genome.fa.s4.2.7.7.80.10.50.1000.181.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  181  of  255  ( 30512 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)
59724835--59724875	11	3.7	11	80	0	55	19	14	9	56	1.66
59724911--59724974	30	2.1	30	94	0	110	25	3	14	57	1.51
59725096--59725132	11	3.1	13	81	18	53	67	0	0	32	0.91
59725515--59725586	31	2.3	30	81	11	83	34	0	0	65	0.93
59726294--59726557	87	3.0	89	82	5	311	26	14	11	47	1.78
59730068--59730121	27	2.0	27	88	0	81	37	9	16	37	1.81
59730118--59730155	17	2.2	18	90	9	62	47	13	13	26	1.79
59741597--59741748	42	3.6	42	79	8	157	28	15	25	30	1.96
59747199--59747546	27	12.9	27	80	3	182	37	21	6	34	1.79
59747231--59747429	54	3.7	54	86	0	245	35	22	6	35	1.79
59747244--59747429	81	2.3	81	86	0	246	33	23	5	37	1.79
59747231--59747535	81	3.8	81	79	2	229	38	21	6	34	1.79
59747231--59747630	27	14.8	27	79	5	164	38	20	7	34	1.80
59747648--59747721	27	2.7	27	76	12	71	37	20	20	21	1.94
59747661--59747725	27	2.4	27	82	5	78	35	18	24	21	1.96
59748816--59748898	31	2.7	31	96	3	152	27	16	27	27	1.97
59751887--59751933	22	2.2	21	84	3	58	36	21	8	34	1.84
59751906--59751956	19	2.9	16	78	18	57	35	17	9	37	1.83
59751904--59751946	19	2.1	21	91	8	72	34	18	9	37	1.83
59755857--59755892	16	2.1	17	90	10	56	44	13	5	36	1.68
59768044--59768106	27	2.3	27	86	0	90	38	14	22	25	1.92
59772833--59772873	22	1.9	22	90	5	66	9	41	29	19	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59781455--59781486	12	2.7	12	100	0	64	25	28	40	6	1.79
59783479--59783702	49	4.5	50	78	3	220	29	25	18	25	1.98
59786351--59786408	29	2.0	29	100	0	116	44	13	17	24	1.85
59788677--59788921	49	4.9	49	79	4	267	28	26	17	27	1.97
59788690--59788915	101	2.3	99	82	3	258	29	26	16	27	1.97
59804740--59804888	51	3.1	50	71	19	145	32	28	17	22	1.96
59804804--59804912	43	2.6	43	82	1	121	32	32	17	18	1.94
59812625--59812724	51	2.0	51	84	4	130	31	26	22	21	1.98
59812686--59812801	43	2.7	43	78	6	137	27	29	20	22	1.99
59820691--59820955	40	6.6	40	93	0	431	24	27	19	28	1.99
59828675--59828857	40	4.6	40	95	0	312	22	28	21	26	1.99
59833043--59833113	36	2.0	35	81	5	81	29	26	9	33	1.89
59853392--59853462	20	3.5	20	94	0	115	36	11	21	30	1.88
59853403--59853457	11	5.4	11	70	16	55	36	12	20	30	1.90
59853509--59853626	23	5.1	23	94	0	200	27	22	21	29	1.99
59853841--59853904	31	2.1	31	81	0	74	39	17	20	23	1.92
59857422--59857887	47	9.7	47	92	2	734	28	29	7	34	1.85
59857422--59857888	96	4.9	96	92	2	762	28	29	7	34	1.85
59857422--59857887	239	1.9	238	94	1	817	28	29	7	34	1.85
59861154--59861594	40	11.1	40	91	1	652	24	27	23	24	2.00
59863819--59864425	47	12.7	47	93	2	964	28	29	8	33	1.86
59863819--59864425	239	2.5	239	94	2	1053	28	29	8	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59863819--59864426	143	4.3	143	91	2	985	28	29	8	33	1.86
59867576--59867690	54	2.1	54	83	0	140	30	23	8	37	1.85
59867603--59867723	27	4.5	27	95	0	197	27	22	9	41	1.84
59867630--59867744	27	4.3	27	91	2	88	29	24	7	38	1.83
59867630--59867744	54	2.1	54	83	3	142	29	24	7	38	1.83
59867558--59867768	81	2.6	81	71	4	201	35	22	7	34	1.82
59867726--59867876	81	1.9	81	84	8	209	43	20	7	28	1.78
59867726--59867878	27	5.7	27	81	6	143	43	20	7	28	1.79
59867981--59868058	27	2.9	27	77	11	88	37	21	20	20	1.95
59869214--59869261	25	1.9	25	86	0	69	33	25	16	25	1.96
59869300--59869356	9	5.9	9	73	15	51	35	8	21	35	1.84
59869298--59869368	20	3.5	20	94	0	124	35	11	21	32	1.89
59869309--59869363	11	5.4	11	70	16	55	36	12	20	30	1.90
59869415--59869602	23	8.1	23	94	1	322	27	21	21	30	1.98
59869817--59869880	31	2.1	31	87	0	92	37	15	21	25	1.93
