genome.fa.s2.2.7.7.80.10.50.1000.94.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  94  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)
30468189--30469506	555	2.4	558	87	3	1839	26	22	17	33	1.96
30478578--30478716	46	3.0	47	82	4	147	35	15	24	25	1.94
30478588--30478697	48	2.3	46	84	3	139	35	15	21	27	1.94
30488922--30488964	21	2.0	21	95	0	77	18	23	34	23	1.96
30498252--30498336	45	1.9	44	87	2	125	45	9	12	31	1.74
30510310--30510373	32	2.0	31	85	8	85	60	1	1	35	1.15
30510314--30510425	9	12.8	9	66	21	51	58	3	1	35	1.26
30515661--30515802	71	2.0	72	94	4	252	40	9	12	38	1.75
30519237--30519359	48	2.6	48	92	0	201	34	25	20	19	1.96
30520867--30521081	94	2.3	90	88	4	315	26	19	30	22	1.98
30520864--30521081	46	4.8	45	80	8	235	26	20	30	22	1.98
30520861--30521126	90	2.9	89	78	11	279	26	19	30	23	1.98
30520869--30521118	46	5.5	44	77	11	148	27	19	29	24	1.98
30524424--30524531	48	2.2	48	91	6	175	34	20	22	23	1.97
30527868--30528045	27	6.6	27	79	3	115	28	28	16	26	1.97
30527868--30528045	54	3.3	55	80	10	204	28	28	16	26	1.97
30527889--30528044	82	1.9	81	85	3	215	28	28	16	26	1.97
30532473--30532583	29	3.9	28	85	2	132	27	13	29	28	1.94
30536924--30536984	32	1.9	32	89	0	95	50	18	19	11	1.76
30536923--30536991	16	4.4	15	74	13	59	50	20	18	10	1.75
30537097--30537152	19	3.0	19	84	2	69	30	14	37	17	1.90
30537233--30537339	29	3.7	29	76	6	110	25	15	33	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30541329--30541365	19	2.0	18	89	5	56	27	16	37	18	1.92
30576972--30577026	28	2.0	28	88	0	83	23	16	32	27	1.96
30576973--30577042	28	2.5	28	80	2	77	28	15	32	22	1.95
30577343--30577816	27	17.6	27	75	7	279	37	20	11	30	1.87
30577343--30577816	54	8.8	53	80	5	414	37	20	11	30	1.87
30577343--30577816	81	5.9	80	78	4	409	37	20	11	30	1.87
30577770--30577831	27	2.3	27	88	5	90	38	11	12	37	1.80
30577785--30577861	27	2.9	27	84	0	91	35	19	18	27	1.95
30577836--30578196	120	3.0	120	99	0	713	27	16	21	34	1.95
30579963--30580028	32	2.1	32	100	0	132	30	22	18	28	1.97
30583099--30583251	44	3.6	42	75	11	141	32	26	15	25	1.96
30586467--30586543	40	1.9	40	81	0	91	22	24	18	35	1.96
30587995--30588071	37	2.1	37	97	0	145	37	19	23	19	1.94
30588059--30588121	22	2.9	22	81	9	65	34	14	28	22	1.93
30589417--30589529	29	4.0	29	79	2	104	28	25	15	30	1.96
30589740--30589782	8	5.4	8	82	0	59	6	23	20	48	1.73
30589740--30589782	16	2.7	16	92	0	77	6	23	20	48	1.73
30593894--30594003	29	3.9	29	80	3	125	28	30	15	25	1.96
30594240--30594284	16	2.8	16	77	12	56	11	22	17	48	1.78
30599275--30599358	26	3.2	25	78	6	96	38	13	9	39	1.77
30599492--30599527	18	2.0	18	88	0	54	19	22	0	58	1.40
30603232--30603310	10	7.7	10	71	19	56	67	2	1	29	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30603572--30603644	27	2.8	24	73	16	67	34	1	2	61	1.19
30604696--30604771	37	2.1	36	83	11	93	40	2	2	53	1.28
30605696--30605734	19	2.1	19	85	9	53	41	0	2	56	1.13
30612449--30612524	11	6.8	11	70	24	52	42	1	2	53	1.23
30612467--30612593	68	1.9	68	83	6	168	44	3	3	48	1.34
30613724--30613810	22	4.0	22	86	0	111	29	27	31	11	1.92
30615868--30615895	14	2.0	14	100	0	56	14	21	14	50	1.78
30619594--30619643	6	8.2	6	93	2	55	16	26	0	58	1.38
30619594--30619643	12	4.1	12	86	2	64	16	26	0	58	1.38
30619594--30619642	18	2.7	18	90	3	71	16	26	0	57	1.40
30621473--30621568	45	2.1	46	86	7	133	38	7	2	52	1.41
30621976--30622036	31	2.0	31	100	0	122	31	22	6	39	1.80
30622880--30622913	16	2.1	16	88	0	50	70	2	0	26	1.01
30626774--30626818	22	2.0	22	91	0	72	33	2	15	48	1.57
30630554--30630598	22	2.0	22	91	0	72	33	2	15	48	1.57
30640649--30640718	10	7.0	10	90	4	106	70	1	8	20	1.22
