genome.fa.s25.2.7.7.80.10.50.1000.2.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  2  of  214  ( 25680 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)
388971--389026	29	1.9	29	92	0	94	55	7	1	35	1.38
408366--408406	15	2.5	17	80	11	59	63	0	2	34	1.08
430532--430609	39	2.0	39	89	0	120	43	10	10	35	1.73
432764--432796	3	11.0	3	100	0	66	66	0	0	33	0.92
438235--438419	85	2.2	86	83	2	230	27	28	17	27	1.98
438219--438443	43	5.3	43	82	3	220	28	28	17	26	1.98
443003--443043	21	2.0	21	95	0	73	29	43	0	26	1.55
443241--443294	22	2.3	24	84	9	76	62	0	0	37	0.95
443318--443387	22	3.0	23	81	10	81	37	42	1	18	1.59
443407--443440	14	2.3	15	90	5	52	35	35	0	29	1.58
443673--443788	41	2.8	41	84	7	155	30	30	20	18	1.97
443824--443902	39	2.0	39	90	2	122	24	20	16	39	1.92
443824--443961	40	3.5	40	75	5	136	22	20	18	39	1.93
448098--448123	4	6.5	4	100	0	52	76	0	0	23	0.78
463637--463686	22	2.3	22	80	13	59	22	24	2	52	1.58
472643--472678	16	2.2	16	100	0	72	22	19	38	19	1.93
473395--473684	120	2.4	120	92	3	485	42	3	4	50	1.37
473525--473580	15	4.1	14	78	14	55	41	0	0	58	0.98
473456--473642	61	3.1	61	67	20	183	40	3	6	49	1.44
473649--473690	15	2.7	16	82	14	52	45	0	2	52	1.13
473640--473681	15	2.9	15	82	10	52	47	0	0	52	1.00
473624--473898	147	1.9	149	95	1	500	46	2	3	46	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473783--473817	18	2.0	17	88	5	52	45	0	0	54	0.99
473979--474073	45	2.1	45	86	1	129	33	26	5	34	1.79
474054--474105	16	3.2	16	91	0	77	36	34	0	28	1.58
474437--474469	11	2.8	12	86	9	50	36	9	6	48	1.60
476475--476519	16	2.7	17	86	6	65	42	0	0	57	0.98
478508--478559	15	3.6	15	79	10	72	38	0	3	57	1.17
478501--478572	28	2.6	28	91	2	119	44	0	4	51	1.20
478562--478586	12	2.1	12	100	0	50	44	8	8	40	1.63
483995--484040	23	2.0	23	83	8	58	36	4	15	43	1.66
489583--489609	13	2.1	13	100	0	54	25	29	7	37	1.83
492878--492932	20	2.9	17	80	20	56	54	1	0	43	1.10
492878--492922	20	2.3	20	85	14	60	51	2	0	46	1.13
493154--493238	8	9.6	9	74	15	54	32	3	2	61	1.26
493154--493194	17	2.3	18	88	12	59	31	4	0	63	1.15
493098--493237	46	3.1	44	78	10	117	32	5	3	57	1.39
493362--493566	92	2.2	95	82	8	255	36	7	18	38	1.78
494674--494711	3	12.7	3	100	0	76	68	0	0	31	0.90
506938--506971	18	1.9	18	88	5	52	38	0	0	61	0.96
510803--510850	25	2.0	25	88	12	73	27	16	4	52	1.62
510983--511036	19	2.8	19	77	11	56	68	3	3	24	1.22
511079--511120	21	2.0	22	85	4	59	57	0	7	35	1.26
511717--511788	35	2.1	35	100	0	144	45	16	13	23	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520203--520234	16	2.1	15	94	5	55	59	0	0	40	0.97
520190--520240	26	2.0	26	84	7	68	56	0	0	43	0.99
524108--524173	27	2.6	27	83	7	84	42	10	1	45	1.48
524108--524174	25	2.7	23	80	15	71	43	10	1	44	1.47
524214--524267	27	2.0	27	96	0	99	22	20	46	11	1.82
524316--524387	10	6.6	10	76	17	63	69	0	30	0	0.89
524316--524391	28	2.5	30	82	16	95	69	0	30	0	0.88
524316--524465	38	4.1	38	76	15	117	68	0	30	2	1.01
524336--524459	10	12.7	10	69	17	64	67	0	29	2	1.03
524319--524398	34	2.8	28	75	24	85	68	0	31	0	0.90
524330--524429	18	5.6	18	75	12	73	67	0	32	1	0.98
524315--524464	24	6.4	22	69	22	67	67	0	30	2	1.02
525193--525218	13	2.0	13	100	0	52	76	0	0	23	0.78
525223--525290	27	2.5	27	95	4	120	41	10	0	48	1.37
525292--525323	17	1.9	17	93	6	57	87	0	3	9	0.64
