genome.fa.s12.2.7.7.80.10.50.1000.166.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  166  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)
54841667--54841824	66	2.4	63	76	8	156	18	25	29	25	1.98
54844808--54844842	18	1.9	18	94	0	61	51	34	2	11	1.53
54851948--54852104	42	3.6	44	74	9	135	31	22	17	28	1.97
54854902--54854991	27	3.3	27	76	4	101	31	20	26	22	1.98
54854996--54855151	69	2.3	69	82	2	197	38	16	25	19	1.92
54858468--54858869	201	2.0	201	92	0	671	39	6	22	31	1.79
54859054--54859133	41	2.0	41	87	0	115	28	10	23	37	1.87
54860599--54860623	8	3.1	8	100	0	50	24	0	0	76	0.80
54863123--54863149	10	2.7	10	100	0	54	29	18	11	40	1.85
54863441--54863556	44	2.7	42	76	19	125	33	25	12	27	1.93
54873039--54873187	43	3.5	41	76	9	122	30	25	18	24	1.98
54876083--54876161	37	2.1	37	88	4	115	25	30	18	25	1.98
54876280--54876802	47	11.1	47	94	0	830	29	30	9	31	1.88
54890395--54890466	6	11.7	6	75	16	58	75	2	16	5	1.12
54890394--54890472	36	2.2	36	84	8	99	74	2	16	6	1.13
54890403--54890472	30	2.3	29	83	9	79	77	1	15	5	1.03
54893538--54893574	19	2.0	19	94	5	67	21	5	13	59	1.54
54910463--54910506	22	2.0	22	100	0	88	36	13	9	40	1.76
54910907--54911072	83	2.0	83	97	1	316	21	10	18	50	1.76
54911252--54911292	19	2.1	20	86	4	57	26	2	2	68	1.15
54913404--54913518	52	2.2	53	87	4	171	22	26	13	37	1.92
54913404--54913519	24	4.4	27	73	15	118	23	25	13	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54919203--54919288	36	2.4	37	80	7	106	10	22	2	65	1.35
54919209--54919285	18	4.2	18	78	8	84	10	20	2	66	1.34
54919263--54919312	20	2.4	21	83	9	59	4	18	4	74	1.14
54919278--54919350	21	3.8	20	72	12	55	5	23	1	69	1.17
54920464--54920495	11	2.9	11	95	0	55	25	9	3	62	1.40
54926342--54926539	54	3.7	54	81	4	247	35	18	24	21	1.95
54953458--54953491	14	2.3	15	95	5	61	26	0	0	73	0.83
54953457--54953494	14	2.5	15	87	12	60	26	0	0	73	0.83
54958241--54958286	18	2.6	18	82	0	56	47	8	32	10	1.69
54961022--54961052	16	1.9	16	93	0	53	41	0	3	54	1.16
54961132--54961162	12	2.6	12	94	0	53	74	0	25	0	0.82
54984848--54984882	17	2.0	18	88	5	54	42	11	34	11	1.77
54987619--54987649	16	1.9	16	93	0	53	41	0	3	54	1.16
54987729--54987759	12	2.6	12	94	0	53	74	0	25	0	0.82
54995002--54995047	17	2.7	17	90	6	67	28	2	23	45	1.65
55002110--55002261	73	2.1	73	98	0	295	25	20	21	32	1.97
55003356--55003453	24	4.0	24	87	1	142	37	5	36	20	1.75
55004272--55004311	16	2.3	18	84	16	50	32	0	30	37	1.58
55005008--55005088	33	2.4	34	77	8	94	28	18	23	29	1.98
55005008--55005100	32	2.8	31	73	9	78	25	20	25	27	1.99
55007834--55008417	40	14.6	40	93	1	1001	27	20	27	24	1.99
55015266--55015363	24	4.0	24	93	1	160	35	5	38	20	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55016980--55017060	33	2.4	34	77	8	94	28	18	23	29	1.98
55017093--55017160	34	2.0	34	100	0	136	17	17	23	41	1.90
55027093--55027242	43	3.5	43	77	8	146	26	26	22	25	2.00
55027085--55027243	85	1.9	85	82	5	205	26	27	22	24	2.00
55029301--55029349	21	2.3	21	78	0	53	32	32	14	20	1.92
55030440--55030513	34	2.1	34	95	2	130	40	12	21	25	1.88
55041719--55041896	40	4.5	40	87	3	236	24	23	28	24	2.00
55043868--55044164	43	6.9	43	92	0	486	30	31	24	13	1.93
55044157--55044280	38	3.2	38	84	2	122	26	26	23	23	2.00
55046177--55046325	41	3.6	41	74	12	126	22	20	28	28	1.98
55046156--55046316	41	3.9	40	71	18	123	22	21	27	29	1.99
55053156--55053266	41	2.6	43	76	9	111	33	24	16	26	1.96
55056973--55057143	93	1.8	93	94	0	306	28	28	21	21	1.99
55056965--55057140	46	3.8	46	79	12	216	28	28	21	21	1.98
55064546--55064717	93	1.8	93	94	0	308	27	30	20	20	1.98
