genome.fa.s5.2.7.7.80.10.50.1000.139.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: Chr05 97880472 
Parameters: 2 7 7 80 10 50 1000
Length:  97880472

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   
          321   322   323   324   325   326   327   328   329   330   331   332   333   334   335   

This is table  139  of  335  ( 40112 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)
40818388--40818438	19	2.7	19	85	8	70	64	1	3	29	1.22
40818404--40818483	28	2.8	28	81	12	92	62	1	5	31	1.24
40818388--40818448	19	3.3	19	78	15	65	63	1	4	29	1.24
40819317--40819353	15	2.3	17	81	13	51	75	0	2	21	0.92
40827403--40827498	47	2.0	47	100	0	192	40	14	6	38	1.71
40828760--40828789	2	15.0	2	92	0	51	46	0	3	50	1.18
40831369--40831478	26	4.2	26	94	2	186	35	5	22	36	1.78
40833250--40833534	137	2.1	136	96	1	527	24	18	24	31	1.98
40837300--40837406	51	2.1	50	94	5	189	35	4	23	36	1.76
40837300--40837406	25	4.2	25	96	3	189	35	4	23	36	1.76
40838892--40838940	25	2.0	25	84	8	64	38	20	16	24	1.92
40839188--40839473	136	2.1	136	96	1	529	24	18	25	31	1.98
40839614--40839640	7	3.9	7	100	0	54	29	0	25	44	1.54
40841486--40841657	22	7.4	25	71	10	125	20	23	18	38	1.93
40841486--40841657	47	3.7	47	89	2	269	20	23	18	38	1.93
40844259--40844362	48	2.1	50	91	7	169	32	4	24	38	1.76
40844259--40844362	25	4.2	25	87	7	160	32	4	24	38	1.76
40846138--40846422	137	2.1	135	97	1	534	24	18	25	31	1.98
40850188--40850295	51	2.1	51	93	6	184	36	4	23	36	1.76
40850188--40850295	25	4.2	25	95	4	182	36	4	23	36	1.76
40852074--40852360	137	2.1	136	96	0	529	24	19	25	31	1.98
40852494--40852526	7	4.7	7	100	0	66	27	0	27	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40854381--40854552	22	7.4	25	71	10	125	20	23	18	38	1.93
40854381--40854552	47	3.7	47	89	2	269	20	23	18	38	1.93
40857086--40857112	13	2.1	13	100	0	54	74	0	25	0	0.83
40862117--40862206	3	29.7	3	97	2	171	33	1	0	65	1.00
40863361--40863455	40	2.5	38	79	8	104	15	22	29	32	1.95
40869771--40869829	3	19.7	3	100	0	118	32	0	0	67	0.91
40870965--40871052	40	2.3	37	82	9	106	15	23	29	30	1.96
40876255--40876339	25	3.4	25	80	7	102	24	20	23	31	1.98
40880459--40880503	17	2.6	17	89	0	72	40	20	15	24	1.91
40881882--40881944	26	2.4	26	84	5	74	57	3	6	33	1.40
40882310--40882334	2	12.5	2	100	0	50	52	0	0	48	1.00
40883593--40883631	13	3.1	13	85	3	53	76	0	10	12	1.01
40884352--40884498	44	3.4	43	79	4	154	29	23	17	29	1.97
40898647--40898756	26	4.2	26	92	0	184	36	24	5	33	1.79
40898647--40898756	52	2.1	52	100	0	220	36	24	5	33	1.79
40899367--40899580	106	2.0	106	97	0	401	52	5	8	33	1.55
40903976--40904070	47	2.0	47	100	0	190	33	12	12	41	1.81
40904038--40904078	17	2.3	18	83	4	57	41	17	12	29	1.85
40904038--40904131	18	5.3	18	70	11	68	36	14	13	35	1.86
40904040--40904163	54	2.3	54	80	1	133	34	15	13	36	1.87
40904061--40904183	36	3.4	36	75	9	108	33	14	14	37	1.87
40904053--40904183	18	7.3	18	74	4	95	33	14	14	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40915969--40916057	39	2.3	39	86	2	115	34	33	17	13	1.89
40918446--40918500	27	2.0	27	100	0	110	60	3	3	32	1.32
40918437--40918509	9	7.8	9	75	16	60	58	4	2	34	1.31
40921271--40921372	29	3.5	29	91	0	159	26	29	15	28	1.96
40921242--40921372	58	2.3	58	85	5	167	25	31	16	26	1.96
40929015--40929116	29	3.5	29	91	0	159	26	29	15	28	1.96
40928986--40929116	58	2.3	58	85	5	167	25	31	16	26	1.96
40931388--40931418	2	16.0	2	93	6	55	48	0	0	51	1.00
40931600--40931634	16	2.2	16	89	0	52	57	14	0	28	1.38
40932802--40932835	2	17.0	2	100	0	68	50	0	0	50	1.00
40934175--40934204	15	2.0	15	100	0	60	40	0	0	60	0.97
40934177--40934236	19	2.9	19	80	20	68	38	0	0	61	0.96
40937079--40937119	9	4.4	9	84	3	55	24	2	2	70	1.11
40937157--40937181	2	12.5	2	100	0	50	48	0	0	52	1.00
