genome.fa.s4.2.7.7.80.10.50.1000.90.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  90  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)
31383570--31383753	40	4.6	40	87	5	248	25	27	23	23	2.00
31396278--31396331	20	2.7	20	76	0	63	46	24	22	7	1.77
31398945--31398992	24	2.0	25	83	4	62	16	18	20	43	1.88
31403839--31403877	12	3.3	12	82	3	53	17	0	0	82	0.68
31403869--31404070	96	2.1	97	89	4	309	30	24	15	30	1.95
31406077--31406111	16	2.2	16	94	0	61	42	17	25	14	1.86
31406328--31406430	28	3.7	28	88	0	161	23	14	32	30	1.94
31414011--31414045	16	2.2	16	89	0	52	51	20	20	8	1.73
31415185--31415215	16	1.9	16	93	0	53	48	9	25	16	1.76
31415435--31415537	28	3.7	27	83	5	134	23	16	32	28	1.96
31416793--31416826	18	1.9	18	88	5	52	41	11	17	29	1.85
31417246--31417323	25	3.0	28	82	12	89	73	0	6	20	1.05
31417253--31417322	16	4.4	15	74	15	52	74	0	5	20	1.02
31420969--31421028	20	3.0	20	80	9	70	65	1	6	26	1.27
31420969--31421018	10	5.0	10	80	9	57	66	2	6	26	1.26
31424355--31424424	20	3.6	19	81	14	72	61	7	0	31	1.23
31424355--31424424	19	3.5	20	83	14	76	61	7	0	31	1.23
31424375--31424438	19	3.3	19	80	4	65	60	6	0	32	1.21
31424356--31424437	38	2.1	39	80	13	89	59	7	0	32	1.25
31429309--31429369	29	2.1	30	81	9	72	19	9	4	65	1.40
31431114--31431149	16	2.2	16	100	0	72	19	11	27	41	1.85
31436283--31436377	39	2.4	39	91	0	145	31	15	34	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31436283--31436355	20	3.8	20	71	12	62	32	17	34	15	1.91
31436292--31436355	19	3.3	19	68	12	58	32	18	35	12	1.89
31439970--31440071	23	4.4	23	79	8	109	22	23	18	35	1.96
31447855--31447998	43	3.3	43	88	0	207	33	18	14	33	1.91
31451041--31451258	40	5.5	40	94	1	332	24	21	27	26	1.99
31458172--31458295	27	4.6	27	93	0	185	39	24	17	18	1.92
31458194--31458313	27	4.4	27	85	6	82	40	20	19	20	1.91
31458304--31458490	27	6.9	27	80	9	193	29	13	16	40	1.86
31458304--31458520	54	4.0	53	81	5	229	29	13	17	40	1.88
31458277--31458446	81	2.1	81	81	2	189	34	13	15	36	1.87
31458305--31458490	81	2.3	81	84	2	232	30	13	16	40	1.86
31458303--31458517	27	8.0	27	79	9	163	28	13	17	40	1.88
31458305--31458520	81	2.7	81	81	3	222	29	13	17	39	1.88
31458851--31458889	18	2.2	18	90	0	60	23	25	12	38	1.90
31460997--31461033	19	2.0	18	89	5	56	13	13	0	72	1.11
31461904--31462068	27	6.1	27	84	0	186	44	23	13	18	1.85
31461912--31462080	81	2.1	81	84	2	214	44	23	13	18	1.85
31462083--31462117	16	2.2	16	94	0	61	37	5	28	28	1.80
31462104--31462319	27	8.0	27	76	5	204	26	14	18	40	1.89
31463111--31463419	154	2.0	154	92	0	519	37	13	15	34	1.86
31464382--31464447	20	3.2	20	70	6	53	33	18	28	19	1.95
31466036--31466074	18	2.1	19	85	4	53	7	23	2	66	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31466038--31466141	48	2.2	49	79	8	115	12	27	0	58	1.40
31466092--31466141	18	2.8	18	87	0	73	14	28	0	58	1.37
31466067--31466148	24	3.4	24	77	0	101	12	26	0	60	1.31
31466145--31466241	42	2.3	42	91	1	151	14	23	5	56	1.58
31466152--31466219	21	3.2	21	65	8	57	11	22	7	58	1.57
31468636--31468689	20	2.7	19	75	11	54	27	20	31	20	1.97
31471159--31471299	27	5.2	27	90	1	203	40	17	19	23	1.91
31471311--31471487	27	6.6	27	78	7	180	27	14	16	40	1.88
31471308--31471527	81	2.7	80	81	5	262	27	14	17	40	1.88
31471847--31471883	18	2.1	18	89	0	56	21	24	13	40	1.89
31474624--31474739	23	4.9	23	80	13	121	21	22	20	35	1.96
31474624--31474738	47	2.4	49	81	13	141	21	22	20	34	1.97
31483363--31483415	24	2.2	24	93	0	88	32	1	43	22	1.64
31484809--31484919	54	2.1	53	87	1	159	17	24	22	36	1.95
31484809--31484919	27	4.2	26	84	7	134	17	24	22	36	1.95
31486928--31487021	28	3.3	29	79	2	93	23	13	32	29	1.93
