genome.fa.s8.2.7.7.80.10.50.1000.109.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  109  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)
34490362--34490439	37	2.1	37	85	0	102	50	33	2	14	1.56
34490739--34491001	118	2.2	118	95	0	472	34	25	15	23	1.95
34490975--34491154	92	2.0	91	88	1	270	35	22	15	26	1.94
34491240--34491559	132	2.4	131	91	0	514	34	25	14	25	1.94
34491455--34491650	91	2.2	91	84	1	268	33	25	14	27	1.94
34490776--34491714	479	2.0	466	94	3	1628	33	25	14	25	1.94
34492257--34492318	31	2.1	30	81	6	72	46	11	1	40	1.49
34495188--34495232	21	2.1	21	87	0	63	42	2	6	48	1.41
34496084--34496113	14	2.1	14	93	0	51	46	36	0	16	1.47
34501461--34501780	128	2.5	127	84	4	410	26	16	20	36	1.94
34502314--34502361	21	2.3	21	85	0	69	45	18	2	33	1.61
34502531--34502555	13	1.9	13	100	0	50	48	4	0	48	1.20
34505051--34505087	20	1.9	20	88	5	58	40	0	8	51	1.32
34507249--34507476	46	5.0	46	93	1	350	40	14	23	21	1.90
34508266--34508297	3	10.3	3	93	6	55	34	0	0	65	0.93
34515565--34515727	33	4.9	33	85	4	215	38	12	33	15	1.86
34518699--34518728	7	4.1	7	95	4	51	40	0	0	60	0.97
34519278--34519337	19	3.0	20	79	11	61	35	0	1	63	1.05
34520747--34520794	13	3.6	13	77	2	51	62	0	0	37	0.95
34522217--34522267	20	2.4	21	81	18	70	41	0	1	56	1.10
34522393--34522435	14	3.0	15	83	10	54	44	0	0	55	0.99
34529396--34529466	3	23.7	3	72	11	56	63	1	5	29	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34529402--34529466	16	4.1	16	76	11	62	64	1	4	29	1.22
34531169--34531205	17	2.2	17	90	0	56	18	21	45	13	1.84
34534932--34534984	26	2.0	27	85	7	74	24	15	22	37	1.92
34536470--34536527	26	2.2	26	93	0	98	36	24	5	34	1.78
34538383--34538428	24	1.9	24	86	0	65	54	4	6	34	1.46
34538362--34538445	24	3.9	21	70	11	53	55	4	4	34	1.42
34538515--34538572	25	2.3	26	86	13	79	56	8	3	31	1.46
34538513--34538579	26	2.6	25	79	13	73	56	7	4	31	1.47
34538717--34538776	22	2.8	21	71	19	52	55	5	8	31	1.51
34538762--34538801	17	2.2	19	86	13	57	67	2	0	30	1.04
34538925--34538980	26	2.2	26	83	6	69	64	3	5	26	1.32
34539249--34539285	19	1.9	19	94	0	65	51	2	13	32	1.55
34539490--34539524	12	3.0	12	87	4	54	57	0	8	34	1.29
34540035--34540092	20	3.0	20	73	14	59	48	0	51	0	1.00
34540213--34540260	13	3.7	13	86	5	62	81	0	18	0	0.70
34540219--34540260	21	2.0	21	86	9	59	83	0	16	0	0.65
34552602--34554253	826	2.0	826	99	0	3277	34	22	17	26	1.95
34554885--34554917	15	2.2	15	94	0	57	18	21	21	39	1.93
34584900--34585018	63	2.0	59	86	8	168	59	9	17	13	1.59
34587647--34587716	23	3.2	23	67	19	67	42	12	8	35	1.74
34587627--34587718	43	2.1	43	95	0	166	40	11	8	39	1.73
34591249--34591348	50	2.0	50	100	0	200	44	16	14	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34596324--34596582	46	5.6	46	91	0	358	41	14	23	20	1.89
34597783--34597811	13	2.2	13	100	0	58	44	6	10	37	1.65
34603406--34603525	60	2.0	59	91	1	195	25	19	8	45	1.78
34610076--34610190	57	2.0	57	87	0	167	36	13	18	31	1.90
34611633--34611692	31	1.9	31	93	0	102	33	13	11	41	1.80
34611695--34611726	16	2.0	16	93	0	55	18	15	12	53	1.73
34612633--34612716	35	2.4	35	93	0	141	45	11	7	35	1.69
34613908--34613947	11	3.6	11	82	0	53	60	10	10	20	1.57
34622577--34622615	16	2.4	17	83	16	55	71	2	5	20	1.17
34625956--34626032	34	2.3	34	84	4	102	31	22	18	28	1.97
34632381--34632446	34	1.9	34	84	6	89	28	18	22	30	1.97
34639457--34639511	26	2.1	27	86	10	78	54	9	7	29	1.58
34641213--34641258	4	11.5	4	100	0	92	26	0	23	50	1.50
34643314--34643351	17	2.2	18	90	4	60	57	2	2	36	1.26
34644675--34644742	9	7.7	9	71	15	61	32	2	2	61	1.26
34648581--34648628	21	2.3	21	88	0	69	4	58	16	20	1.55
