genome.fa.s1.2.7.7.80.10.50.1000.174.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   

This is table  174  of  316  ( 37835 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)
55891749--55892331	47	12.4	47	94	0	977	29	29	8	32	1.88
55898894--55899073	40	4.5	40	78	8	163	26	21	26	25	2.00
55916670--55916712	21	2.0	21	100	0	86	23	23	9	44	1.82
55918151--55918222	37	1.9	37	94	0	126	44	5	29	20	1.74
55919743--55919774	14	2.3	14	100	0	64	34	6	12	46	1.67
55942477--55942517	22	1.9	22	90	5	66	17	26	43	12	1.84
55943578--55943796	46	4.7	46	73	12	169	22	29	19	28	1.98
55951675--55951719	23	2.0	23	81	0	54	51	20	2	26	1.59
55955313--55955364	21	2.5	21	78	12	61	17	5	5	71	1.26
55970995--55971116	42	2.8	43	81	4	131	31	19	23	24	1.98
55971002--55971116	44	2.7	43	85	4	151	27	20	25	26	1.99
55971191--55971272	31	2.6	31	80	1	83	59	18	6	15	1.56
55971538--55971598	21	2.9	21	87	4	88	0	45	22	31	1.53
55972015--55972043	14	2.1	14	93	6	51	58	6	0	34	1.25
55972208--55972236	14	2.1	14	100	0	58	51	0	13	34	1.42
55977076--55977310	9	26.7	9	69	16	100	37	2	15	45	1.60
55977080--55977300	34	6.6	34	70	13	100	37	2	14	45	1.59
55977080--55977297	16	13.0	16	68	12	116	37	2	14	45	1.60
55977113--55977310	16	11.7	18	69	20	124	37	3	15	44	1.62
55977404--55977596	62	3.2	61	74	14	220	55	2	5	36	1.35
55977459--55977506	19	2.6	18	83	6	69	62	0	4	33	1.14
55980551--55980622	25	2.9	25	95	0	135	33	4	31	30	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55981463--55981494	14	2.3	14	94	0	55	50	43	0	6	1.27
55982236--55982514	105	2.7	104	88	3	393	29	23	15	31	1.95
55982254--55982514	104	2.5	105	89	2	375	29	24	15	30	1.95
55987779--55987805	7	3.9	7	100	0	54	44	0	0	55	0.99
55991216--55991299	43	2.0	43	87	0	123	25	11	26	36	1.90
55998775--55998855	41	2.0	41	85	4	110	37	25	11	25	1.89
56002605--56002741	40	3.5	40	85	3	143	26	27	18	27	1.98
56002640--56002741	39	2.6	40	87	1	134	27	27	17	27	1.98
56009060--56009284	40	5.6	39	83	3	238	24	21	28	25	1.99
56009114--56009307	80	2.5	79	84	6	207	25	20	28	25	1.99
56013085--56013268	79	2.3	82	83	7	227	23	27	23	25	2.00
56013066--56013269	40	5.1	40	81	8	229	24	27	23	25	2.00
56017342--56017389	25	1.9	25	100	0	96	37	20	8	33	1.83
56028953--56029014	32	1.9	32	100	0	124	29	6	25	38	1.81
56035746--56035786	20	2.0	20	85	4	55	31	21	12	34	1.91
56039817--56039864	21	2.2	22	85	10	64	56	0	6	37	1.25
56042332--56042391	23	2.6	23	100	0	120	35	13	13	38	1.84
56048548--56048814	49	5.6	49	89	3	384	33	8	29	28	1.86
56052222--56052254	13	2.6	13	90	4	50	48	12	0	39	1.40
56055167--56055212	12	3.8	12	82	5	56	80	0	4	15	0.86
56055147--56055212	13	4.8	13	75	18	62	77	0	4	18	0.94
56057140--56057184	21	2.2	20	84	4	54	17	24	26	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56060606--56060638	13	2.6	13	90	4	50	48	12	0	39	1.40
56070077--56070121	22	2.0	22	95	0	81	28	4	20	46	1.69
56073724--56073779	5	11.0	5	81	14	62	19	1	0	78	0.84
56073729--56073807	7	11.0	7	73	15	54	22	2	0	74	0.93
56073741--56073824	31	2.8	29	72	19	75	26	3	0	70	1.04
56079007--56079045	17	2.3	17	90	0	60	28	0	12	58	1.34
56084223--56084263	5	8.2	5	100	0	82	19	0	0	80	0.71
56097027--56097067	21	1.9	22	85	14	59	31	0	12	56	1.36
56099859--56099961	44	2.3	44	83	6	111	25	14	23	36	1.93
56101542--56101797	40	6.4	41	91	4	375	26	27	22	23	1.99
56117033--56117113	27	3.0	27	94	0	144	48	30	6	14	1.69
56119898--56119938	20	2.0	21	90	4	66	75	0	19	4	0.98
56125555--56125584	11	2.7	11	94	0	51	40	6	3	50	1.45
56127836--56127998	35	4.6	36	85	1	199	33	23	12	31	1.91
56131344--56131444	43	2.4	42	83	5	123	33	27	15	22	1.95
56133930--56133988	21	2.8	22	80	7	61	22	0	8	69	1.15
