genome.fa.s5.2.7.7.80.10.50.1000.108.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   

This is table  108  of  208  ( 24913 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)
32715263--32715299	19	2.0	19	89	5	58	37	5	8	48	1.56
32716370--32716400	15	2.0	16	93	6	55	25	19	0	54	1.44
32721380--32721435	13	4.3	13	73	8	51	71	8	3	16	1.25
32726904--32726937	18	1.9	18	88	5	52	64	0	0	35	0.94
32727966--32728056	44	2.1	44	87	4	130	27	12	10	49	1.73
32730724--32730820	38	2.6	36	83	3	113	51	7	9	31	1.61
32732224--32732266	22	2.0	22	82	13	54	46	4	4	44	1.45
32733123--32733162	14	2.9	14	84	0	53	32	7	17	42	1.77
32733146--32733185	20	2.0	20	90	0	62	27	10	12	50	1.72
32733131--32733197	34	1.9	35	90	3	109	31	8	13	46	1.74
32733125--32733201	14	5.0	15	71	20	52	32	9	15	42	1.78
32733178--32733263	33	2.6	32	77	12	93	26	8	17	47	1.75
32733820--32733858	18	2.2	18	100	0	78	46	10	0	43	1.37
32733958--32733983	12	2.2	12	100	0	52	57	0	11	30	1.34
32734504--32734530	13	2.1	13	100	0	54	55	14	7	22	1.64
32735532--32735585	12	4.9	12	74	21	64	48	9	42	0	1.35
32735541--32735580	19	2.1	19	95	0	71	47	7	45	0	1.31
32741137--32741191	16	3.4	16	84	0	74	34	5	29	30	1.80
32745825--32746136	156	2.0	156	90	0	489	27	13	26	31	1.94
32756593--32756655	27	2.3	27	83	0	90	31	19	17	31	1.95
32756966--32756990	6	4.2	6	100	0	50	36	16	16	32	1.90
32763019--32763152	40	3.4	38	74	11	128	33	25	15	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32764120--32764167	26	1.9	25	91	8	80	45	2	2	50	1.25
32767490--32767666	22	8.0	22	79	4	160	22	26	19	31	1.98
32767502--32767667	44	3.8	44	88	2	217	22	27	19	30	1.98
32782199--32782247	21	2.3	21	93	6	82	26	32	22	18	1.97
32784475--32784591	30	4.0	29	84	5	155	25	35	10	28	1.89
32784494--32784589	28	3.3	30	85	7	94	27	35	11	26	1.90
32787315--32787397	21	4.0	21	76	9	62	27	25	27	19	1.99
32787480--32787520	21	2.0	21	90	9	66	29	24	21	24	1.99
32789699--32789739	21	1.9	22	85	5	57	56	4	0	39	1.21
32791515--32791558	5	8.8	5	97	0	79	22	0	77	0	0.77
32796472--32796855	27	14.2	27	81	6	341	39	23	16	20	1.92
32796655--32796885	81	2.8	79	77	10	252	39	22	19	19	1.93
32796655--32796889	27	8.7	27	84	2	172	39	21	18	20	1.93
32797078--32797164	26	3.3	26	79	7	95	21	25	19	33	1.97
32797090--32797170	26	3.1	26	78	7	101	23	23	20	32	1.98
32797273--32797365	28	3.4	28	87	1	143	21	22	24	31	1.98
32800338--32800446	52	2.1	52	98	0	209	25	11	26	36	1.89
32801215--32801250	16	2.2	16	100	0	72	5	11	16	66	1.40
32807177--32807296	55	2.2	55	84	3	152	37	23	11	27	1.89
32811012--32811088	19	4.0	19	81	1	91	37	22	19	20	1.94
32812848--32812881	16	2.2	16	89	5	52	50	14	8	26	1.72
32815254--32815404	43	3.5	41	84	4	167	35	27	13	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32816763--32816812	26	1.9	26	91	0	82	42	20	12	26	1.86
32818558--32818725	84	2.0	84	98	0	327	29	25	11	34	1.90
32819575--32819606	12	2.7	12	100	0	64	31	25	9	34	1.87
32821319--32821731	9	44.6	9	69	14	182	36	1	17	44	1.59
32821319--32821430	52	2.4	43	74	23	125	33	0	18	46	1.56
32821425--32821493	35	2.0	35	85	0	93	36	2	18	42	1.66
32821320--32821663	152	2.3	150	84	9	434	35	1	18	45	1.57
32821524--32821614	38	2.4	38	88	0	137	37	0	18	43	1.50
32821440--32821577	56	2.5	56	87	2	197	34	0	19	45	1.56
32821671--32821728	19	3.1	19	85	5	91	39	3	12	44	1.58
32821747--32822209	227	2.0	231	92	2	774	51	10	6	31	1.62
32822720--32822771	25	2.2	24	86	10	72	38	0	17	44	1.49
32825166--32825289	7	18.0	7	73	9	60	45	33	0	20	1.57
32825465--32825642	91	1.9	92	83	1	232	27	21	19	31	1.97
32825854--32825878	12	2.1	12	100	0	50	8	24	36	32	1.84
32825990--32826589	113	5.3	112	87	4	835	21	23	25	30	1.99
