genome.fa.s8959.2.7.7.80.10.50.1000.20.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: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4521124

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  20  of  21  ( 2431 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)
4156415--4156977	128	4.3	129	81	8	604	28	18	23	30	1.98
4179229--4179260	16	2.0	16	93	0	55	53	6	3	37	1.42
4182302--4182344	18	2.4	18	88	0	59	18	6	0	74	1.04
4182385--4182474	36	2.5	35	82	12	103	25	5	0	68	1.11
4182428--4182478	20	2.5	20	75	9	50	27	3	0	68	1.07
4187471--4187497	14	1.9	14	100	0	54	14	3	0	81	0.82
4187470--4187564	5	19.2	5	68	25	60	20	5	1	73	1.08
4189482--4189583	19	5.4	19	65	27	56	28	0	11	58	1.39
4189426--4189651	76	3.0	76	94	2	384	27	1	11	59	1.42
4189823--4190029	100	2.1	100	98	0	396	31	15	18	33	1.93
4190363--4190404	18	2.3	18	100	0	84	21	4	0	73	1.01
4200351--4200404	4	12.8	4	86	5	63	1	1	24	72	1.05
4200402--4200439	13	2.9	13	96	0	67	18	10	0	71	1.14
4203460--4203529	33	2.2	33	79	5	81	41	5	5	47	1.51
4203510--4203548	20	2.0	19	90	5	60	41	5	2	51	1.38
4203525--4203592	35	1.9	35	82	11	86	41	2	2	52	1.31
4203576--4203614	2	19.5	2	100	0	78	48	0	0	51	1.00
4216916--4217311	54	7.3	54	88	1	508	32	17	20	28	1.96
4222717--4222790	32	2.3	31	86	6	103	18	24	28	28	1.98
4226902--4226990	32	2.8	32	81	5	108	15	25	28	30	1.96
4230814--4230847	2	17.0	2	100	0	68	50	0	0	50	1.00
4231934--4232258	160	2.0	164	96	3	613	29	22	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4236039--4236076	20	1.9	20	88	0	58	18	18	26	36	1.94
4240060--4240094	17	2.1	17	94	0	61	34	22	8	34	1.85
4244242--4244365	60	2.1	59	92	1	203	19	11	37	32	1.87
4247207--4247251	16	2.8	16	83	6	56	35	17	11	35	1.86
4247238--4247440	12	16.1	12	67	18	92	44	21	4	29	1.73
4247261--4247570	4	78.5	4	75	12	149	44	22	4	27	1.73
4247531--4247561	2	15.5	2	100	0	62	51	0	0	48	1.00
4247606--4247880	8	34.4	8	67	12	68	49	26	2	22	1.63
4247562--4247634	12	5.8	12	76	10	65	47	26	4	21	1.68
4247593--4247886	24	11.8	24	68	16	91	48	26	2	22	1.62
4247724--4247762	15	2.5	16	87	8	62	56	25	0	17	1.41
4247724--4247799	14	5.1	15	78	9	68	53	25	1	19	1.52
4247776--4247828	26	2.0	26	88	0	79	49	32	3	15	1.62
4247600--4247888	16	18.6	16	68	15	106	49	26	2	22	1.62
4247716--4247911	43	4.4	44	76	5	135	51	28	2	18	1.59
4247859--4247922	4	16.2	4	76	15	53	46	28	4	20	1.70
4247958--4248096	8	18.1	8	65	16	53	47	17	3	30	1.65
4247977--4248166	4	49.0	4	74	8	79	49	26	1	22	1.59
4248000--4248142	14	10.1	14	76	10	67	48	27	2	22	1.62
4248096--4248152	6	9.5	6	88	0	78	50	42	0	7	1.29
4248090--4248411	12	26.1	12	81	6	178	50	36	2	9	1.50
4248281--4248414	2	67.0	2	100	0	268	50	50	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4248421--4248459	4	9.8	4	100	0	78	25	48	25	0	1.51
4248677--4248724	19	2.5	20	90	6	73	29	10	4	56	1.52
4250240--4250286	10	4.7	10	82	7	60	12	25	27	34	1.92
4250239--4250286	20	2.4	20	86	10	71	14	25	27	33	1.94
4250305--4250355	17	3.2	17	86	10	72	19	50	19	9	1.75
4257500--4257553	9	5.8	9	76	8	54	18	25	25	29	1.98
4257500--4257557	19	3.1	18	82	9	64	18	25	25	29	1.98
4263696--4263758	25	2.5	24	78	14	65	71	1	4	22	1.13
4263830--4263887	27	2.0	28	83	9	73	60	8	8	22	1.53
4265288--4265637	117	3.0	117	85	5	460	25	22	14	36	1.93
4265552--4266011	91	5.0	91	88	4	656	23	20	16	39	1.91
4268067--4268247	5	34.6	5	80	12	113	4	17	0	78	0.91
4268076--4268248	6	28.7	6	80	10	122	4	17	0	78	0.90
4268118--4268149	14	2.3	14	94	0	55	9	3	0	87	0.64
