genome.fa.s5.2.7.7.80.10.50.1000.133.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  133  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)
41153872--41153994	55	2.3	53	92	5	203	33	27	12	26	1.92
41153872--41154019	55	2.7	55	88	6	185	33	27	12	26	1.92
41175340--41175490	28	5.4	28	91	1	214	33	28	12	25	1.92
41183359--41183509	28	5.4	28	91	1	214	33	28	12	25	1.92
41185260--41185307	21	2.3	21	85	7	62	12	2	54	31	1.49
41186297--41186404	26	4.2	26	92	0	189	31	6	25	37	1.81
41187891--41187943	26	2.0	25	82	13	63	35	22	15	26	1.93
41193394--41193501	26	4.2	26	95	0	198	31	6	25	36	1.82
41195233--41195280	21	2.3	21	85	7	62	12	2	54	31	1.49
41198642--41198695	27	2.0	27	85	3	72	29	3	1	64	1.21
41200650--41201401	102	7.1	105	79	10	590	58	13	0	27	1.42
41200858--41201454	102	5.7	107	84	4	643	58	14	0	27	1.39
41200663--41201455	211	3.8	208	83	7	832	57	14	0	27	1.41
41207108--41207137	3	10.0	3	100	0	60	66	0	0	33	0.92
41212575--41212600	11	2.4	11	100	0	52	7	11	50	30	1.67
41222514--41222569	16	3.6	16	90	2	87	41	7	25	26	1.81
41222546--41222636	44	2.0	44	83	8	112	30	4	27	37	1.76
41222808--41222887	36	2.2	36	82	4	90	48	5	1	45	1.32
41232097--41232158	31	2.0	31	100	0	124	29	0	16	54	1.42
41232511--41232780	148	1.8	148	90	0	432	25	6	18	49	1.72
41235231--41235351	49	2.5	48	82	6	147	25	27	17	29	1.97
41235328--41235448	48	2.5	48	91	0	197	24	25	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41235359--41235459	48	2.1	48	84	0	130	27	26	16	28	1.97
41235934--41235997	31	2.1	31	100	0	128	40	9	7	42	1.66
41240602--41240640	19	2.1	19	95	0	69	15	15	17	51	1.77
41240978--41241075	47	2.1	47	82	3	117	41	20	9	28	1.83
41249654--41249967	140	2.3	138	84	4	413	22	9	12	55	1.66
41250125--41250158	16	2.2	16	89	5	52	23	2	0	73	0.97
41255756--41255875	46	2.7	44	78	8	125	25	29	18	26	1.98
41257202--41257259	30	1.9	31	89	3	91	36	8	22	32	1.85
41257799--41257882	44	1.9	44	80	9	100	36	10	25	27	1.89
41258075--41258271	54	3.6	54	85	4	254	35	18	25	20	1.95
41264407--41264464	29	2.0	29	96	0	107	32	27	15	24	1.95
41266409--41266441	17	2.0	17	94	5	59	36	15	0	48	1.45
41266727--41267046	46	7.0	46	91	0	435	21	23	14	40	1.90
41281256--41281347	40	2.4	39	87	3	123	15	11	34	38	1.84
41282260--41282285	13	2.0	13	100	0	52	76	0	23	0	0.78
41285095--41285151	21	2.7	21	86	0	78	45	17	21	15	1.85
41287757--41287813	15	3.5	15	71	17	51	47	5	0	47	1.24
41287894--41287945	16	3.4	16	71	17	56	50	0	1	48	1.12
41289588--41289770	37	5.0	37	94	1	307	24	21	16	37	1.94
41289734--41290100	52	7.2	52	84	7	461	28	22	14	34	1.93
41289734--41290092	98	3.6	98	90	2	511	28	22	13	34	1.93
41289741--41290106	150	2.5	144	92	5	579	28	22	14	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41292407--41292450	3	14.7	3	81	9	54	29	6	0	63	1.20
41292399--41292451	24	2.2	24	89	0	79	26	7	0	66	1.18
41292407--41292464	15	3.8	15	80	15	66	31	6	0	62	1.22
41294156--41294199	22	2.0	22	95	0	79	38	27	9	25	1.86
41301532--41301569	19	1.9	19	94	5	67	73	0	5	21	1.02
41302706--41302734	8	3.8	8	90	9	51	65	0	0	34	0.93
41302732--41302763	13	2.5	13	95	5	57	68	0	0	31	0.90
41308316--41308372	24	2.3	25	84	3	71	57	3	0	38	1.16
41309089--41309153	29	2.2	31	81	10	73	64	4	3	27	1.28
41309495--41309554	27	2.1	27	84	9	75	26	0	5	68	1.10
41317600--41317647	24	2.0	24	87	0	69	64	2	4	29	1.23
41318445--41318486	14	2.9	14	86	10	50	78	7	4	9	1.08
41324899--41325200	132	2.3	131	77	5	331	29	19	15	35	1.93
41326730--41326777	19	2.5	19	93	0	78	22	18	14	43	1.87
41330805--41331213	88	4.7	88	94	0	696	26	17	28	28	1.97
