genome.fa.s9.2.7.7.80.10.50.1000.14.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: Chr09 85040211 
Parameters: 2 7 7 80 10 50 1000
Length:  85040211

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   

This is table  14  of  292  ( 35004 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)
3881643--3881695	26	2.0	27	85	7	74	24	15	22	37	1.92
3883178--3883309	25	5.2	25	90	7	214	37	22	4	35	1.75
3883178--3883309	51	2.6	51	90	5	216	37	22	4	35	1.75
3888738--3888790	26	2.0	27	85	7	74	24	15	22	37	1.92
3890267--3890392	24	5.2	24	88	11	188	37	23	4	34	1.76
3890266--3890392	47	2.7	48	88	11	199	37	24	4	33	1.76
3891166--3891197	2	17.0	2	87	12	50	46	0	0	53	1.00
3892669--3892878	40	5.2	40	88	2	305	21	28	24	25	1.99
3900808--3901017	40	5.2	40	88	2	305	21	28	24	25	1.99
3906339--3906369	2	15.0	2	93	6	53	48	0	3	48	1.17
3906836--3906860	12	2.1	12	100	0	50	52	0	8	40	1.31
3916980--3917051	25	2.9	26	76	17	73	36	5	1	56	1.31
3932635--3932792	24	6.6	24	78	5	88	34	30	12	22	1.91
3932682--3932795	24	4.8	24	88	0	165	34	32	13	20	1.91
3937681--3937712	5	6.6	5	92	7	57	81	0	0	18	0.70
3937682--3937712	14	2.2	14	100	0	62	80	0	0	19	0.71
3941939--3941989	20	2.5	20	96	0	93	35	9	21	33	1.86
3942036--3942224	23	8.1	23	95	1	324	27	22	21	28	1.99
3942034--3942245	94	2.3	93	92	3	345	27	23	21	27	1.99
3942036--3942245	117	1.8	114	92	3	305	27	22	21	28	1.99
3945762--3945924	39	4.2	39	93	0	263	23	20	31	24	1.98
3945762--3945954	39	4.9	39	90	0	251	23	21	31	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3951809--3951915	24	4.5	23	85	4	124	33	31	14	19	1.93
3951809--3951912	48	2.2	48	85	3	138	33	30	15	20	1.93
3965156--3965220	34	2.0	34	84	6	89	30	26	15	27	1.96
3967054--3967135	26	3.2	26	94	0	146	37	23	7	31	1.82
3974689--3977022	936	2.5	925	83	4	2781	31	17	16	35	1.92
3977721--3978006	136	2.1	137	97	0	538	31	25	18	24	1.98
3979774--3979880	25	4.2	25	93	2	178	37	23	5	33	1.78
3979774--3979880	51	2.1	50	92	1	178	37	23	5	33	1.78
3985558--3985641	26	3.2	26	96	0	150	36	25	4	33	1.77
3991332--3991415	26	3.2	26	96	0	150	36	25	4	33	1.77
3992269--3992328	18	3.2	18	78	7	57	31	6	1	60	1.33
3996901--3996957	30	1.9	30	88	0	87	12	29	35	22	1.91
3998040--3998133	43	2.2	43	92	0	152	21	18	31	28	1.96
3998068--3998159	43	2.1	42	82	7	105	26	19	28	26	1.99
4000003--4000265	11	22.8	11	65	23	82	33	2	2	61	1.22
4000051--4000117	15	4.3	16	81	16	61	37	0	0	62	0.95
4000067--4000296	3	74.3	3	66	23	79	34	3	1	60	1.24
4000067--4000291	29	7.7	30	70	21	124	34	3	1	60	1.22
4000051--4000245	23	7.9	25	69	19	90	35	2	1	60	1.20
4000210--4000296	23	4.0	21	76	14	70	35	3	1	59	1.22
4000430--4000465	19	1.9	18	88	5	54	44	0	0	55	0.99
4000556--4000605	26	2.0	25	84	4	64	38	4	0	58	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4002713--4002771	29	2.1	27	81	6	64	49	0	1	49	1.11
4002738--4002810	27	2.8	28	72	13	66	42	2	0	54	1.14
4004315--4004346	14	2.3	14	100	0	64	34	6	6	53	1.51
4005218--4005313	44	2.2	44	88	0	138	28	18	36	16	1.93
4006097--4006146	24	2.1	24	85	7	66	32	0	0	68	0.90
4014170--4014337	40	4.2	40	80	1	167	23	27	23	25	2.00
4014186--4014335	80	1.9	80	83	5	196	22	27	24	26	2.00
4021887--4022025	24	5.8	24	96	0	251	35	26	17	20	1.95
4021865--4022026	48	3.4	46	88	5	207	33	25	17	22	1.96
4029664--4029802	24	5.8	24	96	0	251	35	26	17	20	1.95
4029642--4029803	48	3.4	46	88	5	207	33	25	17	22	1.96
4035813--4035854	19	2.2	19	86	0	57	73	4	4	16	1.17
4043548--4043577	14	2.1	14	93	0	51	30	6	20	43	1.77
4043725--4043790	19	3.6	18	69	13	53	56	6	0	37	1.24