30640738--30640770	13	2.4	14	90	5	50	42	12	0	45	1.41
30642121--30642159	21	1.9	20	89	5	60	48	20	2	28	1.62
30647379--30647424	23	2.0	23	100	0	92	34	17	26	21	1.95
30669024--30669147	40	3.1	40	89	2	178	28	21	24	25	1.99
30669033--30669157	39	3.2	39	90	1	178	25	22	27	24	2.00
30669086--30669170	39	2.2	39	91	0	134	25	22	29	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30677804--30677901	51	1.9	51	95	0	178	32	10	16	40	1.82
30685707--30685899	64	3.0	64	100	0	386	43	9	20	26	1.82
30687499--30687542	15	2.9	15	89	0	70	31	36	13	18	1.90
30687562--30687629	33	2.1	33	86	5	93	22	36	23	17	1.94
30687838--30687878	21	2.0	21	85	9	57	21	29	19	29	1.98
30687898--30687939	15	2.8	15	85	0	57	42	11	21	23	1.86
30689843--30689887	21	2.1	21	84	8	56	42	8	4	44	1.56
30690706--30690755	23	2.3	21	83	13	57	42	20	2	36	1.63
30691385--30691431	23	2.0	23	100	0	94	44	8	4	42	1.54
30693732--30693782	26	2.0	26	84	0	66	19	29	19	31	1.97
30698845--30698942	49	2.0	51	83	4	128	27	39	17	15	1.89
30708102--30708143	18	2.3	18	95	0	75	50	0	2	47	1.14
30716509--30716584	33	2.2	33	88	4	107	38	13	6	42	1.70
30716565--30717691	620	1.8	620	83	5	1522	34	21	11	33	1.88
30720091--30720134	13	3.4	14	82	17	60	68	0	0	31	0.90
30725532--30725609	29	2.7	29	86	4	104	25	19	32	23	1.98
30729910--30730220	55	5.8	54	81	6	362	21	23	18	36	1.95
30729910--30730206	108	2.7	108	93	1	479	21	23	18	35	1.96
30730197--30730314	47	2.5	47	88	0	182	24	22	14	38	1.92
30734848--30734945	27	3.5	28	88	5	128	25	13	28	32	1.93
30734876--30734960	27	3.0	27	87	5	98	30	11	24	32	1.91
30740017--30740090	29	2.6	29	86	4	96	25	31	16	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30744153--30744310	27	5.9	27	80	12	166	34	21	25	18	1.96
30744171--30744310	53	2.6	54	86	4	212	35	22	25	17	1.95
30744725--30744756	16	2.1	15	94	5	55	9	18	21	50	1.75
30745920--30746027	26	4.2	26	89	0	171	37	23	6	32	1.80
30752864--30753016	43	3.5	44	79	11	165	32	24	16	25	1.96
30752864--30753013	42	3.5	41	80	9	149	32	24	16	26	1.96
30755912--30756002	37	2.4	37	83	8	114	9	8	42	38	1.69
30763141--30763198	27	2.1	27	81	12	66	50	10	22	17	1.76
30763360--30763441	39	2.1	40	90	2	130	50	14	10	24	1.75
30768660--30768799	70	2.0	71	95	1	255	23	14	27	35	1.93
30768764--30768948	79	2.3	81	83	9	229	24	22	27	25	2.00
30768765--30768948	40	4.6	39	81	11	189	25	22	27	25	2.00
30768765--30768981	79	2.7	79	80	9	194	26	22	27	24	2.00
30771024--30771089	5	12.4	5	85	9	87	40	1	1	56	1.18
30771541--30771594	22	2.5	22	81	0	63	31	16	20	31	1.95
30772321--30772352	16	1.9	17	93	6	57	75	0	6	18	1.01
30772482--30772561	3	27.3	3	81	9	60	28	8	1	61	1.34
30772483--30772564	26	2.9	26	77	19	92	28	9	1	60	1.35
30772485--30772561	32	2.4	32	79	16	104	28	9	1	61	1.35
30779823--30779868	23	2.0	23	82	0	56	23	30	8	36	1.85
30788997--30789035	16	2.4	16	100	0	78	38	5	43	12	1.65
30793960--30794334	44	8.5	44	74	1	230	31	18	20	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30793962--30794222	132	2.0	133	86	0	362	32	17	20	29	1.95
30793962--30794294	133	2.5	132	83	1	389	31	19	20	28	1.97
30801884--30802005	49	2.5	49	78	1	118	31	19	26	22	1.98
30810653--30810720	29	2.3	29	85	5	93	27	30	13	27	1.94
30810542--30810869	174	1.9	174	95	0	593	30	24	14	30	1.95
30810822--30810900	29	2.7	30	82	13	110	30	30	13	25	1.94
30823511--30823631	64	1.9	64	91	3	199	39	14	10	34	1.81
30823511--30823651	64	2.2	64	87	2	194	37	17	11	33	1.86
30825587--30825701	43	2.7	43	87	2	160	24	17	24	33	1.96
30825587--30825735	43	3.5	42	81	7	131	26	16	24	32	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   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