genome.fa.s5.2.7.7.80.10.50.1000.107.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   317   318   

This is table  107  of  318  ( 38109 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)
34468213--34468251	3	13.0	3	100	0	78	33	0	0	66	0.92
34480745--34480983	44	5.3	44	74	13	175	36	22	22	18	1.95
34486616--34486790	86	2.0	87	90	3	273	29	30	15	25	1.96
34489177--34489233	25	2.4	23	85	8	71	66	0	5	28	1.13
34489274--34489781	3	169.7	3	69	15	218	61	1	7	29	1.33
34489259--34489318	17	3.6	17	85	10	72	66	0	8	25	1.19
34489521--34489590	25	3.0	24	78	13	51	67	1	4	27	1.18
34490460--34490486	11	2.5	11	100	0	54	7	14	7	70	1.32
34490727--34490763	18	2.1	18	89	0	56	0	18	16	64	1.29
34491043--34491110	31	2.2	31	100	0	136	48	14	13	23	1.79
34507236--34507428	96	2.0	96	98	0	377	31	19	24	24	1.98
34508069--34508148	19	4.4	18	85	13	103	35	11	16	37	1.84
34508079--34508168	19	4.7	19	86	9	112	33	12	15	38	1.85
34508069--34508155	36	2.4	35	80	16	115	35	10	17	36	1.84
34511775--34511804	14	2.1	14	93	0	51	40	16	13	30	1.87
34519584--34519824	43	5.6	43	93	0	410	12	24	32	30	1.92
34526434--34526468	14	2.6	14	90	4	54	37	2	14	45	1.59
34527170--34527383	43	5.0	43	80	9	181	26	16	24	32	1.96
34527191--34527383	86	2.2	86	82	0	233	25	17	24	33	1.96
34527232--34527384	43	3.6	43	82	3	182	23	18	25	32	1.97
34527274--34527424	43	3.6	43	80	9	141	23	20	23	33	1.97
34535668--34535718	18	2.8	18	74	14	50	66	5	3	23	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34536112--34536180	35	2.0	35	100	0	138	43	13	8	34	1.74
34537622--34537672	22	2.3	22	83	10	59	13	1	7	76	1.09
34537635--34537666	16	2.0	16	93	0	55	9	0	9	81	0.88
34539023--34539064	12	3.0	14	86	13	52	61	0	2	35	1.09
34539173--34539207	18	1.9	18	94	0	61	48	0	8	42	1.33
34539342--34539496	3	51.7	3	71	14	72	59	3	7	29	1.41
34539351--34539408	22	2.6	22	83	8	82	60	1	8	29	1.36
34539344--34539408	25	2.5	26	80	16	73	60	1	7	30	1.34
34539342--34539475	28	4.8	26	69	19	76	58	3	8	29	1.44
34539419--34539508	30	3.1	29	80	16	89	58	4	5	31	1.41
34539395--34539508	32	3.7	29	76	18	97	59	4	7	28	1.43
34539502--34539528	6	4.5	6	100	0	54	66	0	0	33	0.92
34539504--34539558	14	4.0	14	84	9	51	63	0	7	29	1.21
34540419--34540454	3	12.0	3	100	0	72	66	0	0	33	0.92
34541215--34541917	44	15.7	45	72	12	378	27	21	19	31	1.98
34541189--34541915	223	3.2	222	81	6	693	27	21	19	31	1.98
34541214--34541697	179	2.7	179	82	6	531	26	21	19	32	1.97
34542314--34542462	46	3.2	46	82	2	192	22	24	16	36	1.94
34543342--34543380	5	8.2	5	86	11	55	2	17	0	79	0.84
34548723--34548757	18	1.9	18	94	0	61	48	0	8	42	1.33
34548892--34548958	3	22.0	3	80	11	66	59	1	7	31	1.34
34548901--34548958	22	2.6	22	83	8	82	60	1	8	29	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34548894--34548958	25	2.5	26	80	16	73	60	1	7	30	1.34
34548892--34549025	28	4.8	26	69	18	76	58	3	8	29	1.46
34549001--34549041	15	2.7	16	81	7	50	60	0	4	34	1.18
34548972--34549058	29	2.9	28	78	18	79	57	3	6	32	1.42
34549016--34549097	12	6.2	13	77	13	71	64	1	2	31	1.14
34549052--34549084	6	5.5	6	100	0	66	66	0	0	33	0.92
34549060--34549114	14	4.0	14	84	9	51	63	0	7	29	1.21
34557186--34557332	70	2.1	70	87	2	206	25	22	22	29	1.99
34557220--34557394	70	2.5	70	85	0	224	23	21	23	32	1.98
34561837--34561878	18	2.3	19	95	4	77	45	4	0	50	1.23
34568467--34568500	18	1.9	17	88	5	50	76	0	2	20	0.92
34568521--34568631	55	2.0	55	98	0	213	36	20	16	26	1.93
34571566--34571615	22	2.2	23	82	10	59	40	14	2	44	1.56
34571777--34571809	15	2.3	15	89	5	50	30	24	3	42	1.70
34572774--34572809	11	3.2	11	92	4	54	86	0	13	0	0.58
34572771--34572803	16	2.1	16	94	0	57	90	0	9	0	0.44
