genome.fa.s4.2.7.7.80.10.50.1000.150.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  150  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)
50335548--50335625	39	2.0	39	82	9	97	73	5	1	20	1.10
50335873--50336046	29	6.4	27	78	14	137	64	1	2	31	1.18
50335957--50336029	24	3.1	24	88	5	105	65	1	1	31	1.09
50335895--50336003	33	3.3	31	77	16	96	62	0	3	33	1.19
50335892--50336044	55	2.8	52	81	13	159	63	1	3	32	1.19
50336011--50336045	17	2.0	18	88	5	54	68	2	0	28	1.04
50335892--50336045	53	2.9	53	80	7	143	63	1	3	31	1.18
50336033--50336070	19	1.9	19	89	5	58	47	2	2	47	1.30
50340186--50340222	17	2.2	17	95	0	65	27	29	10	32	1.90
50341667--50341723	29	2.0	29	96	0	105	5	31	8	54	1.53
50341884--50341916	14	2.5	13	90	9	50	63	18	0	18	1.31
50343596--50343676	40	2.0	41	83	9	103	32	1	3	62	1.20
50343642--50343681	20	2.0	20	90	4	64	40	0	2	57	1.12
50343650--50343690	20	2.1	20	86	4	57	43	0	0	56	0.99
50343681--50343717	19	2.0	19	94	5	67	37	0	10	51	1.37
50343687--50343743	19	3.0	19	80	14	64	40	0	8	50	1.33
50343707--50343757	20	2.5	20	74	0	57	35	0	7	56	1.28
50363676--50363719	9	4.8	9	94	2	70	2	9	0	88	0.59
50363672--50363719	19	2.5	19	83	10	71	4	8	0	87	0.66
50363844--50364074	118	2.0	118	92	0	381	29	30	17	23	1.97
50364855--50364959	42	2.5	42	90	0	156	24	12	34	28	1.92
50365066--50365137	5	13.8	5	75	13	65	76	0	4	19	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50371171--50371213	18	2.4	18	80	0	50	79	4	4	11	1.04
50379828--50379976	3	48.3	3	79	10	131	61	4	5	28	1.38
50381466--50382087	44	14.1	44	77	5	441	27	22	19	30	1.98
50388609--50388730	38	2.8	48	69	25	140	23	32	22	21	1.98
50388698--50388859	46	3.5	46	84	7	172	23	30	18	27	1.98
50396271--50396401	50	2.7	49	79	12	135	22	26	19	30	1.98
50399880--50400025	3	48.3	3	78	9	109	60	5	4	29	1.40
50401024--50401072	24	2.0	24	100	0	98	44	0	12	42	1.41
50404810--50404989	71	2.5	72	80	8	199	13	22	16	47	1.81
50418818--50418931	25	4.6	26	81	6	105	62	4	4	28	1.34
50418818--50418945	26	5.1	25	77	7	118	60	6	3	28	1.39
50419129--50419209	25	3.2	25	81	10	101	71	2	1	24	1.05
50419129--50419209	26	3.2	25	82	8	92	71	2	1	24	1.05
50422034--50422125	32	3.0	31	78	9	100	26	10	4	58	1.50
50425937--50425963	3	9.0	3	100	0	54	66	0	0	33	0.92
50426027--50426073	22	2.2	21	82	10	60	55	2	2	40	1.24
50438404--50438452	25	2.0	23	81	14	55	24	20	24	30	1.98
50438433--50438501	24	2.9	23	77	10	77	34	17	23	24	1.96
50447117--50447318	42	4.6	42	75	11	156	28	15	23	31	1.96
50447107--50447272	90	1.8	90	79	5	192	26	14	25	33	1.94
50450293--50450406	42	2.7	43	79	5	117	29	16	23	29	1.96
50452838--50452908	34	2.1	34	94	0	124	29	8	23	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50455411--50455443	16	2.1	16	100	0	66	39	12	18	30	1.87
50462829--50462885	23	2.4	24	88	2	80	38	21	19	21	1.93
50462829--50462895	24	2.9	22	77	6	62	35	19	20	23	1.95
50463379--50463436	29	2.0	29	93	6	100	31	24	13	31	1.94
50469896--50469961	28	2.4	28	89	2	98	18	43	18	19	1.88
50481970--50482018	23	2.1	23	100	0	98	30	16	28	24	1.96
50495144--50495201	28	2.1	28	100	0	116	37	17	0	44	1.49
50495370--50495473	48	2.2	48	89	1	156	36	6	1	54	1.38
50495428--50495480	15	3.1	17	76	23	58	37	0	1	60	1.08
50497759--50497880	22	5.4	22	78	8	120	29	13	25	31	1.94
50497770--50497889	46	2.7	43	80	6	141	27	12	26	33	1.92
50499783--50499813	14	2.2	14	94	0	53	48	0	3	48	1.17
50504706--50504747	22	1.9	22	85	0	57	54	19	2	23	1.55
50513315--50513414	50	2.0	50	90	0	155	32	21	18	29	1.96
50524852--50525221	185	2.0	185	98	0	722	40	17	15	26	1.90
50526413--50526568	42	3.7	41	77	9	134	30	24	15	29	1.95
