genome.fa.s8105.2.7.7.80.10.50.1000.27.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   

This is table  27  of  30  ( 3521 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)
5192132--5192362	108	2.1	108	96	0	426	46	15	11	26	1.79
5192480--5192673	105	1.9	104	89	5	302	37	11	17	33	1.86
5192641--5192752	35	3.2	35	82	2	143	41	9	17	31	1.82
5193051--5193096	4	12.0	4	80	17	53	26	0	23	50	1.50
5194296--5194359	11	5.7	11	83	14	60	0	14	10	75	1.06
5194306--5194361	21	2.5	22	88	5	78	0	10	10	78	0.96
5194279--5194371	32	3.0	32	79	16	106	1	15	9	74	1.13
5194309--5194372	11	5.5	12	80	19	66	0	14	10	75	1.06
5196386--5196448	30	2.1	30	85	8	83	53	12	17	15	1.72
5197394--5197418	11	2.3	11	100	0	50	40	0	16	44	1.47
5199429--5199458	3	10.0	3	92	0	51	63	0	0	36	0.95
5199655--5199909	134	1.9	134	86	3	361	24	17	30	27	1.97
5200230--5200559	92	3.6	92	76	10	262	43	13	12	30	1.81
5200375--5200443	30	2.4	30	82	4	79	36	13	7	43	1.71
5200322--5200559	93	2.6	94	81	4	277	44	14	11	28	1.80
5200675--5200867	105	1.8	104	86	3	280	38	11	15	35	1.83
5200835--5200946	35	3.2	35	80	2	143	41	10	17	30	1.84
5201244--5201281	14	2.9	14	88	7	53	23	0	26	50	1.50
5202986--5203034	23	2.1	23	85	7	64	26	4	12	57	1.53
5206248--5206303	23	2.5	22	82	8	67	21	3	1	73	1.08
5209721--5209791	11	6.9	10	76	21	67	2	11	9	76	1.13
5209718--5209805	21	4.2	21	75	15	76	2	14	10	72	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5209734--5209797	11	5.7	11	81	7	76	1	12	9	76	1.08
5209731--5209791	32	1.9	32	90	6	97	1	11	9	77	1.07
5209736--5209809	11	6.2	12	78	15	57	1	14	9	74	1.13
5209738--5209810	33	2.2	33	83	9	87	1	15	10	72	1.18
5214799--5214843	19	2.3	20	92	7	76	0	13	4	82	0.82
5214801--5214849	20	2.4	20	83	10	64	0	12	6	81	0.86
5216720--5217024	129	2.4	129	90	1	477	25	21	21	31	1.98
5228184--5228221	3	12.7	3	100	0	76	68	0	0	31	0.90
5229033--5229084	9	5.8	9	80	10	54	73	0	1	25	0.94
5230324--5230479	79	2.0	79	87	1	224	34	14	12	39	1.83
5231319--5231371	21	2.5	21	81	6	72	20	26	18	33	1.96
5231361--5231412	21	2.5	21	87	3	70	38	17	23	21	1.93
5231401--5231495	20	4.7	20	83	7	111	33	26	18	21	1.96
5231398--5231475	41	1.9	41	94	0	138	37	25	17	19	1.94
5231401--5231515	20	5.7	20	79	9	99	34	25	18	21	1.96
5231682--5231725	22	2.0	22	95	0	79	20	45	15	18	1.85
5231988--5232046	20	3.0	20	87	0	73	15	18	22	44	1.87
5233367--5233414	18	2.7	18	90	0	78	27	43	14	14	1.84
5233947--5234013	20	3.4	20	81	2	73	38	23	22	14	1.92
5234002--5234060	14	3.9	14	74	20	55	47	25	16	10	1.78
5233986--5234077	33	2.8	33	94	0	157	45	22	19	11	1.83
5233986--5234082	19	5.6	19	68	22	79	44	22	20	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5234094--5234152	14	3.9	14	74	20	55	10	15	23	50	1.74
5234089--5234168	33	2.4	33	95	0	142	11	17	22	48	1.78
5234110--5234187	19	4.4	19	71	15	67	14	19	21	44	1.85
5234153--5234226	20	3.8	19	91	5	112	16	25	24	33	1.95
5234154--5234252	20	5.1	19	85	6	81	21	20	25	33	1.97
5234154--5234246	40	2.4	39	82	7	100	18	21	25	34	1.96
5235936--5235972	14	2.6	14	86	0	56	32	0	18	48	1.49
5236079--5236144	19	3.7	19	76	19	79	45	21	22	10	1.82
5236150--5236300	19	8.7	19	69	21	98	13	23	19	44	1.85
5236175--5236262	14	5.6	14	66	23	50	13	22	18	45	1.84
5236154--5236280	33	3.8	33	90	0	209	13	22	18	45	1.84
5236156--5236280	66	1.9	66	96	0	232	13	22	17	46	1.83
5236253--5236307	20	2.8	19	83	2	65	18	21	21	38	1.94
5236274--5236346	20	3.6	20	71	10	67	24	19	23	32	1.97
5239571--5239708	41	3.4	41	76	6	145	22	18	23	34	1.96
