genome.fa.s9462.2.7.7.80.10.50.1000.51.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  51  of  91  ( 10815 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)
11146159--11146213	24	2.3	25	84	6	69	30	16	21	30	1.95
11149534--11149608	31	2.4	32	78	14	84	74	4	17	4	1.12
11149529--11149608	18	4.7	18	70	22	57	75	5	16	3	1.13
11158326--11158375	23	2.2	23	100	0	100	36	18	38	8	1.80
11160190--11160240	19	2.6	20	90	3	77	43	5	15	35	1.71
11161137--11161196	30	2.0	31	86	3	86	53	10	8	28	1.63
11164046--11164105	23	2.6	23	86	2	84	61	11	18	8	1.54
11169874--11169937	12	5.4	12	87	5	69	84	9	4	1	0.83
11169874--11169945	11	6.3	11	84	6	90	83	11	4	1	0.85
11183528--11183558	8	3.9	8	100	0	62	0	22	0	77	0.77
11183518--11183586	35	1.9	36	85	8	97	0	21	1	76	0.86
11183529--11183579	16	3.1	16	86	11	59	0	23	1	74	0.92
11184311--11184359	19	2.5	20	90	3	73	44	6	14	34	1.70
11194051--11194076	13	2.0	13	100	0	52	30	30	0	38	1.58
11196821--11196881	23	2.6	23	78	2	68	9	16	9	63	1.50
11201330--11201371	22	2.0	21	85	4	57	38	33	2	26	1.69
11201671--11201727	18	3.1	18	73	16	55	77	1	15	5	1.03
11213700--11213731	16	2.0	16	100	0	64	43	6	18	31	1.75
11222623--11222679	19	2.9	20	86	5	89	19	22	26	31	1.98
11222624--11222683	9	6.3	9	77	11	66	18	25	26	30	1.98
11222680--11222746	17	3.9	17	90	0	107	20	38	23	16	1.92
11222736--11222772	19	1.9	19	100	0	74	16	27	29	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11229949--11230017	10	7.1	10	76	12	72	18	23	30	27	1.98
11229949--11230019	19	3.7	19	92	1	106	18	25	29	26	1.98
11230013--11230053	17	2.4	17	95	0	73	17	41	24	17	1.89
11230043--11230079	19	1.9	19	94	0	65	18	27	27	27	1.98
11232801--11232850	19	2.6	19	93	0	82	44	6	16	34	1.72
11233747--11233806	30	2.0	31	86	3	86	53	10	8	28	1.63
11235045--11235094	19	2.6	19	90	0	73	46	6	16	32	1.71
11236905--11236936	16	2.0	16	100	0	64	43	6	18	31	1.75
11240476--11240507	16	2.0	16	100	0	64	43	6	18	31	1.75
11245993--11246049	19	2.9	20	86	5	89	19	22	26	31	1.98
11245994--11246053	9	6.3	9	77	11	66	18	25	26	30	1.98
11246050--11246116	17	3.9	17	90	0	107	20	38	23	16	1.92
11246106--11246142	19	1.9	19	100	0	74	16	27	29	27	1.97
11247041--11247128	32	2.8	31	77	5	88	19	29	28	22	1.98
11253338--11253406	10	7.1	10	76	12	72	18	23	30	27	1.98
11253338--11253408	19	3.7	19	92	1	106	18	25	29	26	1.98
11253402--11253442	17	2.4	17	95	0	73	17	41	24	17	1.89
11253432--11253468	19	1.9	19	94	0	65	18	27	27	27	1.98
11254335--11254411	31	2.5	31	78	2	82	15	27	29	27	1.96
11256190--11256240	19	2.6	20	90	3	77	43	5	15	35	1.71
11257137--11257196	30	2.0	31	86	3	86	53	10	8	28	1.63
11258438--11258488	19	2.6	20	87	3	68	45	5	15	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11260299--11260330	16	2.0	16	100	0	64	43	6	18	31	1.75
11263891--11263922	16	2.0	16	100	0	64	43	6	18	31	1.75
11266946--11266983	19	1.9	19	89	5	58	2	13	0	84	0.73
11266936--11266985	10	4.9	10	78	11	57	2	14	0	84	0.72
11267355--11267451	36	2.7	36	95	1	169	29	5	35	29	1.79
11267790--11267840	19	2.6	20	87	3	68	45	5	15	33	1.71
11271228--11271287	23	2.6	23	86	2	84	61	11	18	8	1.54
11272757--11272825	33	2.1	33	83	5	86	31	1	36	30	1.67
11273201--11273251	19	2.6	20	87	3	68	45	5	15	33	1.71
11276782--11276850	33	2.1	33	83	5	86	31	1	36	30	1.67
11277226--11277276	19	2.6	20	87	3	68	45	5	15	33	1.71
11278730--11278761	16	2.0	16	100	0	64	43	6	18	31	1.75
11280843--11280871	5	6.0	5	92	8	51	0	17	0	82	0.66
11282320--11282351	16	2.0	16	100	0	64	43	6	18	31	1.75
11285378--11285415	19	1.9	19	89	5	58	2	13	0	84	0.73
11285368--11285416	10	4.8	10	78	12	55	2	14	0	83	0.73
