genome.fa.s7.2.7.7.80.10.50.1000.163.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_A07
Parameters: 2 7 7 80 10 50 1000
Length:  92880876

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   

This is table  163  of  290  ( 34756 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)
52715751--52715939	43	4.4	43	89	1	274	13	22	34	29	1.92
52716256--52716363	45	2.4	45	84	6	132	25	24	25	25	2.00
52729667--52729770	49	2.0	52	92	7	178	27	29	19	23	1.98
52729924--52730065	43	3.3	43	84	2	178	34	30	21	12	1.91
52730054--52730174	40	3.0	40	91	0	179	28	31	20	19	1.97
52737795--52738011	40	5.5	40	90	3	325	23	23	28	24	2.00
52737791--52738011	79	2.8	80	88	4	333	24	22	27	24	2.00
52746805--52746867	27	2.3	27	88	0	99	25	17	20	36	1.94
52746852--52746946	27	3.7	26	77	11	88	26	6	22	45	1.76
52747843--52747918	23	3.3	23	78	14	86	27	23	15	32	1.95
52747818--52747895	22	3.4	23	73	19	65	23	23	19	34	1.96
52747818--52747924	45	2.3	45	83	13	130	26	22	15	35	1.94
52748140--52748184	20	2.3	19	80	3	54	40	8	20	31	1.83
52750675--52750756	27	3.1	27	82	5	87	71	2	19	6	1.18
52754545--52754588	23	1.9	23	86	9	63	72	2	18	6	1.17
52756665--52756777	35	3.2	37	65	19	103	21	9	30	38	1.86
52756668--52756808	70	2.0	70	97	0	264	21	9	29	40	1.84
52764393--52764460	35	1.9	35	85	5	93	29	29	14	26	1.95
52765497--52765695	27	7.4	27	85	2	220	29	21	7	42	1.79
52765698--52765812	27	4.3	27	87	2	142	39	20	12	28	1.88
52765779--52765857	37	2.2	37	97	2	151	39	15	15	30	1.88
52765752--52765875	64	2.0	63	82	4	151	38	16	12	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52765815--52765976	27	5.9	27	72	10	96	40	16	9	33	1.80
52765993--52766094	27	3.8	27	70	10	73	37	18	20	23	1.94
52766904--52766973	25	2.8	25	93	0	113	25	27	22	24	2.00
52767121--52767338	42	5.2	42	94	0	382	32	14	18	34	1.91
52767362--52767445	31	2.7	31	92	1	143	26	17	28	27	1.98
52770475--52770515	15	2.7	16	88	7	59	46	0	14	39	1.45
52778668--52778709	22	2.1	19	86	13	57	45	0	0	54	0.99
52778668--52778706	16	2.5	15	83	8	51	46	0	0	53	1.00
52787023--52787403	47	8.1	47	94	2	606	31	9	30	28	1.89
52787023--52787401	143	2.7	141	91	4	597	31	9	30	28	1.89
52787025--52787401	190	2.0	186	91	3	612	31	9	30	28	1.89
52787521--52787599	37	2.1	37	90	0	122	24	18	31	25	1.98
52790921--52791510	47	12.5	47	94	0	1000	32	8	28	29	1.88
52796843--52796905	27	2.3	27	78	10	67	47	1	6	44	1.38
52808360--52808405	23	2.0	24	83	12	60	50	6	0	43	1.28
52812634--52812690	24	2.4	24	93	0	96	42	15	22	19	1.89
52821065--52821109	22	2.0	22	100	0	90	31	13	17	37	1.89
52824927--52825248	46	6.8	46	70	13	194	29	20	27	21	1.98
52831015--52831199	79	2.3	81	83	7	227	24	22	27	24	2.00
52831016--52831199	40	4.6	40	82	9	207	25	22	27	24	2.00
52831068--52831232	79	2.1	79	83	6	201	26	21	27	24	1.99
52855614--52855718	36	2.9	36	89	0	156	27	30	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52855924--52856156	47	5.1	46	88	6	291	26	26	11	36	1.90
52855880--52856156	94	3.0	93	82	8	309	27	26	10	36	1.89
52860446--52860754	40	7.8	40	92	2	482	25	27	22	25	2.00
52862026--52862136	37	3.0	37	88	3	154	27	28	18	25	1.98
52862338--52862574	47	5.1	47	89	4	333	25	27	11	35	1.90
52871332--52871514	67	2.8	64	80	8	192	24	30	15	29	1.96
52872241--52872301	30	2.0	30	87	0	86	29	24	8	37	1.84
52879824--52879884	27	2.3	27	82	0	77	31	21	27	19	1.97
52881560--52881601	20	2.1	20	100	0	84	19	35	16	28	1.93
52893131--52893166	16	2.2	17	90	5	56	25	0	30	44	1.54
52895929--52896104	45	4.0	44	84	9	207	25	28	21	25	1.99
52900314--52900484	47	3.6	46	76	12	143	26	29	15	28	1.96
52900408--52900531	46	2.7	44	81	12	128	28	29	16	25	1.97
52910002--52910046	23	2.0	23	86	0	63	64	0	4	31	1.13
