genome.fa.s9.2.7.7.80.10.50.1000.122.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  122  of  284  ( 34012 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)
40462131--40462472	121	2.8	120	77	6	343	25	25	23	25	2.00
40462131--40462472	81	4.3	81	86	4	399	25	25	23	25	2.00
40468810--40468920	24	4.6	24	72	12	84	21	13	30	34	1.92
40471947--40472169	40	5.6	40	86	3	236	24	21	27	26	1.99
40472022--40472204	79	2.3	80	82	1	226	25	20	27	25	1.99
40479858--40480160	40	7.6	40	90	2	405	24	20	27	27	1.99
40487099--40487263	24	6.9	24	80	7	165	20	12	31	35	1.90
40487099--40487263	48	3.4	48	79	9	183	20	12	31	35	1.90
40487099--40487263	72	2.3	72	84	2	206	20	12	31	35	1.90
40488496--40488549	27	2.0	27	100	0	108	44	3	18	33	1.67
40499719--40499864	40	3.7	40	93	0	240	20	25	29	24	1.99
40509848--40509879	15	2.0	17	88	11	50	43	31	0	25	1.55
40520431--40520470	21	2.0	21	85	5	55	30	22	32	15	1.94
40529205--40529259	21	2.5	22	85	2	67	16	34	32	16	1.91
40531195--40531400	23	8.7	23	80	12	229	26	23	21	29	1.99
40531195--40531400	49	4.4	45	79	15	202	26	23	21	29	1.99
40531195--40531400	72	2.9	72	91	2	308	26	23	21	29	1.99
40540505--40540756	40	6.3	40	88	4	359	26	21	26	25	1.99
40568208--40568237	15	2.0	15	100	0	60	60	13	13	13	1.60
40571935--40572187	63	4.0	63	98	0	488	36	7	21	33	1.82
40574892--40575096	28	7.4	28	87	3	272	26	12	29	31	1.93
40574917--40575096	55	3.3	55	94	1	299	27	12	28	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40574917--40575096	83	2.2	82	92	1	297	27	12	28	30	1.93
40579027--40579067	20	2.0	21	85	4	57	26	17	21	34	1.95
40582692--40582718	9	3.0	9	100	0	54	22	33	11	33	1.89
40582835--40582895	16	3.8	16	72	8	52	13	11	19	55	1.67
40587530--40587727	98	2.0	96	97	1	369	26	23	25	24	2.00
40589851--40590022	79	2.2	79	84	3	220	25	21	27	25	1.99
40589798--40590020	40	5.6	39	81	8	209	25	21	27	25	1.99
40589878--40590055	79	2.2	80	80	3	191	25	21	28	24	1.99
40594771--40594837	29	2.3	29	84	5	91	28	29	13	28	1.94
40594659--40594986	174	1.9	174	96	0	602	30	24	14	30	1.94
40594939--40595017	29	2.7	30	82	13	110	29	30	15	25	1.96
40598332--40598421	27	3.4	26	75	6	74	38	17	20	23	1.93
40599450--40599585	43	3.2	42	82	7	159	33	27	16	22	1.96
40611199--40611423	40	5.7	40	84	5	278	25	28	21	24	1.99
40611201--40611423	119	1.9	120	82	6	283	25	28	21	24	1.99
40616643--40616779	43	3.2	43	83	7	174	32	26	17	24	1.97
40621503--40621757	55	4.8	54	76	12	235	35	17	25	21	1.95
40621510--40621710	108	1.8	110	86	6	293	33	17	25	22	1.96
40627212--40627386	49	3.5	49	83	3	233	29	24	18	28	1.98
40627205--40627391	100	1.9	100	94	0	329	28	24	19	27	1.99
40629274--40629420	45	3.3	45	76	4	145	40	19	17	21	1.91
40629272--40629446	90	1.9	90	79	6	194	40	20	18	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40629409--40629615	46	4.5	45	87	3	288	45	14	20	19	1.85
40632407--40632533	26	4.8	27	83	5	145	27	14	18	40	1.89
40635269--40635395	68	1.9	68	98	0	245	42	5	15	36	1.71
40635679--40635859	48	3.9	48	71	15	155	27	19	23	30	1.98
40643905--40644011	55	1.9	55	90	3	171	28	25	14	32	1.94
40648217--40648341	27	4.7	26	86	4	144	29	12	17	40	1.87
40648217--40648341	53	2.3	53	82	4	153	29	12	17	40	1.87
40648325--40648399	25	2.9	25	86	9	107	34	8	18	38	1.80
40651072--40651153	43	1.9	42	82	7	103	29	20	19	30	1.97
40655949--40656254	49	6.4	49	89	4	455	34	9	27	28	1.88
40655945--40656254	96	3.2	95	89	4	453	34	9	27	28	1.87
40655949--40656254	145	2.1	144	89	4	458	34	9	27	28	1.88
40656336--40656601	47	5.7	47	90	0	415	32	8	31	27	1.87
40655983--40656682	347	2.0	349	91	3	1151	32	11	27	28	1.92
40656720--40656798	37	2.1	37	85	0	104	25	20	30	24	1.98
