genome.fa.s25.2.7.7.80.10.50.1000.283.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  283  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)
96217332--96217413	26	3.2	26	98	0	155	31	7	25	35	1.84
96219034--96219254	27	8.2	27	87	7	272	18	23	23	34	1.96
96219034--96219254	81	2.7	81	91	2	347	18	23	23	34	1.96
96224380--96224413	12	2.8	12	83	16	52	52	5	0	41	1.25
96224490--96224535	21	2.2	20	84	3	56	47	2	0	50	1.13
96224506--96224546	20	2.0	20	85	0	55	46	4	0	48	1.23
96226556--96226912	27	13.2	27	85	4	445	36	18	18	26	1.94
96227301--96227365	22	3.0	22	80	8	78	20	26	23	30	1.98
96227565--96227631	27	2.5	26	81	9	82	19	20	22	37	1.95
96227749--96227783	18	1.9	18	88	0	52	20	17	8	54	1.68
96227810--96227874	34	1.9	34	87	6	96	30	18	26	24	1.98
96236365--96236402	19	2.0	19	94	0	67	44	36	5	13	1.66
96238255--96238288	6	5.7	6	100	0	68	14	0	0	85	0.60
96241235--96241267	13	2.6	13	90	4	50	36	0	9	54	1.32
96250137--96250321	79	2.3	82	84	7	238	25	27	22	24	2.00
96250118--96250321	40	5.1	40	82	8	238	25	27	22	25	2.00
96269801--96269960	27	5.9	26	88	1	176	24	14	18	42	1.88
96269801--96269960	54	3.0	54	84	1	205	24	14	18	42	1.88
96269801--96269949	81	1.8	81	85	2	210	25	12	18	43	1.85
96270644--96270720	40	1.9	40	100	0	154	32	14	15	37	1.88
96275726--96275766	19	2.2	19	90	0	64	75	4	12	7	1.16
96276422--96276456	5	7.0	5	93	0	52	34	0	25	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96279313--96279411	31	3.2	31	92	1	162	28	24	7	40	1.81
96280394--96280427	17	2.0	17	94	0	59	20	11	5	61	1.50
96282388--96282502	42	2.7	42	87	4	151	29	23	15	31	1.95
96285611--96285660	26	1.9	26	100	0	100	28	34	4	34	1.76
96287398--96287681	140	2.0	140	89	4	430	30	20	13	35	1.91
96289950--96290106	42	3.7	42	78	3	145	17	24	15	42	1.88
96290009--96290071	21	3.0	21	68	9	56	15	23	15	44	1.86
96290077--96290121	21	2.2	21	88	7	67	11	22	20	46	1.81
96292459--96292508	25	2.0	24	84	7	64	40	10	12	38	1.76
96297208--96297432	40	5.6	40	86	3	299	23	23	27	26	2.00
96297212--96297432	83	2.7	80	88	5	304	23	23	27	25	2.00
96297208--96297432	123	1.9	122	88	3	339	23	23	27	26	2.00
96305281--96305382	40	2.6	40	86	10	147	24	23	27	24	2.00
96308292--96308333	21	2.0	21	90	0	66	38	21	14	26	1.91
96317227--96317287	27	2.3	26	77	5	68	34	21	16	27	1.95
96319252--96319289	18	2.1	18	85	9	51	2	13	2	81	0.90
96321837--96321871	3	11.7	3	100	0	70	68	0	0	31	0.90
96325786--96325850	27	2.4	26	73	16	69	21	18	46	13	1.84
96325946--96326004	15	3.7	15	75	16	64	59	0	38	1	1.08
96325946--96326105	55	2.9	55	75	15	150	58	0	39	1	1.11
96328613--96328671	18	3.3	18	95	0	100	28	47	23	0	1.52
96328587--96328647	24	2.5	24	70	0	59	31	40	21	6	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96328788--96328868	33	2.5	33	77	0	99	17	34	18	29	1.94
96334853--96334921	30	2.4	29	81	11	81	66	0	17	15	1.25
96338456--96338480	13	1.9	13	100	0	50	36	16	32	16	1.90
96339380--96339427	13	3.6	13	83	8	53	77	4	4	14	1.08
96339380--96339440	14	4.4	13	73	18	52	77	4	3	14	1.07
96339390--96339440	17	3.5	14	74	25	52	76	3	3	15	1.08
96340376--96340410	18	1.9	18	88	11	54	57	0	20	22	1.41
96343298--96343335	10	3.8	10	83	13	51	28	31	18	21	1.97
96343297--96343334	20	1.9	20	94	0	67	28	34	18	18	1.95
96346238--96346303	33	2.0	33	82	8	80	33	16	22	27	1.96
96356945--96356980	15	2.5	15	90	4	56	69	13	0	16	1.19
96357639--96357745	54	2.0	54	98	0	205	44	9	6	39	1.63
96358080--96358122	20	2.0	23	86	13	65	62	4	0	32	1.15
96360837--96360952	43	2.7	44	70	6	110	22	25	19	32	1.97
96360932--96361096	44	3.7	44	74	8	129	27	21	19	32	1.97
96361065--96361457	88	4.4	92	75	12	248	23	24	20	32	1.98
