genome.fa.s1465.2.7.7.80.10.50.1000.47.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  47  of  55  ( 6520 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)
9462361--9462418	21	2.6	23	83	10	75	34	22	17	25	1.96
9462361--9462420	24	2.6	24	84	10	81	35	21	16	26	1.95
9462878--9462918	14	2.8	16	85	14	61	43	0	29	26	1.55
9463581--9463611	3	10.3	3	100	0	62	32	0	0	67	0.91
9463849--9463881	2	16.5	2	100	0	66	48	0	0	51	1.00
9464145--9464203	25	2.3	25	80	11	66	55	1	0	42	1.09
9467292--9467787	138	3.6	138	91	0	776	22	20	22	34	1.97
9467832--9467894	23	2.7	23	95	0	108	49	0	17	33	1.47
9468653--9468722	21	3.3	21	80	7	79	28	24	27	20	1.99
9472575--9472634	29	2.1	29	96	0	111	25	28	28	18	1.98
9472728--9472806	32	2.5	32	95	0	149	27	27	34	10	1.89
9472793--9472887	29	3.3	29	95	0	163	13	30	32	23	1.93
9472922--9473016	48	2.0	48	95	4	174	18	37	18	24	1.94
9477647--9477688	16	2.4	18	80	11	52	0	4	11	83	0.79
9477624--9477687	12	5.4	11	78	14	65	0	6	9	84	0.78
9478960--9478998	16	2.3	18	86	8	55	38	0	5	56	1.22
9479233--9479309	34	2.3	33	82	10	95	41	0	11	46	1.40
9479352--9479384	8	4.1	8	96	0	57	21	0	15	63	1.30
9479362--9479412	15	3.4	16	79	17	56	35	0	9	54	1.33
9481543--9481575	17	1.9	17	93	0	57	45	12	6	36	1.66
9481560--9481627	22	3.0	22	68	16	66	45	7	5	41	1.56
9481783--9481822	14	2.9	14	88	3	55	47	5	2	45	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9481832--9482004	26	6.9	26	75	11	155	45	8	2	43	1.49
9481765--9482117	12	28.9	12	67	14	66	45	8	2	43	1.49
9481832--9482183	123	2.9	124	95	2	631	44	9	2	43	1.50
9481928--9482129	26	8.1	26	79	13	201	42	10	3	43	1.55
9481835--9482104	97	2.8	96	83	11	304	44	9	2	43	1.50
9482027--9482189	26	6.8	23	77	8	80	42	9	2	45	1.49
9485018--9485078	26	2.4	24	76	15	59	42	1	6	49	1.38
9485310--9485372	17	3.5	17	75	12	72	50	11	0	38	1.38
9485442--9485468	14	1.9	14	100	0	54	74	14	3	7	1.18
9485439--9485471	17	1.9	17	88	11	50	72	15	3	9	1.21
9485868--9485916	21	2.3	21	82	3	62	51	18	0	30	1.47
9486344--9486411	35	1.9	35	93	0	118	25	16	30	27	1.96
9486451--9486475	12	2.1	12	100	0	50	24	60	0	16	1.36
9486469--9486539	29	2.4	29	97	0	133	19	33	25	21	1.97
9486759--9486847	29	3.0	30	95	3	155	17	26	37	17	1.93
9488015--9488039	13	1.9	13	100	0	50	0	8	28	64	1.22
9491417--9491450	18	1.9	18	88	5	52	17	26	29	26	1.98
9491629--9491667	18	2.4	16	87	12	53	51	7	0	41	1.31
9491628--9491686	30	2.0	30	83	12	77	49	6	0	44	1.29
9501276--9501350	40	2.0	36	85	15	98	61	5	6	26	1.43
9507787--9507848	30	2.1	29	85	11	83	48	4	6	40	1.50
9514186--9514244	27	2.2	27	81	3	66	38	3	18	38	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9516217--9516285	29	2.4	29	90	0	111	43	2	18	34	1.65
9523237--9523314	22	3.5	22	87	3	111	21	35	24	17	1.95
9525502--9525529	13	2.2	13	100	0	56	50	28	0	21	1.49
9527779--9527841	20	2.9	21	79	9	65	15	25	34	23	1.95
9536908--9536946	18	2.2	18	86	4	53	46	0	2	51	1.14
9537502--9538028	257	2.0	255	89	6	814	25	12	21	40	1.89
9537571--9538033	261	1.8	258	87	6	645	27	13	18	40	1.88
9538389--9538439	18	2.9	17	77	8	57	27	27	7	37	1.84
9559176--9559213	20	1.9	20	94	0	67	13	26	34	26	1.93
9568998--9569114	52	2.2	52	84	3	155	48	15	8	27	1.74
9570431--9570480	2	25.0	2	95	0	91	48	0	2	50	1.12
9571841--9571883	3	14.0	3	95	4	77	65	0	0	34	0.93
9572227--9572769	45	12.0	45	93	1	879	34	19	22	23	1.96
9573427--9573526	22	4.6	22	91	1	157	37	12	15	36	1.84
9574255--9574427	75	2.3	74	85	4	220	28	21	18	30	1.97
9574402--9574496	40	2.4	38	81	10	95	23	26	14	35	1.93
