genome.fa.s9639.2.7.7.80.10.50.1000.3.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  3  of  62  ( 7398 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)
403924--403964	20	2.0	21	85	4	57	80	2	14	2	0.92
408548--408597	23	2.2	22	79	10	55	18	28	2	52	1.56
410657--410699	22	2.0	22	85	0	59	44	9	2	44	1.49
411671--411705	3	12.0	3	87	6	54	31	0	0	68	0.90
411670--411704	17	2.0	18	94	5	63	28	0	0	71	0.86
412163--412189	14	1.9	14	100	0	54	85	0	14	0	0.61
419012--419079	32	2.2	30	87	7	100	52	22	0	25	1.47
419013--419066	16	3.4	16	89	0	90	51	24	0	24	1.48
419513--419705	101	1.9	104	87	5	286	30	20	10	38	1.87
419520--419748	102	2.3	100	82	8	259	31	20	11	36	1.88
420236--420279	15	2.9	15	93	0	70	31	20	4	43	1.72
421020--421062	3	14.3	3	81	18	54	32	0	0	67	0.91
422134--422164	15	2.1	15	93	0	53	22	12	6	58	1.58
424284--424309	2	13.0	2	100	0	52	50	0	0	50	1.00
424736--424778	16	2.8	15	82	13	52	39	0	0	60	0.97
425291--425333	22	2.0	22	100	0	86	65	0	4	30	1.13
427022--427078	25	2.3	25	87	6	80	43	3	19	33	1.68
428275--428365	31	2.9	31	96	0	173	18	2	36	42	1.63
431146--431201	2	28.0	2	100	0	112	50	0	0	50	1.00
437683--437724	21	2.0	21	95	0	75	23	23	21	30	1.99
456077--456116	21	1.9	21	89	0	62	10	25	40	25	1.86
456097--456148	23	2.3	23	80	6	72	17	21	40	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459960--459999	21	1.9	21	85	10	55	35	10	2	52	1.48
463098--463132	18	1.9	18	88	0	52	42	20	25	11	1.85
472911--473001	18	5.2	18	75	16	93	18	47	18	15	1.83
472933--472995	13	4.5	13	72	18	54	17	47	19	15	1.83
472969--473018	8	6.5	8	78	21	54	14	38	28	20	1.91
472915--472995	31	2.6	31	88	0	126	18	46	19	14	1.83
472985--473018	15	2.1	16	89	10	52	11	35	29	23	1.90
474805--475064	42	6.1	43	92	2	418	32	24	25	18	1.97
474805--475064	85	3.0	85	93	2	423	32	24	25	18	1.97
474805--475064	127	2.0	129	92	3	436	32	24	25	18	1.97
477854--477907	18	3.0	18	91	0	90	14	20	48	16	1.81
484406--484512	45	2.4	45	83	0	124	27	25	26	21	1.99
492027--492074	25	1.9	25	83	8	62	43	2	6	47	1.40
504366--504441	26	3.0	24	77	18	84	67	0	18	14	1.24
506199--506248	24	2.1	24	85	7	66	60	16	2	22	1.46
521061--521095	6	5.8	6	96	0	61	37	0	11	51	1.38
523185--523219	12	2.9	12	95	0	61	14	14	20	51	1.76
525363--525405	16	2.6	17	77	3	52	58	0	0	41	0.98
527807--527870	30	2.1	30	88	0	92	35	26	29	7	1.85
529975--530032	26	2.2	26	96	0	107	22	10	37	29	1.87
533388--533569	91	2.0	91	96	0	337	23	23	15	37	1.93
533249--533708	230	2.0	230	88	2	692	24	22	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533479--533847	139	2.7	140	89	3	609	24	22	17	36	1.95
533621--534071	230	2.0	230	92	1	753	24	21	16	37	1.93
533757--533938	91	2.0	91	92	0	301	25	21	14	38	1.91
533254--534064	369	2.2	369	93	0	1390	24	21	16	36	1.94
534730--535179	227	2.0	230	91	2	737	36	17	22	24	1.95
534954--535317	138	2.6	136	90	4	563	34	18	21	24	1.96
535228--535409	91	2.0	91	93	0	310	37	16	20	25	1.93
535090--535548	230	2.0	229	90	3	728	35	18	21	24	1.95
538073--538101	2	15.0	2	92	7	51	48	0	0	51	1.00
544339--544379	21	2.0	20	85	4	55	36	2	14	46	1.58
556621--556667	19	2.5	19	100	0	94	17	0	34	48	1.47
556631--556667	11	3.6	11	79	20	53	16	0	35	48	1.46
561976--562014	6	6.5	6	87	0	51	2	64	10	23	1.37
561976--562014	18	2.2	18	90	0	60	2	64	10	23	1.37
563286--563316	15	2.1	15	100	0	62	38	12	35	12	1.82
