genome.fa.s4.2.7.7.80.10.50.1000.190.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: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   

This is table  190  of  253  ( 30316 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)
62210202--62210259	26	2.2	26	93	0	98	37	5	6	50	1.52
62210210--62210267	26	2.2	26	87	0	80	36	5	12	46	1.63
62210228--62210319	39	2.4	37	81	15	107	32	4	13	50	1.61
62216437--62216610	49	3.6	49	80	5	176	29	20	26	23	1.98
62223306--62223330	13	1.9	13	100	0	50	20	16	40	24	1.91
62231168--62231193	13	2.0	13	100	0	52	15	23	23	38	1.92
62233798--62233927	49	2.7	49	78	7	138	33	19	23	23	1.97
62235125--62235163	21	1.9	20	84	5	51	20	38	23	17	1.93
62236560--62236599	18	2.3	18	80	20	50	40	2	10	47	1.50
62237041--62237076	12	2.8	13	87	4	56	22	2	0	75	0.94
62237189--62237223	12	2.9	12	84	16	54	22	0	2	74	0.95
62237010--62237830	151	5.5	150	89	3	1147	27	5	8	58	1.50
62237009--62237830	301	2.7	300	88	4	1194	27	5	8	58	1.50
62237863--62237895	17	1.9	17	93	0	57	9	15	6	69	1.34
62238443--62238476	16	2.1	17	94	5	61	0	32	0	67	0.91
62238438--62238480	22	2.0	20	82	8	50	0	34	0	65	0.93
62238559--62238620	27	2.3	27	85	0	79	14	35	30	19	1.92
62238666--62238707	17	2.5	17	81	18	52	14	9	2	73	1.18
62240330--62240516	51	3.7	51	93	0	284	42	12	5	38	1.67
62240367--62240457	29	3.4	29	63	25	72	42	13	5	38	1.67
62240396--62240479	22	3.5	22	66	20	60	40	14	4	40	1.67
62241421--62241614	96	2.0	96	83	4	239	16	31	14	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62243271--62243457	51	3.7	51	91	0	266	43	12	6	37	1.69
62243337--62243420	22	3.5	22	66	20	60	40	14	5	39	1.70
62243297--62243449	29	5.8	29	65	20	93	42	13	6	37	1.71
62254767--62254984	33	6.7	33	75	5	147	30	21	11	35	1.90
62255349--62255430	26	3.2	26	98	0	155	31	7	25	35	1.84
62257025--62257168	54	2.7	54	93	2	236	17	23	23	35	1.95
62257028--62257168	27	5.2	27	83	10	173	17	23	23	35	1.95
62257028--62257186	27	5.9	28	80	12	158	18	24	21	35	1.96
62257028--62257186	81	2.0	80	83	10	200	18	24	21	35	1.96
62265412--62265527	33	3.6	32	73	13	103	28	24	12	34	1.92
62265511--62265632	33	3.8	32	86	6	156	28	22	12	36	1.90
62268739--62268798	22	2.7	22	76	16	70	68	5	8	18	1.34
62277826--62278023	43	4.7	42	73	8	123	27	24	17	29	1.97
62293703--62293878	83	2.1	83	88	2	255	31	11	29	27	1.91
62295798--62295849	15	3.3	15	75	17	52	40	5	1	51	1.37
62298243--62298396	53	2.9	52	80	6	184	26	27	12	33	1.93
62298244--62298418	53	3.3	52	75	10	167	26	25	13	34	1.92
62299953--62299993	19	2.2	19	86	4	57	21	2	4	70	1.18
62309813--62310050	114	2.1	114	93	0	404	15	23	31	28	1.96
62314240--62314309	35	2.0	35	82	2	86	21	24	25	28	1.99
62314249--62314318	35	2.0	35	91	0	113	21	25	24	28	1.99
62321958--62322106	43	3.5	42	78	12	126	28	28	16	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62322073--62322164	45	2.0	45	85	0	121	38	25	13	23	1.91
62342418--62342476	29	2.0	29	100	0	118	49	10	20	20	1.77
62354815--62354854	19	2.0	20	85	4	55	25	2	5	67	1.23
62362765--62362873	47	2.3	47	93	0	182	31	10	31	27	1.89
62364354--62364578	40	5.7	40	83	4	249	24	20	27	27	1.99
62364354--62364578	80	2.8	79	85	4	283	24	20	27	27	1.99
62364434--62364611	79	2.2	80	83	3	209	25	21	28	24	1.99
62365969--62366039	25	3.0	25	69	23	71	33	9	26	29	1.89
62365981--62366062	22	3.6	23	70	22	64	31	10	29	28	1.91
62365963--62366283	47	6.8	47	89	1	464	32	12	29	25	1.93
62365962--62366283	141	2.3	141	91	1	529	31	12	29	25	1.93
62366172--62366247	23	3.2	25	62	24	63	28	13	34	23	1.92
62366446--62366554	37	2.9	37	93	0	182	22	19	32	25	1.97
62367847--62368175	40	8.2	40	87	1	444	25	20	26	26	1.99
62367847--62368175	80	4.1	80	92	0	514	25	20	26	26	1.99
