genome.fa.s12.2.7.7.80.10.50.1000.168.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   

This is table  168  of  320  ( 38372 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)
55506910--55507257	27	13.0	26	74	9	234	33	10	18	38	1.84
55506916--55507233	54	5.9	52	78	8	264	33	10	17	39	1.83
55506915--55507257	81	4.3	81	78	9	312	33	9	17	39	1.83
55510622--55510810	9	20.4	9	68	18	61	56	19	1	22	1.50
55510730--55510810	5	16.6	5	69	16	55	55	17	1	25	1.49
55510730--55510810	9	8.9	9	80	12	85	55	17	1	25	1.49
55510730--55510810	19	4.4	18	80	13	85	55	17	1	25	1.49
55510730--55510810	14	5.9	14	72	21	64	55	17	1	25	1.49
55510724--55510798	36	2.1	36	87	5	107	54	18	1	25	1.51
55511429--55511481	21	2.4	22	81	6	63	45	1	7	45	1.42
55519762--55519808	24	2.0	24	100	0	94	38	10	17	34	1.84
55520101--55520144	21	2.1	21	87	4	63	27	38	18	15	1.91
55522948--55523379	47	9.1	47	93	2	686	31	9	30	28	1.88
55523498--55523576	37	2.1	37	90	0	122	24	18	31	25	1.98
55527982--55528140	83	1.9	83	90	0	255	27	11	27	33	1.91
55530022--55530084	21	3.0	21	75	9	74	25	15	19	39	1.91
55530861--55530919	21	3.2	19	86	11	70	44	5	5	45	1.47
55530893--55530919	4	6.8	4	100	0	54	48	0	0	51	1.00
55532393--55532610	93	2.3	94	80	11	243	28	19	29	22	1.98
55532387--55532608	47	4.7	47	79	10	206	28	19	29	22	1.98
55532347--55532608	140	1.9	141	83	5	343	29	19	28	22	1.98
55534657--55534712	6	9.3	6	84	0	76	28	0	16	55	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55534657--55534712	18	3.1	18	89	0	85	28	0	16	55	1.41
55536448--55536550	44	2.4	43	88	4	145	28	20	22	29	1.98
55536448--55536562	43	2.6	44	87	6	155	26	20	24	28	1.99
55567645--55567696	16	3.3	15	78	7	52	53	17	19	9	1.70
55567910--55568012	28	3.7	28	78	2	91	28	16	26	29	1.97
55577989--55578087	28	3.5	28	87	4	119	27	15	27	30	1.96
55582106--55582156	26	2.0	26	84	7	68	35	5	15	43	1.71
55589939--55590109	93	1.8	93	92	2	290	29	26	20	23	1.99
55589931--55590106	46	3.8	46	75	14	191	30	26	19	23	1.98
55590530--55590589	30	2.0	30	90	0	93	30	25	8	36	1.85
55591989--55592113	29	4.3	29	84	1	162	32	28	12	26	1.93
55591996--55592108	58	2.0	57	91	1	181	30	29	13	26	1.94
55592171--55592205	18	2.0	18	88	5	54	20	42	22	14	1.88
55595537--55595646	7	14.9	7	90	5	148	47	39	0	13	1.43
55595537--55595646	15	7.4	14	89	6	148	47	39	0	13	1.43
55602348--55602682	50	6.7	50	76	5	295	28	27	18	25	1.98
55602391--55602471	26	3.2	26	68	25	82	29	29	14	25	1.95
55602340--55602678	148	2.3	149	93	2	581	28	27	19	25	1.99
55602337--55602682	101	3.5	99	75	7	299	27	27	18	26	1.98
55618431--55618606	46	3.8	45	79	10	203	21	21	28	28	1.98
55618428--55618598	93	1.8	93	93	0	297	21	21	29	27	1.99
55628110--55628255	37	3.9	37	93	0	229	26	32	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55628460--55628746	47	6.1	47	89	0	423	27	29	10	32	1.91
55628482--55628747	141	1.9	141	97	0	505	27	29	11	31	1.91
55634982--55635184	98	2.1	98	100	0	406	26	23	25	25	2.00
55636220--55636515	27	11.0	27	85	1	389	25	19	19	36	1.95
55638466--55638546	27	2.9	27	78	12	83	34	20	23	20	1.97
55639225--55639565	27	12.6	27	86	1	432	26	20	18	34	1.96
55640548--55640590	19	2.3	19	84	11	54	58	0	16	25	1.38
55641662--55641764	40	2.6	40	84	0	134	34	14	27	23	1.94
55646634--55646694	30	2.0	30	83	0	77	31	22	8	37	1.84
55656608--55656702	41	2.3	41	87	0	127	20	22	26	31	1.98
55660660--55660693	13	2.6	13	100	0	68	23	32	29	14	1.94
55662236--55662350	29	4.0	28	75	8	115	28	28	15	26	1.96
55662409--55662442	17	1.9	18	88	5	52	20	44	23	11	1.84
55662573--55662615	8	5.4	8	82	0	59	11	23	25	39	1.88
55662561--55662619	24	2.5	24	88	0	82	10	20	20	49	1.77
55662569--55662620	16	3.3	16	83	2	70	9	19	23	48	1.78