34654406--34654892	241	2.0	241	99	0	956	33	14	18	34	1.91
34655312--34655643	183	1.8	183	95	0	610	42	13	15	28	1.85
34656654--34656950	148	2.0	148	98	0	576	35	16	14	33	1.89
34665360--34665403	21	2.1	21	84	16	56	4	13	0	81	0.83
34671663--34671711	14	3.6	13	78	8	53	38	32	4	24	1.74
34674297--34674357	26	2.3	27	81	13	74	37	3	1	57	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34674605--34674648	16	2.8	16	78	0	52	72	2	0	25	0.96
34686979--34687130	77	2.0	75	80	12	166	44	0	18	36	1.55
34687116--34687155	13	2.9	14	85	7	55	62	0	10	27	1.27
34687509--34687562	23	2.3	23	84	9	74	22	16	20	40	1.91
34695176--34695254	15	5.3	15	89	6	97	10	11	20	58	1.61
34695174--34695254	30	2.7	29	84	5	108	11	11	19	58	1.62
34701743--34701806	15	4.3	15	88	7	76	9	10	21	57	1.61
34704207--34704252	19	2.4	19	85	3	56	41	2	13	43	1.55
34708641--34708677	10	3.6	11	89	10	53	62	0	0	37	0.96
34710364--34710397	14	2.4	14	95	0	59	8	32	35	23	1.86
34711782--34711834	21	2.5	21	90	0	88	30	39	0	30	1.57
34717264--34717326	18	3.5	19	87	8	96	38	9	15	36	1.81
34717272--34717349	18	3.8	22	83	10	71	37	7	16	38	1.78
34717619--34717657	20	2.0	19	90	5	60	28	0	0	71	0.86
34728343--34728614	44	6.3	44	76	9	247	28	16	26	27	1.97
34728822--34729116	78	3.8	78	89	1	448	32	18	23	25	1.97
34729056--34729303	45	5.5	45	74	9	200	30	16	26	26	1.97
34729678--34729730	17	2.9	18	86	8	81	37	11	15	35	1.83
34729834--34729919	43	2.0	43	97	0	163	27	24	20	26	1.99
34730220--34730332	57	2.0	57	94	0	199	31	11	15	41	1.82
34731103--34731181	40	2.0	40	94	0	140	31	22	16	29	1.96
34734944--34734990	16	3.0	16	79	20	55	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34734931--34734985	22	2.5	23	73	8	60	61	0	0	38	0.96
34747732--34747760	11	2.6	11	100	0	58	0	51	0	48	1.00
34755690--34755753	28	2.3	28	74	15	69	68	14	4	12	1.35
34759486--34759896	203	2.0	202	97	0	779	32	13	11	41	1.81
34759761--34760333	287	2.0	287	98	0	1119	31	12	11	44	1.78
34763750--34763801	20	2.5	21	84	9	63	38	7	1	51	1.42
34769699--34769856	77	2.1	77	98	0	307	19	18	14	47	1.82
34769792--34770202	46	9.0	46	88	2	531	21	24	13	40	1.89
34771736--34771761	11	2.4	11	100	0	52	7	23	11	57	1.59
34774512--34774712	52	4.0	52	76	10	202	23	17	28	29	1.97
34774512--34774733	105	2.1	103	81	10	249	24	15	29	30	1.96
34774520--34774722	46	4.1	47	73	14	122	23	17	29	30	1.97
34775295--34775354	28	2.1	28	100	0	120	36	10	11	41	1.75
34780577--34780771	52	3.8	52	76	7	161	24	15	29	30	1.96
34787327--34787402	22	3.7	21	76	15	68	40	17	6	35	1.75
34787363--34787431	17	3.8	19	88	11	117	36	14	11	37	1.83
34790515--34790561	19	2.5	19	79	3	51	68	0	2	29	1.02
34797124--34797752	314	2.0	314	94	0	1096	25	18	31	24	1.98
34803938--34804005	34	2.0	34	97	0	127	26	33	5	33	1.81
34811209--34811323	43	2.6	45	81	10	114	25	21	27	25	1.99
34811245--34811373	43	3.0	42	80	1	132	27	20	29	22	1.98
34811307--34811453	40	3.6	40	71	9	118	27	19	29	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34813369--34813611	50	4.8	50	90	0	378	20	30	22	26	1.98
34813706--34813736	13	2.4	13	94	0	53	54	12	0	32	1.38
34813948--34814005	30	1.9	30	89	0	89	31	24	3	41	1.71
34818006--34818066	30	2.1	30	93	3	106	36	21	16	26	1.94
34819208--34819281	12	5.8	13	82	9	82	48	0	1	50	1.09
34819227--34819288	5	12.2	5	80	10	54	53	0	0	46	1.00
34819173--34819286	44	2.6	42	77	18	110	49	0	0	49	1.13
34819183--34819288	7	15.3	7	70	20	53	50	0	0	48	1.13
34820794--34820846	26	2.0	26	88	0	79	33	13	35	16	1.88
34826474--34826530	22	2.6	22	83	8	80	14	24	19	42	1.88

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