genome.fa.s4.2.7.7.80.10.50.1000.156.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  156  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)
50820081--50820118	18	2.1	19	85	5	51	44	7	13	34	1.72
50820942--50820993	25	2.1	24	82	3	59	50	5	1	42	1.37
50843806--50843849	17	2.8	16	83	10	54	54	0	0	45	0.99
50846735--50846770	16	2.2	16	90	0	54	63	0	5	30	1.17
50863494--50863763	40	6.8	40	82	2	292	18	28	15	37	1.92
50863494--50863773	80	3.5	80	82	2	323	18	28	16	37	1.92
50863594--50863655	20	3.1	20	68	9	63	17	29	12	40	1.87
50867145--50867224	40	2.0	40	85	0	106	21	15	28	35	1.93
50867234--50867304	28	2.5	28	83	0	97	30	8	29	30	1.87
50881902--50882121	47	4.7	47	78	10	202	27	18	29	24	1.98
50885546--50885715	79	2.1	80	84	5	220	26	21	27	24	2.00
50885493--50885717	40	5.7	40	84	5	235	25	22	27	24	2.00
50885546--50885750	79	2.6	79	81	6	193	27	20	26	24	1.99
50895222--50895256	16	2.2	16	94	0	61	25	11	25	37	1.90
50923167--50923199	17	1.9	17	100	0	66	18	12	12	57	1.64
50923924--50924278	177	2.0	177	97	0	665	28	13	20	38	1.90
50930228--50930313	38	2.3	38	82	8	95	39	27	18	13	1.89
50930266--50930339	38	1.9	38	83	5	96	36	24	20	18	1.95
50934081--50934146	20	3.3	20	68	8	62	21	36	13	28	1.91
50934045--50934168	40	3.1	40	84	0	176	19	28	16	36	1.93
50934184--50934229	18	2.8	18	84	15	64	0	30	41	28	1.56
50935379--50935543	40	4.1	40	82	0	204	16	29	18	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50935377--50935444	20	3.4	20	68	8	57	14	32	20	32	1.93
50935419--50935483	20	3.3	19	72	8	58	18	32	16	32	1.94
50935380--50935543	80	2.0	80	88	0	238	17	28	18	35	1.93
50935397--50935563	80	2.1	80	85	0	217	19	28	16	35	1.93
50946254--50946292	16	2.4	17	83	12	55	30	20	5	43	1.73
50946379--50946416	17	2.3	17	86	4	51	65	0	5	28	1.14
50947026--50947067	18	2.3	18	100	0	84	14	19	4	61	1.49
50952401--50952438	19	2.0	19	100	0	76	42	10	26	21	1.85
50953204--50953229	12	2.2	12	100	0	52	23	0	34	42	1.54
50962481--50962565	40	2.1	40	86	4	118	32	17	25	23	1.97
50962543--50962585	21	2.0	23	90	9	72	41	20	18	18	1.90
50963202--50963257	7	8.1	7	78	11	53	39	35	0	25	1.56
50963202--50963257	21	2.8	20	80	2	67	39	35	0	25	1.56
50963303--50963345	21	2.0	21	82	8	52	48	20	0	30	1.50
50964709--50964743	6	5.8	6	86	0	52	2	31	28	37	1.72
50968937--50969199	40	6.6	40	88	3	325	24	20	27	26	1.99
50968976--50969234	80	3.3	80	85	3	256	25	20	27	25	1.99
50970635--50970713	37	2.1	37	88	0	113	25	30	18	25	1.98
50970831--50971131	47	6.4	47	92	0	458	28	29	9	33	1.88
50974386--50974455	27	2.6	27	95	2	113	31	28	12	27	1.93
50974386--50974483	28	3.5	28	90	2	135	31	28	13	26	1.94
50993527--50993798	40	6.8	40	86	2	359	26	29	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50993507--50993788	120	2.4	120	94	0	485	26	28	20	24	1.99
50996350--50996463	46	2.5	44	85	7	149	25	29	17	27	1.97
50999217--50999374	43	3.7	42	81	5	149	31	25	18	24	1.98
50999217--50999375	85	1.9	85	81	7	198	31	25	18	24	1.97
51006417--51006660	55	4.6	53	78	8	214	36	17	23	22	1.94
51011323--51011468	73	2.0	73	100	0	292	50	17	2	28	1.60
51022581--51022631	20	2.5	20	93	0	93	19	21	21	37	1.95
51022674--51022743	26	2.7	26	79	0	68	24	22	18	34	1.96
51032128--51032182	27	2.0	27	100	0	110	27	3	36	32	1.74
51032689--51032764	28	2.7	28	83	0	89	26	13	31	28	1.93
51037177--51037322	29	5.1	28	85	3	159	27	14	32	26	1.95
51037189--51037323	57	2.4	58	85	5	168	25	15	34	24	1.95
51049138--51049208	35	2.0	35	100	0	142	29	5	33	30	1.81
51054267--51054463	27	7.3	27	89	1	261	23	22	19	34	1.97
51054267--51054439	80	2.1	81	86	1	240	23	24	19	32	1.97
51068962--51069137	46	3.8	46	72	12	162	22	20	27	29	1.98
