genome.fa.s12.2.7.7.80.10.50.1000.16.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  16  of  276  ( 33102 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)
4815028--4815135	26	3.9	27	74	12	87	25	0	5	67	1.18
4815030--4815097	35	1.9	35	82	11	86	26	0	5	67	1.13
4817625--4817967	27	12.6	27	77	7	268	39	20	9	30	1.84
4817645--4817984	54	6.3	54	77	7	312	39	19	9	31	1.84
4817651--4817969	81	3.9	81	78	7	315	39	20	9	30	1.85
4817678--4818010	109	3.1	107	82	3	339	39	20	8	31	1.83
4817651--4817966	163	1.9	163	86	2	447	39	19	9	30	1.84
4817651--4818021	82	4.6	80	77	7	302	39	20	8	31	1.83
4817616--4817986	136	2.7	133	80	6	431	39	19	9	31	1.84
4817877--4818021	27	5.3	26	70	11	78	40	21	6	31	1.80
4818006--4818145	27	5.2	27	88	3	201	35	17	19	27	1.95
4817837--4818048	109	2.0	108	81	8	252	38	21	9	30	1.85
4817870--4818103	54	4.3	54	75	12	151	38	21	11	29	1.88
4818366--4818460	25	3.8	25	91	0	154	26	25	22	26	2.00
4818366--4818487	25	5.0	23	81	9	100	27	23	22	26	1.99
4820636--4820957	27	11.9	26	82	3	293	38	20	10	30	1.86
4820641--4820975	81	4.1	80	79	6	345	39	21	10	29	1.86
4820609--4820999	54	7.2	54	75	10	203	38	20	9	30	1.85
4820866--4821010	27	5.3	26	77	11	114	38	22	8	30	1.84
4820995--4821137	27	5.3	27	89	3	216	34	16	18	29	1.94
4821354--4821423	25	2.8	25	97	0	131	25	27	22	24	2.00
4821352--4821436	25	3.5	24	88	4	109	28	24	22	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4821354--4821448	50	1.9	50	82	8	122	27	25	23	24	2.00
4825267--4825420	43	3.6	43	78	5	159	33	24	12	30	1.92
4830372--4830539	46	3.6	45	78	9	160	23	27	19	29	1.98
4850730--4850790	24	2.6	23	76	2	59	21	21	18	39	1.93
4850780--4850832	24	2.2	24	89	0	79	16	16	18	47	1.83
4850819--4850862	23	2.0	22	86	4	61	18	22	18	40	1.91
4855215--4855245	16	1.9	16	93	0	53	35	9	0	54	1.33
4864415--4864482	35	1.9	35	88	5	102	23	22	23	30	1.99
4867829--4867984	68	2.2	68	78	11	156	21	28	16	34	1.94
4879031--4879099	33	2.1	33	97	0	129	30	8	34	26	1.86
4880582--4880615	18	1.9	18	94	5	61	26	17	5	50	1.69
4882781--4884246	799	1.8	799	93	0	2531	34	16	13	36	1.87
4884160--4884334	88	2.0	88	90	1	280	29	20	14	36	1.91
4884748--4884881	67	2.0	67	98	0	259	20	17	24	37	1.94
4884815--4887773	759	3.9	759	91	0	4816	33	14	13	37	1.86
4888463--4888575	31	3.7	30	82	5	131	26	23	18	31	1.97
4888781--4888865	26	3.4	25	87	9	120	27	23	20	29	1.99
4889669--4889746	26	2.9	27	86	7	106	20	23	23	33	1.97
4889668--4889754	27	3.3	27	87	6	124	19	22	20	36	1.95
4889696--4889763	26	2.6	26	86	6	93	19	22	23	35	1.96
4889896--4890131	81	2.9	81	87	4	334	29	8	20	42	1.80
4889899--4890131	27	8.7	27	81	4	247	29	8	20	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4889899--4890265	54	6.8	54	77	4	258	32	8	19	38	1.82
4890134--4890226	27	3.4	27	92	0	150	45	9	19	25	1.81
4890059--4890237	27	6.6	27	82	3	119	35	7	20	36	1.81
4891918--4892031	60	1.9	60	98	0	219	34	20	10	35	1.87
4908163--4908209	21	2.2	22	96	3	87	29	12	12	44	1.80
4909064--4909112	23	2.1	23	100	0	98	20	32	0	46	1.51
4911937--4911984	19	2.6	19	93	3	80	35	0	14	50	1.44
4912001--4912089	42	2.1	42	91	0	142	28	6	14	50	1.68
4914383--4914456	37	2.0	37	97	0	139	36	10	31	21	1.88
4915870--4915917	19	2.6	19	86	3	71	35	2	14	47	1.56
4915934--4916020	42	2.1	42	88	0	129	29	5	13	50	1.65
4919557--4919646	44	2.0	44	95	0	162	34	17	11	36	1.86
4923225--4923317	47	2.0	46	95	2	168	33	6	27	32	1.82
4933432--4933628	50	3.9	50	77	2	198	30	10	17	41	1.83
4933432--4933641	100	2.1	100	83	3	253	31	11	16	40	1.84