563305--563444	59	2.4	60	96	2	257	35	10	26	27	1.89
568010--568065	21	2.7	21	80	5	60	30	16	1	51	1.54
568027--568070	21	2.1	21	83	8	54	34	18	0	47	1.49
568282--568730	149	3.0	149	94	1	762	36	22	15	26	1.93
570070--570227	64	2.5	62	83	8	185	26	20	18	34	1.95
577346--577380	16	2.1	17	89	5	54	42	5	17	34	1.73
580624--581134	182	3.0	163	79	12	569	44	12	13	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580791--581289	182	2.7	181	89	1	766	43	12	15	28	1.83
581655--581699	19	2.4	19	92	3	74	42	0	20	37	1.52
583326--583984	198	3.3	195	82	5	736	40	14	14	30	1.86
583958--584001	20	2.2	20	100	0	88	36	4	20	38	1.73
585459--585869	171	2.5	166	86	4	558	44	8	9	37	1.67
593250--593340	45	2.0	45	93	0	155	39	14	7	38	1.75
600945--601056	43	2.6	43	88	5	174	8	11	21	58	1.60
601143--601186	19	2.2	19	84	8	52	47	4	0	47	1.22
611385--611426	13	3.5	13	81	12	54	33	2	0	64	1.07
612788--612869	30	2.8	28	74	16	67	39	4	7	48	1.52
620322--620411	34	2.7	33	91	3	144	31	17	20	31	1.96
620380--620547	79	2.1	80	82	4	198	31	22	18	27	1.97
620549--621088	111	4.9	111	89	0	767	31	23	16	28	1.96
621296--621333	3	12.7	3	89	10	60	34	0	0	65	0.93
621300--621336	13	2.9	13	96	4	67	35	0	0	64	0.94
622846--622882	2	18.5	2	100	0	74	51	0	0	48	1.00
626290--626360	23	3.2	22	88	5	99	23	28	29	18	1.98
626290--626370	23	3.7	22	85	4	92	23	29	27	19	1.98
627946--627984	18	2.2	18	85	0	51	35	30	25	7	1.84
629748--629781	16	2.1	17	94	5	61	44	23	0	32	1.54
648621--649280	182	3.8	164	85	5	585	43	12	14	28	1.83
648785--649280	182	2.7	180	89	3	760	42	12	15	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
649668--649712	19	2.4	19	92	3	74	42	0	20	37	1.52
649962--650002	18	2.4	17	83	4	55	48	2	9	39	1.49
651329--651983	197	3.3	194	82	6	732	40	14	14	29	1.87
653476--653815	170	2.0	167	88	3	497	44	7	10	37	1.68
675652--675690	15	2.5	15	83	4	51	30	23	7	38	1.83
678172--678214	16	2.6	17	92	7	79	20	4	6	67	1.33
679870--680472	6	101.8	6	82	9	650	33	4	16	45	1.67
693613--693703	45	2.0	45	89	4	139	38	7	14	39	1.75
696783--696833	24	2.2	23	86	10	68	27	7	1	62	1.33
703183--703215	3	11.0	3	100	0	66	33	0	0	66	0.92
704906--705003	28	3.5	28	68	12	74	38	4	12	44	1.61
704967--705066	28	3.5	28	73	11	87	37	1	12	50	1.46
711149--711205	23	2.8	19	73	19	60	50	17	12	19	1.77
712729--712753	12	2.1	12	100	0	50	60	0	0	40	0.97
714226--714285	9	6.8	9	83	7	52	83	1	1	13	0.80
714226--714286	31	2.0	31	83	0	77	81	1	1	14	0.84
714399--714463	2	33.0	2	85	3	87	44	1	1	52	1.19
715029--716038	165	6.1	162	84	5	1059	24	21	24	29	1.99
715007--715959	249	3.8	245	87	3	1200	24	21	24	29	1.99
715032--716038	414	2.4	414	92	0	1660	24	21	24	29	1.99
717131--717359	96	2.6	86	78	17	268	31	21	20	27	1.98
717179--717378	96	2.1	95	88	3	303	31	19	18	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
722188--722221	6	5.8	6	86	6	52	82	0	0	17	0.67
722170--722221	23	2.3	22	86	3	68	78	1	1	17	0.93
722220--722306	38	2.2	38	80	13	97	44	5	4	44	1.48
722332--722366	2	18.5	2	88	11	56	48	0	0	51	1.00
725219--725252	18	1.9	18	88	5	52	29	32	23	14	1.94
728966--729043	37	2.1	38	88	4	115	46	1	1	51	1.17
729424--729449	11	2.4	11	100	0	52	23	23	7	46	1.78
740395--740450	6	9.0	6	77	13	51	19	19	19	41	1.91
740395--740450	13	4.5	13	77	8	62	19	19	19	41	1.91
740396--740443	24	2.0	25	83	4	62	20	20	20	37	1.95

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62