genome.fa.s9.2.7.7.80.10.50.1000.19.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_A09
Parameters: 2 7 7 80 10 50 1000
Length:  77927517

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   

This is table  19  of  250  ( 29906 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)
5301009--5301050	22	2.0	21	85	4	57	64	2	2	30	1.19
5301126--5301181	16	3.2	17	78	16	60	62	1	3	32	1.23
5301162--5301252	10	9.2	10	71	20	50	61	1	3	34	1.19
5301170--5301290	19	6.3	19	66	22	56	61	0	4	32	1.23
5301631--5301708	18	4.4	18	75	10	63	24	3	2	69	1.18
5301643--5301701	26	2.2	27	81	3	66	25	5	1	67	1.20
5301642--5301740	8	11.8	8	71	15	58	26	4	1	68	1.13
5302124--5302166	20	2.2	20	91	4	70	34	0	2	62	1.08
5304077--5304134	20	2.9	18	76	18	53	31	8	0	60	1.27
5308143--5308252	26	4.2	26	95	2	177	33	6	23	36	1.80
5311864--5311933	31	2.2	32	84	10	97	38	14	12	34	1.84
5311875--5311937	31	2.0	31	96	0	117	34	12	14	38	1.84
5324092--5324190	49	2.0	49	100	0	198	22	14	18	45	1.85
5329515--5329657	72	2.0	72	83	2	180	32	16	14	35	1.90
5332910--5332958	22	2.2	23	78	7	57	18	4	6	71	1.23
5334913--5334965	27	2.1	26	86	10	74	9	30	13	47	1.74
5337069--5337119	24	2.1	25	88	3	77	39	1	7	50	1.42
5342524--5342580	20	2.9	19	80	10	62	66	1	5	26	1.22
5342856--5342969	41	2.8	39	80	10	104	63	4	1	30	1.24
5342849--5342986	19	6.8	19	70	17	75	63	3	2	29	1.26
5342902--5342986	43	2.0	41	84	4	107	68	4	2	24	1.21
5342843--5343013	10	17.0	10	66	21	72	62	2	2	31	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5343439--5343494	9	6.0	9	73	22	53	30	3	0	66	1.09
5343441--5343586	10	14.9	10	67	17	56	33	4	1	60	1.26
5345822--5345892	35	2.0	35	91	0	115	29	18	7	45	1.76
5348977--5349002	13	2.0	13	100	0	52	7	23	7	61	1.49
5356615--5356681	31	2.2	31	89	5	100	38	14	16	29	1.89
5357321--5357512	96	2.0	96	98	0	375	25	18	15	41	1.89
5358431--5358732	151	2.0	151	96	1	554	31	10	7	50	1.64
5358856--5358980	62	2.0	62	95	0	223	40	9	17	32	1.82
5360380--5360459	34	2.3	35	82	2	90	40	27	10	22	1.86
5360509--5360546	20	1.9	20	94	0	67	36	31	10	21	1.87
5360886--5360928	20	2.2	20	91	0	68	48	9	13	27	1.73
5361545--5361573	2	14.5	2	100	0	58	48	0	0	51	1.00
5365004--5365028	12	2.1	12	100	0	50	60	0	8	32	1.26
5365069--5365114	11	3.9	11	78	15	56	69	0	2	28	1.00
5365064--5365148	25	3.4	25	80	6	93	64	1	2	31	1.13
5377599--5377633	14	2.5	14	95	0	61	34	8	11	45	1.71
5381459--5382248	47	16.6	47	92	2	1256	33	8	29	29	1.87
5381459--5382248	96	8.3	94	92	2	1220	33	8	29	29	1.87
5390165--5390216	24	2.2	24	82	3	61	57	21	3	17	1.55
5392802--5392828	14	1.9	14	100	0	54	7	7	3	81	0.97
5395174--5395314	60	2.4	59	82	9	162	27	26	20	24	1.99
5395942--5395971	8	3.8	8	90	0	51	3	23	20	53	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5398828--5398852	9	2.8	9	100	0	50	32	0	20	48	1.50
5403769--5403813	23	1.9	24	86	4	65	22	0	48	28	1.50
5417323--5417473	43	3.5	43	82	2	196	34	23	13	28	1.93
5419855--5419991	48	2.9	48	87	2	168	38	16	15	29	1.90
5429911--5429969	29	2.0	29	90	0	91	22	6	33	37	1.80
5439648--5439797	48	3.1	48	85	0	183	28	20	24	27	1.99
5441975--5442158	40	4.6	39	77	9	140	33	25	16	25	1.96
5441980--5442130	81	1.9	82	83	6	200	31	25	15	27	1.96
5447856--5447907	24	2.0	27	85	14	74	34	5	13	46	1.67
5455714--5455775	33	1.9	31	81	15	72	77	8	0	14	0.98
5457159--5457194	16	2.2	16	90	0	54	72	2	2	22	1.11
5457307--5457370	15	4.1	15	72	18	51	65	3	1	29	1.17
5457308--5457364	24	2.3	25	90	6	89	63	3	1	31	1.22
5464121--5464196	38	2.0	39	86	2	109	39	21	13	26	1.89
