genome.fa.s20.2.7.7.80.10.50.1000.164.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  164  of  186  ( 22216 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)
54515993--54516177	55	3.4	52	77	12	160	21	23	18	36	1.95
54515979--54516186	53	3.9	54	78	6	206	22	24	17	36	1.95
54521457--54521517	25	2.5	24	78	10	61	19	29	22	27	1.98
54523940--54523985	19	2.3	20	96	3	85	23	10	17	47	1.79
54536993--54537173	40	4.6	40	79	3	170	23	25	24	25	2.00
54547788--54547824	15	2.5	15	95	0	65	13	29	27	29	1.94
54547887--54548003	44	2.7	44	91	2	191	29	15	25	29	1.96
54558181--54558490	39	7.9	39	94	0	530	22	29	25	21	1.99
54558472--54558549	39	2.0	39	100	0	156	20	20	15	43	1.88
54565479--54565702	40	5.6	40	91	1	308	24	20	28	26	1.99
54565440--54565702	80	3.3	80	85	3	318	23	20	28	26	1.99
54565440--54565702	120	2.2	120	82	4	318	23	20	28	26	1.99
54573475--54573684	40	5.3	39	89	4	242	25	21	27	25	1.99
54573422--54573684	120	2.2	120	82	4	309	25	21	27	25	1.99
54573423--54573719	80	3.7	80	81	6	230	26	21	27	24	1.99
54590628--54590703	39	1.9	39	91	0	125	25	28	25	21	1.99
54592109--54592167	29	2.0	29	100	0	118	38	3	20	37	1.69
54597078--54597102	2	12.5	2	100	0	50	0	0	48	52	1.00
54598176--54598235	30	2.0	30	96	3	113	56	0	16	26	1.40
54606751--54606837	27	3.2	27	88	9	133	34	24	24	17	1.96
54615011--54615169	27	5.9	27	80	10	173	33	22	25	19	1.97
54615011--54615172	54	3.0	54	89	4	231	33	22	25	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54615011--54615164	81	1.9	80	84	6	204	33	21	24	20	1.97
54618689--54618782	38	2.5	38	92	0	152	27	27	14	29	1.96
54620125--54620177	26	2.1	25	86	10	72	15	26	22	35	1.93
54625841--54625876	15	2.3	16	85	4	56	41	0	0	58	0.98
54625841--54625880	13	2.8	15	81	11	57	45	0	0	55	0.99
54625888--54625943	22	2.6	22	83	5	62	51	0	0	48	1.00
54627232--54627351	43	2.8	43	82	5	127	27	17	26	28	1.98
54633576--54633734	43	3.7	44	76	7	130	24	16	26	32	1.97
54636823--54636905	43	1.9	43	92	0	139	26	31	19	22	1.98
54638373--54638542	27	6.3	27	83	6	177	41	20	10	27	1.85
54638387--54638542	54	2.9	53	86	5	206	41	19	11	26	1.86
54638373--54638542	81	2.1	81	86	2	234	41	20	10	27	1.85
54641801--54641844	18	2.4	18	84	0	61	47	11	20	20	1.80
54642174--54642431	27	9.6	27	81	5	184	39	19	13	27	1.89
54642174--54642431	54	4.8	54	85	3	297	39	19	13	27	1.89
54642174--54642431	81	3.2	81	86	1	329	39	19	13	27	1.89
54643083--54643118	13	2.8	13	82	0	54	83	0	2	13	0.76
54648633--54648786	43	3.6	44	76	4	143	31	26	16	25	1.96
54649907--54649931	13	1.9	13	100	0	50	40	24	4	32	1.73
54652607--54652710	42	2.4	44	82	6	133	30	17	21	30	1.96
54652570--54652728	43	3.7	42	75	10	135	27	18	23	30	1.97
54654760--54654884	46	2.7	48	79	15	147	27	19	30	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54654947--54655074	49	2.6	49	77	4	125	28	21	26	24	1.99
54661346--54661375	15	1.9	16	93	6	53	40	26	0	33	1.57
54661546--54661703	42	3.9	40	79	8	167	29	24	14	31	1.95
54663612--54663683	33	2.3	31	80	7	83	75	0	18	6	1.02
54666482--54666514	16	2.1	16	94	0	57	24	9	6	60	1.49
54667048--54667086	15	2.6	15	83	0	51	35	38	2	23	1.68
54669936--54670002	28	2.3	29	82	7	75	50	10	2	35	1.52
54671730--54671786	29	2.0	29	100	0	114	33	10	35	21	1.87
54675136--54675311	46	3.8	46	79	5	176	25	19	31	23	1.98
54677544--54677644	42	2.4	42	76	0	103	43	16	20	18	1.88
54677600--54677644	21	2.1	21	84	8	56	42	15	20	22	1.89
54683580--54683740	85	1.9	84	81	10	193	32	25	16	25	1.96
54684823--54684847	13	1.9	13	100	0	50	40	24	0	36	1.55
54688190--54688412	40	5.6	39	82	5	216	25	26	21	26	2.00
54688344--54688421	40	1.9	41	82	10	97	26	28	20	24	1.99
