genome.fa.s4.2.7.7.80.10.50.1000.112.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  112  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)
35571006--35571191	40	4.7	40	80	7	209	24	22	27	25	1.99
35571059--35571224	80	2.1	79	81	7	185	26	20	27	25	1.99
35576190--35576374	40	4.7	40	79	6	198	25	26	23	24	2.00
35576190--35576374	79	2.3	80	78	8	198	25	26	23	24	2.00
35582419--35582603	40	4.7	40	82	6	216	24	22	28	24	1.99
35582472--35582636	79	2.1	79	82	6	192	26	20	27	24	1.99
35593253--35593287	17	2.1	17	89	5	54	5	14	0	80	0.89
35593252--35593306	30	1.9	27	85	10	74	9	12	1	76	1.10
35603650--35603689	21	1.9	21	100	0	80	47	7	25	20	1.75
35606621--35606663	20	2.2	20	100	0	86	25	32	0	41	1.56
35606886--35606988	37	2.8	36	89	2	143	26	33	18	21	1.96
35607129--35607697	48	11.9	48	95	0	1003	30	28	6	34	1.82
35610855--35610956	29	3.6	29	77	7	109	30	31	15	22	1.95
35610828--35610988	57	2.8	57	87	1	216	32	29	16	21	1.95
35610828--35610984	28	5.6	27	75	8	125	32	29	16	21	1.95
35611016--35611389	40	9.4	40	92	1	502	27	27	20	24	1.99
35612663--35612768	37	2.9	37	89	0	158	23	33	18	24	1.97
35612915--35613709	48	16.7	48	92	2	1291	30	27	6	34	1.82
35623042--35623075	15	2.3	15	89	0	50	44	11	32	11	1.77
35631926--35632233	40	7.7	40	90	2	438	24	29	21	24	1.99
35631926--35632233	162	1.9	160	87	1	454	24	29	21	24	1.99
35640527--35640834	40	7.7	40	90	2	429	24	29	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35640527--35640834	162	1.9	160	87	1	445	24	29	21	24	1.99
35647677--35647983	40	7.7	40	90	2	429	24	29	21	24	1.99
35647677--35647983	79	3.8	80	89	3	429	24	29	21	24	1.99
35653398--35653669	47	5.7	47	96	1	472	30	8	29	30	1.88
35653787--35653865	37	2.1	37	90	0	122	25	20	30	24	1.98
35658305--35658341	18	2.1	18	94	0	65	51	13	16	18	1.76
35669833--35669875	22	2.0	22	86	9	61	20	18	16	44	1.87
35670681--35670899	79	2.7	79	82	8	248	26	27	21	25	1.99
35670695--35670899	40	5.1	41	82	8	228	25	28	21	24	1.99
35676443--35676512	28	2.5	28	90	4	106	27	12	27	32	1.93
35676768--35676793	12	2.2	12	100	0	52	50	15	0	34	1.45
35683971--35684008	19	2.0	19	100	0	76	42	10	5	42	1.62
35700268--35700361	6	15.3	6	69	12	57	48	11	17	22	1.78
35700277--35700361	31	2.4	36	72	22	90	49	11	17	21	1.78
35700289--35700349	31	2.0	31	90	0	95	45	13	19	21	1.84
35700855--35700964	27	4.1	27	85	8	127	38	20	20	20	1.94
35708579--35708608	13	2.2	14	94	5	53	26	0	0	73	0.84
35709388--35709433	8	5.8	8	81	0	56	45	26	21	6	1.76
35709383--35709433	16	3.2	16	88	0	75	47	25	19	7	1.76
35709541--35709578	19	2.1	19	90	5	60	26	18	39	15	1.91
35709650--35709762	28	4.0	29	89	2	167	25	14	30	29	1.95
35709650--35709762	57	2.0	57	87	3	165	25	14	30	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35713006--35713068	30	2.1	30	87	0	90	25	26	14	33	1.94
35713497--35713538	22	1.9	22	90	0	66	80	0	19	0	0.70
35713497--35713542	5	8.8	5	83	9	56	82	0	17	0	0.67
35715985--35716037	26	2.0	26	100	0	106	26	18	7	47	1.75
35716354--35716403	24	2.0	25	84	3	66	20	12	4	64	1.43
35729219--35729246	14	2.0	14	100	0	56	50	21	0	28	1.49
35735899--35736362	27	17.2	27	84	4	542	28	21	9	40	1.84
35736367--35736562	27	7.3	27	82	0	230	35	18	19	26	1.95
35736761--35736843	27	3.1	26	87	5	112	19	21	21	37	1.94
35737153--35737226	27	2.8	27	85	6	89	17	24	21	36	1.95
35737344--35737652	6	50.8	6	76	15	289	20	17	14	47	1.82
35737344--35737652	91	3.5	85	87	8	422	20	17	14	47	1.82
35737402--35737598	37	5.4	36	77	14	99	19	19	13	47	1.82
35738893--35739004	43	2.7	43	74	2	120	28	25	18	26	1.98
35744575--35744726	27	5.6	27	89	2	223	30	28	15	26	1.96
35744575--35744726	55	2.8	54	87	2	223	30	28	15	26	1.96
