genome.fa.s9462.2.7.7.80.10.50.1000.60.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: 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  60  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)
13775934--13776149	119	1.8	119	83	4	292	29	22	15	32	1.95
13777943--13777978	18	2.0	18	88	0	54	27	16	0	55	1.42
13780620--13780656	13	2.8	13	91	0	56	32	18	24	24	1.97
13780809--13780877	23	3.0	21	80	16	66	75	7	4	13	1.16
13781094--13781293	109	1.8	109	85	2	274	47	12	19	21	1.82
13782503--13782614	59	1.9	59	86	0	161	27	12	30	29	1.93
13782636--13783114	39	12.4	39	87	1	642	34	15	17	32	1.91
13782761--13782861	20	5.2	20	66	17	77	33	15	16	33	1.91
13783365--13783614	54	4.6	53	74	14	197	42	20	10	26	1.84
13783368--13783633	112	2.4	107	85	5	352	41	20	9	27	1.84
13785923--13785954	2	16.0	2	100	0	64	50	0	0	50	1.00
13799605--13799662	7	8.3	7	78	14	57	5	15	1	77	1.02
13799624--13799670	15	3.3	14	85	11	60	8	14	0	76	1.01
13799624--13799671	22	2.2	22	92	7	80	8	14	0	77	0.99
13799624--13799670	7	6.6	7	83	11	60	8	14	0	76	1.01
13801007--13801048	22	1.9	22	90	0	66	59	9	16	14	1.60
13801007--13801048	8	5.5	8	77	11	52	59	9	16	14	1.60
13804901--13804944	21	2.0	23	86	8	65	70	4	4	20	1.23
13804970--13805084	51	2.3	49	80	10	124	55	6	13	24	1.61
13807252--13807290	7	5.6	7	93	0	60	7	0	15	76	0.99
13807245--13807290	14	3.3	14	87	0	65	6	0	13	80	0.89
13807245--13807291	21	2.2	21	80	0	58	6	0	12	80	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13811325--13811555	109	2.1	109	79	6	245	41	11	19	26	1.86
13812457--13812491	18	1.9	18	88	0	52	37	22	5	34	1.78
13816689--13816723	18	1.9	18	88	0	52	11	11	5	71	1.30
13816770--13816837	31	2.2	31	100	0	136	45	8	11	33	1.72
13821948--13821988	18	2.2	18	86	4	55	53	0	0	46	1.00
13823492--13823570	33	2.4	33	97	0	149	40	34	2	22	1.68
13824810--13825557	136	5.5	135	82	4	862	31	17	19	30	1.96
13827637--13827817	64	2.8	63	82	3	209	27	17	25	29	1.97
13827765--13827815	19	2.7	19	85	8	70	25	15	35	23	1.94
13827659--13827866	65	3.2	64	79	13	221	27	17	24	30	1.97
13834259--13834298	21	1.9	21	85	10	55	35	10	2	52	1.48
13836224--13836346	64	1.9	65	86	1	176	28	17	23	30	1.97
13836244--13836369	64	2.0	65	88	4	193	28	16	23	31	1.96
13836352--13836390	19	2.1	19	95	0	69	25	15	38	20	1.92
13836245--13836387	64	2.2	64	85	3	180	27	16	25	30	1.97
13836245--13836404	65	2.5	65	83	3	189	28	15	25	31	1.95
13849788--13849855	13	5.2	13	87	0	91	26	17	17	38	1.92
13849788--13849849	26	2.4	26	94	0	106	27	17	19	35	1.94
13849827--13849992	85	2.0	84	82	7	201	30	19	18	31	1.95
13850014--13850045	2	16.0	2	100	0	64	50	0	0	50	1.00
13852698--13852734	17	2.2	17	100	0	74	43	0	24	32	1.55
13853078--13853111	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13860672--13860717	24	1.9	24	100	0	92	30	13	15	41	1.85
13861446--13861496	22	2.3	23	89	3	77	21	23	17	37	1.94
13868959--13869023	32	2.0	32	100	0	130	32	12	21	33	1.90
13869819--13869857	21	1.9	19	85	10	51	46	5	7	41	1.55
13870708--13870793	22	3.9	22	87	0	118	32	19	19	27	1.97
13880724--13880765	20	2.0	21	90	4	68	83	0	16	0	0.65
13885972--13886463	63	7.8	62	80	11	447	22	18	21	38	1.94
13885972--13886400	105	4.1	104	94	1	680	22	18	21	37	1.94
13886350--13886421	21	3.4	21	96	0	126	27	16	16	38	1.90
13886006--13886470	42	11.1	40	84	7	436	23	18	20	37	1.94
13886558--13886598	6	6.8	6	88	0	55	29	48	19	2	1.61
13887098--13887122	6	4.2	6	100	0	50	0	16	48	36	1.46
13887221--13887331	21	5.3	21	71	12	93	35	26	17	21	1.95
13887206--13887331	42	3.0	43	88	5	177	35	23	18	22	1.95
13887346--13887420	21	3.6	21	88	0	114	22	21	25	30	1.99