54689967--54690056	28	3.2	27	84	4	108	32	22	24	21	1.98
54690162--54690223	28	2.2	28	94	0	106	30	8	29	32	1.86
54693081--54693256	46	3.8	46	79	12	207	21	21	28	28	1.98
54693078--54693249	93	1.8	93	94	0	308	21	21	29	27	1.99
54693467--54693899	217	2.0	217	96	0	803	28	14	21	35	1.93
54701693--54701732	15	2.7	15	84	0	53	0	30	0	70	0.88
54701696--54701730	10	3.5	10	88	0	52	0	28	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54703582--54703636	6	8.8	6	88	4	65	16	5	3	74	1.15
54703599--54703635	20	1.9	20	94	5	67	16	5	0	78	0.93
54711090--54711206	43	2.8	42	73	7	119	34	24	16	24	1.95
54723765--54723819	6	8.8	6	88	4	65	16	5	3	74	1.15
54723782--54723818	20	1.9	20	94	5	67	16	5	0	78	0.93
54731273--54731389	43	2.8	42	73	7	119	34	24	16	24	1.95
54736298--54736336	19	2.0	20	85	5	53	53	0	12	33	1.39
54745331--54745603	95	2.8	97	80	8	297	26	29	18	25	1.98
54745326--54745655	145	2.2	148	83	4	425	25	29	19	25	1.99
54745329--54745666	50	6.9	50	79	5	350	25	29	18	26	1.98
54748091--54748217	42	3.0	42	83	8	141	33	26	16	22	1.95
54748091--54748219	44	3.0	43	83	7	147	34	26	17	22	1.96
54750163--54750219	30	1.9	30	85	7	80	35	10	26	28	1.89
54750982--54751146	47	3.5	47	92	3	244	36	13	23	26	1.92
54751124--54751336	55	3.9	54	77	4	187	36	16	23	23	1.94
54753293--54753510	40	5.5	40	86	2	271	23	23	27	25	2.00
54767907--54767964	29	2.0	29	96	0	107	31	20	29	18	1.97
54769280--54769309	14	2.1	14	93	0	51	50	10	0	40	1.36
54769758--54770023	28	9.5	28	95	0	453	27	11	26	34	1.91
54777199--54777379	40	4.6	40	82	8	192	25	23	27	23	2.00
54777199--54777379	79	2.3	81	81	7	210	25	23	27	23	2.00
54777252--54777416	79	2.1	79	82	6	192	27	21	27	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54784678--54784858	40	4.6	40	80	8	174	26	22	27	23	2.00
54784678--54784860	79	2.3	80	79	8	194	26	22	26	24	2.00
54784731--54784895	79	2.1	79	79	6	174	27	20	26	24	1.99
54785822--54785859	19	2.0	20	85	15	53	39	23	0	36	1.55
54786088--54786209	46	2.7	46	93	0	199	29	27	21	21	1.98
54801594--54801635	22	1.9	22	100	0	84	30	9	16	42	1.80
54810330--54810367	14	2.8	14	84	4	51	47	28	5	18	1.70
54842550--54842669	29	4.2	29	80	4	127	31	27	11	29	1.92
54842584--54842669	30	3.0	29	84	5	120	31	27	11	29	1.92
54842885--54842915	16	1.9	16	93	0	53	9	29	19	41	1.83
54844813--54844843	16	1.9	16	93	0	53	9	29	19	41	1.83
54847697--54847744	24	2.0	24	100	0	96	25	0	25	50	1.50
54849347--54849386	21	2.0	20	90	5	62	40	0	17	42	1.49
54850266--54850324	31	1.9	31	83	13	77	45	1	18	33	1.60
54853789--54853818	15	1.9	16	93	6	53	20	20	6	53	1.67
54860416--54860449	6	5.5	6	89	3	50	14	2	0	82	0.79
54862935--54862972	14	2.9	13	81	11	51	18	13	10	57	1.63
54863852--54863890	8	4.9	8	100	0	78	51	0	10	38	1.36
54864299--54864385	40	2.2	40	85	4	113	22	17	27	32	1.96
54864436--54864495	28	2.1	28	81	6	68	38	8	21	31	1.83
54869064--54869273	50	4.2	50	90	2	307	25	10	21	41	1.86
54878347--54878994	324	2.0	324	100	0	1296	26	10	23	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54884246--54884428	40	4.6	39	81	6	170	24	20	27	26	1.99
54884282--54884463	79	2.3	80	79	3	190	26	20	27	25	1.99
54890359--54890398	21	2.0	20	85	5	53	37	0	20	42	1.52
54898344--54898380	10	3.7	10	96	0	65	51	0	0	48	1.00
54898346--54898383	11	3.5	11	89	7	60	52	0	0	47	1.00
54901769--54902087	172	1.8	173	85	2	453	42	10	10	36	1.74
54901769--54902133	172	2.1	172	82	5	450	41	10	11	36	1.75
54909837--54909915	41	1.9	41	89	0	122	32	22	24	20	1.97
54909901--54910047	41	3.6	41	83	0	188	25	19	27	27	1.99
54916309--54916367	31	1.9	30	90	10	93	27	3	1	67	1.16

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