genome.fa.s9.2.7.7.80.10.50.1000.93.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   

This is table  93  of  259  ( 31025 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)
30472590--30472641	26	2.0	27	84	3	70	50	1	0	48	1.12
30472821--30472858	14	2.7	14	88	8	51	42	5	2	50	1.39
30472836--30472887	24	2.2	24	82	0	59	53	5	0	40	1.25
30472862--30472907	20	2.3	20	84	0	65	65	6	0	28	1.17
30475504--30475539	3	12.0	3	100	0	72	66	0	0	33	0.92
30478071--30478250	53	3.3	54	83	6	211	25	27	1	46	1.60
30478071--30478250	56	3.3	54	83	7	204	25	27	1	46	1.60
30480018--30480114	30	3.2	30	70	8	81	27	27	15	28	1.96
30481827--30481872	12	3.7	12	88	5	65	71	6	6	15	1.27
30481851--30481888	18	2.2	18	86	9	53	73	5	7	13	1.22
30482801--30482857	11	5.5	10	73	22	55	77	1	17	3	1.00
30482790--30482857	21	3.2	20	80	12	66	76	2	17	2	1.04
30482801--30482857	5	11.0	5	77	17	55	77	1	17	3	1.00
30482801--30482857	16	3.7	14	80	17	60	77	1	17	3	1.00
30482905--30482935	12	2.6	12	100	0	62	45	12	16	25	1.83
30482938--30482962	12	2.1	12	100	0	50	76	0	16	8	1.02
30482932--30482987	18	3.1	18	76	5	51	69	3	19	7	1.27
30482938--30483019	30	2.7	31	81	5	105	64	1	21	12	1.33
30488673--30488804	35	3.6	35	73	9	120	24	24	23	28	2.00
30488709--30488846	40	3.6	39	73	9	131	24	24	22	28	2.00
30488668--30488852	75	2.5	75	87	0	271	24	25	22	27	2.00
30494651--30494770	42	2.9	41	78	13	127	25	25	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30514721--30514943	40	5.6	40	86	3	227	24	20	28	26	1.99
30519383--30519490	43	2.5	43	74	4	112	28	25	18	26	1.98
30529451--30529555	24	4.4	24	83	12	128	25	23	16	34	1.95
30529447--30529538	47	1.9	48	89	6	143	27	23	15	33	1.95
30529451--30529555	23	4.4	24	83	8	117	25	23	16	34	1.95
30529662--30529702	20	2.0	20	95	0	73	36	2	19	41	1.65
30534900--30535050	43	3.6	42	74	10	146	25	16	27	30	1.97
30534881--30535050	43	4.0	42	75	10	141	23	16	28	31	1.96
30562624--30562668	16	2.8	17	86	10	67	53	0	4	42	1.21
30566347--30566377	16	1.9	16	100	0	62	35	12	19	32	1.90
30569537--30569689	56	2.7	55	82	4	164	30	33	15	19	1.93
30571225--30571290	23	2.9	23	86	0	87	48	24	10	16	1.78
30571220--30571293	23	3.2	23	77	7	69	48	24	10	16	1.77
30574224--30574323	48	2.1	48	80	0	110	29	13	16	42	1.85
30580107--30580144	5	7.4	5	88	5	58	81	0	2	15	0.80
30580520--30580558	19	2.1	19	100	0	78	43	15	10	30	1.80
30581803--30581870	16	4.2	16	90	7	102	27	0	33	38	1.57
30581803--30581870	32	2.1	32	94	0	118	27	0	33	38	1.57
30582000--30582309	157	2.0	157	94	0	539	44	3	4	47	1.41
30582063--30582312	76	3.1	81	63	24	186	46	4	3	45	1.39
30582046--30582367	157	2.0	155	81	5	349	46	4	4	44	1.44
30586133--30586195	27	2.2	30	83	11	78	47	17	6	28	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30588454--30588519	20	3.3	20	72	16	57	51	3	1	43	1.26
30589512--30589559	16	3.1	16	77	22	57	2	37	0	60	1.09
30592091--30592140	21	2.4	21	86	0	64	38	18	2	42	1.61
30594574--30594634	29	2.1	29	84	9	79	26	13	11	49	1.75
30604641--30604771	54	2.4	54	96	0	235	22	22	26	29	1.99
30609356--30609395	19	2.1	19	85	0	53	25	35	17	22	1.95
30610636--30610683	14	3.4	14	82	0	51	18	29	6	45	1.74
30618489--30618560	36	2.0	36	97	0	135	29	22	4	44	1.71
30620677--30620904	40	5.7	40	90	3	361	25	27	22	24	2.00
30627965--30628192	40	5.7	40	87	3	334	26	26	22	24	2.00
30627932--30628183	80	3.2	80	89	3	359	25	26	22	25	2.00
30631316--30631359	22	2.0	22	100	0	88	50	22	9	18	1.75
30631714--30631808	40	2.4	40	87	1	129	17	20	23	38	1.93
30635120--30635179	30	2.0	30	93	0	102	60	13	0	26	1.34
30637018--30637079	31	2.0	31	84	9	83	40	6	1	51	1.37
30637040--30637082	15	3.0	13	78	21	50	48	4	0	46	1.22
