genome.fa.s5.2.7.7.80.10.50.1000.178.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   

This is table  178  of  318  ( 38109 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)
55869050--55869117	33	2.1	33	97	0	127	32	5	16	45	1.71
55869027--55869143	60	2.0	60	89	3	182	28	6	20	44	1.77
55868943--55869171	87	2.7	86	83	7	267	30	7	19	41	1.80
55869163--55869506	27	12.7	27	93	0	562	40	8	22	28	1.83
55876310--55876347	18	2.2	18	86	13	53	60	15	2	21	1.47
55876628--55876666	20	2.0	19	85	5	51	41	12	20	25	1.88
55886617--55886813	55	3.6	54	78	4	209	18	22	20	38	1.94
55889866--55889950	44	1.9	44	87	0	125	21	16	28	34	1.95
55894837--55894960	48	2.6	48	81	1	133	26	29	16	28	1.97
55898500--55898535	18	2.0	18	100	0	72	27	11	38	22	1.88
55900034--55900122	44	2.0	44	97	0	169	33	15	14	35	1.88
55900636--55900713	28	2.8	28	88	0	120	33	12	25	28	1.93
55901957--55902280	47	7.0	47	70	15	210	22	30	20	26	1.98
55901961--55902280	94	3.5	92	77	12	341	21	30	20	26	1.98
55908674--55908731	30	1.9	30	85	0	80	17	32	27	22	1.96
55909395--55909716	94	3.4	94	78	10	304	19	29	21	28	1.98
55909405--55909716	47	6.7	47	73	13	173	20	29	20	29	1.98
55914514--55914568	24	2.3	24	87	3	85	43	25	3	27	1.71
55915713--55915796	40	2.1	40	82	4	98	25	16	25	33	1.96
55915832--55915899	28	2.4	28	95	0	118	29	14	26	29	1.95
55917851--55917936	45	1.9	45	90	0	136	37	24	12	25	1.91
55922591--55922625	16	2.2	16	100	0	70	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55933761--55933805	23	1.9	23	86	4	63	15	6	2	75	1.11
55936083--55936120	19	2.0	19	85	10	51	52	0	2	44	1.14
55936391--55936415	11	2.3	11	100	0	50	44	0	12	44	1.41
55937035--55937094	26	2.3	26	91	0	93	38	13	28	20	1.90
55938179--55938215	19	1.9	19	88	0	56	35	2	40	21	1.68
55938192--55938250	28	2.1	28	93	3	102	52	1	30	15	1.52
55938198--55938256	28	2.1	27	87	3	82	49	1	30	18	1.58
55938163--55938323	82	2.0	79	86	4	223	45	1	32	21	1.60
55938370--55938431	28	2.2	28	88	5	90	56	1	25	16	1.49
55938802--55938842	16	2.6	16	88	0	55	36	7	29	26	1.83
55939147--55939189	12	3.7	12	81	12	54	60	2	0	37	1.10
55939144--55939182	19	1.9	19	85	10	51	64	2	0	33	1.08
55943819--55944036	40	5.5	40	91	2	334	23	22	28	25	1.99
55947733--55947757	11	2.3	11	100	0	50	28	0	0	72	0.86
55955899--55955923	12	2.1	12	100	0	50	16	8	16	60	1.58
55965619--55965688	33	2.1	33	97	0	131	30	15	11	42	1.82
55968047--55968125	31	2.5	31	91	0	122	30	26	15	27	1.96
55968149--55968240	42	2.2	42	92	0	148	34	21	14	29	1.93
55968377--55968457	25	3.2	26	84	6	78	22	23	23	30	1.99
55969381--55969511	27	4.7	27	71	12	86	32	7	17	41	1.78
55969495--55969566	27	2.7	26	72	6	72	25	13	19	41	1.88
55969462--55969577	27	4.3	26	67	12	65	28	12	21	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55969569--55969660	27	3.4	27	81	3	105	40	6	25	28	1.80
55969559--55969684	54	2.3	53	77	11	130	36	8	23	30	1.85
55969640--55969699	27	2.2	27	82	5	68	30	10	20	40	1.85
55975159--55975229	37	1.9	37	91	0	115	25	30	19	23	1.98
55975362--55976139	48	16.2	48	93	1	1254	31	24	6	37	1.81
55979343--55979372	13	2.3	13	100	0	60	46	13	10	30	1.75
55981667--55981758	43	2.1	43	84	4	114	26	16	23	33	1.95
55987478--55987589	27	4.1	27	84	7	138	15	24	23	37	1.93
55987478--55987589	54	2.1	54	88	3	163	15	24	23	37	1.93
55988605--55988638	10	3.3	10	84	8	50	29	8	8	52	1.62
55994052--55994242	40	4.8	40	93	2	305	26	27	22	23	2.00
55998797--55998902	27	3.9	27	82	7	126	16	23	22	37	1.93
55998794--55998908	54	2.1	54	83	3	151	14	24	23	37	1.93
56009690--56009785	47	2.0	47	90	7	151	29	10	13	46	1.76
56010598--56010771	45	3.9	45	88	1	253	23	22	27	25	2.00