51068958--51069130	93	1.9	93	88	0	265	22	20	28	28	1.99
51072922--51073097	46	3.8	46	72	12	162	22	20	27	29	1.98
51072918--51073090	93	1.9	93	88	0	265	22	20	28	28	1.99
51076882--51077057	46	3.8	46	74	12	162	22	21	26	29	1.99
51076878--51077050	93	1.9	93	88	0	265	23	21	27	28	1.99
51089645--51089822	27	6.6	27	82	3	196	26	14	27	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51089646--51089801	82	1.9	81	88	3	233	26	14	28	30	1.95
51089642--51089822	82	2.2	81	83	2	229	27	14	27	30	1.95
51097657--51097812	27	5.7	27	83	4	188	26	14	28	30	1.95
51097657--51097812	82	1.9	81	88	3	233	26	14	28	30	1.95
51097656--51097812	55	2.9	53	84	3	215	27	14	28	29	1.95
51097656--51097833	27	6.6	27	81	3	178	26	14	28	30	1.95
51120585--51120936	40	8.8	40	87	0	508	25	28	23	23	1.99
51122790--51123089	47	6.4	47	90	0	447	29	30	7	33	1.85
51122790--51123089	94	3.2	94	94	0	501	29	30	7	33	1.85
51129597--51129671	27	2.8	27	87	2	89	28	24	17	30	1.97
51132839--51132902	31	2.1	31	87	0	92	25	21	14	39	1.91
51133115--51133212	23	4.2	24	93	5	166	29	21	19	29	1.97
51133262--51133328	20	3.3	20	89	0	107	31	22	11	34	1.90
51133365--51133412	25	1.9	25	86	0	69	25	16	25	33	1.96
51139959--51139997	19	2.1	19	85	0	51	71	7	5	15	1.26
51140356--51140443	28	3.1	29	79	10	94	35	21	22	20	1.96
51140549--51140613	28	2.3	28	86	5	87	32	6	29	32	1.82
51144335--51144383	6	8.2	6	86	0	71	0	65	0	34	0.93
51149774--51149811	14	2.7	14	91	0	58	39	15	5	39	1.70
51150281--51150412	43	3.1	41	80	7	142	31	28	15	24	1.95
51152114--51152201	42	2.1	42	86	2	122	36	22	13	27	1.92
51152091--51152261	43	4.0	43	75	8	141	33	25	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51152122--51152211	42	2.1	43	83	4	110	38	23	13	24	1.90
51154387--51154430	23	1.9	23	81	9	54	36	9	11	43	1.72
51155880--51156027	48	3.1	48	92	0	242	37	8	24	29	1.84
51158049--51158482	40	10.6	40	79	10	387	26	28	20	24	1.99
51158049--51158482	80	5.3	80	79	10	441	26	28	20	24	1.99
51158218--51158483	91	3.0	91	77	12	281	26	27	20	25	1.99
51158138--51158483	171	2.0	171	100	0	692	26	28	20	24	1.99
51158178--51158429	131	1.9	131	87	4	366	26	28	20	24	1.99
51161287--51161403	40	3.0	40	92	1	182	20	23	29	27	1.99
51161297--51161417	40	3.0	40	86	3	120	22	23	29	23	1.99
51162180--51162205	12	2.2	12	100	0	52	34	15	7	42	1.75
51162321--51162364	23	1.9	23	85	0	61	36	6	11	45	1.67
51163813--51163960	48	3.1	47	88	3	215	38	8	22	30	1.83
51165941--51166019	31	2.5	31	91	0	131	27	25	17	29	1.98
51166043--51166134	42	2.2	42	92	0	148	34	19	14	31	1.91
51166279--51166401	26	4.8	26	92	1	196	28	22	22	26	1.99
51166452--51166537	20	4.3	20	92	2	138	30	18	10	40	1.84
51167338--51167735	27	14.7	27	75	6	180	33	9	20	36	1.85
51167591--51167735	55	2.6	55	79	4	166	31	8	20	40	1.83
51170388--51170485	27	3.5	28	90	2	135	26	13	28	31	1.94
51170416--51170498	27	3.0	27	87	5	96	30	12	25	32	1.92
51170388--51170499	28	4.0	27	83	6	98	28	12	25	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51178236--51178333	27	3.5	28	90	2	135	26	13	28	31	1.94
51178264--51178346	27	3.0	27	87	5	96	30	12	25	32	1.92
51178236--51178347	28	4.0	27	83	6	98	28	12	25	33	1.92
51186116--51186213	27	3.5	28	91	2	144	25	13	29	31	1.93
51186116--51186226	27	4.0	27	83	6	98	27	12	27	32	1.93
51186116--51186227	28	4.0	27	83	6	98	27	12	26	33	1.92
51187695--51187774	1	80.0	1	100	0	160	0	0	0	100	0.00
51219234--51219404	93	1.8	93	96	0	315	28	28	21	21	1.99
51219226--51219401	46	3.8	46	79	12	216	29	27	21	21	1.98
51223028--51223175	67	2.2	67	80	8	167	32	16	29	21	1.96

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