genome.fa.s8.2.7.7.80.10.50.1000.135.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  135  of  279  ( 33431 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)
43599778--43599809	3	10.7	3	100	0	64	68	0	31	0	0.90
43612091--43612322	47	4.8	50	81	7	230	20	23	18	37	1.94
43612140--43612340	47	4.2	47	86	5	287	19	23	18	38	1.93
43612091--43612322	97	2.4	97	87	6	337	20	23	18	37	1.94
43612091--43612320	25	9.4	25	82	7	237	20	23	18	37	1.94
43613333--43613435	46	2.2	47	77	10	111	26	14	28	31	1.95
43620772--43620882	47	2.4	47	83	6	145	26	16	22	35	1.95
43631121--43631157	20	1.9	20	88	5	58	40	0	8	51	1.32
43633201--43634039	54	15.5	54	100	0	1678	27	18	22	31	1.97
43634073--43634345	46	6.0	46	89	1	352	39	15	24	20	1.91
43634171--43634241	21	3.2	21	64	24	56	38	14	25	22	1.92
43634073--43634345	91	3.0	92	87	2	361	39	15	24	20	1.91
43634073--43634345	137	2.0	137	85	1	368	39	15	24	20	1.91
43636515--43636752	131	1.8	132	82	0	307	28	20	16	33	1.95
43636632--43637126	131	3.8	131	74	5	383	26	21	17	34	1.95
43644319--43644355	18	2.1	18	100	0	74	27	16	5	51	1.66
43649480--43649509	15	1.9	16	93	6	53	53	6	20	20	1.67
43657067--43657104	17	2.1	19	90	9	62	0	23	0	76	0.79
43658460--43658621	42	3.7	43	82	9	168	29	27	14	29	1.95
43658528--43658711	49	3.8	49	81	10	193	30	27	13	28	1.94
43658543--43658711	47	3.6	46	83	3	185	30	27	14	27	1.95
43658733--43658881	31	4.8	31	93	0	235	24	28	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43658857--43659033	50	3.5	50	90	0	282	25	22	15	36	1.94
43662874--43662933	29	2.1	29	90	6	95	25	15	21	38	1.92
43671617--43671656	19	2.1	19	86	9	55	40	0	0	60	0.97
43674343--43674372	15	2.0	15	93	0	51	30	0	6	63	1.20
43675084--43675119	15	2.6	13	91	8	54	50	0	0	50	1.00
43674996--43675227	118	2.0	116	84	9	303	40	7	2	49	1.45
43680704--43680794	45	2.0	45	95	0	164	24	25	14	36	1.93
43681281--43681324	19	2.5	17	92	7	70	79	0	18	2	0.83
43681285--43681324	13	2.9	14	88	7	55	80	0	17	2	0.83
43695952--43695976	6	4.2	6	100	0	50	68	0	0	32	0.90
43710676--43710719	22	2.0	21	83	12	54	36	6	27	29	1.83
43711370--43711412	14	3.0	14	79	3	50	30	2	6	60	1.35
43719997--43720050	21	2.6	21	80	13	58	11	20	9	59	1.59
43722260--43722286	3	9.0	3	100	0	54	33	0	0	66	0.92
43726370--43726524	45	3.4	45	84	5	197	20	16	19	43	1.87
43726502--43726536	18	1.9	18	88	0	52	17	25	17	40	1.90
43733414--43733438	12	2.1	12	100	0	50	16	24	20	40	1.91
43733419--43733559	45	3.1	45	91	2	221	20	17	19	41	1.90
43741271--43741337	35	2.0	32	82	8	80	41	16	5	35	1.73
43744036--43744195	26	6.2	26	92	0	266	35	23	7	33	1.83
43744036--43744195	52	3.1	52	99	0	311	35	23	7	33	1.83
43746694--43746730	6	6.2	6	96	0	65	51	13	16	18	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43746765--43746804	6	6.7	6	88	0	62	50	15	17	17	1.79
43749227--43749260	6	5.7	6	92	0	59	70	11	0	17	1.16
43749227--43749266	18	2.2	18	86	0	53	75	10	0	15	1.05
43751538--43751594	19	2.9	18	80	19	62	49	7	0	43	1.29
43762518--43762614	39	2.5	39	86	0	131	38	22	23	15	1.92
43773812--43773871	28	2.2	26	80	11	75	26	25	11	36	1.90
43773819--43773878	28	2.1	28	93	0	102	30	23	10	36	1.87
43778599--43778896	57	5.2	57	90	0	452	28	34	18	17	1.94
43778654--43778865	29	7.4	29	71	3	178	28	36	17	16	1.93
43779651--43780532	46	19.2	46	96	0	1550	21	24	15	38	1.92
43780512--43780555	23	1.9	23	100	0	88	27	25	13	34	1.93
43780466--43780601	69	2.0	69	92	0	227	23	25	14	36	1.93
43780420--43780641	115	1.9	114	94	2	392	22	24	14	37	1.92
43780535--43780641	46	2.3	46	88	4	173	23	24	14	38	1.91
43782799--43782835	20	1.9	20	88	5	58	51	8	0	40	1.32
