genome.fa.s4.2.7.7.80.10.50.1000.137.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  137  of  235  ( 28198 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)
46354312--46354440	64	2.0	64	98	0	249	21	20	20	37	1.94
46354497--46354676	44	4.1	44	78	8	213	27	26	16	30	1.97
46354504--46354671	88	1.9	87	86	3	239	27	26	17	28	1.97
46355584--46355679	6	16.8	6	74	15	80	2	14	0	83	0.74
46355585--46355677	5	18.8	5	77	12	70	2	15	0	82	0.76
46355584--46355679	11	8.4	11	76	10	86	2	14	0	83	0.74
46361865--46362006	35	4.0	35	95	4	241	35	14	11	38	1.82
46366339--46366381	3	14.3	3	100	0	86	32	0	0	67	0.91
46366434--46366472	17	2.4	16	86	4	51	28	0	5	66	1.12
46366443--46366476	11	3.2	11	91	4	52	26	0	5	67	1.13
46366512--46366561	26	1.9	26	87	0	73	32	2	4	62	1.25
46370187--46370225	10	3.8	10	86	6	60	74	7	5	12	1.20
46370187--46370224	11	3.5	11	85	7	60	76	7	5	10	1.15
46378245--46378284	19	2.1	19	85	0	53	25	35	17	22	1.95
46382213--46382252	19	2.1	19	85	0	53	25	35	17	22	1.95
46384427--46384466	19	2.1	19	95	0	71	50	5	5	40	1.46
46384909--46385047	72	2.0	72	83	8	180	39	4	5	51	1.44
46389453--46389702	120	2.1	118	78	7	256	40	8	20	30	1.81
46392500--46392568	31	2.2	31	86	0	93	37	11	11	39	1.78
46393535--46393580	21	2.2	21	84	7	58	26	0	2	71	0.97
46393547--46393588	22	2.0	21	90	4	66	23	0	4	71	1.05
46402950--46403111	54	3.0	53	81	3	182	25	13	26	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46403073--46403163	47	1.9	47	93	0	155	26	13	27	32	1.93
46405073--46405110	6	6.3	6	93	0	67	18	2	15	63	1.43
46405076--46405116	12	3.4	12	93	0	64	17	7	17	58	1.60
46405077--46405117	18	2.3	18	86	0	55	17	9	17	56	1.67
46405225--46405268	18	2.4	18	92	0	70	31	13	15	38	1.87
46409108--46409194	21	4.0	23	80	10	92	37	25	21	14	1.92
46447184--46447245	28	2.2	28	80	2	72	33	25	20	19	1.96
46447349--46447399	23	2.4	22	87	9	70	43	23	11	21	1.85
46447356--46447399	23	1.9	23	95	0	79	43	25	13	18	1.86
46450060--46450202	25	5.8	24	70	7	90	20	26	19	33	1.96
46450060--46450202	74	1.9	74	82	2	180	20	26	19	33	1.96
46450158--46450219	25	2.5	24	82	7	72	20	25	22	30	1.98
46450060--46450222	74	2.2	74	81	2	175	21	26	19	32	1.97
46450181--46450240	25	2.4	25	81	10	70	25	25	20	30	1.99
46453266--46453320	28	2.0	28	96	0	101	45	32	1	20	1.61
46457795--46457837	18	2.4	18	88	7	61	46	0	0	53	1.00
46457854--46457880	13	2.1	13	100	0	54	33	14	22	29	1.94
46460137--46460243	45	2.4	45	82	3	135	41	18	18	21	1.91
46460221--46460245	12	2.1	12	100	0	50	40	20	24	16	1.91
46461315--46461380	5	14.0	5	87	12	104	60	0	0	39	0.97
46461315--46461380	13	4.7	14	94	5	100	60	0	0	39	0.97
46461765--46461878	33	3.5	33	74	8	83	27	28	17	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46461857--46462089	117	2.0	117	90	1	369	29	24	12	33	1.92
46466866--46466926	3	21.3	3	83	6	65	68	0	31	0	0.89
46468147--46468215	31	2.2	32	80	10	81	26	11	17	44	1.82
46475874--46475930	29	1.9	29	86	10	80	52	8	5	33	1.55
46477233--46477266	13	2.6	14	86	13	54	73	0	0	26	0.83
46478571--46478613	18	2.4	18	88	7	61	46	0	0	53	1.00
46483255--46483319	18	3.4	18	76	12	67	38	9	29	23	1.85
46486819--46486882	26	2.7	22	71	17	65	53	4	4	37	1.43
46486895--46486959	31	2.1	31	85	0	85	46	3	4	46	1.39
46487489--46487548	22	3.0	20	75	20	61	75	1	0	23	0.90
46487495--46487548	12	3.9	15	79	16	62	75	1	0	22	0.89
46487508--46487552	12	3.6	12	88	11	72	75	0	0	24	0.80
46487489--46487552	26	2.4	27	89	5	94	73	1	0	25	0.92
46487492--46487559	14	4.9	14	82	8	77	72	1	0	26	0.94
46491218--46491242	6	4.2	6	100	0	50	16	0	0	84	0.63
