	1.9	18	88	0	52	34	5	11	48	1.63
798532--798613	41	2.0	41	85	0	110	26	18	14	40	1.89
806171--806425	130	2.0	130	82	4	309	30	16	14	39	1.88
806381--808075	200	8.5	200	84	2	1955	33	12	13	39	1.83
806381--808095	399	4.3	399	84	3	1983	33	12	13	40	1.83
811141--811203	22	2.9	22	85	0	90	23	28	23	23	2.00
811177--811245	32	2.2	32	89	0	102	27	28	18	24	1.98
813830--813912	40	2.0	40	83	2	103	31	20	9	38	1.85
817699--817742	22	2.0	22	100	0	88	40	0	4	54	1.21
817737--817830	32	2.9	33	74	13	81	48	0	1	50	1.07
817808--817853	17	2.7	18	77	12	53	45	0	2	52	1.13
818431--818864	201	2.2	196	82	4	541	30	16	12	40	1.86
818824--818900	20	3.8	20	78	0	73	27	15	14	42	1.85
820422--820458	19	1.9	19	89	10	58	45	5	0	48	1.25
827821--827933	21	5.5	21	72	4	113	21	18	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
827815--828021	41	5.0	41	94	3	296	20	19	22	37	1.95
827840--827953	20	5.6	20	73	4	111	17	21	23	37	1.94
827815--828064	41	6.0	41	90	6	282	20	19	22	37	1.94
828658--828708	6	9.2	6	89	6	65	0	17	49	33	1.47
828792--828857	19	3.3	19	72	12	69	40	21	19	18	1.91
828807--828878	22	3.4	22	73	11	87	37	25	19	18	1.94
828792--828878	41	2.1	41	100	0	174	39	22	19	18	1.93
828867--828907	21	2.0	21	100	0	82	26	29	14	29	1.95
830883--831154	138	2.0	137	81	3	323	41	15	13	29	1.86
848554--848587	17	2.0	17	100	0	68	35	17	11	35	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21