genome.fa.s8.2.7.7.80.10.50.1000.130.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  130  of  279  ( 33431 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)
41607671--41607712	15	2.9	15	82	10	52	52	0	0	47	1.00
41607781--41607832	15	3.6	15	80	12	56	53	1	0	44	1.11
41607911--41607969	16	3.7	16	75	18	52	54	0	0	45	0.99
41607922--41607969	18	2.8	18	74	22	50	56	0	0	43	0.99
41607911--41607952	15	2.9	15	82	10	52	52	0	0	47	1.00
41607665--41607986	120	2.7	120	98	0	610	50	5	1	43	1.33
41609180--41609218	20	2.0	20	100	0	78	30	25	17	25	1.97
41610524--41610562	14	2.8	14	84	0	51	43	30	2	23	1.67
41610744--41610780	15	2.5	15	90	0	56	40	37	0	21	1.54
41610738--41610779	22	2.0	21	85	4	57	38	40	0	21	1.53
41610964--41610993	14	2.2	13	94	5	51	20	0	33	46	1.51
41611082--41611220	41	3.4	41	89	4	199	19	25	22	33	1.97
41615826--41616223	200	2.0	200	97	0	760	25	26	19	28	1.99
41618970--41619021	26	2.1	24	86	10	70	3	21	3	71	1.18
41625689--41625715	2	13.5	2	100	0	54	51	0	0	48	1.00
41627379--41627427	22	2.3	23	79	13	59	36	4	6	53	1.45
41630856--41630893	20	2.0	20	89	5	60	63	15	10	10	1.52
41630794--41630983	95	2.0	95	93	0	326	45	18	12	23	1.84
41631010--41631463	148	3.0	148	80	9	509	35	19	12	32	1.90
41632400--41632426	13	2.1	13	100	0	54	33	0	0	66	0.92
41632399--41632429	13	2.5	12	90	10	53	29	0	0	70	0.87
41637222--41637262	21	2.0	21	90	0	64	29	21	29	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41641752--41641788	12	3.2	12	88	11	51	27	0	0	72	0.84
41647845--41647886	16	2.8	15	78	7	50	47	21	11	19	1.81
41652792--41653075	144	2.0	146	90	6	461	37	21	17	24	1.94
41665089--41665308	113	2.0	109	86	3	305	17	8	25	48	1.75
41665195--41665528	156	2.2	152	84	5	429	22	11	20	45	1.83
41667871--41667920	22	2.2	22	82	10	57	8	14	12	66	1.45
41679367--41679395	14	2.1	14	93	6	51	37	0	10	51	1.36
41680921--41681017	46	2.1	46	98	0	185	40	13	6	40	1.69
41683555--41683658	39	2.7	39	96	0	190	13	26	22	37	1.91
41684580--41684606	14	1.9	14	100	0	54	44	14	3	37	1.63
41686587--41686655	31	2.2	31	77	12	79	30	26	4	39	1.75
41688293--41688317	13	1.9	13	100	0	50	48	0	8	44	1.32
41691349--41691450	22	4.6	22	73	6	82	42	27	16	13	1.86
41691409--41691457	22	2.2	23	85	10	75	44	26	18	10	1.81
41692485--41692942	46	10.0	46	96	0	801	23	23	15	38	1.92
41698613--41698663	24	2.1	24	82	7	59	54	5	11	27	1.59
41698924--41698964	20	2.0	21	90	4	66	75	0	24	0	0.80
41698925--41698971	21	2.2	21	85	7	60	74	2	21	2	1.03
41700779--41700915	54	2.5	54	95	0	247	27	18	22	30	1.98
41700949--41701219	46	5.9	46	99	0	524	37	14	23	23	1.93
41701298--41701433	46	3.0	46	87	2	184	40	14	24	20	1.90
41706772--41706817	23	2.0	23	100	0	92	21	13	8	56	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41716365--41716405	21	2.0	21	90	0	64	19	29	21	29	1.98
41722509--41722550	22	1.9	22	85	0	57	9	11	14	64	1.50
41722945--41723004	23	2.5	23	83	8	66	35	1	6	56	1.35
41722968--41723017	24	2.1	23	85	10	66	36	2	2	60	1.20
41731673--41731890	113	1.9	113	83	9	282	26	11	16	45	1.82
41732946--41732983	14	2.8	14	84	15	53	71	0	0	28	0.87
41733381--41733432	21	2.5	21	93	0	86	57	7	3	30	1.45
41737834--41737909	16	4.8	16	81	0	89	39	5	25	30	1.77
41737834--41737910	32	2.4	32	82	0	100	40	5	24	29	1.77
41737891--41737983	44	2.1	44	87	4	132	35	5	24	34	1.79
41738156--41738188	17	1.9	17	100	0	66	63	0	0	36	0.95
41738693--41738727	18	1.9	18	94	0	61	34	20	14	31	1.92
41738735--41738979	40	6.1	40	92	0	382	33	16	9	40	1.81
41738731--41738979	120	2.1	120	95	0	444	32	16	9	40	1.81
41745644--41745693	25	2.0	25	100	0	100	24	16	20	40	1.91