62367833--62368175	120	2.9	120	89	0	490	25	20	26	26	1.99
62391392--62391542	71	2.1	72	91	2	243	30	29	16	23	1.96
62391462--62391684	104	2.2	103	92	2	367	31	31	18	17	1.95
62392013--62392076	30	2.2	29	81	10	76	29	28	6	35	1.82
62392020--62392076	30	1.9	30	85	3	80	29	24	7	38	1.82
62398945--62399095	71	2.1	72	91	2	243	30	29	16	23	1.96
62399015--62399237	104	2.2	103	92	2	367	31	31	18	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62399566--62399629	30	2.2	29	81	10	76	29	28	6	35	1.82
62399573--62399629	30	1.9	30	85	3	80	29	24	7	38	1.82
62416902--62417474	296	1.9	296	92	1	952	32	20	13	33	1.91
62422347--62422416	28	2.6	27	86	2	86	28	20	28	22	1.98
62422292--62422443	55	2.8	53	81	4	178	28	16	28	26	1.97
62422293--62422448	27	5.7	27	78	6	145	27	16	28	27	1.97
62426219--62426285	25	2.7	25	97	0	125	26	16	32	23	1.96
62426219--62426316	25	4.0	25	85	1	117	28	18	30	22	1.97
62426254--62426356	49	2.1	49	84	10	131	33	20	25	21	1.97
62426322--62426467	25	5.9	24	71	11	82	35	21	22	19	1.96
62426415--62426464	26	1.9	26	83	0	64	40	20	20	20	1.92
62431655--62431696	22	2.0	22	85	4	59	38	2	0	59	1.10
62432336--62432470	50	2.7	50	93	2	218	28	26	17	26	1.98
62433812--62433958	74	2.0	74	100	0	294	39	25	9	25	1.86
62439270--62439318	5	9.2	5	87	12	71	77	0	2	20	0.87
62439258--62439313	22	2.3	24	79	20	71	75	0	7	17	1.03
62439270--62439312	22	1.9	23	95	4	79	76	0	2	20	0.89
62441107--62441179	36	2.0	36	97	0	137	39	13	12	34	1.82
62446081--62446263	94	1.9	93	80	10	212	23	30	19	26	1.98
62450494--62450525	6	5.3	6	100	0	64	15	0	15	68	1.21
62450492--62450539	18	2.7	18	81	9	55	20	0	12	66	1.24
62453376--62453445	25	2.8	25	86	0	104	25	21	24	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62453491--62453530	10	3.9	10	80	6	53	30	17	20	32	1.95
62453570--62453618	25	2.0	25	91	0	80	24	18	24	32	1.97
62454723--62454760	11	3.5	11	89	3	60	81	2	15	0	0.80
62454717--62454757	17	2.4	16	88	8	55	80	2	17	0	0.82
62461285--62461316	5	6.2	5	92	7	55	81	0	18	0	0.70
62461279--62461316	11	3.5	11	89	10	60	78	0	21	0	0.74
62464183--62464229	23	2.0	23	95	0	85	51	4	10	34	1.56
62466621--62466822	46	4.3	47	76	13	168	27	17	29	24	1.98
62470317--62470365	25	2.0	25	84	8	64	32	12	18	36	1.88
62472346--62472384	16	2.4	16	95	0	69	15	41	15	28	1.87
62476113--62476160	21	2.3	21	88	0	69	22	22	37	16	1.94
62489150--62489387	109	2.2	108	88	3	361	30	20	14	34	1.92
62491255--62491293	17	2.2	18	86	4	53	41	2	2	53	1.28
62493030--62493144	27	4.2	27	77	12	101	26	23	15	33	1.95
62494951--62495072	43	2.8	43	89	0	190	25	18	26	30	1.98
62504435--62504619	79	2.3	82	83	7	238	26	27	21	24	1.99
62504416--62504619	40	5.1	40	81	8	238	25	26	21	25	2.00
62512185--62512369	79	2.3	81	83	7	227	27	27	21	24	1.99
62512166--62512369	40	5.1	40	80	8	229	26	26	21	25	1.99
62521776--62521816	16	2.6	16	96	0	73	14	36	0	48	1.44
62524191--62524244	24	2.3	24	80	3	65	46	1	3	48	1.30
62527211--62527256	23	2.0	23	95	0	83	34	0	10	54	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62528047--62528077	10	3.1	10	90	0	53	32	0	16	51	1.44
62529558--62529733	46	3.8	46	79	12	216	20	21	29	28	1.98
62529555--62529726	93	1.8	93	96	0	317	20	21	29	27	1.98
62537103--62537278	46	3.8	46	79	12	216	20	21	29	28	1.98
62537100--62537271	93	1.8	93	96	0	317	20	21	29	27	1.98
62545669--62545802	54	2.5	53	88	1	196	26	23	22	28	1.99
62549001--62549194	42	4.6	42	80	1	192	44	15	23	16	1.86
62559262--62559320	29	2.0	29	100	0	118	49	10	20	20	1.77
62561680--62561726	21	2.2	22	92	3	78	21	38	19	21	1.94
62569609--62569659	21	2.4	21	84	15	61	25	3	7	62	1.40

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