genome.fa.s4.2.7.7.80.10.50.1000.18.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: At_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  18  of  235  ( 28198 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)
5396995--5397036	22	2.0	21	85	4	57	9	40	28	21	1.84
5398596--5398622	14	1.9	14	100	0	54	37	7	7	48	1.59
5399003--5399061	27	2.2	27	90	0	91	33	10	18	37	1.85
5402052--5402081	12	2.5	12	100	0	60	53	16	6	23	1.66
5402632--5402790	53	3.0	52	89	2	237	28	17	18	35	1.93
5403522--5403566	20	2.2	20	84	0	54	37	13	2	46	1.55
5409706--5409848	71	2.0	71	100	0	286	30	12	20	35	1.90
5415021--5415102	30	2.7	31	86	3	114	24	25	18	31	1.97
5415323--5415393	25	2.8	25	89	2	106	28	22	23	25	2.00
5415588--5415648	30	2.0	31	90	3	97	32	11	11	44	1.76
5417602--5417626	5	5.0	5	100	0	50	60	0	0	40	0.97
5421016--5421089	24	3.2	24	62	27	59	24	20	14	40	1.90
5420928--5421417	45	10.9	44	81	9	467	23	20	15	41	1.90
5421242--5421314	22	3.2	24	60	25	57	20	17	19	42	1.89
5420926--5421359	180	2.4	181	81	6	522	22	20	15	40	1.90
5424744--5424914	43	4.0	43	77	6	170	33	23	15	28	1.95
5430684--5430717	17	1.9	18	88	5	52	38	5	5	50	1.51
5430842--5430888	23	2.0	23	100	0	94	61	8	4	25	1.43
5443733--5443761	13	2.2	13	100	0	58	55	13	0	31	1.39
5453526--5453576	21	2.4	21	86	0	66	33	0	47	19	1.50
5453530--5453578	14	3.5	14	88	0	71	32	0	46	20	1.51
5453541--5453577	7	5.3	7	93	0	65	29	0	54	16	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5455668--5455720	21	2.5	21	81	0	61	26	35	7	30	1.84
5466119--5466512	45	8.7	44	82	5	364	24	18	14	41	1.88
5466113--5466463	91	3.9	90	84	3	386	24	17	15	42	1.88
5466117--5466512	91	4.4	90	80	6	322	24	18	14	41	1.89
5466313--5466535	45	4.9	43	81	9	157	25	19	14	40	1.89
5470107--5470304	80	2.5	81	85	2	256	38	20	10	30	1.86
5470107--5470597	27	18.2	26	76	9	191	37	19	8	34	1.83
5470269--5470467	81	2.5	81	78	0	227	34	21	7	36	1.82
5470426--5470578	81	1.9	82	89	6	240	42	18	7	32	1.77
5470601--5470781	27	6.7	27	92	0	290	33	20	22	23	1.97
5471747--5471807	27	2.3	27	97	0	113	26	19	18	36	1.94
5471812--5472234	27	15.6	27	80	6	367	30	9	21	38	1.86
5471770--5472257	81	6.0	80	75	10	366	30	10	20	37	1.87
5473210--5473303	25	3.8	25	82	2	118	28	25	23	22	1.99
5476453--5476624	93	1.8	93	86	2	247	28	20	16	33	1.95
5482717--5482979	40	6.6	39	86	4	278	25	27	21	25	1.99
5482717--5482979	120	2.2	119	82	4	307	25	27	21	25	1.99
5482911--5482988	40	1.9	41	82	10	97	26	28	20	24	1.99
5491178--5491239	31	2.0	31	100	0	124	22	19	6	51	1.69
5491326--5491599	140	2.0	140	90	0	431	32	19	14	33	1.92
5503828--5503972	40	3.6	40	85	4	184	23	26	24	26	2.00
5505767--5505902	70	1.9	70	98	0	263	22	29	15	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5511952--5512096	40	3.6	40	85	4	184	23	26	24	26	2.00
5513330--5513405	38	2.0	38	97	0	143	21	25	5	48	1.70
5515022--5515067	8	5.8	8	80	10	58	47	23	21	6	1.74
5515017--5515067	16	3.2	16	88	0	75	49	23	19	7	1.74
5515290--5515365	27	2.7	29	83	4	102	25	15	31	27	1.96
5517026--5517094	34	2.0	34	100	0	138	47	11	14	26	1.78
5518252--5518602	180	2.0	180	90	0	558	33	17	10	38	1.84
5519273--5519606	51	6.6	51	79	3	246	30	24	18	26	1.98
5519165--5519610	202	2.2	201	86	1	597	30	24	18	26	1.98
5519171--5519612	151	2.9	151	82	1	483	30	24	17	26	1.97
5519164--5519611	50	8.9	50	79	2	398	30	24	18	26	1.98
5520993--5521034	15	2.8	15	80	20	52	61	9	2	26	1.39
5526464--5526822	180	2.0	180	87	2	524	33	19	8	38	1.82
5527381--5527821	50	8.7	50	79	3	375	31	25	17	26	1.97
5527384--5527821	151	2.9	151	85	1	581	31	25	17	25	1.97
