genome.fa.s5.2.7.7.80.10.50.1000.172.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  172  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)
52416503--52416561	29	2.1	28	87	6	84	49	5	10	35	1.59
52418785--52418815	15	2.1	15	93	0	53	51	12	22	12	1.74
52421442--52421482	12	3.7	12	78	18	52	63	7	2	26	1.33
52422837--52423029	50	3.9	49	73	2	170	26	19	20	33	1.96
52422845--52423041	100	2.0	100	82	0	241	26	19	19	33	1.96
52423227--52424351	177	6.4	177	79	2	974	26	24	19	29	1.98
52423231--52424357	266	4.2	265	85	0	1358	26	24	19	29	1.98
52423227--52424371	89	12.9	89	81	0	997	26	24	19	29	1.98
52426511--52426550	18	2.2	19	90	4	64	5	17	0	77	0.94
52426511--52426615	20	4.8	23	83	7	78	10	8	3	77	1.11
52426557--52426620	26	2.5	26	84	5	76	10	3	6	79	1.02
52426556--52426607	20	2.6	20	96	0	95	15	0	7	76	0.99
52436696--52436962	10	27.7	9	65	20	80	32	2	3	60	1.28
52436755--52436879	31	4.1	30	68	18	87	30	1	6	61	1.30
52436696--52436811	39	3.0	38	76	8	119	33	2	3	60	1.27
52436910--52436963	9	6.0	10	76	24	57	35	0	0	64	0.94
52436894--52436963	17	4.1	17	82	12	72	34	1	0	64	1.03
52438434--52438462	2	14.5	2	100	0	58	51	0	0	48	1.00
52440813--52440920	55	2.0	55	83	3	137	47	8	7	37	1.62
52440978--52441187	111	2.0	102	85	12	282	28	16	14	40	1.88
52444226--52444263	16	2.4	16	86	4	51	34	5	5	55	1.45
52444778--52445107	114	2.9	114	86	1	439	25	21	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52445247--52445285	20	2.0	20	90	10	62	51	20	10	17	1.74
52445272--52445507	121	2.0	121	96	1	438	44	9	11	34	1.73
52446046--52446122	32	2.4	32	95	2	138	38	12	9	38	1.76
52447325--52447354	8	3.8	8	95	0	51	50	6	0	43	1.28
52449314--52449346	10	3.4	10	87	8	50	18	3	0	78	0.87
52449964--52450020	3	19.0	3	100	0	114	33	0	0	66	0.92
52450062--52450115	25	2.2	25	86	6	74	37	7	0	55	1.28
52450267--52450356	30	2.9	31	75	17	89	40	5	2	52	1.37
52459257--52459396	43	3.3	43	87	1	201	17	21	33	27	1.96
52459771--52459843	28	2.4	30	84	8	96	24	19	9	46	1.79
52463417--52463502	43	2.0	43	88	0	127	52	1	22	24	1.54
52464809--52464905	49	2.0	49	91	0	158	43	6	23	26	1.77
52468477--52468512	13	2.7	13	91	4	54	22	13	11	52	1.72
52469406--52469440	16	2.2	16	89	0	52	45	2	14	37	1.59
52472378--52472413	18	1.9	19	88	5	56	52	0	2	44	1.15
52481484--52481643	87	1.8	86	86	6	234	25	14	22	37	1.92
52484029--52484128	42	2.4	42	81	3	121	18	23	17	42	1.89
52484061--52484158	42	2.3	42	83	0	115	13	23	18	44	1.85
52488338--52488392	23	2.5	22	79	8	67	49	1	5	43	1.36
52492940--52492991	25	2.1	25	96	0	95	40	13	3	42	1.62
52492948--52493001	25	2.2	25	89	0	81	40	11	3	44	1.58
52498296--52498341	3	15.3	3	95	0	83	65	0	2	32	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52498436--52498473	19	2.0	19	94	0	67	26	7	18	47	1.76
52498438--52498479	19	2.4	17	84	11	50	23	7	21	47	1.75
52501297--52501367	28	2.3	32	72	23	78	30	21	21	26	1.98
52501300--52501356	28	2.1	27	90	3	87	26	24	24	24	2.00
52501465--52501522	26	2.2	26	84	0	80	39	20	18	20	1.92
52501715--52501922	27	7.7	27	76	8	181	21	12	19	46	1.83
52502228--52502448	27	8.2	26	80	8	203	21	13	18	46	1.84
52502245--52502448	81	2.5	79	82	7	232	21	13	18	46	1.83
52509006--52509095	28	2.8	32	73	23	91	28	25	23	22	1.99
52509027--52509084	28	2.1	27	93	3	98	25	25	25	22	2.00
52509438--52509641	27	7.6	27	85	4	202	21	16	18	43	1.88
52509449--52509641	54	3.6	54	85	2	246	22	16	18	43	1.88
52509438--52509641	80	2.5	80	84	6	243	21	16	18	43	1.88
52511367--52511477	46	2.4	46	87	0	159	27	18	24	29	1.98
52514694--52514725	10	3.0	11	90	9	57	43	0	18	37	1.51
52515298--52515377	25	3.2	25	75	5	74	20	27	22	30	1.98
