genome.fa.s9.2.7.7.80.10.50.1000.96.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  96  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)
31780053--31780077	9	2.8	9	100	0	50	8	12	0	80	0.92
31780083--31780128	8	5.5	8	80	10	56	41	0	0	58	0.98
31780087--31780125	18	2.2	18	90	0	60	43	0	0	56	0.99
31796205--31796234	6	4.8	6	92	8	51	16	3	0	80	0.85
31809929--31810536	304	2.0	304	100	0	1216	26	23	23	26	2.00
31811530--31811587	30	1.9	31	89	3	91	68	5	3	22	1.24
31821566--31821620	27	2.0	27	100	0	110	30	25	0	43	1.55
31822002--31822047	18	2.4	20	75	20	53	34	0	6	58	1.24
31823141--31823220	41	2.0	41	97	0	151	36	16	1	46	1.55
31826447--31826505	30	2.0	30	86	0	82	57	5	8	28	1.50
31826705--31826730	7	3.7	7	100	0	52	57	0	0	42	0.98
31826910--31826952	20	2.2	19	88	12	61	58	2	0	39	1.11
31827068--31827152	28	3.2	27	78	15	88	57	0	4	37	1.20
31827102--31827152	24	2.1	26	82	10	63	58	0	1	39	1.09
31828931--31829289	121	3.0	121	93	0	610	30	19	17	32	1.95
31830556--31830598	20	2.2	19	88	12	61	58	2	0	39	1.11
31830749--31830796	20	2.3	20	85	7	60	58	0	2	39	1.10
31833184--31833229	18	2.4	20	75	20	53	36	0	4	58	1.18
31834323--31834401	41	1.9	41	92	0	131	35	16	3	44	1.66
31839132--31839235	26	4.0	26	93	0	181	32	7	24	35	1.84
31841308--31841390	41	2.0	41	100	0	166	33	16	2	46	1.60
31845640--31845704	19	3.3	19	71	26	62	33	18	1	46	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31845629--31845709	41	2.0	41	97	0	153	33	17	1	48	1.55
31852102--31852146	22	2.1	21	87	4	63	13	17	26	42	1.86
31852216--31852529	43	7.3	43	90	0	468	27	32	18	21	1.97
31852216--31852573	129	2.8	128	89	1	504	28	31	18	22	1.97
31857517--31857601	39	2.2	39	86	0	116	21	21	18	38	1.93
31858002--31858030	8	3.8	8	90	9	51	37	48	0	13	1.43
31858011--31858051	21	1.9	22	85	5	57	39	39	0	21	1.54
31858238--31858276	16	2.4	17	95	4	71	46	0	0	53	1.00
31858387--31858454	21	3.2	20	76	17	66	35	41	0	23	1.55
31858462--31858550	7	12.6	7	73	2	61	47	29	1	22	1.59
31858461--31858608	21	7.0	21	71	6	82	47	27	1	24	1.60
31858864--31858909	20	2.4	20	82	7	51	63	4	4	28	1.33
31858916--31859024	41	2.7	41	92	0	182	31	29	21	18	1.97
31866232--31866262	11	2.7	11	95	5	53	25	0	0	74	0.82
31868364--31868641	46	6.0	46	91	0	414	40	14	22	22	1.90
31869757--31869797	21	1.9	22	85	5	57	39	21	4	34	1.75
31880281--31880347	32	2.1	33	85	2	91	20	4	8	65	1.38
31891246--31891294	10	4.9	10	85	9	73	20	8	2	69	1.24
31892011--31892044	18	1.9	18	94	5	61	26	11	5	55	1.58
31893651--31893692	21	2.0	21	81	9	50	45	19	21	14	1.85
31898267--31898330	10	6.4	9	76	15	56	15	3	3	78	1.01
31898267--31898338	15	5.0	15	79	14	64	16	2	2	77	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31899055--31899237	96	1.9	97	91	1	305	27	16	26	29	1.97
31899418--31900135	359	2.0	359	100	0	1436	31	12	20	35	1.90
31900263--31900305	10	4.3	10	88	5	61	23	9	0	67	1.19
31904912--31904961	10	5.0	10	81	13	59	22	8	2	68	1.26
31905677--31905711	18	2.0	18	94	5	63	28	8	5	57	1.52
31906356--31906384	13	2.3	13	94	5	51	41	20	13	24	1.89
31907580--31907618	17	2.3	17	86	8	53	56	2	5	35	1.35
31910545--31910809	103	2.6	104	90	3	417	29	29	20	19	1.97
31911137--31911201	30	2.2	29	81	8	76	30	27	6	35	1.81
31911144--31911201	30	1.9	30	85	0	80	31	24	6	37	1.82
31912014--31912103	41	2.2	40	84	5	110	22	16	28	32	1.96
31915373--31915538	81	2.0	81	95	0	296	29	17	23	29	1.97
31917988--31918513	258	2.0	261	88	2	781	28	18	23	28	1.98
31925562--31926118	127	4.4	126	79	4	485	26	15	20	38	1.92
31937218--31937341	64	1.9	64	85	6	171	28	19	17	34	1.95
