genome.fa.s25.2.7.7.80.10.50.1000.101.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  101  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)
29564327--29564373	19	2.5	19	80	10	60	46	2	2	48	1.25
29564374--29564439	30	2.2	28	82	12	80	54	1	1	42	1.18
29564374--29564439	28	2.2	30	82	12	84	54	1	1	42	1.18
29572308--29572341	14	2.5	14	90	4	52	55	11	8	23	1.63
29598538--29598803	27	9.9	27	79	7	260	43	19	18	18	1.89
29598538--29598803	81	3.3	81	78	8	301	43	19	18	18	1.89
29599138--29599201	28	2.3	28	83	0	74	26	21	20	31	1.98
29605711--29605762	19	2.7	19	90	3	77	23	7	25	44	1.79
29606189--29606319	27	4.8	27	85	3	165	42	23	19	13	1.87
29606189--29606330	55	2.6	55	87	1	187	42	24	19	14	1.88
29608050--29608582	49	11.1	49	94	2	820	33	8	28	29	1.87
29608050--29608582	96	5.5	96	93	3	817	33	8	28	29	1.87
29608485--29608576	47	2.2	39	83	16	105	30	10	31	27	1.91
29610247--29610321	38	2.0	38	86	5	107	30	18	26	24	1.98
29610375--29610735	40	9.1	40	92	0	562	24	21	28	25	1.99
29612029--29612159	41	3.1	41	63	25	101	40	6	24	29	1.79
29611990--29612168	85	2.1	85	96	0	340	37	7	27	26	1.84
29613435--29614014	96	6.0	96	94	2	929	32	8	29	29	1.87
29613904--29613995	47	2.2	39	73	26	112	28	10	33	27	1.90
29613435--29614014	49	12.1	48	95	2	897	32	8	29	29	1.87
29615234--29615287	26	2.1	25	89	3	81	16	24	24	35	1.95
29621117--29621187	27	2.7	27	84	6	92	30	23	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29625024--29625066	22	2.0	22	85	0	59	16	6	48	27	1.71
29639559--29639602	12	3.7	12	90	0	61	20	36	34	9	1.84
29641899--29641924	12	2.2	12	100	0	52	50	7	0	42	1.31
29642400--29642551	27	5.6	27	92	3	232	26	14	28	30	1.95
29642400--29642551	55	2.8	55	93	0	250	26	14	28	30	1.95
29650600--29650751	27	5.6	27	93	3	241	26	13	28	30	1.94
29650600--29650751	55	2.8	55	94	0	259	26	13	28	30	1.94
29653292--29653323	16	2.0	16	93	0	55	34	18	21	25	1.96
29667387--29667650	40	6.7	40	83	6	254	25	21	27	25	1.99
29667507--29667683	78	2.3	79	81	3	196	25	22	28	24	1.99
29683771--29683925	77	2.0	77	100	0	310	31	18	11	38	1.86
29686491--29686540	17	3.1	17	82	11	77	54	16	6	24	1.64
29686491--29686537	15	3.0	15	87	6	67	53	17	6	23	1.66
29688267--29688322	28	2.0	28	92	0	94	44	3	23	28	1.70
29691605--29691645	21	1.9	22	85	5	57	60	14	4	19	1.51
29692222--29692323	42	2.5	41	88	1	150	22	24	29	23	1.99
29701875--29701909	17	2.1	17	88	0	52	68	14	2	14	1.32
29710311--29710521	75	2.8	77	91	1	336	22	17	26	33	1.96
29710390--29710515	33	3.5	33	68	24	101	23	17	26	33	1.96
29726185--29726330	71	2.1	69	89	2	220	45	8	15	30	1.77
29730129--29730171	20	2.2	20	86	0	59	60	4	2	32	1.30
29760338--29760370	16	2.1	16	88	5	50	18	9	0	72	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29775040--29775090	26	1.9	27	92	4	86	25	21	21	31	1.98
29780852--29780886	17	2.1	17	88	0	52	68	14	2	14	1.32
29783233--29783300	16	4.2	16	96	0	127	26	0	35	38	1.57
29783516--29783570	15	3.4	16	80	16	53	50	1	0	47	1.11
29783536--29783570	18	2.0	17	88	5	52	54	0	0	45	0.99
29783656--29783690	18	2.0	17	88	5	52	54	0	0	45	0.99
29783551--29783741	61	3.2	60	67	20	155	48	5	2	43	1.38
29783514--29783797	120	2.4	120	90	2	446	48	4	1	44	1.34
29787290--29787317	14	2.0	14	100	0	56	28	35	14	21	1.92
29794279--29794558	69	3.8	75	81	6	347	21	16	26	35	1.94
29800758--29800935	27	6.6	27	83	3	205	26	15	28	29	1.96
29800759--29800914	82	1.9	81	88	3	233	26	15	28	29	1.96
29800755--29800935	82	2.2	81	83	2	229	27	15	27	29	1.96
29802306--29802351	23	2.0	23	100	0	92	26	21	13	39	1.90
29813476--29813619	69	2.1	69	89	0	216	47	11	13	28	1.76
