genome.fa.s8.2.7.7.80.10.50.1000.128.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  128  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)
40762778--40762983	97	2.2	91	85	6	277	35	18	26	19	1.95
40765366--40765405	20	2.0	20	100	0	80	45	5	0	50	1.23
40765884--40766200	46	6.9	46	91	1	494	21	23	14	39	1.91
40765884--40766195	91	3.4	92	91	1	493	21	24	14	39	1.91
40765884--40766200	137	2.3	137	95	0	571	21	23	14	39	1.91
40768299--40768347	3	17.3	3	76	19	52	69	0	2	28	1.00
40768305--40768343	11	3.5	11	92	0	69	69	0	2	28	1.02
40768306--40768347	19	2.2	19	87	8	59	71	0	2	26	0.98
40768317--40768381	19	3.3	21	81	8	66	60	4	1	33	1.27
40769022--40769147	46	2.7	46	86	6	166	20	19	26	34	1.96
40771720--40771887	43	4.0	42	78	12	168	32	23	15	28	1.95
40771722--40771886	86	1.9	83	83	9	208	32	23	15	28	1.95
40772361--40772426	29	2.3	29	81	5	71	30	25	1	42	1.64
40776809--40776860	21	2.5	21	83	0	68	28	7	30	32	1.85
40785588--40785622	12	2.9	12	91	0	61	51	0	37	11	1.38
40793954--40794011	28	2.2	26	87	6	80	44	0	5	50	1.24
40795026--40795057	3	10.7	3	100	0	64	65	0	0	34	0.93
40795926--40795951	13	2.0	13	100	0	52	15	15	38	30	1.88
40799319--40799345	6	4.5	6	100	0	54	37	0	62	0	0.95
40805811--40805897	47	1.9	45	82	13	108	40	8	2	49	1.45
40817675--40817704	8	3.8	8	100	0	60	26	10	0	63	1.26
40827428--40827536	34	3.3	34	77	10	125	42	2	0	54	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40834440--40834487	24	2.0	24	83	0	60	37	8	4	50	1.52
40841621--40841682	31	2.0	31	96	3	117	27	6	16	50	1.69
40847469--40847546	39	2.1	38	83	9	97	53	5	0	41	1.23
40850062--40850283	46	4.8	46	87	2	304	21	23	13	40	1.89
40850062--40850283	92	2.4	92	90	2	340	21	23	13	40	1.89
40850321--40850458	54	2.6	54	91	0	222	31	22	17	28	1.96
40855189--40855216	11	2.5	11	100	0	56	71	0	0	28	0.86
40855190--40855265	19	3.7	21	79	10	77	60	6	0	32	1.22
40856714--40856746	3	11.3	3	93	6	59	69	0	0	30	0.88
40858753--40858925	93	1.9	93	93	0	301	27	30	21	20	1.98
40858746--40858921	46	3.8	46	80	10	205	28	30	21	19	1.98
40859445--40859474	5	6.0	5	100	0	60	40	0	0	60	0.97
40869251--40869280	15	1.9	16	93	6	53	36	6	16	40	1.75
40871141--40871347	47	4.3	47	82	6	193	28	28	16	26	1.97
40873570--40873612	22	2.0	22	100	0	86	48	13	9	27	1.73
40876409--40876448	20	2.0	20	95	0	71	32	15	7	45	1.74
40882022--40882221	100	2.0	100	99	0	391	18	15	16	50	1.78
40885333--40885472	45	3.1	45	91	0	217	29	12	12	46	1.77
40885744--40885780	19	1.9	19	88	0	56	70	0	5	24	1.08
40885763--40885814	22	2.3	23	74	9	54	59	0	0	40	0.97
40885765--40885879	24	4.7	24	69	12	63	56	1	2	39	1.23
40896295--40896654	95	4.0	89	96	3	538	56	11	15	16	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40899531--40899617	21	4.0	23	80	10	92	37	25	21	14	1.92
40901052--40901087	15	2.3	17	81	18	51	0	30	0	69	0.89
40915828--40915914	9	9.7	9	72	7	52	45	13	8	32	1.73
40915820--40915914	18	5.3	18	80	9	79	47	12	7	32	1.69
40915829--40915914	36	2.4	36	76	7	102	46	13	6	32	1.71
40920300--40920333	17	2.1	15	89	10	50	58	0	0	41	0.98
40923864--40923897	11	3.0	11	91	8	59	8	8	0	82	0.85
40923864--40923898	12	3.0	12	95	4	63	8	8	0	82	0.83
40923865--40923904	12	3.5	11	86	10	53	5	7	2	85	0.83
40932824--40932856	6	5.5	6	92	0	57	18	30	15	36	1.91
40934078--40934111	17	1.9	18	94	5	61	79	5	5	8	1.05
40944792--40944817	12	2.2	12	100	0	52	19	23	15	42	1.89
40944798--40944895	45	2.2	45	88	0	142	21	18	19	40	1.91
40945087--40945172	18	4.7	18	83	1	109	36	8	13	41	1.75
40945089--40945172	36	2.3	37	87	2	125	36	8	13	41	1.74
40955687--40955732	23	2.0	23	84	12	60	45	10	6	36	1.65
