genome.fa.s7.2.7.7.80.10.50.1000.119.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  119  of  290  ( 34714 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)
40515305--40515329	8	3.1	8	100	0	50	52	0	24	24	1.48
40517458--40517605	69	2.1	70	97	1	280	18	29	6	45	1.74
40523010--40523059	13	3.8	13	77	17	50	82	6	12	0	0.85
40523769--40523802	18	1.9	18	88	5	52	23	2	2	70	1.15
40525126--40525184	22	2.9	22	78	12	63	55	0	3	40	1.16
40529494--40529630	38	3.6	38	87	2	177	40	18	11	29	1.86
40529509--40529630	38	3.2	38	89	2	183	40	17	12	30	1.86
40531005--40531059	21	2.7	21	83	8	60	36	0	18	45	1.49
40531362--40531414	25	2.2	25	82	3	63	20	24	20	33	1.97
40531541--40531602	27	2.4	25	78	5	70	22	29	17	30	1.97
40531664--40531726	25	2.5	25	84	5	83	19	28	23	28	1.98
40531664--40531743	25	3.2	25	82	7	74	21	26	23	28	1.99
40534593--40534640	24	2.0	23	84	11	62	72	2	0	25	0.95
40535704--40535745	21	2.0	21	85	4	57	28	0	4	66	1.12
40541509--40541647	32	4.4	32	92	2	230	47	8	10	33	1.68
40545082--40545138	5	11.4	5	92	0	96	42	1	19	36	1.62
40549745--40549785	21	2.0	21	90	0	64	39	4	2	53	1.35
40554431--40554455	9	2.8	9	100	0	50	60	0	0	40	0.97
40554660--40554709	15	3.3	15	88	0	73	32	0	2	66	1.03
40555309--40555342	17	1.9	18	88	5	52	70	0	0	29	0.87
40566745--40566774	14	2.1	14	93	0	51	36	6	10	46	1.64
40566794--40566830	15	2.5	16	87	12	53	21	24	10	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40566794--40566843	15	3.5	15	79	15	52	22	24	12	42	1.87
40572083--40572190	26	4.2	26	87	0	162	33	9	24	33	1.87
40578029--40578477	204	2.2	204	91	2	702	31	18	20	29	1.96
40580112--40580162	19	2.7	19	82	14	61	33	5	1	58	1.33
40580280--40580348	13	4.8	15	73	21	67	33	2	0	63	1.09
40580281--40580389	38	2.9	38	80	10	91	32	3	0	63	1.18
40580280--40580395	57	2.0	59	82	12	143	32	4	0	62	1.21
40580300--40580389	19	4.8	18	71	21	69	32	3	1	63	1.18
40581718--40581771	19	2.7	20	82	11	65	33	0	1	64	1.04
40584207--40584346	60	2.3	59	85	9	178	27	25	19	27	1.99
40586792--40586830	20	2.0	20	85	10	53	43	10	0	46	1.37
40586791--40586842	23	2.2	24	78	21	58	48	11	0	40	1.40
40588542--40588585	13	3.5	13	75	6	54	22	59	6	11	1.55
40590545--40590587	19	2.3	19	96	4	79	41	9	9	39	1.69
40590580--40590613	4	8.2	4	87	6	50	73	0	2	23	0.97
40591871--40592116	125	2.0	125	94	0	429	41	11	20	25	1.86
40594317--40594341	13	1.9	13	100	0	50	16	24	36	24	1.94
40598490--40598535	20	2.3	20	85	3	67	28	30	17	23	1.97
40600930--40600978	3	16.3	3	100	0	98	67	0	0	32	0.91
40601668--40601708	22	1.9	21	85	5	55	2	19	7	70	1.22
40601762--40601814	22	2.3	23	84	9	65	33	5	7	52	1.53
40605811--40605857	15	3.2	14	91	8	60	31	2	17	48	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40605821--40605857	15	2.5	15	100	0	74	35	0	16	48	1.46
40616269--40616313	16	2.9	16	83	9	58	55	0	4	40	1.20
40617497--40617535	18	2.2	18	100	0	78	15	25	25	33	1.95
40619920--40619961	20	2.0	20	86	9	57	26	9	11	52	1.68
40623467--40623512	23	2.0	23	87	4	67	45	8	6	39	1.61
40623474--40623518	23	2.0	23	86	0	63	40	11	8	40	1.72
40628878--40629052	46	3.8	46	76	13	196	29	29	20	21	1.98
40628885--40629056	93	1.8	93	94	0	308	28	29	20	21	1.98
40637495--40637530	17	2.1	17	94	0	63	52	13	16	16	1.74
40641747--40641785	21	1.9	20	84	5	51	17	5	2	74	1.12
40643069--40643162	47	2.0	47	97	0	179	34	10	26	28	1.90
40651234--40651497	87	3.0	87	94	0	447	25	18	13	42	1.87
40658531--40658572	20	2.1	20	95	0	75	45	35	4	14	1.66
40659956--40659988	9	3.8	9	88	8	50	75	0	0	24	0.80
40662854--40662896	21	2.0	21	95	0	77	20	18	18	41	1.90
40667623--40667649	9	3.0	9	100	0	54	66	0	0	33	0.92
