genome.fa.s9.2.7.7.80.10.50.1000.120.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   

This is table  120  of  259  ( 31025 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)
38806975--38807005	16	1.9	16	100	0	62	29	19	12	38	1.89
38807156--38807193	20	1.9	20	88	0	58	28	7	18	44	1.78
38807069--38807285	60	3.7	59	85	2	249	36	9	14	40	1.78
38807993--38808135	74	1.9	74	87	2	207	36	15	11	37	1.83
38811842--38812024	91	2.0	91	98	0	357	35	13	16	34	1.88
38812783--38812821	3	13.0	3	100	0	78	66	0	0	33	0.92
38817636--38817711	40	1.9	40	86	0	107	30	31	17	21	1.96
38820185--38820213	14	2.1	14	100	0	58	55	20	0	24	1.44
38821357--38821502	48	3.0	48	87	2	195	28	27	15	28	1.96
38821496--38821731	36	6.5	37	85	4	302	27	28	17	26	1.98
38821498--38821731	73	3.2	73	90	2	355	27	28	17	26	1.98
38821710--38821752	21	2.0	21	100	0	86	37	39	13	9	1.78
38824799--38824834	17	2.1	17	100	0	72	52	5	0	41	1.24
38828347--38828422	38	2.0	38	100	0	152	36	10	13	39	1.79
38831454--38831517	21	3.1	21	78	14	71	10	35	28	25	1.89
38832025--38832199	92	1.9	93	85	5	248	27	25	17	29	1.98
38833880--38834031	27	5.6	27	93	3	232	30	28	13	26	1.94
38833880--38834056	55	3.2	55	90	0	264	31	29	13	25	1.94
38837587--38837814	40	5.7	40	95	0	402	21	26	20	31	1.98
38857015--38857125	27	4.2	26	85	7	134	38	20	23	17	1.93
38858532--38858632	24	4.2	24	92	0	148	24	39	1	33	1.67
38860120--38860157	19	2.0	20	85	15	53	39	23	0	36	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38860387--38860557	93	1.8	93	92	0	288	29	28	19	22	1.98
38860382--38860554	46	3.7	46	77	10	199	30	27	19	22	1.98
38860977--38861036	30	2.0	30	86	0	84	33	25	5	36	1.78
38873792--38873855	34	1.9	33	90	3	101	26	21	26	25	2.00
38874680--38874860	41	4.4	41	84	2	229	34	20	23	21	1.96
38874680--38874860	82	2.2	81	86	2	263	34	20	23	21	1.96
38874943--38875013	37	1.9	37	88	0	106	49	29	1	19	1.57
38875478--38875519	14	2.7	15	78	14	50	26	0	28	45	1.54
38875833--38875867	16	2.1	17	94	5	63	25	0	5	68	1.11
38875980--38876297	115	2.8	115	88	4	471	26	16	25	30	1.97
38879654--38879805	27	5.6	27	93	3	241	26	13	28	30	1.94
38879654--38879805	55	2.8	55	94	0	259	26	13	28	30	1.94
38887357--38887382	12	2.2	12	100	0	52	50	7	0	42	1.31
38887858--38888009	27	5.6	27	93	3	241	26	13	28	30	1.94
38887858--38888009	55	2.8	55	94	0	259	26	13	28	30	1.94
38892124--38892275	27	5.6	27	92	3	232	27	13	28	30	1.94
38892124--38892275	55	2.8	55	92	0	241	27	13	28	30	1.94
38894096--38894139	9	4.9	9	88	5	63	52	2	0	45	1.13
38894093--38894127	4	8.2	4	87	12	52	54	0	0	45	0.99
38894136--38894177	14	3.0	14	100	0	84	42	21	0	35	1.53
38894131--38894185	14	4.3	12	86	10	58	40	18	0	41	1.50
38897670--38897700	12	2.6	12	94	0	53	45	16	0	38	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38898655--38898705	23	2.2	23	82	6	59	27	23	3	45	1.70
38898906--38898961	24	2.4	24	81	3	69	30	23	28	17	1.97
38900137--38900164	13	2.2	13	100	0	56	14	14	0	71	1.15
38906111--38906142	14	2.1	16	88	11	50	37	3	15	43	1.63
38906882--38906921	21	1.9	21	89	0	62	30	25	12	32	1.92
38908375--38908544	93	1.8	93	94	0	304	28	28	20	22	1.99
38908366--38908541	46	3.8	46	80	12	216	28	28	20	22	1.98
38913276--38913421	25	6.0	24	90	5	197	28	22	19	29	1.98
38913267--38913419	49	3.1	49	85	8	195	27	22	18	30	1.98
38913471--38913509	20	2.0	20	94	0	69	30	17	15	35	1.91
38915291--38915331	18	2.3	18	91	0	64	41	9	21	26	1.84
38915688--38915799	27	4.1	27	85	4	163	40	18	13	27	1.88
38915790--38915960	81	2.1	80	80	5	191	24	18	16	40	1.91
38915789--38915960	27	6.4	27	80	4	141	24	18	17	40	1.91
38946198--38946247	17	2.9	17	77	16	50	54	0	14	32	1.40