46491931--46491974	23	1.9	23	90	0	70	36	0	0	63	0.95
46491933--46491957	7	3.6	7	100	0	50	36	0	0	64	0.94
46493973--46494000	3	9.3	3	100	0	56	67	0	32	0	0.91
46494925--46494971	21	2.2	22	92	3	78	21	38	19	21	1.94
46499398--46499427	8	3.9	8	91	8	53	0	10	0	90	0.47
46499399--46499427	15	1.9	15	100	0	58	0	10	0	89	0.48
46500164--46500323	43	3.8	42	78	4	153	33	18	23	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46500164--46500323	41	3.8	41	75	9	135	33	18	23	24	1.97
46500403--46500483	31	2.5	33	82	4	94	58	20	6	14	1.58
46500718--46500772	21	2.6	21	79	0	56	5	49	16	29	1.68
46501183--46501211	14	2.1	14	93	6	51	58	6	0	34	1.25
46505699--46505752	9	6.0	9	75	0	54	33	1	16	48	1.57
46505698--46505751	18	3.0	18	77	0	63	35	1	14	48	1.55
46507319--46507385	24	2.8	24	80	19	77	14	28	23	32	1.95
46522779--46522820	5	8.8	5	89	5	61	83	0	0	16	0.65
46530611--46530651	20	2.2	19	87	12	59	68	4	12	14	1.36
46539806--46539866	30	2.0	30	83	0	77	31	22	8	37	1.84
46542470--46542505	17	2.0	18	89	10	56	0	27	0	72	0.85
46542479--46542526	25	1.9	25	86	0	69	0	27	4	68	1.07
46542479--46542526	21	2.3	21	82	13	55	0	27	4	68	1.07
46544564--46544597	6	5.3	6	86	13	50	20	0	2	76	0.92
46548627--46548673	21	2.2	21	96	0	85	25	25	8	40	1.84
46556463--46556496	9	3.8	9	84	0	50	23	8	8	58	1.56
46557540--46557574	17	2.1	16	89	5	52	28	20	0	51	1.47
46559579--46559652	25	3.0	25	84	4	78	70	2	4	22	1.17
46560464--46560549	23	3.7	23	81	4	84	44	15	9	31	1.78
46560940--46561019	40	2.0	40	100	0	160	17	32	10	40	1.83
46568555--46568672	9	12.7	9	67	19	55	29	2	5	62	1.30
46578081--46578190	26	4.2	26	90	2	159	35	23	5	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46579297--46579328	15	2.1	15	100	0	64	40	0	21	37	1.54
46581340--46581616	138	2.0	138	88	0	410	41	8	5	45	1.56
46583592--46583718	55	2.3	55	79	5	132	29	25	25	18	1.98
46584914--46584982	32	2.2	32	100	0	138	24	5	23	46	1.74
46585313--46585338	4	6.5	4	100	0	52	50	23	0	26	1.50
46586556--46586595	15	2.8	14	88	7	62	27	7	7	57	1.53
46594881--46595052	67	2.7	64	77	7	195	29	18	29	23	1.97
46599523--46599568	22	2.1	22	88	8	67	39	0	26	34	1.57
46601112--46601140	3	9.7	3	100	0	58	0	0	31	68	0.89
46605899--46605932	16	2.1	16	88	0	50	70	0	0	29	0.87
46612447--46612607	79	2.0	80	95	1	288	45	8	3	42	1.51
46613253--46613291	20	2.0	20	85	10	53	43	17	5	33	1.72
46615723--46615766	19	2.2	20	88	4	63	43	9	0	47	1.35
46616632--46617008	114	3.4	108	82	10	395	31	15	20	32	1.94
46616620--46617070	111	4.0	112	80	11	480	30	17	19	32	1.95
46617181--46617268	28	3.0	28	86	6	113	22	0	26	51	1.49
46617181--46617268	31	3.0	29	86	9	117	22	0	26	51	1.49
46625585--46625615	16	1.9	16	93	0	53	22	12	3	61	1.46
46625620--46625644	5	5.0	5	100	0	50	40	0	0	60	0.97
46625925--46625978	5	10.2	5	80	11	63	33	7	0	59	1.25
46625925--46626003	38	2.1	38	85	4	106	30	8	1	59	1.36
46626011--46626054	21	2.1	21	86	0	61	34	2	6	56	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46626406--46626473	5	13.0	5	90	6	100	36	4	0	58	1.18
46626487--46626535	21	2.3	20	83	10	62	38	4	4	53	1.39
46626498--46626543	21	2.2	21	92	0	74	32	4	4	58	1.37
46626662--46626732	36	2.1	35	84	10	94	25	8	0	66	1.20
46629904--46630056	52	2.9	52	86	3	182	24	26	16	32	1.96
46632922--46633238	58	5.5	58	72	12	247	31	17	18	32	1.95
46632797--46633237	114	3.9	115	81	5	411	29	16	17	35	1.92
46634193--46634258	30	2.2	32	83	8	84	51	10	0	37	1.37
46634214--46634276	30	2.2	30	83	10	80	58	3	0	38	1.14
46638135--46638242	26	4.2	26	93	0	189	32	7	24	36	1.83

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