40668186--40668259	31	2.3	33	83	6	89	50	1	1	47	1.18
40668315--40668366	26	2.0	26	84	0	68	48	3	1	46	1.31
40668344--40668397	19	2.8	18	75	20	56	37	1	3	57	1.27
40668633--40668697	25	2.8	23	77	9	69	61	0	3	35	1.12
40668641--40668697	25	2.3	25	84	6	71	64	0	1	33	1.04
40668812--40668868	7	7.9	7	78	5	51	56	3	0	40	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40669335--40669394	27	2.3	25	78	13	68	71	3	21	3	1.15
40670068--40670114	24	2.0	24	84	16	62	31	2	14	51	1.55
40675438--40675566	38	3.4	37	78	4	132	32	24	17	26	1.96
40676891--40676923	12	2.8	12	95	0	57	18	24	36	21	1.95
40677358--40677426	20	3.3	20	71	11	66	49	1	8	40	1.43
40677321--40677452	43	3.0	44	87	5	198	50	3	7	37	1.49
40677546--40677571	12	2.2	12	100	0	52	57	0	0	42	0.98
40677654--40677691	11	3.4	11	80	20	51	39	13	0	47	1.42
40679001--40679035	10	3.5	10	100	0	70	68	8	11	11	1.39
40679668--40679719	25	2.1	25	85	7	70	42	15	5	36	1.71
40696060--40696115	26	2.2	26	90	3	87	39	7	21	32	1.80
40711265--40711294	15	2.0	15	100	0	60	46	20	20	13	1.83
40713494--40713655	40	4.1	40	84	3	218	22	22	28	27	1.99
40715716--40715768	25	2.1	26	86	10	74	13	7	13	66	1.45
40725152--40725203	11	4.7	11	75	0	50	13	13	23	50	1.77
40729245--40729373	65	2.0	65	87	0	186	24	15	13	46	1.81
40733503--40733534	16	2.0	16	100	0	64	37	6	31	25	1.81
40741303--40741343	18	2.3	19	80	20	52	24	29	17	29	1.97
40747064--40747126	31	2.0	31	100	0	126	36	9	9	44	1.70
40754079--40754127	16	3.1	16	75	0	53	61	0	0	38	0.96
40754180--40754209	14	2.1	15	93	6	53	80	0	20	0	0.72
40760629--40760766	42	3.2	43	78	9	129	28	26	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40763410--40763603	34	5.6	35	87	4	270	31	25	12	29	1.93
40763410--40763603	69	2.8	69	86	3	266	31	25	12	29	1.93
40763929--40763958	2	15.0	2	100	0	60	50	50	0	0	1.00
40769777--40770008	35	6.7	34	81	6	270	31	25	13	29	1.94
40769779--40770008	104	2.2	104	87	3	320	31	25	13	30	1.93
40769780--40770008	69	3.3	69	91	0	341	31	25	13	30	1.93
40770334--40770365	2	16.0	2	100	0	64	50	50	0	0	1.00
40772198--40772244	20	2.3	20	81	0	58	31	21	12	34	1.91
40777471--40777538	33	2.1	33	100	0	136	30	4	11	52	1.57
40778742--40778852	40	2.8	41	79	9	129	31	27	17	24	1.97
40782491--40783027	38	13.9	38	94	1	885	33	19	25	21	1.97
40782917--40782977	16	3.4	16	68	23	50	37	13	24	24	1.91
40782935--40783117	46	4.0	46	86	1	215	41	14	23	20	1.89
40786473--40786537	32	2.0	32	100	0	130	60	12	0	27	1.33
40786873--40787097	42	5.4	42	86	4	289	39	24	17	19	1.92
40786873--40787097	125	1.8	124	84	4	310	39	24	17	19	1.92
40786871--40787094	83	2.7	84	85	4	278	39	24	16	19	1.92
40791569--40791818	46	5.9	39	80	16	243	37	16	24	21	1.93
40791650--40791862	46	4.6	46	88	1	284	41	15	23	19	1.90
40791646--40791862	92	2.4	92	89	1	319	40	15	23	20	1.90
40791608--40791862	138	1.9	130	83	7	323	39	16	24	20	1.92
40794577--40794686	56	2.0	56	98	0	211	47	11	17	23	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40818688--40818868	42	4.4	42	84	4	226	38	25	18	17	1.92
40821039--40821157	23	5.2	23	71	16	95	36	21	21	20	1.96
40821039--40821173	45	2.9	45	78	11	139	34	21	21	22	1.97
40821039--40821099	22	2.7	22	82	9	79	34	21	22	21	1.97
40823754--40823793	19	2.1	19	90	0	62	40	15	2	42	1.60
40825982--40826006	12	2.1	12	100	0	50	84	0	0	16	0.63
40833109--40833133	6	4.2	6	100	0	50	84	0	0	16	0.63
40835828--40835860	10	3.3	10	95	0	57	42	0	42	15	1.46
40838015--40838058	17	2.6	17	92	0	79	52	0	2	45	1.13
40843453--40843483	11	2.8	11	95	0	53	70	0	3	25	1.02

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