genome.fa.s190.2.7.7.80.10.50.1000.55.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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  55  of  62  ( 7381 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)
12905637--12905677	21	2.0	21	95	0	73	9	24	24	41	1.85
12906078--12906120	20	2.0	22	86	8	63	48	0	4	46	1.22
12907478--12907569	15	6.3	15	76	15	77	57	3	1	38	1.22
12907752--12907854	42	2.5	42	87	1	136	33	23	23	20	1.97
12907777--12907858	42	2.0	42	95	0	146	35	21	20	21	1.96
12907796--12907860	20	3.2	20	70	12	60	38	21	20	20	1.94
12907730--12908199	249	1.9	250	90	1	764	37	16	16	29	1.91
12908730--12908773	22	2.0	22	95	0	79	43	11	13	31	1.80
12908865--12908976	57	2.0	56	94	1	197	29	25	8	36	1.85
12914581--12914758	89	2.0	89	100	0	356	35	21	20	22	1.96
12922317--12922347	12	2.6	12	94	0	53	6	41	3	48	1.45
12923928--12923982	22	2.4	23	84	6	76	18	27	25	29	1.98
12927056--12927105	24	2.1	24	85	7	66	22	2	16	60	1.46
12929463--12929868	202	2.0	203	99	0	805	33	23	18	24	1.97
12937122--12937171	24	2.1	24	85	7	66	22	2	16	60	1.46
12938932--12938959	2	14.0	2	100	0	56	50	0	0	50	1.00
12939969--12940024	23	2.4	23	87	0	76	19	26	25	28	1.99
12942363--12942400	19	2.0	20	89	5	60	50	2	0	47	1.15
12942404--12942453	15	3.3	15	82	2	64	60	4	2	34	1.27
12946844--12946880	18	2.1	18	100	0	74	35	37	0	27	1.57
12951187--12951634	228	2.0	227	94	2	783	44	8	7	39	1.62
12951700--12951745	20	2.3	19	89	10	74	54	10	17	17	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12951867--12951913	20	2.4	19	89	10	76	55	10	17	17	1.69
12951871--12951918	20	2.6	18	84	15	62	56	10	14	18	1.66
12954240--12954305	33	2.0	33	90	0	105	28	0	48	22	1.51
12956096--12956144	19	2.6	19	93	0	80	30	2	10	57	1.43
12956263--12958025	198	8.9	199	98	0	3425	36	16	16	30	1.91
12956263--12958025	592	3.0	594	98	0	3433	36	16	16	30	1.91
12961375--12961438	23	2.8	23	87	0	92	35	6	20	37	1.78
12961375--12961447	23	3.2	23	82	7	85	34	5	20	39	1.76
12961805--12961868	23	2.8	23	87	0	92	35	6	20	37	1.78
12961805--12961877	23	3.2	23	82	7	85	34	5	20	39	1.76
12962142--12962192	25	2.0	25	92	0	84	33	7	19	39	1.81
12962441--12962477	18	2.1	18	89	0	56	32	5	10	51	1.60
12962733--12962858	39	3.2	39	96	0	225	48	19	13	18	1.81
12963261--12963324	23	2.8	23	87	0	92	35	6	20	37	1.78
12963261--12963333	23	3.2	23	82	7	85	34	5	20	39	1.76
12967251--12967300	23	2.2	23	92	0	82	38	8	22	32	1.83
12970784--12970826	9	4.8	9	85	0	59	4	51	9	34	1.55
12970992--12972051	182	5.8	182	87	2	1479	27	15	13	44	1.83
12974984--12975021	17	2.4	15	87	12	58	26	26	23	23	2.00
12979532--12979983	182	2.5	182	88	2	687	42	13	15	28	1.85
12980054--12980184	48	2.7	48	97	0	244	39	11	13	35	1.81
12982286--12982337	18	2.9	18	94	0	95	28	32	21	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12982635--12982707	37	2.0	37	86	5	103	32	15	2	49	1.58
12983088--12983145	20	2.7	20	86	10	71	24	24	20	31	1.98
12983133--12983267	65	2.1	63	82	6	164	26	22	16	34	1.95
12986337--12986380	18	2.4	18	96	0	79	27	34	18	20	1.96
12986686--12986758	37	2.0	37	84	10	96	32	16	2	47	1.61
12987151--12987208	20	2.6	22	84	10	75	27	22	18	31	1.97
12987196--12987335	65	2.2	63	83	6	174	25	22	17	33	1.96
12991304--12991873	198	2.9	197	84	5	706	39	13	15	31	1.87
12994241--12994294	21	2.6	21	100	0	108	24	16	29	29	1.97
12994427--12994469	6	7.2	6	94	0	77	34	46	16	2	1.60
12998806--12998831	5	5.2	5	100	0	52	23	57	19	0	1.40
12998766--12998871	45	2.4	44	95	3	185	37	39	14	8	1.76
12999388--12999473	39	2.2	39	91	0	136	18	12	18	50	1.78
12999733--12999769	18	2.1	18	89	0	56	51	10	5	32	1.60
13000205--13000267	23	2.7	23	92	0	99	38	20	4	36	1.74
