genome.fa.s2.2.7.7.80.10.50.1000.313.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_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   

This is table  313  of  322  ( 38559 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)
103908950--103909314	96	3.8	94	76	8	328	28	19	27	24	1.98
103916911--103917031	43	2.8	43	79	12	133	28	27	18	25	1.98
103919064--103919103	21	2.0	21	95	5	73	10	37	25	27	1.88
103925291--103925561	48	5.7	47	74	6	224	29	19	26	23	1.99
103925278--103925561	96	3.0	95	81	6	340	28	19	27	25	1.99
103932187--103932227	21	2.0	21	85	9	57	46	2	0	51	1.14
103935767--103935844	29	2.7	28	84	11	104	25	15	30	28	1.96
103935797--103936124	174	1.9	174	97	0	620	29	14	24	30	1.95
103948015--103948129	43	2.7	43	84	2	151	32	25	16	26	1.96
103948680--103948722	20	2.1	21	86	4	61	39	20	0	39	1.53
103955673--103955796	43	2.9	43	78	7	137	29	27	16	25	1.97
103958200--103958403	40	5.1	39	88	4	291	25	26	24	23	2.00
103973601--103973863	40	6.6	40	91	3	392	27	26	22	22	1.99
103982529--103982713	40	4.6	41	82	9	215	24	22	27	25	2.00
103982582--103982746	79	2.1	79	83	6	201	26	21	26	25	1.99
103984718--103984802	44	1.9	44	97	0	161	20	30	7	42	1.78
103984720--103984820	44	2.3	44	85	0	130	19	25	7	46	1.77
103985703--103985747	23	2.0	23	95	0	81	26	6	28	37	1.82
103997691--103997731	20	2.0	21	86	9	59	53	9	7	29	1.60
104001608--104001730	43	2.9	42	77	7	140	30	26	13	30	1.94
104005020--104005128	56	2.0	55	88	1	164	24	21	24	29	1.99
104005379--104005468	45	2.0	45	100	0	180	46	20	22	11	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104006170--104006267	24	4.0	24	82	11	128	37	4	34	23	1.74
104013832--104013953	43	2.9	42	74	11	122	28	22	16	31	1.96
104015364--104015443	27	2.9	27	88	5	115	32	21	25	21	1.98
104015559--104015651	28	3.3	28	87	3	134	30	6	27	35	1.82
104016718--104016750	12	2.6	13	85	9	50	45	0	45	9	1.35
104017579--104017611	11	3.1	11	86	8	50	30	0	18	51	1.46
104017577--104017630	23	2.5	21	81	6	63	25	0	14	59	1.36
104021845--104022032	27	7.0	27	84	3	236	41	19	7	31	1.79
104021848--104022086	54	4.4	54	84	1	255	40	20	7	30	1.81
104021845--104022080	81	2.9	81	82	6	246	41	19	8	31	1.80
104021854--104022087	27	8.7	27	80	6	172	41	20	8	30	1.81
104022122--104022374	81	3.1	81	87	0	272	36	18	20	25	1.95
104022125--104022374	27	9.3	27	82	0	239	35	18	20	25	1.95
104022715--104022770	27	2.1	26	83	3	67	19	25	21	33	1.97
104022740--104022815	37	2.1	37	100	0	152	18	27	21	32	1.96
104022926--104023103	6	28.8	6	73	16	141	18	18	14	48	1.81
104022985--104023049	25	2.6	26	92	4	107	20	18	15	46	1.84
104023004--104023091	37	2.4	37	88	0	131	19	18	14	47	1.82
104022953--104023091	19	7.4	18	73	15	77	18	18	15	47	1.83
104023229--104023341	59	1.9	58	94	1	199	25	25	10	38	1.88
104025074--104025234	27	6.0	27	87	1	216	39	19	8	32	1.81
104025071--104025235	54	3.0	54	90	2	251	38	20	7	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104025083--104025289	54	3.8	54	85	5	222	40	20	8	30	1.83
104025083--104025261	81	2.2	81	84	4	218	41	20	7	30	1.79
104025083--104025289	27	7.7	27	79	6	145	40	20	8	30	1.83
104025254--104025343	27	3.3	27	70	4	74	34	24	12	28	1.91
104025327--104025576	27	9.3	27	82	0	248	34	18	21	26	1.95
104025325--104025576	81	3.1	81	85	0	306	35	17	21	25	1.95
104025917--104025972	27	2.1	26	83	3	67	19	25	21	33	1.97
104026091--104026278	6	30.3	6	72	18	127	21	18	12	47	1.81
104026097--104026215	25	4.5	25	67	20	80	23	18	11	46	1.82
104026170--104026257	37	2.4	37	86	0	122	20	19	12	47	1.81
104026091--104026251	62	2.7	61	86	7	215	21	18	12	47	1.82
104027628--104027709	41	2.0	41	92	0	137	32	35	12	19	1.89
104033741--104033952	106	2.0	106	97	0	397	34	7	22	35	1.82
104035833--104035902	27	2.6	27	95	2	113	31	28	12	27	1.93
104035833--104035930	28	3.5	28	90	2	135	31	28	13	26	1.94
