genome.fa.s2647.2.7.7.80.10.50.1000.4.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

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   

This is table  4  of  26  ( 3011 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)
540098--540146	10	4.6	11	76	23	52	12	18	0	69	1.19
540878--540912	14	2.5	14	100	0	70	42	11	31	14	1.81
541561--541607	22	2.2	22	85	7	62	42	17	23	17	1.88
542792--543398	54	11.3	54	86	1	808	30	18	19	31	1.95
545197--545239	22	2.0	22	86	9	61	44	20	23	11	1.84
548289--548326	19	2.0	19	89	0	58	28	0	13	57	1.36
548377--548414	16	2.5	16	87	8	53	55	2	5	36	1.37
548948--549002	2	28.0	2	96	3	103	49	0	0	50	1.00
555355--555409	17	3.2	18	76	21	55	65	3	0	30	1.10
557753--557852	30	3.3	30	72	9	87	23	18	19	40	1.92
557753--557882	60	2.2	59	85	2	170	23	17	19	40	1.92
557766--557892	30	4.2	30	75	0	128	18	17	23	40	1.91
559769--559813	21	2.1	21	91	0	72	57	8	17	15	1.63
560493--560524	16	1.9	17	93	6	57	25	34	9	31	1.87
561447--561478	16	2.1	16	94	5	57	43	6	6	43	1.54
563287--563313	2	13.5	2	100	0	54	51	0	0	48	1.00
565618--565650	13	2.6	13	90	4	50	66	0	3	30	1.06
568257--568299	21	2.0	21	82	8	52	55	2	18	23	1.54
571183--571225	12	3.6	12	80	0	50	39	2	41	16	1.61
571171--571225	24	2.3	24	84	6	67	41	3	36	18	1.68
572702--572750	20	2.5	20	100	0	98	46	8	6	38	1.58
574222--574349	53	2.4	53	96	0	229	29	24	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576949--577397	54	8.3	54	90	1	630	31	14	18	35	1.91
586401--586849	54	8.3	54	84	3	553	33	12	16	36	1.87
588733--588854	31	3.9	31	75	12	92	27	26	26	20	1.99
588731--588824	32	3.0	32	79	4	102	27	25	25	21	1.99
588731--588854	63	2.0	63	84	6	162	27	26	25	20	1.99
589741--589896	28	5.6	26	80	10	118	47	16	3	32	1.64
589763--589901	28	4.9	28	79	7	147	45	17	3	33	1.66
589747--589901	56	2.7	57	78	7	156	45	17	3	32	1.66
590454--590492	7	5.7	7	96	3	71	43	0	46	10	1.37
596094--596217	63	2.0	63	82	6	153	27	27	27	17	1.98
597104--597257	29	5.5	26	75	16	123	48	14	3	33	1.63
597104--597262	27	5.7	28	76	10	146	47	15	3	32	1.63
603523--603599	31	2.5	31	78	2	82	28	28	25	16	1.97
604485--604618	29	4.7	29	78	9	132	45	19	2	32	1.65
605053--605182	7	18.7	7	97	0	244	42	0	44	13	1.43
605321--605345	10	2.5	10	100	0	50	36	36	0	28	1.58
616159--616243	43	2.0	43	95	0	152	41	3	18	36	1.68
619799--619867	24	2.9	23	79	10	77	31	26	21	20	1.98
619847--619927	24	3.4	24	74	5	67	33	19	22	24	1.97
620033--620083	15	3.4	15	77	0	66	41	25	9	23	1.85
625664--625773	24	4.6	24	85	6	109	37	19	15	28	1.92
625690--625794	47	2.2	48	83	8	126	38	22	15	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
625690--625794	24	4.4	23	82	7	104	38	22	15	23	1.92
625928--625965	15	2.5	15	87	8	51	47	23	2	26	1.65
627613--627915	49	6.1	49	73	5	243	34	13	22	28	1.93
634313--634355	21	2.0	21	86	4	59	25	0	13	60	1.34
634434--634686	50	5.1	49	75	6	244	34	11	23	30	1.90
634416--634686	98	2.8	96	87	4	382	35	11	22	30	1.90
651565--651611	18	2.6	18	82	3	58	59	4	12	23	1.51
655261--655291	5	6.2	5	100	0	62	80	0	0	19	0.71
656419--656466	21	2.2	21	81	7	51	29	6	16	47	1.71
657513--657537	2	12.5	2	100	0	50	52	0	0	48	1.00
666320--666582	19	13.6	19	77	10	232	29	15	31	24	1.95
666329--666634	156	2.0	156	94	1	542	30	15	28	24	1.96
676188--676234	13	3.5	14	80	8	53	44	0	12	42	1.42
676179--676233	27	2.1	26	86	3	74	47	0	14	38	1.45
