genome.fa.s9.2.7.7.80.10.50.1000.106.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   280   281   282   283   284   

This is table  106  of  284  ( 34012 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)
34805616--34805650	12	3.2	11	88	11	54	62	2	25	8	1.38
34820749--34820782	17	1.9	17	88	5	50	17	0	14	67	1.23
34822255--34822298	6	7.5	6	89	5	72	15	0	2	81	0.78
34822255--34822298	17	2.5	17	92	3	70	15	0	2	81	0.78
34822255--34822298	23	1.9	23	95	0	79	15	0	2	81	0.78
34837439--34837522	40	2.1	40	90	0	132	34	26	16	22	1.95
34847056--34847115	30	2.0	31	93	3	104	41	6	5	46	1.52
34848586--34848747	43	3.8	43	80	5	168	33	24	13	28	1.93
34856126--34856248	43	2.9	42	80	10	133	32	24	14	28	1.95
34859381--34859414	14	2.4	14	85	5	50	44	5	5	44	1.52
34859939--34860283	172	2.0	172	85	2	460	36	18	16	28	1.93
34865843--34865889	17	2.7	18	83	3	60	65	4	0	29	1.11
34867512--34867540	14	2.0	15	93	6	51	6	24	0	68	1.13
34867683--34868516	277	3.0	276	87	4	1174	25	20	7	46	1.76
34873956--34874055	39	2.7	34	75	19	94	53	5	4	38	1.42
34874442--34874549	26	4.2	26	93	0	189	32	7	24	36	1.83
34875242--34875316	38	2.0	37	92	2	123	34	12	21	32	1.90
34879653--34879722	26	2.6	26	78	13	70	21	21	18	38	1.93
34879645--34879729	26	3.2	26	71	17	68	21	22	17	38	1.93
34881340--34881367	7	4.0	7	100	0	56	57	0	28	14	1.38
34885724--34885749	6	4.3	6	100	0	52	0	30	0	69	0.89
34890860--34890938	31	2.6	30	84	6	88	48	6	5	40	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34891705--34891746	9	4.8	9	80	13	52	35	0	2	61	1.09
34892483--34892573	21	4.4	21	68	9	62	37	1	3	58	1.22
34892522--34892563	9	4.8	9	80	13	52	35	0	2	61	1.09
34891697--34893377	817	2.1	817	100	0	3362	37	8	13	40	1.76
34893300--34893349	21	2.4	21	72	0	55	38	2	2	58	1.21
34893339--34893376	9	4.2	9	83	9	51	31	0	2	65	1.06
34898096--34898166	36	2.0	35	97	0	124	23	16	26	30	1.96
34901726--34901770	14	3.0	15	79	20	58	44	4	0	51	1.21
34901730--34901770	16	2.8	14	82	13	55	43	4	0	51	1.23
34903793--34903894	38	2.7	38	75	6	107	27	27	25	19	1.99
34908254--34908704	221	2.0	221	91	0	724	29	6	22	41	1.79
34910239--34910359	43	2.8	43	74	6	120	33	25	14	25	1.94
34910633--34910663	16	1.9	16	100	0	62	54	6	6	32	1.51
34918502--34918542	20	2.1	20	86	4	57	87	2	4	4	0.72
34925532--34926645	139	8.0	139	98	0	2120	27	10	15	47	1.77
34935799--34935868	26	2.7	26	80	12	83	32	5	0	61	1.20
34935941--34935986	24	1.9	24	81	0	56	28	4	2	65	1.23
34935997--34936051	25	2.2	25	80	3	67	27	3	9	60	1.44
34937653--34937700	15	3.5	15	72	21	59	33	2	12	52	1.51
34937650--34937701	26	2.0	26	100	0	104	30	3	11	53	1.54
34938433--34938494	24	2.6	24	92	0	97	24	17	32	25	1.97
34942585--34942693	15	7.5	15	74	24	92	28	6	0	64	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34942583--34942738	44	3.6	43	78	13	144	28	6	0	64	1.23
34942571--34942693	29	4.2	30	72	10	110	28	6	1	63	1.29
34943499--34943536	14	2.9	13	81	11	51	57	10	13	18	1.63
34943807--34943836	15	2.0	15	100	0	60	26	26	6	40	1.81
34947465--34947599	30	4.8	30	69	22	96	25	5	44	25	1.74
34947532--34947571	20	2.0	20	95	0	71	20	7	45	27	1.78
34947501--34947601	50	2.0	50	100	0	202	23	5	44	25	1.76
34947590--34947678	30	3.0	30	96	0	160	20	3	47	29	1.66
34947560--34947678	60	2.0	60	86	3	168	21	3	46	28	1.67
34947460--34947661	110	1.8	110	84	6	275	23	4	45	26	1.72
34948544--34948591	15	3.3	15	82	5	53	64	6	12	16	1.46
34948555--34949021	89	5.2	89	90	1	713	35	18	17	27	1.94
34948555--34949097	268	2.1	252	86	6	737	34	18	17	28	1.94
34948567--34949097	179	3.1	177	88	6	750	34	19	17	28	1.95
34948922--34948948	14	1.9	14	100	0	54	62	0	14	22	1.31
34948928--34949379	76	6.0	75	85	5	534	33	18	16	32	1.93