52516894--52517356	230	2.0	230	99	0	917	22	17	13	47	1.82
52543465--52543492	13	2.2	13	100	0	56	64	0	14	21	1.29
52545328--52545638	33	8.7	33	69	22	184	31	27	20	20	1.97
52545329--52545540	76	2.8	75	93	0	352	31	27	19	21	1.97
52545440--52545640	102	2.0	102	93	0	348	32	27	20	19	1.97
52547242--52547314	26	2.8	26	83	2	76	17	21	19	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52547278--52547379	25	4.2	25	71	13	79	16	23	22	37	1.94
52547347--52547394	24	2.0	24	83	0	60	14	31	22	31	1.94
52549150--52549209	26	2.3	26	88	0	93	15	25	23	36	1.93
52551380--52551408	14	2.1	14	100	0	58	44	34	0	20	1.52
52552535--52553164	27	23.3	27	82	6	695	41	17	19	21	1.90
52553364--52553460	26	3.7	26	79	2	106	15	20	24	39	1.91
52553571--52553683	30	3.8	30	91	0	172	20	26	24	28	1.99
52554795--52554842	25	1.9	25	83	8	62	43	22	16	16	1.87
52561798--52561849	25	2.1	24	82	10	61	42	25	17	15	1.88
52575809--52575870	28	2.2	28	88	0	88	17	37	12	32	1.88
52575907--52575986	27	3.0	27	88	0	115	20	30	21	28	1.98
52586235--52586350	41	2.9	42	77	18	120	59	1	0	38	1.08
52592903--52592959	24	2.3	25	84	3	80	21	31	0	47	1.51
52592928--52592972	18	2.5	18	85	7	65	20	35	2	42	1.64
52602652--52602693	21	2.0	21	90	4	66	52	30	2	14	1.54
52603885--52604165	29	10.0	28	72	8	103	36	20	17	24	1.94
52604082--52604196	26	4.4	26	82	4	115	37	20	16	25	1.93
52606750--52606808	25	2.4	25	100	0	118	18	18	25	37	1.94
52612849--52612891	22	2.0	22	86	9	61	60	11	9	18	1.57
52614507--52614545	14	2.8	14	88	7	53	38	20	15	25	1.92
52614982--52615019	16	2.3	17	86	4	51	63	2	0	34	1.09
52614984--52615025	19	2.0	21	86	13	61	64	4	0	30	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52622139--52622175	18	2.0	18	89	5	56	59	0	10	29	1.31
52622117--52622146	9	3.2	9	95	4	51	60	0	3	36	1.14
52623396--52623567	33	5.2	33	66	21	99	25	4	16	52	1.63
52623517--52623572	9	6.0	9	78	14	60	26	1	17	53	1.54
52624153--52624194	20	2.2	20	86	4	59	23	0	16	59	1.37
52626306--52626365	29	2.1	29	93	0	102	28	1	16	53	1.53
52626313--52626373	16	4.0	16	79	12	74	27	1	16	54	1.52
52632198--52632244	24	2.0	24	82	0	58	23	42	6	27	1.78
52636452--52636511	21	2.9	21	74	0	57	15	25	18	41	1.89
52636373--52636511	42	3.3	42	80	4	136	17	21	17	43	1.88
52644062--52644194	42	3.2	42	83	0	158	18	18	17	45	1.85
52644062--52644114	21	2.5	21	75	0	52	16	16	18	47	1.83
52644116--52644173	21	2.7	22	71	7	66	22	18	15	43	1.88
52646874--52646950	31	2.5	31	83	6	86	58	9	3	28	1.47
52657786--52657811	2	13.0	2	100	0	52	50	0	0	50	1.00
52660405--52660469	14	4.3	16	79	14	68	18	44	0	36	1.50
52667069--52667106	20	1.9	20	89	10	60	34	0	5	60	1.19
52668799--52668846	23	2.1	22	85	11	62	29	0	14	56	1.39
52670986--52671022	7	5.1	7	87	6	56	24	45	0	29	1.53
52670983--52671047	14	4.3	15	83	14	73	18	46	0	35	1.50
52671012--52671053	19	2.2	19	86	0	57	14	47	0	38	1.44
52689396--52689429	16	2.1	16	94	0	59	11	35	0	52	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52690305--52690337	11	3.0	11	90	0	57	30	9	9	51	1.64
52691461--52691548	33	2.7	33	77	11	92	44	19	10	26	1.82
52691523--52691599	14	5.0	15	71	20	52	42	15	9	32	1.78
52691539--52691578	20	2.0	20	90	0	62	50	12	10	27	1.72
52691527--52691593	34	1.9	35	90	3	109	46	13	8	31	1.74
52691562--52691601	14	2.9	14	84	0	53	42	17	7	32	1.77
52692777--52692815	2	19.5	2	100	0	78	51	0	0	48	1.00
52696891--52696931	19	2.2	19	95	0	73	43	14	7	34	1.73
52697510--52697605	49	2.0	49	100	0	192	23	29	10	36	1.88
52701150--52701236	42	2.1	42	97	0	165	47	19	0	33	1.50

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