genome.fa.s8.2.7.7.80.10.50.1000.152.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  152  of  279  ( 33431 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)
49471511--49471544	15	2.2	16	94	5	61	73	0	2	23	0.97
49471511--49471555	15	2.9	15	83	3	54	64	0	4	31	1.13
49472013--49472057	18	2.4	19	85	7	56	55	4	0	40	1.20
49477282--49478193	46	19.8	46	97	1	1686	21	19	28	30	1.98
49490182--49490372	39	4.9	39	85	3	208	20	21	29	28	1.98
49492987--49493114	21	6.0	21	78	4	114	14	21	25	38	1.92
49492986--49493114	65	2.0	64	89	1	195	14	20	25	38	1.91
49492987--49493114	44	3.0	42	74	7	125	14	21	25	38	1.92
49495707--49495787	34	2.4	34	80	12	94	48	2	1	48	1.23
49495707--49495795	7	13.3	7	72	17	64	49	2	1	47	1.21
49496922--49496979	29	1.9	31	89	6	93	20	22	15	41	1.90
49499392--49499524	46	2.9	47	81	3	162	30	24	22	22	1.99
49507683--49507723	19	2.0	21	86	9	59	46	9	4	39	1.58
49511333--49511388	24	2.3	25	81	6	78	32	7	16	44	1.74
49514543--49514567	12	2.1	12	100	0	50	92	8	0	0	0.40
49515399--49515440	18	2.3	18	87	0	66	59	11	11	16	1.61
49530321--49530390	29	2.5	28	81	6	79	34	4	5	55	1.43
49530633--49530697	29	2.2	29	91	2	94	40	12	9	38	1.75
49539913--49539969	29	2.0	28	92	0	87	26	22	26	22	1.99
49543530--49543562	9	3.6	9	95	4	57	12	0	0	87	0.53
49562699--49562817	59	2.0	59	96	0	220	23	20	2	53	1.57
49565373--49565429	30	1.9	30	96	0	105	0	0	29	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49565373--49565427	28	2.0	28	96	0	101	0	0	27	72	0.85
49571215--49571266	16	3.2	16	94	0	86	28	0	36	34	1.58
49571503--49571537	18	2.0	17	88	5	52	54	0	0	45	0.99
49571461--49571533	27	2.7	27	76	8	76	52	2	0	45	1.15
49573114--49573179	19	3.4	19	97	2	123	43	21	4	30	1.72
49573867--49573901	14	2.4	14	95	4	61	65	0	25	8	1.21
49573877--49573921	19	2.5	18	82	17	58	66	0	26	6	1.16
49578114--49578211	48	2.0	48	100	0	196	37	12	29	20	1.89
49582316--49582390	39	1.9	39	97	0	141	28	22	5	44	1.75
49591503--49591542	20	2.0	20	95	0	71	27	10	10	52	1.66
49591488--49591554	34	1.9	35	87	3	100	32	8	10	47	1.69
49591745--49591838	26	3.7	25	68	14	75	52	7	5	35	1.52
49591721--49591826	51	2.1	51	100	0	212	49	9	3	37	1.53
49592132--49592461	111	3.0	111	98	0	637	40	15	11	32	1.83
49609175--49609218	22	2.0	22	86	13	63	61	0	2	36	1.09
49610205--49610304	52	1.9	52	97	0	191	26	23	9	42	1.83
49615934--49616117	40	4.6	40	81	9	198	25	22	27	24	2.00
49615986--49616150	79	2.1	79	83	6	201	26	21	27	24	1.99
49617565--49617593	4	7.2	4	100	0	58	75	0	24	0	0.80
49620255--49620404	52	2.8	53	86	6	187	30	26	16	26	1.96
49620286--49620419	52	2.6	52	88	4	173	29	25	16	28	1.97
49627773--49627923	53	2.8	53	88	4	205	29	27	16	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49633692--49633811	56	2.1	56	100	0	240	44	9	24	22	1.82
49634941--49635165	40	5.7	40	86	5	287	24	22	27	25	2.00
49636613--49637393	4	195.2	4	100	0	1562	75	0	24	0	0.81
49637839--49637892	27	2.0	27	96	0	99	37	16	7	38	1.77
49637973--49638132	43	3.7	42	78	6	142	31	26	20	21	1.98
49637973--49638132	42	3.8	41	75	9	133	31	26	20	21	1.98
49639223--49639274	24	2.2	24	85	0	68	53	9	3	32	1.51
49649041--49649087	18	2.6	18	74	12	51	31	27	14	25	1.95
49653282--49653309	5	5.6	5	100	0	56	35	0	0	64	0.94
49653283--49653316	15	2.3	15	89	0	50	38	2	0	58	1.13
49654272--49654517	131	1.9	132	79	4	282	27	20	17	34	1.95
49656137--49656188	5	10.6	5	84	12	72	23	21	17	38	1.93
49656144--49656198	24	2.3	24	93	0	101	21	20	16	41	1.90
49656581--49656625	14	3.5	14	71	22	53	22	20	15	42	1.89
49656578--49656624	24	2.0	24	100	0	94	23	21	17	38	1.93
