genome.fa.s9.2.7.7.80.10.50.1000.91.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  91  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)
30055514--30055598	39	2.2	39	95	0	152	12	24	23	38	1.90
30056065--30056090	12	2.2	12	100	0	52	46	15	7	30	1.74
30060517--30060778	46	5.7	45	78	7	251	27	20	29	22	1.99
30060517--30060778	94	2.8	91	83	3	312	27	20	29	22	1.99
30062351--30062390	20	2.0	20	100	0	80	35	5	30	30	1.79
30073399--30073481	43	2.0	42	92	4	141	19	21	31	27	1.97
30076866--30076935	18	3.9	17	76	12	61	78	5	11	4	1.06
30076919--30076957	20	1.9	20	89	5	60	71	2	25	0	0.98
30076982--30077006	8	3.1	8	100	0	50	36	12	12	40	1.79
30077858--30077936	37	2.1	38	83	2	97	22	16	21	39	1.92
30077847--30077966	40	3.0	40	75	8	138	23	17	22	36	1.94
30081185--30081228	18	2.4	19	85	11	56	34	4	2	59	1.30
30081186--30081254	27	2.5	28	86	9	90	34	5	1	57	1.31
30081212--30081261	18	2.8	18	77	19	59	36	4	0	60	1.16
30081212--30081270	9	6.6	9	79	16	52	35	3	1	59	1.24
30081313--30081355	15	2.8	16	89	7	70	20	0	6	72	1.08
30081344--30081395	21	2.5	20	78	3	59	26	1	3	67	1.18
30082502--30082542	19	2.1	19	86	4	55	21	19	2	56	1.54
30085743--30085893	42	3.6	42	76	1	131	27	21	15	35	1.94
30087337--30087389	24	2.2	24	83	6	63	18	13	39	28	1.88
30088539--30088664	39	3.2	39	88	0	180	27	27	20	23	1.99
30093225--30093447	47	4.8	44	72	16	148	20	29	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30098599--30098699	50	2.0	50	98	0	193	32	5	17	43	1.73
30099563--30099664	51	2.0	51	100	0	204	43	9	13	33	1.77
30104868--30105011	49	2.9	49	84	4	200	26	27	20	25	1.99
30104871--30105011	51	2.8	49	83	4	185	26	27	21	24	1.99
30115534--30115570	11	3.4	11	84	0	56	40	18	2	37	1.65
30118982--30119096	38	3.0	37	77	9	124	31	13	20	33	1.92
30119139--30119268	40	3.2	39	82	7	136	26	20	23	28	1.99
30119680--30119732	15	3.6	15	89	2	72	18	0	39	41	1.51
30119694--30119737	22	2.0	22	86	0	61	18	0	40	40	1.50
30119756--30119798	22	2.0	22	85	0	59	23	0	30	46	1.52
30119761--30119795	15	2.4	14	86	9	52	22	0	31	45	1.53
30119609--30119800	7	26.1	7	65	9	69	24	0	27	47	1.52
30119797--30119893	22	4.4	22	77	12	85	20	2	47	29	1.62
30119840--30119923	30	2.9	29	84	11	127	16	2	53	27	1.55
30119836--30119929	30	2.8	35	72	24	110	18	2	51	28	1.58
30119814--30119926	7	15.4	7	71	12	84	19	1	48	30	1.59
30119815--30119925	22	5.0	22	74	9	100	18	1	49	29	1.58
30120046--30120090	16	2.7	17	75	6	56	40	4	2	53	1.33
30122886--30122938	24	2.2	24	86	0	70	39	7	5	47	1.56
30123082--30124536	76	19.1	76	99	0	2847	23	22	25	27	2.00
30124586--30124660	20	3.8	20	91	6	111	34	18	9	37	1.83
30124586--30124641	11	5.5	11	71	16	57	32	19	10	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30124603--30124659	9	5.8	10	76	15	57	35	19	8	36	1.83
30126278--30126392	57	2.0	57	96	0	212	26	29	15	27	1.96
30126487--30126611	9	13.7	9	78	9	119	44	23	1	31	1.63
30129449--30129526	39	2.0	39	94	0	138	34	23	10	32	1.88
30131753--30131781	14	2.1	14	93	6	51	34	0	10	55	1.34
30132148--30132187	21	1.9	21	94	0	71	37	20	30	12	1.89
30132390--30132483	47	2.0	47	95	0	170	20	6	23	50	1.71
30137193--30137226	16	2.1	16	94	0	59	23	8	32	35	1.86
30143014--30143160	44	3.4	42	81	7	154	31	26	18	23	1.97
30149399--30149445	18	2.6	19	76	10	53	72	0	8	19	1.10
30158407--30158590	67	2.9	63	78	7	199	29	17	29	23	1.97
30166028--30166209	46	4.0	46	88	1	249	21	23	14	40	1.90
30167006--30167105	51	2.0	51	90	4	157	27	21	12	40	1.88
30168315--30168360	3	16.3	3	79	20	55	71	0	0	28	0.86
30168314--30168360	8	5.6	8	87	12	60	72	0	0	27	0.85
30168321--30168360	11	3.7	11	87	12	57	72	0	0	27	0.85
