genome.fa.s4.2.7.7.80.10.50.1000.169.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  169  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)
54959666--54959791	58	2.2	58	97	0	234	26	28	7	36	1.85
54966557--54966603	6	7.5	6	86	9	58	76	6	0	17	0.98
54966623--54966708	9	9.6	9	85	0	118	26	10	19	43	1.84
54974151--54974228	9	8.7	9	78	5	50	42	19	11	26	1.85
54974151--54974236	18	4.8	17	75	9	73	41	18	11	27	1.85
54974151--54974236	27	3.2	25	69	18	66	41	18	11	27	1.85
54974256--54974282	6	4.5	6	100	0	54	14	0	0	85	0.61
54983531--54983576	21	2.2	20	92	3	74	0	30	0	69	0.89
54983524--54983557	16	2.2	16	89	5	52	2	29	0	67	1.05
54987723--54987761	17	2.3	17	86	0	51	17	15	30	35	1.91
54992722--54992766	20	2.3	19	81	7	54	22	20	15	42	1.89
55010008--55010074	30	2.2	30	97	0	125	34	5	4	55	1.45
55014667--55014691	7	3.6	7	100	0	50	0	12	0	88	0.53
55019401--55019577	50	3.5	50	89	0	273	35	15	22	25	1.94
55019553--55019700	31	4.8	31	90	1	235	27	20	27	25	1.99
55019553--55019700	61	2.4	62	90	1	235	27	20	27	25	1.99
55019718--55019889	47	3.7	46	82	6	148	29	15	25	29	1.96
55019800--55019893	49	1.9	49	95	2	172	27	14	27	29	1.96
55019914--55020022	31	3.5	31	87	0	146	25	21	25	27	1.99
55020040--55020254	47	4.7	46	80	10	154	29	15	25	29	1.96
55019593--55020236	322	2.0	321	98	0	1243	29	16	25	28	1.97
55020122--55020253	49	2.9	48	89	8	195	28	15	27	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55020183--55020297	42	2.7	42	88	6	162	31	14	26	27	1.95
55023617--55023679	31	2.1	30	84	3	81	66	3	7	22	1.32
55026523--55026583	30	2.0	30	90	0	95	29	24	6	39	1.80
55032085--55032194	26	4.2	26	94	0	166	34	6	23	35	1.80
55035351--55035395	14	3.2	14	90	0	63	48	31	0	20	1.49
55035841--55035884	21	2.0	22	86	4	63	40	29	0	29	1.57
55036171--55036348	41	4.4	41	90	0	286	19	21	23	36	1.95
55036171--55036372	41	5.0	42	84	6	247	19	21	22	36	1.95
55040343--55040546	98	2.1	99	97	0	383	44	17	12	25	1.84
55043728--55043852	38	3.3	38	86	1	169	35	20	13	31	1.91
55045630--55045745	43	2.6	44	80	10	130	24	18	30	27	1.98
55049703--55049768	32	2.1	32	100	0	132	27	3	9	60	1.42
55051130--55051184	18	3.1	18	97	0	101	38	21	7	32	1.81
55054134--55054218	41	2.0	42	95	2	154	31	17	14	36	1.90
55057831--55057877	21	2.2	22	92	3	78	21	19	38	21	1.94
55062462--55062538	36	2.1	37	95	2	138	28	24	11	35	1.91
55065358--55065529	93	1.8	93	94	0	308	27	29	21	20	1.98
55065352--55065525	46	3.8	46	78	13	212	29	28	21	20	1.98
55067405--55067434	13	2.2	14	94	5	53	46	0	6	46	1.29
55068439--55068494	19	2.9	19	81	0	67	16	23	32	28	1.96
55068442--55068509	19	3.6	18	76	4	55	19	20	27	32	1.97
55070095--55070154	19	3.2	20	71	23	58	63	6	1	28	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55079929--55080028	21	4.8	21	71	14	80	32	19	0	49	1.49
55079929--55080028	42	2.4	42	81	8	114	32	19	0	49	1.49
55082472--55082513	19	2.2	19	86	4	57	35	11	14	38	1.83
55082550--55082582	10	3.4	10	87	8	50	69	6	0	24	1.10
55083023--55083082	29	2.1	29	87	0	84	35	8	31	25	1.85
55083482--55083700	112	2.0	110	96	1	402	33	21	17	28	1.96
55085831--55086008	40	4.5	40	89	3	236	25	28	23	22	1.99
55087251--55087375	53	2.4	52	91	2	196	16	22	8	52	1.71
55088738--55088785	25	1.9	25	84	16	64	77	0	12	10	1.00
55088909--55088982	31	2.5	28	78	10	76	45	14	13	25	1.82
55092766--55092826	30	2.0	30	87	6	88	37	6	26	29	1.81
55093317--55093500	64	2.8	66	86	6	225	30	14	27	26	1.95
55093357--55093669	67	4.8	64	81	6	274	31	15	28	24	1.95
55093388--55093617	67	3.5	67	87	1	304	33	15	27	23	1.94
55099113--55099296	67	2.8	64	78	8	203	29	17	30	22	1.97
55099367--55099416	25	2.0	25	100	0	100	20	12	32	36	1.89
