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: 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  161  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)
52722016--52722045	15	2.1	15	93	6	53	13	0	0	86	0.57
52722016--52722045	7	4.1	7	91	8	51	13	0	0	86	0.57
52722525--52722563	16	2.4	16	95	0	69	30	10	28	30	1.90
52727079--52727185	39	2.7	39	82	2	106	30	21	23	24	1.99
52727040--52727231	40	4.8	40	78	6	167	27	22	25	24	2.00
52734778--52734962	79	2.3	81	83	7	227	24	22	27	24	2.00
52734779--52734962	40	4.6	40	82	9	207	25	22	27	24	2.00
52734831--52734995	79	2.1	79	83	6	201	26	21	27	24	1.99
52736648--52736769	29	4.2	29	81	4	129	27	30	13	28	1.94
52739568--52739624	29	2.0	29	96	0	105	26	15	31	26	1.96
52739576--52739681	29	3.7	29	83	0	104	27	15	29	28	1.96
52740000--52740076	29	2.7	28	88	6	102	25	16	31	25	1.97
52739643--52740364	366	2.0	366	94	0	1282	28	16	25	28	1.97
52745088--52745152	27	2.4	27	84	0	85	32	23	4	40	1.75
52745443--52745596	67	2.3	67	95	0	272	19	28	22	29	1.98
52745699--52745777	31	2.5	31	85	0	113	18	17	13	49	1.80
52745699--52745786	6	14.3	6	71	17	65	19	17	14	48	1.81
52749296--52749574	52	5.4	52	91	0	434	37	14	24	24	1.92
52749598--52749745	51	2.9	51	83	4	192	36	13	22	27	1.92
52755068--52755122	27	2.0	27	92	0	92	29	20	20	30	1.97
52769127--52769346	110	2.0	110	98	0	422	28	21	11	38	1.89
52770481--52770703	79	2.8	78	82	9	265	24	27	22	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52770481--52770703	39	5.7	40	86	8	266	24	27	22	25	2.00
52777739--52778000	39	6.7	40	88	7	337	24	27	22	25	2.00
52781130--52781269	50	2.8	50	73	2	120	32	15	23	28	1.95
52782440--52782467	11	2.5	11	100	0	56	39	0	17	42	1.50
52789616--52789646	10	3.1	10	95	0	53	19	38	9	32	1.84
52789603--52789654	20	2.5	21	73	14	54	26	36	9	26	1.87
52791955--52792031	40	1.9	40	91	0	127	44	9	9	37	1.68
52792804--52792850	17	2.7	18	81	12	62	46	0	2	51	1.13
52793176--52793219	12	3.5	12	77	22	54	45	0	11	43	1.40
52793174--52793227	26	2.1	26	92	0	90	48	0	9	42	1.35
52795254--52795583	164	2.0	164	90	1	518	41	14	14	29	1.85
52796661--52796708	19	2.5	20	86	3	62	62	2	4	31	1.26
52799070--52799098	13	2.3	13	94	5	51	24	0	6	68	1.13
52799064--52799099	11	3.2	11	84	7	54	30	0	11	58	1.33
52807158--52807848	47	14.6	47	93	2	1141	33	8	28	29	1.87
52807967--52808068	37	2.8	37	93	0	168	24	17	30	27	1.97
52812840--52812877	19	2.0	20	85	15	53	39	23	0	36	1.55
52813107--52813277	93	1.8	93	92	0	288	30	28	19	21	1.97
52813106--52813274	46	3.7	46	77	10	191	30	28	18	21	1.97
52819940--52819977	19	2.0	20	85	15	53	39	23	0	36	1.55
52820207--52820377	93	1.8	93	88	0	261	29	27	19	22	1.98
52820202--52820374	46	3.7	46	75	11	156	30	26	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52820252--52820393	46	3.1	45	73	18	123	29	28	19	23	1.98
52826003--52826066	32	2.0	32	93	0	110	32	14	14	39	1.85
52830292--52830435	28	5.4	27	79	15	158	36	13	22	27	1.91
52830292--52830423	52	2.5	52	90	2	203	37	14	21	26	1.92
52830459--52830707	51	4.9	51	92	2	396	33	13	24	28	1.93
52830459--52830707	101	2.5	102	91	4	398	33	13	24	28	1.93
52834869--52834926	24	2.4	24	88	2	80	34	12	24	29	1.91
52834882--52834937	24	2.5	22	83	11	76	32	14	23	30	1.94
52836660--52836696	15	2.3	17	86	9	51	51	10	0	37	1.37
52836670--52836774	38	2.8	38	77	9	108	52	4	2	40	1.37
52836769--52836823	27	2.0	27	100	0	110	36	3	10	49	1.56
52840415--52840487	33	2.2	33	90	0	110	39	15	4	41	1.66
52841106--52841149	20	2.3	19	84	4	52	40	22	6	29	1.80
52848258--52848325	28	2.4	28	82	0	73	22	23	19	35	1.96
52848273--52848403	28	4.7	28	80	3	113	23	19	24	32	1.98