56133959--56134008	26	2.0	24	88	7	73	30	0	6	64	1.18
56136573--56136815	40	6.2	39	91	3	314	25	27	21	24	1.99
56141429--56141596	40	4.2	40	83	4	106	25	27	23	23	2.00
56141452--56141596	40	3.6	40	85	4	193	23	26	24	25	2.00
56150373--56150526	28	5.5	28	92	0	238	33	27	12	26	1.92
56150373--56150551	56	3.2	56	87	1	243	33	27	12	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56152911--56153078	40	4.2	40	81	1	158	25	26	23	24	2.00
56152934--56153078	40	3.6	40	85	4	184	23	25	24	26	2.00
56159173--56159349	40	4.5	40	87	5	227	24	27	22	25	2.00
56159173--56159349	79	2.2	80	85	5	227	24	27	22	25	2.00
56165984--56166154	46	3.7	45	78	7	182	22	29	21	26	1.99
56165946--56166157	94	2.3	90	83	10	252	24	29	19	26	1.99
56169478--56169531	23	2.3	23	90	0	90	22	31	31	14	1.94
56180653--56180690	20	1.9	20	88	0	58	44	21	7	26	1.79
56183614--56183648	17	2.1	17	89	10	54	20	5	2	71	1.19
56193277--56193378	51	2.0	51	96	0	186	30	20	14	34	1.93
56193418--56193488	35	2.0	35	100	0	142	50	11	11	26	1.72
56196489--56196550	21	2.9	21	75	22	58	45	3	1	50	1.27
56197980--56198014	17	2.1	17	100	0	70	31	11	11	45	1.76
56199709--56199758	19	2.4	22	68	25	54	38	0	6	56	1.24
56202846--56203896	132	8.0	132	88	1	1534	26	23	20	28	1.99
56202846--56203896	263	4.0	264	88	0	1532	26	23	20	28	1.99
56202858--56203896	395	2.6	395	91	1	1641	27	23	20	28	1.99
56203472--56203654	45	4.1	45	67	14	128	27	25	18	28	1.98
56203552--56203774	45	5.0	45	68	8	134	29	25	17	28	1.97
56203964--56204091	64	2.0	64	89	3	195	35	13	19	32	1.90
56207886--56207933	19	2.5	19	87	9	71	43	10	22	22	1.84
56208147--56208171	11	2.3	11	100	0	50	12	36	16	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56210173--56210230	27	2.1	28	90	3	91	62	1	0	36	1.06
56210147--56210230	29	3.0	28	81	8	100	60	1	3	34	1.21
56210247--56210312	27	2.5	25	77	15	71	51	0	13	34	1.41
56211493--56211554	25	2.5	25	76	7	65	29	4	3	62	1.31
56211685--56211743	27	2.2	27	81	6	66	35	11	0	52	1.38
56211761--56211843	29	3.0	28	80	8	98	33	3	1	61	1.21
56211891--56211986	26	3.6	26	77	13	72	32	4	4	59	1.36
56215964--56216015	2	26.0	2	100	0	104	0	50	0	50	1.00
56216339--56216390	18	2.7	18	74	14	50	51	3	0	44	1.19
56221947--56221994	6	8.0	6	85	0	51	64	4	18	12	1.43
56221944--56221994	18	2.8	18	75	0	57	60	3	21	13	1.49
56223203--56223272	30	2.3	30	87	2	104	42	12	18	25	1.86
56227967--56228041	30	2.6	30	89	4	109	30	22	12	34	1.91
56230725--56230768	20	2.2	21	80	12	56	15	15	4	63	1.46
56238053--56238099	21	2.2	21	88	7	69	36	21	17	25	1.94
56238184--56238231	24	2.0	24	91	0	78	31	18	27	22	1.97
56242355--56242526	51	3.5	48	76	10	175	30	25	18	25	1.98
56251327--56251387	19	3.0	20	75	13	61	3	27	1	67	1.16
56258012--56258047	16	2.3	16	90	4	56	0	30	5	63	1.17
56258012--56258053	15	2.7	16	85	3	59	0	28	7	64	1.20
56263043--56263189	75	2.0	75	93	0	249	33	15	16	34	1.90
56271072--56271171	51	2.0	51	85	0	137	31	25	19	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56271130--56271215	43	2.0	43	86	0	118	30	29	18	22	1.97
56282203--56282309	56	1.9	56	83	7	137	26	14	28	31	1.94
56286800--56286894	27	3.6	27	82	10	115	38	21	22	17	1.93
56286800--56286911	54	2.1	54	88	3	163	37	23	22	16	1.94
56286800--56286911	27	4.1	27	78	12	104	37	23	22	16	1.94
56288300--56288355	23	2.4	23	93	3	94	21	39	3	35	1.71
56294630--56294740	27	4.2	26	83	5	132	36	21	25	17	1.95
56294630--56294740	54	2.1	53	86	1	150	36	21	25	17	1.95
56296140--56296189	25	2.1	25	85	7	68	18	42	4	36	1.69
56318594--56318865	50	5.6	50	81	7	278	24	30	18	27	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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316