genome.fa.s19.2.7.7.80.10.50.1000.39.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   

This is table  39  of  230  ( 27491 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)
10406287--10406410	23	5.4	23	70	14	103	26	22	16	34	1.95
10406287--10406406	46	2.6	46	89	2	170	27	22	15	35	1.94
10406287--10406433	46	3.2	44	81	5	159	24	21	17	36	1.95
10408868--10408932	6	11.2	6	93	6	116	81	0	0	18	0.69
10408870--10408930	11	5.4	11	96	3	104	83	0	0	16	0.64
10413547--10413629	16	5.2	16	70	21	50	79	2	0	18	0.84
10413558--10413640	6	13.5	6	92	5	139	80	1	0	18	0.77
10419426--10419610	51	3.6	51	77	6	162	23	16	28	31	1.96
10419426--10419610	101	1.8	102	88	5	286	23	16	28	31	1.96
10419614--10419706	45	2.1	45	93	0	159	25	19	23	31	1.98
10419840--10419864	8	3.1	8	100	0	50	64	0	24	12	1.27
10419944--10419988	23	2.0	22	87	12	65	46	4	17	31	1.68
10421758--10421808	23	2.2	23	85	0	66	31	21	11	35	1.90
10421767--10421812	23	2.0	23	95	0	83	26	19	17	36	1.94
10425425--10425483	16	3.6	16	77	4	64	23	16	15	44	1.86
10430765--10430822	20	2.9	20	92	0	98	44	3	27	24	1.69
10431532--10431576	20	2.4	19	92	7	74	26	4	26	42	1.74
10433169--10433221	3	17.7	3	92	0	70	26	32	5	35	1.80
10448297--10448422	28	4.5	28	92	2	191	32	27	12	26	1.93
10448868--10448894	12	2.2	12	100	0	54	40	0	7	51	1.30
10467131--10467243	38	3.0	37	84	3	145	32	12	19	35	1.89
10467386--10467437	22	2.4	21	78	6	59	34	17	15	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10468800--10468871	36	2.0	36	91	0	117	19	19	18	43	1.89
10468943--10469005	3	21.0	3	100	0	126	0	33	0	66	0.92
10470851--10470903	26	2.0	26	88	0	79	50	1	1	45	1.23
10472732--10472762	9	3.4	9	90	0	53	25	12	22	38	1.90
10472817--10472853	9	4.1	9	85	0	56	48	13	8	29	1.71
10473878--10473903	5	5.2	5	100	0	52	19	19	19	42	1.90
10474460--10474806	125	2.8	125	88	3	493	29	15	21	33	1.94
10476781--10477687	29	30.1	29	83	12	1109	29	2	25	42	1.68
10476808--10476892	44	2.0	44	92	2	145	32	3	18	44	1.67
10476781--10476920	72	1.9	72	98	0	271	32	2	21	44	1.64
10476851--10477687	57	14.1	58	87	9	1165	28	2	25	42	1.68
10477023--10477111	44	2.0	44	95	2	162	31	3	21	43	1.69
10477051--10477082	15	2.1	15	94	0	55	37	3	12	46	1.57
10476851--10477687	329	2.5	329	96	0	1550	28	2	25	42	1.68
10477352--10477440	44	2.0	44	95	2	162	31	3	21	43	1.69
10477380--10477411	15	2.1	15	94	0	55	37	3	12	46	1.57
10478224--10478258	18	1.9	18	94	0	61	34	8	31	25	1.86
10480099--10480154	22	2.5	22	97	2	103	39	0	32	28	1.57
10480115--10480171	10	5.2	11	74	21	57	43	0	35	21	1.52
10480904--10480940	17	2.1	18	95	5	67	35	0	0	64	0.94
10480880--10480949	26	2.7	26	84	6	79	34	0	1	64	1.03
10480904--10480943	19	2.2	19	91	8	66	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10482803--10482877	30	2.5	30	84	0	96	44	4	33	18	1.69
10484074--10484098	13	1.9	13	100	0	50	8	0	24	68	1.16
10485845--10485936	41	2.2	41	84	7	116	27	19	22	30	1.98
10486665--10486699	17	2.1	17	89	10	54	40	0	0	60	0.97
10489937--10490496	288	1.9	290	88	2	849	36	12	15	35	1.85
10494566--10494749	101	1.8	102	86	3	273	23	18	25	32	1.97
10494566--10494758	51	3.8	50	76	10	169	23	18	26	31	1.98
10494754--10494838	46	1.9	43	83	7	107	23	15	27	34	1.95
10494976--10495007	16	2.0	16	93	0	55	59	0	15	25	1.36
10498319--10498369	16	3.2	16	75	10	59	33	0	11	54	1.37
10499989--10500321	27	12.3	26	81	5	294	45	20	15	19	1.86
10499989--10500321	81	4.1	82	82	7	328	45	20	15	19	1.86
10500651--10500727	28	2.8	28	95	0	136	24	20	23	31	1.98
10501920--10501956	19	2.0	20	89	10	60	35	10	2	51	1.51
10502481--10502514	15	2.3	15	89	0	50	32	14	8	44	1.76
