genome.fa.s20.2.7.7.80.10.50.1000.120.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  120  of  186  ( 22216 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)
39833791--39833869	37	2.1	37	88	4	115	25	30	18	25	1.98
39833988--39834476	47	10.4	47	92	0	807	28	30	9	31	1.88
39834180--39834257	25	3.2	25	62	10	63	32	28	6	33	1.82
39838353--39838429	21	3.8	21	83	8	106	36	12	29	20	1.90
39841709--39841769	25	2.3	26	83	8	70	16	6	0	77	0.98
39841726--39841769	9	4.9	9	81	10	54	13	4	0	81	0.83
39849176--39849282	51	2.1	51	87	3	153	35	16	7	40	1.77
39855669--39855907	50	4.9	49	80	9	256	25	18	30	24	1.98
39855683--39855860	95	1.9	94	87	6	261	26	19	30	24	1.98
39855726--39855905	95	1.9	91	79	12	193	26	18	31	22	1.97
39859905--39860015	27	4.1	27	83	5	136	38	21	22	17	1.93
39859905--39860015	54	2.1	53	89	1	168	38	21	22	17	1.93
39862523--39862566	14	2.9	15	86	6	54	11	15	15	56	1.66
39865232--39865470	50	4.9	50	81	8	267	29	17	27	25	1.98
39865232--39865471	95	2.5	95	82	4	266	29	17	27	25	1.98
39866742--39866794	26	2.0	26	100	0	106	41	26	3	28	1.73
39867313--39867337	13	1.9	13	100	0	50	36	40	24	0	1.55
39868024--39868199	47	3.7	47	73	15	146	23	27	21	26	1.99
39875740--39875848	46	2.4	45	86	10	143	27	29	16	26	1.97
39876683--39876776	47	2.0	47	95	0	170	26	17	6	50	1.70
39877272--39877869	301	2.0	301	97	0	1124	28	10	22	38	1.87
39883944--39883987	23	1.9	23	85	0	61	50	27	6	15	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39884706--39884877	43	4.0	43	76	12	165	32	21	18	27	1.96
39886424--39886483	26	2.3	25	77	8	66	35	21	15	28	1.93
39893724--39893774	25	2.0	25	88	0	75	31	23	13	31	1.93
39893817--39893855	10	3.8	10	93	6	69	33	17	17	30	1.94
39893816--39893855	21	1.9	21	100	0	80	35	17	17	30	1.93
39900348--39900398	25	2.0	25	84	0	66	27	23	21	27	1.99
39900438--39900470	11	3.1	11	91	8	59	36	18	18	27	1.94
39909725--39909834	43	2.6	43	85	4	134	21	16	26	35	1.94
39917008--39917117	6	17.8	6	69	15	73	49	13	19	18	1.80
39917020--39917117	25	3.7	25	77	15	106	47	14	19	18	1.82
39917022--39917095	31	2.4	31	93	0	121	45	14	20	18	1.85
39917013--39917117	31	3.6	30	73	15	103	48	14	19	18	1.81
39917784--39917842	27	2.2	27	93	0	100	32	16	13	37	1.88
39917876--39918085	27	7.9	27	83	5	221	26	7	22	43	1.80
39917876--39918085	80	2.6	78	82	7	235	26	7	22	43	1.80
39931672--39931877	41	4.4	49	68	22	149	31	25	17	25	1.97
39931700--39931908	41	4.8	42	75	16	156	29	26	19	24	1.98
39931653--39931881	92	2.5	92	89	1	352	30	25	18	25	1.98
39931792--39931908	43	2.8	42	86	3	155	28	28	18	24	1.98
39937274--39937300	14	1.9	14	100	0	54	44	7	29	18	1.77
39937914--39937965	27	1.9	27	84	7	70	30	21	21	26	1.98
39940807--39940886	39	2.1	39	100	0	160	33	20	17	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39942466--39942624	51	3.3	49	69	23	131	31	23	18	27	1.97
39942444--39942675	92	2.5	92	85	2	322	32	23	18	25	1.97
39942584--39942701	41	2.8	40	74	12	105	31	27	17	23	1.97
39944901--39945233	96	3.5	93	74	10	284	28	19	26	26	1.99
39944897--39945267	48	7.8	48	73	9	210	28	19	25	26	1.99
39944899--39945304	186	2.2	187	81	3	469	28	19	25	26	1.99
39953507--39953572	26	2.5	27	82	2	80	46	25	3	24	1.66
39953578--39953796	53	4.1	52	81	7	244	39	16	10	33	1.82
39953578--39953796	27	8.2	27	79	8	209	39	16	10	33	1.82
39953507--39953843	81	4.2	81	78	6	224	40	19	8	32	1.81
39953664--39953843	27	6.7	27	75	5	130	39	20	7	32	1.81
39953835--39954239	27	15.0	27	85	1	488	36	18	21	23	1.95
39953834--39954234	135	3.0	134	91	1	622	36	17	21	24	1.95
39954665--39954730	22	3.0	22	73	8	62	19	22	22	34	1.96
39955090--39955152	25	2.5	25	82	5	74	25	19	7	47	1.76
