genome.fa.s9.2.7.7.80.10.50.1000.127.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  127  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)
42422007--42422092	28	3.0	28	86	3	118	29	13	29	27	1.95
42431242--42431363	45	2.7	43	77	13	120	31	22	22	22	1.98
42431242--42431372	23	5.8	23	70	16	78	31	22	23	22	1.99
42440312--42440365	20	2.7	20	100	0	108	14	27	35	22	1.93
42440841--42440944	52	2.0	52	94	0	181	35	28	4	30	1.78
42445486--42445510	9	2.8	9	100	0	50	52	0	12	36	1.39
42446619--42446794	46	3.8	46	75	16	166	20	18	29	31	1.97
42446615--42446785	93	1.8	93	89	2	272	21	18	29	30	1.97
42448713--42448867	42	3.7	42	78	15	151	34	25	16	23	1.95
42463841--42463900	27	2.3	26	85	2	75	18	25	20	36	1.94
42465550--42465629	15	5.4	15	72	12	67	11	15	12	61	1.57
42465545--42465629	45	1.9	44	83	7	109	10	14	15	60	1.60
42468015--42468187	46	3.7	46	76	10	172	19	18	30	31	1.96
42468008--42468180	93	1.9	93	91	0	283	19	19	30	30	1.97
42477891--42477951	31	2.0	30	86	0	77	18	31	18	31	1.94
42484350--42484844	248	2.0	248	98	0	963	32	21	22	23	1.98
42495069--42495369	46	6.5	46	84	1	336	40	13	23	21	1.89
42495159--42495230	21	3.2	21	67	14	63	38	9	23	27	1.86
42500460--42500501	20	2.0	22	86	9	61	61	2	14	21	1.43
42501264--42501340	38	2.0	38	92	5	129	20	14	28	36	1.92
42502929--42503057	66	2.0	66	95	0	231	32	20	16	30	1.95
42503033--42503210	27	6.6	27	84	3	205	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42503054--42503209	82	1.9	81	88	3	233	29	28	15	26	1.96
42510863--42511041	90	2.0	90	98	0	349	36	18	11	33	1.87
42510994--42511223	27	8.5	27	88	0	325	28	20	8	42	1.81
42510994--42511223	81	2.8	81	91	0	361	28	20	8	42	1.81
42511227--42511427	27	7.6	27	79	5	178	41	21	8	28	1.82
42511420--42511745	27	12.0	27	82	1	355	36	17	19	26	1.94
42511439--42511745	111	2.8	108	83	4	393	36	17	19	26	1.94
42511949--42512017	25	2.8	25	84	0	84	26	26	23	24	2.00
42511958--42512044	25	3.5	24	78	12	70	26	25	21	26	2.00
42512238--42512347	31	3.8	30	79	12	122	30	17	24	27	1.97
42512245--42512338	27	3.2	28	82	11	109	28	18	24	28	1.98
42514658--42514850	27	7.1	27	86	0	242	27	21	9	41	1.84
42514658--42514853	54	3.6	54	86	0	284	27	21	9	41	1.84
42514658--42515205	81	6.9	81	68	16	306	28	19	11	40	1.87
42514970--42515205	27	8.7	27	85	2	296	28	20	9	41	1.84
42514544--42515167	312	2.0	312	99	0	1221	28	19	13	38	1.89
42514945--42515236	81	3.6	81	78	1	194	30	20	9	39	1.85
42515199--42515480	27	10.7	27	74	8	172	41	19	9	29	1.84
42515193--42515374	54	3.4	54	78	6	201	41	20	9	29	1.83
42515193--42515479	54	5.4	54	75	8	200	41	19	10	29	1.84
42515352--42515478	26	4.8	26	71	12	107	41	14	11	31	1.83
42515334--42515510	78	2.2	79	89	3	266	40	17	12	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42515473--42515738	53	5.0	53	84	4	293	35	16	19	27	1.94
42515473--42515739	27	10.0	26	81	8	250	35	17	19	27	1.94
42515473--42515740	80	3.3	79	83	4	288	35	17	19	27	1.94
42515806--42515989	92	2.0	92	97	0	350	26	10	25	37	1.88
42515842--42515980	45	3.0	45	63	29	112	28	11	24	35	1.90
42516034--42516128	25	3.8	25	87	0	118	27	26	22	24	2.00
42518567--42518830	27	9.8	27	86	0	332	28	21	8	41	1.82
42518818--42518997	27	6.8	27	78	6	152	40	21	8	30	1.83
42518850--42519028	54	3.4	54	77	7	147	39	22	10	28	1.86
42519016--42519285	27	10.0	27	85	0	308	34	20	18	26	1.96
42519488--42519582	25	3.8	25	92	0	145	28	25	23	23	1.99
42520702--42520851	75	2.0	75	94	0	264	36	12	16	34	1.87
42522100--42522364	27	9.8	27	87	0	341	29	20	7	42	1.79
42522343--42522506	27	6.1	27	77	7	118	40	18	9	31	1.82
42522529--42522713	54	3.4	54	87	0	253	36	18	20	24	1.94
