genome.fa.s1.2.7.7.80.10.50.1000.172.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   

This is table  172  of  316  ( 37835 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)
55125212--55125384	46	3.7	46	78	10	199	29	27	20	22	1.98
55129640--55129915	39	7.1	39	94	0	480	23	30	25	21	1.99
55137870--55137986	45	2.6	45	84	10	152	24	24	24	25	2.00
55145613--55145700	45	2.0	45	93	0	149	23	23	26	26	2.00
55155911--55155964	26	2.1	26	83	13	67	66	0	7	25	1.17
55158543--55158571	15	1.9	15	100	0	58	27	0	0	72	0.85
55160194--55160378	79	2.3	81	80	8	209	25	28	22	24	1.99
55160175--55160378	40	5.1	40	80	8	220	25	27	22	25	1.99
55167563--55167613	25	2.0	25	96	0	93	37	13	15	33	1.87
55175226--55175356	43	3.1	43	77	10	144	25	20	25	27	1.99
55175244--55175356	42	2.7	42	81	4	138	26	20	25	27	1.99
55177002--55177108	29	3.8	27	75	8	99	27	15	31	25	1.96
55187353--55187410	29	2.0	29	100	0	116	31	27	17	24	1.97
55188235--55188293	30	2.0	30	86	0	82	28	23	8	38	1.84
55191527--55191704	27	6.6	26	82	6	169	26	15	28	28	1.96
55191528--55191683	82	1.9	81	85	3	215	26	16	28	28	1.97
55191524--55191704	82	2.2	81	81	2	211	27	16	28	28	1.97
55191609--55191715	27	3.9	27	85	1	70	26	14	28	30	1.95
55207580--55207871	27	10.8	27	90	0	440	28	22	9	39	1.85
55207859--55208015	27	5.8	27	85	3	181	42	21	6	30	1.77
55207566--55207913	81	4.3	81	87	0	408	30	22	9	37	1.86
55207863--55208015	81	1.9	81	83	2	200	42	21	6	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55208057--55208273	27	8.0	27	86	1	292	34	20	21	23	1.97
55208476--55208543	25	2.8	25	91	4	104	25	25	23	26	2.00
55209505--55209667	43	3.8	43	73	9	120	26	14	26	31	1.95
55210348--55210377	13	2.3	13	94	0	51	23	6	26	43	1.78
55212352--55212468	48	2.4	48	81	4	128	35	27	17	19	1.95
55220417--55220580	47	3.5	47	98	0	319	34	7	28	30	1.84
55220509--55220649	69	2.0	69	98	0	219	34	6	27	31	1.82
55220556--55220602	22	2.1	22	100	0	94	36	0	27	36	1.57
55220578--55220888	47	6.6	47	95	0	496	33	8	29	28	1.87
55220462--55220696	116	2.0	116	97	0	443	34	7	28	30	1.85
55220417--55220743	163	2.0	163	98	0	627	34	7	27	29	1.85
55225386--55225454	34	2.0	34	88	0	102	30	23	14	31	1.94
55227334--55227414	38	2.1	38	93	0	135	27	20	28	23	1.99
55235485--55235580	27	3.6	27	86	0	129	35	18	17	28	1.94
55235578--55235650	26	2.8	26	76	12	78	32	17	16	32	1.93
55245917--55245993	29	2.7	29	89	0	109	25	28	18	27	1.98
55248479--55248614	51	2.7	51	85	4	177	29	27	14	28	1.95
55248518--55248705	51	3.8	49	78	6	171	28	27	19	25	1.98
55248570--55248708	49	2.8	49	80	6	163	28	26	20	23	1.99
55252415--55252550	43	3.2	42	78	8	116	27	19	25	28	1.98
55258825--55258877	26	2.0	26	82	7	63	26	15	20	37	1.92
55260362--55260471	26	4.2	26	97	0	184	36	24	5	33	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55271768--55271824	13	3.9	15	80	17	57	5	21	3	70	1.22
55271767--55271812	17	2.9	16	81	15	51	4	23	4	67	1.27
55272283--55272442	27	5.9	27	90	0	257	26	21	18	33	1.96
55272434--55272807	27	13.9	27	80	7	163	32	9	20	37	1.84
55272485--55272828	27	12.7	27	84	1	393	31	9	20	38	1.85
55272542--55272828	27	10.6	27	86	0	394	31	8	20	39	1.83
55274469--55274689	41	5.4	41	85	1	300	35	21	23	19	1.96
55274469--55274689	81	2.7	82	84	1	300	35	21	23	19	1.96
55274469--55274690	122	1.8	122	89	1	347	35	21	22	19	1.96
55274847--55274886	14	2.9	14	88	0	53	30	0	22	47	1.52
55275751--55275782	15	2.1	15	94	0	55	59	0	9	31	1.29
55275754--55275821	24	2.8	24	76	10	75	57	0	4	38	1.19
55277372--55277414	18	2.4	17	84	7	59	23	6	27	41	1.80
55279203--55279454	133	1.9	133	95	0	459	20	9	17	51	1.74
55281523--55281562	21	1.9	21	94	0	71	30	10	12	47	1.74
