genome.fa.s5.2.7.7.80.10.50.1000.93.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   

This is table  93  of  318  ( 38109 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)
30944893--30945099	3	69.0	3	69	11	102	57	2	9	29	1.45
30944881--30945000	45	2.7	43	79	10	114	55	4	9	30	1.50
30945135--30945197	25	2.6	24	82	7	74	55	1	6	36	1.35
30945247--30945293	18	2.6	18	82	0	58	65	4	4	25	1.29
30945266--30945296	15	2.1	15	93	0	53	64	0	3	32	1.09
30946678--30946846	46	3.7	46	88	3	234	20	24	12	42	1.87
30948946--30948970	11	2.3	11	100	0	50	76	0	0	24	0.80
30948962--30949020	28	2.1	29	84	9	77	55	3	0	40	1.16
30951031--30951061	15	2.1	14	94	5	53	64	0	3	32	1.09
30957984--30958028	21	2.1	21	84	12	56	13	2	26	57	1.48
30965857--30965881	1	25.0	1	100	0	50	0	100	0	0	0.00
30997635--30997660	12	2.2	12	100	0	52	42	0	0	57	0.98
31007096--31007138	22	2.0	22	81	9	52	27	4	4	62	1.35
31009556--31009601	19	2.3	21	75	17	53	36	0	2	60	1.09
31012883--31012970	39	2.3	39	82	4	97	23	28	27	20	1.99
31012951--31013064	39	2.9	39	93	0	174	26	28	21	23	1.99
31021352--31021395	18	2.5	17	77	3	52	31	0	6	61	1.22
31025315--31025407	48	2.0	47	85	6	125	31	19	11	37	1.88
31028367--31028412	23	2.0	23	91	0	74	58	4	0	36	1.18
31033547--31033666	53	2.3	53	91	0	186	29	18	23	29	1.98
31033552--31033697	53	2.7	53	86	4	159	28	15	25	30	1.95
31049320--31049450	70	1.9	70	93	0	226	32	29	15	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31052874--31053129	39	6.6	39	88	1	354	28	25	22	24	1.99
31056241--31056273	6	5.5	6	96	0	57	18	21	15	45	1.85
31057334--31057674	27	12.6	27	79	4	80	35	21	9	34	1.85
31057373--31057518	54	2.7	54	86	4	222	27	22	8	41	1.83
31057382--31057531	81	1.9	81	84	2	203	30	20	8	40	1.83
31057360--31057539	54	3.3	53	78	3	171	33	22	8	36	1.84
31057497--31057666	54	3.2	52	73	12	155	38	20	9	31	1.85
31057360--31057558	81	2.5	80	75	4	202	33	21	8	36	1.84
31057523--31057677	81	1.9	81	84	2	204	38	21	9	30	1.85
31057522--31057677	27	5.8	27	82	3	179	39	21	9	30	1.85
31057632--31057828	27	7.3	27	85	1	216	37	20	18	23	1.94
31057524--31057809	54	5.3	54	73	10	194	37	20	15	26	1.92
31057655--31057823	81	2.1	80	86	3	239	37	18	20	23	1.94
31058032--31058099	25	2.7	25	88	6	102	26	26	22	25	2.00
31058035--31058126	25	3.7	23	84	8	85	27	25	21	26	2.00
31058971--31059030	18	3.3	18	75	9	68	43	11	13	31	1.80
31063083--31063112	4	7.8	4	92	7	53	23	0	0	76	0.78
31063095--31063164	29	2.6	26	73	15	70	25	4	2	67	1.23
31068653--31068704	21	2.5	21	87	0	68	21	36	28	13	1.91
31071487--31071599	58	1.9	57	82	7	138	25	24	13	36	1.92
31075343--31075398	26	2.2	26	96	0	103	30	5	26	37	1.79
31080520--31080559	21	1.9	21	85	10	55	25	10	10	55	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31081147--31081179	12	2.6	13	85	9	50	9	45	0	45	1.35
31082246--31082310	28	2.3	28	86	0	94	32	26	9	32	1.88
31082416--31082506	28	3.2	28	87	4	130	20	24	21	32	1.98
31088037--31088142	43	2.5	43	74	0	113	30	16	24	28	1.97
31090506--31090530	8	3.1	8	100	0	50	24	0	0	76	0.80
31090548--31090581	2	17.0	2	100	0	68	0	0	50	50	1.00
31093229--31093269	5	8.2	5	94	0	55	39	0	26	34	1.57
31093375--31093401	10	2.7	10	100	0	54	29	11	40	18	1.85
31093674--31093977	57	5.2	57	83	7	360	19	18	19	42	1.90
31093674--31093975	120	2.6	114	85	7	408	19	18	19	42	1.90
31093922--31094071	45	3.3	45	82	0	174	21	20	17	40	1.91
31094051--31094094	6	7.2	6	79	5	52	20	15	13	50	1.78
31094051--31094092	18	2.3	19	87	4	59	21	16	14	47	1.82
31095122--31095270	74	2.1	71	94	3	262	46	4	18	30	1.70
31095466--31095525	30	2.0	30	100	0	120	46	3	30	20	1.66