39957145--39957211	26	2.5	26	80	2	71	43	25	7	23	1.80
39957145--39957435	80	3.6	81	81	5	306	39	18	9	32	1.83
39957145--39957435	53	5.5	53	78	5	257	39	18	9	32	1.83
39957139--39957482	80	4.3	81	78	4	241	38	19	8	32	1.83
39957145--39957482	27	12.6	27	75	5	238	39	19	8	32	1.83
39957474--39958283	27	30.0	27	89	0	1107	35	19	20	24	1.95
39958943--39959012	27	2.7	26	84	4	95	20	21	18	40	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39959097--39959163	25	2.7	25	86	9	100	22	17	10	49	1.77
39975125--39975166	20	2.1	20	86	0	57	57	0	30	11	1.35
39987939--39988113	48	3.6	48	76	12	171	29	20	28	21	1.98
39987936--39988118	96	1.9	96	85	4	253	28	20	28	21	1.98
39994055--39994231	27	6.5	27	80	3	167	25	16	29	28	1.97
39994055--39994210	82	1.9	81	84	3	206	25	16	29	28	1.97
39994051--39994231	82	2.2	81	80	2	202	25	16	28	28	1.97
39996857--39996912	26	2.2	26	83	0	67	46	21	12	19	1.83
39996916--39997094	20	8.9	20	81	2	180	37	26	22	13	1.92
39996915--39997090	40	4.4	40	84	2	210	37	26	21	14	1.92
40000727--40000833	37	2.9	37	95	0	187	28	16	28	25	1.97
40000699--40000871	37	4.7	37	85	0	186	28	16	27	27	1.97
40004289--40004461	48	3.6	48	77	13	187	26	21	30	21	1.99
40004289--40004468	96	1.9	96	85	6	249	26	21	30	22	1.99
40010031--40010217	55	3.5	53	79	7	164	21	23	18	36	1.95
40010059--40010225	54	3.1	53	78	6	176	22	24	17	35	1.95
40014092--40014354	40	6.6	39	86	4	278	25	27	21	25	1.99
40014092--40014354	120	2.2	119	82	4	307	25	27	21	25	1.99
40014286--40014363	40	1.9	41	82	10	97	26	28	20	24	1.99
40022044--40022173	40	3.3	40	91	1	199	26	28	20	23	1.99
40022044--40022226	40	4.6	39	83	6	181	27	27	20	24	1.99
40022042--40022226	80	2.3	78	80	8	203	27	28	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40033938--40035147	584	2.1	584	96	0	2222	34	21	15	28	1.94
40035409--40035443	18	1.9	18	88	0	52	31	8	25	34	1.86
40035878--40036007	26	5.2	26	93	2	198	30	21	19	29	1.97
40036058--40036114	20	2.8	20	94	0	96	31	19	12	36	1.89
40036159--40036206	25	1.9	25	91	0	78	29	12	22	35	1.91
40043329--40043363	18	1.9	18	88	0	52	31	8	25	34	1.86
40043931--40044039	26	4.4	25	91	4	152	29	22	20	28	1.98
40044089--40044145	20	2.8	20	94	0	96	31	19	12	36	1.89
40045510--40045939	215	2.0	215	97	0	806	26	33	11	28	1.92
40047617--40047823	40	5.2	40	87	5	271	24	22	27	25	2.00
40055667--40055883	40	5.5	39	86	7	278	24	23	27	24	2.00
40057743--40057811	25	2.8	25	93	0	111	24	23	26	26	2.00
40058016--40058230	27	8.0	27	88	4	274	25	21	17	35	1.95
40058192--40058291	27	3.7	27	74	12	82	29	12	20	39	1.88
40058273--40058454	27	6.7	27	85	2	231	28	7	22	41	1.81
40058234--40058454	81	2.7	81	83	2	255	30	8	20	40	1.82
40058409--40058486	27	2.9	27	84	0	84	34	7	21	35	1.82
40058234--40058468	54	4.4	54	79	7	208	30	8	21	39	1.83
40058447--40058711	27	9.8	27	89	0	386	37	7	25	29	1.83
40058885--40058968	27	3.0	27	73	13	98	39	27	4	28	1.77
40058873--40058957	27	3.0	29	73	13	104	32	29	5	31	1.81
40059223--40059340	56	2.1	56	98	0	227	28	33	12	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40061695--40061752	30	1.9	30	82	6	73	24	31	29	15	1.95
40062808--40063123	27	11.7	27	81	5	246	39	19	9	31	1.83
40062808--40063122	54	5.8	54	75	5	278	40	19	9	31	1.83
40062808--40063122	81	3.9	80	78	4	317	40	19	9	31	1.83
40063161--40063328	27	6.2	27	88	0	228	34	15	20	29	1.94
40063161--40063328	54	3.1	54	92	0	264	34	15	20	29	1.94
40063534--40063628	25	3.8	25	94	0	163	26	25	21	27	1.99
40063533--40063641	25	4.4	25	78	15	111	28	22	21	27	1.99
40063532--40063653	50	2.4	50	87	5	149	27	24	21	27	1.99
40066366--40066409	20	2.3	20	84	7	56	15	36	29	18	1.92

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