55103626--55103886	39	6.6	39	91	1	362	30	28	21	19	1.97
55103959--55104040	28	2.9	28	83	0	101	29	24	10	35	1.90
55108715--55108772	30	1.9	30	82	6	73	13	25	37	22	1.91
55112024--55112057	16	2.0	18	88	11	54	58	11	5	23	1.55
55112136--55112179	3	15.0	3	85	4	63	72	0	0	27	0.85
55113228--55113266	18	2.2	18	86	9	53	71	2	2	23	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55121401--55121468	30	2.3	30	100	0	136	54	20	0	25	1.45
55122054--55122139	43	2.0	43	83	0	109	25	24	20	29	1.99
55122169--55122291	40	3.1	40	84	4	158	34	21	16	27	1.94
55124922--55124970	19	2.6	19	81	12	57	73	2	16	8	1.16
55124922--55124975	18	2.8	19	77	11	56	72	1	18	7	1.17
55136644--55136703	31	2.0	30	90	3	93	36	3	10	50	1.53
55138570--55138612	22	2.0	22	100	0	86	32	13	23	30	1.93
55141803--55141855	20	2.5	22	84	6	74	24	16	18	39	1.91
55142614--55142645	10	3.2	10	90	0	55	53	21	0	25	1.46
55148065--55148107	17	2.5	17	77	7	52	27	25	18	27	1.98
55149484--55149546	31	2.0	31	82	17	78	22	17	7	52	1.70
55155352--55155396	23	2.0	23	82	8	56	15	37	2	44	1.59
55163675--55163733	24	2.4	25	77	11	68	20	23	16	38	1.92
55181881--55181910	12	2.5	12	94	0	51	23	33	30	13	1.93
55188704--55188773	35	2.0	36	82	2	88	44	18	11	25	1.83
55188838--55188951	35	3.3	35	84	9	160	42	19	9	28	1.83
55197844--55197975	39	3.4	39	82	2	167	31	20	26	21	1.98
55197846--55198001	78	2.0	77	82	3	188	31	21	26	21	1.98
55198190--55198217	2	14.0	2	100	0	56	0	0	50	50	1.00
55202004--55202154	42	3.5	43	78	7	128	29	24	17	28	1.98
55208231--55208278	23	2.1	23	96	0	87	37	25	4	33	1.75
55209276--55209386	37	3.0	37	93	2	179	27	28	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55209515--55209994	48	10.0	48	89	0	739	31	24	6	37	1.80
55209521--55209992	190	2.5	190	92	1	757	31	24	6	37	1.80
55236498--55236572	31	2.4	31	97	0	141	26	28	17	28	1.98
55236597--55236687	42	2.2	42	89	0	137	36	20	13	29	1.91
55237802--55237857	27	2.1	26	87	9	78	37	12	10	39	1.78
55237866--55237962	27	3.6	26	81	5	97	26	7	21	44	1.78
55237984--55238069	27	3.2	25	78	12	75	40	9	20	29	1.84
55237994--55238085	27	3.4	27	82	5	105	41	8	22	27	1.83
55237984--55238112	54	2.4	54	80	3	136	37	10	22	30	1.87
55239723--55239945	94	2.4	92	84	9	265	27	16	30	26	1.97
55248626--55248678	20	2.7	20	93	0	88	13	37	24	24	1.91
55261022--55261197	46	3.8	46	80	10	187	29	28	20	21	1.98
55263418--55263497	15	5.4	15	72	12	67	58	12	17	11	1.62
55265576--55265842	39	6.8	40	87	3	357	24	20	28	25	1.99
55265580--55265862	117	2.4	117	92	3	453	24	20	28	26	1.99
55273819--55274107	40	7.3	40	84	7	342	23	20	28	26	1.99
55278112--55278283	92	1.9	93	93	1	301	27	31	21	19	1.98
55278105--55278279	46	3.8	46	79	11	205	28	30	21	19	1.97
55281385--55281610	50	4.5	50	78	8	217	25	17	26	30	1.97
55285734--55285759	13	2.0	13	100	0	52	15	38	30	15	1.88
55290329--55290373	22	2.0	22	87	8	65	46	11	4	37	1.60
55290336--55290381	22	2.1	22	84	8	58	41	15	6	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55298098--55298143	23	2.0	23	84	12	60	45	10	6	36	1.65
55298105--55298149	23	2.0	23	82	8	56	40	13	8	37	1.76
55305493--55305519	13	2.1	13	100	0	54	14	37	33	14	1.88
55306182--55306475	38	7.0	38	71	19	192	30	14	24	29	1.95
55306219--55306428	47	4.6	47	79	11	240	30	15	23	30	1.95
55306262--55306468	85	2.4	85	92	0	342	30	14	25	29	1.95
55311565--55311646	42	2.0	42	87	0	119	26	13	24	35	1.92
55322654--55322691	14	2.7	14	91	0	58	36	7	18	36	1.80
55322675--55322720	19	2.3	20	88	3	67	21	13	19	45	1.84
55322796--55322838	18	2.4	18	96	0	77	46	2	0	51	1.13

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