genome.fa.s9624.2.7.7.80.10.50.1000.22.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  22  of  38  ( 4514 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)
4165081--4165146	30	2.2	30	83	0	78	34	25	28	10	1.89
4165934--4166068	20	6.7	20	80	7	121	33	24	17	24	1.96
4165931--4166062	61	2.2	61	87	0	165	35	24	16	23	1.95
4166236--4166279	22	2.0	22	90	0	70	22	45	13	18	1.84
4166525--4166581	20	2.8	20	86	0	69	17	17	21	43	1.88
4166718--4166772	25	2.2	24	78	15	58	20	9	18	52	1.71
4167901--4167945	18	2.5	18	88	0	72	26	44	15	13	1.83
4168427--4168493	20	3.4	20	81	2	73	41	23	19	14	1.89
4168482--4168539	14	3.9	14	72	16	53	46	22	17	13	1.83
4168466--4168556	32	2.8	33	89	3	148	46	20	18	14	1.84
4168573--4168663	14	5.9	14	69	20	56	13	16	20	49	1.79
4168568--4168679	33	3.4	33	92	1	181	13	17	20	48	1.81
4168666--4168719	20	2.7	20	94	0	90	14	22	24	38	1.91
4168666--4168738	20	3.7	20	86	0	65	15	19	24	41	1.89
4169085--4169172	41	2.1	42	85	2	124	21	43	14	20	1.88
4170577--4170612	14	2.6	14	90	0	54	30	0	22	47	1.52
4170741--4170827	19	4.8	19	89	10	139	47	17	21	13	1.82
4170731--4170827	38	2.8	33	85	14	149	46	18	21	13	1.83
4170846--4170941	20	4.8	20	78	10	97	17	20	20	40	1.91
4170846--4170941	40	2.4	41	80	5	115	17	20	20	40	1.91
4171231--4171282	21	2.5	21	90	3	79	21	21	17	40	1.91
4171479--4171512	12	2.9	12	86	4	52	17	41	5	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4172067--4172120	24	2.2	24	86	0	72	24	16	18	40	1.90
4172295--4172319	12	2.1	12	100	0	50	72	0	28	0	0.86
4174605--4174735	19	7.7	18	62	23	61	43	20	22	13	1.87
4174605--4174731	33	3.8	33	82	4	166	43	20	22	14	1.87
4174606--4174738	66	2.0	66	91	0	212	42	20	21	15	1.89
4174731--4174772	19	2.2	19	91	0	66	16	19	23	40	1.91
4174740--4174798	19	3.4	19	73	22	74	10	23	20	45	1.81
4174913--4174949	14	2.6	14	91	0	65	45	24	0	29	1.53
4176327--4176437	21	5.3	21	67	8	55	21	21	33	23	1.97
4176307--4176512	42	4.9	41	73	9	164	22	17	36	22	1.95
4176337--4176512	84	2.1	84	98	0	343	23	17	38	21	1.93
4176731--4176915	91	2.0	91	88	8	277	47	17	12	23	1.81
4178601--4178770	19	9.1	19	78	11	163	45	20	21	12	1.84
4178766--4178810	19	2.4	19	88	0	63	8	13	26	51	1.70
4179365--4179458	20	4.7	20	75	7	82	24	17	23	35	1.95
4186349--4186467	54	2.2	55	83	8	156	50	8	12	28	1.69
4186371--4186478	54	2.0	54	96	0	198	48	9	12	30	1.72
4196165--4196255	11	8.3	11	71	21	50	38	1	4	56	1.27
4196168--4196260	10	9.9	9	69	22	50	38	1	5	54	1.30
4196541--4196575	6	5.8	6	86	0	52	51	0	8	40	1.33
4196541--4196577	12	3.1	12	100	0	74	51	0	8	40	1.32
4196647--4196731	20	4.3	20	72	15	79	72	5	5	15	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4196689--4196718	14	2.1	14	100	0	60	80	0	0	20	0.72
4196851--4196898	19	2.4	20	74	19	55	70	4	6	18	1.25
4198101--4198859	106	7.2	106	92	1	1199	22	18	24	33	1.97
4198101--4199029	212	4.5	212	90	3	1332	22	18	24	34	1.96
4198101--4199022	318	3.0	316	89	4	1359	22	18	24	34	1.96
4198764--4198904	45	3.2	45	66	18	114	19	18	26	34	1.95
4198764--4198947	88	2.1	88	95	0	332	19	18	26	35	1.95
4198808--4198949	43	3.3	43	67	18	130	20	18	26	35	1.95
4198678--4199029	194	1.8	194	93	1	616	20	19	25	34	1.96
4200575--4200618	22	2.0	22	90	0	70	25	11	22	40	1.87
4201220--4201302	8	10.4	8	72	14	55	1	9	7	81	0.91
4201252--4201302	24	2.1	24	88	0	75	0	5	7	86	0.71
4201245--4201301	15	3.8	14	82	15	69	0	7	7	85	0.73
4201245--4201303	16	3.8	15	82	6	73	0	6	8	84	0.77
4204181--4204205	12	2.1	12	100	0	50	52	0	8	40	1.31