35744575--35744726	82	1.9	82	90	0	241	30	28	15	26	1.96
35750853--35751014	27	6.1	27	86	2	202	24	12	18	44	1.84
35756617--35756859	101	2.4	98	84	4	308	24	18	26	30	1.98
35756614--35756847	49	4.7	50	80	5	285	24	18	26	29	1.98
35762235--35762334	44	2.3	44	82	5	114	26	24	19	31	1.98
35768484--35768544	28	2.2	28	78	0	68	32	21	18	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35768681--35768735	27	2.0	27	82	6	67	18	21	23	36	1.95
35768729--35768786	23	2.5	23	94	0	98	17	20	22	39	1.92
35771871--35771916	19	2.3	20	79	20	53	54	0	28	17	1.43
35774515--35774699	79	2.3	81	84	7	236	25	27	22	24	2.00
35774515--35774702	40	4.7	40	83	7	240	25	27	22	25	2.00
35780538--35780583	23	2.0	23	83	8	58	28	0	10	60	1.30
35785925--35785967	20	2.2	20	91	0	68	44	6	16	32	1.74
35789309--35789350	18	2.3	18	95	0	75	30	4	26	38	1.77
35791223--35791494	40	6.8	40	88	2	368	23	21	28	26	1.99
35791227--35791514	120	2.4	120	94	0	488	23	21	28	26	1.99
35792981--35793156	46	3.8	46	79	4	192	21	19	28	29	1.98
35792978--35793148	93	1.8	93	91	0	279	21	20	29	28	1.98
35794865--35794918	27	2.0	27	100	0	108	33	14	11	40	1.82
35795243--35795359	38	3.1	38	89	1	171	33	27	22	17	1.96
35795903--35796005	27	3.5	27	68	21	80	34	26	11	27	1.91
35795899--35796023	63	2.0	63	98	0	241	34	28	11	26	1.90
35795977--35796144	85	2.0	85	100	0	336	34	26	11	27	1.91
35796988--35797012	13	1.9	13	100	0	50	32	16	16	36	1.90
35798704--35798928	96	2.4	92	90	3	274	32	8	30	28	1.87
35798706--35798928	47	4.7	47	91	2	347	32	8	30	28	1.86
35799050--35799125	37	2.1	37	89	0	116	22	19	31	26	1.98
35800339--35800728	40	9.8	40	92	0	600	23	20	28	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35802703--35802727	13	1.9	13	100	0	50	32	16	16	36	1.90
35804416--35804640	96	2.4	92	90	3	283	32	8	30	28	1.87
35804418--35804640	47	4.7	47	92	2	356	32	8	30	28	1.86
35804759--35804837	37	2.1	37	92	0	131	22	18	31	26	1.97
35805495--35805548	27	2.0	27	100	0	108	48	11	7	33	1.67
35813741--35813846	40	2.7	40	85	5	117	31	23	16	29	1.96
35817099--35817153	28	2.0	28	92	0	92	41	18	5	34	1.73
35821224--35821611	49	8.1	49	91	2	594	31	9	30	28	1.88
35821224--35821611	96	4.0	95	90	4	566	31	9	30	28	1.88
35821235--35821569	47	7.1	44	87	6	210	31	8	30	29	1.88
35821224--35821611	143	2.7	142	89	4	589	31	9	30	28	1.88
35821730--35821808	37	2.1	37	90	0	122	24	18	31	25	1.98
35824073--35824216	40	3.6	40	81	11	154	25	23	27	22	2.00
35824191--35824347	40	3.9	40	91	0	242	23	22	29	24	1.99
35827921--35828354	49	9.1	49	90	4	656	32	8	29	29	1.88
35827924--35828354	96	4.5	96	89	4	660	31	9	30	29	1.88
35828473--35828551	37	2.1	37	90	0	122	26	18	29	25	1.98
35828714--35828792	37	2.1	37	88	0	113	25	17	31	25	1.97
35828371--35828852	241	2.0	241	96	0	892	29	18	22	30	1.97
35834326--35834365	21	1.9	21	100	0	80	45	2	5	47	1.38
35844733--35844839	29	3.8	29	83	2	128	26	28	17	27	1.98
35845068--35845099	16	2.0	16	100	0	64	12	25	18	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35850324--35850693	47	7.7	47	91	3	553	32	9	29	28	1.88
35850324--35850693	96	3.9	95	91	3	557	32	9	29	28	1.88
35850345--35850693	49	7.3	49	91	3	552	32	9	29	28	1.88
35850324--35850693	145	2.6	143	91	2	589	32	9	29	28	1.88
35850494--35850569	22	3.3	22	64	10	62	30	11	30	27	1.92
35850812--35850890	37	2.1	37	90	0	122	24	18	31	25	1.98
35852089--35852320	40	5.8	40	88	0	347	25	21	27	25	1.99
35856178--35856830	47	13.7	47	93	2	1053	32	9	29	29	1.88
35856199--35856830	145	4.4	145	94	3	1079	32	9	29	29	1.88
35856949--35857027	37	2.1	37	90	0	122	24	18	31	25	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