genome.fa.s7923.2.7.7.80.10.50.1000.23.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  23  of  40  ( 4704 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)
4615482--4615545	20	3.2	20	66	16	60	23	17	26	32	1.96
4615656--4615714	21	2.9	21	85	5	86	30	22	23	23	1.99
4615653--4615722	21	3.5	19	77	11	59	35	21	21	21	1.96
4615720--4615854	46	3.0	46	85	9	199	22	16	24	37	1.94
4615766--4615828	21	3.0	21	66	13	58	22	14	23	39	1.91
4615716--4615859	41	3.4	41	85	11	191	22	15	23	37	1.93
4615784--4615857	20	3.7	20	68	10	60	24	16	25	33	1.95
4615097--4615864	311	2.5	312	95	3	1372	26	18	21	32	1.97
4617818--4617868	3	17.7	3	92	8	88	0	35	0	64	0.94
4617815--4617866	17	3.2	17	84	15	83	0	34	0	65	0.93
4618386--4618424	21	1.9	19	90	10	60	35	10	20	33	1.86
4618886--4619219	51	6.5	52	81	7	296	33	13	17	35	1.89
4618886--4619259	53	7.3	53	80	8	317	33	14	17	34	1.91
4619093--4619287	106	1.8	106	81	5	243	30	20	17	31	1.95
4619162--4619287	53	2.4	53	82	5	139	31	22	17	28	1.96
4624789--4625110	50	6.2	53	79	10	339	32	13	17	37	1.88
4624795--4625099	102	3.0	102	81	11	313	33	12	17	37	1.87
4625119--4625261	53	2.7	51	77	8	135	34	19	18	27	1.95
4632274--4632361	36	2.5	36	85	5	108	31	10	17	40	1.82
4633908--4633951	7	6.1	7	84	12	54	68	0	0	31	0.90
4650494--4650553	26	2.3	26	80	5	68	28	5	1	65	1.23
4659897--4659973	34	2.3	34	84	4	102	44	5	10	40	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4667728--4667769	2	21.0	2	100	0	84	50	0	0	50	1.00
4670409--4670524	35	3.1	35	71	21	101	24	18	18	38	1.93
4670319--4670627	77	4.0	77	82	5	347	25	20	16	37	1.94
4670372--4670566	42	5.0	40	68	21	126	24	19	17	37	1.93
4670322--4670627	154	2.0	156	85	5	422	25	20	16	37	1.93
4671392--4671460	18	3.7	18	75	7	75	30	33	18	17	1.94
4671387--4671463	38	2.0	38	90	5	120	28	29	19	22	1.98
4672031--4672189	64	2.5	63	80	7	162	27	18	20	33	1.96
4679655--4679691	18	2.1	18	90	10	58	24	32	21	21	1.98
4685365--4685433	18	3.7	18	79	7	75	31	30	18	18	1.96
4685631--4685688	24	2.5	21	75	25	55	32	22	5	39	1.76
4685799--4685862	2	32.0	2	100	0	128	0	0	50	50	1.00
4686233--4686283	19	2.7	19	93	0	93	23	31	15	29	1.95
4689626--4689657	16	2.0	17	88	11	50	46	6	12	34	1.67
4691745--4691798	25	2.2	25	86	0	72	31	5	16	46	1.70
4693207--4693269	30	2.1	30	87	0	90	23	14	23	38	1.92
4697930--4697964	12	2.8	13	86	8	54	20	48	20	11	1.79
4699030--4699082	25	2.1	25	89	0	79	28	7	16	47	1.74
4700936--4701026	33	2.8	33	86	1	121	15	14	29	40	1.86
4700956--4701008	16	3.2	16	71	12	54	20	13	28	37	1.90
4701446--4701487	14	3.1	14	86	3	50	33	16	0	50	1.46
4701825--4701942	60	2.0	60	80	9	134	44	11	10	33	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4703423--4703451	2	14.5	2	100	0	58	48	0	0	51	1.00
4704672--4704778	53	2.1	53	91	3	173	22	7	40	29	1.81
4722752--4722803	18	2.9	18	97	0	95	15	5	40	38	1.71
4728540--4728576	17	2.2	17	90	9	58	59	32	0	8	1.27
4729224--4729275	18	2.9	18	91	0	77	17	5	40	36	1.73
4740863--4740893	2	15.5	2	100	0	62	51	0	0	48	1.00
4740893--4740987	2	47.5	2	100	0	190	50	0	49	0	1.00
4744537--4744578	18	2.3	18	100	0	84	16	11	26	45	1.82
4752407--4752447	19	2.2	19	95	0	73	43	4	9	41	1.59
4753564--4753619	24	2.3	24	100	0	112	28	17	16	37	1.91
4753839--4753904	30	2.2	30	88	0	96	10	30	25	33	1.90
4756928--4756960	16	2.0	17	94	5	59	18	18	0	63	1.31
4761969--4762076	38	2.9	37	70	18	98	28	17	12	40	1.87
4761933--4762076	75	1.9	74	84	8	195	28	18	11	40	1.86
4762582--4762606	11	2.3	11	100	0	50	36	0	0	64	0.94
