genome.fa.s4.2.7.7.80.10.50.1000.161.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  161  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)
52136867--52136907	21	1.9	22	85	5	57	39	21	0	39	1.54
52142341--52142550	75	2.8	76	81	4	237	42	5	9	42	1.59
52144475--52144599	46	2.7	46	81	7	137	20	30	22	27	1.98
52148702--52148968	40	6.7	40	95	0	480	21	28	20	29	1.98
52157519--52157785	40	6.7	40	95	0	480	21	28	20	29	1.98
52168271--52168492	46	4.8	46	81	11	265	21	19	28	30	1.98
52180061--52180320	46	5.7	45	73	13	174	25	31	16	26	1.97
52180060--52180317	94	2.8	93	78	12	268	24	31	17	26	1.97
52185235--52185322	46	1.9	46	83	0	113	37	22	6	32	1.81
52185235--52185304	23	3.0	23	87	4	97	38	24	4	32	1.75
52185250--52185322	23	3.2	23	84	0	92	38	20	6	34	1.79
52188242--52188322	20	4.0	20	68	13	58	13	13	22	50	1.76
52188656--52188685	15	2.1	15	93	6	53	30	6	26	36	1.82
52190616--52190720	43	2.4	44	88	3	151	28	21	27	21	1.99
52190668--52190815	40	3.6	40	75	6	102	29	20	27	23	1.99
52206350--52206572	50	4.6	48	79	7	209	26	19	29	24	1.98
52206303--52206574	96	2.8	98	82	7	294	27	18	28	25	1.98
52211687--52211713	10	2.7	10	100	0	54	7	22	40	29	1.81
52211980--52212186	81	2.6	81	90	0	315	37	19	19	23	1.94
52211980--52212186	27	7.7	27	83	0	243	37	19	19	23	1.94
52212551--52212613	27	2.3	26	76	10	63	25	22	23	28	1.99
52215105--52215377	47	5.7	46	74	11	189	26	19	30	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52217596--52217713	22	5.7	20	80	10	130	14	19	23	42	1.88
52217593--52217713	42	2.9	41	88	3	170	15	19	23	42	1.89
52217705--52217768	25	2.5	27	70	14	64	17	15	21	45	1.85
52218780--52218811	16	1.9	17	93	6	57	25	6	9	59	1.52
52221025--52221062	17	2.2	17	86	9	51	55	10	0	34	1.34
52221861--52221903	22	2.0	22	90	0	68	23	13	6	55	1.62
52221930--52221992	30	2.1	30	90	0	99	25	1	14	58	1.45
52228808--52228845	7	5.3	7	90	6	58	13	2	2	81	0.90
52228808--52228847	14	2.7	15	88	7	64	12	5	2	80	0.98
52229587--52229625	21	2.0	21	85	10	55	17	48	20	12	1.80
52231134--52231166	6	5.5	6	96	0	57	15	3	0	81	0.80
52231134--52231173	18	2.2	18	86	0	53	17	5	0	77	0.94
52234099--52234127	13	2.2	13	100	0	58	31	0	13	55	1.39
52237885--52238060	42	4.2	41	76	5	138	28	14	26	31	1.95
52246380--52246458	38	2.1	38	100	0	158	27	10	20	41	1.84
52249501--52249607	27	4.0	27	77	9	94	41	24	6	28	1.79
52249619--52249670	27	1.9	28	88	7	81	42	13	9	34	1.77
52249724--52249788	27	2.4	27	76	5	69	35	20	24	20	1.96
52250615--52250666	27	2.0	26	84	3	68	17	26	21	34	1.95
52250596--52250736	70	2.1	67	84	6	176	19	27	21	31	1.97
52250888--52251062	6	28.3	6	70	18	110	19	19	13	47	1.82
52250888--52250949	25	2.5	25	83	0	79	19	20	14	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52250910--52250986	37	2.1	37	87	0	109	19	19	14	46	1.83
52250950--52251011	25	2.5	25	91	0	97	20	19	12	46	1.83
52250888--52251041	62	2.5	62	91	0	245	19	20	13	46	1.83
52250966--52251041	37	2.1	37	87	0	107	19	19	13	47	1.82
52250888--52251053	31	5.4	31	73	11	133	19	19	13	47	1.82
52250979--52251051	37	2.0	37	88	0	110	17	17	13	50	1.78
52250980--52251060	37	2.2	37	84	4	101	17	18	14	49	1.80
52254332--52254542	40	5.3	40	87	2	239	28	27	20	23	1.99
52257424--52257574	43	3.5	43	80	2	187	31	23	15	29	1.96
52266977--52267198	43	5.2	42	80	4	230	30	27	17	24	1.97
52266970--52267206	84	2.8	84	81	1	276	33	26	16	24	1.96
52267519--52267552	17	1.9	18	88	5	52	23	32	11	32	1.91
52268840--52268880	20	2.0	20	100	0	82	51	14	9	24	1.72
52271299--52271326	8	3.5	8	100	0	56	39	0	10	50	1.37
52271496--52271544	22	2.3	21	82	10	55	32	42	2	22	1.65
