genome.fa.s4.2.7.7.80.10.50.1000.109.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  109  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)
34504573--34504604	12	2.6	13	90	9	50	18	6	25	50	1.70
34508876--34508918	22	1.9	23	90	4	70	18	53	6	20	1.67
34516057--34516088	13	2.4	14	94	5	57	31	18	21	28	1.97
34517033--34517135	37	2.8	37	93	0	179	24	30	20	25	1.99
34517276--34517606	48	6.9	48	91	1	504	29	28	6	35	1.83
34517579--34517817	47	5.1	46	85	5	239	25	28	11	34	1.90
34517579--34517795	94	2.3	92	84	4	272	24	29	11	34	1.91
34517738--34517815	25	3.2	25	63	17	65	29	30	8	30	1.88
34517718--34517790	22	3.2	22	64	17	58	24	32	12	30	1.92
34517718--34517793	24	3.2	24	63	29	63	25	32	11	30	1.91
34517624--34517817	94	2.1	94	90	0	298	25	28	10	35	1.90
34521543--34521774	40	5.8	40	89	0	338	26	28	20	24	1.99
34521543--34521770	80	2.8	80	93	0	384	26	28	20	24	1.99
34523058--34523160	37	2.8	37	95	0	179	24	31	20	24	1.98
34523301--34523507	48	4.3	48	93	0	333	28	27	6	37	1.82
34524870--34524948	37	2.1	37	88	4	115	25	30	18	25	1.98
34525068--34525178	47	2.4	47	84	0	141	27	31	9	31	1.89
34528736--34528978	40	6.1	40	90	1	346	25	27	22	23	1.99
34529286--34529364	29	2.7	29	86	5	106	27	32	15	24	1.95
34529346--34529448	43	2.4	43	98	0	197	26	34	15	23	1.94
34531311--34531389	37	2.1	37	86	4	106	26	30	17	25	1.97
34531508--34531902	47	8.4	47	91	3	607	28	28	9	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34531564--34531902	186	1.8	187	94	1	608	29	27	8	33	1.87
34534333--34534464	46	2.8	47	82	7	169	28	28	8	35	1.86
34534437--34534628	47	4.1	47	86	1	251	24	29	11	34	1.90
34534527--34534601	22	3.3	22	66	23	64	25	29	13	32	1.93
34537737--34537803	29	2.3	29	100	0	134	14	35	31	17	1.91
34542518--34542574	26	2.2	26	81	9	62	26	17	19	36	1.94
34557269--34557392	28	4.4	28	91	1	185	25	12	28	33	1.92
34559892--34560556	27	24.6	27	71	10	159	37	20	8	33	1.83
34559886--34560040	52	2.9	53	80	6	161	40	21	7	30	1.80
34560050--34560223	54	3.2	54	85	0	213	32	21	9	37	1.85
34559940--34560349	54	7.6	54	75	6	177	36	20	8	34	1.83
34560187--34560563	27	13.9	27	74	9	180	38	20	8	33	1.83
34560214--34560341	55	2.3	56	82	7	147	40	21	7	30	1.80
34560480--34560604	54	2.3	54	84	0	151	41	18	8	32	1.79
34560427--34560582	81	1.9	81	81	5	190	41	20	9	28	1.83
34560399--34560592	81	2.4	81	73	7	180	40	20	8	30	1.83
34562564--34562742	85	2.1	85	97	0	340	37	8	27	25	1.86
34564470--34564496	12	2.2	12	100	0	54	51	7	0	40	1.30
34564943--34565040	27	3.5	28	90	2	135	26	13	28	31	1.94
34564971--34565053	27	3.0	27	87	5	96	30	12	25	32	1.92
34573217--34573315	27	3.5	28	90	2	137	27	13	28	31	1.94
34577304--34577336	16	1.9	18	88	11	52	15	15	21	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34597313--34597424	51	2.2	51	80	3	118	32	28	15	24	1.95
34597377--34597519	50	2.8	51	83	1	180	31	27	16	24	1.97
34598478--34598503	10	2.6	10	100	0	52	26	23	0	50	1.50
34599049--34599241	55	3.6	53	76	4	165	20	23	18	37	1.94
34619009--34619127	27	4.4	27	83	0	157	38	19	17	24	1.93
34619009--34619127	54	2.2	54	89	0	175	38	19	17	24	1.93
34630939--34631379	47	9.4	47	97	0	801	32	9	29	29	1.89
34631354--34631406	27	2.0	27	100	0	106	35	15	22	26	1.93
34631307--34631452	74	2.0	74	98	0	283	34	10	26	28	1.90
34631263--34631481	121	1.8	120	96	1	411	33	9	27	29	1.88
34631381--34631532	47	3.3	47	86	1	207	32	10	30	26	1.90
34631651--34631726	37	2.1	37	87	5	109	25	18	30	26	1.98
34644855--34645034	48	3.8	48	83	7	213	26	17	28	26	1.98
34649610--34649746	48	2.8	49	82	2	170	30	16	25	27	1.96
34649612--34649782	48	3.6	48	74	9	143	29	16	26	26	1.97