13889096--13889142	21	2.2	22	85	11	62	21	4	0	74	0.99
13889097--13889135	13	3.1	12	85	7	51	23	2	0	74	0.94
13889082--13889132	25	2.1	25	85	10	70	19	5	0	74	1.02
13899366--13899412	21	2.2	21	77	7	51	19	8	2	70	1.24
13903628--13903666	17	2.3	17	86	0	51	38	7	15	38	1.76
13908032--13908066	2	17.5	2	100	0	70	51	0	0	48	1.00
13908064--13908120	3	19.0	3	100	0	114	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13909433--13909475	17	2.5	17	80	0	50	48	4	13	32	1.63
13915697--13915780	43	1.9	45	80	9	102	20	8	29	41	1.81
13919057--13919099	21	2.0	21	100	0	86	32	32	20	13	1.92
13919502--13919571	31	2.3	31	84	0	86	28	17	5	48	1.69
13919952--13920008	27	2.2	26	87	9	80	50	0	0	49	1.00
13920075--13920110	18	1.9	19	88	5	56	38	0	0	61	0.96
13920367--13920421	28	2.0	26	86	6	74	52	5	0	41	1.24
13921631--13921701	3	23.7	3	91	5	117	64	0	0	35	0.94
13921629--13921724	18	4.8	20	85	11	103	66	0	1	32	0.99
13922733--13922865	58	2.3	59	78	3	144	33	16	18	31	1.93
13929781--13929845	35	1.9	33	87	12	96	49	16	9	24	1.75
13934658--13934734	16	4.7	16	83	12	77	3	18	0	77	0.91
13934656--13934729	7	10.6	7	81	8	62	4	17	0	78	0.90
13934669--13934734	10	6.6	10	74	19	57	3	19	0	77	0.90
13934668--13934721	17	3.2	16	87	10	74	1	22	0	75	0.89
13934674--13934735	14	4.8	13	81	11	74	1	20	0	77	0.85
13938230--13938269	17	2.5	15	88	12	53	62	0	20	17	1.33
13945545--13945950	54	7.5	54	89	0	605	35	16	14	33	1.88
13951999--13952045	20	2.3	20	88	3	67	21	8	2	68	1.27
13951999--13952050	21	2.5	21	87	6	70	21	9	1	67	1.29
13957367--13957493	39	3.2	39	88	2	191	29	25	23	21	1.99
13961125--13961164	21	1.9	21	84	0	53	62	2	2	32	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13961141--13961173	15	2.1	16	88	5	50	60	6	3	30	1.36
13970843--13970878	3	12.0	3	100	0	72	33	0	0	66	0.92
13971937--13971976	15	2.7	15	88	0	62	22	20	17	40	1.92
13974726--13974763	15	2.6	15	87	4	60	15	5	0	78	0.91
13974719--13974779	23	2.6	23	73	21	63	16	6	0	77	0.98
13974726--13974761	14	2.5	14	90	4	54	16	5	0	77	0.94
13983879--13983910	13	2.4	14	89	10	57	68	0	0	31	0.90
13991244--13991303	29	2.0	30	90	3	95	41	6	16	35	1.75
13993413--13993500	34	2.6	34	83	3	106	20	13	26	39	1.90
14001791--14001826	2	18.5	2	88	5	56	47	0	0	52	1.00
14001920--14002133	80	2.7	80	85	2	286	29	22	11	35	1.89
14002493--14002760	58	4.6	58	92	0	437	36	19	10	33	1.86
14003075--14003128	20	2.6	20	79	5	54	27	24	12	35	1.92
14003259--14003312	21	2.7	20	81	16	67	25	27	16	29	1.97
14007242--14007566	80	4.1	80	85	0	391	29	22	11	36	1.89
14007917--14008085	57	3.0	58	87	2	236	36	20	11	32	1.88
14008430--14008624	95	2.1	95	82	5	234	28	23	17	30	1.97
14008591--14008644	21	2.7	20	86	11	74	27	25	16	29	1.97
14008590--14008644	20	2.7	20	86	10	76	27	27	16	29	1.97
14020192--14020351	65	2.5	63	85	8	207	30	23	18	28	1.97
14023116--14023256	73	1.9	73	82	2	176	35	21	14	28	1.93
14023859--14023910	25	2.2	25	93	6	90	48	5	7	38	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14023874--14024231	37	9.6	37	85	6	458	42	6	8	42	1.61
14023874--14024231	75	4.8	74	88	5	483	42	6	8	42	1.61
14023874--14024231	112	3.2	113	89	3	512	42	6	8	42	1.61
14024048--14024072	13	1.9	13	100	0	50	40	8	8	44	1.63
14024734--14024766	17	2.0	17	88	5	50	24	9	0	66	1.20
14026239--14026280	22	1.9	22	85	0	57	57	2	16	23	1.51
14026464--14026505	21	2.0	22	85	4	59	50	7	2	40	1.43
14027380--14027419	20	2.0	20	95	0	71	30	37	25	7	1.83
14033165--14033224	23	2.7	22	74	5	57	23	26	21	28	1.99
14033172--14033226	23	2.4	23	78	3	58	21	30	20	27	1.98

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