genome.fa.s25.2.7.7.80.10.50.1000.142.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   285   286   287   288   
          289   290   291   292   293   294   295   296   297   

This is table  142  of  297  ( 35593 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)
48904701--48904789	20	4.7	19	75	13	76	68	3	3	24	1.20
48907795--48908012	40	5.5	40	91	4	336	23	23	27	24	2.00
48923571--48923654	26	3.2	26	98	0	159	32	4	26	36	1.77
48929948--48930055	26	4.2	26	93	0	189	32	7	24	36	1.83
48935993--48937293	650	2.0	650	99	0	2548	31	18	23	26	1.98
48939830--48940320	44	11.2	44	89	0	725	31	15	28	24	1.95
48939830--48940320	132	3.7	132	91	0	806	31	15	28	24	1.95
48948756--48948800	22	2.0	22	95	0	81	22	11	33	33	1.89
48953907--48953966	30	2.0	30	100	0	120	26	26	20	26	1.99
48954379--48954408	10	3.0	10	90	0	51	30	23	0	46	1.52
48955984--48956049	19	3.2	21	87	6	64	36	19	9	34	1.84
48956001--48956098	19	5.2	19	90	7	155	35	16	9	38	1.80
48956001--48956098	36	2.6	37	88	9	144	35	16	9	38	1.80
48956436--48956527	44	2.0	45	83	8	116	27	23	13	35	1.92
48956791--48957403	84	7.3	84	86	4	801	25	20	23	30	1.98
48957045--48957270	41	5.4	41	68	20	144	25	21	22	30	1.98
48957213--48957350	41	3.3	41	66	15	111	24	21	24	29	1.99
48958352--48958422	7	9.9	7	78	15	58	2	15	0	81	0.80
48958351--48958423	8	9.9	8	74	14	50	2	15	0	82	0.79
48962375--48962401	14	1.9	14	100	0	54	51	0	7	40	1.30
48964510--48964650	40	3.5	40	85	5	196	24	24	26	23	2.00
48966311--48966353	21	2.0	21	100	0	86	27	23	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48971797--48971857	30	2.0	30	83	0	77	31	22	8	37	1.84
48980399--48980555	79	2.0	79	93	0	269	19	26	14	39	1.90
48980478--48980762	143	2.0	143	92	0	480	23	26	16	32	1.96
48983969--48984153	40	4.7	40	81	5	178	27	28	20	24	1.99
48983936--48984153	40	5.5	39	77	7	165	25	27	20	25	1.99
48989299--48989690	208	1.9	207	90	0	631	31	19	23	25	1.98
48989602--48989896	78	3.8	78	85	3	405	31	18	24	25	1.98
48989910--48990109	45	4.5	45	87	1	267	33	15	28	24	1.95
48989910--48990109	89	2.2	90	88	3	305	33	15	28	24	1.95
48990428--48990518	19	4.9	19	89	8	152	36	10	16	36	1.84
48990428--48990518	35	2.5	37	89	8	141	36	10	16	36	1.84
48996985--48997178	43	4.6	43	79	8	202	29	26	14	28	1.96
49005222--49005282	28	2.2	28	85	5	88	31	29	13	26	1.93
49012097--49012128	16	2.0	16	100	0	64	37	18	6	37	1.76
49012840--49012894	28	2.0	28	85	7	76	32	25	12	29	1.93
49022083--49022248	46	3.6	45	86	4	199	19	21	13	46	1.83
49025399--49025482	41	2.0	42	81	11	100	30	9	4	54	1.53
49029600--49029758	43	3.7	42	74	9	142	26	16	24	32	1.97
49029602--49029771	85	2.0	86	82	3	209	26	15	24	33	1.95
49037425--49037449	10	2.5	10	100	0	50	8	0	8	84	0.79
49038484--49038523	16	2.4	16	83	4	53	72	10	7	10	1.28
49043339--49043420	39	2.1	40	90	2	130	30	18	20	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49043394--49043494	40	2.5	40	88	3	150	23	18	27	29	1.98
49046676--49046739	33	2.0	33	87	3	94	34	20	23	21	1.97
49050478--49050741	40	6.7	40	89	5	360	25	27	21	25	1.99
49054522--49054561	20	2.0	20	100	0	80	40	30	15	15	1.87
49067168--49067275	27	3.9	28	83	7	130	26	30	16	25	1.97
49067347--49067382	18	1.9	19	88	5	56	22	38	16	22	1.93
49067491--49067533	8	5.4	8	78	10	52	6	20	20	51	1.71
49067491--49067533	16	2.7	16	88	0	68	6	20	20	51	1.71
49068601--49068637	16	2.2	17	90	4	58	10	5	32	51	1.60
49070613--49070638	3	8.7	3	100	0	52	65	0	0	34	0.93
49075640--49075758	29	4.2	29	77	2	116	27	26	15	30	1.96
49075974--49076008	16	2.2	16	94	0	61	5	20	22	51	1.68
49079796--49079944	41	3.6	41	73	18	139	25	18	25	30	1.98
49084871--49085125	55	4.8	54	78	9	215	20	25	18	34	1.96
49084918--49085118	108	1.8	109	87	6	300	21	26	18	32	1.97
