genome.fa.s25.2.7.7.80.10.50.1000.133.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   285   286   287   288   
          289   290   291   292   293   294   295   296   297   

This is table  133  of  297  ( 35593 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)
45661189--45661373	80	2.3	81	86	6	243	24	24	28	23	2.00
45665208--45665261	15	3.2	18	70	20	53	51	33	1	12	1.51
45665195--45665271	32	2.4	33	84	6	113	51	31	1	15	1.51
45669149--45669190	22	1.9	22	85	0	57	28	19	2	50	1.60
45676367--45676442	24	3.1	24	72	10	82	50	2	0	47	1.15
45678423--45678498	24	3.1	24	72	10	82	50	2	0	47	1.15
45679391--45679430	19	2.1	19	100	0	80	30	10	10	50	1.69
45686315--45686393	39	2.0	39	95	0	140	26	22	5	45	1.73
45686474--45686517	15	2.9	15	96	3	79	47	6	11	34	1.66
45688584--45688677	48	2.0	48	83	8	120	41	26	11	20	1.86
45703683--45704814	137	8.2	137	95	1	1939	32	18	21	27	1.96
45703692--45704686	92	10.8	91	64	24	276	33	17	21	27	1.96
45708560--45709653	75	13.9	75	73	17	799	28	15	20	35	1.93
45708807--45709016	71	2.9	73	86	4	282	32	16	19	31	1.94
45708953--45710643	89	20.5	81	71	17	773	27	18	20	34	1.95
45709198--45709321	66	1.9	66	91	0	203	31	16	24	27	1.97
45709318--45709350	12	2.5	13	85	14	50	18	12	9	60	1.57
45709260--45709421	87	1.9	87	92	0	270	27	16	20	35	1.94
45709331--45709494	73	2.2	74	86	2	222	28	15	19	37	1.92
45709480--45709510	16	1.9	16	93	0	53	16	12	6	64	1.47
45708863--45710556	164	10.3	164	79	12	1604	27	18	19	34	1.95
45710016--45710162	75	2.0	74	91	1	240	29	18	22	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45708953--45710587	503	3.3	491	83	9	1834	27	18	20	34	1.95
45710224--45710643	88	4.8	86	83	6	470	26	19	20	34	1.96
45710224--45710730	89	5.7	85	81	7	462	26	18	19	35	1.95
45728490--45728873	45	8.6	44	76	5	292	29	19	25	25	1.98
45728533--45728604	21	3.3	21	64	17	56	29	16	31	22	1.96
45728554--45728628	24	3.2	24	64	17	68	29	18	26	25	1.98
45728523--45728865	45	7.7	45	79	7	324	29	20	24	25	1.99
45728524--45728864	133	2.5	135	85	2	465	29	20	24	25	1.99
45728430--45728858	178	2.4	179	82	5	553	30	19	23	26	1.98
45728850--45728879	14	2.1	14	93	0	51	26	13	40	20	1.89
45740783--45740967	79	2.3	82	84	7	238	25	27	22	24	2.00
45740764--45740967	40	5.1	40	82	8	238	25	27	22	25	2.00
45748733--45748955	79	2.8	78	83	7	272	24	27	22	25	2.00
45748733--45748955	39	5.7	40	87	6	280	24	27	22	25	2.00
45752901--45752953	3	17.7	3	100	0	106	0	33	0	66	0.92
45753009--45753050	21	2.0	21	95	0	75	23	28	21	26	1.99
45753080--45753152	31	2.4	31	81	6	87	20	9	21	47	1.78
45758604--45758645	21	2.0	21	85	0	57	50	14	11	23	1.76
45772444--45772489	20	2.3	20	82	10	51	78	4	10	6	1.08
45773077--45773137	27	2.3	26	80	2	68	65	1	1	31	1.12
45774571--45774623	26	2.0	27	85	7	74	24	15	22	37	1.92
45787320--45788156	52	16.1	52	99	0	1656	34	23	7	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45789345--45789426	28	2.9	28	87	0	101	40	13	17	29	1.87
45796425--45796498	27	2.7	27	79	8	71	62	1	2	33	1.18
45797746--45797799	28	1.9	28	92	0	90	44	9	14	31	1.77
45801868--45801906	20	2.0	19	85	5	51	38	0	5	56	1.22
45801885--45801938	20	2.8	20	88	5	76	42	0	1	55	1.10
45806627--45806710	41	2.0	41	93	0	141	48	15	22	13	1.79
45812560--45812607	24	2.0	24	83	0	60	56	2	0	41	1.11
45815046--45815091	23	2.0	23	100	0	92	39	17	13	30	1.87
45817734--45817786	23	2.3	23	86	0	70	50	32	5	11	1.61
45819112--45819169	28	2.1	28	86	0	80	18	12	8	60	1.57
45819263--45819317	3	19.0	3	79	7	60	27	1	5	65	1.25
45821828--45821920	47	2.0	47	80	0	105	41	9	4	44	1.57
45821851--45821923	38	2.0	38	81	10	89	42	6	4	46	1.49
45824198--45824315	3	38.7	3	73	9	87	56	2	8	32	1.43
45827148--45827173	12	2.2	12	100	0	52	65	0	7	26	1.20
