genome.fa.s9639.2.7.7.80.10.50.1000.54.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  54  of  62  ( 7398 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)
12906032--12906068	16	2.3	16	90	9	58	64	5	2	27	1.28
12909502--12909552	16	3.2	16	71	20	52	49	27	11	11	1.74
12910659--12910734	22	3.3	23	83	9	93	57	31	1	9	1.38
12920570--12920616	23	2.0	23	84	8	60	57	14	2	25	1.49
12922453--12922489	16	2.3	16	95	0	65	5	13	40	40	1.67
12923896--12923948	27	2.0	27	88	3	81	66	0	22	11	1.24
12924216--12924252	17	2.2	18	90	9	60	78	0	2	18	0.87
12930755--12930804	23	2.2	23	82	7	57	58	14	2	26	1.47
12933265--12933299	16	2.2	16	90	10	54	65	5	2	25	1.28
12937411--12937435	13	1.9	13	100	0	50	24	4	0	72	1.02
12947033--12947058	2	13.0	2	100	0	52	50	0	0	50	1.00
12951603--12951702	36	2.8	36	90	3	157	41	21	19	19	1.91
12951888--12951940	3	17.7	3	77	14	56	39	0	0	60	0.97
12951888--12951948	24	2.5	24	78	5	70	39	1	0	59	1.08
12953079--12953150	2	36.0	2	100	0	144	50	0	0	50	1.00
12953251--12953323	25	3.1	24	71	25	66	39	1	1	57	1.16
12958353--12958505	65	2.4	64	85	5	193	27	21	17	33	1.96
12963908--12964009	20	4.9	20	72	11	71	33	21	19	25	1.97
12963949--12964010	21	3.0	21	85	2	81	30	22	19	27	1.98
12964347--12964375	13	2.2	13	100	0	58	41	24	0	34	1.55
12966319--12966354	13	2.8	14	84	16	51	41	8	8	41	1.65
12966583--12966738	65	2.4	65	82	3	190	28	21	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12973327--12973714	123	3.2	119	79	6	431	36	15	11	36	1.83
12973332--12973771	123	3.6	122	79	5	324	37	15	11	36	1.83
12974376--12974449	26	2.8	26	91	6	114	32	2	14	50	1.58
12974393--12974440	14	3.6	14	72	11	55	29	4	14	52	1.60
12976394--12976420	3	9.0	3	100	0	54	66	0	0	33	0.92
12978708--12978748	13	3.1	13	86	6	55	19	24	17	39	1.92
12980349--12980394	24	1.9	24	95	0	83	15	28	36	19	1.92
12980353--12980406	24	2.2	24	86	0	72	12	29	40	16	1.86
12988393--12988442	2	25.0	2	100	0	100	50	0	0	50	1.00
12988845--12988910	30	2.2	30	97	0	123	28	28	12	30	1.93
12989283--12989311	14	2.0	15	93	6	51	34	3	6	55	1.44
12993698--12993990	21	13.9	21	72	16	119	22	19	23	35	1.96
12993765--12993987	42	5.3	42	92	2	365	21	18	23	37	1.94
12993765--12993990	86	2.7	85	91	2	366	21	18	23	36	1.95
12994080--12994116	6	6.5	6	90	9	60	32	54	13	0	1.40
12994873--12994959	19	4.2	20	77	11	88	31	20	24	24	1.98
12994873--12994951	21	3.8	21	79	9	90	30	22	24	22	1.99
12994963--12995015	21	2.5	21	84	0	70	18	18	32	30	1.96
12995404--12995436	3	10.7	3	93	6	57	33	0	0	66	0.92
12995707--12995755	19	2.6	19	93	0	89	18	40	22	18	1.91
12996678--12998628	81	24.1	81	89	1	2710	31	22	11	35	1.89
12998774--12998937	55	3.0	55	93	0	274	37	15	9	37	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13003420--13004179	81	9.4	81	83	2	841	30	21	11	36	1.90
13003419--13004179	162	4.7	162	85	1	936	29	21	11	36	1.90
13004136--13004224	45	2.0	45	91	4	144	35	25	10	28	1.88
13004180--13005120	81	11.6	81	88	0	1382	31	22	11	35	1.89
13003976--13004370	207	1.9	207	88	0	601	31	22	11	34	1.89
13005251--13005369	55	2.2	55	84	3	159	37	15	10	36	1.82
13006801--13006854	26	2.0	27	82	10	67	61	7	29	1	1.34
13012200--13012235	2	18.0	2	100	0	72	50	0	0	50	1.00
13012235--13012303	2	34.5	2	100	0	138	0	0	49	50	1.00
13013320--13013353	16	2.1	16	94	0	59	52	29	0	17	1.45
13013673--13013791	36	3.2	36	82	8	141	32	15	13	37	1.87
13013827--13014088	66	4.0	66	83	3	285	24	20	14	39	1.90
13019064--13019095	13	2.6	12	90	9	55	56	0	15	28	1.40
13026322--13026566	134	1.8	134	85	1	348	25	33	18	22	1.97
13033322--13033373	22	2.4	22	96	0	95	21	32	21	25	1.98