49656150--49657001	427	2.0	427	99	0	1677	33	20	22	23	1.97
49660451--49660919	45	10.6	43	65	10	124	30	19	24	25	1.98
49660430--49661606	131	9.0	128	90	4	1343	27	18	26	27	1.98
49661812--49662785	44	22.1	44	85	2	1161	28	15	30	25	1.96
49664623--49664650	5	5.6	5	100	0	56	35	0	0	64	0.94
49664624--49664657	15	2.3	15	89	0	50	38	2	0	58	1.13
49687577--49687619	18	2.4	19	88	11	72	44	23	16	16	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49692744--49692800	29	2.0	29	100	0	114	24	17	17	40	1.91
49704812--49704948	46	3.0	46	91	2	204	39	15	23	21	1.91
49716204--49716240	7	5.3	7	100	0	74	43	0	56	0	0.99
49718965--49719010	22	2.1	22	91	0	74	36	10	10	41	1.75
49720729--49720766	20	1.9	20	84	10	51	42	13	23	21	1.88
49722663--49722833	46	3.7	46	90	1	245	42	12	23	21	1.87
49731804--49731833	15	2.0	15	93	0	51	53	13	3	30	1.56
49731984--49732024	6	6.8	6	94	0	73	34	2	14	48	1.57
49732119--49732204	44	2.0	44	88	0	127	41	9	2	46	1.48
49732262--49732288	6	4.5	6	100	0	54	48	0	0	51	1.00
49732431--49732462	17	1.9	17	93	6	57	43	0	3	53	1.16
49737818--49737857	21	1.9	21	94	0	71	55	10	12	22	1.67
49742677--49742702	13	2.0	13	100	0	52	30	30	7	30	1.85
49743745--49743809	32	2.0	32	93	0	112	46	21	18	13	1.84
49745985--49746012	11	2.5	11	100	0	56	32	21	25	21	1.98
49753672--49753703	15	2.1	15	94	0	55	34	0	25	40	1.56
49754388--49754534	43	3.4	43	75	12	140	26	16	27	29	1.97
49763078--49763115	18	2.1	18	90	9	60	57	2	13	26	1.49
49763136--49763204	35	2.0	35	91	0	111	34	11	26	27	1.91
49763867--49763931	28	2.3	27	76	10	67	49	10	0	40	1.38
49763897--49763927	16	1.9	16	93	0	53	38	9	0	51	1.35
49765782--49765849	15	4.7	14	76	10	66	73	2	2	20	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49771490--49771527	17	2.1	19	90	9	62	55	5	13	26	1.59
49772265--49772329	28	2.3	27	76	10	67	49	10	0	40	1.38
49772295--49772325	16	1.9	16	93	0	53	38	9	0	51	1.35
49776600--49776625	6	4.3	6	100	0	52	38	0	0	61	0.96
49777881--49777925	22	2.0	22	91	8	74	44	2	0	53	1.13
49782258--49782313	25	2.2	25	90	0	85	32	23	12	32	1.92
49786150--49786212	24	2.7	23	85	7	81	33	28	15	22	1.95
49793297--49793357	24	2.5	24	86	5	79	34	29	16	19	1.94
49799339--49799515	47	3.8	47	78	5	164	20	19	26	32	1.97
49799391--49799515	46	2.7	46	82	4	146	20	19	25	34	1.96
49800738--49800797	17	3.7	16	78	10	59	53	0	1	45	1.10
49800833--49800885	20	2.8	19	72	10	56	52	5	3	37	1.43
49806328--49806382	27	2.0	27	100	0	110	30	25	10	32	1.90
49808284--49808405	41	3.0	41	92	1	199	31	16	18	32	1.93
49816077--49816242	53	3.1	53	88	6	221	25	15	28	30	1.96
49818863--49818970	44	2.4	44	87	3	144	29	23	13	33	1.93
49821019--49821043	13	1.9	13	100	0	50	32	8	16	44	1.76
49822704--49822814	47	2.4	47	83	6	145	35	22	16	26	1.95
49823578--49823658	4	19.8	4	77	5	72	4	25	3	65	1.30
49829773--49829830	29	2.0	29	93	0	98	41	20	20	17	1.90
49836173--49836305	43	3.1	43	91	2	207	30	33	24	12	1.92
49836277--49836359	38	2.2	37	85	6	114	31	26	20	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49853448--49853488	20	2.0	21	90	4	66	0	24	0	75	0.80
49875056--49875113	31	1.9	30	86	10	82	62	5	3	29	1.33
49875220--49875285	29	2.4	29	76	16	68	60	3	15	21	1.48
49876344--49876444	31	3.4	29	71	18	73	43	9	24	21	1.83
49876273--49876444	60	2.9	59	83	3	193	43	8	23	23	1.82
49876679--49876731	25	2.3	23	84	15	65	30	5	3	60	1.37
49883208--49883249	6	7.0	6	100	0	84	33	50	0	16	1.46
49886112--49886153	18	2.4	18	80	4	50	42	0	2	54	1.13
49899280--49899327	19	2.5	19	77	16	55	31	10	0	58	1.32
49918656--49918691	17	2.3	15	90	9	54	44	47	0	8	1.33

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