5239591--5239705	20	5.7	20	81	6	115	23	19	25	32	1.97
5239632--5239726	41	2.3	41	85	3	120	20	20	25	34	1.96
5239738--5239787	21	2.4	22	80	6	68	36	18	26	20	1.95
5240535--5240625	28	3.4	27	73	21	102	52	3	1	42	1.24
5245123--5245156	16	2.1	16	88	0	50	50	0	2	47	1.16
5245198--5245231	16	2.0	18	88	11	54	26	2	5	64	1.30
5245699--5245946	130	1.9	130	92	0	415	35	13	15	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5246342--5246417	35	2.2	35	92	0	125	35	1	23	39	1.63
5247775--5247886	39	2.8	39	91	1	188	29	9	13	47	1.75
5248079--5248193	54	2.1	54	85	0	149	33	21	14	29	1.94
5248094--5248316	54	4.2	54	76	8	183	39	18	13	29	1.88
5250763--5250887	39	3.1	39	91	3	196	28	10	13	47	1.76
5251065--5251179	54	2.1	54	83	0	140	35	21	13	28	1.92
5266090--5266139	18	2.8	18	77	14	50	26	2	2	70	1.09
5268933--5269098	64	2.6	64	79	10	160	37	15	15	31	1.88
5272486--5272520	18	1.9	18	88	0	52	28	17	0	54	1.43
5284250--5284299	21	2.4	21	83	12	68	22	10	20	48	1.79
5284228--5284305	34	2.3	35	84	6	97	19	12	19	48	1.80
5284895--5284959	28	2.3	29	76	7	71	20	13	18	47	1.82
5289499--5289530	2	16.5	2	93	6	57	50	0	0	50	1.00
5291995--5292049	13	4.9	10	76	23	56	63	0	0	36	0.95
5291998--5292043	13	3.8	13	83	16	71	65	0	0	34	0.93
5291995--5292049	23	2.4	23	100	0	110	63	0	0	36	0.95
5297957--5297983	13	2.1	13	100	0	54	33	29	22	14	1.94
5299395--5299444	18	2.8	18	79	11	57	68	4	2	26	1.18
5299385--5299444	28	2.2	27	82	8	68	65	3	1	30	1.19
5299524--5299555	2	16.5	2	93	6	57	50	0	0	50	1.00
5301747--5301778	2	16.5	2	93	6	57	50	0	0	50	1.00
5302621--5302669	21	2.3	21	100	0	98	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5304541--5304574	16	2.0	18	88	11	54	64	5	0	29	1.17
5311256--5311302	16	2.9	16	78	12	51	65	2	2	29	1.15
5311243--5311283	18	2.2	19	86	4	57	65	0	0	34	0.93
5313602--5313640	21	1.9	21	89	5	62	43	25	10	20	1.83
5317080--5317119	2	20.5	2	89	5	64	45	0	2	52	1.14
5317133--5317207	18	4.1	18	71	19	57	22	5	1	70	1.15
5319283--5319324	19	2.2	19	95	0	75	23	9	30	35	1.87
5319912--5319954	18	2.3	19	88	4	61	67	2	2	27	1.15
5319903--5319971	27	2.6	25	82	15	77	66	1	1	30	1.09
5324169--5324222	11	4.4	13	77	15	53	72	0	1	25	0.95
5324188--5324225	15	2.3	16	86	13	51	76	0	0	23	0.79
5324942--5325041	37	2.7	37	83	6	139	31	14	16	39	1.87
5325788--5326626	106	7.9	106	91	1	1331	22	17	25	34	1.96
5327443--5327519	22	3.5	22	90	0	127	22	14	25	37	1.92
5327915--5328245	167	2.0	165	88	8	488	26	17	19	36	1.94
5328289--5328361	32	2.4	29	80	15	76	2	10	6	79	1.02
5328320--5328365	24	2.0	24	84	12	62	2	8	6	82	0.91
5332953--5333003	18	2.8	17	82	14	57	74	0	7	17	1.05
5333083--5333145	20	3.1	20	76	21	60	66	0	3	30	1.07
5333114--5333138	12	2.1	12	100	0	50	68	0	0	32	0.90
5333092--5333163	10	6.6	12	73	22	52	65	0	2	31	1.07
5333091--5333160	22	3.3	21	76	7	70	65	0	2	31	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5333221--5333283	28	2.2	28	83	13	76	65	3	11	20	1.38
5333344--5333381	10	4.1	9	86	13	51	65	0	0	34	0.93
5333344--5333381	18	2.1	18	85	14	51	65	0	0	34	0.93
5333379--5333408	2	15.0	2	92	0	51	50	3	0	46	1.18
5333816--5333900	37	2.3	37	89	0	125	31	11	14	42	1.81
5336559--5336758	67	2.8	71	85	9	223	27	2	11	59	1.42
5355004--5355055	6	8.3	6	83	8	68	19	15	15	50	1.79
5355007--5355055	19	2.6	19	90	0	80	20	16	16	46	1.83
5355004--5355055	13	4.2	12	80	9	68	19	15	15	50	1.79
5359902--5359998	42	2.3	41	85	1	131	22	23	22	30	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