genome.fa.s12.2.7.7.80.10.50.1000.13.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  13  of  276  ( 33102 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)
3833506--3833571	32	2.1	32	88	0	96	34	19	9	36	1.84
3840849--3840908	30	2.0	31	86	3	86	40	0	40	20	1.52
3841023--3841083	30	2.0	31	90	3	97	36	0	44	19	1.51
3841132--3841168	9	4.1	9	92	0	65	29	10	13	45	1.77
3843424--3843461	18	2.1	18	85	9	51	5	28	0	65	1.14
3851461--3851518	30	1.9	30	89	0	89	39	6	24	29	1.81
3851744--3851882	51	2.7	51	82	4	165	24	14	27	33	1.94
3851893--3851978	44	1.9	45	90	2	138	24	16	23	36	1.94
3853799--3853978	95	1.9	95	94	2	317	28	16	23	31	1.96
3854501--3854556	26	2.2	26	90	0	85	12	10	28	48	1.74
3856083--3856178	47	2.0	47	100	0	192	21	10	19	47	1.79
3862934--3862984	10	5.2	10	72	13	52	56	1	11	29	1.46
3862920--3862996	29	2.7	29	78	6	77	57	1	11	29	1.43
3863287--3863331	22	2.0	22	87	8	65	66	2	6	24	1.27
3863333--3863390	3	19.3	3	77	7	55	60	3	6	29	1.39
3863282--3863341	22	3.0	20	72	13	52	63	1	5	30	1.25
3863282--3863344	21	3.0	22	68	15	53	63	1	4	30	1.24
3866263--3866296	17	1.9	17	88	5	50	58	20	2	17	1.51
3866756--3866808	21	2.5	22	78	9	65	60	3	9	26	1.45
3873133--3873199	34	1.9	35	90	3	109	34	8	10	46	1.70
3873357--3873407	26	2.2	24	78	21	56	60	5	0	33	1.21
3877987--3878037	26	2.2	24	78	21	56	60	5	0	33	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3885537--3885709	86	2.0	84	84	4	222	32	11	8	46	1.71
3895937--3895996	29	2.1	29	93	0	102	43	18	8	30	1.79
3898619--3898694	34	2.3	34	81	9	93	30	13	18	38	1.89
3900904--3900936	15	2.2	15	94	0	57	27	18	15	39	1.90
3923515--3923544	15	2.0	15	100	0	60	53	6	20	20	1.67
3935215--3935239	12	2.1	12	100	0	50	24	36	24	16	1.94
3935400--3935458	9	6.6	9	90	0	91	38	25	10	25	1.87
3935400--3935475	27	2.8	27	85	0	107	42	25	7	25	1.81
3935400--3935475	9	8.4	9	89	0	89	42	25	7	25	1.81
3935400--3935467	18	3.8	18	90	0	109	41	25	8	25	1.84
3935582--3935625	18	2.4	18	88	0	61	13	2	43	40	1.57
3937318--3937379	9	6.9	9	75	14	56	69	1	0	29	0.98
3937308--3937381	36	2.0	37	84	7	98	67	2	0	29	1.04
3944310--3944345	19	1.9	19	88	5	56	41	2	16	38	1.63
3944923--3944991	9	7.6	9	74	9	50	28	4	1	65	1.21
3949817--3949878	32	1.9	32	90	0	97	43	9	4	41	1.59
3955026--3955262	50	4.6	50	78	6	183	24	27	20	27	1.99
3958742--3958780	19	2.1	19	100	0	78	30	25	10	33	1.89
3966521--3966545	12	2.1	12	100	0	50	24	36	24	16	1.94
3966706--3966764	9	6.6	9	90	0	91	38	25	10	25	1.87
3966706--3966781	27	2.8	27	85	0	107	42	25	7	25	1.81
3966706--3966781	9	8.4	9	89	0	89	42	25	7	25	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3966706--3966773	18	3.8	18	90	0	109	41	25	8	25	1.84
3966888--3966931	18	2.4	18	88	0	61	13	2	43	40	1.57
3968624--3968685	9	6.9	9	75	14	56	69	1	0	29	0.98
3968614--3968687	36	2.0	37	84	7	98	67	2	0	29	1.04
3975616--3975651	19	1.9	19	88	5	56	41	2	16	38	1.63
3976546--3976643	46	2.2	46	98	1	189	37	3	22	36	1.70
3977920--3978083	86	1.9	86	92	0	274	33	7	29	28	1.86
3978133--3978230	28	3.5	28	97	1	180	27	12	27	32	1.92
3978133--3978243	28	4.0	27	92	3	152	28	11	25	34	1.91
3978133--3978243	55	2.0	56	89	6	174	28	11	25	34	1.91
3978606--3978697	44	2.1	44	95	0	166	19	8	22	48	1.76
3983896--3984229	40	8.4	40	82	3	327	24	23	25	26	2.00
3983927--3984170	79	3.1	78	86	3	344	23	22	27	26	2.00
3983896--3984161	119	2.2	120	87	2	367	24	23	25	25	2.00
3983898--3984240	159	2.2	158	83	2	429	23	23	25	26	2.00
3990706--3990861	40	3.9	39	87	4	197	22	22	28	26	1.99