11285786--11285882	36	2.7	36	95	1	169	29	5	35	29	1.79
11286221--11286271	19	2.6	20	87	3	68	45	5	15	33	1.71
11289659--11289718	23	2.6	23	86	2	84	61	11	18	8	1.54
11291189--11291257	33	2.1	33	83	5	86	31	1	36	30	1.67
11291633--11291683	19	2.6	20	87	3	68	45	5	15	33	1.71
11295212--11295280	33	2.1	33	83	5	86	31	1	36	30	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11295656--11295706	19	2.6	20	87	3	68	45	5	15	33	1.71
11297160--11297191	16	2.0	16	100	0	64	43	6	18	31	1.75
11300739--11300770	16	2.0	16	100	0	64	43	6	18	31	1.75
11306580--11306639	30	2.0	31	83	3	77	55	10	6	28	1.58
11309675--11309734	30	2.0	31	83	3	77	55	10	8	26	1.61
11314881--11314910	13	2.4	12	89	10	51	23	30	0	46	1.52
11320930--11320979	19	2.6	20	84	12	61	24	12	0	64	1.27
11321176--11321201	11	2.4	11	100	0	52	76	7	15	0	0.99
11321250--11321303	16	3.3	16	82	7	56	75	1	20	1	0.98
11325560--11325609	19	2.6	17	82	17	55	24	12	0	64	1.27
11327179--11327234	28	2.0	28	92	0	94	26	16	12	44	1.83
11329572--11329605	16	2.1	16	100	0	68	11	5	5	76	1.14
11331207--11331244	19	2.0	19	94	0	67	78	13	5	2	1.02
11345515--11345544	13	2.4	13	94	5	53	43	0	30	26	1.55
11356869--11356924	28	2.0	28	85	0	76	28	14	10	46	1.78
11358651--11358711	8	8.0	8	72	17	58	81	11	6	0	0.85
11358653--11358710	7	7.9	7	76	16	55	82	10	6	0	0.83
11358670--11358703	13	2.5	13	95	4	59	79	8	11	0	0.94
11358685--11358722	20	1.9	20	88	0	58	78	10	10	0	0.95
11360182--11360274	30	3.1	30	80	0	123	24	25	12	36	1.91
11360853--11360968	29	3.9	30	87	3	164	32	12	29	25	1.93
11360845--11360968	59	2.1	59	89	3	187	33	12	28	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11366388--11366436	16	2.9	16	87	6	62	16	20	0	63	1.31
11381953--11382062	37	3.0	37	89	2	170	30	4	34	30	1.78
11382400--11382442	19	2.2	20	87	4	61	48	6	9	34	1.62
11385336--11385382	16	2.8	16	81	12	51	68	0	17	14	1.22
11386011--11386078	35	1.9	36	90	3	111	29	2	38	29	1.72
11386419--11386461	19	2.2	20	87	4	61	48	6	9	34	1.62
11404498--11404560	8	7.8	8	76	16	51	84	9	6	0	0.79
11404498--11404552	20	2.7	20	83	10	76	83	9	7	0	0.81
11411626--11411672	21	2.2	21	88	7	69	21	6	8	63	1.44
11411634--11411676	21	2.0	21	100	0	86	18	4	9	67	1.36
11412869--11412913	19	2.3	20	85	14	60	24	11	0	64	1.26
11417785--11417835	19	2.6	20	87	3	68	45	5	15	33	1.71
11421052--11421095	6	7.2	6	82	12	54	2	18	0	79	0.83
11421887--11421937	19	2.6	20	87	3	68	45	5	15	33	1.71
11426926--11427051	47	2.8	45	86	5	173	30	23	7	38	1.83
11431363--11431476	36	3.2	36	92	1	185	31	35	3	28	1.74
11431361--11431459	13	8.3	11	69	23	58	31	36	3	29	1.73
11431907--11431948	5	8.8	5	80	19	54	80	0	19	0	0.70
11431907--11431948	14	2.9	15	86	13	61	80	0	19	0	0.70
11431912--11431950	11	3.4	11	89	10	60	79	0	20	0	0.73
11435905--11436025	23	5.1	23	71	24	83	31	36	4	28	1.76
11435903--11436042	36	3.9	36	96	0	246	30	36	4	29	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11435905--11436025	11	10.2	11	71	23	86	31	36	4	28	1.76
11437679--11437728	21	2.5	21	90	6	77	32	12	8	48	1.69
11438469--11438493	8	3.1	8	100	0	50	76	0	24	0	0.80
11438452--11438503	16	3.1	16	81	13	52	75	1	21	1	1.00
11441794--11441837	21	2.2	21	92	8	74	34	11	6	47	1.66
11453024--11453072	24	2.2	21	78	21	64	6	14	18	61	1.53
11453030--11453082	24	2.3	24	83	6	65	7	16	15	60	1.57
11457201--11457245	13	3.5	13	84	3	56	35	35	2	26	1.69
11457573--11457614	18	2.4	18	88	11	61	76	4	16	2	1.07
11461581--11461614	5	6.8	5	100	0	68	17	0	0	82	0.67

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   79   80   
          81   82   83   84   85   86   87   88   89   90   91