50527864--50527939	22	3.5	21	84	8	91	15	25	32	26	1.95
50530979--50531081	42	2.5	42	81	0	125	29	22	14	33	1.94
50537158--50537272	50	2.2	52	82	8	155	33	14	13	39	1.85
50537537--50537666	69	1.9	69	96	0	242	28	18	15	37	1.91
50539664--50539697	16	2.0	18	88	11	54	67	0	26	5	1.13
50539662--50539700	18	2.4	17	84	16	55	66	0	28	5	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50541609--50541799	96	2.0	96	83	6	244	15	33	15	35	1.89
50548207--50548283	31	2.5	31	82	2	102	23	28	33	14	1.94
50548333--50548366	18	1.9	18	88	5	52	14	29	44	11	1.81
50549743--50549768	9	2.9	9	100	0	52	46	23	7	23	1.78
50550988--50551027	20	2.0	20	85	9	55	37	20	27	15	1.92
50553536--50553571	8	4.4	8	86	6	54	25	0	2	72	0.98
50553538--50553571	17	2.0	17	94	0	59	20	0	2	76	0.92
50558562--50558630	31	2.2	31	92	0	111	40	31	4	23	1.74
50560471--50560718	114	2.2	114	100	0	496	27	19	22	30	1.98
50569840--50569910	34	2.1	34	83	0	88	35	30	5	28	1.80
50584675--50584857	79	2.3	81	84	7	232	24	22	27	25	2.00
50584676--50584859	40	4.6	40	83	9	216	23	22	28	25	2.00
50584728--50584892	79	2.1	79	84	6	210	25	21	27	25	1.99
50602480--50602550	24	3.0	24	79	8	65	70	11	5	12	1.32
50610854--50611054	47	4.2	47	83	5	199	22	13	29	34	1.92
50613837--50614230	192	2.1	192	99	0	779	34	18	8	38	1.80
50627089--50627309	46	4.7	46	76	13	227	27	21	28	22	1.99
50627089--50627309	94	2.4	92	82	10	245	27	21	28	22	1.99
50631270--50631342	33	2.2	33	95	0	128	36	9	26	27	1.87
50636233--50636275	15	2.9	15	92	0	68	16	13	13	55	1.69
50647145--50647355	40	5.3	40	89	4	239	23	20	27	28	1.99
50649128--50649259	54	2.4	54	100	0	264	26	22	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50654526--50654794	46	5.7	47	75	12	152	28	17	28	24	1.98
50654573--50654793	46	4.7	47	79	8	204	29	18	28	24	1.98
50654531--50654793	140	1.9	141	83	5	345	29	17	28	24	1.98
50654573--50654796	47	4.8	46	77	12	210	29	18	28	24	1.98
50657561--50657882	161	2.0	161	93	0	554	34	24	10	30	1.89
50661353--50661578	114	2.0	114	90	0	353	21	23	34	20	1.97
50662853--50662901	25	2.0	25	83	0	62	34	12	18	34	1.88
50665972--50666094	42	2.9	42	80	4	140	25	17	25	32	1.96
50674795--50674837	16	2.8	16	83	16	63	16	4	0	79	0.90
50674786--50674876	5	17.2	5	71	24	55	18	4	1	75	1.02
50674789--50674878	35	2.5	36	82	10	114	18	4	2	74	1.09
50674789--50674856	6	11.5	6	82	6	77	16	4	1	77	0.99
50674790--50674876	12	7.4	11	77	13	77	18	4	1	75	1.03
50674805--50674866	17	3.7	16	83	10	70	17	4	1	75	1.05
50682834--50682886	27	2.0	26	82	10	63	37	0	1	60	1.08
50682866--50682897	8	4.2	8	88	11	50	25	0	0	75	0.81
50684085--50684172	46	1.9	46	92	0	149	36	18	23	21	1.95
50684754--50684846	46	2.0	46	93	0	159	36	18	21	23	1.95
50699593--50699622	15	2.0	15	93	0	51	43	40	16	0	1.48
50699670--50699697	13	2.2	13	100	0	56	14	35	0	50	1.43
50699690--50699957	145	1.8	144	89	3	421	23	11	19	44	1.84
50701728--50701775	6	8.0	6	90	0	78	2	62	0	35	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50704278--50704355	18	4.0	18	67	23	50	30	2	7	58	1.39
50704394--50704430	18	2.1	18	100	0	74	51	0	0	48	1.00
50704512--50704549	19	2.0	19	89	0	58	47	10	10	31	1.72
50704541--50704578	14	2.7	14	91	0	58	34	13	10	42	1.78
50704662--50704699	6	6.0	6	88	11	58	18	0	2	78	0.86
50704655--50704696	20	2.0	21	95	4	77	19	0	7	73	1.05
50705268--50705322	17	3.2	18	80	12	53	23	27	34	14	1.94
50705279--50705324	18	2.6	18	86	3	58	23	26	34	15	1.94
50711124--50711335	68	3.1	67	98	0	379	33	14	28	23	1.94
50711190--50711301	38	3.2	38	60	27	91	29	15	29	25	1.96

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