49090111--49090137	13	2.1	13	100	0	54	29	0	22	48	1.51
49102500--49102583	34	2.4	35	84	4	107	27	23	27	21	1.99
49105527--49106380	27	31.6	27	98	0	1638	29	29	14	25	1.95
49107089--49107490	201	2.0	200	98	0	768	32	28	10	28	1.90
49116481--49116521	19	2.2	19	91	8	66	9	31	0	58	1.31
49123172--49123329	43	3.7	43	73	9	119	25	24	21	28	1.99
49127478--49127506	14	2.1	14	100	0	58	27	13	13	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49129070--49129433	174	2.1	174	88	0	539	19	25	28	26	1.99
49140926--49141047	43	2.9	40	76	13	129	26	18	23	31	1.98
49145097--49145145	20	2.7	18	77	22	57	51	4	2	42	1.32
49155365--49155397	15	2.2	15	100	0	66	15	6	0	78	0.93
49158301--49158442	67	2.1	67	85	5	185	32	21	27	19	1.97
49158372--49158423	27	2.0	27	84	3	70	34	21	26	17	1.95
49159021--49159074	27	2.0	27	85	3	74	35	20	22	22	1.96
49159076--49159221	27	5.4	27	86	1	175	26	19	17	36	1.94
49159076--49159217	55	2.6	54	84	2	176	26	18	18	36	1.94
49161434--49161557	40	3.1	40	89	2	169	25	29	23	22	1.99
49172389--49172449	30	2.0	30	93	0	104	24	27	4	42	1.75
49173047--49173132	43	2.0	43	97	2	165	30	16	11	41	1.83
49177397--49177508	40	2.8	40	97	0	206	23	25	29	21	1.99
49183108--49183470	49	7.7	48	75	11	229	25	28	19	26	1.99
49183346--49183478	46	2.9	45	85	9	173	24	29	19	27	1.98
49184761--49185702	35	26.9	35	98	0	1742	36	23	11	28	1.90
49192668--49192706	20	2.0	20	90	5	62	38	12	10	38	1.78
49194483--49194525	22	1.9	23	85	4	61	25	4	20	48	1.69
49194898--49194941	22	2.0	22	95	0	79	36	20	6	36	1.79
49195772--49195873	27	3.8	27	80	2	116	37	16	25	20	1.93
49195770--49195919	54	2.8	53	82	6	160	37	17	26	19	1.93
49199959--49199996	6	6.3	6	100	0	76	84	0	0	15	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49205422--49205454	13	2.6	13	90	4	50	51	15	0	33	1.43
49209229--49209296	33	2.1	33	97	0	127	35	26	2	35	1.72
49209795--49209836	22	1.9	22	90	9	68	45	14	2	38	1.58
49219147--49219330	40	4.6	40	83	6	196	24	21	26	27	1.99
49219147--49219327	80	2.3	81	83	9	221	24	21	27	27	1.99
49219148--49219367	40	5.6	38	78	10	165	25	21	26	26	1.99
49223735--49223783	8	6.2	8	79	13	57	2	20	0	77	0.87
49223743--49223778	17	2.1	17	89	0	54	2	16	0	80	0.83
49223728--49223783	25	2.2	24	79	14	60	3	21	0	75	0.96
49224129--49224158	6	5.0	6	100	0	60	50	0	33	16	1.46
49236835--49237707	47	18.6	47	98	0	1674	25	30	8	35	1.86
49247188--49247334	64	2.2	66	81	8	163	32	16	29	21	1.95
49247212--49247395	67	2.8	64	76	8	185	28	16	30	23	1.96
49251571--49251746	67	2.6	66	81	7	178	31	15	30	22	1.95
49251595--49251779	67	2.9	64	77	8	196	29	15	30	24	1.96
49260557--49260613	27	2.0	27	83	6	69	43	12	8	35	1.73
49261795--49261979	40	4.6	40	89	1	282	23	22	28	25	1.99
49276563--49276603	18	2.3	18	95	4	75	26	12	26	34	1.92
49280722--49280764	21	2.0	22	82	13	54	39	2	6	51	1.42
49282959--49283118	85	1.9	85	94	0	284	33	24	10	31	1.89
49286771--49286934	42	3.9	42	80	3	195	30	26	17	26	1.97
49288746--49288921	46	3.8	46	79	12	216	20	21	29	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49288743--49288914	93	1.8	93	96	0	317	20	21	29	27	1.98
49296329--49296500	46	3.7	46	92	0	272	20	20	27	30	1.98
49297616--49297716	50	2.0	50	100	0	202	29	13	20	35	1.92
49301053--49301209	42	3.7	43	72	13	128	31	26	17	23	1.97
49304115--49304146	15	2.1	15	100	0	64	31	28	6	34	1.82
49315309--49315411	37	2.8	37	95	0	179	25	32	19	23	1.98
49315552--49316430	48	18.3	48	99	0	1704	29	29	7	33	1.85
49323171--49323207	13	2.8	13	100	0	74	8	29	45	16	1.76
49323563--49323605	20	2.2	20	100	0	86	13	11	13	60	1.59
49327727--49327884	42	3.7	43	78	8	153	23	18	30	27	1.98

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   285   286   287   288   
          289   290   291   292   293   294   295   296   297