genome.fa.s8620.2.7.7.80.10.50.1000.64.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   

This is table  64  of  64  ( 7674 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)
12982221--12982264	21	2.1	21	87	4	63	52	11	9	27	1.67
12985270--12985311	21	2.0	22	90	4	68	23	23	26	26	2.00
12985357--12985421	20	3.2	20	86	6	87	27	20	32	20	1.97
12985448--12985508	20	3.0	20	73	7	68	24	19	31	24	1.98
12999964--13000063	39	2.6	39	90	1	157	18	29	24	29	1.98
13016424--13016474	22	2.3	22	96	0	93	33	13	23	29	1.93
13016552--13016687	68	2.0	69	97	2	258	50	5	3	40	1.44
13023796--13023849	21	2.5	22	78	6	65	29	7	22	40	1.81
13030794--13030889	43	2.2	43	81	7	113	23	12	7	56	1.61
13030778--13031139	44	8.2	44	72	11	165	25	16	5	52	1.64
13030973--13031139	45	3.8	43	75	10	140	25	17	3	53	1.60
13035380--13035726	117	3.0	117	84	3	470	34	18	8	38	1.81
13036851--13036900	23	2.2	23	96	0	91	20	26	24	30	1.98
13037021--13037080	31	1.9	31	89	0	93	40	5	10	45	1.60
13037072--13037204	40	3.3	40	74	13	132	54	13	0	32	1.40
13037135--13037532	54	7.3	54	83	6	516	53	12	0	34	1.40
13037184--13037226	22	2.0	22	95	0	77	51	11	0	37	1.39
13037186--13037234	22	2.2	22	85	3	62	55	12	0	32	1.37
13037094--13037657	134	4.2	134	84	7	805	53	12	0	34	1.41
13037296--13037360	22	3.0	22	88	0	103	53	9	0	36	1.33
13037318--13037478	86	1.9	86	92	2	270	54	11	0	34	1.36
13037404--13037446	22	2.0	22	100	0	86	51	13	0	34	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13037269--13037612	108	3.1	108	81	9	428	53	12	0	33	1.42
13037458--13037500	22	2.0	22	100	0	86	51	13	0	34	1.42
13037461--13037509	22	2.2	22	88	0	71	57	14	0	28	1.38
13037152--13037612	220	2.1	218	90	4	712	52	13	0	33	1.42
13037463--13037612	80	1.9	80	95	0	273	52	14	0	32	1.47
13037543--13037588	22	2.0	22	87	4	65	54	15	0	30	1.41
13037095--13037657	274	2.1	268	87	5	803	53	12	0	33	1.41
13037543--13037657	54	2.1	54	100	0	230	53	12	0	34	1.39
13037592--13037692	22	4.5	22	71	7	94	51	9	0	38	1.35
13037637--13037799	15	10.5	15	83	9	184	49	1	0	48	1.16
13037636--13037799	45	3.5	45	85	6	213	48	1	0	48	1.16
13038866--13039409	192	2.8	192	87	5	783	35	19	17	26	1.95
13048396--13048473	39	2.0	40	87	2	113	48	14	15	21	1.80
13049856--13049899	16	2.7	17	79	10	56	13	6	22	56	1.61
13051646--13051755	43	2.6	43	88	0	175	24	18	8	49	1.74
13053503--13053538	18	2.0	18	88	0	54	22	33	5	38	1.77
13059153--13059191	6	6.7	6	91	5	62	53	0	33	12	1.39
13060347--13060388	21	2.0	21	100	0	84	47	19	4	28	1.69
13064603--13064986	189	2.0	189	98	0	750	25	23	19	32	1.98
13069041--13069079	15	2.7	15	92	4	62	82	0	7	10	0.86
13070929--13071337	85	4.9	84	88	2	547	27	20	19	32	1.97
13072755--13072958	99	2.1	98	91	2	331	31	17	16	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13077111--13077183	27	2.6	27	73	8	65	78	2	8	10	1.07
13078786--13078895	25	3.8	29	71	17	95	42	10	7	39	1.68
13079316--13079376	24	2.8	20	73	22	59	67	0	1	31	1.01
13082335--13082444	55	2.0	55	85	7	152	33	14	10	41	1.79
13087766--13087814	25	2.0	23	92	7	80	59	8	4	28	1.45
13093340--13093464	29	4.2	29	70	15	78	41	9	10	38	1.72
13093318--13093404	29	2.9	30	70	16	72	35	11	13	39	1.81
13093318--13093444	58	2.2	59	84	5	159	36	11	12	39	1.80
13095541--13095570	14	2.1	14	93	0	51	63	13	0	23	1.29
13101771--13101846	31	2.4	32	86	2	100	36	0	6	56	1.25
13103458--13103492	17	2.1	17	94	0	61	51	0	0	48	1.00
13107008--13107063	3	19.3	3	89	7	80	37	0	0	62	0.95
13107008--13107063	17	3.2	17	90	7	78	37	0	0	62	0.95