34649604--34649779	96	1.8	96	85	4	248	28	16	27	27	1.97
34650200--34650240	21	2.0	21	85	0	55	41	2	2	53	1.27
34651112--34651282	93	1.8	93	91	0	279	29	29	20	21	1.98
34651107--34651279	46	3.7	46	78	10	190	30	28	20	21	1.98
34658695--34658866	46	3.7	46	80	10	206	28	28	21	21	1.99
34665442--34665794	46	7.5	49	74	12	226	26	19	30	23	1.98
34665628--34665794	49	3.4	48	79	7	133	25	18	30	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34668860--34668928	20	3.5	20	86	7	97	55	8	0	36	1.31
34675277--34675313	8	4.6	8	86	0	56	56	8	0	35	1.29
34675259--34675323	24	2.6	25	78	11	71	61	4	0	33	1.16
34675294--34675353	33	1.9	33	86	10	90	60	3	0	36	1.14
34681011--34681272	47	5.6	47	92	0	416	28	30	8	32	1.87
34681497--34681639	40	3.5	40	79	11	150	27	27	20	24	1.99
34687627--34687658	16	2.0	16	93	0	55	46	37	9	6	1.61
34689778--34689962	40	4.7	40	80	7	200	24	22	28	25	1.99
34689831--34689995	79	2.1	79	83	6	201	26	21	27	24	1.99
34692504--34692617	28	4.0	28	76	10	106	28	14	28	28	1.96
34703872--34703929	30	2.0	30	86	3	82	44	12	8	34	1.72
34712883--34713355	47	9.9	47	92	2	757	31	8	30	29	1.87
34712883--34713355	96	5.0	95	93	2	781	31	8	30	29	1.87
34712883--34713355	143	3.3	142	92	2	770	31	8	30	29	1.87
34713474--34713552	37	2.1	37	88	4	115	25	18	30	25	1.98
34720794--34721343	47	11.6	47	93	2	920	29	29	8	32	1.86
34720794--34721343	96	5.8	96	95	1	941	29	29	8	32	1.86
34720794--34721343	143	3.9	141	93	2	920	29	29	8	32	1.86
34721568--34721707	40	3.5	40	82	11	153	26	25	22	25	2.00
34726124--34726206	42	2.0	42	92	0	139	36	19	20	24	1.95
34734321--34734360	21	2.0	21	85	9	57	35	2	17	45	1.62
34748946--34749217	40	6.8	40	79	2	296	26	28	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34748918--34749214	80	3.7	80	91	2	429	26	28	21	23	1.99
34757122--34757393	40	6.8	40	78	2	287	26	28	21	23	1.99
34757095--34757390	80	3.7	80	90	2	418	26	28	21	23	1.99
34764617--34764778	84	2.0	80	83	9	202	35	23	12	29	1.91
34764617--34764778	40	4.0	40	77	8	139	35	23	12	29	1.91
34766657--34766721	33	2.0	33	96	0	121	10	18	3	67	1.33
34778281--34778461	95	1.9	95	88	0	272	28	10	23	38	1.88
34778275--34778480	95	2.2	95	83	1	270	28	11	22	37	1.89
34778275--34778510	95	2.5	95	82	1	267	29	11	21	37	1.88
34778344--34778531	95	2.0	95	81	4	218	30	13	20	35	1.91
34793856--34794069	40	5.4	40	86	5	249	26	28	22	23	1.99
34798289--34798396	26	4.2	26	91	0	180	36	25	7	31	1.83
34807974--34808000	13	2.1	13	100	0	54	29	0	22	48	1.51
34812306--34812333	13	2.2	13	100	0	56	28	0	14	57	1.38
34813511--34813796	40	7.2	40	92	2	443	25	21	24	29	1.99
34817027--34817176	67	2.2	67	81	8	171	32	17	28	21	1.96
34817051--34817234	67	2.8	64	77	8	194	29	17	29	22	1.97
34821494--34821677	67	2.8	64	79	8	203	30	16	29	23	1.96
34828771--34828888	43	2.7	43	87	3	166	12	25	32	29	1.93
34831719--34831839	44	2.8	42	83	8	145	21	20	28	28	1.98
34831719--34831846	42	3.0	41	81	10	150	21	20	28	29	1.98
34831711--34831883	43	4.0	43	74	12	149	23	19	27	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34835110--34835239	67	1.9	67	93	0	224	33	14	16	35	1.90
34849238--34849262	10	2.5	10	100	0	50	28	36	0	36	1.58
34850374--34850440	34	2.0	34	84	0	89	28	5	23	41	1.78
34858448--34858651	53	3.8	53	77	4	185	37	17	23	21	1.94
34860550--34860646	27	3.5	28	90	2	133	26	13	27	31	1.94
34860578--34860660	27	3.0	27	87	5	96	31	12	24	32	1.91
34860550--34860661	28	4.0	27	83	6	98	29	12	25	33	1.92
34863278--34863308	16	1.9	16	93	0	53	45	22	19	12	1.84
34863526--34863587	29	2.2	29	85	2	81	32	14	24	29	1.94
34863541--34863640	29	3.5	29	79	1	112	27	17	28	28	1.97

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