40662973--40663111	42	3.2	43	80	10	133	28	25	18	27	1.98
40668902--40668949	25	1.9	25	86	0	69	33	25	16	25	1.96
40668994--40669054	20	3.0	20	95	0	104	31	11	22	34	1.90
40669101--40669221	24	5.0	24	89	7	174	29	19	20	29	1.97
40669101--40669230	49	2.6	48	85	9	174	31	18	20	29	1.96
40669281--40669353	37	2.0	37	97	0	137	16	9	45	28	1.79
40674520--40674567	25	1.9	25	86	0	69	33	25	14	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40674604--40674650	20	2.3	20	96	0	85	34	10	21	34	1.88
40674701--40674830	25	5.2	25	86	6	158	30	19	23	26	1.98
40674699--40674830	49	2.6	49	81	10	160	31	18	22	27	1.98
40678871--40678973	51	2.0	51	92	0	170	32	17	14	35	1.90
40695616--40695762	40	3.7	40	96	0	267	20	27	21	31	1.98
40704138--40704365	40	5.7	40	91	0	366	22	28	20	29	1.98
40704138--40704365	80	2.8	80	96	0	411	22	28	20	29	1.98
40706624--40706830	47	4.6	47	76	11	216	30	22	15	31	1.95
40706624--40706787	85	1.9	85	94	0	292	31	23	15	29	1.95
40706704--40706826	48	2.6	47	83	6	158	29	22	15	32	1.95
40716773--40716833	30	2.0	30	83	0	77	31	22	8	37	1.84
40721590--40721627	19	2.0	20	85	15	53	39	23	0	36	1.55
40721856--40722026	93	1.8	93	96	0	315	28	29	21	21	1.98
40721851--40722023	46	3.7	46	80	13	219	28	28	21	21	1.98
40732729--40732869	46	3.0	45	72	16	119	30	27	19	22	1.98
40739301--40739562	39	6.7	40	87	7	337	25	22	27	24	2.00
40763179--40763272	49	1.9	49	86	0	134	43	7	23	25	1.79
40765973--40766091	42	2.8	41	80	10	132	25	20	25	29	1.99
40765973--40766111	42	3.2	42	79	10	131	25	19	24	30	1.98
40765974--40766130	43	3.7	42	75	13	117	25	19	25	29	1.98
40773540--40773646	42	2.5	42	72	13	101	24	18	26	30	1.98
40773498--40773654	43	3.7	43	72	15	128	24	18	26	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40775241--40775463	79	2.8	78	83	7	272	24	27	22	25	2.00
40775241--40775463	39	5.7	40	87	6	280	24	27	22	25	2.00
40783715--40783746	7	4.6	7	100	0	64	31	0	53	15	1.43
40783707--40783746	21	1.9	21	89	0	62	32	0	50	17	1.47
40793033--40793079	21	2.2	21	92	0	76	25	29	36	8	1.86
40793024--40793084	21	3.0	21	80	7	72	26	26	37	9	1.87
40794274--40794546	49	5.6	49	75	12	240	22	27	20	30	1.98
40794325--40794551	97	2.3	97	97	0	427	22	27	19	30	1.98
40807658--40807684	11	2.5	11	100	0	54	48	29	0	22	1.51
40818440--40818868	215	2.0	215	98	0	831	36	22	10	30	1.88
40818997--40819219	116	1.9	116	99	0	437	34	9	17	37	1.84
40829940--40829980	21	2.0	21	90	0	64	31	14	29	24	1.95
40831284--40831375	42	2.2	42	90	0	139	35	21	14	28	1.92
40831519--40831605	25	3.4	26	87	4	133	27	21	25	25	2.00
40832435--40832491	27	2.1	27	90	6	89	21	26	22	29	1.99
40832553--40832755	27	7.4	27	78	6	149	34	9	18	37	1.83
40832561--40832714	83	1.9	83	81	2	193	31	8	17	42	1.79
40838147--40838410	40	6.7	40	89	5	360	25	27	21	25	1.99
40847089--40847169	29	2.8	29	81	9	94	27	32	19	20	1.97
40851050--40851107	26	2.2	26	81	6	64	18	13	34	32	1.91
40851071--40851123	25	2.1	26	89	3	81	24	13	30	32	1.93
40851913--40851967	14	3.9	14	90	0	83	40	5	32	21	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40854699--40854911	94	2.3	92	82	4	248	23	25	20	30	1.99
40856651--40856743	46	2.0	46	89	0	141	27	23	20	27	1.99
40858214--40858398	79	2.3	82	84	7	238	25	27	22	24	2.00
40858195--40858398	40	5.1	40	82	8	238	25	27	22	25	2.00
40866165--40866349	79	2.3	82	83	7	229	24	27	22	24	2.00
40866146--40866349	40	5.1	40	81	8	229	24	27	22	25	2.00
40878417--40878443	2	13.5	2	100	0	54	0	0	48	51	1.00
40879931--40879964	15	2.3	15	89	0	50	61	2	8	26	1.40
40880280--40880310	16	1.9	16	93	0	53	45	0	0	54	0.99
40884948--40885125	96	1.9	96	85	4	252	10	28	16	44	1.80

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