genome.fa.s4.2.7.7.80.10.50.1000.33.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  33  of  235  ( 28198 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)
10625329--10625535	103	2.0	103	100	0	414	48	4	13	32	1.63
10627094--10627668	89	6.5	89	71	7	371	27	21	18	32	1.96
10627187--10627443	45	5.8	45	68	14	147	28	21	18	30	1.97
10627094--10627668	178	3.2	178	86	2	780	27	21	18	32	1.96
10627411--10627667	44	5.8	43	67	10	124	28	21	17	33	1.95
10628019--10628126	46	2.3	46	87	0	162	24	30	13	31	1.94
10628025--10628152	46	2.8	46	84	2	132	24	26	17	31	1.97
10628572--10628657	27	3.2	27	65	15	79	51	4	18	25	1.66
10628572--10628674	53	1.9	53	96	0	188	48	4	21	25	1.70
10629538--10629565	10	2.8	10	100	0	56	0	0	7	92	0.37
10632049--10632092	19	2.3	19	84	7	54	45	11	20	22	1.83
10638587--10638626	21	1.9	21	94	0	71	27	22	35	15	1.94
10639795--10639965	46	3.7	46	79	10	170	23	27	19	29	1.98
10641236--10641344	26	4.2	26	93	0	191	33	7	23	35	1.83
10642523--10642552	8	3.8	8	90	0	51	43	26	26	3	1.70
10642944--10643083	27	5.2	26	85	11	185	17	24	23	34	1.96
10642944--10643083	54	2.6	52	92	3	217	17	24	23	34	1.96
10644184--10644243	30	2.0	30	100	0	120	53	6	0	40	1.27
10649635--10649705	32	2.2	32	92	2	115	22	21	14	42	1.88
10649895--10649945	23	2.2	23	100	0	102	37	7	25	29	1.84
10659031--10659152	43	2.9	41	77	7	127	29	24	16	29	1.96
10663370--10663502	67	2.0	67	96	0	248	32	21	23	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10666130--10666173	15	2.9	15	80	12	54	11	15	15	56	1.66
10673019--10673265	84	3.0	83	85	4	284	28	26	15	29	1.96
10673059--10673275	84	2.6	83	86	2	299	29	26	13	29	1.94
10673027--10673275	42	5.9	41	77	10	216	29	26	15	29	1.96
10675111--10675148	20	1.9	20	94	0	67	18	15	31	34	1.92
10677406--10677618	34	6.2	34	89	1	302	28	14	21	36	1.92
10680686--10680861	46	3.8	45	78	10	185	21	19	28	29	1.98
10680682--10680853	93	1.8	93	91	0	281	21	20	29	28	1.98
10688773--10688969	42	4.7	42	83	5	220	28	25	14	30	1.95
10693091--10693133	22	2.0	22	81	9	52	34	13	27	23	1.93
10695120--10695168	24	2.0	24	100	0	98	28	20	20	30	1.98
10716771--10716840	22	3.1	22	78	8	70	35	18	21	24	1.95
10719805--10719856	10	5.1	10	77	11	52	36	0	3	59	1.16
10719805--10719847	22	2.0	22	90	0	68	39	0	2	58	1.11
10720681--10720726	21	2.3	20	78	14	51	30	6	17	45	1.73
10733075--10733238	46	3.5	46	75	17	167	28	29	20	21	1.98
10733086--10733157	20	3.3	20	66	26	56	27	29	22	20	1.99
10733082--10733254	93	1.9	93	87	0	256	27	28	21	21	1.99
10738167--10738317	27	5.6	26	80	4	115	26	16	28	28	1.97
10738167--10738292	54	2.3	54	82	8	148	26	16	28	28	1.97
10738194--10738343	55	2.8	54	81	6	160	27	15	30	27	1.96
10738167--10738322	82	1.9	81	81	3	188	26	16	28	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10738194--10738343	27	5.5	27	81	3	113	27	15	30	27	1.96
10752495--10752530	17	2.1	17	89	0	54	52	8	5	33	1.55
10757950--10758219	95	2.8	96	80	2	276	24	28	18	29	1.98
10757902--10758165	48	5.5	47	73	8	174	26	28	17	28	1.98
10757902--10758165	143	1.8	142	82	4	334	26	28	17	28	1.98
10757997--10758219	96	2.3	95	80	3	234	24	28	18	28	1.98
10764127--10764234	30	3.0	40	69	25	119	21	17	29	31	1.96
10767951--10768121	43	4.0	42	79	12	177	32	24	18	24	1.97
10767951--10768121	86	2.0	85	82	7	204	32	24	18	24	1.97
10775617--10775725	43	2.6	42	83	4	139	33	26	17	22	1.96
10775610--10775735	42	3.0	43	79	6	148	34	26	17	20	1.95
10779056--10779329	48	5.7	48	78	3	230	23	29	18	28	1.97
10779059--10779329	96	2.8	95	80	7	264	23	29	18	28	1.97
10781671--10781848	27	6.6	27	84	3	205	29	28	15	26	1.96
10781692--10781847	82	1.9	81	88	3	233	29	28	15	26	1.96
