genome.fa.s8.2.7.7.80.10.50.1000.149.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   

This is table  149  of  279  ( 33431 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)
48390679--48390720	13	2.9	15	79	13	52	50	14	4	30	1.63
48390679--48390740	29	2.1	29	93	0	106	46	16	3	33	1.63
48390920--48391262	171	2.0	171	100	0	686	21	17	19	41	1.90
48417516--48417648	69	1.9	69	83	4	171	39	3	6	50	1.47
48420079--48420131	23	2.3	23	80	0	70	32	24	20	22	1.98
48420357--48420395	18	2.2	17	86	13	53	46	20	0	33	1.51
48425743--48425785	14	2.9	15	93	6	79	32	13	0	53	1.41
48425747--48425785	7	5.4	7	93	6	69	33	12	0	53	1.39
48433926--48434070	45	3.2	45	84	1	175	43	17	16	22	1.88
48434016--48434097	39	2.1	38	86	2	110	41	20	18	19	1.91
48435088--48435128	12	3.5	12	81	15	50	0	19	7	73	1.07
48435541--48435601	24	2.5	23	80	15	61	49	4	0	45	1.23
48435549--48435626	35	2.3	34	84	8	97	47	5	0	47	1.24
48440799--48440865	31	2.2	31	81	5	82	43	5	8	41	1.60
48445515--48445726	106	2.0	103	96	2	388	34	8	25	31	1.85
48446234--48446281	20	2.3	22	80	16	57	62	6	0	31	1.20
48451212--48451262	19	2.6	21	78	9	54	58	1	0	39	1.09
48451231--48451296	22	3.0	22	73	20	66	54	1	0	43	1.09
48452311--48452362	25	2.0	27	81	11	63	40	5	3	50	1.45
48458269--48458365	33	2.8	35	72	20	89	45	3	1	50	1.24
48459169--48459381	116	1.8	117	92	3	367	26	15	25	32	1.96
48461330--48461436	25	4.3	25	92	4	173	38	23	22	15	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48461303--48461436	49	2.8	49	87	6	177	41	21	20	16	1.91
48461666--48462283	309	2.0	309	100	0	1236	32	17	5	44	1.72
48462503--48462537	9	3.9	9	84	0	52	2	17	0	80	0.84
48462503--48462542	18	2.2	19	90	4	64	2	15	2	80	0.93
48462548--48462590	5	8.8	5	85	14	63	60	0	0	39	0.97
48462554--48462589	19	1.9	18	94	5	63	58	0	0	41	0.98
48462547--48462599	24	2.3	23	80	9	63	62	1	0	35	1.06
48463745--48463782	18	2.1	18	85	9	51	50	5	2	42	1.39
48464131--48464172	20	2.0	21	90	9	68	61	4	0	33	1.17
48467256--48467381	65	1.9	65	93	0	216	37	23	10	28	1.88
48469558--48469615	28	2.1	28	80	6	64	46	31	1	20	1.61
48469991--48470074	40	2.1	39	82	6	98	23	23	21	30	1.99
48469735--48470096	157	2.3	153	79	6	374	27	22	18	31	1.97
48470255--48470315	29	2.1	29	87	0	86	44	4	13	37	1.65
48470656--48470706	25	2.1	24	82	10	59	49	0	3	47	1.20
48473938--48473981	21	2.1	21	83	8	54	50	6	4	38	1.50
48474473--48474595	3	41.0	3	100	0	246	66	0	0	33	0.92
48475951--48476204	73	3.5	73	90	3	395	31	18	16	33	1.94
48476137--48476627	88	5.9	83	78	12	335	35	18	17	28	1.94
48476353--48476627	76	3.6	77	87	4	403	34	19	17	28	1.94
48476332--48476627	155	1.9	155	93	2	515	33	20	17	28	1.95
48476487--48476889	220	1.8	219	86	4	582	35	21	16	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48476733--48477018	129	2.2	129	97	0	536	39	22	13	23	1.90
48476991--48477176	75	2.5	76	80	3	216	33	24	16	25	1.96
48476862--48477290	203	2.1	202	95	0	777	35	23	16	25	1.95
48477112--48477623	127	3.9	129	80	9	588	32	22	17	27	1.96
48477321--48477587	73	3.7	71	83	6	324	32	23	16	27	1.96
48477371--48477587	69	3.0	71	82	6	269	34	24	16	24	1.96
48477538--48477789	53	4.7	54	91	3	393	36	18	14	30	1.91
48477534--48477777	107	2.3	109	90	3	388	36	19	15	28	1.92
48477795--48477955	72	2.2	73	91	2	261	34	15	17	32	1.91
48480136--48480191	26	2.2	26	83	6	69	0	10	7	82	0.85
48480149--48480191	16	2.7	16	82	10	61	0	6	6	86	0.72
48482213--48482312	50	2.0	50	100	0	200	20	28	16	36	1.93
48484184--48484227	21	2.1	21	83	8	54	50	6	4	38	1.50
48484721--48484750	3	10.0	3	100	0	60	66	0	0	33	0.92
48494725--48494840	30	3.9	30	84	3	128	30	23	3	43	1.70
48494722--48494854	30	4.5	29	74	16	94	33	21	3	42	1.68
