genome.fa.s9634.2.7.7.80.10.50.1000.2.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  2  of  78  ( 9351 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)
281999--282195	97	2.0	97	92	0	322	35	23	11	29	1.90
282003--282220	97	2.2	97	88	0	319	34	22	11	31	1.90
282587--282671	32	2.7	32	94	0	143	15	7	28	49	1.70
283302--283349	12	3.7	13	80	8	53	4	14	4	77	1.08
289153--289186	16	2.1	17	88	5	52	52	5	2	38	1.41
290580--290632	10	5.1	11	73	17	51	60	1	1	35	1.19
293502--293543	2	21.0	2	90	0	57	47	0	0	52	1.00
293584--293679	17	5.9	16	66	26	51	65	4	1	29	1.18
293585--293676	39	2.6	34	76	21	98	65	4	1	29	1.19
295263--295466	106	1.9	105	91	3	329	22	19	25	32	1.97
295381--295539	65	2.5	66	86	4	209	20	19	26	33	1.96
295275--295638	171	2.2	164	88	5	518	21	19	26	32	1.97
295480--295736	99	2.6	98	89	1	390	21	19	26	33	1.96
295310--296000	262	2.6	263	85	7	894	22	19	26	32	1.97
295676--295801	65	1.9	67	86	3	184	19	19	26	34	1.96
295746--296198	99	4.5	99	87	6	571	23	18	25	33	1.97
295444--296413	470	2.1	471	91	2	1581	22	18	25	33	1.96
296176--296413	105	2.3	103	90	5	361	21	18	24	34	1.96
307529--307585	29	2.0	28	82	3	69	66	12	8	12	1.44
310885--310931	17	2.6	19	76	6	53	44	29	6	19	1.75
316210--316251	21	2.0	20	82	13	50	19	7	16	57	1.62
324292--324367	2	38.0	2	100	0	152	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)
326795--326839	7	5.8	8	84	10	58	80	0	8	11	0.92
326810--326861	1	52.0	1	84	0	59	90	0	3	5	0.55
326784--326861	31	2.6	30	85	2	102	85	0	7	6	0.73
328187--328902	53	13.5	52	90	4	1051	31	18	25	24	1.98
328187--328902	160	4.5	159	90	3	1081	31	18	25	24	1.98
328187--328902	107	6.8	106	90	2	1088	31	18	25	24	1.98
333118--333210	21	4.5	21	82	8	86	22	34	26	16	1.95
333118--333240	41	3.0	42	84	8	139	20	34	26	18	1.95
333118--333239	20	6.1	20	79	8	115	20	35	26	18	1.95
334510--334557	19	2.5	20	82	3	62	52	6	12	29	1.63
335979--336061	21	4.0	21	83	0	112	19	39	28	12	1.87
335979--336060	42	2.0	42	97	0	155	19	39	29	12	1.88
338294--338812	59	8.8	59	88	2	753	31	19	14	33	1.93
339157--339359	95	2.1	94	82	4	248	29	22	16	32	1.95
339232--339290	22	2.8	21	82	10	75	32	20	13	33	1.91
345585--346060	59	8.1	59	91	2	753	31	20	15	32	1.93
345566--346060	235	2.1	236	90	1	780	32	20	15	32	1.94
346470--346594	20	6.5	20	68	15	75	28	22	15	33	1.94
346395--346598	95	2.1	95	80	5	225	29	23	14	33	1.94
347433--347468	18	2.0	18	94	0	63	25	22	16	36	1.94
350350--350416	35	1.9	35	81	6	82	53	2	0	43	1.16
356508--356568	32	1.9	32	86	0	86	55	31	4	8	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356614--356660	17	3.0	15	82	14	51	57	19	6	17	1.60
357621--357653	16	2.1	16	94	0	57	42	33	6	18	1.75
362501--362718	109	2.0	109	100	0	436	36	15	11	35	1.85
365791--365859	31	2.3	31	94	2	122	34	17	14	33	1.90
374184--374272	8	10.5	8	79	11	54	40	2	2	55	1.25
374184--374225	15	2.7	15	82	13	50	35	0	2	61	1.09
374196--374276	2	40.5	2	78	14	87	41	2	2	53	1.27
374556--375121	107	5.3	108	87	5	749	22	24	19	34	1.96
374556--375121	54	10.6	54	87	4	729	22	24	19	34	1.96
376401--376463	15	4.3	15	85	4	65	0	12	1	85	0.66
376414--376462	1	49.0	1	83	0	62	0	6	2	91	0.47
376411--376462	11	4.7	11	88	11	72	0	7	1	90	0.53
376399--376463	6	11.3	6	88	8	68	0	13	1	84	0.69
385922--385995	25	3.0	25	89	0	121	33	29	8	28	1.86
386698--386746	19	2.6	19	78	12	57	24	2	24	48	1.61