56028448--56028590	47	3.0	47	95	0	250	29	11	14	44	1.81
56029393--56029567	45	3.9	45	87	0	233	23	23	25	28	2.00
56034957--56035027	28	2.5	28	81	4	90	32	25	14	28	1.94
56037146--56037268	46	2.6	47	84	5	149	27	21	13	37	1.91
56041484--56041606	46	2.6	47	84	5	149	27	21	13	37	1.91
56046116--56046455	42	7.7	41	76	15	218	30	25	15	28	1.96
56046133--56046455	96	3.6	83	78	12	261	30	24	15	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56046240--56046433	48	4.0	48	87	2	275	29	25	15	28	1.96
56047826--56047976	52	2.9	52	79	6	162	27	17	25	29	1.98
56062663--56062863	52	4.0	52	77	12	186	23	16	28	30	1.96
56062670--56062873	46	4.1	47	76	13	160	23	16	29	31	1.96
56065197--56065369	46	3.7	46	75	13	183	21	20	28	30	1.98
56065194--56065364	93	1.8	93	92	0	288	21	20	29	29	1.98
56068336--56068391	15	3.7	15	83	7	78	12	16	8	62	1.53
56070796--56070962	46	3.6	46	75	18	175	22	19	28	29	1.98
56070790--56070959	93	1.8	93	92	2	288	21	18	28	30	1.97
56074992--56075016	13	1.9	13	100	0	50	20	40	24	16	1.91
56085064--56085120	28	2.0	28	82	0	69	29	31	10	28	1.90
56087846--56087875	14	2.1	14	100	0	60	43	20	13	23	1.86
56092492--56092521	15	1.9	16	93	6	53	46	0	0	53	1.00
56092714--56092742	14	2.1	14	93	6	51	13	0	10	75	1.04
56095240--56095286	5	9.4	5	100	0	94	40	0	0	59	0.97
56098241--56098417	40	4.4	40	83	4	225	25	27	22	24	2.00
56098241--56098417	80	2.2	79	87	6	250	25	27	22	24	2.00
56108700--56108907	46	4.5	45	77	11	197	22	20	27	29	1.98
56108782--56108907	46	2.7	46	92	0	198	20	22	27	29	1.98
56111496--56111552	30	1.9	29	85	3	78	12	12	17	57	1.64
56114282--56114502	46	4.8	46	75	8	216	23	19	26	30	1.98
56114281--56114451	93	1.8	93	88	0	261	23	19	26	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56117867--56117913	16	2.9	17	87	6	71	46	36	6	10	1.64
56119611--56119956	27	12.8	27	84	0	395	28	19	8	42	1.81
56119948--56120037	27	3.3	27	92	0	135	35	16	20	27	1.94
56120263--56120372	27	4.0	27	90	3	150	20	22	20	36	1.95
56120480--56120538	22	2.7	22	81	0	64	20	25	22	32	1.98
56120893--56120983	6	14.8	6	73	13	78	18	20	12	48	1.80
56120899--56120966	19	3.6	19	82	11	95	19	22	13	45	1.84
56120893--56120983	37	2.5	37	92	0	146	18	20	12	48	1.80
56122388--56122495	29	3.8	28	80	4	110	27	14	28	28	1.96
56122396--56122505	58	1.9	56	85	3	148	28	14	29	28	1.95
56123575--56123609	18	2.0	18	88	5	54	37	20	14	28	1.91
56127375--56127474	51	2.0	51	82	4	121	33	27	16	24	1.95
56129650--56129691	20	2.0	20	86	4	57	38	9	14	38	1.78
56132680--56132797	41	2.8	41	72	8	112	30	23	16	29	1.96
56147558--56147661	33	3.2	33	79	8	104	30	24	24	21	1.99
56152669--56152720	20	2.6	20	100	0	104	17	32	30	19	1.95
56156966--56157086	43	2.9	42	78	11	129	29	24	16	28	1.97
56156966--56157086	42	2.9	42	82	4	145	29	24	16	28	1.97
56161219--56161403	40	4.7	40	79	7	191	24	22	28	25	1.99
56161272--56161436	79	2.1	79	82	6	192	26	20	27	25	1.99
56169044--56169094	23	2.2	23	100	0	102	50	7	23	17	1.72
56173385--56173461	28	2.7	29	84	4	86	38	31	12	16	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56173761--56173866	56	1.9	56	90	1	169	25	25	16	33	1.96
56181194--56181279	42	2.0	42	95	0	154	24	30	10	34	1.89
56185216--56185276	27	2.3	27	82	0	68	36	18	16	29	1.92
56185285--56185352	27	2.5	27	87	0	100	20	14	23	41	1.89
56185720--56185791	32	2.2	32	85	0	90	31	15	23	29	1.95
56196188--56196259	25	2.9	25	89	0	108	27	20	23	27	1.99
56196305--56196355	21	2.4	21	83	0	66	33	19	11	35	1.88
56196392--56196439	25	2.0	24	83	4	60	27	18	22	31	1.97
56207392--56207469	25	3.2	25	79	1	86	26	21	19	32	1.97
56207516--56207564	21	2.3	21	85	0	62	34	20	8	36	1.82

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