48495073--48495115	18	2.3	19	84	4	52	69	0	30	0	0.88
48495178--48495206	10	2.9	10	100	0	58	62	0	37	0	0.96
48500212--48500518	52	6.1	51	86	7	391	34	14	21	29	1.93
48500198--48500518	98	3.3	97	83	10	427	34	14	21	29	1.93
48500264--48500518	46	5.3	46	88	5	312	35	14	21	29	1.92
48500482--48500591	37	3.0	37	94	1	195	37	16	21	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48507533--48507567	17	2.0	18	88	5	54	17	11	5	65	1.43
48507564--48507923	72	5.0	72	95	0	621	31	15	18	34	1.92
48507874--48507971	48	2.0	48	96	0	178	30	14	23	31	1.94
48507802--48508043	120	2.0	120	98	0	466	31	14	20	33	1.93
48507922--48508229	72	4.3	72	97	0	562	31	14	19	34	1.93
48507730--48508115	192	2.0	192	98	0	754	31	15	19	33	1.92
48507658--48508186	264	2.0	264	99	0	1049	31	15	19	34	1.92
48508177--48508397	54	4.1	54	95	0	388	28	15	17	38	1.90
48509128--48509243	30	3.9	30	81	3	119	30	22	3	43	1.69
48509125--48509257	30	4.5	29	72	16	85	33	20	3	43	1.67
48509997--48510196	17	11.5	17	76	10	156	31	12	12	44	1.79
48509997--48510196	35	5.7	34	77	9	165	31	12	12	44	1.79
48510175--48510227	20	2.6	20	77	14	63	43	9	7	39	1.65
48510216--48510252	17	2.3	17	81	9	51	37	16	10	35	1.83
48516365--48516425	28	2.1	29	81	3	70	24	11	8	55	1.62
48517659--48517689	16	1.9	16	93	0	53	38	6	6	48	1.55
48522374--48522414	17	2.4	18	88	8	59	34	0	7	58	1.26
48522887--48522933	25	1.9	24	82	4	58	46	6	0	46	1.28
48524384--48524439	27	2.1	27	100	0	112	37	23	14	25	1.92
48531760--48531941	91	2.0	91	98	0	355	38	15	9	35	1.81
48534126--48534164	18	2.2	18	85	0	51	58	0	5	35	1.20
48534608--48534649	18	2.3	18	80	8	50	26	0	9	64	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48542899--48542960	32	1.9	32	100	0	124	14	3	16	66	1.38
48556693--48556729	17	2.1	18	90	5	58	35	0	0	64	0.94
48560119--48560187	34	2.0	34	81	10	79	46	1	0	52	1.09
48561030--48561301	87	3.1	87	88	4	361	40	17	8	34	1.79
48561682--48561728	20	2.3	20	85	0	58	27	4	0	68	1.08
48561747--48561789	20	2.1	21	86	4	61	20	2	2	74	1.04
48565531--48565557	7	3.9	7	100	0	54	0	88	0	11	0.50
48581709--48581764	26	2.2	26	90	6	87	28	17	25	28	1.98
48584311--48584370	30	2.1	29	93	6	104	13	28	13	45	1.81
48590160--48590261	50	2.0	50	100	0	204	32	15	24	27	1.96
48592447--48592498	21	2.5	20	78	12	52	26	1	3	67	1.18
48595879--48595909	16	1.9	16	93	0	53	58	0	6	35	1.24
48596448--48596499	21	2.5	20	78	12	52	26	1	3	67	1.18
48599712--48599742	4	8.0	4	92	7	55	48	0	0	51	1.00
48600189--48600229	20	2.1	19	86	4	55	39	4	9	46	1.58
48602456--48602489	6	5.5	6	96	3	59	0	14	0	85	0.60
48612111--48612143	5	6.6	5	100	0	66	18	0	0	81	0.68
48612475--48612759	96	3.0	96	86	2	392	28	23	6	42	1.78
48614765--48614794	16	1.9	16	93	6	53	63	0	0	36	0.95
48622690--48622753	30	2.1	30	82	5	76	34	6	14	45	1.70
48623171--48623196	4	6.5	4	100	0	52	26	23	23	26	2.00
48628616--48628712	40	2.4	41	77	14	103	31	12	15	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48632109--48632206	23	4.3	23	89	2	153	31	25	21	21	1.98
48632116--48632204	45	2.0	45	93	0	151	31	25	22	20	1.98
48636040--48636087	24	1.9	24	87	8	69	45	0	2	52	1.12
48637779--48637818	4	10.0	4	94	0	71	47	25	2	25	1.64
48638723--48638747	6	4.2	6	100	0	50	32	0	52	16	1.44
48645646--48645692	16	2.6	19	70	16	55	27	8	6	57	1.53
48647186--48647265	38	2.2	38	84	8	103	36	2	21	40	1.67
48649656--48649735	38	2.2	38	84	8	103	36	2	21	40	1.67
48652126--48652205	38	2.2	38	84	8	103	36	2	21	40	1.67
48672246--48672270	13	1.9	13	100	0	50	80	0	16	4	0.87

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   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279