genome.fa.s25.2.7.7.80.10.50.1000.117.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: At_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   

This is table  117  of  297  ( 35593 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)
41798651--41798710	30	2.0	30	86	0	84	33	25	5	36	1.78
41800969--41801423	9	48.3	9	67	17	126	33	3	4	58	1.35
41801036--41801102	30	2.2	30	84	5	91	40	1	1	56	1.17
41801204--41801257	20	2.8	19	81	10	65	31	3	3	61	1.31
41801321--41801380	19	3.2	19	68	13	52	30	0	3	66	1.07
41804103--41804136	17	1.9	18	88	5	52	35	0	2	61	1.11
41804860--41804893	13	2.6	13	100	0	68	5	17	52	23	1.66
41806233--41806313	42	1.9	42	87	5	119	29	27	14	28	1.95
41810636--41811587	54	17.6	54	96	0	1663	35	18	25	20	1.95
41818847--41819050	53	3.8	52	76	5	192	37	18	22	21	1.94
41826337--41826639	150	2.0	150	99	0	597	39	18	5	35	1.74
41852430--41852534	51	2.1	51	98	0	201	37	7	23	31	1.83
41853535--41853617	41	2.0	41	92	0	139	49	13	12	25	1.76
41854718--41854829	27	4.2	26	84	7	134	37	22	24	16	1.93
41854718--41854829	54	2.1	54	86	3	154	37	22	24	16	1.93
41858748--41858932	40	4.7	40	84	6	225	25	28	22	23	1.99
41858750--41858932	79	2.3	81	83	7	223	25	28	22	24	1.99
41864417--41864544	29	4.5	28	88	2	175	32	25	12	28	1.92
41864416--41864544	57	2.3	57	87	2	188	32	26	12	28	1.92
41873261--41873436	56	3.1	56	97	0	325	46	9	22	22	1.80
41877860--41877922	33	1.9	33	83	0	81	25	23	22	28	1.99
41878690--41878723	9	3.8	9	92	0	50	11	35	32	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41883508--41883685	27	6.6	27	84	3	205	29	28	15	26	1.96
41883529--41883684	82	1.9	81	88	3	233	29	28	15	26	1.96
41887452--41887629	27	6.6	27	84	3	205	29	28	15	26	1.96
41887473--41887628	82	1.9	81	88	3	233	29	28	15	26	1.96
41895515--41895691	27	6.6	27	82	4	169	30	27	15	26	1.96
41895515--41895691	55	3.3	54	81	4	196	30	27	15	26	1.96
41895536--41895690	82	1.9	80	85	5	213	30	27	15	26	1.96
41907339--41907481	61	2.4	61	89	2	209	35	20	12	30	1.90
41909275--41909416	42	3.4	41	76	10	110	27	16	25	30	1.96
41910786--41910972	40	4.7	40	85	2	243	26	27	21	24	1.99
41918509--41918695	40	4.7	40	90	2	279	25	28	21	24	1.99
41922528--41922554	13	2.1	13	100	0	54	22	33	0	44	1.53
41923281--41923383	43	2.4	43	96	3	190	23	24	19	33	1.97
41925212--41925429	40	5.5	40	94	0	375	27	25	22	25	2.00
41926941--41926966	13	2.0	13	100	0	52	61	7	0	30	1.24
41933483--41933699	40	5.4	40	92	0	364	27	25	21	25	2.00
41935211--41935236	13	2.0	13	100	0	52	61	7	0	30	1.24
41949257--41949349	34	2.8	33	77	4	89	24	21	23	30	1.99
41951850--41951996	42	3.5	42	76	7	145	30	16	24	28	1.96
41961894--41961980	43	2.0	44	93	2	149	19	21	31	27	1.98
41965438--41965476	18	2.2	18	86	9	53	12	46	28	12	1.79
41966734--41966894	43	3.8	43	78	8	143	29	16	23	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41976315--41976448	48	2.8	48	84	5	191	30	21	16	31	1.95
41986208--41986267	30	2.0	30	90	0	93	38	8	25	28	1.84
41986982--41987067	43	2.0	43	100	0	172	30	2	32	34	1.71
41993583--41993659	38	2.0	38	89	0	118	29	28	12	28	1.94
41993590--41993829	86	2.8	86	85	0	320	29	25	14	30	1.95
42002011--42002274	49	5.6	48	75	9	206	27	19	28	25	1.99
42004603--42004663	30	2.0	30	87	0	86	29	22	8	39	1.83
42009320--42009470	61	2.4	61	87	4	214	33	20	13	31	1.92
42011353--42011453	40	2.5	40	84	4	134	25	29	20	23	1.99
42011435--42011474	21	1.9	21	100	0	80	25	25	25	25	2.00
42011393--42011514	61	2.0	61	96	0	226	24	26	23	25	2.00
42012779--42012819	21	2.0	21	85	9	57	36	26	4	31	1.78
42012790--42012829	21	1.9	21	84	0	53	37	25	2	35	1.69
42014213--42014392	40	4.5	40	83	3	202	28	26	21	23	1.99
