genome.fa.s9185.2.7.7.80.10.50.1000.2.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: VEPZ01009185.1 Hibiscus syriacus cultivar Beakdansim tig00112758_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  682201

Tables:   1   2   3   

This is table  2  of  3  ( 274 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)
306518--306570	27	2.0	27	84	0	70	43	0	1	54	1.11
308232--308287	25	2.2	25	96	0	103	28	14	35	21	1.92
308412--308448	15	2.5	15	95	0	65	8	70	16	5	1.30
310178--310240	29	2.1	29	85	8	83	47	3	11	38	1.55
313112--313163	25	2.1	25	100	0	104	30	19	21	28	1.97
317126--317197	36	2.1	34	87	10	103	25	16	20	37	1.93
320961--321043	18	4.3	20	79	10	102	26	30	20	22	1.98
321675--321761	19	4.6	19	98	0	156	20	31	19	28	1.97
321682--321754	11	7.5	11	70	25	65	21	31	17	28	1.97
327725--327797	18	3.9	18	80	7	92	27	28	21	21	1.99
329722--329772	20	2.5	20	93	0	84	21	15	11	50	1.76
330993--331063	17	3.8	17	74	20	61	43	1	0	54	1.08
334685--334714	14	2.1	14	93	0	51	50	6	0	43	1.28
334978--335120	14	10.3	14	73	13	84	25	0	28	46	1.53
334985--335120	21	6.6	20	66	16	64	25	0	28	46	1.53
334978--335120	7	20.6	7	73	7	58	25	0	28	46	1.53
336482--336524	11	3.8	11	75	6	50	32	16	25	25	1.96
336529--336647	23	5.2	23	88	3	177	21	9	21	47	1.78
336505--336647	69	2.1	69	84	5	182	22	9	22	45	1.81
336656--336687	16	2.0	16	93	0	55	12	15	25	46	1.81
340230--340274	23	2.0	23	90	0	72	24	26	26	22	2.00
340242--340556	149	2.1	149	94	2	553	34	20	16	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
341953--342111	63	2.5	63	85	2	194	27	22	18	31	1.97
342077--342116	19	2.0	21	90	9	66	30	27	12	30	1.93
349225--349306	34	2.4	33	95	4	146	41	0	25	32	1.56
349235--349292	18	3.3	18	63	18	50	41	0	20	37	1.53
354722--354795	23	3.2	23	84	1	76	24	8	16	51	1.71
354751--354796	24	2.0	23	91	4	74	23	8	17	50	1.74
354855--354903	22	2.2	22	82	7	55	20	6	16	57	1.60
354867--354908	22	1.9	22	90	0	66	14	7	19	59	1.57
355126--355181	22	2.5	22	97	0	103	37	19	17	25	1.94
369368--369825	227	2.0	228	99	0	900	25	15	17	41	1.88
379267--379319	20	2.9	18	81	13	56	45	1	0	52	1.11
379816--379849	17	2.0	17	100	0	68	47	17	11	23	1.81
389695--389765	31	2.3	31	83	7	83	30	14	26	28	1.95
393109--393166	18	3.2	18	80	4	64	20	24	25	29	1.99
393646--393696	17	2.9	17	88	2	57	50	21	3	23	1.65
393956--394097	31	4.6	31	94	0	212	40	21	18	19	1.92
393942--394096	62	2.5	63	90	2	242	39	21	18	21	1.93
398434--398589	31	5.0	31	94	1	260	38	23	18	19	1.93
400937--401042	51	2.1	51	94	0	185	34	5	12	47	1.65
404077--404124	19	2.6	19	80	6	55	60	4	2	33	1.27
407315--407354	20	2.0	21	90	5	64	47	0	0	52	1.00
411518--411556	2	19.5	2	100	0	78	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
416731--416766	18	1.9	18	88	5	54	0	11	11	77	0.99
416731--416767	20	1.9	20	88	5	58	0	10	10	78	0.97
419767--419834	28	2.3	29	87	7	93	19	11	19	50	1.78
425946--425995	20	2.5	20	83	0	64	26	22	18	34	1.96
437120--437345	86	2.7	84	82	7	268	34	17	15	31	1.91
437280--437460	76	2.4	76	89	0	272	37	19	16	26	1.93
437937--437962	10	2.6	10	100	0	52	53	0	0	46	1.00
441818--441856	18	2.2	18	100	0	78	53	12	17	15	1.72
450872--451168	149	2.0	149	98	0	576	26	16	20	36	1.94
451145--451190	23	2.0	23	91	0	74	21	23	26	28	1.99
451220--451253	17	2.1	17	88	5	52	32	23	11	32	1.91
455957--456271	149	2.1	149	98	1	605	26	18	21	33	1.96
456239--456283	23	2.0	23	90	0	72	22	26	26	24	2.00
