genome.fa.s25.2.7.7.80.10.50.1000.187.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  187  of  214  ( 25680 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)
54818281--54818413	66	2.0	66	91	0	212	36	17	6	39	1.74
54828647--54828768	36	3.4	37	74	6	117	40	6	18	33	1.77
54829168--54829417	49	5.1	49	71	8	177	33	19	26	21	1.97
54829177--54829417	98	2.5	98	86	1	331	32	19	26	20	1.97
54829542--54829714	53	3.2	53	77	4	143	31	19	24	23	1.98
54846743--54846768	7	3.7	7	100	0	52	30	30	11	26	1.92
54848194--54848243	20	2.5	20	81	12	59	56	10	0	34	1.33
54848223--54848269	24	1.9	25	86	4	69	48	2	2	46	1.25
54849450--54849489	19	2.1	19	86	9	55	70	7	0	22	1.12
54852657--54852681	5	5.0	5	100	0	50	60	0	0	40	0.97
54858308--54858332	4	6.2	4	100	0	50	52	0	24	24	1.48
54870368--54870439	35	2.1	35	97	0	135	18	22	9	50	1.76
54875443--54875478	3	12.0	3	87	0	54	38	0	33	27	1.57
54885674--54885724	16	3.2	16	67	10	50	52	9	0	37	1.34
54885727--54885761	15	2.2	16	90	5	54	45	2	0	51	1.16
54888306--54888348	17	2.5	17	84	0	50	53	0	0	46	1.00
54888698--54888740	24	1.9	21	86	13	59	39	2	0	58	1.11
54889269--54889333	31	2.1	31	86	8	89	63	1	1	33	1.13
54908941--54908981	15	2.7	15	88	3	55	46	0	2	51	1.14
54923161--54923201	21	2.0	21	90	0	64	19	29	21	29	1.98
54926274--54926500	104	2.2	104	92	2	377	31	31	18	18	1.95
54926829--54926892	30	2.2	29	81	10	76	29	28	6	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54926836--54926892	30	1.9	30	85	3	80	29	24	7	38	1.82
54933744--54933795	27	1.9	27	92	0	86	28	32	23	15	1.95
54944069--54944114	17	2.7	18	78	18	53	41	10	6	41	1.66
54947030--54947093	31	2.1	31	82	11	78	31	17	14	37	1.89
54949085--54949125	21	1.9	22	90	5	66	68	0	29	2	1.03
54955467--54955910	149	3.0	146	89	5	650	28	5	6	59	1.46
54955779--54955816	14	2.8	14	84	4	51	21	5	0	73	1.02
54955906--54955934	14	2.1	14	100	0	58	44	0	0	55	0.99
54963508--54963569	23	2.7	23	83	9	74	69	0	3	27	1.04
54963527--54963570	4	11.2	4	81	13	56	75	0	2	22	0.92
54964052--54964462	201	2.0	202	99	0	815	41	10	5	42	1.63
54990715--54990781	27	2.4	27	92	5	107	16	4	13	65	1.42
54991193--54991234	17	2.4	17	92	4	66	35	26	9	28	1.88
54991194--54991234	9	4.7	9	84	6	57	34	26	9	29	1.88
54991280--54991340	17	3.4	17	70	12	59	50	14	3	31	1.59
54991238--54991340	37	2.9	37	94	5	178	49	14	4	31	1.64
54991263--54991323	20	3.2	20	68	13	65	44	16	6	32	1.73
54998382--54998440	27	2.3	27	83	11	72	32	25	0	42	1.55
54998406--54998451	23	2.0	24	82	4	58	32	26	0	41	1.56
54999246--54999282	14	2.6	14	82	0	56	0	24	0	75	0.80
55000931--55001182	134	1.9	133	94	0	450	40	13	16	30	1.87
55001971--55002000	14	2.1	14	100	0	60	23	20	6	50	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55007898--55007936	13	3.1	13	85	14	55	53	0	2	43	1.14
55008141--55008215	15	5.6	13	73	17	57	61	1	6	30	1.30
55009634--55009937	87	3.5	87	72	9	296	26	21	21	30	1.98
55010096--55010494	85	4.7	85	94	2	694	24	22	21	31	1.98
55010302--55010437	42	3.2	42	65	17	118	22	22	25	29	1.99
55010096--55010494	169	2.3	169	94	1	692	24	22	21	31	1.98
55012690--55012725	17	2.1	18	89	5	56	5	8	5	80	1.01
55015140--55015182	19	2.3	19	84	8	52	41	13	20	23	1.88
55017061--55017099	13	3.1	13	85	14	55	53	0	2	43	1.14
55017305--55017379	15	5.6	13	73	17	57	61	1	6	30	1.30
55025346--55025423	29	2.7	29	76	5	79	43	8	1	46	1.43
55025445--55025535	47	1.9	47	86	4	130	34	5	4	56	1.43
55025936--55026251	109	2.9	108	90	2	492	29	16	18	34	1.93
55029931--55029980	3	17.7	3	80	15	54	74	0	26	0	0.83
55029921--55029980	20	3.0	20	88	7	79	75	0	23	1	0.90