38946616--38946671	29	2.0	28	92	3	94	19	21	28	30	1.98
38946647--38946749	48	2.1	48	94	0	179	23	15	23	37	1.93
38950181--38950235	27	2.0	27	82	10	67	40	1	0	58	1.09
38950206--38950245	11	3.7	11	86	3	55	35	0	0	65	0.93
38957160--38957184	13	1.9	13	100	0	50	16	4	16	64	1.44
38957905--38958029	46	2.7	46	85	5	153	28	21	30	20	1.98
38959277--38959317	22	1.9	21	85	5	55	14	39	26	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38965061--38965238	27	6.6	27	83	5	180	28	28	16	26	1.97
38965082--38965237	82	1.9	81	86	3	224	28	28	16	26	1.97
38968724--38968932	46	4.5	45	80	8	208	28	20	28	22	1.98
38968724--38969036	140	2.2	140	81	5	346	26	19	29	24	1.98
38968718--38969036	94	3.4	91	78	10	299	26	19	29	24	1.98
38973954--38974313	50	7.5	50	75	10	254	28	18	28	24	1.98
38973948--38974227	95	2.9	95	78	9	304	28	18	28	23	1.98
38973954--38974310	145	2.5	142	80	6	353	28	19	27	24	1.98
38979493--38979553	30	2.0	30	83	0	77	32	22	6	37	1.80
38983159--38983327	39	4.3	40	89	2	225	26	28	21	23	1.99
38983159--38983380	39	5.6	39	84	5	216	27	27	20	24	1.99
38983157--38983380	79	2.8	78	81	4	243	27	28	20	24	1.99
38991061--38991283	40	5.6	39	81	5	207	27	28	20	24	1.99
38991061--38991207	79	1.9	80	88	1	224	27	28	19	23	1.99
38991059--38991283	80	2.8	79	82	6	231	27	28	20	24	1.99
38991061--38991283	120	1.9	119	83	4	288	27	28	20	24	1.99
38996225--38996258	16	2.1	16	89	10	52	50	5	0	44	1.26
38998046--38998223	27	6.6	27	85	3	214	30	28	14	26	1.95
38998067--38998222	82	1.9	81	89	3	242	30	28	14	26	1.95
39006103--39006280	27	6.6	27	85	3	214	30	28	14	26	1.95
39006124--39006279	82	1.9	81	89	3	242	30	28	14	26	1.95
39009447--39009532	31	2.8	31	83	1	120	24	23	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39009737--39009794	24	2.4	25	82	8	66	22	24	20	32	1.98
39009932--39009979	25	1.9	25	86	0	69	27	12	25	35	1.92
39012425--39012524	17	5.6	17	88	7	137	37	13	14	36	1.84
39012417--39012524	19	5.9	19	91	6	172	37	12	14	36	1.84
39012417--39012547	19	6.8	22	81	15	86	36	10	15	37	1.82
39018226--39018271	20	2.3	20	85	3	67	84	0	13	2	0.71
39018230--39018283	28	2.0	28	85	3	74	79	1	16	1	0.91
39018750--39018783	16	2.1	16	94	0	59	41	2	23	32	1.69
39019081--39019357	44	6.3	44	76	9	253	31	15	26	25	1.96
39019045--39019285	131	1.9	128	89	2	374	31	15	25	27	1.96
39019323--39019708	87	4.4	87	90	1	585	27	15	25	31	1.95
39019892--39019975	44	1.9	43	85	2	114	38	17	20	23	1.93
39019935--39020150	78	2.8	78	88	2	326	32	18	23	25	1.97
39020164--39020363	45	4.5	46	85	6	268	32	15	29	24	1.95
39020164--39020363	89	2.2	90	86	5	289	32	15	29	24	1.95
39020707--39020820	17	6.4	19	89	8	125	36	13	13	36	1.83
39020715--39020822	19	5.9	19	91	6	172	37	12	14	36	1.84
39020715--39020845	19	6.8	22	81	15	86	36	10	15	37	1.82
39023267--39023326	25	2.4	25	77	20	72	58	1	5	35	1.30
39031627--39031681	12	4.2	12	77	22	58	52	3	1	41	1.29
39031636--39031688	27	2.0	27	100	0	106	52	3	1	41	1.30
39035613--39035724	47	2.3	48	80	7	120	25	28	19	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39035613--39035882	49	5.7	49	75	8	211	24	28	20	26	1.99
39035613--39035880	93	2.8	92	78	8	204	24	28	20	26	1.99
39042921--39043052	44	3.0	44	87	0	201	28	18	12	40	1.86
39054616--39054660	9	4.8	9	81	8	54	31	4	42	22	1.73
39060560--39060594	16	2.2	16	90	10	54	54	5	0	40	1.24
39061524--39061571	20	2.3	21	92	3	80	50	4	0	45	1.21
39066826--39066968	40	3.6	40	94	0	241	21	24	28	25	1.99
39071080--39071262	79	2.3	80	83	7	221	24	27	22	24	2.00
39071078--39071262	40	4.7	40	82	7	225	24	28	22	24	2.00
39073795--39073829	16	2.2	16	90	10	54	54	5	0	40	1.24

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259