10504245--10504287	17	2.5	17	85	11	52	53	13	2	30	1.53
10511581--10511649	34	2.0	34	100	0	138	39	14	11	34	1.82
10517271--10517351	42	1.9	42	87	0	117	13	23	18	44	1.85
10517270--10517366	21	4.6	21	68	10	63	14	21	18	45	1.85
10540170--10540206	18	2.0	19	89	5	58	40	8	5	45	1.56
10544108--10544142	2	17.5	2	100	0	70	51	0	0	48	1.00
10558308--10558351	19	2.3	19	85	14	56	22	20	0	56	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10579167--10579217	22	2.3	22	89	0	75	33	15	15	35	1.90
10586560--10586717	27	5.9	27	87	3	219	41	19	16	22	1.90
10587122--10587330	28	7.5	28	89	3	307	23	25	23	27	2.00
10587104--10587337	84	2.8	82	85	8	305	24	24	22	28	1.99
10616545--10616577	14	2.3	15	89	5	50	60	9	0	30	1.27
10617159--10617215	27	2.1	28	90	3	89	31	28	24	15	1.96
10617528--10617771	27	9.0	27	79	5	188	17	18	20	43	1.88
10617528--10617771	54	4.5	54	84	3	267	17	18	20	43	1.88
10617528--10617771	81	3.0	80	80	4	258	17	18	20	43	1.88
10623083--10623139	26	2.2	26	90	3	89	24	19	12	43	1.85
10634632--10634800	84	2.0	84	98	0	329	42	11	12	33	1.78
10637622--10637729	40	2.7	40	88	5	148	25	30	13	29	1.94
10637656--10637720	20	3.2	20	67	4	51	24	35	13	26	1.93
10637620--10637744	40	3.1	40	85	4	110	25	29	15	29	1.96
10652984--10653253	41	6.6	41	79	3	274	21	28	16	33	1.95
10652984--10653254	123	2.2	123	80	5	323	21	28	16	33	1.95
10654212--10654253	21	2.0	21	95	0	75	61	7	7	23	1.47
10655183--10655269	21	4.1	21	80	0	84	14	22	19	42	1.88
10674675--10674710	19	2.0	17	89	10	54	75	0	2	22	0.94
10674677--10674728	23	2.2	24	86	10	72	78	0	3	17	0.89
10674674--10674730	17	3.4	17	79	13	64	78	0	3	17	0.88
10675218--10675266	22	2.3	20	79	6	53	55	4	12	28	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10675225--10675268	22	2.0	22	82	8	54	56	2	13	27	1.49
10677619--10677656	16	2.3	17	86	4	51	60	13	0	26	1.33
10688450--10688489	19	2.2	19	90	4	64	25	20	32	22	1.98
10692107--10692177	36	2.0	36	91	0	115	35	8	25	30	1.86
10703194--10703230	19	1.9	19	88	0	56	70	2	2	24	1.14
10704324--10704381	4	14.5	4	100	0	116	25	0	24	50	1.50
10707159--10707195	18	2.0	19	89	5	58	0	21	16	62	1.33
10716413--10716437	4	6.2	4	100	0	50	24	0	0	76	0.80
10729002--10729035	16	2.1	16	100	0	68	32	0	44	23	1.54
10731445--10731485	6	6.7	6	85	2	55	14	29	2	53	1.54
10733919--10734012	45	2.1	45	93	0	161	30	24	19	25	1.98
10736876--10736957	42	2.0	42	80	9	96	32	20	13	32	1.91
10741552--10741611	30	2.0	30	83	3	75	41	0	36	21	1.54
10741890--10741920	9	3.4	9	90	0	53	38	22	12	25	1.90
10742649--10742679	5	6.4	5	92	7	55	35	0	22	41	1.54
10752820--10752861	7	5.9	7	83	5	57	28	0	0	71	0.86
10754302--10754333	16	2.0	16	100	0	64	25	31	6	37	1.81
10760005--10760053	19	2.5	20	77	12	57	36	20	0	42	1.52
10762978--10763042	25	2.6	25	82	0	94	38	16	18	26	1.92
10765151--10765192	18	2.3	19	83	4	50	40	16	21	21	1.91
10765172--10765272	45	2.3	45	86	5	143	40	17	17	23	1.91
10782423--10782663	116	2.1	116	91	0	383	26	29	22	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10786291--10786561	147	1.8	148	84	2	375	28	18	16	35	1.94
10789588--10789810	45	5.0	45	83	0	230	43	13	21	22	1.87
10793297--10793338	21	2.0	21	86	4	59	38	4	0	57	1.20
10801212--10801423	42	4.9	42	77	8	178	33	16	19	30	1.94
10801331--10801419	47	1.9	46	86	6	126	30	19	19	31	1.96
10802267--10802336	30	2.4	29	92	4	115	34	24	21	20	1.97
10802303--10802438	72	1.9	72	98	0	263	22	18	25	34	1.96
10807230--10807357	57	2.2	58	79	9	136	27	21	4	46	1.70
10807338--10807367	8	3.8	8	90	0	51	16	33	0	50	1.46
10813856--10813910	22	2.5	22	90	0	74	21	23	27	27	1.99

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