55064539--55064714	46	3.8	46	79	12	207	28	30	20	20	1.98
55064588--55064726	47	3.0	46	75	16	144	29	28	19	22	1.98
55066430--55066493	27	2.3	27	81	7	67	31	12	9	46	1.73
55066442--55066501	27	2.2	27	79	8	68	31	10	8	50	1.66
55069751--55069810	25	2.4	24	76	15	59	61	1	26	10	1.37
55071421--55071493	28	2.6	28	80	6	78	31	8	9	50	1.64
55074028--55074196	79	2.1	79	80	3	187	24	20	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55073972--55074194	40	5.6	39	80	7	189	25	21	27	26	1.99
55074052--55074229	79	2.2	80	80	2	189	25	21	28	24	1.99
55076335--55076373	20	1.9	21	84	5	53	43	12	0	43	1.42
55084203--55084259	26	2.2	26	83	3	69	26	17	19	36	1.94
55085476--55085524	16	3.0	16	74	14	55	67	0	28	4	1.09
55086454--55086519	25	2.6	25	80	9	71	53	7	1	37	1.39
55102081--55102112	16	2.1	16	94	5	57	84	0	15	0	0.63
55102053--55102112	15	4.2	14	73	14	52	73	0	23	3	0.98
55106765--55106931	40	4.2	40	87	4	246	26	27	23	22	2.00
55106766--55106928	81	2.0	81	91	0	263	25	26	23	23	2.00
55122893--55123114	39	5.7	40	82	8	228	25	20	27	26	1.99
55122977--55123147	78	2.2	78	81	8	188	26	18	28	26	1.98
55127043--55127094	25	2.1	25	88	0	77	40	13	7	38	1.73
55129245--55129339	40	2.4	40	84	8	122	24	15	31	28	1.96
55133553--55133720	20	8.4	20	83	3	187	11	23	26	38	1.88
55133553--55133702	40	3.8	40	86	3	212	11	22	27	38	1.88
55133553--55133702	60	2.5	60	86	4	212	11	22	27	38	1.88
55137167--55137211	19	2.4	19	96	0	81	26	17	17	37	1.93
55138717--55138741	12	2.1	12	100	0	50	52	0	32	16	1.44
55140486--55140528	20	2.2	20	86	0	59	48	18	2	30	1.60
55143077--55143133	30	1.9	30	88	0	87	21	28	28	22	1.99
55143161--55143200	21	1.9	21	85	10	55	37	10	5	47	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55145663--55145745	27	3.0	26	79	16	69	34	20	25	19	1.96
55153127--55153188	27	2.3	28	86	8	92	32	22	24	20	1.98
55158786--55158839	22	2.5	21	84	3	72	14	29	35	20	1.93
55161164--55161276	43	2.7	43	82	9	133	30	27	17	24	1.97
55162658--55162770	43	2.7	43	81	9	124	30	26	17	25	1.98
55170243--55170403	43	3.7	43	83	4	191	29	26	18	25	1.98
55170245--55170404	86	1.9	85	88	3	241	30	26	18	25	1.98
55170248--55170421	43	4.0	43	80	8	174	29	27	17	25	1.98
55171428--55171467	20	2.0	20	90	0	62	42	17	10	30	1.82
55175487--55175564	38	2.1	38	97	0	147	46	11	7	34	1.69
55178050--55178232	40	4.6	39	77	6	143	25	21	27	25	2.00
55193240--55193426	40	4.7	40	95	0	313	24	20	28	26	1.99
55194890--55194923	11	3.2	11	83	8	52	14	26	5	52	1.64
55195342--55195422	32	2.4	34	75	6	85	40	37	9	12	1.76
55196355--55196393	21	1.9	21	94	5	71	17	10	5	66	1.39
55202047--55202479	215	2.0	214	95	0	785	31	16	18	33	1.94
55209790--55209834	21	2.2	20	84	4	54	40	22	31	6	1.80
55210078--55210118	19	2.1	20	86	4	57	2	21	0	75	0.92
55210083--55210126	19	2.2	20	80	8	54	2	25	0	72	0.96
55212114--55212147	6	5.8	6	89	6	52	11	2	0	85	0.71
55212114--55212147	11	2.9	12	86	8	52	11	2	0	85	0.71
55212114--55212146	17	1.9	17	93	0	57	12	3	0	84	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55216778--55216853	31	2.5	31	88	0	116	17	27	31	23	1.97
55224556--55224660	55	1.9	55	84	7	142	20	35	22	20	1.96
55227102--55227136	2	17.5	2	100	0	70	0	48	0	51	1.00
55228948--55228973	12	2.2	12	100	0	52	23	7	15	53	1.67
55230525--55230841	49	6.6	49	71	14	205	26	19	31	23	1.98
55230529--55230797	142	1.9	142	85	6	375	25	19	31	24	1.98
55230630--55230893	98	2.7	98	87	2	358	26	17	30	25	1.98
55234386--55234702	49	6.6	49	71	14	205	26	19	31	23	1.98
55234390--55234658	142	1.9	142	85	6	375	25	19	31	24	1.98
55234491--55234754	98	2.7	98	87	2	358	26	17	30	25	1.98

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