42015021--42015204	91	2.0	92	96	1	343	39	22	8	30	1.83
42021996--42022179	67	2.8	64	77	8	194	29	17	29	22	1.97
42024956--42025000	22	2.0	22	83	8	56	17	22	2	57	1.50
42025084--42025125	18	2.3	18	95	0	75	4	28	9	57	1.51
42034593--42034855	40	6.6	40	85	3	291	26	27	20	24	1.99
42034593--42034855	80	3.3	79	87	3	325	26	27	20	24	1.99
42041876--42042067	40	4.8	40	95	1	314	29	20	27	22	1.99
42043970--42044255	27	10.6	27	85	0	349	40	18	9	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42043970--42044316	27	12.9	27	78	7	235	38	19	9	32	1.84
42044357--42044596	27	8.9	27	91	0	320	31	20	23	24	1.98
42044354--42044623	54	5.0	54	85	3	303	31	20	23	24	1.98
42044358--42044623	81	3.3	80	81	9	306	31	19	23	25	1.98
42045050--42045114	22	3.0	22	82	8	87	20	21	23	35	1.96
42045273--42045374	27	3.8	27	84	5	116	20	22	19	37	1.95
42045519--42045582	31	2.1	31	93	0	110	20	15	15	48	1.81
42045540--42045607	25	2.7	25	86	0	91	19	19	16	45	1.85
42045534--42045624	6	14.8	6	68	17	53	20	17	16	45	1.86
42045593--42045645	18	3.0	18	78	13	56	22	11	15	50	1.75
42052213--42052289	36	2.1	36	88	4	111	24	32	18	24	1.97
42052407--42052726	47	6.7	47	98	1	604	29	30	8	31	1.87
42055255--42055292	20	1.9	19	85	15	51	39	10	23	26	1.87
42058651--42058804	28	5.5	28	96	0	265	26	11	27	33	1.91
42060491--42060642	27	5.6	27	91	2	232	30	28	14	26	1.95
42060491--42060642	55	2.8	54	89	2	232	30	28	14	26	1.95
42060491--42060642	82	1.9	82	91	0	250	30	28	14	26	1.95
42066919--42067013	40	2.4	40	85	0	127	34	27	17	20	1.95
42067796--42067892	43	2.3	43	92	0	158	32	24	5	37	1.78
42067796--42067862	21	3.1	21	64	19	57	32	25	4	37	1.76
42070705--42070845	49	2.8	51	88	2	205	24	19	28	27	1.99
42070710--42070845	51	2.7	49	87	2	191	25	19	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42080395--42080432	20	1.9	20	84	10	51	42	13	23	21	1.88
42082267--42082406	46	3.0	46	84	2	174	41	13	23	21	1.89
42086514--42086585	36	2.0	36	94	2	128	59	11	5	23	1.52
42086514--42086569	19	3.1	19	63	31	50	57	10	7	25	1.58
42087356--42087380	12	2.1	12	100	0	50	60	8	8	24	1.52
42087549--42087598	18	2.8	18	75	3	57	54	8	0	38	1.30
42092252--42092349	27	3.5	28	87	2	126	27	13	27	31	1.94
42092280--42092362	27	3.0	27	85	5	87	31	12	24	32	1.91
42092252--42092363	28	4.0	27	81	6	89	29	12	25	33	1.92
42095834--42096285	226	2.0	227	99	0	888	32	10	21	35	1.88
42097223--42097300	29	2.7	28	84	11	104	25	15	30	28	1.96
42097254--42097579	173	1.9	174	92	0	555	30	14	23	31	1.95
42097853--42098089	119	2.0	119	98	0	456	17	13	22	45	1.84
42098025--42098149	66	1.9	66	98	0	241	12	20	20	48	1.80
42101831--42101980	50	3.0	50	100	0	300	48	24	6	22	1.73
42103056--42103107	15	3.1	18	71	21	58	40	7	5	46	1.57
42103075--42103132	26	2.2	26	82	11	66	39	8	5	46	1.57
42103147--42103178	9	3.4	10	91	8	50	43	0	6	50	1.27
42103174--42103229	25	2.2	25	83	3	67	28	8	3	58	1.45
42107463--42107560	51	1.9	51	97	0	187	16	32	23	27	1.96
42111088--42111125	17	2.2	18	85	4	51	23	5	13	57	1.56
42111423--42111479	14	3.9	14	77	13	53	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42115476--42115539	28	2.2	30	83	8	78	48	4	1	45	1.32
42128042--42128101	29	2.1	29	93	0	102	21	28	6	43	1.78
42131441--42131481	22	1.9	21	85	14	57	39	2	2	56	1.26
42137090--42137174	38	2.2	38	93	2	152	21	20	15	43	1.88
42142516--42142568	23	2.3	23	77	9	54	67	1	24	5	1.22
42148423--42148469	16	2.8	17	78	9	53	65	0	0	34	0.93
42151874--42152066	35	5.5	35	85	4	257	30	11	24	32	1.91
42151874--42152066	105	1.8	104	89	5	300	30	11	24	32	1.91
42157859--42157888	15	2.0	15	93	0	51	10	6	10	73	1.25
42160497--42160532	6	6.0	6	86	0	54	2	0	19	77	0.88

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