genome.fa.s8620.2.7.7.80.10.50.1000.60.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  60  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)
12200491--12200524	17	1.9	18	88	5	52	17	17	20	44	1.87
12203299--12203355	20	2.8	21	84	15	75	75	0	22	1	0.90
12203299--12203348	3	17.0	3	76	12	50	74	0	24	2	0.93
12203719--12203767	19	2.8	17	81	9	55	36	10	6	46	1.63
12204061--12204283	114	2.0	114	89	0	347	34	14	20	30	1.92
12204974--12205629	218	3.0	215	86	8	813	38	12	17	30	1.88
12204974--12205629	108	5.9	110	86	9	807	38	12	17	30	1.88
12205564--12205627	20	3.2	20	63	20	53	42	9	23	25	1.84
12205426--12205666	121	2.0	122	90	5	382	39	14	17	28	1.89
12205852--12205902	3	16.7	3	88	11	77	33	0	0	66	0.92
12205852--12205902	24	2.1	25	92	3	86	33	0	0	66	0.92
12207335--12207556	115	1.9	115	81	5	270	39	8	8	44	1.64
12208114--12208190	40	1.9	40	97	0	145	42	18	10	28	1.83
12215912--12215973	21	2.9	21	79	13	63	50	3	0	46	1.17
12216850--12216915	11	5.8	11	71	7	60	25	22	18	33	1.97
12216849--12216923	23	3.3	23	92	0	132	24	22	20	33	1.97
12216861--12216923	12	5.4	12	69	7	58	23	22	19	34	1.96
12225914--12226277	182	2.0	182	98	1	712	26	12	25	35	1.92
12227033--12227120	36	2.3	38	81	13	101	72	0	4	22	1.02
12227583--12227615	15	2.2	15	100	0	66	54	39	0	6	1.25
12228769--12229330	84	6.7	83	79	5	531	25	19	23	31	1.98
12228707--12229329	169	3.7	167	78	5	562	24	19	23	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12228757--12229307	249	2.2	251	84	4	718	25	19	23	31	1.98
12236852--12236920	20	3.4	19	75	15	66	26	17	14	42	1.87
12236938--12236973	13	2.8	13	100	0	72	30	22	16	30	1.96
12239196--12239393	103	1.9	103	85	4	274	42	17	15	25	1.88
12247617--12248526	302	3.0	302	95	0	1658	39	11	11	37	1.78
12250312--12250360	21	2.4	21	83	10	66	67	14	0	18	1.23
12259747--12259801	27	2.0	27	100	0	110	36	16	14	32	1.89
12259751--12259809	27	2.2	27	90	0	91	37	15	18	28	1.91
12266744--12266797	29	1.9	28	92	7	92	35	3	11	50	1.56
12269081--12269173	21	4.6	20	79	4	105	39	18	23	18	1.92
12269078--12269173	41	2.3	41	96	0	174	40	17	22	18	1.91
12269100--12269234	41	3.3	41	81	6	123	38	20	20	20	1.94
12269162--12269256	20	4.7	20	80	2	91	34	24	17	23	1.96
12269444--12269487	22	2.0	22	95	0	79	20	45	15	18	1.85
12269749--12269786	20	1.9	20	88	0	58	13	15	21	50	1.78
12271099--12271143	18	2.5	18	85	0	63	26	42	15	15	1.87
12271610--12271676	20	3.4	20	81	2	73	38	23	22	14	1.92
12271665--12271720	14	3.7	14	78	17	67	50	25	16	8	1.74
12271649--12271739	32	2.8	33	93	3	166	47	21	18	12	1.81
12271649--12271744	19	5.6	19	70	25	88	45	21	19	12	1.83
12271756--12271845	14	5.9	14	75	19	81	8	16	25	48	1.75
12271770--12271902	18	7.6	18	74	17	120	12	20	24	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12271846--12271900	20	2.8	19	89	5	83	16	23	23	36	1.94
12271751--12271903	32	4.5	32	85	11	198	11	18	24	45	1.82
12273753--12273788	14	2.6	14	90	0	54	30	0	22	47	1.52
12274339--12274374	14	2.6	14	90	0	54	30	0	22	47	1.52
12277975--12278072	19	5.7	19	69	22	90	43	19	24	12	1.85
12277975--12278068	33	2.8	33	98	0	179	43	19	24	12	1.85
12278068--12278110	20	2.2	20	87	4	61	16	18	23	41	1.89
12278096--12278129	14	2.4	14	85	0	50	8	23	20	47	1.78
12278251--12278287	14	2.6	14	91	0	65	45	24	0	29	1.53
12279637--12279703	21	3.2	21	66	6	55	20	19	35	23	1.95
12279637--12279759	42	2.9	41	80	7	113	23	17	36	22	1.94
12281760--12281963	19	11.1	19	77	13	185	43	21	21	13	1.86
12281855--12281963	58	1.9	57	90	1	173	46	21	19	12	1.82
12281760--12281963	33	5.6	38	82	9	185	43	21	21	13	1.86
12281959--12282003	19	2.4	19	92	0	72	8	15	26	48	1.74
