genome.fa.s12.2.7.7.80.10.50.1000.294.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   319   320   

This is table  294  of  320  ( 38372 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)
93868066--93868280	76	2.9	74	80	6	247	29	18	20	31	1.96
93868214--93868427	89	2.4	88	90	0	320	30	16	19	33	1.94
93868214--93868512	89	3.4	84	83	8	298	29	16	19	34	1.94
93869497--93869522	11	2.4	11	100	0	52	69	7	0	23	1.14
93870577--93870624	24	1.9	26	84	16	66	35	0	6	58	1.23
93878787--93878822	17	2.1	17	90	10	56	33	0	0	66	0.92
93881029--93881073	21	2.1	21	100	0	90	35	22	4	37	1.74
93886327--93886410	44	1.9	44	82	0	105	36	21	14	27	1.92
93886468--93886606	44	3.2	42	72	5	107	37	18	15	28	1.91
93886740--93886772	12	2.7	12	95	4	57	51	33	0	15	1.43
93887791--93887839	3	16.3	3	100	0	98	34	0	0	65	0.93
93892039--93892079	16	2.5	17	77	22	52	58	0	0	41	0.98
93892178--93892456	124	2.2	122	83	6	330	37	14	18	29	1.90
93892240--93892485	124	2.0	124	84	4	327	37	15	19	27	1.92
93895634--93895766	56	2.4	56	96	0	239	51	6	3	39	1.42
93896842--93896874	14	2.4	14	94	0	57	60	9	0	30	1.27
93897821--93897920	49	2.0	49	90	0	155	58	2	7	33	1.37
93898062--93898126	22	3.0	21	79	14	71	41	0	29	29	1.56
93898709--93898741	5	6.6	5	100	0	66	39	0	0	60	0.97
93900461--93900493	6	5.5	6	100	0	66	18	18	15	48	1.81
93900467--93900587	45	2.5	51	76	15	146	19	18	19	43	1.88
93900473--93900576	45	2.3	45	89	0	154	20	19	19	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93900707--93900857	18	8.4	18	76	10	105	34	13	13	39	1.83
93900692--93900805	36	3.2	35	79	6	131	35	13	12	39	1.82
93900877--93900937	18	3.4	18	79	0	68	37	9	14	37	1.80
93902109--93902138	3	10.0	3	100	0	60	66	0	0	33	0.92
93903371--93903404	15	2.1	15	89	10	50	70	8	5	14	1.31
93903419--93903777	3	120.3	3	70	13	206	59	1	8	30	1.36
93907085--93907235	42	3.6	42	86	5	207	30	25	13	30	1.94
93921616--93921645	15	1.9	16	93	6	53	53	43	3	0	1.17
93921721--93921863	22	6.3	22	76	12	130	36	50	0	13	1.42
93921749--93921887	35	4.0	35	90	3	217	36	49	0	13	1.42
93921749--93921876	13	10.8	13	70	24	104	37	49	0	13	1.42
93921792--93921887	22	4.2	22	75	15	95	36	50	0	13	1.42
93921721--93921863	57	2.5	57	87	3	216	36	50	0	13	1.42
93922251--93922292	19	2.3	18	87	4	57	26	2	2	69	1.13
93922277--93922358	33	2.3	39	83	12	104	34	13	0	52	1.41
93925972--93926002	15	2.1	15	100	0	62	38	0	12	48	1.42
93926188--93926325	40	3.5	40	84	0	186	30	11	21	36	1.89
93926290--93926527	79	3.0	79	85	1	318	32	14	21	31	1.93
93926907--93926940	4	8.0	4	87	12	50	70	0	0	29	0.87
93926901--93926940	13	3.1	13	86	10	55	67	0	0	32	0.91
93926904--93926940	9	4.2	9	96	3	67	70	0	0	29	0.88
93927457--93927495	17	2.3	17	100	0	78	46	0	10	43	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93928411--93928534	18	6.9	18	83	0	140	40	15	12	32	1.84
93928411--93928534	54	2.3	54	87	0	176	40	15	12	32	1.84
93928416--93928562	54	2.7	54	84	2	170	38	14	12	33	1.85
93930112--93930194	18	4.7	18	70	14	73	65	3	7	24	1.35
93930110--93930217	53	2.0	54	94	1	191	61	5	7	25	1.45
93930213--93930310	49	2.0	50	82	6	119	30	12	8	48	1.69
93932232--93932270	16	2.4	16	91	0	60	69	0	30	0	0.89
93934348--93934577	46	5.0	46	90	0	307	38	14	24	23	1.92
93934348--93934593	92	2.7	92	87	0	339	39	13	23	22	1.90
93936248--93936280	17	2.0	17	94	5	59	36	15	0	48	1.45
93936561--93936868	46	6.7	46	89	2	415	19	22	14	42	1.88
93938645--93938692	11	4.2	11	79	10	60	64	0	0	35	0.94
93938639--93938694	24	2.3	24	87	3	76	60	1	0	37	1.07
93945199--93945243	11	3.9	11	80	11	54	57	4	2	35	1.31
93963245--93963333	16	5.4	16	71	17	67	19	7	13	59	1.58
