genome.fa.s12.2.7.7.80.10.50.1000.176.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  176  of  276  ( 33102 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)
57916204--57916254	21	2.4	21	86	0	75	23	35	5	35	1.79
57916199--57916237	18	2.2	18	85	0	51	20	35	5	38	1.75
57916201--57916283	39	2.0	42	80	15	95	26	33	8	31	1.86
57922150--57922217	33	2.1	33	91	0	109	30	19	22	27	1.97
57926187--57926211	12	2.1	12	100	0	50	52	8	8	32	1.60
57931746--57931795	26	1.9	26	91	0	82	42	4	22	32	1.72
57936590--57936762	47	3.7	46	76	13	158	29	27	19	23	1.98
57938371--57938548	46	3.9	44	80	13	155	28	19	29	23	1.98
57943943--57944113	93	1.8	93	96	0	315	28	29	21	21	1.98
57943935--57944110	46	3.8	46	80	12	225	28	28	21	21	1.98
57948713--57948880	46	3.7	46	83	7	193	26	19	30	24	1.98
57953889--57953953	20	3.4	19	75	10	51	69	1	1	27	1.07
57954293--57954335	18	2.4	18	76	11	52	23	6	4	65	1.37
57960116--57960207	39	2.3	39	88	5	132	25	28	22	23	2.00
57960097--57960260	40	4.1	40	78	10	167	24	26	23	25	2.00
57961430--57961661	56	4.1	56	98	0	446	22	22	9	45	1.80
57969857--57970024	39	4.3	39	95	0	293	17	21	29	30	1.96
57980164--57980219	29	1.9	29	85	0	76	25	0	14	60	1.34
57980160--57980226	29	2.3	28	79	5	71	25	0	14	59	1.36
57988313--57988579	28	9.7	28	97	0	443	31	28	13	26	1.94
57990628--57990657	13	2.3	13	100	0	60	33	20	23	23	1.97
57992710--57992811	52	2.0	52	86	3	143	26	16	25	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57992857--57993494	319	2.0	319	99	0	1249	28	17	23	30	1.97
57997123--57997176	27	2.0	27	96	0	99	24	22	12	40	1.89
57997127--57997185	27	2.2	27	87	0	82	23	20	8	47	1.77
58005086--58005169	42	2.0	43	92	2	143	30	17	23	27	1.97
58007062--58007156	40	2.4	40	78	3	111	22	15	27	34	1.94
58019462--58019739	139	2.0	139	100	0	556	32	15	20	30	1.94
58043243--58043441	50	4.0	49	82	2	211	27	18	24	29	1.98
58043254--58043441	99	1.9	101	83	4	247	28	18	23	29	1.98
58064772--58064834	31	2.0	31	96	0	117	30	9	31	28	1.89
58071746--58071856	27	4.1	27	82	7	127	19	23	20	36	1.95
58071746--58071856	55	2.0	54	84	5	143	19	23	20	36	1.95
58079550--58079656	55	2.0	54	85	5	144	21	23	19	35	1.96
58079551--58079656	27	3.9	27	86	4	133	21	23	19	34	1.96
58093824--58094008	50	3.7	49	84	1	208	25	19	25	29	1.99
58104590--58104651	23	2.6	23	78	17	63	48	11	0	40	1.39
58109681--58109737	25	2.3	25	90	6	89	36	3	38	21	1.70
58111135--58111245	27	4.1	27	85	1	143	15	22	22	39	1.91
58111136--58111241	54	2.0	53	88	1	158	16	21	21	40	1.91
58114121--58114373	68	3.9	63	77	10	201	29	17	28	24	1.97
58114190--58114373	67	2.8	64	77	8	203	29	17	29	23	1.97
58120967--58121078	27	4.2	26	82	7	116	39	22	21	16	1.92
58122486--58122532	24	2.0	24	91	0	76	23	38	2	36	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58127042--58127088	24	2.0	24	86	0	67	21	38	2	38	1.65
58130993--58131256	40	6.7	40	89	5	360	25	21	27	25	1.99
58130993--58131289	119	2.5	118	81	9	338	26	21	27	25	1.99
58143597--58143658	30	2.1	30	96	0	115	27	16	20	35	1.94
58147879--58148040	42	3.8	42	81	6	166	30	17	24	27	1.97
58150155--58150533	48	7.9	48	76	7	256	26	18	30	24	1.98
58150152--58150482	144	2.3	144	82	1	394	26	18	30	24	1.98
58150162--58150534	144	2.6	140	77	5	368	26	19	30	23	1.98
58150165--58150526	96	3.8	96	78	5	349	26	18	30	23	1.98
58154141--58154205	33	2.0	33	90	0	103	33	15	21	29	1.94
58162630--58162764	13	10.6	13	77	19	135	14	0	48	37	1.43
58162636--58162702	35	1.9	35	100	0	134	10	0	50	38	1.37
58162634--58162711	35	2.2	34	90	4	129	11	0	50	38	1.39
58162645--58162760	57	2.0	60	91	6	193	13	0	47	38	1.43
58163084--58163530	132	3.4	132	95	0	777	25	25	18	30	1.98