29817391--29817433	20	2.2	20	86	0	59	60	4	2	32	1.30
29834204--29834235	16	2.0	16	93	0	55	25	15	0	59	1.36
29834463--29834649	51	3.7	51	75	9	186	32	27	16	24	1.96
29837064--29837102	20	2.0	20	90	10	62	15	23	5	56	1.59
29837302--29837494	50	3.9	50	76	4	151	24	27	19	28	1.99
29840517--29840544	9	3.1	9	100	0	56	21	25	0	53	1.46
29858137--29858192	27	2.1	27	96	0	103	25	21	19	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29874198--29874244	5	9.6	5	78	21	55	80	0	19	0	0.70
29874196--29874240	21	2.2	20	88	11	65	80	0	20	0	0.72
29877727--29877904	27	6.6	27	84	3	205	29	28	15	26	1.96
29877748--29877903	82	1.9	81	88	3	233	29	28	15	26	1.96
29885784--29885961	27	6.6	27	84	1	212	29	28	15	27	1.96
29885805--29885960	82	1.9	81	89	1	240	28	28	15	27	1.96
29892408--29892436	15	2.0	15	93	6	51	86	0	13	0	0.58
29892407--29892446	20	2.0	20	90	9	64	82	0	17	0	0.67
29892401--29892439	9	3.9	10	83	12	53	79	0	20	0	0.73
29903838--29903874	9	4.1	9	96	0	65	37	0	10	51	1.37
29906865--29907030	72	2.3	72	95	1	307	36	11	15	37	1.83
29911121--29911149	9	3.0	10	90	10	51	58	0	20	20	1.39
29914784--29914864	28	3.0	28	85	7	96	20	20	19	38	1.94
29938370--29938404	15	2.3	15	90	0	52	51	5	0	42	1.25
29961509--29961544	18	1.9	19	88	5	56	38	16	8	36	1.79
29976210--29976339	40	3.3	39	84	5	163	23	21	27	26	1.99
29984078--29984207	40	3.3	39	84	5	163	23	21	27	26	1.99
29984078--29984242	79	2.1	79	80	2	179	25	21	27	25	1.99
29992060--29992092	16	2.2	15	89	10	50	75	3	9	12	1.14
30002247--30002312	20	3.2	20	81	10	89	15	34	18	31	1.92
30002247--30002321	20	3.7	20	79	12	82	14	34	20	30	1.92
30003797--30004014	111	2.0	111	89	0	337	24	19	32	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30005916--30005990	26	2.9	25	78	6	78	16	12	38	33	1.85
30012588--30012807	39	5.6	40	84	5	243	25	27	21	25	1.99
30012605--30012804	79	2.5	78	80	8	224	25	27	21	26	1.99
30021213--30021263	15	3.4	15	68	10	50	27	35	21	15	1.94
30021207--30021276	30	2.3	30	95	0	122	21	32	24	21	1.98
30025636--30025910	27	10.2	27	76	7	195	40	19	19	21	1.92
30025636--30025885	54	4.6	54	75	6	220	40	18	18	21	1.91
30025933--30026029	24	4.0	24	79	0	95	26	6	21	45	1.75
30025991--30026041	24	2.1	24	88	0	75	21	7	19	50	1.72
30026213--30026382	32	5.4	32	82	6	195	20	19	21	39	1.93
30026212--30026368	63	2.5	64	84	3	201	20	20	21	38	1.94
30026670--30026731	32	1.9	33	86	3	90	24	25	19	30	1.98
30026671--30026740	32	2.2	33	81	2	79	24	24	22	28	1.99
30031654--30031710	28	2.0	28	100	0	114	38	17	17	26	1.92
30047811--30047863	20	2.7	20	81	0	70	13	24	15	47	1.81
30064868--30064918	5	10.8	5	85	10	72	41	1	15	41	1.58
30067009--30067046	18	2.1	18	85	9	51	28	0	5	65	1.14
30073870--30073898	2	14.5	2	100	0	58	51	0	0	48	1.00
30082475--30082552	30	2.8	28	82	9	79	57	5	3	33	1.39
30082598--30082693	38	2.5	40	78	6	101	55	4	6	34	1.44
30082710--30082745	17	2.1	18	89	5	56	50	0	11	38	1.38
30082679--30082795	61	1.9	61	82	6	148	50	2	11	35	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30082874--30082909	3	12.0	3	87	0	54	63	2	2	30	1.22
30082933--30082962	7	4.4	7	91	8	53	73	0	0	26	0.84
30083220--30083277	22	2.6	22	81	7	64	41	17	3	37	1.66
30083248--30083303	21	2.9	19	87	10	71	35	16	7	41	1.75
30083290--30083315	12	2.2	12	100	0	52	42	15	7	34	1.75
30086018--30086115	32	3.0	32	85	7	126	40	12	10	36	1.77
30090930--30090991	18	3.6	18	72	12	58	54	12	1	30	1.48
30091485--30091531	17	2.8	17	90	0	67	23	19	25	31	1.98
30096312--30096467	72	2.2	72	78	0	168	24	17	28	29	1.97
30103302--30103345	22	2.0	22	90	0	70	36	9	20	34	1.84

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