52271600--52271680	21	3.6	22	76	14	94	43	25	1	29	1.63
52271584--52271674	46	2.0	46	93	4	157	41	25	2	30	1.67
52271697--52271746	25	2.0	25	100	0	100	44	8	4	44	1.52
52271875--52272042	41	4.1	41	89	2	248	14	21	25	38	1.92
52271875--52272041	81	2.0	82	91	3	275	14	21	25	37	1.92
52279344--52279566	119	1.9	120	83	6	292	25	27	21	24	1.99
52279342--52279566	40	5.7	40	84	6	278	25	28	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52283377--52283430	23	2.3	23	93	0	90	29	38	1	29	1.68
52286642--52286692	22	2.3	23	86	10	70	60	0	0	39	0.97
52287676--52287719	7	6.1	7	97	2	79	59	0	0	40	0.98
52288557--52288615	26	2.3	26	100	0	118	32	0	6	61	1.22
52306547--52306588	21	2.0	20	86	4	57	35	0	9	54	1.33
52308667--52308818	40	3.8	38	73	16	110	28	19	24	27	1.98
52308928--52308967	15	2.8	14	81	7	53	20	55	2	22	1.56
52311810--52311875	34	1.9	35	84	9	91	39	3	1	56	1.24
52311966--52312248	43	6.6	43	83	2	320	25	16	27	31	1.96
52311966--52312248	85	3.3	85	82	3	345	25	16	27	31	1.96
52311966--52312248	128	2.2	128	84	5	358	25	16	27	31	1.96
52312567--52312792	113	2.0	113	100	0	452	34	15	12	37	1.86
52322147--52322202	28	2.0	29	89	3	87	19	48	19	12	1.80
52337475--52337630	43	3.6	43	81	8	183	30	14	23	32	1.94
52342515--52342555	21	2.0	21	90	0	64	46	19	12	21	1.82
52343226--52343263	11	3.5	11	85	3	51	34	2	0	63	1.09
52344105--52344141	20	1.9	18	89	10	56	37	2	5	54	1.38
52347114--52347272	43	3.7	44	77	10	175	31	26	18	23	1.97
52347114--52347273	86	1.9	85	84	6	216	31	26	18	23	1.97
52351339--52351532	20	9.7	20	86	1	237	13	21	26	38	1.91
52351534--52351615	26	3.2	26	85	0	110	20	21	23	34	1.97
52354093--52354140	24	2.0	24	95	0	87	43	12	10	33	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52356935--52357080	43	3.4	43	77	6	127	32	27	16	23	1.96
52361242--52361435	40	4.9	40	94	0	336	26	23	28	22	1.99
52361242--52361462	80	2.8	80	89	2	340	27	23	27	21	1.99
52366852--52367097	49	5.0	49	84	3	321	28	27	19	24	1.98
52367746--52367805	30	2.0	30	83	6	77	30	25	8	36	1.85
52375456--52375528	34	2.1	34	87	5	103	24	21	24	28	1.99
52377517--52377636	27	4.4	27	91	0	177	27	21	8	42	1.81
52377490--52377603	54	2.1	54	85	0	147	31	22	7	37	1.83
52377517--52377636	54	2.2	54	92	0	195	27	21	8	42	1.81
52377517--52377674	54	2.9	54	85	0	172	31	23	6	37	1.81
52377625--52377871	27	9.2	27	79	6	205	42	21	7	29	1.79
52377472--52377688	81	2.7	81	74	0	209	35	22	6	35	1.81
52377639--52377912	54	5.1	51	75	10	176	43	19	8	29	1.79
52377691--52377873	81	2.3	81	89	2	271	42	18	8	30	1.80
52377666--52377912	27	9.1	27	75	12	138	43	18	8	29	1.80
52377691--52377897	81	2.6	81	84	8	246	43	17	9	29	1.80
52377910--52377961	27	1.9	27	88	7	79	38	13	13	34	1.84
52378014--52378106	27	3.4	27	78	8	91	37	19	23	19	1.94
52378907--52379042	52	2.7	51	92	5	224	27	21	23	27	1.99
52378907--52379042	26	5.3	26	87	3	190	27	21	23	27	1.99
52379175--52379266	42	2.2	42	94	0	157	28	14	22	34	1.93
52387640--52387671	16	1.9	17	93	6	57	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52391680--52391877	108	1.8	110	87	4	303	22	25	17	34	1.96
52391633--52391887	55	4.8	54	80	9	260	21	25	17	35	1.95
52397636--52397686	16	2.9	17	82	11	59	52	0	1	45	1.12
52397635--52397670	8	4.4	8	89	3	54	58	0	0	41	0.98
52397634--52397690	22	2.4	23	80	16	64	56	0	1	42	1.10
52399457--52399501	20	2.2	20	92	0	72	22	31	28	17	1.97
52402480--52402683	39	5.2	40	84	7	233	24	22	27	25	2.00
52408716--52408978	40	6.6	40	87	3	316	26	28	20	24	1.99
52416660--52416922	40	6.6	40	87	3	316	26	28	20	24	1.99
52421643--52421866	40	5.6	39	85	7	249	23	22	27	26	2.00

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