55288007--55288290	43	6.6	43	85	4	288	26	20	23	29	1.99
55288006--55288290	86	3.3	85	82	5	331	26	20	23	29	1.99
55288007--55288290	129	2.2	128	81	4	322	26	20	23	29	1.99
55289452--55289508	29	2.0	29	89	3	89	29	29	17	22	1.97
55304062--55304255	51	3.8	51	88	2	284	30	12	26	30	1.93
55304062--55304255	101	1.9	102	87	3	284	30	12	26	30	1.93
55305083--55305166	41	2.0	41	100	0	168	39	19	2	39	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55305804--55305871	34	2.0	34	97	0	127	35	7	35	22	1.82
55307949--55308022	19	3.6	19	71	18	67	55	5	1	37	1.31
55310337--55310538	48	4.3	48	72	12	143	26	25	19	29	1.98
55310297--55310503	90	2.3	89	80	6	213	28	23	18	29	1.98
55310510--55310649	48	2.9	48	80	1	163	26	30	17	25	1.97
55313293--55313363	23	3.2	23	77	18	96	50	12	8	28	1.69
55317701--55317857	43	3.7	43	72	10	124	28	15	24	30	1.96
55319007--55319045	18	2.3	16	82	8	51	53	0	5	41	1.23
55320655--55320692	9	4.2	9	93	0	67	21	31	0	47	1.51
55321101--55321135	15	2.3	15	100	0	70	42	20	8	28	1.81
55324348--55324394	25	1.9	24	82	4	58	59	4	2	34	1.29
55326124--55326442	179	1.8	175	82	9	414	28	24	16	30	1.97
55326555--55326932	177	2.1	177	88	4	557	27	25	17	29	1.97
55326729--55326825	44	2.2	45	78	14	103	28	25	16	28	1.97
55327229--55327465	62	3.9	64	81	10	307	37	15	16	30	1.90
55327327--55327445	55	2.2	55	89	1	177	37	13	16	31	1.88
55327499--55327525	14	1.9	14	100	0	54	22	7	11	59	1.56
55339184--55339438	40	6.1	40	80	10	231	32	21	18	26	1.97
55339253--55339356	51	2.0	51	96	0	190	33	18	18	29	1.95
55339212--55339393	91	2.0	92	90	1	285	32	20	19	27	1.97
55345842--55345898	30	1.9	30	92	0	96	31	7	12	49	1.67
55350816--55350854	16	2.4	16	91	4	60	53	7	0	38	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55350913--55351472	254	2.2	255	85	6	749	38	8	6	47	1.59
55351388--55351421	16	2.1	17	88	5	52	47	0	8	44	1.34
55351435--55351477	20	2.2	20	87	8	61	32	0	4	62	1.15
55352076--55352597	249	2.1	243	83	5	629	39	8	6	45	1.61
55354332--55354387	29	2.0	28	89	3	85	33	25	19	21	1.97
55355990--55356015	12	2.2	12	100	0	52	15	0	0	84	0.62
55360425--55360452	5	5.6	5	100	0	56	17	0	0	82	0.68
55363804--55363828	13	1.9	13	100	0	50	32	4	24	40	1.73
55364944--55365105	42	3.8	42	77	7	139	23	15	27	33	1.95
55370253--55370303	25	2.0	25	100	0	102	25	19	23	31	1.98
55371395--55371583	29	6.5	29	85	4	247	37	14	28	19	1.91
55373352--55373427	40	1.9	40	83	5	100	34	22	15	27	1.95
55381012--55381218	53	3.8	53	77	4	209	38	17	23	19	1.93
55388471--55388608	55	2.5	54	76	1	141	35	21	23	19	1.96
55392090--55392179	29	3.1	29	90	1	146	28	12	27	31	1.93
55396049--55396124	29	2.7	29	82	10	93	30	13	26	30	1.94
55396075--55396138	28	2.2	29	88	2	94	31	15	23	29	1.95
55401597--55401672	40	1.9	40	86	5	109	32	23	17	26	1.96
55424475--55424642	43	3.9	43	80	6	198	33	27	14	24	1.94
55429067--55429321	55	4.8	53	78	12	247	34	15	25	23	1.95
55432325--55432495	93	1.8	93	92	0	288	28	27	21	23	1.99
55432320--55432492	46	3.7	46	75	13	183	28	26	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55432918--55432977	30	2.0	30	90	0	93	30	25	8	36	1.85
55439657--55439868	40	5.2	40	83	9	270	26	25	24	23	2.00
55439657--55439868	83	2.6	80	85	5	277	26	25	24	23	2.00
55444050--55444123	37	2.0	37	100	0	148	35	0	13	51	1.41
55446431--55446738	39	7.9	39	96	0	553	21	26	30	21	1.98
55452334--55452549	40	5.3	40	84	7	276	26	27	22	23	2.00
55452334--55452549	83	2.7	80	85	4	283	26	27	22	23	2.00
55462391--55462599	55	3.9	54	81	10	266	35	14	26	23	1.93
55462398--55462598	108	1.8	110	86	6	293	35	14	26	23	1.94
55467381--55467598	40	5.5	40	92	2	343	24	23	27	24	2.00

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