43784860--43784919	28	2.2	26	80	11	75	26	25	11	36	1.90
43784867--43784945	28	2.8	28	86	0	113	29	21	11	37	1.88
43788402--43788430	7	4.1	7	100	0	58	41	0	0	58	0.98
43792290--43792414	64	2.0	64	90	0	196	33	17	12	36	1.87
43792431--43792860	133	3.2	133	90	0	682	29	19	23	28	1.98
43792801--43793035	88	2.6	88	82	2	274	30	20	24	24	1.99
43792880--43793106	88	2.6	87	81	6	228	33	20	22	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43794392--43794666	46	6.0	46	88	2	336	21	23	14	40	1.90
43794397--43794671	92	3.0	92	87	0	379	21	23	14	40	1.90
43799252--43799298	3	16.0	3	78	12	53	27	2	0	70	0.99
43799252--43799293	17	2.5	17	88	7	59	26	0	0	73	0.83
43799460--43799816	130	2.7	131	84	0	464	25	18	19	36	1.94
43800740--43800786	24	2.0	24	86	0	67	44	17	2	36	1.60
43825978--43826020	21	2.0	23	86	9	63	37	0	2	60	1.10
43848534--43848583	15	3.4	15	91	2	84	36	0	12	52	1.39
43849198--43849239	20	2.2	20	87	12	61	50	0	21	28	1.49
43867889--43867924	17	2.2	16	90	5	54	44	0	0	55	0.99
43883478--43883531	21	2.7	20	74	5	63	35	7	5	51	1.53
43884788--43884849	27	2.3	28	75	10	67	17	3	35	43	1.66
43884841--43884871	7	4.4	7	100	0	62	12	16	38	32	1.86
43884832--43884871	21	1.9	21	89	0	62	15	12	40	32	1.84
43886883--43886995	57	2.0	57	96	0	208	19	27	15	37	1.92
43887996--43888110	44	2.6	44	83	2	140	34	13	23	27	1.93
43887996--43888129	46	3.0	45	80	4	135	34	14	24	26	1.94
43889502--43889529	7	4.0	7	100	0	56	28	14	14	42	1.84
43892819--43892868	21	2.4	21	80	6	57	38	28	8	26	1.84
43897453--43897562	56	2.0	56	92	0	184	28	17	13	40	1.87
43897651--43897703	27	2.0	27	85	7	72	58	1	3	35	1.27
43900248--43900303	18	3.5	15	81	18	60	37	10	16	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43900246--43900324	35	2.2	37	86	13	121	37	10	16	35	1.82
43900246--43900317	19	3.9	19	89	10	123	37	11	15	36	1.83
43900246--43900340	17	4.8	22	84	12	79	36	9	15	37	1.80
43901785--43901879	47	2.0	47	97	0	181	40	17	6	35	1.76
43903741--43903774	12	2.8	12	86	0	50	70	0	29	0	0.87
43906289--43906326	11	3.4	11	96	3	67	89	0	10	0	0.49
43906289--43906326	12	3.2	12	92	3	60	89	0	10	0	0.49
43907226--43907485	44	5.9	44	72	9	217	30	18	24	26	1.98
43907221--43907498	132	2.1	132	93	0	475	29	18	24	27	1.98
43907221--43907535	132	2.4	132	90	1	443	30	18	24	27	1.98
43907558--43908260	205	3.5	205	93	1	1184	31	18	21	29	1.97
43908886--43908941	18	3.5	15	81	18	60	37	10	16	35	1.83
43908884--43908962	35	2.2	37	86	13	121	37	10	16	35	1.82
43908884--43908955	19	3.9	19	89	10	123	37	11	15	36	1.83
43908884--43908978	17	4.8	22	84	12	79	36	9	15	37	1.80
43915913--43916024	54	2.1	54	94	0	197	32	12	26	28	1.93
43916313--43916378	30	2.2	31	94	2	116	24	6	15	54	1.63
43919567--43920055	244	2.0	244	97	0	924	32	11	16	39	1.85
43923936--43924013	24	3.3	24	67	22	74	25	3	30	39	1.74
43923921--43924014	47	2.0	47	97	0	179	27	5	28	38	1.79
43924639--43924664	13	2.0	13	100	0	52	38	23	15	23	1.92
43926502--43926571	22	3.3	21	71	15	63	27	1	5	65	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43926502--43926599	42	2.2	42	82	8	106	28	3	6	62	1.34
43926549--43926598	26	1.9	26	84	8	66	28	6	6	60	1.44
43933490--43933557	29	2.3	29	89	0	100	25	16	29	29	1.96
43933501--43933576	29	2.6	29	82	0	89	30	14	25	30	1.95
43937539--43937585	24	2.0	24	91	0	76	87	6	2	4	0.74
43937539--43937585	8	5.8	8	92	2	67	87	6	2	4	0.74
43937989--43938030	19	2.2	20	82	4	50	35	14	28	21	1.92
43938479--43938585	53	2.0	53	90	0	169	23	14	7	55	1.64
43939016--43939153	46	3.0	46	85	4	170	32	15	23	28	1.95
43939910--43940029	46	2.6	46	75	8	120	32	20	15	31	1.93

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