9576462--9576605	72	2.0	72	91	0	234	36	17	18	27	1.93
9579085--9579126	20	2.2	19	86	4	57	71	9	4	14	1.28
9579110--9579150	6	6.0	7	78	16	50	58	12	14	14	1.63
9579103--9579146	13	3.2	13	83	6	52	63	11	11	13	1.52
9582315--9582344	2	15.0	2	92	0	51	46	0	3	50	1.18
9593017--9593091	22	3.5	21	70	15	64	25	17	24	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9593003--9593069	20	3.3	20	71	17	66	20	22	25	31	1.98
9592996--9593664	42	15.5	42	68	14	315	28	18	22	30	1.97
9593180--9593250	20	3.5	19	69	16	52	22	21	23	32	1.98
9593145--9593450	93	3.4	84	83	11	305	29	17	21	31	1.97
9593227--9593450	93	2.4	92	93	0	385	30	17	21	30	1.96
9593009--9593626	134	4.7	132	74	12	569	28	18	22	30	1.97
9593549--9593615	22	3.1	21	67	16	57	26	19	20	32	1.97
9594038--9594391	53	6.7	53	87	2	475	28	18	29	23	1.98
9594038--9594391	105	3.4	106	86	3	484	28	18	29	23	1.98
9594038--9594402	158	2.3	158	87	3	504	28	18	29	23	1.98
9600495--9600529	17	2.1	17	94	0	61	57	8	0	34	1.29
9601878--9601933	29	2.0	29	86	10	80	58	7	1	32	1.35
9602604--9602721	51	2.3	51	85	4	150	17	29	27	24	1.97
9602990--9603102	53	2.3	48	86	13	153	36	1	13	48	1.53
9603015--9603098	24	3.2	26	63	21	66	38	2	13	46	1.56
9604372--9604415	18	2.4	18	81	7	54	22	31	18	27	1.97
9604882--9604953	26	3.0	24	68	27	62	26	6	4	62	1.39
9609991--9610077	35	2.5	34	80	12	97	54	10	8	27	1.62
9612188--9612405	111	2.0	111	93	0	373	44	9	7	38	1.65
9618047--9618121	28	2.6	28	83	8	80	49	8	12	30	1.68
9618069--9618127	28	2.1	28	83	0	73	45	10	18	25	1.81
9626780--9626822	21	2.0	21	100	0	86	30	9	23	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9637933--9637972	19	2.1	19	90	9	64	47	5	2	45	1.38
9638188--9638221	18	1.9	18	88	5	52	52	8	0	38	1.33
9638586--9638648	23	2.7	23	90	0	90	47	4	17	30	1.68
9638599--9638879	30	9.7	27	74	14	138	50	1	10	37	1.47
9638638--9638879	88	2.7	88	78	6	220	51	0	9	37	1.41
9640402--9640466	28	2.4	27	78	9	71	46	0	1	52	1.10
9643903--9644139	20	11.8	20	69	11	108	35	14	21	28	1.93
9643922--9644049	60	2.1	60	85	0	166	37	14	21	25	1.92
9643933--9644071	60	2.3	60	82	0	152	40	12	21	25	1.89
9643903--9644151	40	6.2	41	73	12	151	34	14	22	28	1.93
9644018--9644214	82	2.5	80	80	5	209	30	13	22	33	1.93
9644100--9644151	20	2.6	19	76	8	59	26	17	25	30	1.97
9644142--9644191	20	2.5	20	86	0	73	22	14	26	38	1.91
9648611--9648740	64	2.0	65	92	1	217	38	19	1	40	1.61
9649153--9649204	20	2.6	20	96	0	95	38	26	13	21	1.90
9649260--9649453	20	9.6	20	76	8	76	35	25	19	19	1.95
9649256--9649453	40	5.0	39	81	4	200	35	26	19	19	1.95
9649260--9649452	60	3.2	60	83	0	251	35	25	19	19	1.95
9649833--9649903	33	2.2	33	92	0	115	11	22	18	47	1.80
9650024--9650078	14	3.6	14	73	21	56	41	23	25	9	1.83
9650024--9650094	33	2.2	33	94	0	124	43	25	22	8	1.81
9650090--9650187	19	5.7	19	70	22	81	10	24	22	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9650112--9650201	14	5.7	14	74	23	81	8	25	23	42	1.83
9650095--9650209	33	3.5	33	95	0	212	9	24	20	45	1.81
9651907--9652564	93	7.1	93	99	0	1293	22	12	18	46	1.83
9652644--9652736	33	2.8	32	91	4	150	46	27	18	7	1.76
9652608--9652736	52	2.5	52	73	14	131	45	27	17	9	1.78
9652608--9652736	19	7.3	19	73	17	116	45	27	17	9	1.78
9652732--9652866	19	7.6	19	75	16	128	11	20	23	45	1.83
9652737--9652829	33	2.8	33	93	3	161	10	21	21	46	1.81
9654792--9654827	14	2.6	14	95	0	63	33	0	22	44	1.53
9654934--9655014	19	4.6	18	85	14	116	44	18	22	14	1.86

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