4043798--4043849	10	5.6	9	78	14	52	71	1	1	25	1.07
4043798--4043849	20	2.8	18	83	16	70	71	1	1	25	1.07
4056322--4056461	27	5.2	28	90	5	184	35	22	24	17	1.96
4058079--4058188	26	4.2	26	90	2	159	35	23	5	35	1.78
4059926--4059971	2	23.0	2	100	0	92	50	0	0	50	1.00
4060371--4060427	25	2.2	25	80	17	64	21	10	8	59	1.57
4067944--4068120	43	4.1	43	84	2	239	25	27	18	28	1.98
4068196--4068239	7	6.4	7	86	5	54	36	9	2	52	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4069135--4069185	24	2.1	24	100	0	102	49	23	11	15	1.78
4072456--4072625	50	3.4	50	92	0	277	35	14	22	27	1.93
4072608--4072756	31	4.8	31	90	0	226	25	21	26	26	1.99
4072755--4072786	7	4.6	7	92	0	55	46	12	25	15	1.81
4072755--4072791	14	2.6	14	91	0	56	43	10	24	21	1.84
4072795--4072918	47	2.7	46	84	5	160	27	15	26	30	1.96
4074254--4074345	45	2.0	45	100	0	184	46	21	14	17	1.83
4076001--4076128	42	3.1	42	78	7	129	28	15	12	43	1.83
4076265--4076359	36	2.7	35	91	3	145	26	1	1	71	0.99
4076265--4076359	7	13.3	7	88	4	127	26	1	1	71	0.99
4076952--4076994	15	3.1	14	83	9	61	46	32	0	20	1.51
4076958--4077048	22	4.2	22	69	9	71	48	27	0	24	1.51
4077018--4077048	14	2.2	14	94	0	53	51	29	0	19	1.47
4081204--4081281	37	2.1	37	90	0	120	24	19	21	34	1.96
4082112--4082141	13	2.4	12	89	10	51	56	0	0	43	0.99
4084427--4084953	144	3.7	144	82	5	582	32	19	13	35	1.90
4088139--4088283	54	2.7	54	93	3	238	17	24	22	34	1.96
4088142--4088301	27	5.9	27	82	12	177	19	25	21	34	1.96
4088142--4088301	81	2.0	81	84	7	209	19	25	21	34	1.96
4092268--4092377	26	4.2	26	92	0	166	36	23	7	32	1.82
4097056--4097158	29	3.6	28	82	5	118	28	26	15	30	1.96
4105236--4105338	29	3.6	28	82	5	118	28	26	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4107765--4107858	47	2.0	47	100	0	188	23	17	25	34	1.96
4108542--4108580	18	2.1	19	86	13	55	69	0	7	23	1.14
4109233--4109287	10	5.7	9	81	10	56	25	3	1	69	1.15
4109245--4109293	20	2.5	20	83	6	55	24	4	2	69	1.17
4109237--4109303	29	2.3	30	79	5	75	25	5	2	65	1.29
4115686--4115773	45	1.9	46	86	6	126	42	10	9	38	1.71
4119144--4119178	14	2.5	13	90	9	52	22	0	5	71	1.07
4120284--4120339	25	2.2	26	84	12	80	39	16	10	33	1.83
4120292--4120341	25	2.0	25	96	0	91	34	16	12	38	1.85
4129641--4129772	10	13.8	9	67	20	63	62	0	4	32	1.21
4129721--4129745	12	2.1	12	100	0	50	76	0	0	24	0.80
4141517--4141567	21	2.4	21	81	15	61	66	3	0	29	1.09
4144974--4145003	15	2.0	15	100	0	60	46	0	13	40	1.43
4145028--4145075	20	2.5	20	86	10	64	25	6	2	66	1.26
4148695--4148738	20	2.2	20	84	15	56	20	2	0	77	0.88
4149579--4149611	17	1.9	17	100	0	66	87	0	12	0	0.53
4150178--4150207	15	2.0	15	100	0	60	46	0	13	40	1.43
4151573--4151813	85	2.8	86	97	1	452	22	18	32	25	1.97
4151573--4151813	43	5.7	43	97	1	452	22	18	32	25	1.97
4151573--4151813	128	1.9	127	96	2	448	22	18	32	25	1.97
4151885--4151951	31	2.2	31	83	0	80	59	17	4	17	1.53
4151886--4151964	31	2.5	31	79	4	77	62	18	3	15	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4152209--4152254	21	2.2	21	84	0	56	2	50	19	28	1.60
4157901--4158126	9	24.6	9	75	9	143	38	0	12	47	1.48
4157901--4158126	18	12.3	18	76	9	161	38	0	12	47	1.48
4157954--4158126	27	6.2	27	77	10	159	38	1	13	46	1.50
4157877--4158098	114	1.9	114	86	3	313	38	0	12	47	1.48
4158231--4158286	15	3.8	15	78	21	73	53	0	0	46	1.00
4158463--4158530	24	2.8	24	86	8	102	45	7	19	27	1.76
4158617--4160273	372	4.5	372	98	0	3232	39	10	14	35	1.80
4164137--4164173	3	12.7	3	94	5	67	32	0	0	67	0.91
4164214--4164266	28	1.9	27	81	11	63	33	5	3	56	1.41

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292