genome.fa.s9634.2.7.7.80.10.50.1000.34.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  34  of  78  ( 9351 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)
6940662--6940708	18	2.6	18	93	0	76	23	10	31	34	1.89
6943623--6943667	22	2.0	22	91	0	72	11	20	48	20	1.79
6943630--6943684	5	10.8	5	81	11	67	5	20	52	21	1.66
6943683--6943740	19	3.1	19	82	5	73	24	29	24	22	1.99
6950927--6950959	17	1.9	17	100	0	66	12	18	48	21	1.80
6950959--6951010	19	2.7	19	88	5	70	30	28	23	17	1.97
6956131--6956189	3	20.3	3	75	13	52	67	1	3	27	1.16
6956139--6956200	29	2.2	28	81	16	76	62	3	4	29	1.31
6956217--6956278	29	2.2	29	80	13	67	61	1	6	30	1.31
6957477--6957592	3	39.0	3	83	8	139	68	0	0	30	1.02
6957937--6958702	113	6.6	113	89	6	1090	27	20	14	37	1.92
6958065--6958331	130	2.1	130	95	0	480	25	22	13	38	1.91
6958178--6958218	17	2.4	17	100	0	82	19	24	4	51	1.66
6957952--6958675	243	3.0	243	88	6	1022	27	20	14	37	1.92
6957937--6958702	356	2.2	339	89	5	1140	27	20	14	37	1.92
6959141--6959195	22	2.5	22	90	0	83	38	14	12	34	1.84
6959563--6959772	54	3.9	54	94	0	339	22	24	15	37	1.93
6961843--6962064	114	1.9	114	91	1	365	30	21	15	32	1.94
6962171--6962492	161	2.0	161	97	0	608	34	17	15	31	1.92
6964430--6964497	22	3.0	22	72	12	66	2	20	0	76	0.92
6967709--6967761	14	3.7	14	84	2	61	52	7	15	24	1.68
6969244--6969282	20	2.0	20	84	0	51	74	2	2	20	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6969271--6969337	28	2.5	28	80	7	77	62	1	4	31	1.24
6970150--6970208	3	20.3	3	78	13	61	66	1	3	28	1.18
6970236--6970297	29	2.2	29	80	13	67	61	1	6	30	1.31
6971458--6971537	3	27.0	3	77	7	83	67	0	2	30	1.04
6971462--6971540	27	2.9	26	81	7	104	69	0	2	27	1.01
6973818--6973894	31	2.5	31	95	0	136	40	11	23	24	1.88
6978377--6978424	22	2.2	22	84	0	60	29	4	8	58	1.46
6981291--6981320	15	2.0	15	100	0	60	46	0	26	26	1.53
6983317--6983367	6	8.7	6	85	12	54	86	3	9	0	0.70
6983298--6983371	14	5.2	13	78	16	67	83	5	9	1	0.85
6983297--6983374	30	2.6	29	86	10	95	83	5	10	1	0.86
6983296--6983368	23	3.1	23	83	13	87	84	5	8	1	0.81
6983305--6983371	7	9.3	7	74	22	50	83	4	10	1	0.85
6983297--6983367	20	3.2	22	73	18	51	84	5	8	1	0.83
6983320--6983379	14	4.2	14	83	10	59	81	5	13	0	0.84
6983296--6983381	29	2.8	30	82	7	102	81	5	11	1	0.92
6985592--6985688	40	2.4	40	96	0	185	31	17	10	40	1.83
6985718--6985861	77	1.9	76	85	4	200	28	19	13	38	1.90
6986133--6986618	136	3.6	136	88	1	678	34	18	21	25	1.96
6986894--6987185	117	2.6	109	83	8	351	40	14	20	24	1.90
6987335--6987377	3	14.7	3	90	4	70	37	0	0	62	0.95
6988716--6988780	24	2.7	24	95	0	112	41	6	6	46	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7000400--7000500	10	9.8	10	82	10	60	82	0	6	10	0.85
7000400--7000500	23	4.4	22	76	14	71	82	0	6	10	0.85
7000436--7000497	5	11.8	5	90	10	97	82	0	0	17	0.67
7000436--7000506	36	1.9	37	91	5	117	81	0	1	16	0.76
7001289--7001481	81	2.4	81	87	2	264	40	17	18	23	1.91
7003091--7003360	42	6.4	42	93	0	441	24	21	20	32	1.98
7003659--7003704	21	2.2	21	96	0	83	19	32	8	39	1.82
7003687--7004083	48	8.3	48	85	1	492	29	20	14	34	1.93
7003564--7003800	116	2.0	118	90	1	370	27	23	13	35	1.92
7003680--7004064	143	2.7	143	86	2	513	29	21	14	34	1.93
7016889--7017012	64	1.9	64	87	6	180	29	17	21	30	1.96
7017412--7017451	19	2.0	20	85	9	55	25	37	0	37	1.56
7017400--7017524	63	2.0	63	96	0	232	26	29	4	39	1.77
7019040--7019097	23	2.7	21	82	15	73	24	1	44	29	1.63
7019058--7019104	23	2.0	23	100	0	94	21	4	44	29	1.71