59877447--59877592	40	3.7	40	87	3	197	25	28	22	23	2.00
59886431--59886497	21	3.3	20	71	10	55	10	10	8	70	1.35
59891722--59891832	43	2.6	43	81	5	127	24	17	21	36	1.94
59896209--59896335	63	2.0	63	100	0	254	36	14	14	35	1.86
59903954--59904013	27	2.3	27	85	2	77	21	23	20	35	1.96
59911387--59911446	27	2.3	26	88	2	84	20	23	21	35	1.96
59912226--59912476	41	6.1	40	83	6	220	37	23	20	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59912235--59912476	82	3.0	83	84	3	294	36	23	21	19	1.95
59912235--59912476	123	2.0	123	83	3	308	36	23	21	19	1.95
59912807--59912850	21	2.1	21	83	8	54	18	0	45	36	1.49
59912822--59912919	50	2.0	49	82	6	117	26	1	31	40	1.63
59913049--59913110	22	2.9	22	72	13	58	29	1	24	45	1.63
59913059--59913110	22	2.4	22	80	3	70	26	1	25	46	1.63
59913137--59913162	7	3.7	7	100	0	52	11	0	46	42	1.40
59913738--59913780	21	2.1	20	82	4	50	25	0	23	51	1.49
59913841--59913888	19	2.5	20	93	6	82	68	4	4	22	1.24
59913875--59913908	6	5.3	6	89	10	50	76	0	0	23	0.79
59913882--59913906	13	1.9	13	100	0	50	80	0	0	20	0.72
59913882--59913923	15	3.0	14	86	6	50	71	0	4	23	1.05
59916651--59916695	13	3.5	13	84	0	63	51	0	0	48	1.00
59916717--59916757	22	1.9	21	85	5	55	43	2	0	53	1.13
59919511--59919558	20	2.4	21	82	10	64	22	2	6	68	1.23
59922953--59923073	27	4.5	27	84	0	152	35	16	23	23	1.95
59922949--59923073	54	2.3	54	86	4	180	35	16	24	24	1.95
59923234--59923291	27	2.1	27	81	6	64	22	15	22	39	1.91
59933193--59933370	27	6.6	27	82	3	142	30	28	14	26	1.95
59933193--59933370	54	3.3	55	82	5	218	30	28	14	26	1.95
59933214--59933369	82	1.9	81	88	3	233	30	28	14	26	1.95
59947933--59947975	20	2.2	20	83	8	52	46	2	16	34	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59948664--59948769	57	1.9	55	88	7	160	25	19	21	33	1.97
59958208--59958249	16	2.6	16	92	0	66	50	28	19	2	1.60
59958218--59958253	8	4.3	9	83	16	51	52	27	19	0	1.46
59958463--59958557	29	3.3	28	80	5	109	27	12	26	33	1.92
59958482--59958575	29	3.3	29	82	7	111	23	15	31	28	1.96
59963036--59963131	29	3.3	29	82	1	122	26	12	31	30	1.93
59966216--59966301	23	3.7	22	77	10	84	22	23	17	37	1.94
59969798--59969893	45	2.1	45	86	1	138	22	17	16	42	1.88
59970595--59970714	43	2.8	42	80	7	143	31	14	24	30	1.94
59975988--59976022	17	2.0	17	88	5	52	14	25	40	20	1.90
59976241--59976312	27	2.7	27	84	0	90	36	19	19	25	1.95
59976254--59976331	27	2.9	28	78	14	67	37	17	15	29	1.91
59976448--59976551	27	3.9	27	79	8	97	21	22	21	35	1.96
59979361--59979456	34	2.6	36	80	11	106	29	25	19	26	1.99
59979388--59979456	34	2.0	34	94	0	120	30	23	20	26	1.98
59989845--59989911	34	2.0	34	90	0	107	28	20	22	28	1.99
59991572--59991612	18	2.3	18	95	4	75	26	39	0	34	1.57
60021780--60021805	13	2.0	13	100	0	52	15	30	30	23	1.95
60033735--60033802	28	2.4	29	85	9	95	29	29	13	27	1.94
60034035--60034072	16	2.4	16	95	0	67	15	18	15	50	1.79
60034014--60034080	24	2.8	25	79	6	84	13	17	19	49	1.80
60035928--60035976	24	2.0	24	100	0	98	28	10	36	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60036399--60036583	40	4.7	40	81	6	207	24	27	22	25	2.00
60036401--60036583	79	2.3	81	81	7	205	24	26	22	25	2.00
60040858--60040919	28	2.2	28	85	2	79	30	32	11	25	1.91
60041136--60041180	16	2.8	16	86	0	63	11	17	17	53	1.72
60044048--60044270	40	5.6	40	88	4	292	26	28	22	23	1.99
60044048--60044270	79	2.8	79	87	4	290	26	28	22	23	1.99
60052148--60052370	40	5.6	40	86	4	274	26	27	22	22	1.99
60052148--60052336	79	2.4	79	89	3	274	26	26	23	23	2.00
60052148--60052370	79	2.8	76	85	6	250	26	27	22	22	1.99
60055939--60056145	40	5.2	40	98	0	387	28	19	28	23	1.98

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