genome.fa.s851.2.7.7.80.10.50.1000.26.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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   

This is table  26  of  31  ( 3618 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)
6109468--6109513	6	7.7	6	87	0	65	71	0	13	15	1.14
6109461--6109521	6	9.7	6	80	8	50	73	0	11	14	1.09
6109825--6110056	115	2.0	114	93	0	392	26	22	12	38	1.90
6122160--6122204	20	2.2	20	96	0	81	55	0	20	24	1.43
6126924--6126953	15	2.1	14	93	6	51	63	10	6	20	1.47
6127607--6127632	2	13.0	2	100	0	52	50	0	0	50	1.00
6128042--6128083	21	1.9	23	85	9	61	54	2	9	33	1.46
6128251--6128284	17	2.1	16	88	5	50	61	0	0	38	0.96
6131036--6131219	64	2.9	64	79	5	167	31	20	15	32	1.94
6136996--6137096	23	4.6	23	75	11	88	24	27	19	27	1.99
6139640--6139841	64	3.1	65	80	6	196	32	19	15	31	1.94
6139717--6139840	65	1.9	64	88	4	187	33	20	13	32	1.91
6144170--6144206	16	2.2	17	90	4	58	62	8	5	24	1.44
6144629--6144678	21	2.3	21	83	10	57	74	4	2	20	1.08
6145212--6145304	2	46.5	2	100	0	186	50	0	0	49	1.00
6146257--6146300	2	22.0	2	100	0	88	50	0	0	50	1.00
6146897--6147076	35	5.2	34	74	14	143	46	7	6	39	1.58
6146898--6147076	68	2.6	69	83	5	218	46	7	6	39	1.58
6150410--6150449	18	2.2	19	86	4	55	67	7	2	22	1.28
6152035--6152064	4	7.5	4	100	0	60	23	0	0	76	0.78
6153457--6153576	64	1.9	63	84	1	159	35	22	15	25	1.94
6154141--6154185	23	2.0	23	95	0	81	20	28	26	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6159910--6159961	19	2.7	19	93	0	86	28	17	26	26	1.97
6160745--6160791	23	2.0	23	91	0	76	21	27	23	27	1.99
6168712--6168875	32	5.0	32	77	7	150	28	18	23	29	1.98
6170582--6170608	12	2.2	12	100	0	54	25	22	33	18	1.97
6171276--6171404	36	3.6	36	73	10	113	46	3	5	44	1.44
6171392--6171432	2	21.0	2	95	5	75	51	0	0	48	1.00
6171276--6171538	70	3.8	70	72	16	174	47	4	4	42	1.45
6171415--6171541	36	3.3	38	80	11	145	48	6	3	40	1.47
6171411--6171540	41	3.3	39	76	18	117	48	6	3	41	1.46
6171520--6171564	23	1.9	24	90	4	74	44	4	8	42	1.56
6171479--6171610	64	2.1	64	87	5	187	44	4	7	43	1.53
6171543--6171729	38	4.9	37	80	12	186	45	2	8	43	1.47
6171443--6171653	102	2.1	99	84	10	268	45	4	6	42	1.51
6171624--6171689	34	1.9	34	93	0	114	51	1	9	37	1.43
6185180--6185470	36	8.0	33	74	15	179	47	4	6	41	1.51
6185252--6185560	36	8.3	36	81	7	343	46	4	6	41	1.50
6185241--6185565	113	2.9	109	86	9	433	46	4	6	42	1.50
6185206--6185560	149	2.4	149	79	12	383	46	3	7	41	1.51
6192428--6192677	134	1.9	133	86	0	356	25	16	27	30	1.97
6199944--6199977	17	2.0	17	88	0	50	2	23	0	73	0.97
6200540--6200581	3	14.0	3	100	0	84	66	0	0	33	0.92
6202766--6202827	19	3.3	19	97	0	115	8	43	4	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6203763--6203813	3	17.7	3	84	8	70	60	0	1	37	1.08
6203754--6203813	29	2.1	29	100	0	120	58	0	3	38	1.15
6204054--6204107	20	2.7	20	85	0	63	25	16	24	33	1.96
6203979--6204404	119	3.6	119	94	1	712	30	16	15	37	1.91
6204173--6204226	20	2.7	20	91	0	81	25	20	24	29	1.99
6204291--6204344	20	2.8	20	81	13	67	27	18	20	33	1.96
6204457--6205081	251	2.5	248	90	2	989	34	17	16	31	1.92
6207815--6207893	1	79.0	1	71	0	59	0	13	0	86	0.58
6207811--6207893	9	9.2	9	77	15	91	0	14	0	85	0.60
6207811--6207895	18	4.7	18	87	9	104	0	15	0	84	0.62
6207815--6207893	34	2.5	31	80	15	106	0	13	0	86	0.58
6210048--6210211	78	2.1	78	80	4	177	22	23	18	34	1.96
6214207--6214298	45	2.0	45	87	0	130	54	13	5	27	1.60
6221490--6221522	3	11.3	3	87	6	50	66	0	0	33	0.92
6222971--6223012	19	2.2	19	95	0	75	28	0	28	42	1.56
