genome.fa.s9.2.7.7.80.10.50.1000.187.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: Chr09 85040211 
Parameters: 2 7 7 80 10 50 1000
Length:  85040211

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   

This is table  187  of  292  ( 35004 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)
55775217--55775272	25	2.3	25	87	3	78	30	5	5	58	1.42
55775288--55775321	2	17.0	2	93	0	59	50	2	0	47	1.16
55789227--55789273	24	2.0	22	84	8	58	74	0	17	8	1.05
55790561--55790691	29	4.5	29	78	5	122	25	17	32	25	1.97
55812247--55812290	22	2.0	22	100	0	88	31	27	9	31	1.88
55813171--55813217	14	3.4	14	82	5	51	59	8	6	25	1.50
55814537--55814567	2	15.5	2	100	0	62	51	0	0	48	1.00
55818397--55818438	20	2.2	19	87	12	59	38	0	4	57	1.20
55818534--55818582	23	2.1	23	84	0	62	38	6	6	48	1.53
55818739--55818777	3	13.0	3	100	0	78	33	0	0	66	0.92
55818782--55818833	13	3.9	13	80	9	52	75	3	7	13	1.17
55825874--55825947	34	2.2	34	92	0	121	50	13	18	17	1.79
55826002--55826043	20	2.2	19	87	12	59	38	0	4	57	1.20
55826002--55826120	3	40.7	3	73	11	95	35	0	5	58	1.26
55826406--55826452	13	3.5	14	80	5	53	76	2	8	12	1.09
55827096--55827136	16	2.6	16	100	0	82	31	0	12	56	1.36
55827233--55827314	40	2.0	40	86	4	112	35	8	14	41	1.77
55827787--55827812	2	13.0	2	100	0	52	50	0	0	50	1.00
55829049--55829089	21	2.0	20	85	4	55	63	4	12	19	1.46
55831331--55831378	5	9.0	5	82	13	60	20	0	2	77	0.88
55831329--55831384	28	2.0	29	92	3	96	25	0	1	73	0.93
55831329--55831379	18	2.7	19	82	14	61	23	0	1	74	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55838272--55838376	27	3.9	26	78	9	104	37	20	10	31	1.87
55838271--55838376	54	2.0	53	83	9	135	36	20	10	32	1.87
55838266--55838388	54	2.3	53	78	10	133	36	21	10	31	1.87
55838365--55838681	27	11.8	27	81	6	351	27	23	7	41	1.81
55838365--55838680	81	3.9	80	93	2	508	27	23	7	41	1.81
55838660--55838823	27	6.1	27	74	13	108	42	17	8	31	1.80
55838696--55838748	26	2.1	24	83	13	63	43	15	7	33	1.74
55838780--55838831	27	1.9	27	88	7	79	40	11	11	36	1.78
55838885--55838949	27	2.4	27	84	5	87	35	20	24	20	1.96
55839993--55840040	25	1.9	25	91	0	78	35	25	14	25	1.94
55840077--55840142	20	3.3	20	93	0	114	36	15	19	28	1.92
55840088--55840142	11	5.4	11	79	16	73	36	16	20	27	1.93
55840078--55840137	9	6.2	9	78	14	66	35	15	20	30	1.93
55840194--55840359	23	7.1	23	88	2	251	28	22	20	27	1.99
55840194--55840361	47	3.6	47	91	0	266	29	22	20	27	1.99
55840192--55840359	70	2.4	70	90	2	257	29	23	20	27	1.99
55840501--55840592	42	2.2	42	86	3	123	27	10	21	40	1.87
55843090--55843184	47	2.0	47	93	0	163	34	13	12	38	1.83
55843537--55843564	6	4.7	6	100	0	56	85	0	14	0	0.59
55846056--55846096	4	10.2	4	94	0	73	73	2	0	24	0.96
55846245--55846270	8	3.2	8	100	0	52	88	0	0	11	0.52
55846865--55846893	12	2.3	13	94	5	51	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55852322--55852396	20	3.8	20	89	6	102	37	8	18	36	1.80
55852329--55852381	11	5.2	11	76	15	60	35	7	18	37	1.80
55852446--55852544	26	3.8	26	93	2	146	27	20	23	29	1.99
55852446--55852544	53	1.9	51	87	4	144	27	20	23	29	1.99
55855284--55855470	71	2.7	68	93	5	281	18	28	18	34	1.95
55855307--55855470	71	2.3	71	100	0	328	18	28	17	35	1.94
55855307--55855504	71	2.8	70	92	3	276	20	28	17	33	1.95
55862848--55863034	71	2.7	68	93	5	281	18	28	18	34	1.95
55862871--55863034	71	2.3	71	100	0	328	18	28	17	35	1.94
55862871--55863068	71	2.8	70	91	3	258	20	28	17	34	1.95
55870396--55870582	71	2.7	66	85	11	250	19	27	18	34	1.95
55870419--55870582	71	2.3	71	98	0	319	19	27	17	35	1.94
55870419--55870616	71	2.8	70	91	3	267	20	27	17	33	1.95
55878233--55878307	20	3.8	20	87	6	102	37	10	18	33	1.86
