genome.fa.s4.2.7.7.80.10.50.1000.119.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  119  of  235  ( 28198 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)
40603083--40603151	33	2.1	33	91	0	111	15	52	17	14	1.75
40604232--40604317	12	7.2	12	75	9	54	30	5	1	62	1.26
40604331--40604370	20	2.0	21	85	5	55	27	12	2	57	1.48
40604248--40604375	3	42.7	3	73	9	91	28	9	2	59	1.41
40604667--40604697	15	2.1	15	100	0	62	32	6	0	61	1.21
40604786--40604823	15	2.5	15	86	0	58	34	5	0	60	1.19
40609213--40609265	6	9.3	6	90	10	85	86	0	13	0	0.56
40609829--40609880	4	12.8	4	91	4	86	76	0	23	0	0.78
40610949--40611076	64	2.0	64	93	0	220	30	17	14	37	1.90
40611320--40611651	87	3.8	87	91	2	474	35	21	22	19	1.96
40611147--40611954	130	6.2	130	75	9	589	35	22	22	20	1.96
40611496--40611773	129	2.1	130	90	2	425	36	22	21	19	1.95
40611282--40611868	303	1.9	304	92	1	991	36	22	21	19	1.95
40611624--40611860	87	2.7	86	86	3	298	37	23	20	18	1.94
40612511--40612549	17	2.3	17	100	0	78	48	20	7	23	1.75
40613790--40613847	3	18.3	3	79	10	62	31	8	1	58	1.38
40613790--40613843	21	2.6	21	88	5	74	31	9	1	57	1.41
40613790--40613945	15	10.4	15	66	10	59	28	11	3	55	1.53
40613876--40613915	20	2.0	21	85	5	55	25	15	2	57	1.50
40614125--40614169	24	1.9	24	86	4	65	28	11	0	60	1.31
40614212--40614242	15	2.1	15	100	0	62	32	6	0	61	1.21
40614216--40614255	21	1.9	21	84	0	53	37	5	0	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40614331--40614368	15	2.5	15	86	0	58	34	5	0	60	1.19
40622810--40622858	20	2.7	18	77	22	57	51	4	2	42	1.32
40624405--40624511	27	3.9	27	83	10	137	33	21	25	19	1.97
40624404--40624511	54	2.0	55	96	1	200	34	21	25	19	1.96
40624901--40624930	8	3.8	8	90	0	51	3	26	26	43	1.70
40627587--40627625	20	2.0	20	94	0	69	46	15	28	10	1.78
40632952--40633083	47	2.8	48	88	2	194	32	28	15	24	1.95
40634775--40637697	730	4.0	730	97	0	5407	31	24	17	26	1.97
40638799--40639042	131	1.9	131	87	1	364	29	20	20	28	1.98
40639601--40639644	15	2.7	16	86	10	54	59	6	9	25	1.53
40644404--40644733	131	2.5	131	79	6	319	29	18	17	34	1.94
40646252--40646291	17	2.4	17	86	0	53	32	2	5	60	1.32
40646391--40646447	27	2.1	28	77	9	64	38	7	0	54	1.28
40646401--40646456	27	2.1	27	83	3	69	39	3	0	57	1.16
40646508--40646561	27	2.1	25	86	6	72	22	3	11	62	1.43
40647256--40647316	27	2.3	27	97	0	113	26	4	3	65	1.28
40656162--40656239	40	2.0	40	94	0	138	52	6	6	34	1.53
40656359--40656399	19	2.1	20	86	4	57	31	9	2	56	1.45
40656934--40656972	19	2.0	20	90	5	62	33	7	5	53	1.51
40657869--40657945	38	2.0	38	84	0	100	31	20	23	24	1.98
40657937--40658048	29	3.9	29	85	0	143	26	18	21	33	1.97
40660079--40660121	20	2.2	20	100	0	86	25	13	0	60	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40660418--40660477	20	2.9	21	76	14	54	55	5	3	36	1.38
40669431--40669471	21	2.0	21	90	0	64	29	21	29	19	1.98
40675897--40675933	19	1.9	19	94	0	65	35	24	10	29	1.89
40679278--40679388	57	2.0	56	89	7	172	54	0	8	36	1.36
40680629--40680681	19	2.8	19	97	0	97	35	26	16	20	1.94
40683218--40683386	84	2.0	84	95	0	302	43	5	20	30	1.74
40684072--40684402	164	2.0	164	85	1	448	41	15	20	22	1.89
40684563--40684612	26	1.9	26	83	0	64	46	16	0	38	1.47
40685849--40685895	11	4.0	11	79	15	58	63	0	0	36	0.94
40685849--40685895	25	1.9	24	91	4	76	63	0	0	36	0.94
40692110--40692145	18	1.9	19	88	5	56	30	2	2	63	1.22
40697374--40697414	21	2.0	21	90	0	64	29	31	17	21	1.96
40699719--40699819	39	2.6	39	80	3	105	25	32	21	19	1.97
40711452--40711624	78	2.2	78	86	2	231	27	29	20	22	1.98
40711484--40711628	39	3.7	38	93	3	227	28	30	20	21	1.98