96361418--96361629	44	4.8	45	76	8	159	25	24	19	29	1.99
96361499--96361629	46	2.9	46	84	3	160	25	27	19	27	1.99
96375197--96375893	3	231.0	3	67	15	230	59	2	6	31	1.37
96375326--96375386	13	4.7	13	89	4	79	62	1	3	32	1.21
96375451--96375613	29	5.3	29	71	18	100	61	2	4	31	1.28
96375531--96375611	35	2.3	35	84	12	105	61	2	3	32	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96375604--96375672	14	4.8	15	75	18	58	57	0	8	33	1.29
96375619--96375656	19	2.0	20	89	5	60	63	0	7	28	1.23
96375711--96376018	169	1.8	170	93	2	539	60	4	4	30	1.36
96376642--96377019	3	126.0	3	68	12	136	30	6	2	59	1.37
96376703--96376765	14	4.4	14	69	23	51	34	9	0	55	1.32
96376704--96376838	71	1.9	71	80	8	159	34	6	0	58	1.29
96376729--96376869	71	2.0	69	80	12	153	32	6	1	59	1.31
96378581--96378638	24	2.3	26	79	8	75	39	5	3	51	1.41
96382559--96382589	15	2.1	15	100	0	62	54	0	38	6	1.26
96386862--96386939	37	2.1	38	92	2	131	47	23	16	12	1.81
96390627--96391810	210	5.7	210	93	2	2046	28	18	22	30	1.97
96393389--96393441	20	2.4	23	81	12	67	35	9	3	50	1.53
96394260--96394298	19	1.9	19	85	10	51	30	20	5	43	1.73
96396972--96397115	51	2.9	49	86	4	200	27	27	20	25	1.99
96399138--96399257	43	2.8	42	83	2	150	30	27	13	28	1.94
96423114--96423166	28	1.9	28	88	3	81	47	1	5	45	1.37
96425339--96425368	15	1.9	16	93	6	53	56	0	0	43	0.99
96425793--96425822	14	2.1	15	93	6	53	20	36	0	43	1.52
96432881--96433102	46	4.5	49	82	5	243	30	27	18	24	1.98
96432868--96433102	50	4.8	49	80	7	244	29	27	18	24	1.98
96454724--96454801	23	3.5	22	81	6	86	35	28	23	12	1.91
96454704--96454801	21	4.5	22	80	6	101	37	26	21	14	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96455184--96455241	15	3.8	15	88	2	89	51	12	0	36	1.39
96459394--96459512	21	5.5	21	85	4	130	34	28	22	14	1.93
96459417--96459499	21	3.9	21	95	3	139	26	31	27	14	1.95
96461968--96461992	13	1.9	13	100	0	50	32	0	40	28	1.57
96461965--96461999	11	3.0	11	84	15	52	34	0	37	28	1.58
96466017--96466083	34	1.9	35	85	8	93	19	22	11	46	1.82
96467058--96467204	60	2.5	60	73	9	140	26	24	19	29	1.98
96475810--96476030	40	5.6	40	88	5	279	22	23	28	24	1.99
96479250--96479274	12	2.1	12	100	0	50	40	0	8	52	1.31
96479512--96479536	12	2.1	12	100	0	50	40	0	8	52	1.31
96479181--96479705	262	2.0	262	98	0	1023	33	7	16	42	1.76
96481531--96481600	25	2.8	25	93	4	115	25	24	22	27	2.00
96481531--96481613	25	3.4	24	88	8	114	28	21	22	26	1.99
96481531--96481625	50	1.9	50	85	8	131	27	23	23	26	2.00
96490520--96490573	11	5.4	10	78	12	58	35	11	18	35	1.86
96490619--96490702	25	3.4	24	85	8	107	29	22	22	25	1.99
96490887--96490994	31	3.5	31	90	0	171	31	20	27	20	1.97
96499897--96500141	92	2.7	92	86	0	337	31	19	23	25	1.98
96500316--96500351	4	9.0	4	100	0	72	25	0	25	50	1.50
96500641--96500687	20	2.3	21	88	3	69	14	10	46	27	1.78
96500847--96500880	13	2.6	13	90	0	59	5	26	47	20	1.73
96503620--96503779	86	1.9	87	82	6	209	40	18	24	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96503622--96503912	44	6.7	44	73	7	234	38	18	25	17	1.93
96503619--96503912	22	13.5	22	68	12	167	38	18	25	17	1.93
96503619--96503911	66	4.5	66	75	11	215	38	18	25	17	1.92
96505225--96505299	30	2.5	29	91	4	105	54	10	5	29	1.57
96505489--96505526	17	2.5	15	80	19	51	39	10	15	34	1.82
96505495--96505527	17	1.9	17	100	0	66	39	12	12	36	1.80
96505829--96505863	18	2.0	17	88	5	52	31	0	0	68	0.90
96506709--96506750	17	2.5	17	96	0	75	16	21	16	45	1.86
96512534--96513100	311	1.8	311	100	0	1134	30	15	20	33	1.94
96516012--96516042	11	2.8	11	95	0	53	87	0	12	0	0.55

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