30643561--30643609	18	2.5	19	80	12	55	26	18	10	44	1.81
30657704--30657971	47	5.7	47	74	11	219	23	29	19	28	1.98
30657706--30657973	94	2.8	93	80	8	283	23	29	19	28	1.98
30661527--30661585	29	2.0	29	83	0	73	28	23	8	38	1.84
30666019--30666265	49	5.0	50	80	4	275	24	17	28	29	1.97
30666022--30666263	101	2.4	98	84	4	315	23	17	27	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30668281--30668314	16	2.1	16	100	0	68	32	11	17	38	1.86
30677573--30677716	46	3.1	46	71	14	134	29	29	19	21	1.98
30687329--30687462	51	2.7	51	85	2	173	28	17	20	33	1.95
30691947--30692007	31	1.9	32	90	3	97	31	26	26	16	1.96
30691949--30692005	15	3.7	15	67	4	51	28	28	26	17	1.98
30692077--30692125	18	2.7	18	83	3	53	24	14	28	32	1.94
30695311--30695351	21	2.0	21	85	9	57	60	2	0	36	1.10
30697351--30697385	18	2.0	18	94	5	63	65	0	0	34	0.93
30706090--30706193	31	3.5	31	77	15	112	50	11	19	19	1.77
30706104--30706162	25	2.4	25	91	0	91	47	11	20	20	1.81
30706695--30707077	27	14.2	27	83	1	363	42	7	20	29	1.79
30706695--30707053	108	3.3	108	86	4	458	42	6	20	30	1.78
30706695--30707077	81	4.7	81	84	2	457	42	7	20	29	1.79
30707067--30707250	27	6.8	26	80	9	154	30	9	21	38	1.86
30707066--30707303	81	2.9	82	76	7	209	30	12	20	36	1.90
30707072--30707250	54	3.3	54	80	1	198	30	9	21	38	1.85
30707128--30707281	27	5.7	26	84	6	139	29	12	19	38	1.88
30707235--30707315	27	3.0	27	88	0	117	25	19	20	33	1.97
30709176--30709283	6	17.7	6	72	14	87	50	13	17	18	1.79
30709185--30709312	37	3.5	37	73	14	120	51	12	17	18	1.76
30709185--30709303	43	2.7	43	84	3	141	51	13	16	18	1.77
30709233--30709312	31	2.6	31	80	4	90	51	12	16	20	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30709817--30710198	27	14.1	27	86	3	500	40	7	22	28	1.82
30710190--30710344	27	5.7	27	82	4	143	29	9	21	40	1.85
30710326--30710408	27	3.1	27	87	0	112	28	20	16	33	1.95
30712283--30712378	49	2.0	49	91	0	156	46	13	20	18	1.83
30712271--30712357	6	14.3	6	79	11	97	48	14	19	17	1.81
30712282--30712388	49	2.2	49	86	0	151	48	12	20	18	1.80
30712507--30712566	27	2.3	26	82	2	66	36	20	21	21	1.95
30712892--30713270	27	14.0	27	85	3	431	41	7	21	30	1.80
30713276--30713420	27	5.4	27	80	4	107	30	8	20	40	1.83
30713324--30713447	54	2.3	53	77	9	126	29	11	20	38	1.87
30713403--30713473	27	2.6	27	88	0	106	28	15	19	36	1.92
30721606--30721676	34	2.1	34	81	5	81	28	23	21	26	1.99
30721971--30722024	27	2.0	27	88	0	81	35	18	16	29	1.93
30724299--30724377	37	2.1	37	90	0	122	25	29	18	26	1.98
30724496--30724832	47	7.1	47	90	2	503	27	31	9	31	1.88
30724496--30724829	96	3.5	96	93	0	537	27	32	9	30	1.89
30724496--30724832	143	2.4	143	90	3	518	27	31	9	31	1.88
30735465--30735611	19	8.1	19	68	14	85	31	9	14	44	1.77
30735443--30735621	54	3.3	54	95	0	304	32	8	15	42	1.78
30735668--30735731	9	7.6	9	73	18	57	23	1	18	56	1.50
30740401--30740458	18	3.2	18	74	13	57	77	3	15	3	1.04
30740406--30740450	14	3.2	13	82	14	54	77	4	15	2	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30743392--30743636	40	6.2	39	90	4	298	26	28	22	22	1.99
30751477--30751681	40	5.2	40	90	5	283	26	28	21	23	1.99
30757225--30757480	133	1.9	133	98	0	494	28	26	17	27	1.97
30760733--30760933	26	7.6	26	81	9	219	41	20	9	28	1.83
30760754--30760933	53	3.4	53	89	3	256	41	19	8	30	1.82
30760733--30760934	27	7.6	27	82	6	234	41	20	9	28	1.84
30760919--30761249	27	12.3	27	86	0	410	36	18	21	23	1.95
30760922--30761231	81	3.8	81	91	0	467	36	19	20	23	1.95
30761677--30761741	22	3.0	22	75	8	69	20	27	23	29	1.98
30761892--30761979	27	3.4	24	81	10	79	14	21	21	42	1.89

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