genome.fa.s1465.2.7.7.80.10.50.1000.54.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  54  of  55  ( 6520 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)
10828428--10828477	12	3.9	12	80	14	64	60	6	10	24	1.51
10828416--10828475	27	2.3	27	88	8	88	60	5	11	23	1.51
10828434--10828463	15	2.0	15	100	0	60	66	6	6	20	1.38
10828535--10828576	7	6.0	7	78	10	50	54	14	16	14	1.71
10830588--10830627	2	20.5	2	89	5	64	47	0	0	52	1.00
10831825--10831948	44	2.9	43	80	9	132	20	15	41	22	1.89
10834920--10834953	2	17.0	2	100	0	68	50	0	0	50	1.00
10836030--10836071	21	2.0	21	90	9	68	47	21	0	30	1.51
10845011--10845061	19	2.7	19	81	0	57	23	13	13	49	1.78
10846828--10846867	2	20.5	2	89	5	64	47	2	0	50	1.14
10861884--10861936	22	2.4	22	96	0	97	20	13	33	32	1.91
10865368--10865418	27	1.9	27	96	4	95	15	25	25	33	1.95
10866739--10866781	22	1.9	23	85	4	61	37	9	9	44	1.69
10866789--10866836	23	2.1	23	84	0	60	35	10	18	35	1.85
10867549--10867585	16	2.3	17	86	9	51	32	18	0	48	1.49
10868034--10868080	20	2.4	19	79	10	58	21	17	8	53	1.70
10868208--10868253	20	2.3	19	89	10	74	17	15	10	56	1.67
10872745--10872829	28	3.1	28	69	16	70	50	2	2	44	1.27
10872784--10872865	39	2.2	38	84	6	105	52	2	1	43	1.22
10872835--10872884	8	6.2	8	77	9	57	60	2	0	38	1.09
10872853--10872882	15	2.0	15	93	0	51	63	0	0	36	0.95
10872986--10873051	29	2.3	29	84	7	82	57	1	1	39	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10878106--10878162	2	28.5	2	100	0	114	50	0	0	49	1.00
10878161--10878195	16	2.2	16	94	0	61	40	20	11	28	1.87
10883533--10883593	27	2.3	27	97	0	113	26	31	27	14	1.95
10883543--10883592	17	2.8	18	77	11	59	26	32	26	16	1.96
10884279--10884326	22	2.2	22	81	7	53	31	0	2	66	1.03
10893325--10893357	2	16.0	2	93	6	57	48	0	3	48	1.17
10894466--10894508	21	2.0	21	90	0	68	13	13	11	60	1.59
10903385--10903425	19	2.1	20	90	4	66	41	12	4	41	1.64
10905279--10905318	20	2.0	21	95	5	73	25	20	22	32	1.98
10905941--10905973	10	3.0	11	86	13	50	15	3	0	81	0.80
10905950--10905998	20	2.4	20	72	3	53	20	2	0	77	0.87
10906203--10906261	25	2.4	25	100	0	118	49	10	15	25	1.76
10912221--10912285	31	2.1	31	82	0	76	29	13	13	43	1.83
10920497--10920629	24	5.5	24	84	3	151	42	18	13	25	1.87
10920514--10920647	48	2.8	48	82	4	128	41	18	14	24	1.89
10926951--10926975	12	2.1	12	100	0	50	76	0	8	16	1.02
10929082--10929111	15	2.0	15	93	0	51	23	16	26	33	1.96
10930510--10930534	2	12.5	2	100	0	50	48	0	52	0	1.00
10931069--10931301	117	2.0	114	95	4	423	25	25	30	18	1.98
10931496--10932943	597	2.4	596	98	0	2825	25	22	27	25	2.00
10938808--10938919	53	2.1	51	85	8	145	47	14	12	25	1.79
10939139--10939213	38	2.0	37	84	5	98	48	4	1	46	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10956253--10956312	26	2.3	25	83	13	77	71	1	6	20	1.17
10956902--10956971	31	2.3	31	87	0	104	40	5	4	50	1.46
10958977--10961949	165	18.1	164	84	3	2716	25	19	24	30	1.98
10958977--10961949	164	18.1	165	84	3	2727	25	19	24	30	1.98
10958977--10961949	329	9.0	325	79	6	1574	25	19	24	30	1.98
10963100--10963300	95	2.1	94	90	4	323	31	16	16	34	1.92
10966862--10966910	18	2.7	18	84	9	55	71	4	4	20	1.19
10966942--10966986	17	2.8	16	80	12	56	75	0	4	20	0.97
10968254--10968322	27	2.6	26	81	9	86	55	0	5	39	1.24
10968255--10968342	25	3.5	26	82	16	89	53	0	6	39	1.28
10970417--10970536	18	6.8	18	70	14	72	27	3	6	62	1.36
10970495--10970536	4	10.0	4	85	10	57	23	2	2	71	1.10
10972501--10972592	12	7.4	12	79	7	58	20	0	40	39	1.53
10972501--10972568	6	11.8	6	75	9	61	19	0	45	35	1.50
10972498--10972559	27	2.3	27	100	0	124	19	0	46	33	1.50