55029910--55029973	17	3.8	17	82	11	71	76	0	21	1	0.87
55029935--55029980	14	3.5	13	77	17	51	76	0	23	0	0.79
55031218--55031530	89	3.6	89	85	6	435	28	25	23	22	1.99
55031336--55031497	81	2.0	81	92	0	270	27	26	24	20	1.99
55031544--55031899	44	8.1	44	72	13	182	31	17	24	26	1.97
55031567--55031852	132	2.2	132	92	0	464	30	18	24	26	1.98
55031912--55032057	50	2.9	50	71	1	139	29	20	23	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55031919--55032104	101	1.9	100	87	3	275	29	20	23	26	1.99
55032159--55032493	44	7.8	43	71	6	205	30	19	21	28	1.97
55032113--55032487	129	2.9	127	84	3	473	30	20	21	28	1.98
55032117--55032492	85	4.4	85	69	11	239	30	19	21	28	1.98
55034152--55034242	47	1.9	47	86	4	130	34	5	4	56	1.43
55034653--55034964	109	2.9	107	89	2	475	30	16	18	34	1.93
55036727--55036786	29	2.1	29	87	6	86	41	0	5	53	1.23
55043253--55043353	50	2.0	50	98	0	193	42	19	4	32	1.73
55045080--55045122	22	2.0	22	85	0	59	39	16	27	16	1.90
55046114--55046166	5	10.2	5	89	6	79	58	0	0	41	0.98
55046114--55046166	26	2.0	26	89	7	81	58	0	0	41	0.98
55048400--55048437	11	3.5	11	85	10	51	28	10	0	60	1.30
55050551--55050589	20	2.0	20	100	0	78	41	0	23	35	1.55
55053944--55053977	15	2.3	15	94	0	59	0	20	0	79	0.73
55054807--55054833	3	9.0	3	100	0	54	0	0	33	66	0.92
55060818--55060887	30	2.3	30	85	0	86	34	12	24	28	1.92
55071231--55071290	29	2.1	29	100	0	120	46	16	16	20	1.84
55075192--55075285	9	10.4	9	87	0	134	41	22	9	26	1.84
55084764--55084817	19	2.8	18	81	18	65	33	0	1	64	1.04
55084765--55084820	26	2.1	27	83	3	69	32	0	1	66	1.03
55086577--55086624	3	16.3	3	82	4	62	66	4	2	27	1.21
55101409--55101466	31	1.9	29	86	6	80	50	10	3	36	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55101406--55101470	31	2.3	27	80	15	76	49	9	3	38	1.51
55103152--55103190	21	1.9	21	94	5	71	48	0	5	46	1.24
55103345--55103398	22	2.5	21	85	5	81	64	1	33	0	1.04
55106741--55106782	16	2.7	15	85	7	57	57	2	2	38	1.25
55107185--55107519	22	15.0	22	70	17	160	55	11	0	32	1.40
55107163--55107378	97	2.2	98	94	0	380	54	11	0	33	1.42
55107161--55107385	27	9.1	27	74	20	170	54	10	0	34	1.41
55107161--55107385	49	4.6	49	88	1	344	54	10	0	34	1.41
55107693--55107722	3	10.3	3	92	7	53	0	33	0	66	0.92
55107685--55107723	14	2.8	15	92	7	57	0	33	0	66	0.92
55107689--55107733	17	2.7	17	89	3	65	0	37	0	62	0.96
55107700--55107739	14	2.9	14	88	0	53	0	45	0	55	0.99
55107691--55107748	17	3.6	16	75	15	57	0	41	0	58	0.98
55115353--55115535	42	4.4	42	85	2	206	46	15	20	16	1.83
55115347--55115535	21	9.0	21	64	2	83	46	16	20	16	1.85
55124064--55124091	2	14.0	2	100	0	56	50	50	0	0	1.00
55129227--55129306	29	3.0	28	68	30	75	45	0	1	53	1.08
55129253--55129304	22	2.3	23	83	9	72	48	0	0	51	1.00
55129368--55129407	17	2.4	17	95	0	71	62	5	0	32	1.17
55137410--55137503	34	3.1	30	71	21	88	53	1	2	43	1.19
55137529--55137564	18	2.0	18	100	0	72	38	0	0	61	0.96
55141005--55141056	20	2.6	20	81	0	59	53	5	0	40	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55145961--55146014	24	2.3	24	83	3	74	25	14	22	37	1.93
55147431--55147586	32	4.9	32	82	0	177	32	8	16	42	1.78
55147417--55147597	32	5.7	32	76	3	132	30	8	16	44	1.77
55150653--55150694	20	2.2	19	86	4	57	40	0	7	52	1.29
55154067--55154112	16	2.7	17	80	16	51	21	2	2	73	1.04
55154273--55154317	23	2.0	23	90	0	72	46	2	8	42	1.47
55164896--55165059	43	3.8	43	76	7	154	25	15	26	33	1.95
55170864--55170906	18	2.4	18	92	0	68	2	58	0	39	1.11
55171355--55171409	25	2.2	25	96	0	101	21	18	18	41	1.90
55173396--55173435	20	2.0	20	85	0	53	50	12	10	27	1.72

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