30172959--30173055	27	3.6	27	91	2	149	29	28	13	27	1.94
30180543--30180667	28	4.6	27	91	4	187	30	28	12	28	1.93
30180543--30180667	55	2.3	55	90	2	189	30	28	12	28	1.93
30180543--30180692	56	2.7	56	86	5	180	31	29	12	26	1.93
30186915--30186941	13	2.1	13	100	0	54	22	0	14	62	1.31
30188340--30188457	54	2.2	54	87	3	175	28	27	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30188365--30188453	27	3.3	26	68	12	72	29	26	14	29	1.95
30188529--30188584	22	2.5	22	82	2	67	30	30	16	23	1.96
30188950--30188983	16	2.1	16	100	0	68	26	11	5	55	1.58
30190479--30190601	22	5.4	21	73	15	86	21	21	17	38	1.93
30190526--30190606	22	3.6	22	83	3	108	23	20	19	35	1.96
30190470--30190604	45	3.0	45	83	8	134	22	21	18	37	1.94
30190478--30190606	67	1.9	69	81	9	158	22	21	17	37	1.94
30194015--30194055	6	6.7	6	83	5	55	46	17	19	17	1.85
30194126--30194150	12	2.1	12	100	0	50	40	20	24	16	1.91
30194038--30194148	45	2.5	45	82	2	125	42	17	18	22	1.89
30202814--30202843	15	1.9	16	93	6	53	0	30	0	70	0.88
30202878--30202961	13	6.9	13	71	21	58	15	7	2	75	1.13
30202896--30202946	21	2.4	22	83	6	68	19	5	0	74	1.02
30203238--30203335	3	33.7	3	68	13	53	56	7	0	36	1.27
30203294--30203335	20	2.2	19	87	12	59	57	4	0	38	1.20
30208467--30208517	11	4.9	11	76	13	54	37	9	17	35	1.83
30208562--30208628	25	2.7	25	88	0	98	25	28	22	23	1.99
30210002--30210067	33	2.0	33	93	0	114	24	19	19	36	1.95
30212185--30212228	6	7.2	6	79	5	52	47	15	15	20	1.82
30212185--30212233	18	2.6	19	74	6	55	44	16	16	22	1.86
30212208--30212307	45	2.2	45	80	7	114	42	17	17	24	1.89
30212533--30212608	40	1.9	40	83	0	98	36	13	13	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30218328--30218604	139	2.0	138	97	0	518	27	13	20	38	1.90
30219354--30219466	22	5.0	22	75	7	93	23	21	17	38	1.94
30227910--30227967	28	2.1	28	93	0	98	37	13	25	22	1.91
30235794--30235870	38	2.0	38	97	0	145	29	12	20	36	1.90
30239580--30239639	29	2.0	30	80	3	68	23	33	18	25	1.97
30240201--30240260	20	3.0	20	73	2	59	75	3	18	3	1.09
30240229--30240270	14	2.8	15	78	10	50	64	2	23	9	1.35
30241060--30241127	19	3.7	18	80	7	75	23	2	4	69	1.21
30241078--30241141	28	2.2	29	81	8	78	29	0	3	67	1.06
30241234--30241270	18	2.1	18	100	0	74	62	0	16	21	1.33
30241494--30241548	28	2.0	28	85	3	76	58	0	0	41	0.98
30242236--30242306	35	2.0	35	100	0	142	43	14	8	33	1.75
30245970--30246000	15	2.1	15	93	0	53	29	0	16	54	1.42
30246025--30246081	30	1.9	30	85	7	80	57	5	14	22	1.56
30246859--30247037	35	5.1	35	82	1	198	28	9	18	43	1.82
30261516--30261547	16	2.0	16	100	0	64	31	18	31	18	1.95
30264440--30264491	25	2.1	25	85	0	68	40	17	7	34	1.78
30266753--30266802	23	2.3	22	80	10	57	42	24	2	32	1.66
30283149--30283225	35	2.2	34	80	8	84	32	18	9	40	1.82
30283129--30283357	108	2.1	108	85	0	323	32	16	10	40	1.82
30283294--30283543	136	1.8	136	83	0	329	33	16	10	39	1.82
30283503--30283589	36	2.4	36	86	0	120	35	9	11	43	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30285058--30285124	5	13.0	5	77	22	68	19	1	0	79	0.82
30285061--30285121	6	10.5	6	75	19	58	18	1	0	80	0.80
30285058--30285120	16	4.1	15	92	6	101	19	1	0	79	0.82
30285058--30285121	26	2.5	26	82	14	87	18	1	0	79	0.81
30291905--30292239	166	2.0	166	94	1	591	42	5	19	32	1.75
30293986--30294151	83	2.0	83	85	0	224	30	12	22	34	1.91
30296671--30297125	47	9.7	47	71	12	155	28	18	29	23	1.98
30296670--30297072	47	8.7	45	68	13	203	28	18	30	23	1.98
30296770--30297076	91	3.3	91	76	8	366	28	17	30	23	1.97
30296673--30297122	187	2.4	185	90	2	704	28	18	29	23	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