13113285--13113467	97	1.9	96	89	1	285	33	16	16	32	1.92
13115617--13116093	62	7.7	61	84	3	485	27	21	16	34	1.95
13115617--13116093	186	2.6	186	84	2	582	27	21	16	34	1.95
13116265--13117064	55	15.5	55	67	17	316	30	19	18	32	1.95
13116217--13117982	102	17.4	102	81	6	1815	29	19	18	32	1.96
13116426--13116710	149	1.9	149	85	0	390	30	19	16	32	1.94
13117886--13118025	55	2.5	55	84	2	192	31	18	17	32	1.95
13118148--13118180	17	1.9	17	88	11	50	36	0	0	63	0.95
13120641--13120940	21	14.6	21	75	10	282	20	20	24	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13120646--13120954	61	5.0	62	81	11	275	21	20	23	35	1.96
13120666--13120940	103	2.7	102	93	3	457	20	20	24	34	1.96
13120666--13120954	145	2.0	143	91	1	461	21	20	23	35	1.96
13121544--13121574	5	6.4	5	96	3	55	0	41	22	35	1.54
13121575--13121610	6	6.3	6	96	3	58	0	16	55	27	1.42
13121608--13121736	23	6.0	23	71	15	116	37	22	20	20	1.95
13121616--13121775	21	7.6	21	78	9	157	35	24	20	20	1.96
13121624--13121748	42	3.0	42	95	2	218	36	24	20	20	1.95
13121624--13121775	42	3.7	41	90	5	209	34	23	21	20	1.96
13127824--13127890	15	4.4	15	77	15	75	37	1	1	59	1.16
13127831--13127894	31	2.3	26	75	25	69	40	1	1	56	1.18
13129262--13129317	29	1.9	29	81	0	67	37	3	17	41	1.67
13129328--13129372	24	2.0	23	82	8	56	35	4	4	55	1.40
13129387--13129444	29	2.0	30	89	3	91	31	5	17	46	1.70
13138170--13138221	21	2.5	21	81	3	61	38	19	25	17	1.93
13138210--13138303	20	4.7	20	80	7	100	34	24	18	23	1.96
13138817--13138902	19	4.5	18	87	8	100	47	26	16	9	1.76
13138817--13138902	38	2.2	39	85	6	113	47	26	16	9	1.76
13141202--13141226	12	2.1	12	100	0	50	0	28	0	72	0.86
13141401--13141454	24	2.2	24	90	0	81	38	20	16	24	1.92
13142471--13142521	20	2.5	20	100	0	102	33	27	23	15	1.95
13142547--13142652	19	5.8	19	88	7	159	15	20	16	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13142647--13142684	20	1.9	20	94	0	67	15	21	23	39	1.92
13142770--13142806	14	2.6	14	86	0	56	48	21	0	29	1.50
13144654--13144738	20	4.4	19	80	4	71	41	24	18	15	1.89
13144673--13144739	19	3.5	19	81	4	80	38	23	22	14	1.92
13144728--13144785	14	3.9	14	75	16	62	48	22	17	12	1.80
13144712--13144790	32	2.4	33	91	2	133	46	21	18	12	1.82
13144819--13144876	14	3.9	14	79	16	71	10	17	24	48	1.78
13144802--13144892	32	2.8	33	94	3	166	12	18	21	47	1.81
13144877--13144931	20	2.8	19	83	8	65	16	23	23	36	1.94
13145002--13145101	50	2.0	50	100	0	200	54	18	12	16	1.72
13145465--13145507	18	2.4	18	84	0	59	16	16	41	25	1.88
13147117--13147165	22	2.3	21	89	6	73	24	14	40	20	1.89
13147355--13147407	20	2.7	20	93	0	88	24	18	28	28	1.98
13147335--13147449	20	5.7	20	77	5	79	23	18	23	34	1.96
13147375--13147452	41	1.9	41	83	0	102	21	17	21	38	1.93
13147444--13147512	21	3.3	21	79	4	95	15	24	18	40	1.90
13147438--13147529	41	2.3	41	94	1	123	17	25	18	39	1.92
13153077--13153132	23	2.5	23	80	8	62	44	1	1	51	1.22
13155278--13155330	21	2.5	21	84	6	72	20	22	18	37	1.94
13155320--13155360	20	2.0	20	100	0	82	39	19	19	21	1.93
13155571--13155636	22	3.0	22	86	0	96	24	37	15	22	1.92
13156006--13156053	20	2.4	20	85	0	60	16	14	25	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13156021--13156063	20	2.2	20	86	0	59	13	13	20	51	1.76
13157975--13158061	20	4.3	20	89	0	129	40	21	17	20	1.92
13157908--13158008	33	3.0	33	76	9	98	47	20	17	13	1.82
13158105--13158229	20	6.3	20	89	3	157	21	20	20	37	1.94

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   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64

The End!