genome.fa.s4.2.7.7.80.10.50.1000.207.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  207  of  255  ( 30512 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)
69229084--69229427	131	2.6	130	70	11	309	34	12	13	39	1.82
69229144--69229561	225	1.9	226	85	2	590	34	12	14	38	1.85
69232902--69232935	13	2.6	13	80	0	50	82	0	8	8	0.85
69233390--69233415	7	3.7	7	100	0	52	69	0	0	30	0.89
69233907--69233945	19	2.0	20	85	5	53	35	0	2	61	1.10
69234347--69234392	7	6.9	7	85	9	51	34	0	0	65	0.93
69234348--69234395	12	3.8	12	78	13	51	35	0	0	64	0.94
69234347--69234410	14	4.8	14	79	9	71	40	0	0	59	0.97
69234363--69234413	20	2.5	19	81	12	57	43	0	0	56	0.99
69234338--69234414	25	2.9	25	75	17	75	44	0	0	55	0.99
69242497--69242866	44	8.4	44	90	0	551	27	30	15	27	1.96
69243678--69243724	3	16.0	3	93	4	78	0	29	0	70	0.88
69258093--69258127	17	1.9	19	88	11	56	45	2	17	34	1.63
69258254--69258295	21	2.0	22	86	13	61	54	0	26	19	1.44
69259252--69259302	21	2.5	20	87	6	68	41	13	9	35	1.78
69259579--69259643	32	2.0	32	96	0	121	33	29	0	36	1.58
69265557--69265826	47	5.8	45	77	8	238	22	29	18	29	1.97
69265563--69265825	94	2.8	92	79	11	275	22	29	17	30	1.97
69270245--69270452	46	4.5	46	79	12	228	21	17	29	31	1.96
69274554--69274665	59	1.9	58	85	1	152	38	13	29	18	1.89
69277905--69277946	20	2.0	21	90	4	68	33	4	7	54	1.49
69278346--69278371	12	2.2	12	100	0	52	34	7	0	57	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69285604--69285634	8	3.9	8	100	0	62	12	12	0	74	1.08
69290366--69290493	41	3.1	42	89	2	204	30	18	24	26	1.98
69292141--69292179	20	2.0	20	90	5	62	33	5	7	53	1.51
69292579--69292604	12	2.2	12	100	0	52	34	7	0	57	1.27
69294804--69294999	46	4.2	46	79	11	195	21	29	19	28	1.98
69298442--69298618	88	2.0	89	97	1	338	48	7	14	29	1.71
69306145--69306186	22	1.9	22	90	0	66	47	11	16	23	1.80
69306949--69306977	10	3.0	10	95	5	51	68	20	0	10	1.18
69308530--69308573	19	2.2	21	80	15	58	54	0	2	43	1.12
69308515--69308574	20	3.1	20	80	9	61	55	3	3	38	1.33
69310057--69310087	14	2.2	14	94	0	53	67	6	3	22	1.28
69310250--69310277	7	4.0	7	100	0	56	14	14	57	14	1.66
69329371--69329614	4	60.8	4	97	0	461	25	0	24	50	1.50
69337936--69338118	39	4.7	39	93	0	321	28	28	22	19	1.98
69344261--69344335	21	3.5	22	83	7	91	38	26	21	13	1.90
69344261--69344347	21	4.0	23	79	10	83	39	25	20	14	1.91
69344718--69344775	15	3.8	15	88	2	89	51	12	0	36	1.39
69345146--69345174	8	3.6	8	100	0	58	62	0	0	37	0.96
69347948--69347987	20	2.0	20	85	0	53	32	2	0	65	1.06
69360284--69360466	96	1.9	96	87	2	269	40	14	31	13	1.84
69383351--69383433	42	2.0	42	87	0	121	26	22	22	27	1.99
69392729--69392777	24	2.1	23	84	3	62	63	0	4	32	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69393239--69393273	16	2.1	17	89	5	54	51	14	5	28	1.65
69394970--69395058	26	3.3	26	69	17	83	48	5	2	43	1.39
69395001--69395034	16	2.1	16	89	10	52	41	0	0	58	0.98
69394943--69395081	54	2.6	54	91	0	215	44	3	2	49	1.31
69396423--69396467	20	2.2	20	84	7	56	33	4	0	62	1.15
69396570--69396612	5	8.6	5	100	0	86	60	0	0	39	0.97
69400948--69401003	19	3.1	18	72	23	55	39	1	3	55	1.28
69401117--69401168	21	2.5	21	83	0	59	32	34	7	25	1.84
69434036--69434073	20	1.9	20	84	10	51	42	10	0	47	1.38
69434562--69434600	18	2.2	18	86	9	53	30	20	0	48	1.50
69435730--69435754	12	2.1	12	100	0	50	0	24	0	76	0.80
69439074--69439270	105	1.9	105	84	4	263	30	17	25	25	1.97
69439244--69439300	30	1.9	30	88	0	87	29	15	29	24	1.96
69447730--69447774	25	1.9	22	86	13	63	71	0	26	2	0.98
69449609--69449793	79	2.3	81	82	7	218	25	27	22	24	2.00
69449590--69449793	40	5.1	40	80	8	220	25	27	22	25	2.00
