genome.fa.s4.2.7.7.80.10.50.1000.17.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: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   

This is table  17  of  253  ( 30316 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)
4781790--4781999	47	4.6	46	83	6	203	29	25	15	29	1.96
4782008--4782036	7	4.1	7	100	0	58	13	27	13	44	1.82
4782035--4782183	31	4.8	31	85	0	190	26	26	19	27	1.99
4782159--4782287	50	2.5	51	88	5	190	27	22	16	34	1.95
4792356--4792405	22	2.3	22	82	10	66	34	2	2	62	1.18
4792356--4792412	22	2.6	22	75	10	62	35	1	3	59	1.25
4793273--4793327	22	2.5	22	88	8	78	61	3	0	34	1.13
4793307--4793358	24	2.1	26	89	7	81	55	3	0	40	1.18
4793376--4793405	14	2.1	15	93	6	53	76	0	0	23	0.78
4793409--4793447	13	2.9	13	80	3	51	79	2	10	7	1.02
4796653--4796756	51	2.0	51	96	0	190	32	11	23	32	1.90
4801088--4801163	29	2.6	29	83	4	82	63	1	2	32	1.17
4801104--4801161	9	5.9	10	77	16	59	62	1	0	36	1.06
4806891--4806936	21	2.2	21	85	11	60	54	26	0	19	1.44
4807497--4807534	13	2.9	14	88	7	53	73	7	0	18	1.06
4807493--4807540	10	4.2	12	80	19	50	77	6	0	16	0.97
4808346--4808387	22	2.0	21	85	4	57	40	4	7	47	1.52
4810818--4810861	20	2.3	19	84	4	52	63	2	0	34	1.07
4810819--4810862	19	2.3	18	81	11	52	61	2	0	36	1.09
4810824--4810874	19	2.5	21	81	15	70	54	5	0	39	1.24
4812512--4812536	10	2.5	10	100	0	50	56	0	8	36	1.29
4813180--4813224	10	4.6	10	84	13	58	0	11	0	88	0.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4813179--4813223	8	5.9	8	84	5	58	0	11	0	88	0.50
4813180--4813224	9	4.9	9	89	10	65	0	11	0	88	0.50
4813192--4813224	17	1.9	17	100	0	66	0	9	0	90	0.44
4813193--4813230	17	2.2	17	90	0	58	5	7	0	86	0.69
4813349--4813579	118	2.0	118	90	0	363	29	30	17	23	1.97
4814530--4814568	17	2.3	17	100	0	78	76	0	0	23	0.78
4814531--4814608	6	12.7	6	77	20	65	78	0	5	16	0.93
4820793--4820824	10	3.3	10	95	4	57	62	0	6	31	1.20
4830754--4830791	18	2.1	18	85	9	51	36	2	0	60	1.11
4839149--4839184	17	2.1	18	89	5	56	27	2	0	69	1.02
4841133--4841185	27	2.0	27	85	10	74	41	5	7	45	1.56
4842185--4842254	20	3.7	20	70	19	53	58	2	1	37	1.22
4842138--4842289	19	8.5	17	72	19	80	58	1	2	36	1.23
4842129--4842290	9	17.8	9	73	14	93	59	1	3	35	1.24
4842354--4842389	18	1.9	19	88	5	56	69	2	2	25	1.15
4842833--4843019	10	19.3	9	67	20	60	31	2	3	62	1.27
4842861--4842904	21	2.0	22	86	4	63	25	2	4	68	1.20
4842861--4843019	9	16.2	10	67	20	61	30	1	3	63	1.23
4842861--4842964	30	3.5	31	74	18	87	32	0	3	62	1.20
4842986--4843025	19	2.0	22	85	14	59	20	2	2	75	1.04
4842995--4843047	28	2.0	26	85	7	70	18	7	3	69	1.28
4844666--4844745	25	3.1	25	89	7	99	61	0	2	36	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4844675--4844748	8	8.6	8	75	12	67	60	0	1	37	1.05
4847022--4847053	15	2.1	15	94	0	55	12	9	9	68	1.39
4851598--4851638	16	2.5	17	76	11	50	73	2	0	24	0.96
4851597--4851662	23	2.8	23	74	2	60	65	1	0	33	1.02
4853519--4853637	59	2.0	60	96	1	222	34	11	10	42	1.77
4858329--4858414	25	3.4	25	100	0	172	48	0	6	44	1.29
4859714--4859771	30	1.9	30	82	6	73	36	5	18	39	1.74
4869796--4870004	46	4.6	45	82	10	232	43	12	22	21	1.86
4869807--4870004	90	2.2	90	85	7	260	43	13	22	21	1.86
4871800--4871876	31	2.5	31	80	4	84	33	0	5	61	1.19
4878736--4878802	33	2.0	34	94	5	120	38	8	0	52	1.33
4878747--4878801	16	3.2	18	73	21	64	38	9	0	52	1.33
4884647--4885165	44	11.7	43	66	16	199	30	16	26	26	1.96
4884646--4885251	177	3.4	177	84	3	715	30	16	25	26	1.97
4885074--4885372	133	2.2	134	83	8	362	30	18	24	26	1.98