34572868--34572927	28	2.1	28	81	0	66	40	5	6	48	1.51
34577423--34577561	41	3.4	40	90	4	197	34	21	23	20	1.97
34577864--34577899	15	2.5	15	90	4	56	22	0	33	44	1.53
34577869--34577976	43	2.5	42	76	11	105	25	1	34	37	1.67
34578109--34578159	22	2.4	22	83	9	70	27	1	21	49	1.60
34577723--34578351	275	2.3	272	83	8	744	33	2	19	44	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34578546--34578590	6	7.0	6	85	10	54	77	2	0	20	0.87
34578551--34578592	13	3.4	12	81	15	50	78	2	0	19	0.86
34578551--34578590	19	2.1	19	95	0	71	80	2	0	17	0.83
34581434--34581541	26	4.2	26	96	0	189	31	5	25	37	1.79
34586386--34586522	43	3.2	43	90	6	215	24	18	30	27	1.98
34601458--34601641	40	4.6	40	82	2	226	26	22	25	25	2.00
34601904--34601947	22	2.0	22	82	8	54	31	11	13	43	1.80
34608641--34608818	27	6.6	27	83	3	205	26	15	28	29	1.96
34608642--34608797	82	1.9	81	88	3	233	26	15	28	29	1.96
34608638--34608818	82	2.2	81	83	2	229	27	15	27	29	1.96
34612924--34613146	40	5.6	40	86	3	236	24	21	27	26	1.99
34612999--34613181	79	2.3	80	82	1	226	25	20	27	25	1.99
34620813--34621072	80	3.3	79	79	5	240	25	20	27	26	1.99
34620813--34621035	40	5.6	40	85	3	227	24	20	27	26	1.99
34620888--34621070	79	2.3	80	81	1	217	25	20	27	26	1.99
34621609--34621653	21	2.1	21	100	0	90	37	4	11	46	1.60
34623967--34624148	40	4.6	40	85	6	246	25	23	26	24	2.00
34623967--34624175	40	5.3	39	82	6	237	25	22	26	25	2.00
34624406--34624448	22	2.0	21	86	4	59	32	11	13	41	1.81
34635251--34635317	30	2.2	30	83	0	80	32	22	5	38	1.78
34635283--34635336	16	3.5	16	70	10	58	22	24	7	46	1.77
34635265--34635341	30	2.6	30	95	0	136	24	27	5	42	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34638453--34638520	34	2.0	34	88	0	100	22	25	20	32	1.98
34641499--34641743	43	5.7	43	81	3	228	32	28	16	22	1.96
34641499--34641786	85	3.4	85	78	2	231	32	28	16	23	1.96
34641518--34641743	85	2.6	85	80	0	245	34	28	16	21	1.95
34642430--34643312	23	38.5	22	73	12	464	38	23	4	33	1.76
34642428--34643312	46	19.3	46	74	10	550	38	23	4	33	1.76
34642685--34643246	160	3.5	160	94	1	939	37	23	4	33	1.76
34645903--34645942	19	2.1	19	90	0	62	22	0	35	42	1.54
34646383--34646424	21	2.0	21	85	0	57	71	2	7	19	1.20
34646769--34646994	7	31.9	7	67	11	57	41	34	0	23	1.60
34646820--34646888	21	3.3	21	78	11	70	34	43	0	21	1.53
34646877--34646931	28	1.9	28	85	10	76	47	32	0	20	1.50
34646883--34646999	14	8.2	14	73	7	74	47	29	0	22	1.57
34647304--34647389	40	2.2	40	82	0	100	24	22	17	36	1.95
34647490--34647568	40	2.0	40	87	5	115	29	20	18	31	1.97
34647500--34647584	40	2.1	40	82	0	98	27	20	17	35	1.95
34652892--34653042	43	3.5	41	78	12	135	27	18	21	32	1.97
34657682--34657792	57	1.9	57	100	0	222	39	9	23	27	1.86
34658549--34659106	170	3.2	170	85	5	728	31	16	24	27	1.96
34658617--34659277	170	3.8	177	78	8	416	31	16	24	27	1.96
34659519--34659551	14	2.3	15	90	10	52	78	0	0	21	0.75
34661942--34661988	24	2.0	24	95	0	85	36	8	17	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34668916--34669022	25	4.4	25	85	3	130	26	23	22	28	1.99
34668915--34669023	50	2.2	47	84	7	146	26	22	22	28	1.99
34669225--34669467	27	9.0	27	86	0	315	25	19	19	35	1.96
34669471--34669670	54	3.7	52	80	5	202	31	8	19	41	1.80
34669496--34669670	81	2.2	81	85	2	235	30	7	20	42	1.79
34669471--34669665	27	7.2	27	78	4	160	30	8	20	41	1.81
34669540--34669689	81	1.9	81	81	2	185	31	6	21	40	1.79
34669657--34669921	81	3.3	81	88	0	386	40	8	21	29	1.83
34669657--34669921	27	9.8	27	88	0	341	40	8	21	29	1.83
34673914--34673972	27	2.2	27	84	0	73	33	22	10	33	1.87

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   317   318