31937420--31938688	134	9.5	134	88	3	1774	31	18	21	27	1.97
31937420--31938688	535	2.4	535	95	1	2253	31	18	21	27	1.97
31937540--31938666	89	12.6	89	69	21	495	32	19	21	27	1.97
31940670--31941237	127	4.5	125	82	5	583	25	16	20	37	1.93
31941954--31942006	24	2.3	23	83	6	63	39	1	1	56	1.21
31944399--31944575	44	4.0	44	100	0	354	38	18	36	6	1.77
31950632--31950687	18	3.1	18	80	10	53	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31950652--31950700	19	2.5	21	84	15	61	42	0	0	57	0.99
31960894--31960938	22	2.0	22	91	0	72	33	2	15	48	1.57
31963397--31963441	22	2.0	22	91	0	72	33	2	15	48	1.57
31967845--31967889	21	2.2	21	84	4	56	44	22	4	28	1.72
31974771--31975234	131	3.5	131	82	4	472	28	18	18	34	1.95
31978265--31978354	44	2.0	44	95	0	162	31	8	7	52	1.61
31987489--31987549	20	3.0	20	92	0	104	13	27	37	21	1.90
31994670--31994730	20	3.0	20	92	0	104	14	29	36	19	1.92
31997273--31997635	131	2.8	132	76	6	317	35	19	19	25	1.95
32004292--32004742	48	9.3	47	88	5	532	31	27	14	27	1.95
32004257--32004742	96	5.1	96	86	6	591	31	26	14	27	1.95
32004257--32004742	144	3.4	143	85	7	589	31	26	14	27	1.95
32004579--32004740	53	3.1	51	80	12	179	31	25	14	28	1.95
32008637--32008670	5	6.8	5	100	0	68	41	17	0	41	1.50
32008780--32008834	12	4.9	12	72	17	55	36	1	16	45	1.58
32008764--32008839	32	2.4	32	95	0	134	39	2	14	43	1.59
32008889--32008926	19	2.0	19	94	0	67	31	13	5	50	1.63
32009371--32009408	20	1.9	20	88	0	58	42	0	7	50	1.31
32011719--32011761	18	2.3	19	84	11	54	44	2	2	51	1.27
32011901--32011948	8	5.6	9	79	16	57	64	0	0	35	0.94
32011894--32011932	16	2.4	16	86	0	60	61	0	0	38	0.96
32011898--32011948	26	2.0	26	92	7	86	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32011914--32011959	10	4.8	10	81	5	51	65	0	0	34	0.93
32012349--32012400	23	2.2	25	82	6	63	63	0	1	34	1.06
32012652--32012702	17	3.1	17	75	11	61	39	1	7	50	1.42
32012702--32012735	17	2.1	16	88	5	50	41	0	0	58	0.98
32013097--32013143	24	2.0	24	87	8	69	19	34	0	46	1.50
32013767--32013797	15	2.1	15	100	0	62	19	6	25	48	1.72
32014643--32015216	285	2.0	285	84	8	752	32	12	16	38	1.86
32020067--32020094	3	9.3	3	100	0	56	0	32	0	67	0.91
32021257--32021302	20	2.3	20	85	3	58	60	0	21	17	1.35
32023562--32023593	15	2.0	17	88	11	50	3	0	28	68	1.04
32023805--32023838	6	6.0	6	86	13	54	32	52	0	14	1.42
32048593--32048632	21	1.9	21	89	0	62	62	7	10	20	1.50
32052389--32052481	43	2.2	44	92	3	154	51	13	6	27	1.66
32053644--32053696	20	2.7	20	82	2	63	32	13	16	37	1.88
32058959--32059009	17	2.9	18	80	5	52	35	1	9	52	1.46
32061779--32061849	24	2.9	24	79	10	65	63	0	0	36	0.95
32063071--32063201	60	2.2	60	83	2	156	28	15	12	44	1.82
32063707--32063767	31	2.0	31	83	6	79	34	8	8	49	1.62
32078637--32078704	16	4.3	15	83	7	82	42	5	23	27	1.77
32078633--32078704	32	2.3	32	85	7	94	43	5	23	27	1.76
32078864--32078919	26	2.2	26	80	6	60	62	0	0	37	0.95
32078899--32079032	57	2.3	58	80	13	143	52	3	1	41	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32083743--32084046	154	2.0	154	90	0	482	26	14	21	37	1.92
32090711--32090754	21	2.1	21	83	8	54	27	11	9	52	1.67
32093964--32093989	10	2.6	10	100	0	52	0	7	0	92	0.39
32102126--32102173	15	3.1	16	83	16	57	70	2	0	27	0.98
32102117--32102187	11	6.5	11	76	12	58	66	2	1	29	1.15
32105342--32105634	129	2.2	130	93	1	507	27	19	21	31	1.98
32105474--32106072	177	3.4	176	83	3	767	29	19	21	30	1.97
32106959--32107010	26	2.0	26	96	0	95	40	7	32	19	1.80
32107548--32107603	12	4.4	13	73	13	53	30	1	7	60	1.33
32107578--32107607	14	2.1	14	93	0	51	30	3	0	66	1.07

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