5527384--5527774	101	3.9	101	78	3	268	30	24	18	25	1.98
5528195--5528253	31	1.9	31	85	0	82	23	25	6	44	1.78
5529160--5529213	27	2.0	27	92	0	90	22	14	24	38	1.91
5530616--5530694	40	2.0	40	82	9	99	13	27	17	40	1.88
5534280--5534347	27	2.5	27	80	7	75	41	11	23	23	1.87
5539352--5539376	13	1.9	13	100	0	50	52	16	8	24	1.70
5540483--5540675	49	3.9	50	77	4	192	27	20	24	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5547072--5547211	40	3.5	41	91	4	225	27	27	22	22	1.99
5549553--5549577	11	2.3	11	100	0	50	28	20	32	20	1.97
5549502--5549627	61	2.0	61	84	1	162	24	19	27	27	1.99
5549564--5549692	49	2.6	50	83	1	161	27	17	25	28	1.98
5553683--5553871	50	3.8	49	85	1	234	25	17	26	30	1.97
5553680--5553871	49	3.9	49	79	6	215	26	17	26	29	1.98
5562804--5562979	46	3.8	46	76	16	193	21	19	29	29	1.98
5562800--5562970	93	1.8	93	92	2	290	21	19	30	28	1.97
5568276--5568404	46	2.8	46	89	2	188	20	19	29	30	1.97
5571134--5571160	14	1.9	14	100	0	54	22	7	11	59	1.56
5572616--5572668	27	2.0	27	88	7	81	32	18	16	32	1.94
5578820--5578877	16	3.8	16	71	13	50	50	0	0	50	1.00
5578854--5578961	48	2.3	48	80	15	127	50	2	0	47	1.15
5578896--5578966	15	4.6	15	72	16	56	49	1	1	47	1.18
5579490--5579578	23	4.0	23	71	9	69	49	1	5	43	1.33
5585913--5585955	22	2.0	22	85	0	59	32	4	0	62	1.15
5588708--5588828	43	2.8	42	75	9	104	26	20	25	27	1.99
5588718--5588810	42	2.2	43	82	5	118	29	20	23	26	1.99
5591145--5591182	20	1.9	20	94	0	67	21	34	28	15	1.94
5591144--5591188	20	2.2	20	84	0	63	17	35	28	17	1.93
5594354--5594401	19	2.5	19	75	0	51	29	6	0	64	1.18
5594412--5594438	4	6.8	4	100	0	54	22	0	0	77	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5596049--5596101	6	8.8	6	100	0	106	32	0	0	67	0.91
5596034--5596101	18	4.0	16	88	7	82	29	1	1	67	1.08
5602888--5602912	12	2.1	12	100	0	50	8	16	40	36	1.77
5607231--5607349	29	4.2	29	77	2	107	26	26	14	31	1.95
5607233--5607345	58	2.0	57	82	1	136	25	27	15	31	1.95
5611046--5611784	369	2.0	369	100	0	1478	32	29	14	23	1.94
5611600--5612192	297	2.0	296	98	0	1141	28	26	15	29	1.96
5612384--5612502	29	4.2	30	78	8	124	26	29	13	30	1.94
5612386--5612498	58	2.0	57	82	5	138	25	30	14	30	1.95
5612580--5612617	19	2.0	19	89	0	58	15	34	18	31	1.92
5612714--5612772	16	3.7	16	83	0	73	8	22	18	50	1.73
5612714--5612772	8	7.4	8	78	0	64	8	22	18	50	1.73
5619205--5619268	32	2.0	31	81	3	74	43	7	1	46	1.42
5622949--5623001	4	12.8	4	84	11	63	20	3	1	73	1.08
5622949--5623001	21	2.5	20	80	11	63	20	3	1	73	1.08
5624854--5624892	20	2.0	20	90	5	62	0	53	0	46	1.00
5634268--5634465	100	2.0	100	89	0	306	38	18	23	19	1.93
5634461--5634644	92	2.0	92	94	2	325	33	21	23	21	1.97
5638510--5638541	14	2.3	14	94	0	55	12	18	3	65	1.38
5638707--5638926	75	2.9	75	80	9	241	33	15	19	31	1.93
5638917--5638941	13	1.9	13	100	0	50	24	16	12	48	1.79
5638840--5639023	102	1.8	100	89	4	289	28	16	17	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5640906--5640951	22	2.1	22	100	0	92	34	0	4	60	1.16
5641342--5641413	20	3.5	20	76	12	67	33	4	4	58	1.36
5641342--5641456	58	1.9	61	81	8	139	32	6	4	56	1.46
5649490--5649567	1	78.0	1	79	0	84	0	2	7	89	0.56
5649488--5649568	39	2.2	36	87	12	112	0	2	9	87	0.63
5652261--5652301	20	2.0	21	85	9	57	17	2	4	75	1.08
5662896--5663072	50	3.5	50	86	3	248	36	16	20	25	1.94
5663048--5663190	31	4.6	31	91	0	223	27	19	27	25	1.99
5663214--5663378	47	3.7	46	83	6	160	28	15	26	29	1.96
5663308--5663422	42	2.7	43	89	4	171	30	14	26	27	1.95

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235