456313--456346	17	2.1	17	88	5	52	32	23	11	32	1.91
464004--464086	41	2.0	41	100	0	166	26	9	16	46	1.78
466771--466837	32	2.1	32	97	0	125	19	23	7	49	1.74
469622--469662	19	2.1	20	86	4	57	39	0	2	58	1.11
470419--470447	9	3.2	9	100	0	58	48	20	10	20	1.79
470458--470851	187	2.1	187	92	2	650	44	8	3	43	1.49
472661--472689	2	14.5	2	100	0	58	48	0	0	51	1.00
476733--476778	24	1.9	24	86	0	65	34	8	8	47	1.65
483023--483047	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)
483140--483170	2	15.5	2	100	0	62	51	0	0	48	1.00
484062--484136	30	2.5	30	80	6	82	74	4	4	17	1.12
484748--484816	18	3.8	18	72	9	52	68	1	8	21	1.25
484866--484915	23	2.2	22	86	10	66	60	4	2	34	1.27
486352--486393	20	2.1	20	95	0	75	35	16	21	26	1.94
486453--487388	105	8.9	105	96	1	1675	22	18	24	34	1.96
492744--492843	50	2.0	50	100	0	200	30	22	24	24	1.99
492765--492845	27	3.1	27	58	13	62	29	20	22	27	1.99
498789--498816	2	14.0	2	100	0	56	50	0	0	50	1.00
499307--499375	18	3.8	18	72	9	52	68	1	8	21	1.25
499429--499471	3	13.3	3	90	4	50	62	2	0	34	1.08
499408--499485	18	4.5	17	74	17	63	58	5	1	34	1.28
501681--501720	19	2.0	20	85	4	55	40	0	2	57	1.12
501705--501774	31	2.4	29	81	9	81	35	2	4	57	1.33
514020--514080	22	2.8	22	74	0	68	34	24	19	21	1.96
528665--528767	30	3.4	30	91	2	145	31	26	21	21	1.98
528668--528792	30	4.1	30	88	2	144	32	26	21	20	1.98
528668--528817	31	4.9	31	85	3	110	34	24	20	20	1.97
529346--529388	20	2.1	21	87	8	63	32	11	6	48	1.66
529352--529398	20	2.2	20	85	7	58	36	12	6	44	1.68
529816--529860	21	2.1	21	83	0	54	15	22	28	33	1.95
532656--532707	20	2.5	21	81	12	63	34	13	5	46	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533122--533166	21	2.1	21	83	0	54	15	22	28	33	1.95
549500--549656	78	2.0	79	98	1	307	39	15	14	31	1.87
555397--555513	46	2.5	48	87	5	161	18	26	14	40	1.89
555377--555513	46	2.9	46	83	9	152	19	23	13	43	1.86
558265--558302	19	2.0	19	94	0	67	26	18	36	18	1.94
561764--561789	9	2.9	9	100	0	52	92	0	7	0	0.39
567596--567648	19	2.5	22	79	11	67	24	22	16	35	1.95
583511--583600	32	2.9	30	82	6	99	33	20	20	26	1.97
590448--590480	16	2.0	17	88	5	50	72	0	6	21	1.05
591496--591526	14	2.2	14	100	0	62	74	0	0	25	0.82
592764--592805	15	3.1	14	80	19	54	66	0	0	33	0.92
592764--592811	15	3.5	15	81	16	52	62	0	2	35	1.07
592844--593056	73	2.9	72	82	4	257	47	9	3	39	1.53
592842--593056	36	5.9	36	84	4	236	46	9	3	40	1.53
601173--601216	20	2.1	22	87	8	65	36	29	0	34	1.58
602500--602585	35	2.5	35	94	0	154	52	11	11	24	1.71
607177--607240	29	2.2	29	83	5	76	28	6	3	62	1.34
610361--610398	2	19.0	2	100	0	76	50	0	0	50	1.00
616152--616184	16	2.0	17	94	5	59	42	0	15	42	1.46
617530--617565	17	2.1	17	100	0	72	27	16	38	16	1.90
621911--621970	31	1.9	31	93	0	102	43	5	8	43	1.56
621993--622422	22	19.6	22	90	0	655	49	10	0	40	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626092--626127	16	2.2	17	95	5	65	47	0	0	52	1.00
626292--626331	20	2.1	18	90	9	62	45	0	0	55	0.99
627795--627819	3	8.3	3	100	0	50	32	0	0	68	0.90
628011--628063	21	2.5	21	81	6	72	20	26	18	33	1.96
628053--628104	21	2.5	21	81	3	61	38	19	23	19	1.93
628094--628225	20	6.7	20	86	1	158	26	27	18	27	1.98
628093--628225	59	2.2	60	82	1	160	27	27	18	27	1.98
628966--629019	24	2.2	24	90	0	81	22	16	20	40	1.91
629194--629218	12	2.1	12	100	0	50	72	0	28	0	0.86
631500--631659	20	8.0	20	92	0	185	37	20	25	16	1.93

Tables:   1   2   3