31490350--31490398	24	2.0	24	100	0	98	42	4	8	44	1.53
31493630--31493711	21	3.9	21	79	6	103	41	15	26	15	1.88
31493627--31493711	42	2.0	42	86	4	118	42	15	25	16	1.87
31496883--31496909	13	2.1	13	100	0	54	14	37	33	14	1.88
31501134--31501358	49	4.5	49	77	7	265	25	18	26	29	1.98
31505824--31505891	34	2.0	34	97	0	127	39	26	19	14	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31508596--31508819	79	2.8	80	86	7	289	25	21	27	25	2.00
31508596--31508819	40	5.7	40	86	6	289	25	21	27	25	2.00
31508596--31508852	79	3.2	80	82	8	244	26	21	27	24	1.99
31516588--31516849	39	6.7	40	87	7	337	25	22	27	24	2.00
31518107--31518156	24	2.0	26	92	7	86	24	8	26	42	1.82
31526352--31526394	22	2.0	22	100	0	86	48	18	9	23	1.76
31526570--31526611	21	2.0	21	90	4	68	26	28	35	9	1.88
31527787--31527942	46	3.4	45	77	5	141	24	27	18	29	1.98
31534064--31534252	40	4.7	40	82	2	209	28	15	23	32	1.95
31534069--31534255	81	2.3	81	86	2	243	27	14	24	33	1.95
31535094--31535125	13	2.5	13	100	0	64	25	15	31	28	1.96
31536927--31536975	18	2.8	18	90	3	73	20	4	2	73	1.10
31538795--31538911	42	2.8	42	72	6	103	28	19	24	27	1.99
31546442--31546491	22	2.3	22	100	0	100	68	8	4	20	1.32
31547343--31547443	43	2.3	44	77	11	102	28	14	26	29	1.95
31549515--31549553	17	2.4	17	87	8	55	10	23	0	66	1.22
31555188--31555329	20	7.1	20	61	12	58	17	30	19	32	1.95
31555188--31555350	40	4.1	40	87	0	245	18	28	19	33	1.96
31555193--31555376	80	2.3	79	83	2	233	18	28	19	33	1.95
31558171--31558392	110	2.0	110	95	0	399	31	27	22	18	1.98
31558449--31558476	7	4.0	7	100	0	56	28	14	0	57	1.38
31558703--31558760	24	2.4	24	94	2	98	27	22	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31558816--31558868	9	5.4	9	75	16	52	37	20	7	33	1.81
31558808--31558874	20	3.3	20	91	0	107	34	20	10	34	1.87
31558808--31558863	11	5.5	11	73	16	57	33	19	10	35	1.87
31560662--31560750	44	2.0	44	97	0	169	24	28	13	33	1.93
31563067--31563130	31	2.1	31	93	0	110	23	23	15	37	1.93
31563338--31563395	24	2.4	24	94	2	98	27	22	18	31	1.97
31563451--31563503	9	5.4	9	75	16	52	37	20	7	33	1.81
31563443--31563509	20	3.3	20	91	0	107	34	20	10	34	1.87
31563443--31563498	11	5.5	11	73	16	57	33	19	10	35	1.87
31563546--31563593	25	1.9	25	86	0	69	25	16	25	33	1.96
31565756--31565799	19	2.4	18	85	7	54	40	9	0	50	1.34
31568078--31568108	14	2.2	14	94	0	53	29	0	25	45	1.54
31568080--31568129	22	2.2	22	79	10	57	26	2	24	48	1.62
31586228--31586270	17	2.5	17	80	3	50	51	23	9	16	1.73
31592272--31592366	47	2.0	47	87	0	136	30	23	15	30	1.95
31595727--31595771	23	1.9	24	90	4	74	22	24	11	42	1.86
31595887--31596087	108	1.8	110	88	4	309	22	25	17	34	1.96
31595840--31596094	55	4.8	54	79	7	247	21	25	16	36	1.94
31597924--31597963	22	1.9	21	85	10	55	25	10	17	47	1.78
31599927--31600147	47	4.7	46	74	13	157	26	19	29	23	1.98
31599927--31600144	94	2.3	94	82	3	262	27	19	29	23	1.98
31601920--31602033	27	4.2	27	85	0	156	28	22	10	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31601918--31602033	54	2.1	54	88	0	178	29	22	10	37	1.87
31602012--31602097	27	3.2	27	80	3	93	43	23	6	26	1.79
31601931--31602062	54	2.4	54	79	0	138	31	22	9	36	1.87
31602026--31602191	54	3.1	54	81	1	181	42	19	9	27	1.83
31602026--31602175	27	5.6	27	77	4	142	44	20	9	26	1.81
31602053--31602191	27	5.2	26	75	8	118	43	20	10	26	1.83
31602026--31602231	53	3.9	53	77	6	175	41	21	10	26	1.86
31602191--31602410	27	8.1	27	85	1	271	35	19	20	25	1.96
31602640--31602697	25	2.4	25	75	16	59	32	22	20	24	1.98
31605279--31605392	27	4.2	27	93	0	183	29	23	7	38	1.83

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