genome.fa.s9634.2.7.7.80.10.50.1000.26.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  26  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)
5359496--5359652	55	2.8	53	75	16	133	49	1	0	48	1.13
5359612--5359663	25	2.1	25	82	13	63	55	0	0	44	0.99
5360504--5360726	118	1.9	116	85	1	311	39	7	13	40	1.71
5363721--5363761	22	1.9	21	85	5	55	24	24	19	31	1.98
5367772--5367865	49	1.9	49	86	0	134	15	39	30	13	1.87
5369727--5369760	16	2.2	15	89	5	50	70	0	2	26	1.01
5370561--5370608	24	2.0	25	84	12	64	54	14	0	31	1.41
5374360--5374496	48	2.9	49	89	4	183	40	15	24	20	1.91
5390455--5390570	59	2.0	60	86	8	166	31	22	6	39	1.78
5390717--5390862	60	2.4	60	81	3	150	38	4	21	35	1.73
5396445--5396549	13	7.5	13	71	18	52	47	3	3	44	1.39
5396527--5396552	13	2.0	13	100	0	52	46	7	7	38	1.61
5396445--5396561	15	8.3	14	71	20	75	47	4	4	43	1.42
5396687--5396768	19	4.2	20	80	6	89	48	0	25	25	1.51
5396774--5396822	2	25.0	2	95	4	91	0	0	51	48	1.00
5397152--5397194	21	2.0	21	100	0	86	30	27	23	18	1.98
5397851--5400427	4	656.5	4	95	3	4759	25	0	25	49	1.50
5400485--5400526	2	21.0	2	85	9	59	47	2	2	47	1.28
5400610--5400643	7	4.9	7	96	0	59	44	38	0	17	1.49
5401105--5401146	14	3.0	14	93	6	68	47	28	0	23	1.52
5401542--5401590	11	4.5	11	80	14	66	53	6	0	40	1.26
5401579--5401682	48	2.1	49	82	3	120	49	12	6	31	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5401946--5401972	13	2.1	13	100	0	54	44	0	0	55	0.99
5401976--5402034	17	3.3	19	83	9	63	47	6	6	38	1.57
5402003--5402036	9	3.9	9	84	7	52	55	5	0	38	1.24
5401996--5402034	17	2.2	18	95	4	71	51	5	2	41	1.38
5402102--5402169	7	9.7	7	81	12	59	51	32	0	16	1.45
5402102--5402169	14	4.9	14	85	0	82	51	32	0	16	1.45
5402102--5402173	21	3.4	21	83	7	92	51	31	0	16	1.45
5402855--5402924	14	5.7	14	68	30	61	51	4	0	44	1.21
5402853--5402925	23	3.1	23	98	2	137	49	4	0	46	1.21
5403188--5403226	16	2.4	16	91	0	60	38	12	28	20	1.89
5403621--5404196	133	4.3	134	88	2	807	33	20	17	29	1.95
5403621--5404196	267	2.1	268	87	2	825	33	20	17	29	1.95
5404493--5404602	42	2.7	41	76	10	116	33	20	17	28	1.95
5404447--5405758	259	5.1	259	90	0	1962	33	16	16	33	1.91
5405279--5405378	42	2.4	41	80	3	119	34	22	24	20	1.97
5405534--5405638	42	2.5	41	81	6	122	33	18	21	26	1.96
5411202--5411241	12	3.3	12	82	10	55	70	5	5	20	1.26
5413511--5413617	24	4.5	24	80	2	108	49	16	14	19	1.79
5413525--5413620	12	8.0	12	74	4	77	45	17	15	20	1.85
5413523--5413619	24	4.0	24	83	0	122	47	17	15	19	1.83
5414759--5414793	18	1.9	18	88	0	52	28	11	0	60	1.32
5425301--5425348	21	2.3	21	78	7	53	0	22	0	77	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5425828--5425863	18	2.0	18	88	0	54	13	5	13	66	1.41
5426219--5426539	160	2.0	160	100	0	642	33	17	22	27	1.96
5434522--5434591	34	2.1	32	86	5	95	22	30	15	31	1.95
5435091--5435150	29	2.0	31	90	6	97	41	16	6	35	1.75
5437276--5437335	25	2.4	25	78	15	70	41	16	15	26	1.88
5441603--5441658	23	2.4	23	93	0	94	35	21	12	30	1.90
5443935--5444010	26	2.9	26	92	3	118	47	0	2	50	1.15
5448692--5448738	18	2.6	18	89	0	76	17	44	21	17	1.86
5448715--5448746	13	2.5	13	94	0	55	15	43	25	15	1.86
5451266--5451381	24	4.8	24	88	6	164	23	17	18	40	1.91
5451318--5451391	24	3.1	24	86	3	78	21	16	18	43	1.88
5454222--5454254	17	2.0	17	88	5	50	39	0	0	60	0.97
5455008--5455042	18	1.9	18	88	0	52	14	37	2	45	1.59
5456558--5456601	18	2.4	18	84	0	61	13	43	0	43	1.44
5458638--5458682	24	1.9	24	86	4	65	44	4	0	51	1.21
5460350--5460435	38	2.3	38	100	0	172	40	0	0	59	0.97