31096365--31096411	13	4.0	13	76	21	50	55	0	29	14	1.40
31098181--31098262	43	1.9	43	100	0	164	34	4	14	46	1.66
31102598--31102640	23	2.0	22	86	9	61	27	4	2	65	1.25
31103687--31103746	30	2.0	30	96	0	111	35	10	1	53	1.44
31103699--31103743	21	2.1	22	83	4	56	33	8	2	55	1.43
31103884--31103951	36	1.9	36	87	3	102	45	4	0	50	1.22
31104796--31104848	19	2.7	19	82	5	70	30	16	3	49	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31104917--31104959	16	2.8	15	80	13	52	39	0	2	58	1.11
31104927--31104965	15	2.4	18	76	24	50	41	0	2	56	1.13
31107703--31107790	42	2.1	42	95	0	158	29	9	18	43	1.80
31110050--31110083	18	1.9	17	88	5	50	55	0	8	35	1.31
31112765--31112814	16	3.4	16	70	30	56	28	10	24	38	1.87
31112766--31112822	28	2.0	28	100	0	114	28	7	24	40	1.81
31120368--31120429	30	2.1	30	96	0	115	27	0	11	61	1.30
31120515--31120553	18	2.0	20	85	9	55	25	0	10	64	1.25
31120799--31120830	14	2.3	14	100	0	64	31	46	15	6	1.71
31125924--31125955	14	2.3	14	100	0	64	31	46	15	6	1.71
31126823--31126861	20	2.0	20	85	10	53	58	7	7	25	1.52
31152273--31152322	12	4.2	12	80	15	50	72	4	18	6	1.22
31152286--31152332	22	2.1	23	88	4	69	70	4	21	4	1.22
31153870--31153930	21	2.8	23	85	14	94	13	24	27	34	1.93
31153858--31153930	21	3.4	21	81	5	74	15	23	26	35	1.94
31154815--31154847	8	4.2	8	96	3	59	87	0	0	12	0.53
31160243--31160290	23	2.2	21	85	7	60	35	8	18	37	1.81
31160553--31160617	34	1.9	34	87	0	94	30	21	27	20	1.98
31167742--31167839	32	3.1	32	76	14	96	45	9	1	43	1.42
31168223--31168267	14	3.2	14	84	9	56	57	0	2	40	1.11
31172138--31172217	12	6.0	13	78	18	69	38	50	2	8	1.47
31173022--31173081	26	2.4	25	76	18	63	31	11	1	55	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31173177--31173234	26	2.1	28	81	9	66	24	10	6	58	1.55
31175022--31175067	19	2.4	19	85	7	58	19	21	15	43	1.87
31189389--31189500	27	4.1	27	82	10	131	36	23	24	16	1.94
31189389--31189503	54	2.1	54	87	3	160	36	23	24	15	1.94
31196018--31196084	26	2.9	24	81	16	72	67	8	0	23	1.19
31196056--31196140	41	2.1	40	82	2	98	67	10	2	20	1.32
31205505--31205565	21	2.8	21	80	9	61	57	6	0	36	1.25
31205290--31205720	189	2.3	186	91	2	711	44	9	7	38	1.65
31206122--31206198	36	2.2	36	95	2	138	36	12	19	31	1.90
31207435--31207582	40	3.7	40	84	3	181	23	14	26	35	1.93
31216367--31216401	16	2.3	15	90	5	52	62	2	2	31	1.24
31216545--31216587	20	2.1	21	82	4	52	62	6	2	27	1.33
31216788--31216817	11	2.7	11	89	0	51	60	0	0	40	0.97
31217571--31217647	24	3.2	24	81	13	86	5	2	24	67	1.24
31217962--31218059	40	2.5	40	80	6	103	13	13	37	35	1.83
31218040--31218083	23	1.9	23	90	0	70	13	2	52	31	1.53
31218129--31218196	27	2.6	27	76	6	68	22	19	27	30	1.97
31219742--31219775	5	6.6	5	93	6	59	17	2	0	79	0.86
31220200--31220234	18	1.9	18	94	0	61	51	0	0	48	1.00
31220201--31220242	18	2.3	18	87	4	57	52	0	0	47	1.00
31221488--31221531	21	2.2	21	88	8	65	43	0	0	56	0.99
31221642--31221706	30	2.2	30	88	2	105	60	13	1	24	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31234116--31234154	21	1.9	20	89	5	60	15	10	5	69	1.34
31241246--31241277	16	2.1	16	94	5	57	56	6	0	37	1.25
31241266--31241669	113	3.8	104	80	13	436	51	16	1	29	1.53
31241520--31241918	167	2.4	167	95	3	703	51	17	0	30	1.49
31241995--31242029	12	2.8	12	91	4	52	0	42	0	57	0.99
31242744--31242782	20	2.0	20	89	0	60	58	0	2	38	1.12
31244350--31244399	24	2.1	24	88	0	73	34	4	40	22	1.72
31245831--31245940	27	4.1	26	76	15	89	17	20	21	40	1.92
31245831--31245940	54	2.0	54	82	6	134	17	20	21	40	1.92
31252202--31252266	24	2.7	24	95	0	112	32	6	40	21	1.78

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318