69451734--69451778	25	1.9	25	86	13	69	2	26	0	71	0.98
69451866--69451924	27	2.2	27	90	0	100	8	40	30	20	1.82
69453901--69453950	26	1.9	26	84	8	66	42	0	0	58	0.98
69454206--69454244	12	3.2	12	85	3	51	61	0	38	0	0.96
69454210--69454244	3	11.3	3	87	6	52	62	0	37	0	0.95
69454212--69454252	19	2.2	18	86	4	55	65	0	34	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69454510--69454949	114	3.9	114	91	2	692	32	0	14	51	1.49
69454510--69454949	226	1.9	224	89	3	684	32	0	14	51	1.49
69455007--69455038	15	2.1	16	94	5	57	37	0	6	56	1.25
69457121--69457199	33	2.4	33	84	0	95	18	45	10	25	1.81
69459339--69459399	28	2.3	27	82	5	70	31	11	19	37	1.87
69460844--69460951	26	4.2	26	89	2	146	36	22	7	34	1.82
69460844--69460951	52	2.1	52	89	0	162	36	22	7	34	1.82
69463610--69463641	17	1.9	16	93	6	55	53	12	0	34	1.39
69463855--69463917	27	2.3	27	83	0	81	26	23	26	22	2.00
69478469--69478523	25	2.2	24	81	12	58	50	1	3	43	1.30
69482956--69483227	94	2.9	94	78	3	253	28	18	17	36	1.93
69482990--69483378	93	4.2	94	79	4	394	29	18	16	35	1.93
69483380--69483723	94	3.7	93	78	4	307	30	18	17	34	1.94
69483380--69483750	188	2.0	188	81	4	444	30	19	16	34	1.94
69483464--69483752	94	3.1	93	80	3	312	31	18	16	33	1.93
69483601--69483893	138	2.1	138	82	3	349	29	18	20	32	1.96
69483728--69484520	94	8.4	94	84	3	995	29	19	20	30	1.97
69483783--69484413	50	13.3	49	63	21	192	29	19	20	30	1.97
69483702--69484454	44	16.2	44	65	18	242	29	19	20	30	1.97
69492665--69492693	15	1.9	15	100	0	58	0	0	13	86	0.58
69496330--69496388	29	2.0	29	96	0	109	22	35	8	33	1.84
69498349--69498388	21	1.9	21	89	0	62	35	2	22	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69498898--69498999	25	4.2	25	70	16	70	22	24	17	35	1.95
69500438--69500480	21	2.0	21	100	0	86	27	13	30	27	1.95
69512237--69512356	26	4.8	26	76	11	81	20	24	21	34	1.97
69512352--69512411	25	2.4	25	94	0	102	23	18	21	36	1.95
69515870--69515916	19	2.4	19	76	20	51	36	23	4	36	1.75
69518664--69518753	21	4.2	20	74	21	69	2	15	4	77	1.02
69523330--69523370	21	2.0	21	90	0	64	21	12	26	39	1.89
69537029--69537058	3	10.0	3	100	0	60	0	33	0	66	0.92
69560073--69560116	19	2.3	20	84	7	56	27	20	11	40	1.86
69564444--69564670	44	5.2	44	66	8	174	29	24	21	24	1.99
69564430--69564746	88	3.6	88	98	0	607	31	22	22	23	1.99
69564488--69564714	44	5.2	44	66	8	174	27	22	23	26	1.99
69564839--69565075	44	5.4	43	67	9	122	30	18	21	29	1.97
69564839--69565125	87	3.3	84	74	8	263	30	18	22	28	1.97
69564877--69565083	46	4.8	44	69	14	119	28	19	22	28	1.98
69564813--69565153	174	2.0	174	85	1	452	31	19	21	27	1.98
69566696--69566775	40	2.0	40	83	13	103	17	8	1	72	1.16
69574399--69574435	9	4.3	9	86	13	51	56	0	5	37	1.22
69574405--69574435	16	1.9	16	93	0	53	61	0	3	35	1.12
69577978--69578021	20	2.4	19	85	11	56	45	13	15	25	1.83
69577983--69578032	20	2.5	20	83	6	66	44	16	14	26	1.85
69578372--69578438	33	2.0	33	88	5	100	34	17	5	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69585985--69586084	51	2.0	51	95	0	182	28	19	9	44	1.80
69588919--69589012	32	3.0	32	74	12	97	28	23	11	36	1.90
69588919--69589036	61	1.9	61	85	0	164	26	24	13	35	1.93
69592530--69592992	27	17.1	28	78	9	124	35	19	9	35	1.84
69592612--69592792	54	3.4	54	82	0	182	31	20	7	39	1.81
69592625--69592780	81	1.9	81	85	0	213	28	20	8	42	1.81
69592612--69592792	81	2.2	81	75	7	195	31	20	7	39	1.81
69592679--69592899	54	4.1	54	82	3	158	34	20	8	36	1.84
69592760--69592983	54	4.1	52	77	10	173	38	20	8	31	1.84
69593043--69593129	27	3.2	27	91	3	131	33	19	27	19	1.96

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