5466518--5466550	14	2.4	14	94	0	57	39	9	6	45	1.61
5468789--5468831	19	2.4	19	88	7	63	37	13	11	37	1.82
5468797--5468833	19	1.9	19	100	0	74	37	10	16	35	1.83
5468797--5468856	19	2.8	22	85	9	72	36	8	16	38	1.79
5475013--5475714	44	15.9	44	78	9	671	29	15	27	28	1.96
5475013--5475714	220	3.2	219	87	5	927	29	15	27	28	1.96
5475188--5475805	176	3.5	176	79	9	544	30	15	26	27	1.96
5475861--5476268	45	9.1	44	69	11	139	30	15	25	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5475767--5476122	134	2.7	135	84	5	472	31	17	22	28	1.96
5475782--5475980	44	4.4	46	68	14	135	31	18	23	26	1.97
5476109--5476308	45	4.5	45	86	1	267	31	15	29	25	1.95
5476128--5476291	89	1.8	89	92	0	274	28	14	30	26	1.95
5476658--5476724	19	3.9	19	71	28	78	35	10	17	35	1.85
5476658--5476715	30	1.9	31	96	3	109	34	10	18	36	1.85
5476686--5476747	23	3.0	22	84	11	69	35	8	17	38	1.80
5478389--5478421	3	11.0	3	100	0	66	66	0	0	33	0.92
5478728--5478779	17	3.1	17	77	8	52	30	3	1	63	1.23
5481521--5481564	3	14.7	3	100	0	88	0	31	0	68	0.90
5482292--5482330	3	13.0	3	100	0	78	66	0	0	33	0.92
5493533--5493627	29	3.4	29	72	19	85	46	3	1	49	1.24
5497671--5497716	22	2.0	24	87	8	69	23	0	6	69	1.11
5498644--5498674	3	10.3	3	92	0	53	61	0	0	38	0.96
5498646--5498675	15	2.0	15	100	0	60	60	0	0	40	0.97
5500102--5500389	145	2.0	145	100	0	576	26	7	8	57	1.54
5500338--5500396	30	2.0	30	93	0	100	25	1	10	62	1.36
5502447--5502471	2	12.5	2	100	0	50	52	0	0	48	1.00
5502478--5502593	56	2.1	54	90	9	182	43	14	6	35	1.73
5507408--5507579	93	1.8	93	96	0	317	27	29	21	20	1.98
5507401--5507576	46	3.8	46	79	12	216	28	29	21	20	1.98
5508956--5509032	18	4.1	18	74	12	73	41	15	22	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5509545--5509769	114	2.0	114	90	0	351	29	27	14	28	1.95
5510359--5510411	8	6.6	8	78	22	58	39	0	0	60	0.97
5510371--5510415	17	2.7	17	96	3	83	40	0	0	60	0.97
5514356--5514425	28	2.5	28	90	0	113	37	10	24	28	1.88
5520010--5520080	31	2.3	31	80	0	88	38	11	9	40	1.74
5528122--5528147	12	2.2	12	100	0	52	23	11	15	50	1.76
5535716--5535768	20	2.8	18	83	13	63	66	1	3	28	1.20
5536440--5536468	13	2.2	13	100	0	58	37	0	6	55	1.27
5539907--5539966	33	1.9	32	86	10	88	50	5	20	25	1.68
5546973--5547046	29	2.6	29	89	4	105	25	16	32	25	1.96
5555348--5555421	29	2.6	29	89	4	105	25	16	32	25	1.96
5557118--5557151	18	1.9	17	88	5	50	38	0	23	38	1.55
5560067--5560122	29	1.9	29	85	0	76	48	19	7	25	1.74
5560286--5560422	54	2.5	54	83	0	175	26	25	16	31	1.97
5574196--5574240	20	2.2	20	100	0	90	37	4	13	44	1.64
5584248--5584284	18	2.1	18	100	0	74	45	21	5	27	1.73
5588001--5588076	33	2.2	35	86	13	120	30	2	18	48	1.62
5588010--5588077	33	2.1	33	100	0	136	29	2	17	50	1.61
5589388--5589430	11	4.0	11	84	6	61	27	6	46	18	1.75
5593472--5593546	18	4.2	18	82	0	87	33	14	22	29	1.94
5593470--5593540	36	2.0	36	85	0	97	32	14	22	30	1.93
5594090--5594131	11	3.8	11	93	0	66	30	4	47	16	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5600067--5600338	144	1.9	144	91	1	447	31	16	23	27	1.96
5602758--5602792	18	1.9	18	88	0	52	28	0	2	68	1.04
5608029--5608061	16	1.9	17	88	11	50	51	36	6	6	1.51
5608232--5608288	17	3.5	16	76	9	53	75	12	7	5	1.17
5609736--5609767	12	2.6	13	85	14	50	15	0	0	84	0.63
5615868--5615996	44	2.8	46	81	5	163	31	31	16	20	1.94
5615868--5615989	47	2.7	46	84	3	158	31	31	16	19	1.94
5623559--5623735	47	3.8	46	82	4	189	32	30	17	19	1.95
5625066--5625113	23	2.1	24	84	7	64	68	4	0	27	1.07
5626488--5626514	4	6.8	4	100	0	54	48	0	0	51	1.00

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