41330897--41331126	41	5.3	41	64	19	117	26	17	28	27	1.98
41330850--41331085	47	5.3	47	65	20	173	26	17	27	28	1.98
41331175--41331544	44	8.4	44	88	0	488	28	15	30	25	1.96
41331175--41331779	132	4.7	132	81	7	652	29	15	30	25	1.96
41331523--41331587	28	2.2	28	86	5	85	21	16	33	27	1.95
41331548--41331779	44	5.2	44	77	5	225	30	15	29	24	1.95
41331432--41331648	116	1.9	116	91	0	353	27	16	32	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41331388--41331701	160	2.0	161	85	1	434	27	15	31	25	1.96
41333226--41333250	11	2.3	11	100	0	50	28	0	8	64	1.22
41334684--41334927	132	1.8	133	79	2	285	29	19	19	31	1.96
41334846--41335198	132	2.7	131	76	6	356	28	20	16	35	1.94
41350601--41350627	8	3.4	8	100	0	54	51	14	0	33	1.43
41351936--41351993	28	2.1	28	93	0	98	15	15	15	53	1.73
41353862--41354210	174	2.0	174	99	0	689	38	17	15	28	1.91
41363129--41363182	26	2.1	27	82	6	67	24	14	24	37	1.93
41363146--41363221	26	2.8	27	82	4	82	27	13	22	36	1.91
41364667--41364748	26	3.2	26	96	0	155	35	25	8	30	1.86
41368566--41368629	21	3.0	22	72	9	69	35	23	20	20	1.96
41368728--41368773	6	7.8	6	80	9	51	34	19	2	43	1.63
41369590--41369632	7	6.1	7	100	0	86	58	0	0	41	0.98
41369582--41369632	21	2.4	21	93	6	86	56	0	0	43	0.99
41370061--41370110	23	2.2	23	86	10	68	54	2	0	44	1.11
41370240--41370286	19	2.4	19	76	20	51	36	23	4	36	1.75
41371467--41371512	21	2.1	22	92	4	76	23	2	0	73	0.94
41371468--41371513	18	2.6	18	89	3	67	23	2	0	73	0.94
41371641--41371681	3	13.7	3	94	0	73	31	2	0	65	1.05
41374630--41374676	7	6.4	7	80	9	58	55	2	2	40	1.24
41375865--41375893	15	2.0	15	93	6	51	34	6	13	44	1.71
41389306--41389462	33	4.8	33	73	3	111	30	15	24	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41393323--41393385	31	2.0	31	100	0	126	39	3	25	31	1.71
41398214--41398263	24	2.1	24	96	0	91	10	22	22	46	1.81
41399630--41399669	12	3.5	12	80	13	57	47	5	0	47	1.24
41399623--41399669	22	2.1	22	100	0	94	48	4	0	46	1.21
41406100--41406132	17	2.0	17	88	5	50	51	0	0	48	1.00
41408257--41408348	45	2.0	45	97	0	175	34	23	7	33	1.84
41409781--41409825	21	2.1	21	83	0	54	53	20	4	22	1.63
41411756--41411784	13	2.1	14	93	6	51	0	24	0	75	0.80
41430955--41431072	40	3.0	40	91	2	175	27	27	20	24	1.99
41435971--41436030	7	8.6	7	87	5	61	31	0	0	68	0.90
41435956--41436038	22	3.8	22	84	9	107	26	0	4	68	1.09
41435971--41436021	7	6.9	8	84	10	65	33	0	0	66	0.92
41435939--41436032	8	12.5	8	77	15	67	27	0	3	69	1.04
41435964--41436032	14	4.9	14	78	3	75	28	0	1	69	0.97
41436921--41437101	41	4.4	41	83	2	204	22	24	19	33	1.97
41436921--41437101	81	2.2	83	85	2	233	22	24	19	33	1.97
41437156--41437182	12	2.2	12	100	0	54	48	29	14	7	1.71
41447327--41447596	46	5.7	47	74	11	198	23	30	20	26	1.98
41447370--41447639	140	1.9	141	83	8	354	24	29	19	27	1.98
41452924--41452980	16	3.4	16	69	9	51	19	22	19	38	1.93
41452955--41453177	46	4.9	46	92	1	333	20	23	13	42	1.88
41453985--41454100	51	2.3	51	93	0	196	26	20	10	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41456275--41456317	20	2.2	20	91	0	68	2	18	25	53	1.56
41457038--41457067	9	3.3	9	90	0	51	20	0	70	10	1.16
41458737--41458999	46	5.6	47	77	13	217	23	29	20	26	1.99
41458736--41459002	94	2.9	93	79	11	307	23	29	20	25	1.99
41461340--41461416	27	2.9	27	79	11	86	76	2	5	15	1.07
41461346--41461416	26	2.7	27	82	6	83	76	2	5	15	1.10
41486203--41486254	23	2.3	22	80	12	61	17	11	5	65	1.44
41486462--41486498	18	2.1	19	90	10	60	64	0	10	24	1.25
41494271--41494553	27	10.6	27	83	3	320	41	18	13	26	1.87
41494271--41494553	81	3.5	79	86	2	354	41	18	13	26	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