4270790--4270878	38	2.4	38	92	1	144	15	11	37	35	1.84
4271411--4271457	18	2.7	18	93	3	78	27	31	8	31	1.87
4273589--4273646	29	1.9	31	86	6	84	55	8	18	17	1.67
4275634--4275779	52	2.9	50	77	11	136	63	6	10	20	1.47
4275722--4275767	22	2.1	22	84	15	60	63	4	10	21	1.44
4275716--4275770	21	2.6	20	76	18	58	63	3	9	23	1.40
4288512--4288560	24	2.1	24	85	7	66	42	2	0	55	1.11
4295210--4295298	29	3.1	29	91	0	142	8	13	35	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4295231--4295276	17	3.0	17	76	23	57	10	15	32	41	1.82
4295291--4295330	22	1.9	20	90	10	62	15	2	35	47	1.58
4299468--4299528	26	2.3	26	97	0	113	37	19	18	24	1.94
4301125--4301334	65	3.3	63	80	9	228	26	19	24	30	1.98
4301993--4302021	14	2.0	15	93	6	51	62	27	3	6	1.37
4302352--4302395	21	2.1	21	86	0	61	34	15	40	9	1.79
4303856--4303934	22	3.6	22	77	5	88	24	25	24	26	2.00
4303855--4303934	21	3.6	22	77	5	90	25	25	23	26	2.00
4309648--4309696	19	2.7	17	84	9	53	26	20	28	24	1.99
4309668--4309827	65	2.5	65	84	7	193	28	17	23	31	1.97
4311501--4311666	65	2.6	65	84	5	194	33	13	19	33	1.91
4312002--4312035	12	2.7	13	90	9	61	38	5	8	47	1.59
4314242--4314317	21	3.5	21	71	13	73	27	21	19	31	1.97
4314214--4314316	44	2.3	44	85	3	127	29	21	21	28	1.98
4318542--4318566	12	2.1	12	100	0	50	8	24	8	60	1.52
4321300--4321436	65	2.1	65	81	8	163	31	18	19	29	1.96
4321778--4321811	17	2.0	17	94	0	59	44	5	11	38	1.65
4329307--4329358	27	2.0	27	88	3	79	55	23	0	21	1.43
4335243--4335281	13	3.0	13	92	0	60	30	15	23	30	1.95
4338839--4338883	21	2.2	20	84	4	54	37	2	4	55	1.32
4340807--4340957	65	2.3	65	83	2	178	29	19	23	27	1.98
4342917--4342953	19	2.1	19	85	10	51	18	24	2	54	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4343209--4343272	3	22.0	3	76	6	60	29	1	0	68	0.99
4344514--4344558	21	2.2	20	88	11	65	31	4	0	64	1.13
4349332--4349362	3	10.0	3	93	6	53	64	0	32	3	1.09
4351536--4351687	54	2.8	54	81	4	180	36	13	21	28	1.92
4353208--4353262	3	18.3	3	84	0	74	40	1	0	58	1.09
4354506--4354559	21	2.6	21	80	13	67	27	5	1	64	1.26
4355385--4355766	192	2.0	192	94	0	665	34	6	16	43	1.72
4365900--4365947	22	2.2	22	88	0	69	58	10	14	16	1.63
4379049--4379115	28	2.4	28	100	0	134	37	0	16	46	1.47
4381176--4381227	21	2.5	21	74	0	59	21	21	23	34	1.97
4384422--4384462	12	3.5	12	78	15	50	14	7	2	75	1.12
4385889--4385931	18	2.4	18	80	7	52	20	6	25	46	1.76
4388359--4388425	23	2.9	23	78	8	73	19	23	23	32	1.97
4396076--4396130	26	2.2	25	83	3	65	30	5	23	40	1.77
4397700--4397759	28	2.1	28	96	0	111	41	21	11	25	1.87
4398559--4398605	23	2.0	23	95	0	85	25	23	10	40	1.87
4402253--4402277	9	2.8	9	100	0	50	80	0	0	20	0.72
4402337--4402365	2	14.5	2	100	0	58	51	0	0	48	1.00
4403336--4403407	35	2.1	35	100	0	144	27	20	11	40	1.87
4403891--4404624	106	7.0	105	86	5	976	23	19	23	33	1.97
4412805--4412829	9	2.8	9	100	0	50	80	0	0	20	0.72
4412896--4412956	2	30.5	2	100	0	122	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4413234--4413262	2	14.5	2	100	0	58	51	0	0	48	1.00
4413443--4413492	2	25.5	2	91	4	84	54	0	0	46	1.00
4413542--4413576	17	2.0	18	94	5	63	74	0	5	20	1.02
4413951--4414027	35	2.2	35	92	0	127	28	19	7	44	1.78
4415641--4415680	17	2.3	18	86	4	55	60	0	0	40	0.97
4429061--4429118	24	2.4	24	94	0	98	41	37	3	17	1.66
4433627--4433688	19	3.3	19	93	0	106	27	20	29	22	1.99
4433676--4433836	65	2.5	65	83	8	197	28	16	21	32	1.95
4433676--4433883	65	3.2	63	74	13	181	26	16	23	33	1.96
4436531--4436612	23	3.6	22	78	8	94	24	24	26	24	2.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21