41749362--41749394	17	1.9	17	88	11	50	21	6	0	72	1.05
41749803--41749833	15	2.1	14	94	5	53	54	6	3	35	1.42
41749820--41749888	21	3.4	20	71	16	70	55	7	1	36	1.37
41757080--41757139	31	2.0	29	87	6	84	31	26	8	33	1.86
41763748--41763795	3	16.0	3	100	0	96	33	0	0	66	0.92
41763796--41763980	73	2.5	73	99	0	361	27	6	24	41	1.79
41768198--41768259	3	20.7	3	100	0	124	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41768260--41768443	72	2.6	72	99	0	359	27	6	23	41	1.79
41769720--41769756	7	5.3	7	100	0	74	59	13	0	27	1.35
41776240--41776280	21	2.0	21	90	0	64	19	29	21	29	1.98
41786014--41786085	26	2.8	25	83	8	83	20	26	19	33	1.97
41795843--41795892	24	2.1	24	100	0	100	38	8	20	34	1.82
41796176--41796253	15	5.2	15	67	11	61	44	7	21	25	1.79
41796172--41796253	30	2.7	30	94	0	137	46	7	21	24	1.77
41800236--41800284	15	3.3	15	72	11	55	40	8	22	28	1.82
41822559--41822592	9	3.9	9	84	7	52	58	0	0	41	0.98
41822564--41822599	17	2.1	17	94	0	63	63	0	0	36	0.94
41823617--41823821	100	2.0	101	93	0	349	25	5	20	48	1.70
41831845--41831901	23	2.5	23	81	16	73	61	0	0	38	0.96
41832833--41832900	21	3.3	19	74	13	55	27	0	7	64	1.20
41832875--41832912	20	2.0	20	84	5	51	23	2	2	71	1.12
41836816--41836863	21	2.3	21	85	0	78	37	18	14	29	1.91
41837647--41837705	26	2.4	24	80	8	73	54	3	0	42	1.17
41837688--41837884	100	2.0	100	94	1	351	39	8	10	42	1.69
41838570--41838616	25	1.9	25	82	4	60	48	4	10	36	1.57
41841576--41841636	20	3.2	19	75	9	61	63	1	1	32	1.13
41844680--41844704	10	2.5	10	100	0	50	44	0	0	56	0.99
41853554--41853619	33	2.0	33	96	0	123	40	18	7	33	1.79
41858694--41858731	16	2.4	16	86	4	51	60	2	0	36	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41858868--41858892	12	2.1	12	100	0	50	56	16	0	28	1.41
41863517--41863541	13	1.9	13	100	0	50	32	0	4	64	1.12
41864411--41864446	16	2.2	17	90	5	56	83	0	5	11	0.80
41871654--41871880	44	5.2	44	66	12	160	28	24	22	24	2.00
41871698--41871924	44	5.2	44	66	10	167	26	21	24	27	1.99
41871650--41872077	88	4.9	88	91	2	591	29	23	22	24	1.99
41872226--41872331	44	2.4	44	78	7	126	29	24	24	21	1.99
41873955--41873993	3	13.0	3	100	0	78	33	0	0	66	0.92
41873994--41874271	88	3.1	88	89	1	457	29	23	22	24	1.99
41874758--41875175	44	9.8	43	70	14	235	31	20	21	26	1.98
41874756--41875130	170	2.2	170	99	0	732	32	20	20	26	1.97
41874878--41875175	46	6.9	44	74	11	206	31	21	21	26	1.98
41882467--41882491	13	1.9	13	100	0	50	20	8	16	56	1.65
41890821--41891149	139	2.4	138	97	0	622	44	17	10	27	1.82
41895831--41895888	20	2.9	19	80	12	55	36	3	0	60	1.14
41901921--41901964	22	2.0	22	90	4	70	43	9	11	36	1.72
41904596--41904800	62	3.3	60	80	11	241	38	20	11	29	1.88
41906252--41906347	48	2.0	48	95	0	174	30	23	7	38	1.82
41910651--41910778	62	2.1	62	96	0	238	35	18	15	29	1.92
41913232--41913298	33	2.0	33	97	0	125	32	23	5	37	1.79
41924058--41924095	6	6.2	6	90	3	58	0	60	0	39	0.97
41924060--41924095	18	2.0	18	100	0	72	0	61	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41927180--41927378	59	3.3	58	71	12	195	41	1	3	53	1.24
41927158--41927328	59	2.8	59	71	12	159	43	1	5	49	1.35
41927300--41927434	18	8.0	17	70	19	95	40	0	1	57	1.13
41927158--41927400	120	2.0	120	97	0	459	43	1	4	51	1.31
41927315--41927373	26	2.3	25	85	8	82	40	0	1	57	1.09
41927328--41927383	15	4.0	15	73	17	57	44	0	0	55	0.99
41927179--41927419	41	5.9	40	68	22	121	41	1	3	53	1.25
41927598--41927652	21	2.6	21	88	8	85	27	38	9	25	1.86
41927831--41928333	275	1.8	274	84	3	699	26	26	16	31	1.97
41929532--41929566	18	1.9	18	100	0	70	31	11	17	40	1.85

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