4204274--4204358	20	4.3	20	72	15	79	72	5	5	15	1.23
4204316--4204345	14	2.1	14	100	0	60	80	0	0	20	0.72
4204384--4204425	15	2.6	17	81	11	52	73	2	14	9	1.18
4204481--4204528	19	2.4	20	74	19	55	70	4	6	18	1.25
4210227--4210263	19	1.9	19	88	0	56	24	8	18	48	1.75
4215657--4215842	102	1.8	102	92	0	318	30	27	15	26	1.96
4225954--4226034	42	1.9	42	92	0	135	37	20	13	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4238879--4238981	36	2.9	36	97	0	188	23	16	18	41	1.89
4246797--4246899	36	2.9	36	92	0	170	23	16	19	40	1.91
4251622--4251671	6	8.5	6	81	16	52	24	2	0	74	0.93
4251626--4251681	5	11.2	5	79	9	53	23	1	0	75	0.90
4251633--4251672	15	2.7	16	85	14	59	22	2	0	75	0.93
4251623--4251686	10	6.4	10	84	14	62	23	1	1	73	1.01
4251634--4251701	17	4.2	15	75	24	50	19	1	2	76	0.99
4251634--4251709	19	4.1	17	75	14	62	17	2	2	77	1.00
4251634--4251686	9	5.6	9	82	14	54	20	1	1	75	0.99
4252011--4252053	14	3.1	14	76	6	52	16	9	16	58	1.63
4252402--4252481	38	2.3	34	82	17	117	35	10	21	33	1.87
4260343--4260681	165	2.0	167	88	3	506	31	26	20	20	1.98
4265169--4265201	17	1.9	17	93	0	57	75	6	3	15	1.11
4265776--4265815	21	1.9	21	89	0	62	17	20	27	35	1.95
4268340--4268372	13	2.5	13	100	0	66	60	9	9	21	1.54
4270599--4270642	16	2.8	16	100	0	88	18	18	56	6	1.62
4270760--4270894	3	45.0	3	78	0	135	55	0	2	41	1.15
4271157--4271757	109	5.5	112	82	9	728	28	19	14	37	1.90
4271410--4271757	110	3.2	111	82	8	394	29	18	14	36	1.91
4272651--4272981	81	4.1	83	86	7	457	37	20	14	27	1.91
4272662--4272987	163	2.0	162	87	5	471	37	20	14	28	1.91
4273921--4273962	5	8.4	5	79	10	50	0	16	0	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4286428--4286471	16	2.8	16	100	0	88	18	18	56	6	1.62
4286587--4286721	3	45.0	3	77	0	135	55	0	2	41	1.15
4291591--4291808	105	2.1	104	82	4	251	36	12	11	39	1.80
4295892--4295926	3	11.3	3	87	6	52	68	2	0	28	1.04
4295894--4295930	9	4.3	9	83	13	51	67	5	0	27	1.12
4296136--4296185	2	25.0	2	100	0	100	50	0	0	50	1.00
4299363--4299653	145	2.0	146	93	2	496	30	10	4	54	1.54
4300550--4301597	522	2.0	522	100	0	2096	23	19	16	40	1.90
4302976--4303153	88	2.0	87	96	1	329	40	10	16	32	1.83
4302989--4303174	88	2.2	86	87	6	243	43	10	17	29	1.82
4307123--4307214	42	2.2	42	79	9	100	32	22	19	25	1.97
4307137--4307218	42	2.0	42	83	9	105	32	20	19	26	1.97
4307365--4307930	260	2.2	260	91	0	907	31	19	17	31	1.95
4307798--4307924	42	3.0	42	82	6	143	31	20	21	26	1.98
4312629--4312678	19	2.6	19	100	0	100	22	30	26	22	1.99
4318430--4318509	23	3.6	23	76	8	94	23	26	23	26	2.00
4320317--4320366	23	2.2	22	82	3	55	20	12	16	52	1.75
4331025--4331184	65	2.5	66	82	5	202	32	21	16	28	1.96
4333256--4333319	23	2.8	24	83	7	87	28	23	28	20	1.99
4334278--4334502	64	3.5	62	81	9	240	28	19	19	32	1.96
4338820--4338883	23	2.8	23	80	0	83	28	25	26	20	1.99
4338894--4339114	101	2.2	102	97	1	417	36	24	13	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4339305--4339383	24	3.6	24	64	22	64	34	25	7	32	1.84
4339301--4339385	41	2.1	41	100	0	170	35	23	7	34	1.82
4339885--4340081	64	3.2	61	78	13	167	27	17	20	34	1.95
4343939--4343979	14	2.9	14	88	0	55	63	0	7	29	1.21
4343972--4344033	25	2.5	26	81	5	74	64	4	6	24	1.37
4345357--4345458	45	2.3	45	89	0	159	19	13	41	25	1.88
4346925--4347506	174	3.3	174	88	5	795	46	8	7	37	1.63
4351291--4351321	12	2.7	12	95	5	55	77	16	0	6	0.97
4352693--4352747	27	2.0	27	100	0	110	41	14	18	25	1.88
4352733--4352767	16	2.3	16	90	9	56	40	20	11	28	1.87

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