104040475--104040791	49	6.5	49	94	2	523	29	28	8	33	1.86
104044507--104044646	70	2.0	70	94	2	246	32	6	26	34	1.82
104044932--104045260	49	6.7	49	96	0	577	34	7	27	30	1.85
104051090--104051128	18	2.2	18	100	0	78	41	7	25	25	1.82
104051053--104051165	55	2.1	55	94	0	199	39	13	22	24	1.90
104051108--104051198	37	2.5	37	92	0	155	37	12	23	27	1.90
104051160--104051283	46	2.8	46	91	3	200	33	16	22	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104054644--104054864	49	4.4	49	87	2	280	29	27	17	25	1.98
104054683--104054864	99	1.8	101	89	2	287	29	26	17	26	1.98
104077446--104077516	22	3.1	22	80	10	63	73	1	11	14	1.17
104077448--104077519	17	4.5	16	79	10	67	72	1	12	13	1.20
104077607--104077643	14	2.6	14	100	0	74	8	13	51	27	1.69
104085800--104085881	41	2.0	41	97	0	155	30	20	9	39	1.85
104086924--104087399	243	2.0	243	91	0	781	36	18	17	27	1.93
104093439--104093501	30	2.1	30	91	5	101	25	4	11	58	1.51
104096855--104096885	2	15.5	2	100	0	62	0	51	0	48	1.00
104097673--104097759	43	2.0	43	97	0	165	31	4	40	24	1.75
104106208--104106273	21	3.2	21	78	6	73	57	7	1	33	1.36
104106463--104106506	9	4.5	10	83	16	65	59	2	0	38	1.10
104106618--104106684	23	2.8	25	77	11	68	56	5	2	34	1.39
104106618--104106742	24	5.1	24	75	17	80	58	4	2	34	1.32
104106676--104106750	24	3.0	24	78	16	89	58	2	2	36	1.26
104106677--104106750	26	2.9	26	76	9	89	58	2	2	36	1.27
104106790--104106867	3	24.7	3	75	12	59	60	7	0	32	1.25
104108478--104108691	92	2.3	92	93	0	365	38	21	15	24	1.92
104108478--104108956	87	5.4	87	81	6	405	36	18	16	27	1.93
104108564--104108956	173	2.2	173	81	7	438	35	19	17	27	1.94
104108913--104109119	75	2.8	75	83	8	248	32	18	14	33	1.92
104112159--104112221	21	3.0	21	95	0	117	14	12	38	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104121026--104121091	21	3.2	21	78	6	73	57	7	1	33	1.36
104121080--104121115	3	12.0	3	93	0	63	63	0	0	36	0.94
104121289--104121336	13	3.9	12	84	12	62	60	2	0	37	1.09
104121307--104121340	11	3.3	11	84	16	54	55	5	0	38	1.24
104121442--104121497	23	2.4	25	76	11	64	57	7	3	32	1.43
104121465--104121534	32	2.2	32	82	12	81	54	4	1	40	1.29
104121506--104121871	48	7.7	46	68	13	215	56	7	3	33	1.42
104121558--104121904	28	12.4	27	66	21	109	56	6	2	34	1.38
104121560--104121653	39	2.3	41	78	16	104	57	5	1	36	1.28
104121560--104121762	24	8.7	22	70	18	92	56	5	1	35	1.35
104121497--104121901	142	2.8	142	97	1	756	56	6	2	33	1.40
104121477--104121901	49	9.1	46	67	19	199	56	6	2	34	1.40
104122942--104123251	158	2.0	152	95	3	557	14	8	30	47	1.73
104124394--104124527	38	3.5	38	82	2	151	19	23	26	31	1.98
104130311--104130395	38	2.2	38	93	0	143	18	27	27	27	1.98
104130311--104130414	38	2.7	38	90	0	136	20	25	25	29	1.99
104130311--104130443	38	3.4	38	84	2	104	20	24	24	30	1.98
104138670--104138711	19	2.2	19	91	0	66	71	0	7	21	1.09
104138987--104139045	11	6.0	10	76	13	52	61	5	0	33	1.18
104139005--104139039	17	2.0	17	88	5	52	68	0	0	31	0.90
104139296--104139329	15	2.3	15	89	0	50	23	2	0	73	0.97
104139315--104139359	22	2.1	22	88	8	67	31	8	0	60	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104139325--104139370	21	2.2	21	84	7	58	28	8	0	63	1.24
104139383--104139431	26	1.9	26	87	4	73	30	2	6	61	1.32
104139417--104139459	9	4.7	9	80	5	50	20	2	4	72	1.14
104139418--104139459	19	2.2	19	83	8	50	19	2	4	73	1.12
104139417--104139475	28	2.1	29	84	15	79	23	1	5	69	1.18
104139787--104139845	19	3.1	20	81	13	63	28	5	1	64	1.24
104140020--104140069	19	2.5	20	83	6	57	32	2	4	62	1.25
104140033--104140091	19	3.0	19	80	5	64	25	3	5	66	1.28
104143119--104143158	21	2.0	21	85	5	55	40	20	17	22	1.92
104143240--104143288	18	2.7	18	81	9	55	40	0	0	59	0.98

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   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322