55666761--55666860	29	3.5	28	83	6	121	31	30	15	24	1.95
55666752--55666860	58	1.9	58	90	1	175	30	29	14	25	1.95
55672088--55672242	39	4.0	39	92	0	256	21	25	29	23	1.99
55677860--55678089	39	5.9	39	89	0	343	24	26	26	23	2.00
55679438--55679513	37	2.1	37	92	0	125	26	34	18	21	1.96
55679634--55680086	47	9.6	47	92	1	690	29	30	7	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55679634--55680086	237	1.9	237	92	0	753	29	30	7	31	1.86
55681501--55681525	13	1.9	13	100	0	50	32	16	20	32	1.94
55682880--55682966	39	2.2	39	89	0	129	20	25	27	26	1.99
55686157--55686311	39	4.0	39	93	0	265	21	25	29	23	1.99
55691875--55692093	36	5.9	39	82	8	253	25	26	25	22	2.00
55691875--55692090	75	2.9	75	83	8	273	25	27	24	22	2.00
55693433--55693508	37	2.1	37	92	0	125	26	34	18	21	1.96
55693629--55694050	47	9.6	47	82	12	477	30	30	7	31	1.84
55695461--55695485	13	1.9	13	100	0	50	32	16	20	32	1.94
55696832--55696916	39	2.2	38	87	4	118	21	24	28	25	1.99
55700108--55700262	39	4.0	39	93	0	265	21	25	29	23	1.99
55706298--55706421	22	5.5	22	75	12	108	24	22	16	36	1.94
55706288--55706426	45	3.1	45	75	14	124	24	23	16	35	1.94
55710170--55710424	55	4.8	53	75	12	186	36	16	24	22	1.94
55710178--55710377	108	1.8	110	83	8	266	34	16	25	24	1.95
55713246--55713335	7	12.4	7	83	6	117	17	0	38	43	1.50
55713246--55713335	22	4.1	21	86	9	119	17	0	38	43	1.50
55714756--55714825	24	2.8	25	82	6	88	27	22	21	28	1.99
55714806--55714852	25	2.0	24	83	8	60	29	21	23	25	1.99
55715045--55715127	30	2.7	31	87	3	116	32	19	26	21	1.97
55722834--55722913	29	2.8	29	90	3	126	31	20	26	22	1.98
55726145--55726172	1	28.0	1	100	0	56	0	0	0	100	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55743276--55743424	43	3.5	41	80	11	158	24	19	26	30	1.98
55747181--55747273	44	2.1	46	84	8	120	38	23	3	34	1.71
55747417--55747972	138	4.0	138	89	2	821	41	7	5	46	1.54
55747417--55747972	277	2.0	274	89	1	844	41	7	5	46	1.54
55753075--55753207	49	2.7	49	81	9	171	23	26	21	29	1.99
55753790--55753839	20	2.6	19	84	9	57	36	22	0	42	1.54
55763819--55763848	16	1.9	16	93	6	53	50	20	0	30	1.49
55768184--55768232	23	2.1	24	81	11	57	51	16	0	32	1.45
55770898--55770958	26	2.4	26	91	2	97	39	11	11	37	1.78
55771023--55771093	36	2.0	36	97	0	133	38	12	22	26	1.90
55773116--55773605	244	2.0	244	95	0	890	24	24	14	35	1.94
55776872--55777049	27	6.6	27	81	5	171	28	28	16	26	1.97
55776893--55777048	82	1.9	81	86	3	224	28	28	16	26	1.97
55789667--55790230	138	4.1	138	88	3	794	44	6	8	40	1.60
55796329--55796385	9	5.9	9	73	15	51	35	8	21	35	1.84
55796327--55796391	20	3.2	20	95	0	121	35	12	20	32	1.89
55796338--55796391	11	5.3	11	70	17	53	35	12	20	31	1.90
55796442--55796571	24	5.4	24	93	2	217	27	21	21	29	1.99
55796778--55796841	32	2.0	32	87	3	94	34	17	23	25	1.96
55797657--55797752	25	3.8	25	73	5	86	31	18	22	27	1.97
55797649--55797762	50	2.3	50	90	0	174	32	19	21	26	1.97
55797682--55797761	25	3.2	25	72	19	85	33	20	22	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55801442--55801487	23	2.0	23	83	12	58	41	26	19	13	1.88
55822261--55822300	21	1.9	21	89	0	62	20	50	15	15	1.79
55823358--55823413	28	2.0	28	100	0	112	28	21	14	35	1.92
55830592--55830653	25	2.4	25	81	2	70	38	16	3	41	1.64
55838409--55838447	21	1.9	21	89	5	62	25	28	33	12	1.93
55841788--55841832	21	2.0	23	83	8	58	20	28	20	31	1.97
55844758--55844985	40	5.7	40	75	6	149	28	24	21	26	1.99
55845214--55845426	52	4.1	52	82	3	277	38	23	10	26	1.88
55845221--55845425	103	2.0	104	89	2	315	39	22	11	26	1.88
55849049--55849117	35	2.0	35	97	0	129	31	30	8	28	1.87

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   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320