7024143--7024167	3	8.3	3	100	0	50	32	32	0	36	1.58
7025695--7025873	64	2.8	64	79	3	182	30	17	22	29	1.97
7027746--7027780	12	3.0	12	87	4	54	11	14	8	65	1.46
7032393--7032427	12	3.0	12	87	4	54	11	14	8	65	1.46
7035365--7035408	22	2.0	22	86	0	61	31	36	11	20	1.88
7036834--7037243	209	2.0	208	99	0	802	34	16	15	33	1.90
7039258--7039381	62	2.0	62	96	0	230	44	13	13	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7040371--7040468	49	2.0	50	88	8	146	57	8	11	23	1.60
7041399--7041479	41	2.0	41	90	2	128	45	14	8	30	1.75
7041867--7041898	16	2.0	16	93	0	55	37	15	12	34	1.85
7041962--7042662	3	233.7	3	70	3	156	12	4	21	60	1.50
7041959--7042614	30	22.1	30	68	9	207	12	5	21	61	1.50
7043144--7043243	21	4.8	21	79	0	92	12	4	24	60	1.49
7043131--7043244	12	9.2	12	70	5	84	12	3	24	59	1.48
7043131--7043260	3	43.3	3	73	0	62	11	3	26	58	1.50
7043231--7043273	18	2.4	18	80	0	50	9	4	32	53	1.53
7043902--7043961	20	3.0	20	71	9	68	31	21	21	25	1.98
7043945--7044074	40	3.2	40	84	6	138	27	22	13	36	1.92
7043945--7044094	20	7.4	20	73	9	99	27	22	14	36	1.92
7043987--7044134	60	2.5	60	78	4	156	29	20	13	36	1.91
7044101--7044154	20	2.8	20	85	2	65	33	22	9	35	1.86
7044314--7044344	16	1.9	16	93	0	53	25	48	9	16	1.76
7047216--7047339	42	3.0	42	84	3	155	25	37	13	24	1.92
7047237--7047339	39	2.5	41	85	4	147	26	37	13	22	1.91
7047439--7047498	21	2.9	21	87	0	84	23	6	33	36	1.81
7047474--7047587	42	2.7	42	83	0	138	24	9	31	34	1.88
7047924--7048065	21	6.8	21	79	9	123	21	40	13	25	1.89
7047943--7048073	63	2.1	63	80	8	142	22	41	12	24	1.88
7049765--7049819	2	27.5	2	100	0	110	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7049994--7050208	20	11.4	20	72	15	172	46	22	11	20	1.81
7050007--7050062	13	4.2	13	73	13	51	42	23	10	23	1.85
7050002--7050184	72	2.5	73	92	3	298	47	22	10	18	1.80
7050092--7050200	54	2.0	54	87	3	157	47	22	11	19	1.80
7050123--7050200	14	5.8	14	72	13	56	48	23	11	16	1.78
7050205--7050299	20	4.8	20	77	0	91	28	11	23	36	1.90
7051158--7051197	18	2.2	18	86	0	53	20	2	22	55	1.56
7053278--7053302	12	2.1	12	100	0	50	0	28	0	72	0.86
7054516--7054711	20	9.7	20	70	8	101	34	14	22	28	1.93
7054492--7054666	60	2.9	60	81	1	181	37	12	22	28	1.90
7054556--7054665	40	2.8	40	84	2	132	35	13	23	27	1.93
7057476--7057543	35	1.9	35	87	0	100	44	22	0	33	1.53
7057548--7057622	35	2.1	35	87	4	107	33	0	22	44	1.53
7060225--7060261	20	1.9	19	89	10	58	45	10	24	18	1.81
7065648--7065687	16	2.5	15	88	8	53	27	20	7	45	1.78
7065839--7065899	13	4.8	13	75	20	67	36	8	1	54	1.40
7065837--7066044	22	9.5	22	69	18	77	34	9	2	52	1.49
7065839--7066001	36	4.3	36	74	19	161	33	7	3	54	1.47
7065961--7065989	13	2.1	14	93	6	51	34	6	0	58	1.25
7066011--7066044	14	2.5	14	90	4	52	35	8	0	55	1.31
7065837--7066076	117	2.1	116	79	12	260	35	9	2	52	1.48
7068050--7068103	21	2.6	21	96	0	99	33	16	24	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7068125--7068198	22	3.6	21	77	8	64	29	14	28	27	1.95
7068050--7068291	95	2.5	95	82	4	265	33	16	24	25	1.96
7068612--7068843	59	4.0	59	92	2	362	31	12	21	34	1.90
7069213--7069682	68	6.9	68	92	0	726	32	13	23	30	1.93
7069623--7069862	81	3.0	81	85	2	306	36	11	23	27	1.90
7073411--7073485	23	3.3	23	86	0	96	25	26	22	25	2.00
7073410--7073501	23	4.0	23	84	0	67	23	25	22	28	2.00
7080087--7080146	31	2.0	30	87	9	86	36	1	25	36	1.66
7080368--7080413	23	2.0	23	82	0	56	21	23	23	30	1.99
7083635--7083673	19	2.0	21	85	14	57	76	0	10	12	1.01

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78