4763924--4763995	15	5.0	15	73	11	53	69	2	0	27	1.02
4763956--4763980	13	1.9	13	100	0	50	84	0	0	16	0.63
4764304--4764369	25	2.6	25	78	0	69	31	6	15	46	1.70
4764562--4764610	15	3.3	14	86	11	62	30	0	0	69	0.89
4765157--4765194	14	2.8	13	84	7	58	71	0	0	28	0.87
4765620--4765684	25	2.6	25	75	4	69	38	6	7	47	1.57
4765825--4765864	20	2.1	19	86	9	55	47	0	2	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4765868--4765925	28	2.1	27	81	12	64	27	3	3	65	1.25
4765868--4765919	21	2.4	21	70	3	50	28	3	3	63	1.30
4765892--4765958	15	4.3	15	76	10	62	31	1	4	62	1.24
4769121--4769240	35	3.3	36	86	6	163	44	19	4	32	1.70
4769169--4769232	20	3.4	20	66	29	59	46	18	3	31	1.65
4772941--4772969	12	2.4	12	100	0	58	27	48	17	6	1.72
4773304--4773337	16	2.1	17	94	5	61	44	23	0	32	1.54
4773734--4773818	37	2.3	37	86	6	120	42	20	4	32	1.72
4781029--4781065	12	3.0	12	88	4	56	18	48	21	10	1.78
4783193--4783249	29	2.0	29	96	0	105	17	5	14	63	1.48
4784476--4784513	20	1.9	20	94	0	67	13	2	10	73	1.19
4794477--4794505	11	2.5	12	88	11	51	58	20	0	20	1.39
4794480--4794507	11	2.5	11	100	0	56	60	25	0	14	1.34
4796708--4796747	21	1.9	21	89	0	62	10	25	40	25	1.86
4796728--4796790	20	2.9	21	79	9	65	15	25	34	23	1.95
4803224--4803311	30	3.1	26	78	12	77	59	1	3	36	1.22
4803236--4803313	30	2.6	29	83	2	102	60	1	3	34	1.23
4804391--4804430	21	1.9	21	89	0	62	20	12	32	35	1.90
4804391--4804436	21	2.2	21	84	0	56	21	10	32	34	1.88
4804658--4804703	4	11.5	4	80	0	56	28	2	2	67	1.14
4804849--4804944	21	4.6	21	84	5	131	22	36	18	21	1.95
4806333--4806368	16	2.2	16	90	0	54	19	0	11	69	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4809000--4809053	24	2.2	24	86	0	72	40	18	16	24	1.90
4809990--4810054	20	3.2	20	71	16	62	36	12	20	30	1.89
4809989--4810080	40	2.3	40	80	0	112	36	10	19	32	1.87
4810101--4810161	21	3.0	20	78	9	61	31	13	22	32	1.92
4810098--4810208	41	2.7	39	71	14	100	36	11	24	27	1.90
4810484--4810532	21	2.4	21	89	3	73	24	20	16	38	1.92
4810529--4810575	20	2.3	20	92	0	76	36	25	17	21	1.94
4810569--4810768	20	10.0	19	82	10	215	38	23	18	19	1.93
4810524--4810768	40	6.1	40	80	11	254	38	23	17	20	1.93
4811244--4811297	20	2.7	19	83	8	72	14	16	22	46	1.84
4813423--4813494	21	3.4	21	74	14	76	25	34	19	20	1.96
4814837--4815009	66	2.7	62	81	12	197	29	1	15	53	1.52
4815364--4815450	39	2.2	39	97	0	165	17	14	20	47	1.83
4816218--4816267	20	2.6	19	87	6	73	40	24	18	18	1.91
4819112--4819145	12	2.8	12	90	0	50	14	0	29	55	1.40
4819914--4819959	20	2.3	20	88	0	65	26	15	19	39	1.91
4822112--4822179	31	2.2	31	91	0	109	30	7	10	51	1.63
4822530--4822616	39	2.2	37	78	15	88	34	11	3	50	1.55
4826819--4826946	60	2.3	54	90	8	193	35	35	15	13	1.87
4830611--4830648	2	19.5	2	94	5	69	50	0	0	50	1.00
4830779--4830909	51	2.6	52	78	8	151	29	9	15	45	1.78
4832233--4832282	20	2.6	19	81	12	57	68	10	4	18	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4834379--4834864	106	4.6	106	95	0	855	22	18	25	33	1.96
4838992--4839041	20	2.6	19	81	12	57	68	10	4	18	1.34
4843212--4843263	23	2.4	22	87	12	72	25	19	26	28	1.98
4846274--4846606	85	3.9	85	79	7	370	27	16	18	37	1.92
4849116--4849148	17	2.0	17	88	5	50	42	12	15	30	1.83
4850567--4850630	24	2.7	24	87	0	92	12	45	14	28	1.81
4853419--4853672	111	2.3	111	87	4	358	36	20	18	24	1.95
4854461--4854604	63	2.3	64	83	6	168	34	22	16	25	1.95
4854614--4854662	20	2.5	20	93	0	80	24	12	28	34	1.91
4855266--4855325	23	2.6	23	91	0	93	20	28	26	25	1.99

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