13033419--13033465	23	2.0	23	100	0	94	21	31	12	34	1.91
13045254--13045320	21	3.0	23	80	14	77	2	22	0	74	0.95
13045262--13045299	3	12.7	3	88	0	58	0	26	0	73	0.83
13045265--13045329	21	3.1	20	82	12	69	3	20	1	75	1.02
13048092--13048266	44	3.9	45	85	4	239	30	23	8	38	1.83
13048382--13048500	58	2.1	57	82	1	139	30	25	15	29	1.95
13048785--13048832	24	2.0	24	87	0	69	41	10	16	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13055783--13055821	20	2.0	20	89	0	60	33	23	10	33	1.88
13060408--13060460	20	2.7	20	93	0	88	39	13	28	18	1.88
13061093--13061205	23	5.0	23	90	4	176	22	23	25	29	1.99
13061093--13061219	23	5.7	23	88	5	165	21	22	26	29	1.99
13070764--13070846	23	3.7	23	83	3	98	28	19	25	26	1.98
13071646--13072116	81	5.9	78	84	4	457	31	19	12	36	1.89
13071646--13072124	162	3.0	161	85	2	572	31	19	12	36	1.89
13078678--13079169	81	6.1	81	85	2	578	31	21	9	36	1.86
13078678--13079169	162	3.0	162	86	2	650	31	21	9	36	1.86
13079445--13079492	19	2.5	19	93	0	78	25	22	12	39	1.89
13082425--13082484	30	2.0	30	100	0	120	40	16	16	26	1.90
13084027--13084051	11	2.3	11	100	0	50	0	56	16	28	1.41
13091007--13091055	15	3.2	15	77	13	55	77	0	12	10	0.99
13091978--13092242	101	2.6	101	88	3	379	37	17	19	25	1.94
13093392--13093426	7	5.0	7	100	0	70	28	0	0	71	0.86
13096183--13096304	64	1.9	65	89	1	192	36	5	18	40	1.74
13101982--13102098	7	16.1	7	83	11	96	76	0	12	10	1.01
13102060--13102090	16	1.9	16	100	0	62	77	0	9	12	0.99
13102016--13102102	16	5.5	15	73	22	54	79	0	12	8	0.93
13103027--13103295	105	2.6	102	83	4	340	38	15	19	26	1.91
13107292--13107375	20	4.2	20	89	0	123	26	26	22	25	2.00
13107561--13107602	22	1.9	22	90	0	66	28	42	9	19	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13107988--13108061	19	3.8	20	80	5	80	14	16	21	47	1.82
13109389--13109438	18	2.8	18	96	0	91	28	44	16	12	1.83
13109806--13109855	18	2.8	18	93	0	91	32	18	6	44	1.74
13110003--13110070	20	3.4	20	85	0	82	39	25	16	19	1.91
13110118--13110219	20	5.2	20	83	4	111	18	18	24	38	1.93
13111179--13111240	14	4.3	14	73	6	52	38	1	14	45	1.55
13111415--13111672	20	13.9	20	73	14	131	25	18	22	34	1.96
13111366--13111610	74	3.3	74	85	1	314	24	19	22	33	1.97
13111509--13111661	54	2.9	54	90	1	227	22	16	24	35	1.94
13111435--13111665	127	1.8	127	85	3	331	24	17	23	34	1.96
13111643--13111912	140	1.9	140	95	0	486	42	15	12	28	1.84
13111972--13112006	18	1.9	18	94	0	61	17	2	25	54	1.57
13114042--13114078	14	2.6	14	91	4	56	5	21	21	51	1.68
13114268--13114321	24	2.2	24	93	0	90	40	20	18	20	1.91
13115141--13115275	20	6.8	20	86	3	121	28	17	21	32	1.96
13115584--13115613	10	3.0	10	95	0	51	46	0	0	53	1.00
13119801--13119840	2	20.0	2	100	0	80	50	0	0	50	1.00
13122898--13122959	23	2.7	23	94	2	106	38	4	8	48	1.54
13129292--13129330	14	2.8	14	88	11	62	53	0	0	46	1.00
13129294--13129335	13	3.1	13	80	19	50	57	0	0	42	0.99
13130102--13130146	20	2.2	21	88	4	65	40	15	0	44	1.47
13130131--13130273	2	71.5	2	75	14	102	42	7	1	48	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13130122--13130181	14	4.1	14	84	16	86	38	11	0	50	1.39
13131726--13131793	19	3.6	19	91	0	100	33	20	22	23	1.97
13132347--13132469	31	4.0	31	90	0	174	21	17	23	38	1.93
13133003--13133046	21	2.1	21	91	0	70	27	22	25	25	2.00
13133090--13133139	20	2.5	20	80	3	57	40	16	6	38	1.73
13133633--13133671	19	2.1	19	95	0	69	25	30	15	28	1.96
13133622--13133802	65	2.8	64	79	9	199	28	23	19	29	1.98
13133760--13133802	19	2.4	19	84	7	54	23	27	20	27	1.99
13135721--13135760	21	1.9	21	90	10	64	47	0	10	42	1.37
13141895--13141933	19	2.1	19	90	0	60	25	33	15	25	1.95

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