386756--386841	14	6.3	13	74	15	59	24	1	26	47	1.59
386726--386780	21	2.7	21	77	11	60	23	1	25	49	1.60
387039--387090	27	1.9	27	92	0	86	44	5	3	46	1.45
391101--391198	48	2.0	48	100	0	196	36	25	6	31	1.81
391297--391462	58	2.8	58	77	9	165	41	4	21	32	1.74
391292--391470	60	3.0	58	79	7	184	40	4	21	32	1.73
394208--394256	25	2.0	25	87	0	71	32	12	28	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399322--399497	57	2.9	58	78	13	167	29	21	19	28	1.98
407646--407805	64	2.5	64	84	4	207	29	24	18	27	1.98
409532--409561	14	2.1	14	93	0	51	13	20	30	36	1.90
409562--409618	29	2.0	29	89	0	87	29	3	22	43	1.70
409561--409640	29	2.8	29	80	1	81	26	6	22	45	1.76
410325--410375	24	2.1	24	88	0	75	29	9	19	41	1.84
411135--411316	87	2.1	87	88	6	282	20	25	25	28	1.99
412129--412274	79	1.8	79	92	5	251	47	13	11	27	1.76
412438--412468	2	15.5	2	93	0	53	48	0	3	48	1.17
415798--415917	44	2.7	44	80	5	136	26	20	22	30	1.98
421963--422118	52	3.0	52	97	0	294	43	16	7	32	1.75
423175--423309	42	3.3	41	79	9	132	28	23	16	31	1.96
423157--423309	42	3.7	40	75	15	118	29	22	16	31	1.96
425005--425054	10	5.1	10	74	13	50	22	4	0	74	0.99
425002--425047	18	2.6	18	78	0	56	23	4	0	71	1.03
425550--425580	13	2.4	13	100	0	62	16	54	22	6	1.64
429035--429552	179	2.9	181	91	3	840	27	21	21	29	1.98
430891--430963	37	1.9	38	83	2	94	27	20	13	38	1.90
430868--431179	104	3.1	100	87	7	443	30	20	11	36	1.89
431084--431153	34	2.1	34	86	5	97	24	20	17	38	1.93
431345--431954	102	6.0	105	85	9	770	34	25	18	21	1.96
433482--433555	24	3.0	24	76	13	62	12	13	4	70	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440814--441022	104	2.0	104	93	3	359	29	29	21	20	1.98
441738--441771	9	3.9	9	84	7	52	61	2	0	35	1.11
441734--441772	17	2.4	17	95	4	71	61	5	0	33	1.18
441807--441854	20	2.4	19	83	10	60	47	0	27	25	1.52
443890--443916	3	9.0	3	100	0	54	66	0	0	33	0.92
444235--444452	89	2.4	89	93	3	384	34	22	17	25	1.95
444445--444872	39	11.2	39	86	3	546	36	15	17	29	1.92
444446--444872	153	2.8	153	85	5	540	37	15	18	29	1.92
444870--445068	68	3.1	65	77	12	185	39	11	18	31	1.85
444902--445068	33	5.1	31	69	15	95	40	10	16	32	1.83
445067--445101	14	2.6	13	91	8	61	0	17	0	82	0.66
445714--445843	7	18.7	7	70	16	67	20	1	30	47	1.59
445714--445843	14	9.4	14	72	9	97	20	1	30	47	1.59
448442--448529	23	3.8	23	82	8	97	25	21	23	29	1.99
448465--448530	24	2.8	24	95	2	116	21	21	24	33	1.97
448555--448629	31	2.5	31	95	4	136	21	16	18	44	1.87
452707--452767	3	20.7	3	86	9	90	36	1	0	62	1.05
469382--469450	23	3.0	23	89	0	102	34	24	23	17	1.96
470941--471003	20	2.9	20	77	15	63	23	26	19	30	1.98
470941--471005	24	2.9	22	80	13	71	24	26	18	30	1.98
473611--473673	23	2.7	23	78	9	74	31	23	25	19	1.98
474057--474096	2	21.5	2	85	14	59	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481818--481876	2	31.5	2	86	13	90	54	0	0	45	0.99
481973--482026	27	2.0	28	89	7	85	38	3	5	51	1.43
481999--482288	34	8.4	34	77	14	247	44	3	6	45	1.45
482000--482236	71	3.4	70	84	8	308	44	4	5	45	1.47
482000--482260	35	7.6	36	79	16	261	45	3	5	44	1.45
482280--482330	25	2.0	25	84	0	66	31	0	0	68	0.90
482289--482336	10	5.0	9	83	14	60	27	0	0	72	0.84
482290--482336	15	3.2	14	77	19	51	25	0	0	74	0.82
483575--483606	15	2.1	15	94	0	55	15	0	3	81	0.82
485643--486416	262	3.0	261	86	4	1052	28	12	14	44	1.82

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78