34948928--34949398	151	3.1	149	84	4	549	34	17	16	31	1.92
34949348--34949453	54	1.9	55	83	5	135	39	19	13	27	1.89
34949433--34949466	13	2.5	13	90	4	50	58	8	11	20	1.59
34949488--34949593	54	1.9	54	81	9	126	38	18	14	28	1.90
34949584--34949608	13	1.9	13	100	0	50	64	0	12	24	1.27
34949304--34949651	140	2.5	140	94	2	590	37	19	16	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34949584--34949749	72	2.3	72	82	5	201	43	19	13	24	1.86
34949933--34950155	76	2.9	78	84	4	319	29	21	20	28	1.98
34950083--34950331	88	2.8	88	91	1	390	35	21	18	24	1.95
34950356--34950550	72	2.7	72	83	4	232	36	23	14	25	1.92
34951624--34951699	35	2.2	36	85	7	111	23	25	14	36	1.93
34959065--34959130	12	6.0	12	78	20	81	40	7	24	27	1.82
34959073--34959141	30	2.3	31	97	2	131	42	8	23	26	1.83
34959065--34959130	4	16.0	4	78	6	69	40	7	24	27	1.82
34961480--34961513	3	11.3	3	93	0	59	67	2	0	29	1.05
34961763--34961902	72	1.9	72	95	0	253	30	25	29	15	1.96
34962705--34962755	23	2.2	23	92	0	84	27	9	21	41	1.84
34968030--34968070	21	2.0	21	90	0	64	29	21	29	19	1.98
34969976--34970009	16	2.1	16	88	0	50	50	14	17	17	1.79
34974041--34974097	22	2.6	22	94	0	96	31	17	36	14	1.89
34976423--34976474	24	2.2	24	89	0	77	36	3	9	50	1.54
35002752--35002854	51	2.0	51	92	0	170	36	2	28	32	1.72
35004560--35004620	20	3.1	20	69	21	65	37	3	16	42	1.64
35009498--35009574	32	2.4	32	93	6	129	63	0	2	33	1.08
35009485--35009569	11	7.6	11	75	16	68	62	0	2	35	1.08
35010549--35010601	25	2.1	25	100	0	106	41	3	7	47	1.50
35018115--35018219	21	5.1	20	74	14	79	47	17	19	16	1.83
35018120--35018219	42	2.4	42	79	3	112	48	17	18	17	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35025233--35025259	13	2.1	13	100	0	54	77	0	22	0	0.76
35025813--35025866	3	18.0	3	88	0	81	31	3	1	62	1.23
35032002--35032233	44	5.3	44	64	10	123	24	30	24	20	1.99
35031988--35032926	88	10.6	88	86	3	1254	25	24	26	23	2.00
35032671--35032897	44	5.2	44	66	16	146	23	23	27	25	2.00
35031988--35032896	361	2.5	361	89	2	1365	25	24	26	23	2.00
35032612--35032751	44	3.2	44	65	11	115	26	21	27	25	1.99
35034326--35034380	21	2.6	21	91	0	92	29	3	3	63	1.28
35034326--35034380	3	18.3	3	84	0	74	29	3	3	63	1.28
35035822--35035854	15	2.1	16	88	5	50	27	3	0	69	1.03
35038253--35038304	24	2.2	24	89	0	77	34	3	7	53	1.48
35041223--35041263	22	1.9	21	85	5	55	63	12	0	24	1.28
35041498--35041545	18	2.8	18	81	6	55	58	2	2	37	1.22
35044169--35044231	22	2.9	22	87	0	99	12	11	50	25	1.73
35044624--35044713	44	2.0	44	95	0	162	35	23	14	26	1.93
35051358--35051384	13	2.1	13	100	0	54	48	29	0	22	1.51
35054651--35054697	24	2.0	24	91	4	78	63	17	2	17	1.40
35054955--35054988	5	6.8	5	100	0	68	82	0	17	0	0.67
35057138--35057230	29	3.2	29	86	1	116	29	11	30	29	1.92
35057166--35057242	29	2.7	29	87	2	111	27	10	32	29	1.90
35057162--35057255	29	3.3	28	83	4	107	27	12	31	27	1.93
35065093--35065126	17	2.1	15	89	10	50	79	8	0	11	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35067962--35068037	24	3.2	24	78	0	89	34	18	17	30	1.94
35067937--35068037	48	2.1	48	84	0	130	34	17	16	30	1.93
35081447--35081485	18	2.2	19	90	9	64	15	48	25	10	1.76
35086574--35086606	14	2.3	15	94	5	59	48	3	18	30	1.63
35086752--35086907	41	3.7	42	81	4	170	25	17	27	28	1.98
35090566--35090719	42	3.7	41	76	10	150	27	27	16	28	1.97
35090743--35090769	14	1.9	14	100	0	54	22	14	14	48	1.81
35094104--35094153	25	2.1	24	82	14	59	50	22	6	22	1.70
35097570--35097633	33	1.9	33	81	6	76	26	23	20	29	1.99
35098954--35099001	24	2.0	24	100	0	96	33	12	29	25	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   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   280   281   282   283   284