58163022--58163511	44	11.2	44	75	7	408	25	25	18	30	1.98
58163433--58163803	186	2.0	186	98	0	724	30	19	21	28	1.97
58163807--58164573	132	5.8	132	97	0	1392	26	23	19	30	1.98
58163082--58164573	396	3.7	395	76	12	1605	27	22	19	29	1.98
58164545--58164604	31	1.9	31	93	0	102	26	21	18	33	1.96
58164580--58164913	44	7.6	44	74	9	277	26	24	17	30	1.97
58164413--58164736	163	2.0	163	95	0	576	26	23	18	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58164281--58164868	295	2.0	295	94	0	1041	26	23	19	30	1.98
58164576--58164900	132	2.5	132	94	0	569	27	24	18	30	1.98
58164925--58165402	204	2.3	205	89	0	742	30	20	17	30	1.96
58165560--58165681	61	1.9	65	90	6	198	36	12	17	33	1.87
58170054--58170100	19	2.5	20	89	6	71	42	8	21	27	1.81
58172553--58172638	8	10.1	8	76	22	52	69	1	3	25	1.11
58172551--58172638	24	3.8	23	71	12	65	69	1	3	26	1.11
58173020--58173069	22	2.3	22	96	0	91	12	0	52	36	1.39
58174067--58174135	33	2.1	33	94	0	120	18	20	23	37	1.94
58179347--58179432	43	2.0	43	100	0	172	30	9	23	37	1.86
58186941--58187052	42	2.7	42	80	2	118	33	14	23	28	1.94
58187276--58187305	15	1.9	16	93	6	53	26	0	33	40	1.57
58191753--58191812	28	2.1	28	90	6	95	35	13	23	28	1.92
58191840--58191987	51	2.9	50	86	4	208	31	12	24	31	1.93
58196294--58196343	26	1.9	26	91	0	82	26	14	36	24	1.93
58196316--58196790	47	10.1	47	95	0	815	31	8	30	29	1.88
58196909--58196987	37	2.1	37	88	0	113	24	20	30	25	1.98
58201875--58202004	48	2.7	48	81	9	149	26	18	27	26	1.98
58209069--58209330	39	6.7	40	88	7	337	24	27	22	25	2.00
58221636--58221734	50	2.0	49	97	0	180	24	19	16	39	1.91
58225899--58225962	28	2.3	28	97	0	119	34	14	25	26	1.94
58225986--58226287	51	5.9	51	95	0	507	30	14	24	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58226975--58227011	15	2.3	17	90	9	60	45	18	2	32	1.64
58228291--58228435	43	3.4	43	77	12	145	29	24	17	28	1.97
58249193--58249217	13	1.9	13	100	0	50	40	24	4	32	1.73
58253946--58254056	43	2.6	43	80	7	129	28	25	19	26	1.99
58253946--58254104	85	1.9	85	84	7	216	30	26	18	24	1.98
58257118--58257326	28	7.6	27	91	4	310	31	29	13	25	1.94
58257118--58257351	56	4.2	56	88	1	301	31	29	13	25	1.93
58257118--58257326	84	2.5	83	92	1	355	31	29	13	25	1.94
58265193--58266191	47	21.3	47	98	0	1908	32	8	29	29	1.87
58266371--58266445	37	2.0	37	87	5	107	22	20	30	26	1.98
58269908--58270012	38	2.8	38	86	0	138	21	20	27	29	1.98
58269984--58270159	43	4.1	43	88	1	257	12	23	32	31	1.92
58284618--58284836	46	4.7	46	72	8	165	29	19	27	23	1.98
58284615--58284836	93	2.4	94	83	3	286	28	20	27	23	1.99
58295038--58295379	114	3.0	114	100	0	684	35	20	9	34	1.85
58295734--58295833	27	3.7	27	83	0	110	29	27	20	24	1.99
58299797--58299934	46	3.0	46	100	0	276	28	17	10	43	1.82
58300239--58300299	20	3.2	19	77	6	61	54	3	3	39	1.33
58300291--58300339	26	1.9	26	87	4	73	46	0	0	53	1.00
58301755--58301785	14	2.2	14	94	0	53	48	12	0	38	1.42
58304097--58304265	41	4.1	42	78	11	145	25	28	21	23	1.99
58304119--58304266	41	3.6	41	81	7	185	26	27	22	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58320200--58320283	30	2.9	29	77	8	89	28	27	15	28	1.96
58322909--58322965	28	2.1	27	83	3	69	19	24	22	33	1.97
58329760--58329816	28	2.1	27	83	9	71	33	19	22	24	1.97
58334696--58334870	46	3.8	46	77	15	180	29	29	19	21	1.98
58334704--58334875	93	1.8	93	89	0	272	29	29	19	21	1.98
58334747--58334890	46	3.1	47	71	16	138	29	27	19	23	1.98
58337510--58337612	51	2.0	51	94	0	179	36	29	14	19	1.91
58346930--58346990	30	2.0	30	83	0	77	31	22	8	37	1.84
58349010--58349167	33	4.7	33	70	6	129	26	25	17	31	1.97
58348998--58349338	101	3.4	101	87	2	497	28	24	15	31	1.96

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