10790907--10790976	21	3.2	21	68	18	52	20	14	24	41	1.89
10792561--10792622	28	2.2	29	91	2	99	25	12	32	29	1.93
10795467--10795527	30	2.1	29	90	3	95	24	14	22	37	1.92
10804993--10805052	27	2.3	26	85	2	75	21	20	20	38	1.94
10810706--10810765	27	2.3	27	82	2	68	21	25	20	33	1.97
10812821--10812877	27	2.1	28	90	3	89	42	7	7	43	1.58
10812915--10813008	48	2.0	48	95	0	170	34	10	10	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10813556--10813635	26	3.0	26	78	10	90	35	18	18	27	1.95
10813620--10814043	27	15.7	27	80	4	327	39	19	10	30	1.85
10814280--10814399	41	2.9	40	79	4	125	21	18	30	29	1.97
10817981--10818046	6	10.8	6	77	9	71	50	10	19	19	1.77
10818162--10818236	27	2.8	27	82	9	91	38	20	22	18	1.93
10818339--10818392	22	2.5	22	76	11	65	33	20	24	22	1.97
10818907--10819047	27	5.2	27	87	3	194	26	21	17	34	1.95
10818906--10819047	54	2.6	54	86	4	214	26	21	18	34	1.96
10820691--10820874	41	4.5	41	82	1	217	19	20	27	33	1.96
10824042--10824078	18	2.1	18	100	0	74	45	10	21	21	1.82
10827838--10827863	13	2.0	13	100	0	52	30	23	0	46	1.53
10828054--10828137	43	2.0	43	83	4	107	29	27	15	27	1.96
10831947--10832031	42	2.0	42	100	0	170	21	28	16	34	1.95
10832311--10832513	104	2.0	102	81	3	237	29	23	15	32	1.95
10849946--10850035	44	2.0	44	95	0	162	40	11	25	23	1.87
10861137--10861249	56	2.0	56	86	3	156	30	18	14	36	1.90
10864946--10864996	25	2.0	25	96	0	93	31	27	13	27	1.94
10865342--10865469	46	2.8	46	89	2	195	28	30	21	19	1.97
10871074--10871246	46	3.7	46	75	13	165	30	29	18	21	1.97
10871135--10871294	47	3.4	47	72	14	150	31	28	16	23	1.96
10871083--10871345	93	2.8	93	83	1	330	31	27	17	23	1.97
10874523--10874614	34	2.8	33	77	8	96	23	25	21	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10875397--10875481	21	3.9	21	73	11	80	38	1	14	45	1.52
10875399--10875491	46	2.0	46	97	0	177	39	1	12	46	1.50
10876064--10876110	24	2.0	24	83	4	60	21	19	14	44	1.86
10880367--10880409	18	2.5	17	84	3	50	27	2	27	41	1.68
10880413--10880513	29	3.6	29	82	2	116	25	17	25	30	1.97
10885914--10885944	16	1.9	16	100	0	62	51	25	6	16	1.68
10887375--10887475	28	3.6	28	74	14	82	30	13	29	25	1.94
10908149--10908263	29	4.0	28	82	2	122	26	13	29	29	1.95
10908545--10908601	27	2.2	25	81	6	60	45	17	15	21	1.85
10920968--10921029	30	2.1	30	84	0	79	40	4	22	32	1.75
10924352--10924384	16	1.9	18	88	11	52	48	12	15	24	1.78
10924911--10925091	45	4.0	45	82	2	238	28	24	21	24	1.99
10929514--10929557	20	2.2	20	95	0	79	22	29	31	15	1.95
10940206--10940236	15	2.1	15	93	0	53	22	6	58	12	1.58
10943535--10943947	214	1.9	214	100	0	826	26	23	12	38	1.90
10949162--10949199	15	2.5	15	87	8	51	57	21	5	15	1.57
10949752--10949803	22	2.4	22	87	6	79	21	21	7	50	1.73
10958107--10958168	30	2.1	30	96	0	115	48	12	14	24	1.79
10963476--10963645	40	4.3	39	84	4	173	26	27	21	24	1.99
10963630--10963707	40	1.9	41	82	10	97	28	28	20	23	1.99
10974234--10974281	19	2.5	18	80	10	51	12	22	41	22	1.88
10975141--10975199	23	2.6	23	94	0	100	18	20	22	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10986451--10986592	55	2.6	55	75	0	149	15	26	28	28	1.96
10986876--10986999	64	1.9	64	98	0	239	29	16	18	35	1.93
10988475--10989004	40	13.3	40	96	0	927	27	28	20	24	1.99
10994568--10994723	42	3.6	42	72	8	127	28	21	19	30	1.97
10996401--10996517	61	1.9	60	98	1	225	40	34	4	20	1.72
10998668--10998716	24	2.0	24	88	0	71	40	2	16	40	1.60
10999018--10999128	55	2.0	56	91	5	181	16	22	18	42	1.89
11018223--11018274	26	2.0	26	100	0	104	42	15	0	42	1.47
11020174--11020237	31	2.1	31	87	0	92	26	23	12	37	1.90
11020445--11020572	24	5.4	24	93	4	215	29	21	19	28	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