6222957--6223105	76	2.0	76	84	0	199	35	4	16	42	1.69
6223184--6223242	27	2.2	27	79	14	68	42	8	0	49	1.33
6223956--6224025	2	36.0	2	73	21	60	45	4	2	47	1.37
6225234--6225399	82	2.0	80	80	7	183	34	9	28	28	1.87
6226214--6226238	13	1.9	13	100	0	50	40	0	0	60	0.97
6226214--6226242	7	4.3	7	91	8	51	37	0	0	62	0.96
6226827--6226871	23	1.9	24	86	13	67	35	20	15	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6229496--6229821	45	7.3	45	85	5	317	30	21	9	38	1.86
6229496--6229821	90	3.7	89	81	6	363	30	21	9	38	1.86
6229475--6229821	178	1.9	178	85	5	470	30	21	9	38	1.85
6230229--6230284	22	2.7	20	86	10	85	25	28	14	32	1.94
6230229--6230449	94	2.4	94	84	6	270	28	25	14	30	1.95
6230289--6230468	94	1.9	94	86	6	258	30	23	16	30	1.96
6236543--6236870	45	7.3	45	84	5	394	28	19	10	41	1.84
6236551--6236898	135	2.6	136	85	3	452	28	20	10	41	1.85
6237307--6237359	22	2.5	20	85	11	79	26	26	15	32	1.95
6237346--6237506	74	2.2	72	80	8	173	27	23	15	32	1.95
6238816--6238854	16	2.8	13	88	11	51	41	7	2	48	1.45
6238809--6238922	58	2.0	58	80	14	130	42	6	4	46	1.48
6241566--6241617	27	1.9	27	96	0	95	51	0	1	46	1.12
6242671--6242731	27	2.4	24	86	13	86	55	8	0	36	1.30
6251511--6252183	336	2.0	336	88	2	987	21	31	10	37	1.87
6254481--6254519	14	2.8	14	88	0	51	23	10	25	41	1.86
6256251--6256325	23	3.2	23	72	10	64	48	1	0	50	1.09
6256253--6256324	24	3.2	21	68	14	54	47	1	0	51	1.09
6259165--6259216	17	3.1	17	72	5	52	42	13	9	34	1.77
6259366--6259439	21	3.5	21	81	0	94	28	22	22	25	1.99
6259635--6259689	13	4.2	13	75	13	58	49	12	3	34	1.59
6259675--6259773	33	3.0	33	92	1	155	45	14	7	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6259768--6259807	21	1.9	21	94	0	71	47	7	15	30	1.72
6262083--6262128	12	3.6	12	81	16	56	17	19	17	45	1.85
6262082--6262121	15	2.9	14	85	14	57	20	17	15	47	1.83
6266122--6266260	55	2.5	55	90	0	215	25	15	25	34	1.94
6267023--6267126	45	2.3	45	83	3	129	22	8	27	41	1.83
6275569--6275744	64	2.7	65	84	7	234	27	13	25	33	1.93
6275941--6276040	49	2.0	50	86	9	143	57	5	21	17	1.59
6282105--6282157	28	2.0	28	85	7	74	9	37	3	49	1.53
6288482--6288879	197	2.0	200	98	1	766	45	6	20	28	1.75
6288860--6288926	20	3.4	19	77	20	75	62	1	16	19	1.40
6289041--6289080	20	1.9	20	85	10	53	62	2	7	27	1.35
6288838--6289200	155	2.3	157	86	4	491	49	5	17	26	1.68
6288789--6289200	159	2.6	158	83	4	521	47	5	18	28	1.71
6289594--6289640	25	1.9	25	86	4	69	27	21	4	46	1.69
6291369--6291419	16	3.1	16	94	2	84	43	5	5	45	1.52
6291369--6291419	17	3.1	17	94	5	86	43	5	5	45	1.52
6292470--6292542	30	2.5	29	76	8	76	57	10	12	19	1.64
6294305--6294366	3	20.7	3	77	12	65	64	3	0	32	1.09
6294889--6295001	40	2.7	41	81	9	131	23	20	32	23	1.98
6294579--6294991	134	3.1	132	89	2	619	23	18	32	24	1.97
6295949--6296079	30	4.1	30	71	21	106	41	12	11	33	1.79
6295931--6296062	67	2.0	66	95	1	237	43	12	12	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6296026--6296087	30	2.1	30	87	3	90	48	14	9	27	1.75
6296067--6296168	52	2.0	52	92	3	170	35	17	14	32	1.91
6296164--6296289	29	4.5	28	86	5	157	46	13	10	29	1.76
6296179--6296279	29	3.6	28	90	4	159	43	14	9	31	1.79
6296527--6296630	36	3.0	36	80	4	115	37	11	18	32	1.87
6296528--6296646	36	3.4	36	78	6	102	37	12	19	30	1.89
6297268--6297955	4	176.5	4	88	7	1044	25	0	24	50	1.53
6298487--6298513	13	2.1	13	100	0	54	14	7	44	33	1.73
6299756--6299848	45	2.1	45	89	0	141	37	9	25	26	1.87
6300992--6301182	95	2.0	95	100	0	382	24	23	15	37	1.93

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