4885320--4885429	44	2.5	44	82	4	123	30	12	30	27	1.93
4885074--4885431	133	2.7	134	80	9	344	30	17	24	26	1.97
4887585--4887653	20	3.5	20	82	7	77	10	39	2	47	1.52
4891060--4891090	7	4.4	7	100	0	62	51	0	0	48	1.00
4898646--4898670	4	6.2	4	100	0	50	28	0	0	72	0.86
4906474--4906523	26	1.9	26	88	8	75	34	0	2	64	1.05
4906472--4906524	22	2.4	22	78	15	63	33	0	1	64	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4906475--4906531	26	2.2	26	81	12	64	33	3	1	61	1.23
4906538--4906599	30	2.1	30	84	6	81	33	3	1	61	1.22
4908843--4908908	33	2.0	33	100	0	132	48	15	9	27	1.74
4909046--4909142	50	1.9	50	87	4	142	34	13	9	43	1.76
4910159--4910501	182	1.9	179	85	4	474	31	11	21	35	1.90
4910602--4910665	21	3.3	21	66	20	66	31	9	14	45	1.76
4910591--4910665	37	2.0	37	100	0	150	29	10	16	44	1.81
4913255--4913818	288	2.0	278	82	7	665	33	13	17	35	1.88
4914155--4914230	11	6.8	11	72	21	52	42	1	1	55	1.16
4914172--4914297	20	7.3	18	68	24	69	43	1	4	50	1.33
4924177--4924208	3	10.7	3	93	0	55	31	3	0	65	1.08
4924161--4924222	12	5.9	10	79	18	65	27	1	4	66	1.21
4936849--4937265	44	9.6	44	77	6	332	30	21	22	25	1.98
4936850--4937277	87	4.9	87	75	9	388	30	21	22	25	1.98
4936803--4937196	131	3.0	132	76	9	462	31	21	22	25	1.98
4936893--4937317	217	2.0	217	85	3	586	30	20	22	26	1.98
4936805--4937275	262	1.8	262	95	0	836	30	20	22	26	1.98
4938691--4938722	3	10.7	3	93	0	55	31	3	0	65	1.08
4938675--4938736	12	5.9	10	79	18	65	27	1	4	66	1.21
4941971--4942001	16	1.9	16	93	0	53	58	0	0	41	0.98
4942338--4942410	35	2.1	34	85	12	96	16	16	17	49	1.80
4942338--4942556	37	6.1	35	68	21	98	15	18	19	46	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4942392--4942606	73	2.9	73	88	2	315	14	18	19	46	1.83
4942449--4942566	36	3.2	36	70	23	111	16	17	22	43	1.88
4942391--4942580	37	5.2	37	66	16	117	15	18	19	46	1.84
4942995--4943034	20	2.0	20	85	0	53	65	2	7	25	1.32
4943089--4943154	16	3.9	16	71	21	55	65	3	1	30	1.17
4943074--4943128	26	2.1	26	89	0	83	61	5	1	30	1.29
4943294--4943659	148	2.5	147	94	1	621	27	18	23	30	1.97
4944240--4944286	21	2.2	21	81	11	51	61	0	8	29	1.25
4952313--4952504	98	1.9	99	84	1	251	30	14	22	32	1.94
4958738--4958788	25	2.0	25	96	0	93	45	15	9	29	1.79
4961520--4961547	5	5.6	5	100	0	56	21	0	0	78	0.75
4961517--4961555	15	2.6	14	80	11	51	28	0	0	71	0.86
4963868--4963918	21	2.5	21	76	20	54	37	0	1	60	1.08
4966615--4966674	31	1.9	31	100	0	120	40	13	10	36	1.78
4968428--4968467	2	20.0	2	100	0	80	50	50	0	0	1.00
4969473--4969627	85	1.8	83	87	2	229	36	10	14	39	1.80
4969473--4969639	84	2.0	84	85	2	228	35	10	13	40	1.79
4972058--4972093	6	6.0	6	86	0	54	77	19	0	2	0.88
4974705--4974734	15	2.0	15	93	0	51	73	10	6	10	1.25
4980529--4980721	105	1.8	104	87	5	291	32	23	11	31	1.91
4980529--4980721	35	5.5	35	85	3	255	32	23	11	31	1.91
4994630--4994696	21	3.2	21	66	8	64	49	17	5	26	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4994635--4994702	22	3.2	22	66	8	68	50	19	4	26	1.66
4994622--4994705	42	2.0	42	100	0	168	50	19	4	26	1.67
4995137--4995214	38	2.1	38	97	0	147	44	15	20	19	1.86
4995526--4995554	6	5.0	6	91	8	51	82	0	0	17	0.66
5003978--5004037	29	2.1	29	93	0	102	43	6	28	21	1.78
5011507--5011570	28	2.2	31	83	8	80	45	1	4	48	1.32
5015928--5015967	19	2.0	21	85	9	57	60	12	5	22	1.52
5024298--5024352	25	2.2	25	86	0	74	58	3	9	29	1.46
5024347--5024438	9	10.1	9	70	21	50	51	4	6	38	1.48
5026847--5026949	51	2.0	51	98	0	197	26	17	15	40	1.89

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