40711484--40711631	78	1.9	78	92	0	251	28	29	20	21	1.98
40714099--40714166	23	3.3	23	64	33	62	33	2	16	47	1.62
40713932--40714185	39	6.5	39	88	1	314	30	5	20	44	1.74
40715684--40715790	3	35.7	3	71	7	56	28	3	4	63	1.31
40715680--40715744	33	2.0	33	87	0	94	30	1	6	61	1.29
40715710--40715753	21	2.0	22	86	4	63	25	4	2	68	1.20
40716224--40716633	3	139.0	3	70	12	192	28	5	2	62	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40722046--40722086	8	4.9	8	85	8	55	34	0	2	63	1.08
40722054--40722086	17	1.9	17	93	0	57	33	0	3	63	1.10
40736995--40737035	19	2.2	19	95	0	73	46	31	0	21	1.52
40737534--40737572	19	2.1	19	90	0	60	25	5	7	61	1.44
40737445--40737717	121	2.3	121	98	0	528	27	6	11	54	1.60
40737655--40737693	19	2.1	19	90	0	60	25	5	7	61	1.44
40739358--40739390	16	2.1	16	100	0	66	30	9	30	30	1.88
40740519--40740563	22	2.0	22	83	12	56	26	17	4	51	1.65
40740574--40740616	18	2.4	19	80	7	54	25	2	6	65	1.30
40740943--40740976	9	3.8	9	100	0	68	32	8	11	47	1.71
40741299--40741348	26	1.9	26	88	8	75	40	6	22	32	1.78
40745217--40745298	42	2.0	42	82	4	103	21	19	15	42	1.89
40747729--40747825	40	2.4	40	82	0	113	26	14	25	32	1.94
40750834--40750979	37	4.0	37	93	1	242	24	21	16	36	1.94
40750943--40751211	46	5.6	46	84	10	340	28	22	14	34	1.93
40750986--40751205	52	4.3	52	85	8	299	27	22	14	35	1.93
40750943--40751211	98	2.7	98	93	0	457	28	22	14	34	1.93
40757648--40757672	4	6.2	4	100	0	50	76	0	24	0	0.80
40758435--40758545	47	2.4	47	83	6	145	26	16	22	35	1.95
40762609--40762777	45	3.7	45	76	5	144	32	19	9	38	1.84
40767617--40767653	16	2.1	19	80	19	53	35	0	0	64	0.94
40767619--40767685	21	3.7	18	72	16	59	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40767627--40767688	18	3.3	18	73	18	56	43	0	0	56	0.99
40769038--40769081	9	5.1	9	78	10	56	29	2	0	68	1.02
40769051--40769081	16	1.9	16	93	0	53	22	0	0	77	0.77
40771860--40771917	20	2.9	20	81	0	80	10	34	24	31	1.89
40772723--40772845	54	2.3	54	78	2	140	30	21	28	19	1.98
40775541--40775623	21	3.8	22	79	6	71	37	24	22	15	1.93
40788514--40788934	72	5.8	72	88	3	610	30	17	22	29	1.97
40788500--40788934	74	5.9	74	89	3	641	30	17	21	30	1.96
40791462--40791514	15	3.6	15	89	2	81	50	11	0	37	1.38
40791827--40791944	51	2.3	51	89	2	175	26	22	11	40	1.87
40792375--40792410	13	2.8	14	84	16	51	0	33	0	66	0.92
40796809--40796847	20	2.0	20	90	10	62	25	5	5	64	1.35
40800339--40800554	94	2.3	93	84	5	256	28	17	31	22	1.97
40800338--40800661	47	6.8	48	72	16	232	27	18	31	23	1.97
40801209--40801241	15	2.2	16	89	10	52	24	0	21	54	1.45
40802829--40802862	16	2.1	16	100	0	68	50	0	11	38	1.39
40818765--40818844	38	2.1	38	86	6	110	37	6	17	38	1.75
40822562--40822598	17	2.1	19	85	10	51	70	5	2	21	1.20
40823738--40823856	26	4.7	26	79	7	104	20	25	19	35	1.96
40835769--40835808	21	1.9	21	89	0	62	60	15	17	7	1.57
40838944--40838997	18	3.3	18	66	28	57	22	3	50	24	1.65
40838939--40839473	30	17.8	30	98	0	1034	20	3	49	26	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40840184--40840584	77	5.2	77	94	1	639	35	21	17	25	1.95
40840679--40840712	14	2.4	14	85	0	50	67	5	14	11	1.39
40840691--40840932	76	3.2	75	85	3	308	33	21	16	28	1.95
40840922--40840949	14	2.0	14	100	0	56	57	7	21	14	1.61
40840931--40841099	73	2.3	74	84	2	223	36	19	18	26	1.95
40841079--40841128	14	3.6	14	81	7	57	64	4	12	20	1.43
40841108--40841349	78	3.2	75	84	5	307	37	19	16	26	1.93
40840598--40841488	417	2.1	407	85	6	1211	36	19	16	27	1.94
40841108--40841513	71	5.3	71	76	16	309	36	18	16	28	1.92
40841230--40841582	155	2.2	156	83	8	441	34	18	16	30	1.93

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