680466--680521	27	2.1	26	83	3	67	46	0	14	39	1.44
680466--680521	13	4.2	13	77	8	51	46	0	14	39	1.44
681436--681473	18	2.1	18	100	0	76	42	10	10	36	1.74
681440--681478	18	2.2	18	90	4	62	43	12	7	35	1.72
681742--681847	51	2.1	51	91	3	169	42	15	8	33	1.77
682734--682789	18	3.1	18	76	2	67	42	8	0	48	1.34
682798--682936	30	4.7	29	76	13	124	35	7	2	54	1.40
682776--682936	30	5.5	28	75	12	121	38	7	2	51	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
682820--682936	30	4.0	29	79	13	132	37	6	2	52	1.42
682957--683022	31	2.2	30	83	5	80	48	0	7	43	1.31
682967--683034	31	2.2	31	84	7	95	47	0	10	42	1.37
683412--683500	29	2.8	31	80	8	83	42	11	12	33	1.78
684023--684051	13	2.2	13	100	0	58	34	0	6	58	1.25
688991--689036	12	3.8	12	97	0	74	8	17	36	36	1.81
689432--689471	20	2.0	21	85	5	55	27	2	2	67	1.16
691781--692406	46	13.6	46	89	0	838	42	14	20	23	1.88
694145--694178	12	2.8	12	90	0	50	55	29	0	14	1.40
696875--696945	20	3.5	20	88	0	88	40	19	19	19	1.91
696966--697047	29	2.8	29	92	0	146	28	26	19	25	1.99
698486--698603	21	5.6	21	86	0	164	22	18	36	22	1.95
700719--700771	20	2.7	20	84	0	79	52	20	18	7	1.69
700788--700826	20	2.0	20	94	0	69	15	10	20	53	1.70
704104--704258	56	2.8	56	91	2	233	36	9	17	36	1.83
704409--705386	81	12.1	81	88	0	1357	35	10	21	32	1.88
708196--708719	46	11.4	46	87	1	656	42	12	18	25	1.86
708650--708729	23	3.4	25	73	15	89	47	11	15	26	1.78
710492--710538	17	2.7	18	74	12	53	23	12	36	27	1.91
718494--718520	12	2.2	12	100	0	54	85	0	0	14	0.61
718494--718528	12	3.0	11	91	8	52	80	2	0	17	0.84
718640--718664	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
718656--718699	17	2.6	16	86	13	54	59	4	4	31	1.38
723151--723194	14	3.1	14	100	0	88	36	6	13	43	1.71
729680--729705	12	2.2	12	100	0	52	15	0	0	84	0.62
734652--734797	56	2.6	56	98	0	283	26	12	17	43	1.85
736688--736733	14	3.1	15	76	20	51	43	4	17	34	1.69
739791--739894	31	3.2	31	70	15	102	37	24	19	19	1.94
742960--743002	20	2.2	20	91	0	68	32	13	20	32	1.92
749403--749522	31	3.7	31	71	14	100	35	22	20	21	1.96
749430--749529	31	3.0	34	72	21	102	36	22	23	19	1.95
749403--749529	66	1.9	66	91	0	209	34	22	22	21	1.97
755000--755044	22	2.0	22	82	0	54	73	2	4	20	1.11
759687--759731	23	1.9	23	86	4	63	28	11	2	57	1.45
775307--775504	40	5.0	40	84	1	227	24	14	22	39	1.91
775306--775499	60	3.3	59	86	2	253	24	14	21	39	1.91
775306--775507	20	10.1	20	80	3	201	24	14	21	39	1.91
777205--777282	23	3.3	25	76	15	78	38	1	2	57	1.20
790084--790137	20	2.6	20	80	16	65	16	20	18	44	1.87
790084--790137	21	2.7	20	78	21	58	16	20	18	44	1.87
795099--795145	25	1.9	25	86	4	69	31	6	8	53	1.57
814754--814882	59	2.2	59	84	0	168	31	25	17	26	1.97
821597--821726	59	2.2	59	88	0	188	30	26	16	27	1.96
847795--847856	20	3.2	19	88	4	90	46	3	16	33	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
868481--868519	20	2.0	20	89	0	60	46	5	20	28	1.72
873061--873106	18	2.6	18	83	10	67	13	10	13	63	1.53
878249--878295	13	3.5	13	77	13	51	55	2	2	40	1.24
879669--879741	3	24.7	3	90	2	112	61	0	0	38	0.96
880063--880702	113	5.7	114	94	1	1064	29	19	12	38	1.89
881450--881993	83	6.6	83	98	0	1052	38	24	12	24	1.89
883146--883197	10	5.0	10	84	9	68	0	15	0	84	0.62
883146--883197	21	2.5	20	90	6	77	0	15	0	84	0.62
883145--883200	26	2.1	26	83	9	69	0	17	0	82	0.68
895853--895952	3	33.7	3	90	2	157	62	0	1	37	1.02

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