5462138--5462215	18	4.3	18	91	0	129	42	26	12	17	1.86
5464986--5465029	22	2.0	22	95	0	79	27	11	18	43	1.84
5466683--5466722	16	2.4	16	87	4	53	47	2	2	47	1.29
5473721--5473833	3	37.7	3	87	0	163	35	3	0	61	1.14
5473722--5473833	27	4.1	27	95	0	197	35	3	0	60	1.14
5475254--5475294	20	2.0	21	85	4	57	36	2	2	58	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5486663--5486703	1	41.0	1	85	0	55	92	0	7	0	0.38
5486665--5486707	10	4.3	10	91	8	70	90	0	9	0	0.45
5486664--5486703	11	3.7	11	93	6	73	92	0	7	0	0.38
5487821--5487926	52	2.1	48	88	11	153	25	15	23	35	1.94
5487809--5488118	130	2.4	130	98	0	593	27	13	21	36	1.92
5487951--5488056	52	2.1	48	86	11	144	26	15	22	35	1.93
5488676--5489563	113	7.8	113	89	2	1318	37	13	20	28	1.90
5488676--5489563	227	3.9	226	89	2	1327	37	13	20	28	1.90
5488676--5489565	340	2.6	339	95	1	1540	37	13	20	28	1.91
5489813--5489930	3	38.7	3	84	6	148	34	3	0	61	1.12
5491352--5491392	20	2.0	21	85	4	57	36	2	2	58	1.24
5493131--5493170	22	1.9	20	85	10	53	25	15	2	57	1.50
5494402--5494461	24	2.6	24	79	10	63	43	10	16	30	1.81
5499756--5499789	2	17.0	2	100	0	68	50	0	0	50	1.00
5500340--5500398	23	2.8	21	79	7	66	44	15	15	25	1.85
5503893--5503927	17	2.1	17	100	0	70	28	0	5	65	1.15
5506332--5506371	21	1.9	21	89	0	62	40	17	15	27	1.89
5507942--5508009	29	2.3	29	100	0	136	48	10	16	25	1.77
5508389--5508428	21	1.9	21	89	0	62	40	17	15	27	1.89
5510539--5510606	29	2.3	29	97	0	127	50	10	16	23	1.75
5513140--5513207	29	2.3	29	100	0	136	48	10	16	25	1.77
5513587--5513635	21	2.3	21	85	0	62	44	16	12	26	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5515702--5515766	27	2.3	28	94	5	114	47	10	16	24	1.79
5523018--5523066	16	2.9	18	71	17	52	44	2	0	53	1.12
5523227--5523265	16	2.4	16	87	12	53	41	7	0	51	1.31
5523273--5523341	35	1.9	37	85	11	99	43	0	1	55	1.08
5523336--5523394	24	2.6	23	82	10	68	47	1	0	50	1.11
5523367--5523426	19	2.9	22	73	16	65	45	0	1	53	1.10
5523505--5523567	31	2.1	31	82	8	76	41	1	0	57	1.08
5523555--5523624	27	2.8	24	80	18	72	51	1	1	45	1.18
5527515--5527624	20	5.5	20	96	0	193	21	33	14	30	1.93
5531580--5532124	278	2.0	278	97	0	1018	33	12	11	43	1.78
5532217--5532249	10	3.1	11	86	8	50	0	21	0	78	0.75
5533483--5533937	182	2.5	181	88	3	673	27	16	12	44	1.83
5533808--5534270	111	4.1	112	93	1	732	25	14	13	46	1.81
5540158--5540204	20	2.4	19	76	16	51	38	10	17	34	1.84
5543346--5543371	3	8.7	3	100	0	52	69	30	0	0	0.89
5557524--5557572	19	2.7	17	84	9	53	26	20	28	24	1.99
5557524--5557706	64	2.8	65	82	8	223	28	18	25	27	1.98
5557650--5557700	19	2.7	19	85	8	70	29	15	31	23	1.95
5564724--5564772	19	2.7	17	84	9	53	26	20	28	24	1.99
5564724--5564907	64	2.9	63	81	10	214	28	18	25	28	1.98
5564850--5564900	19	2.7	19	85	8	70	29	15	31	23	1.95
5565566--5565614	22	2.2	22	85	0	62	55	6	20	18	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5566778--5566831	26	2.2	24	83	6	63	55	0	11	33	1.35
5566845--5566885	17	2.3	18	87	4	57	63	0	0	36	0.95
5570267--5570300	13	2.6	14	90	9	54	0	14	5	79	0.91
5570925--5570953	3	9.7	3	100	0	58	65	0	0	34	0.93
5572392--5572436	23	2.0	21	87	8	63	48	4	8	37	1.55
5572525--5572557	9	3.9	9	84	15	52	30	0	24	45	1.53
5572730--5572884	31	5.0	31	88	4	222	26	19	22	31	1.98
5576209--5576264	23	2.6	21	77	11	60	33	23	25	17	1.96
5576664--5576722	23	2.7	21	76	7	64	40	6	20	32	1.78
5576753--5576794	18	2.4	18	92	7	70	28	0	23	47	1.52

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