93963855--93963908	16	3.5	16	80	10	76	31	12	20	35	1.90
93963850--93963906	30	1.9	30	100	0	114	31	10	22	35	1.88
93968985--93969023	21	1.9	20	89	5	60	41	5	10	43	1.61
93969011--93969090	40	2.0	40	97	0	151	31	15	18	35	1.92
93970204--93970307	41	2.5	42	84	7	131	14	18	16	50	1.77
93970214--93970335	41	3.0	41	82	1	127	14	17	18	50	1.79
93972689--93972740	21	2.5	20	76	14	61	50	0	3	46	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93973793--93973843	24	2.2	23	82	10	59	45	0	1	52	1.12
93973836--93973874	15	2.4	16	87	8	53	35	0	0	64	0.94
93973810--93973929	32	4.1	29	70	20	72	46	0	0	52	1.06
93975141--93975193	17	3.2	17	81	5	63	35	0	3	60	1.15
93975178--93975233	23	2.4	23	100	0	112	41	3	0	55	1.17
93979127--93979174	18	2.6	19	77	9	55	14	14	4	66	1.39
93987089--93987124	5	7.6	5	87	12	58	38	0	0	61	0.96
93987096--93987133	13	3.0	13	96	3	69	39	0	0	60	0.97
93989667--93989709	21	2.0	22	81	4	52	41	0	6	51	1.29
93995833--93995857	5	5.0	5	100	0	50	80	0	20	0	0.72
94002123--94002161	3	13.0	3	100	0	78	66	0	0	33	0.92
94005551--94005630	33	2.4	32	75	18	76	38	6	2	52	1.40
94009442--94009488	19	2.5	19	76	10	51	72	4	2	21	1.12
94013719--94013748	14	2.1	14	100	0	60	13	0	40	46	1.43
94013777--94013810	13	2.6	13	95	0	59	26	0	38	35	1.57
94015195--94015310	54	2.2	53	79	3	124	18	0	31	50	1.47
94015332--94015421	41	2.3	41	85	9	118	16	26	23	33	1.96
94031687--94031711	11	2.3	11	100	0	50	48	8	12	32	1.69
94036694--94036737	21	2.1	21	100	0	88	45	13	9	31	1.75
94039006--94039070	17	3.6	17	73	17	60	40	1	1	56	1.18
94038908--94039038	62	2.1	63	81	7	160	39	6	3	49	1.48
94039328--94039367	20	2.0	21	85	5	55	37	2	0	60	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94042513--94042551	21	1.9	20	89	5	60	53	5	0	41	1.23
94053908--94053943	16	2.2	17	90	5	56	16	25	0	58	1.38
94058134--94058158	3	8.3	3	100	0	50	68	0	0	32	0.90
94058890--94058923	17	1.9	18	94	5	61	70	2	0	26	1.01
94060901--94060951	18	2.8	18	87	0	84	37	11	15	35	1.84
94060884--94060979	18	5.4	18	77	7	79	38	11	14	35	1.82
94064795--94064834	21	1.9	21	84	0	53	50	10	2	37	1.50
94066080--94066106	3	9.0	3	100	0	54	33	0	0	66	0.92
94066578--94066781	99	2.1	99	96	0	372	32	11	17	39	1.85
94075243--94075480	51	4.8	51	80	13	314	52	2	15	29	1.57
94075329--94075512	97	1.9	97	100	0	368	54	2	12	30	1.52
94076395--94076451	5	11.0	5	85	10	71	78	1	0	19	0.83
94076399--94076453	23	2.3	23	87	9	76	78	1	0	20	0.85
94076389--94076451	33	1.9	33	90	6	101	76	1	0	22	0.88
94076389--94076453	18	3.6	17	75	20	60	75	1	0	23	0.89
94081358--94081400	9	4.7	9	77	5	50	46	30	0	23	1.52
94082340--94082373	17	2.0	17	94	0	59	55	0	5	38	1.24
94083549--94083636	24	3.7	24	96	0	158	19	13	31	35	1.91
94083549--94083654	24	4.4	24	87	2	97	20	13	31	34	1.91
94083549--94083654	48	2.2	48	86	0	140	20	13	31	34	1.91
94084034--94084165	69	1.9	70	88	1	203	31	11	18	38	1.86
94084321--94084506	39	4.7	39	86	1	246	20	24	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94084319--94084489	79	2.2	79	83	1	227	22	23	25	28	1.99
94084321--94084543	118	1.9	118	84	0	302	20	23	26	29	1.99
94084319--94084552	39	5.9	39	82	2	137	20	22	26	30	1.98
94086813--94086857	18	2.4	19	85	14	58	37	0	2	60	1.09
94089290--94089350	17	3.4	17	65	12	50	31	3	13	52	1.56
94089285--94089390	37	2.9	37	94	0	185	33	4	14	47	1.65
94089327--94089387	17	3.4	17	68	12	50	34	3	11	50	1.55
94089400--94089466	9	7.4	9	87	0	98	25	13	20	40	1.89
94092874--94092945	37	1.9	37	81	15	87	40	16	1	41	1.57
94092948--94092980	3	11.0	3	100	0	66	66	0	0	33	0.92

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   319   320