55904385--55904414	14	2.1	14	100	0	60	36	13	43	6	1.70
55908295--55908332	20	1.9	20	88	0	58	52	10	2	34	1.50
55916240--55916277	20	1.9	20	88	0	58	52	10	2	34	1.50
55921001--55921039	13	3.2	13	85	10	55	64	2	0	33	1.08
55939427--55939564	55	2.5	56	75	5	156	28	33	26	11	1.91
55942662--55942717	29	1.9	29	100	0	112	28	5	28	37	1.79
55967534--55967759	92	2.5	92	82	2	258	31	20	23	24	1.98
55971418--55971447	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55972918--55973169	55	4.8	53	80	6	210	22	24	16	36	1.94
55976363--55976428	23	3.0	21	79	14	62	48	3	1	46	1.26
55976363--55976406	22	2.0	23	86	13	65	50	2	2	45	1.27
55976397--55976436	21	2.0	21	90	9	66	45	2	0	52	1.14
55978219--55978289	18	3.9	18	79	0	88	42	12	5	39	1.67
55979798--55979964	40	4.2	40	82	2	185	24	26	22	26	2.00
55987802--55987969	40	4.2	40	82	1	185	24	26	22	26	2.00
55989833--55989863	16	2.0	15	93	6	53	45	12	0	41	1.42
55991506--55991627	6	19.8	6	68	14	70	47	11	21	19	1.81
55991518--55991605	37	2.4	37	92	0	140	44	11	23	20	1.84
55991549--55991627	31	2.5	31	87	0	113	48	12	18	20	1.81
55991506--55991627	37	3.5	37	76	13	130	47	11	21	19	1.81
55991746--55991805	27	2.3	26	85	2	75	35	20	23	21	1.96
55992941--55993009	28	2.5	28	95	2	122	18	10	27	43	1.82
55994638--55994675	20	1.9	20	88	0	58	52	10	2	34	1.50
56000943--56001004	27	2.3	27	86	10	99	19	9	27	43	1.82
56002631--56002668	20	1.9	20	88	0	58	52	10	2	34	1.50
56002701--56002744	2	22.0	2	100	0	88	50	0	0	50	1.00
56002775--56002826	27	2.0	26	84	3	68	34	21	26	17	1.95
56003357--56003464	27	3.9	27	77	15	96	32	8	17	41	1.79
56003448--56003603	54	2.9	54	83	3	181	28	10	21	38	1.88
56003420--56003603	81	2.3	81	81	5	203	28	10	21	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56003420--56003610	27	7.1	27	79	4	163	28	10	23	38	1.87
56003602--56003772	81	2.1	81	86	5	231	39	6	25	28	1.80
56003602--56003772	27	6.4	27	86	3	195	39	6	25	28	1.80
56005949--56006176	46	5.0	46	98	0	429	33	7	27	31	1.84
56006180--56006290	47	2.4	47	89	0	168	36	9	27	27	1.87
56008848--56009110	40	6.6	40	94	0	429	25	21	28	25	1.99
56009774--56009874	40	2.5	40	82	6	107	26	22	25	24	2.00
56009812--56009908	40	2.5	40	78	8	99	27	24	24	22	2.00
56012577--56012758	46	4.0	46	97	0	337	34	7	27	31	1.84
56012762--56012872	47	2.4	47	89	0	168	36	9	27	27	1.87
56015432--56015694	40	6.6	40	94	0	429	25	21	28	25	1.99
56016356--56016457	40	2.5	40	82	6	109	26	23	25	24	2.00
56016395--56016491	40	2.5	40	78	8	99	27	24	24	22	2.00
56019156--56019337	46	4.0	46	97	0	337	34	7	27	31	1.84
56019341--56019451	47	2.4	47	89	0	168	36	9	27	27	1.87
56022776--56022875	29	3.5	28	83	9	105	30	27	14	29	1.95
56022908--56022994	29	3.0	29	94	0	156	27	25	13	33	1.94
56026792--56026884	39	2.4	39	94	0	159	22	29	22	25	1.99
56030261--56030317	27	2.1	27	100	0	114	24	29	17	28	1.97
56034692--56034780	39	2.3	39	96	0	160	22	29	22	25	1.99
56038491--56038560	36	1.9	37	85	2	97	61	17	1	20	1.42
56043967--56044133	40	4.2	40	79	6	169	26	22	26	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56051981--56052122	40	3.5	40	83	1	124	27	23	26	22	1.99
56052020--56052148	40	3.2	39	84	6	152	24	22	27	25	2.00
56056140--56056328	96	2.0	95	89	3	290	40	16	32	10	1.83
56068018--56068098	42	1.9	42	84	2	108	28	28	14	28	1.96
56067989--56068107	43	2.8	42	75	9	116	29	26	15	29	1.96
56070072--56070150	6	12.8	6	72	15	63	51	12	15	20	1.75
56070071--56070150	31	2.6	31	93	0	133	51	12	15	21	1.75
56070080--56070147	25	2.7	27	80	11	81	50	13	16	20	1.78
56070553--56070962	27	15.3	27	86	0	554	23	22	19	33	1.97
56070974--56071401	27	15.8	26	79	9	200	32	7	23	36	1.82

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