10972552--10972598	6	7.8	6	87	0	67	23	0	29	46	1.52
10977781--10977917	59	2.3	59	82	2	186	28	18	24	28	1.98
10977959--10978011	20	2.6	20	81	3	61	18	5	20	54	1.64
10985200--10985336	59	2.3	59	82	2	186	28	18	24	28	1.98
10985390--10985432	20	2.2	20	86	0	59	18	4	18	58	1.56
10988932--10988966	6	5.8	6	93	0	61	37	17	11	34	1.85
10988929--10988987	16	3.6	16	84	8	73	44	16	6	32	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10989520--10989915	120	3.3	121	76	7	331	46	8	15	29	1.75
10998829--10998860	16	2.0	16	100	0	64	18	18	25	37	1.94
11001297--11001361	35	1.9	32	84	9	85	38	18	4	38	1.72
11001297--11001361	32	1.9	34	82	14	82	38	18	4	38	1.72
11013727--11013782	29	1.9	29	88	0	85	21	28	35	14	1.92
11014097--11014193	31	3.2	30	66	16	74	25	14	21	38	1.92
11014096--11014213	60	2.0	60	86	3	166	30	13	18	37	1.90
11016835--11016895	3	19.0	3	77	12	50	55	1	42	0	1.09
11016835--11016895	7	9.5	6	82	3	50	55	1	42	0	1.09
11016838--11016878	7	6.0	7	91	2	66	56	2	41	0	1.13
11019202--11019243	18	2.3	18	95	0	75	59	4	2	33	1.31
11020728--11020770	3	13.3	3	85	9	50	41	0	0	58	0.98
11020728--11020782	27	2.0	27	93	6	94	45	0	0	54	0.99
11020730--11020779	23	2.1	24	88	3	75	44	0	0	56	0.99
11021194--11021227	12	2.9	11	87	12	50	61	11	26	0	1.30
11022009--11022072	27	2.3	27	81	7	76	25	6	4	64	1.37
11022223--11022456	120	2.0	120	82	7	279	35	8	9	47	1.66
11022316--11022365	20	2.5	19	84	9	64	32	0	2	66	1.03
11022421--11022477	29	2.0	29	86	6	80	49	1	0	49	1.11
11022952--11022999	16	3.0	16	85	11	71	27	2	0	70	0.98
11022955--11023004	9	5.2	10	76	13	52	26	2	0	72	0.96
11022952--11023021	32	2.2	33	82	12	83	28	2	1	67	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11028218--11028309	16	5.8	16	79	15	86	77	0	19	3	0.91
11028218--11028310	7	11.6	8	75	18	72	77	0	19	3	0.90
11028207--11028281	35	2.2	34	92	2	123	76	0	17	6	1.00
11028218--11028310	9	11.9	7	75	24	80	77	0	19	3	0.90
11030468--11030673	114	1.8	114	92	0	349	33	16	19	31	1.94
11031627--11031693	35	1.9	35	87	6	100	31	11	23	32	1.91
11033234--11033312	22	3.6	22	92	0	122	32	13	12	40	1.83
11034159--11034790	76	8.5	76	93	3	1029	22	20	22	34	1.97
11034163--11034790	224	2.8	226	92	3	1024	22	20	22	34	1.97
11034908--11034966	21	2.7	21	76	19	57	47	0	0	52	1.00
11034909--11034976	18	4.1	17	74	25	58	47	0	0	52	1.00
11035974--11036037	27	2.3	27	81	7	76	25	6	4	64	1.37
11036191--11036429	120	2.0	118	82	4	293	36	7	8	46	1.64
11036392--11036450	31	1.9	31	86	6	84	49	1	0	49	1.11
11037727--11037753	4	6.8	4	100	0	54	51	22	0	25	1.48
11043129--11043160	2	16.0	2	100	0	64	50	0	0	50	1.00
11048643--11048674	12	2.7	12	100	0	64	25	6	50	18	1.70
11049489--11049571	38	2.2	38	86	4	114	33	1	2	62	1.16
11054400--11054440	3	13.7	3	100	0	82	65	0	0	34	0.93
11054629--11054702	3	24.7	3	100	0	148	67	0	0	32	0.91
11056134--11056187	21	2.6	21	79	8	65	27	14	20	37	1.92
11056237--11056289	20	2.5	21	84	6	72	32	24	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11058227--11058604	163	2.4	159	83	4	458	29	16	5	49	1.67
11061408--11061455	23	2.1	23	88	0	69	35	12	18	33	1.89
11062180--11062216	18	2.1	18	89	0	56	51	10	5	32	1.60
11062420--11062484	23	2.8	23	85	0	85	40	16	7	35	1.78
11062843--11062894	23	2.3	22	90	6	77	44	19	1	34	1.62
11062853--11062915	23	2.7	23	90	0	90	38	19	6	36	1.77
11062422--11063440	428	2.4	430	98	0	1990	38	13	8	40	1.74
11063271--11063322	23	2.3	22	90	6	77	44	19	1	34	1.62
11063281--11063343	23	2.7	23	90	0	90	38	19	6	36	1.77
11063822--11064299	184	2.6	184	97	0	893	34	15	14	34	1.89

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