40955694--40955738	23	2.0	23	82	8	56	40	13	8	37	1.76
40959266--40959638	54	6.9	54	100	0	746	31	24	18	25	1.97
40959985--40960055	37	1.9	37	88	0	106	36	15	8	39	1.78
40962478--40962507	6	5.0	6	100	0	60	50	0	33	16	1.46
40965396--40965431	18	2.0	18	88	0	54	30	2	19	47	1.64
40969038--40969071	15	2.3	15	89	0	50	55	5	2	35	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40979106--40979169	31	2.1	31	82	11	78	40	1	4	53	1.31
40979165--40979218	25	2.2	25	89	0	81	42	3	1	51	1.30
40987768--40987895	61	2.1	61	82	2	150	44	14	5	35	1.69
40992126--40992155	15	2.0	15	93	0	51	43	0	0	56	0.99
40997575--40997704	69	1.9	69	98	0	251	27	17	15	39	1.90
41003166--41003238	23	3.2	23	88	7	121	31	24	20	23	1.98
41003325--41003353	8	3.6	8	100	0	58	34	27	13	24	1.93
41010003--41010128	58	2.1	59	85	5	164	30	7	26	34	1.85
41011902--41012024	61	2.0	62	87	6	180	55	3	4	37	1.35
41014080--41014121	22	1.9	22	90	0	66	42	0	2	54	1.13
41016181--41016454	75	3.7	75	98	1	514	32	22	20	24	1.98
41022203--41022390	38	4.9	38	80	5	191	33	26	20	19	1.96
41024723--41024781	28	2.1	28	100	0	118	38	20	0	40	1.53
41024723--41024791	28	2.5	28	90	4	86	40	18	0	40	1.51
41025595--41025621	13	2.1	13	100	0	54	51	0	0	48	1.00
41034067--41034095	15	1.9	15	100	0	58	27	27	17	27	1.97
41040004--41040152	46	3.2	47	86	1	187	20	23	15	40	1.91
41060510--41060542	14	2.4	14	94	0	57	48	6	3	42	1.43
41066407--41066467	31	2.0	31	93	0	104	54	19	1	24	1.54
41066764--41066808	23	2.0	23	87	12	67	44	26	8	20	1.80
41067445--41067524	31	2.6	30	86	6	97	57	8	0	33	1.30
41067454--41067493	18	2.2	19	86	8	57	60	10	0	30	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41068295--41068327	14	2.4	14	94	0	57	69	6	0	24	1.10
41068298--41068353	22	2.5	22	76	0	67	67	10	1	19	1.29
41079179--41079294	61	1.9	61	92	3	198	36	16	22	25	1.94
41080736--41080838	53	1.9	53	100	0	206	40	16	18	24	1.90
41082403--41082443	18	2.2	19	86	8	57	53	4	7	34	1.50
41090209--41090246	18	2.1	18	90	0	58	39	10	28	21	1.86
41101942--41101974	16	2.1	16	100	0	66	51	18	6	24	1.68
41103659--41103695	16	2.3	16	100	0	74	27	16	21	35	1.94
41115317--41115818	87	5.9	85	71	13	316	26	22	21	29	1.99
41115317--41115815	44	11.7	42	73	10	288	26	22	21	29	1.99
41115298--41115815	213	2.4	213	95	0	928	26	22	20	30	1.98
41117006--41117132	67	1.9	67	100	0	254	17	32	15	34	1.91
41137341--41137401	27	2.2	27	82	8	70	45	1	1	50	1.21
41139177--41139251	24	3.1	24	86	5	89	52	13	2	32	1.54
41154993--41155064	19	3.7	19	90	3	108	34	1	8	55	1.39
41157356--41157419	31	2.0	32	85	11	87	42	12	9	35	1.75
41159529--41159555	12	2.2	12	100	0	54	48	14	0	37	1.45
41170181--41170210	13	2.2	14	94	5	53	20	10	30	40	1.85
41171868--41171892	13	1.9	13	100	0	50	48	20	16	16	1.82
41180428--41180466	20	1.9	20	84	5	51	35	2	5	56	1.35
41181822--41181867	24	1.9	24	81	0	56	10	4	10	73	1.22
41181490--41182387	198	4.6	196	83	4	862	25	8	21	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41187275--41187327	16	3.4	15	82	7	61	35	1	0	62	1.06
41193352--41193388	17	2.2	17	90	0	56	48	0	0	51	1.00
41195691--41195745	23	2.5	22	77	11	58	40	1	12	45	1.53
41196583--41196614	15	2.1	15	94	0	55	21	31	40	6	1.78
41199526--41199553	6	4.7	6	100	0	56	67	0	14	17	1.22
41205303--41205455	76	2.0	76	97	0	288	33	16	13	35	1.89
41211891--41212051	45	3.5	45	71	17	150	33	13	5	47	1.65
41216342--41216459	59	2.0	59	91	0	191	30	13	18	37	1.90
41222066--41222311	122	2.0	122	92	0	411	39	18	11	30	1.87
41224028--41224079	20	2.5	20	81	3	59	51	13	9	25	1.71

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