45829002--45829807	40	20.1	40	99	0	1535	22	22	27	27	1.99
45829866--45829954	45	2.0	45	97	0	169	33	21	13	31	1.92
45840662--45840737	20	3.8	20	80	0	80	14	23	25	36	1.93
45840657--45840735	40	2.0	40	87	0	113	13	22	25	37	1.91
45841892--45841938	24	1.9	25	82	4	60	38	4	19	38	1.71
45842101--45842128	14	2.0	14	100	0	56	21	7	21	50	1.72
45843321--45843372	26	2.0	26	92	0	86	40	9	5	44	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45843756--45844093	171	2.0	171	97	0	640	37	13	13	35	1.83
45845540--45845601	12	5.0	12	76	18	56	61	3	0	35	1.12
45845536--45845604	9	7.3	9	71	20	52	60	2	0	36	1.11
45845506--45845604	28	3.7	28	77	18	95	59	3	1	36	1.20
45845522--45845868	14	25.0	14	66	21	121	60	2	5	31	1.32
45845625--45845726	39	2.5	41	78	9	111	61	0	5	31	1.26
45845759--45845868	15	7.6	15	67	25	51	65	3	3	27	1.26
45847490--45848070	175	3.3	174	90	1	869	27	19	19	33	1.96
45855903--45855945	15	2.9	15	80	16	54	39	11	25	23	1.88
45860079--45860140	12	5.0	12	76	18	56	61	3	0	35	1.12
45860075--45860143	9	7.3	9	71	20	52	60	2	0	36	1.11
45860045--45860143	28	3.7	28	77	18	95	59	3	1	36	1.20
45860061--45860262	14	14.4	14	67	22	95	59	2	6	31	1.36
45860203--45860301	44	2.2	46	82	8	114	57	1	5	36	1.27
45860331--45860398	27	2.5	26	81	11	75	70	1	2	25	1.09
45863257--45863307	26	2.0	26	88	0	75	41	7	5	45	1.57
45863405--45864257	283	3.0	283	96	0	1514	36	10	18	33	1.86
45867524--45867573	26	1.9	26	100	0	100	40	14	0	46	1.44
45871324--45871407	26	3.2	26	93	0	141	38	23	4	33	1.76
45873938--45874049	27	4.2	26	82	7	125	16	25	23	35	1.94
45873938--45874049	54	2.1	54	84	3	145	16	25	23	35	1.94
45876031--45876082	26	2.0	26	96	0	95	42	11	5	40	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45877245--45877295	26	2.0	26	92	0	84	35	13	1	49	1.54
45878563--45878705	71	2.0	71	94	0	250	35	6	20	36	1.80
45883659--45883708	26	1.9	26	95	0	91	38	14	2	46	1.56
45885203--45885252	26	1.9	26	95	0	91	38	14	2	46	1.56
45886569--45886954	193	2.0	192	96	1	720	36	12	15	35	1.85
45896533--45896585	26	2.0	26	82	7	63	26	11	20	41	1.86
45898029--45898084	26	2.2	26	100	0	112	35	26	7	30	1.83
45899233--45899284	26	2.0	26	96	0	95	40	11	5	42	1.65
45903250--45911505	616	13.4	616	86	6	11298	28	12	24	34	1.92
45907623--45908380	151	5.0	151	100	0	1516	23	12	25	38	1.90
45908209--45908664	230	2.0	230	99	0	903	26	9	26	37	1.87
45916215--45916620	28	14.5	28	95	1	663	34	27	11	26	1.91
45920034--45920085	18	2.7	18	76	8	50	38	21	15	25	1.92
45921221--45921259	17	2.4	17	91	4	62	84	0	12	2	0.72
45923523--45923614	46	2.0	46	100	0	184	39	8	17	34	1.80
45927867--45927970	25	4.2	25	69	9	68	25	15	19	39	1.91
45932048--45932180	27	4.9	27	83	3	142	27	20	16	35	1.94
45932079--45932179	27	3.7	28	89	4	143	26	20	15	36	1.93
45938343--45938391	24	2.0	25	88	4	73	30	14	6	48	1.67
45953336--45953375	19	2.1	19	100	0	80	37	20	5	37	1.74
45963030--45963072	22	2.0	21	86	4	59	51	27	0	20	1.48
45963900--45963954	9	6.6	9	75	12	55	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45963913--45963977	23	2.8	24	81	9	80	30	0	0	69	0.89
45963913--45963969	23	2.4	25	88	5	82	33	0	0	66	0.92
45963887--45963994	32	3.5	30	76	14	105	30	0	1	67	1.01
45963902--45964002	32	3.2	33	75	19	106	32	0	0	66	0.99
45964493--45965365	114	7.7	113	82	5	971	35	19	20	24	1.95
45964531--45965366	342	2.4	341	85	4	1098	35	19	20	24	1.96
45965348--45965385	20	1.9	20	88	0	58	44	21	7	26	1.79
45966100--45966143	21	2.1	21	83	8	54	25	0	36	38	1.56
45966778--45967157	191	2.0	191	91	2	611	17	24	12	44	1.84
45968111--45968158	25	1.9	25	91	8	80	37	0	4	58	1.18

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   285   286   287   288   
          289   290   291   292   293   294   295   296   297