3990708--3990932	40	5.7	40	83	2	195	23	23	25	28	2.00
3996235--3996294	28	2.1	29	81	9	70	30	26	1	41	1.65
3999813--3999949	51	2.8	49	80	2	157	25	21	24	27	1.99
3999813--3999957	49	2.9	51	79	3	159	26	21	24	27	1.99
4000473--4000597	62	2.0	62	92	0	205	38	12	21	28	1.89
4000935--4001056	61	2.0	61	95	0	217	28	17	27	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4005802--4005976	50	3.5	49	85	3	192	26	16	24	32	1.96
4008413--4009346	27	34.6	25	84	1	607	27	20	15	36	1.93
4009342--4009482	27	5.3	27	81	6	117	30	7	20	41	1.79
4008400--4009346	54	17.5	54	95	0	1628	27	20	15	36	1.93
4009358--4009478	53	2.3	54	86	1	163	30	7	22	39	1.81
4009475--4009604	27	4.8	27	92	0	215	36	7	24	30	1.84
4009475--4009631	81	1.9	81	88	0	233	35	7	24	32	1.84
4009445--4009615	27	6.3	27	86	0	207	34	7	23	34	1.83
4009358--4009643	27	10.6	27	83	1	173	32	7	22	36	1.83
4009445--4009642	54	3.7	54	80	2	191	34	7	22	35	1.83
4009464--4009642	81	2.2	80	83	4	232	34	7	23	34	1.83
4011938--4012019	25	3.3	25	89	3	103	23	24	21	30	1.99
4012179--4012242	27	2.4	28	76	7	69	37	26	18	17	1.93
4012222--4012408	27	7.0	27	85	4	236	25	20	17	36	1.94
4012398--4012593	27	7.3	27	76	8	141	33	9	19	36	1.85
4012439--4012580	54	2.6	54	86	0	176	33	10	19	37	1.86
4012501--4012699	54	3.7	53	78	5	148	35	8	22	33	1.84
4012572--4012674	27	3.8	27	92	0	161	39	6	22	31	1.80
4018214--4018322	54	2.0	54	96	0	200	26	17	15	40	1.89
4025394--4025483	29	3.1	28	82	7	119	27	11	30	31	1.91
4029733--4029855	48	2.6	48	92	1	212	27	17	30	23	1.97
4043640--4043718	37	2.1	37	90	0	122	25	31	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4043837--4044081	49	5.1	49	90	3	381	28	30	8	31	1.87
4043837--4044081	96	2.5	96	91	1	382	28	30	8	31	1.87
4047180--4047258	39	2.0	39	95	0	140	35	6	30	27	1.82
4052207--4052275	32	2.1	33	86	2	95	24	42	27	5	1.77
4053641--4054703	40	26.6	40	97	0	1916	27	27	20	24	1.99
4061831--4061886	29	2.0	28	89	3	85	21	19	25	33	1.97
4063404--4063493	41	2.2	41	95	0	162	22	44	21	12	1.85
4063893--4063925	18	1.9	17	88	11	50	30	15	12	42	1.83
4067783--4067822	19	2.2	19	86	4	55	57	15	0	27	1.38
4071377--4071507	47	2.8	48	84	4	169	34	26	16	22	1.95
4077880--4077917	19	2.0	19	89	0	58	28	34	10	26	1.90
4083792--4083843	20	2.7	21	83	16	60	36	21	0	42	1.53
4087280--4087828	252	2.2	249	84	7	691	36	10	7	45	1.67
4087804--4087852	10	4.7	10	80	9	53	40	0	4	55	1.19
4087902--4087926	7	3.6	7	100	0	50	44	0	12	44	1.41
4095746--4095911	43	3.9	43	80	5	185	27	13	26	32	1.94
4103348--4103521	40	4.4	39	84	7	192	24	26	22	26	2.00
4103381--4103528	40	3.7	40	87	7	212	25	27	22	25	2.00
4103381--4103528	79	1.9	80	87	7	221	25	27	22	25	2.00
4109341--4109498	43	3.7	43	72	8	142	27	13	25	32	1.94
4118320--4118483	46	3.5	46	80	12	142	29	19	27	23	1.98
4118360--4118483	46	2.7	45	84	9	146	29	20	29	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4132964--4133003	21	2.0	20	85	5	53	10	32	25	32	1.89
4139740--4139768	14	2.0	15	93	6	51	27	0	20	51	1.47
4141169--4141245	28	2.8	28	86	4	93	23	31	18	27	1.97
4143838--4143876	20	1.9	21	89	5	62	48	0	15	35	1.45
4150922--4150961	21	1.9	21	85	10	55	25	7	42	25	1.80
4152144--4152198	28	2.0	28	100	0	110	18	18	21	41	1.90
4158458--4158490	17	1.9	17	93	0	57	21	3	36	39	1.69
4168810--4169219	200	2.0	201	94	5	714	34	23	17	25	1.96
4169495--4169609	59	1.9	59	91	3	187	35	22	14	26	1.93
4169957--4170055	50	2.0	50	97	0	189	21	29	18	31	1.97

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