32825990--32826589	227	2.6	225	87	3	873	21	23	25	30	1.99
32827105--32827141	15	2.4	16	86	4	58	54	0	0	45	1.00
32827143--32827183	7	5.9	7	83	11	57	17	0	43	39	1.49
32827165--32827420	94	2.8	89	86	5	359	27	2	25	44	1.66
32827787--32827830	9	4.6	9	83	13	52	81	0	6	11	0.86
32827787--32827830	20	2.3	19	84	11	54	81	0	6	11	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32834584--32834753	66	2.6	66	86	1	216	41	18	26	14	1.88
32834725--32834796	21	3.4	21	82	0	72	31	19	44	4	1.70
32834744--32834836	21	4.4	21	77	0	105	34	15	44	6	1.72
32835188--32835544	43	8.3	42	76	6	254	22	21	26	28	1.99
32835680--32835757	40	2.0	40	84	5	104	29	23	20	26	1.99
32843858--32843934	22	3.4	22	67	19	68	36	25	2	35	1.70
32843845--32843939	46	2.1	46	100	0	190	41	23	2	33	1.66
32848426--32848520	46	2.1	46	97	0	181	41	22	2	34	1.66
32854154--32854364	117	1.8	117	89	0	332	22	9	23	45	1.81
32854950--32855028	33	2.4	33	80	4	88	27	1	46	24	1.60
32855023--32855092	33	2.1	33	83	0	86	22	7	48	21	1.74
32855196--32855350	51	3.0	51	92	0	256	28	9	27	35	1.87
32859644--32859829	98	1.9	97	84	3	248	27	14	20	37	1.91
32861563--32861630	34	2.0	34	97	0	127	35	13	8	42	1.75
32862279--32862309	2	15.5	2	100	0	62	51	0	0	48	1.00
32863333--32863454	23	5.3	23	78	3	138	35	26	16	22	1.95
32863333--32863451	46	2.6	46	86	0	157	35	26	15	21	1.94
32866228--32866269	20	2.0	21	86	4	59	40	2	2	54	1.26
32873940--32873974	17	2.1	17	88	0	52	40	2	11	45	1.55
32877415--32877441	2	13.5	2	100	0	54	48	0	0	51	1.00
32878013--32878079	9	7.4	9	81	0	71	25	10	23	40	1.86
32878361--32878393	13	2.5	13	95	0	57	48	15	0	36	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32882454--32882489	13	2.8	13	91	8	56	61	5	5	27	1.41
32895536--32895573	19	2.1	19	85	14	53	47	7	5	39	1.55
32915495--32915574	29	2.7	29	86	5	97	45	15	8	31	1.76
32918980--32919050	37	1.9	37	94	0	124	43	16	7	32	1.75
32919088--32919128	19	2.2	19	95	0	73	43	12	4	39	1.63
32921499--32921580	41	2.0	41	92	0	137	47	12	8	31	1.71
32924706--32924749	23	1.9	22	82	17	54	36	25	0	38	1.56
32924794--32924887	45	2.1	45	87	0	134	30	22	20	26	1.98
32927833--32927866	17	1.9	17	88	5	50	44	0	26	29	1.55
32939252--32939357	57	1.9	54	84	5	140	50	6	3	39	1.47
32939336--32939384	20	2.7	18	77	22	57	51	6	2	40	1.38
32948730--32948775	22	2.1	22	100	0	92	13	13	23	50	1.76
32953267--32953458	100	1.9	100	85	4	262	33	10	12	43	1.77
32953596--32953641	18	2.6	18	100	0	92	41	13	10	34	1.79
32955620--32955711	12	7.8	12	70	16	66	55	4	1	39	1.27
32955655--32955703	23	2.2	23	85	7	66	53	6	2	38	1.38
32955655--32955723	25	2.6	27	75	13	72	53	4	2	39	1.36
32957021--32957055	18	1.9	18	88	0	52	20	22	28	28	1.98
32957469--32958140	44	15.3	44	72	10	402	27	22	21	28	1.99
32957504--32958009	89	5.8	89	75	10	429	27	22	21	28	1.99
32957675--32958148	217	2.2	217	95	0	849	26	22	22	28	1.99
32958146--32958367	88	2.5	88	85	2	311	18	21	28	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32959850--32960081	103	2.3	103	93	0	392	17	18	30	33	1.94
32960031--32960108	27	2.9	27	94	0	129	12	25	33	28	1.93
32971359--32971391	14	2.3	15	89	5	50	27	30	12	30	1.92
32976450--32976501	20	2.5	21	78	3	61	69	7	1	21	1.24
32977653--32977687	18	1.9	18	88	0	52	20	22	28	28	1.98
32979664--32979757	44	2.1	45	86	4	127	22	34	0	43	1.53
32980310--32980335	5	5.2	5	100	0	52	23	0	19	57	1.40
32982590--32982886	50	5.8	50	82	6	296	26	20	28	23	1.99
32992916--32992969	26	2.1	26	100	0	108	33	14	16	35	1.90
32999404--32999535	31	4.3	31	76	6	108	46	15	8	30	1.75

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   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208