52851950--52852181	43	5.4	43	87	0	331	21	17	30	31	1.96
52853076--52853248	46	3.8	45	77	11	181	23	20	27	28	1.99
52853074--52853243	93	1.8	93	89	2	270	22	21	27	28	1.99
52870429--52870606	27	6.6	27	83	3	178	30	28	14	25	1.95
52870450--52870605	82	1.9	81	89	3	242	30	28	14	26	1.95
52873089--52873196	26	4.2	26	90	0	171	33	6	23	37	1.80
52876368--52876574	53	3.8	53	82	5	227	22	25	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52876380--52876568	55	3.5	54	84	5	222	21	24	18	35	1.95
52876555--52876676	47	2.6	47	90	0	199	27	23	13	36	1.92
52902494--52902702	40	5.3	40	92	1	305	26	28	21	24	1.99
52902687--52902762	39	1.9	40	81	10	93	27	28	19	23	1.98
52910413--52910674	79	3.3	79	86	3	314	27	27	19	24	1.99
52910413--52910674	40	6.6	40	86	3	307	27	27	19	24	1.99
52910411--52910674	119	2.2	118	80	6	307	27	28	19	24	1.99
52912281--52912360	42	2.0	42	85	9	112	20	20	42	17	1.89
52914188--52914379	53	3.7	53	82	6	189	21	24	18	35	1.95
52921724--52921975	55	4.7	54	81	5	257	21	24	18	36	1.95
52921771--52921971	108	1.8	110	89	4	318	21	24	18	34	1.96
52934737--52934789	21	2.5	21	78	9	54	47	1	11	39	1.50
52940677--52940868	40	4.8	40	89	1	262	27	28	20	23	1.99
52940651--52940868	80	2.7	80	85	4	273	27	28	20	23	1.99
52947491--52947664	47	3.7	47	84	9	200	22	32	18	25	1.97
52960527--52960586	30	2.0	30	86	0	84	31	13	26	28	1.94
52960908--52961120	46	4.6	46	81	7	211	30	18	29	22	1.97
52960908--52961120	93	2.3	92	80	10	231	30	18	29	22	1.97
52962262--52962302	22	1.9	22	90	5	66	12	41	29	17	1.85
52968563--52968683	46	2.7	44	86	10	156	28	20	28	23	1.99
52969800--52969840	22	1.9	21	95	5	73	9	43	26	19	1.82
52973797--52973832	18	2.0	18	94	0	63	50	13	16	19	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52979974--52980008	18	1.9	18	88	0	52	34	8	5	51	1.56
52985178--52985298	43	2.9	42	75	7	129	20	18	28	32	1.96
52985954--52986014	30	2.0	30	100	0	122	27	13	22	36	1.92
52988018--52988057	19	2.1	19	95	0	71	32	5	37	25	1.77
52990062--52990103	15	2.8	15	88	0	57	50	0	0	50	1.00
52990656--52990770	56	2.1	56	85	9	155	37	9	9	43	1.70
52991806--52991835	12	2.5	12	88	0	51	0	10	0	90	0.47
52992658--52992696	19	2.1	19	100	0	78	43	5	5	46	1.48
53004042--53004106	20	3.2	20	65	4	58	33	21	24	20	1.97
53004056--53004122	21	3.2	21	68	4	64	26	20	31	20	1.98
53004036--53004240	41	5.0	41	84	0	223	33	17	27	21	1.96
53011250--53011369	41	3.0	41	82	2	136	33	16	27	22	1.96
53012351--53012377	13	2.1	13	100	0	54	14	33	37	14	1.88
53027940--53028025	20	4.0	20	68	24	59	24	2	1	72	1.04
53027976--53028025	7	7.3	7	88	4	66	22	0	0	78	0.76
53038546--53038732	48	3.9	48	82	2	232	18	16	27	36	1.93
53042840--53042876	17	2.2	17	90	0	56	51	5	21	21	1.68
53065723--53065900	27	6.6	27	83	5	198	27	15	27	29	1.96
53065725--53065879	82	1.9	81	88	4	231	27	15	27	29	1.96
53070959--53071278	48	6.7	49	72	10	214	27	27	19	25	1.99
53070904--53071287	96	4.0	96	80	6	350	26	27	19	26	1.99
53080935--53081137	53	3.8	54	76	3	194	39	19	22	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53085431--53085516	40	2.2	40	89	0	127	32	17	31	18	1.94
53085453--53085517	20	3.2	20	72	8	69	29	16	35	18	1.93
53094801--53094984	67	2.8	64	76	8	185	29	17	29	22	1.97
53097880--53098105	39	5.5	39	87	9	301	29	28	23	18	1.98
53097947--53098081	47	3.0	47	89	8	196	28	29	24	17	1.97
53097947--53098106	86	1.9	86	97	0	302	28	28	23	19	1.98
53104319--53104622	39	7.5	39	89	6	430	29	27	23	19	1.98
53104464--53104623	86	1.9	86	95	0	293	28	26	23	20	1.99
53107655--53107847	40	4.9	40	91	0	309	23	27	22	25	1.99
53110411--53110446	18	2.0	18	100	0	72	27	5	27	38	1.79

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