12282562--12282613	20	2.6	20	93	0	86	25	19	28	26	1.98
12282583--12282717	41	3.3	41	80	4	121	20	21	20	37	1.94
12282649--12282719	21	3.4	21	78	3	90	16	23	18	40	1.90
12282663--12282736	20	3.7	20	80	3	94	18	22	18	39	1.93
12282647--12282738	41	2.2	41	98	0	175	19	23	17	39	1.92
12295120--12295168	19	2.6	19	96	0	89	55	10	2	32	1.45
12296766--12298202	202	7.1	202	86	4	1700	33	16	13	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12296766--12298202	405	3.6	405	84	4	1766	33	16	13	37	1.87
12298398--12298434	18	2.1	18	89	0	56	51	10	5	32	1.60
12299737--12299770	6	5.7	6	89	0	50	20	32	2	44	1.67
12301095--12301973	199	4.6	182	87	5	779	32	17	15	35	1.90
12301274--12301973	199	3.5	200	89	2	1041	32	16	15	35	1.90
12302173--12302226	17	3.1	17	76	12	65	46	0	1	51	1.11
12302172--12302252	38	2.2	38	87	8	116	46	0	1	51	1.08
12302172--12302261	40	2.3	41	81	11	116	47	0	1	51	1.08
12302333--12302400	30	2.3	30	79	2	75	19	35	10	35	1.85
12302451--12303161	200	3.6	199	91	2	1095	30	15	15	38	1.88
12303589--12303637	19	2.6	19	96	0	89	55	10	2	32	1.45
12305395--12305461	33	2.0	33	85	0	89	23	40	0	35	1.55
12305905--12305960	24	2.4	23	80	8	69	50	7	0	42	1.30
12307927--12308581	182	3.6	181	88	5	905	27	17	14	41	1.87
12310787--12310855	2	34.5	2	100	0	138	50	0	0	49	1.00
12313144--12313275	30	4.5	30	85	3	171	18	6	54	19	1.66
12313157--12313267	15	7.6	15	70	13	79	18	8	54	18	1.67
12313175--12313399	33	7.0	33	77	9	119	18	7	54	19	1.67
12313235--12313278	15	2.9	15	83	12	63	18	2	59	20	1.49
12313291--12313341	24	2.1	24	88	0	75	17	3	52	25	1.61
12313152--12313417	66	4.2	64	73	8	185	17	7	54	20	1.66
12313377--12313504	24	5.3	24	73	16	79	15	6	57	21	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12313394--12313459	9	7.7	9	70	16	50	15	3	60	21	1.48
12313314--12313417	33	3.2	32	90	5	163	16	6	56	20	1.62
12313410--12313476	18	3.7	18	80	11	75	13	5	59	20	1.55
12313496--12313548	15	3.5	15	80	10	72	20	3	54	20	1.60
12313496--12313564	30	2.3	30	97	0	102	20	5	53	20	1.65
12313490--12313644	39	4.3	39	82	15	208	21	5	53	19	1.65
12313512--12313563	15	3.5	15	79	10	70	15	7	55	21	1.64
12313541--12313644	12	8.4	12	68	17	52	21	6	52	19	1.68
12313500--12313651	36	4.3	36	88	9	217	22	5	52	19	1.67
12313641--12313740	42	2.3	43	75	14	100	27	6	52	15	1.65
12315436--12315879	230	1.9	227	94	1	780	45	7	7	39	1.60
12315945--12315991	20	2.4	19	89	10	76	55	10	17	17	1.69
12316112--12316158	20	2.4	19	79	10	58	55	8	17	19	1.67
12318985--12319293	155	2.0	154	99	0	609	34	14	23	26	1.94
12319603--12319743	71	2.0	69	97	2	264	29	9	22	38	1.86
12319946--12319985	19	2.2	19	90	4	64	30	2	10	57	1.45
12320068--12321138	197	5.5	197	96	2	1953	37	14	15	32	1.88
12320068--12321138	393	2.7	392	95	2	1940	37	14	15	32	1.88
12321021--12321257	118	2.0	119	95	2	433	37	12	16	33	1.86
12322841--12322908	21	3.4	18	69	21	55	36	8	35	19	1.83
12322841--12322932	6	15.3	6	79	0	67	36	7	34	20	1.81
12322856--12322936	3	27.0	3	75	0	72	35	6	34	23	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12322841--12322932	42	2.2	42	90	0	148	36	7	34	20	1.81
12322841--12322936	12	8.0	12	82	0	84	36	7	34	21	1.82
12322844--12322936	18	5.2	18	77	0	78	35	7	34	22	1.83
12324390--12325056	182	3.7	184	97	1	1220	35	14	15	34	1.89
12327613--12327664	23	2.3	23	89	0	77	34	7	19	38	1.80
12327623--12327672	23	2.2	23	89	7	75	36	2	18	44	1.61
12328027--12328089	23	2.7	23	90	0	90	36	6	19	38	1.77
12328027--12328099	23	3.2	23	86	3	85	35	5	19	39	1.75
12327510--12328511	424	2.4	426	96	3	1856	39	8	13	38	1.75
12328449--12328513	23	2.8	23	90	0	94	35	7	18	38	1.80

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