526634--526670	17	2.2	17	100	0	74	29	16	8	45	1.76
527634--527662	14	2.1	14	100	0	58	37	6	0	55	1.27
530041--530078	18	2.1	18	90	0	58	15	44	5	34	1.69
530044--530085	18	2.3	18	83	0	57	21	47	2	28	1.63
530703--530779	39	2.0	38	82	12	95	55	9	0	35	1.31
531114--531219	27	3.9	27	81	0	86	11	39	24	24	1.88
531280--531329	26	2.0	25	88	7	75	50	0	6	44	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534299--534493	97	2.0	97	98	0	381	22	19	26	32	1.97
537838--537904	34	1.9	35	90	3	109	31	8	13	46	1.74
537853--537892	20	2.0	20	90	0	62	27	10	12	50	1.72
537832--537908	14	5.0	15	71	20	52	33	9	14	42	1.77
542365--542450	43	2.0	43	97	0	163	30	22	26	20	1.98
544419--544460	21	2.0	22	81	13	52	47	0	2	50	1.14
549539--549572	15	2.3	15	89	0	50	50	2	0	47	1.16
556166--556212	19	2.4	20	82	10	53	57	2	2	38	1.23
556332--556362	16	2.0	15	93	6	53	67	0	0	32	0.91
557257--557282	13	2.0	13	100	0	52	38	15	0	46	1.46
559180--559238	19	3.4	19	68	22	65	45	10	6	37	1.65
559184--559249	33	2.0	33	100	0	132	45	12	6	36	1.66
568930--569114	58	3.2	55	73	19	155	42	2	5	49	1.40
574491--574550	30	2.0	30	90	0	93	41	13	20	25	1.88
587337--587382	24	2.0	23	82	4	56	32	13	13	41	1.82
596295--596379	31	2.8	30	69	5	71	34	9	10	45	1.71
601745--601817	20	3.7	19	74	13	67	71	1	1	26	1.02
601737--601819	13	6.2	13	74	18	73	69	1	1	27	1.03
601740--601817	39	2.0	38	87	9	113	73	1	1	24	0.99
617376--617461	46	1.9	45	88	9	131	36	26	19	17	1.94
643098--643150	24	2.2	24	86	0	70	52	9	3	33	1.52
645974--646007	7	4.9	7	92	0	50	23	26	29	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646473--646499	13	2.1	13	100	0	54	70	7	7	14	1.32
648989--649088	50	2.0	47	80	14	105	54	9	7	30	1.58
655976--656019	13	3.1	14	80	9	54	47	0	0	52	1.00
659305--659357	27	2.0	27	96	0	97	7	35	15	41	1.75
660104--660207	41	2.5	41	86	6	147	0	32	0	67	0.91
660137--660233	4	24.0	4	74	19	69	1	30	0	68	0.97
660083--660228	77	1.9	76	82	9	181	0	32	0	66	0.97
660404--660444	22	1.9	21	100	0	73	51	0	9	39	1.35
665288--665328	21	1.9	22	85	5	57	7	46	4	41	1.53
681892--681919	10	2.8	10	100	0	56	67	0	0	32	0.91
687607--687809	46	4.3	48	87	7	256	35	14	21	28	1.93
687541--687809	98	2.7	98	92	0	448	34	14	22	28	1.94
687773--687918	37	4.0	37	93	1	242	36	16	21	24	1.94
689611--689676	10	6.4	11	72	18	61	56	0	1	42	1.08
689617--689676	29	2.0	29	90	6	93	58	0	1	40	1.08
694250--694343	32	3.0	31	69	13	84	42	3	5	48	1.41
694214--694343	68	2.0	67	86	6	185	42	4	4	48	1.44
696572--696650	31	2.6	30	79	15	90	51	6	17	24	1.68
701912--701936	2	12.5	2	100	0	50	52	48	0	0	1.00
704334--704382	25	2.0	25	87	0	71	42	2	0	55	1.11
704683--704731	26	2.0	24	84	8	62	55	2	8	34	1.41
706187--706240	26	2.1	25	96	3	99	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
706187--706247	26	2.4	26	89	8	90	34	1	0	63	1.04
706433--706488	26	2.1	27	96	3	105	30	0	0	69	0.89
706398--706489	38	2.4	39	72	7	98	31	1	0	67	0.98
706433--706495	26	2.4	27	89	7	94	34	1	0	63	1.04
706108--706869	238	3.1	248	93	2	1284	25	17	18	38	1.93
706656--706727	27	2.7	26	89	10	110	27	0	0	72	0.85
707743--707804	32	2.0	31	81	15	74	29	0	3	67	1.06
712446--712610	89	1.9	89	85	0	231	33	16	15	33	1.91
725010--725048	4	9.8	4	100	0	78	51	25	0	23	1.49
726021--726067	15	3.1	15	85	11	69	51	0	19	29	1.47

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