40937306--40937357	19	2.5	20	81	15	61	30	0	7	61	1.24
40937799--40937837	3	13.0	3	100	0	78	33	0	0	66	0.92
40940767--40940843	35	2.2	34	82	11	86	19	18	29	32	1.95
40948149--40948194	20	2.2	22	84	7	60	28	43	0	28	1.55
40953755--40953787	3	11.0	3	93	0	57	69	0	0	30	0.88
40954311--40954356	15	2.6	17	77	22	51	67	2	2	28	1.14
40954393--40954464	25	2.9	25	81	8	83	55	5	8	30	1.52
40954782--40954808	11	2.5	11	100	0	54	25	7	0	66	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40955257--40955349	27	3.4	27	71	11	73	63	6	4	25	1.37
40962955--40963043	42	2.1	42	91	0	142	25	5	14	53	1.62
40964150--40964197	11	4.4	11	75	0	51	62	8	12	16	1.53
40964164--40964207	22	2.0	22	81	0	52	65	13	9	11	1.46
40965654--40965947	49	5.9	49	82	3	338	26	18	26	28	1.98
40970381--40970417	19	1.9	19	94	0	65	67	18	0	13	1.23
40970653--40970704	20	2.7	20	85	5	63	32	0	5	61	1.20
40970660--40970704	18	2.3	20	85	7	58	37	0	4	57	1.19
40970964--40970990	14	1.9	14	100	0	54	55	0	14	29	1.40
40977210--40977236	1	27.0	1	100	0	54	0	0	0	100	0.00
40977273--40977395	61	2.0	61	98	0	237	39	17	9	32	1.83
40977537--40977584	24	2.0	24	100	0	96	41	16	20	20	1.90
40979478--40979539	27	2.2	30	82	8	76	45	14	1	38	1.55
40983045--40983084	20	2.0	20	100	0	80	25	15	15	45	1.84
40985632--40985676	19	2.5	19	85	7	58	64	11	11	13	1.50
40988506--40988534	14	2.0	15	93	6	51	31	0	0	68	0.89
40990547--40990597	21	2.4	21	80	9	59	37	21	0	41	1.54
40990758--40990876	52	2.2	54	88	4	170	27	3	5	63	1.31
40991807--40991831	7	3.6	7	100	0	50	28	0	12	60	1.32
40992725--40992770	21	2.2	21	92	7	76	34	50	15	0	1.44
40992904--40992968	33	2.0	31	82	14	78	36	1	3	58	1.23
40996446--40996500	24	2.3	24	93	0	92	36	27	9	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40996574--40996608	17	2.0	18	88	5	54	42	14	5	37	1.69
40996863--40996887	9	2.8	9	100	0	50	48	12	0	40	1.40
40998657--40998704	25	2.0	24	84	12	62	41	12	16	29	1.85
40998957--40998985	15	1.9	15	100	0	58	6	27	0	65	1.18
41001404--41001458	24	2.3	24	93	0	92	34	25	10	29	1.90
41001532--41001566	17	2.0	18	88	5	54	42	14	5	37	1.69
41002760--41003082	126	2.6	126	88	0	468	30	15	16	36	1.91
41003200--41003317	22	5.5	22	64	18	77	42	18	0	38	1.57
41003173--41003482	30	10.7	30	69	18	169	42	19	0	37	1.56
41003173--41003479	144	2.1	144	96	0	560	42	19	0	37	1.56
41003408--41003458	22	2.3	22	86	0	75	41	21	0	37	1.54
41003345--41003508	86	1.9	86	93	0	283	43	18	0	36	1.55
41003441--41003507	34	2.0	34	82	5	82	43	19	0	37	1.51
41004243--41004294	19	2.7	19	85	11	70	30	7	1	59	1.36
41009659--41009853	93	2.1	89	80	9	207	46	14	5	33	1.67
41009830--41009858	14	2.0	15	93	6	51	58	13	0	27	1.36
41010434--41010481	20	2.4	21	83	10	66	72	6	0	20	1.05
41013923--41013970	2	24.0	2	91	0	78	45	0	52	2	1.12
41016395--41016430	2	18.0	2	100	0	72	50	0	0	50	1.00
41016537--41016603	14	4.7	14	92	3	107	35	8	19	35	1.83
41016537--41016603	29	2.4	28	94	2	116	35	8	19	35	1.83
41016694--41016746	16	3.6	16	73	19	60	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41018161--41018202	21	2.0	21	86	9	59	52	16	0	30	1.44
41018171--41018236	25	3.0	21	75	16	78	54	15	1	28	1.50
41018210--41018270	32	1.9	32	86	0	86	57	16	1	24	1.48
41022559--41022601	10	4.0	10	77	16	50	60	9	0	30	1.28
41022552--41022608	23	2.5	23	97	0	105	59	7	0	33	1.24
41023302--41023367	20	3.3	20	73	12	64	43	0	6	50	1.27
41028936--41029644	354	2.0	355	93	0	1213	20	24	15	39	1.91
41032500--41032540	3	13.7	3	100	0	82	68	31	0	0	0.90
41033733--41033779	21	2.2	21	77	7	51	4	0	38	57	1.18
41035423--41035559	40	3.4	39	76	10	134	19	17	21	40	1.91

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   
          321   322   323   324   325   326   327   328   329   330   331   332   333   334   335