4937149--4937174	2	13.0	2	100	0	52	50	0	0	50	1.00
4942638--4942753	46	2.6	43	83	9	135	26	18	30	25	1.98
4943781--4943906	40	3.2	40	87	2	182	23	21	39	15	1.91
4945296--4945350	7	7.7	7	91	4	92	45	41	0	12	1.42
4945302--4945353	22	2.4	22	93	0	86	46	40	0	13	1.43
4968746--4969065	46	6.8	49	75	13	244	25	17	31	25	1.97
4968747--4969067	47	6.8	48	72	14	192	25	17	31	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4973477--4973516	21	2.0	21	90	5	64	10	42	27	20	1.83
4976649--4976770	60	2.0	60	98	0	235	45	27	7	19	1.77
4978148--4978186	12	3.2	12	81	0	51	23	46	25	5	1.73
4979438--4979489	26	2.0	26	100	0	104	15	23	19	42	1.89
4982876--4983234	47	7.6	47	70	13	208	26	19	30	23	1.98
4982876--4983234	46	7.6	48	72	14	197	26	19	30	23	1.98
4982876--4983133	140	1.8	139	81	6	315	27	18	31	22	1.98
4987439--4987592	42	3.6	42	85	3	202	29	15	25	29	1.96
4999805--4999861	30	1.9	30	82	7	71	42	5	28	24	1.76
5000331--5000446	43	2.7	42	91	1	187	25	12	25	36	1.92
5005918--5006954	39	26.5	39	97	0	1905	18	22	30	28	1.97
5012460--5012715	39	6.5	39	92	1	388	18	23	28	30	1.97
5012823--5012947	63	2.0	63	98	0	241	32	8	16	42	1.78
5034159--5034500	172	2.0	172	83	3	438	36	20	18	25	1.95
5036929--5037053	55	2.3	55	87	2	171	31	28	13	26	1.94
5036929--5037053	28	4.6	27	89	2	169	31	28	13	26	1.94
5036929--5037078	55	2.7	56	84	3	151	31	29	13	26	1.94
5043389--5043609	40	5.6	40	84	3	223	25	28	21	24	1.99
5043541--5043618	40	1.9	41	82	10	97	26	28	21	23	1.99
5044030--5044298	133	2.0	133	99	0	529	30	26	11	31	1.91
5049003--5049157	78	2.0	78	97	0	292	21	30	24	23	1.99
5051743--5051963	40	5.6	40	84	3	223	25	28	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5051895--5051972	40	1.9	41	82	10	97	26	28	21	23	1.99
5059694--5059865	40	4.3	40	88	2	204	26	27	20	25	1.99
5059696--5059918	40	5.6	39	82	5	198	26	27	20	25	1.99
5062018--5062429	205	2.0	205	100	0	824	37	9	17	35	1.82
5062858--5063121	50	5.3	50	80	5	221	29	9	21	40	1.84
5065795--5065920	40	3.2	40	89	3	184	26	26	23	23	2.00
5067295--5067320	13	2.0	13	100	0	52	61	7	0	30	1.24
5067751--5067799	21	2.3	21	82	0	62	14	32	28	24	1.94
5073517--5073605	27	3.3	25	73	16	72	29	20	7	42	1.80
5073637--5073722	27	3.2	25	77	12	82	43	18	8	30	1.79
5073838--5073915	27	2.9	27	77	11	88	38	21	19	20	1.94
5074726--5074795	25	2.8	26	89	4	99	25	25	24	24	2.00
5074725--5074806	25	3.3	25	81	3	76	31	21	23	23	1.98
5074943--5075034	42	2.2	42	90	0	139	30	13	21	34	1.91
5075058--5075203	31	4.7	31	93	0	240	30	17	23	27	1.97
5080147--5080319	46	3.7	46	80	10	217	21	20	27	30	1.98
5080144--5080314	93	1.8	93	94	0	306	21	20	28	29	1.98
5080544--5080581	19	2.0	20	85	15	53	36	0	23	39	1.55
5088511--5088569	16	3.8	16	76	8	50	45	5	18	30	1.71
5089289--5089318	14	2.1	14	100	0	60	23	20	36	20	1.95
5091746--5091970	49	4.5	49	82	3	279	29	26	18	25	1.98
5091746--5091977	101	2.3	98	84	4	295	29	26	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5095104--5095161	10	5.6	10	76	11	55	34	10	20	34	1.87
5095104--5095177	21	3.5	20	80	5	76	33	12	18	35	1.88
5095209--5095266	24	2.4	24	80	11	64	36	24	17	22	1.95
5098427--5098461	13	2.8	12	87	8	52	54	0	40	5	1.24
5102770--5102884	29	4.0	29	73	1	97	25	30	14	29	1.95
5104557--5104596	18	2.2	18	90	0	62	30	47	10	12	1.74
5106158--5106206	26	2.0	26	88	8	75	53	4	10	32	1.54
5108474--5108625	43	3.5	42	79	8	148	32	28	18	20	1.96
5108466--5108628	42	3.8	44	75	12	149	33	28	17	20	1.95
5116609--5116692	24	3.4	25	85	6	118	27	17	23	30	1.97

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