13000613--13000678	25	2.6	25	80	0	87	42	13	9	34	1.76
13003148--13003640	183	2.7	183	95	0	880	33	17	15	34	1.91
13005140--13005214	3	25.0	3	73	0	60	22	34	6	36	1.81
13005144--13005226	12	6.9	12	83	0	94	20	34	8	36	1.83
13005148--13005226	36	2.2	36	90	0	122	20	35	8	35	1.84
13006697--13007867	199	5.9	199	96	0	2150	31	16	15	36	1.90
13007977--13008016	19	2.1	19	95	0	71	52	10	2	35	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13009808--13009873	33	2.0	33	90	0	105	22	48	0	28	1.51
13009907--13009971	21	3.1	21	79	0	76	16	30	13	38	1.88
13012202--13012244	20	2.3	18	85	14	61	20	16	11	51	1.75
13012207--13012253	20	2.4	19	82	10	67	19	17	10	53	1.72
13012388--13012434	20	2.3	20	89	10	78	17	17	10	55	1.69
13012174--13012646	181	2.6	182	90	1	707	26	16	14	42	1.86
13012713--13013199	229	2.1	228	94	0	866	40	7	8	44	1.61
13019828--13019885	26	2.2	27	93	3	100	15	8	34	41	1.78
13020472--13020536	18	3.7	18	89	2	96	27	29	7	35	1.85
13020472--13020542	36	2.0	36	88	2	108	28	29	7	35	1.83
13023947--13024106	31	5.1	31	82	4	178	31	22	18	27	1.97
13023948--13024104	32	5.0	32	83	5	185	31	22	18	28	1.97
13026272--13026352	40	2.0	40	97	0	153	35	23	7	33	1.83
13028918--13028998	40	2.0	40	97	0	153	35	23	7	33	1.83
13031563--13031643	40	2.0	40	97	0	153	35	23	7	33	1.83
13034055--13034107	22	2.4	23	75	15	58	9	26	3	60	1.45
13034209--13034289	40	2.0	40	95	0	144	35	22	7	34	1.82
13036857--13036934	40	2.0	40	97	0	147	38	24	5	32	1.77
13039277--13039308	16	1.9	17	93	6	57	31	21	0	46	1.52
13039502--13039579	40	2.0	40	97	0	147	37	24	5	33	1.78
13046613--13046768	32	4.9	31	78	7	145	32	20	17	28	1.96
13065144--13065190	24	2.0	24	95	0	85	27	19	6	46	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13068260--13068290	15	2.1	15	100	0	62	35	19	19	25	1.95
13073458--13073484	8	3.4	8	100	0	54	0	59	0	40	0.98
13073842--13073931	23	3.9	23	77	2	72	31	15	12	41	1.84
13073854--13073909	24	2.4	23	82	5	76	30	14	10	44	1.79
13075789--13075884	37	2.6	37	85	6	133	56	11	8	23	1.62
13076195--13076225	14	2.2	14	100	0	62	25	45	0	29	1.54
13079616--13079667	23	2.3	23	90	6	79	25	19	25	30	1.98
13079630--13079717	42	2.1	42	86	0	122	25	22	19	32	1.97
13080731--13080903	20	8.6	20	70	9	93	36	23	12	27	1.90
13080951--13081023	20	3.7	20	73	14	69	35	19	10	34	1.87
13081045--13081140	27	3.6	27	91	0	156	46	32	3	17	1.64
13081169--13081216	22	2.2	22	96	0	87	20	47	14	16	1.82
13081583--13081621	21	1.9	20	84	5	51	48	20	15	15	1.81
13083202--13083404	42	5.0	42	88	1	229	25	37	14	21	1.92
13083225--13083404	39	4.5	39	84	6	198	26	39	15	18	1.90
13083520--13083571	19	2.6	20	90	6	79	21	9	32	36	1.86
13083498--13083618	21	5.9	21	70	16	65	20	9	35	33	1.86
13083585--13083693	21	5.2	20	69	8	65	22	11	31	35	1.89
13083978--13084018	21	2.0	21	85	0	55	26	36	9	26	1.88
13084005--13084100	21	4.6	21	85	0	84	20	39	14	25	1.91
13084089--13084131	21	2.0	21	86	0	59	16	44	16	23	1.86
13084890--13084931	19	2.2	19	100	0	84	33	0	16	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13086587--13086632	19	2.4	19	92	0	74	30	26	15	28	1.96
13087879--13087968	45	2.0	45	100	0	180	44	11	13	31	1.78
13088108--13088146	3	13.7	3	84	10	55	35	2	0	61	1.10
13088108--13088146	14	2.7	14	92	4	60	35	2	0	61	1.10
13090829--13091200	189	2.0	183	96	3	681	40	8	20	29	1.82
13091267--13091337	28	2.5	28	95	0	124	22	23	25	28	2.00
13091267--13091348	28	2.9	27	90	3	110	20	24	26	28	1.99
13094624--13094670	18	2.6	18	96	0	85	19	21	34	25	1.96
13095602--13095661	17	3.7	16	74	10	59	18	1	3	76	1.00
13095792--13095817	13	2.0	13	100	0	52	30	15	15	38	1.88

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