52914032--52914062	14	2.2	14	94	0	53	19	6	12	61	1.53
52914093--52914153	29	2.1	30	93	3	106	24	3	13	59	1.49
52914237--52914281	18	2.5	18	100	0	90	15	0	17	66	1.25
52914703--52914729	8	3.4	8	100	0	54	25	0	11	62	1.28
52916603--52916707	52	2.0	52	94	0	183	19	30	26	23	1.98
52925790--52925828	15	2.6	15	88	8	53	33	0	0	66	0.92
52934170--52934243	29	2.5	28	74	23	80	39	0	32	28	1.57
52934290--52934348	29	2.0	29	83	6	75	44	0	35	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52938579--52938744	86	1.9	86	90	2	262	21	13	22	42	1.88
52938744--52938788	16	2.9	16	86	3	56	40	6	20	33	1.78
52938950--52939020	37	1.9	37	91	0	115	46	1	2	49	1.25
52938979--52939050	26	3.0	25	71	19	71	48	1	0	50	1.09
52939028--52939107	16	5.1	16	79	16	71	40	0	1	58	1.06
52939025--52939070	15	2.9	17	75	24	55	43	0	0	56	0.99
52939030--52939135	32	3.2	33	79	16	114	41	0	0	57	1.05
52939052--52939133	15	5.3	15	73	12	58	42	0	1	56	1.07
52939100--52939133	10	3.4	10	100	0	68	47	0	0	52	1.00
52941577--52941609	15	2.2	15	94	0	57	33	3	18	45	1.65
52941650--52941701	26	2.0	26	92	0	86	44	15	11	28	1.81
52948385--52948425	22	1.9	21	85	5	55	63	2	2	31	1.20
52956855--52956886	8	4.0	8	91	0	55	46	25	25	3	1.67
52957477--52957705	113	2.0	113	98	0	440	24	16	26	32	1.96
52958900--52958954	26	2.0	28	89	6	87	60	7	10	21	1.55
52968977--52969093	31	3.8	30	72	13	103	53	5	1	39	1.33
52968975--52969091	61	1.9	61	91	0	189	53	5	1	39	1.33
52972185--52972231	17	2.8	17	75	15	53	42	21	14	21	1.88
52978950--52979591	312	2.1	312	92	1	1070	37	17	9	35	1.82
52980806--52980831	12	2.2	12	100	0	52	69	0	0	30	0.89
52980854--52980888	18	1.9	18	94	0	61	45	0	0	54	0.99
52993046--52993073	14	2.0	14	100	0	56	35	7	21	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52995509--52995605	49	2.0	49	93	0	167	29	11	19	39	1.87
52997834--52997880	8	5.9	8	87	0	58	44	25	23	6	1.77
52998025--52998102	29	2.7	29	80	2	86	28	16	25	29	1.97
53002414--53002553	38	3.6	39	85	5	167	15	20	30	34	1.93
53002740--53002804	21	3.3	21	64	27	61	35	9	16	38	1.81
53003622--53003659	18	2.1	18	85	9	51	34	2	15	47	1.60
53010419--53010467	25	2.0	25	83	0	62	36	6	14	42	1.70
53010566--53010603	20	1.9	20	88	0	58	18	13	31	36	1.89
53016118--53016252	46	2.9	46	81	9	152	28	20	28	22	1.99
53017298--53017391	43	2.2	44	81	9	113	13	25	36	24	1.93
53017195--53017405	109	1.9	109	90	1	334	15	28	33	22	1.95
53017411--53017539	69	1.9	69	95	0	231	23	19	27	30	1.98
53029987--53030056	27	2.6	27	90	0	113	44	1	17	37	1.57
53038608--53038648	21	1.9	21	90	5	64	34	0	4	60	1.18
53046345--53046416	23	3.1	23	80	9	83	30	11	4	54	1.55
53053487--53053532	17	2.7	17	77	12	58	50	13	8	28	1.70
53054134--53054165	15	2.0	17	88	11	50	62	6	0	31	1.20
53054674--53054714	11	3.9	11	75	12	50	65	0	34	0	0.93
53054858--53054897	13	3.1	13	79	13	55	85	5	10	0	0.75
53055176--53055232	21	2.8	19	87	12	87	3	3	47	45	1.37
53055176--53055232	20	2.8	20	89	7	89	3	3	47	45	1.37
53056064--53056684	72	8.5	72	90	2	886	32	21	16	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53056059--53057616	144	10.4	145	81	10	1546	33	20	16	29	1.94
53056064--53057616	216	6.9	216	81	11	1526	33	20	16	29	1.94
53056700--53056853	73	2.1	73	85	7	213	31	18	16	32	1.94
53056859--53057221	72	4.9	73	84	5	417	33	21	15	29	1.94
53057225--53057529	71	4.1	73	85	8	395	32	20	15	31	1.94
53069377--53069421	17	2.6	18	89	10	76	51	8	8	31	1.64
53070025--53070056	15	2.0	17	88	11	50	62	6	0	31	1.20
53071069--53071120	19	2.7	19	69	0	59	5	0	44	50	1.26
53073725--53073762	14	2.8	13	78	21	51	36	2	0	60	1.11
53076856--53076937	26	3.2	26	98	0	155	30	6	26	36	1.81

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