42522516--42522715	81	2.5	81	81	2	206	38	18	19	24	1.93
42522525--42522689	27	6.1	27	85	0	213	37	19	19	23	1.94
42522917--42522987	25	2.8	25	82	6	81	30	21	21	26	1.98
42522942--42522999	25	2.4	24	88	11	91	31	18	20	29	1.97
42523207--42523288	30	2.7	30	94	3	139	30	15	26	26	1.96
42538334--42538426	6	15.2	6	76	12	82	76	0	3	20	0.93
42538351--42538431	5	15.8	5	80	18	53	75	0	2	22	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42538370--42538408	9	4.3	9	87	12	53	71	0	0	28	0.86
42538373--42538405	14	2.4	14	94	0	57	66	0	0	33	0.92
42545711--42545770	28	2.2	26	77	11	66	26	26	11	35	1.91
42545718--42545796	28	2.8	28	84	0	104	29	24	11	35	1.90
42551696--42551728	10	3.4	10	87	4	50	75	0	9	15	1.03
42560205--42560349	40	3.6	40	85	4	184	23	26	24	26	2.00
42568418--42568494	40	1.9	40	94	0	136	25	20	16	36	1.94
42571279--42571377	6	18.2	5	79	15	76	75	1	4	19	1.01
42571279--42571365	6	14.3	6	77	10	79	75	1	4	18	1.03
42571279--42571375	11	8.8	11	73	17	78	76	1	4	18	1.01
42571320--42571369	26	2.0	25	92	4	82	80	0	4	16	0.87
42571320--42571374	9	5.9	9	75	21	51	80	0	3	16	0.86
42579427--42579484	28	2.1	28	100	0	116	32	0	20	46	1.51
42579431--42579492	28	2.2	28	94	0	106	35	0	22	41	1.54
42586686--42586735	25	2.0	25	100	0	100	20	36	12	32	1.89
42588699--42588865	27	6.3	27	76	6	126	29	26	15	28	1.96
42590486--42590752	46	5.8	47	76	11	207	23	28	19	29	1.98
42595663--42595695	13	2.6	13	90	4	50	48	12	0	39	1.40
42598430--42598468	19	2.1	19	90	0	60	38	10	2	48	1.51
42600634--42600670	10	3.8	10	89	3	58	75	0	8	16	1.02
42600639--42600673	15	2.4	14	86	9	52	74	0	5	20	1.02
42606741--42606797	30	1.9	30	85	0	78	42	5	24	28	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42631238--42631285	25	1.9	25	82	0	60	33	22	14	29	1.94
42631418--42631489	26	2.8	25	81	10	74	26	20	23	29	1.99
42631443--42631496	26	2.1	25	86	10	74	31	16	20	31	1.95
42631428--42631502	26	2.9	26	75	16	68	26	21	22	29	1.99
42631705--42631806	31	3.3	31	88	1	152	36	13	23	26	1.92
42644304--42644527	40	5.6	40	91	1	308	24	20	28	26	1.99
42644265--42644527	80	3.3	80	85	3	318	23	20	28	26	1.99
42644265--42644527	120	2.2	120	82	4	318	23	20	28	26	1.99
42646649--42646804	43	3.6	43	72	7	129	28	23	21	26	1.99
42646649--42646783	43	3.1	43	79	5	130	28	23	21	25	1.99
42658746--42659113	130	2.8	131	81	5	397	26	19	18	35	1.95
42660272--42660348	40	1.9	40	89	0	118	36	15	24	23	1.94
42660422--42660484	31	2.0	31	96	0	117	25	22	20	31	1.98
42670978--42671359	132	2.9	129	82	4	401	28	19	18	34	1.95
42673224--42673269	15	3.1	15	87	9	67	17	13	15	54	1.71
42682784--42682953	43	4.0	43	78	7	186	22	16	28	32	1.96
42687113--42687191	25	3.3	25	64	16	67	32	5	29	32	1.79
42687097--42687478	47	8.1	47	91	1	602	32	8	29	29	1.86
42687097--42687478	143	2.7	141	92	0	602	32	8	29	29	1.86
42694311--42694421	58	1.9	58	87	1	161	27	29	16	27	1.97
42694322--42694421	29	3.5	29	87	4	132	27	30	17	26	1.97
42696828--42697131	42	7.3	42	83	3	371	22	17	22	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42697869--42698488	144	4.2	148	84	8	691	43	5	8	42	1.60
42702622--42702690	30	2.3	30	92	0	111	26	28	11	33	1.91
42702680--42702758	29	2.7	30	75	11	90	17	22	11	48	1.79
42702799--42702865	29	2.3	29	89	2	98	17	26	11	43	1.84
42702622--42702879	119	2.2	119	86	2	349	22	25	12	39	1.90
42702680--42702865	30	6.3	29	73	9	117	19	25	12	42	1.86
42702813--42702876	29	2.2	28	81	8	74	20	25	12	42	1.87
42702622--42702931	119	2.6	119	83	2	345	23	24	12	39	1.89
42705514--42705584	34	2.1	33	85	12	92	22	23	26	26	2.00
42707484--42707541	19	3.2	19	68	22	61	36	1	10	51	1.46

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