genome.fa.s2.2.7.7.80.10.50.1000.19.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: Gbar_A02
Parameters: 2 7 7 80 10 50 1000
Length:  100057689

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   

This is table  19  of  295  ( 35319 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)
5372200--5372325	39	3.2	39	89	0	189	27	28	20	23	1.99
5376331--5376372	22	1.9	22	90	0	66	66	2	7	23	1.28
5377252--5377303	21	2.6	20	76	17	54	76	0	7	15	0.99
5377251--5377300	18	2.9	17	85	8	57	76	0	10	14	1.03
5378412--5378468	29	2.0	27	83	6	69	64	3	5	26	1.30
5378436--5378492	22	2.5	23	83	10	73	63	5	3	28	1.33
5378554--5378633	27	3.0	27	85	5	101	63	7	0	28	1.21
5378869--5378949	26	3.0	26	69	13	74	62	6	3	27	1.36
5379828--5379870	18	2.4	18	84	7	61	79	6	9	4	1.06
5381201--5381308	26	4.2	26	91	0	180	33	7	23	36	1.83
5388255--5388362	26	4.2	26	91	0	180	33	7	23	36	1.83
5390837--5390889	22	2.5	22	81	9	65	58	5	1	33	1.32
5391669--5391719	23	2.6	18	73	26	57	3	1	23	70	1.14
5391672--5391716	23	2.0	23	100	0	90	4	2	22	71	1.15
5392587--5395308	72	35.7	72	75	13	1262	32	19	17	30	1.95
5393817--5393851	14	2.5	14	90	0	52	57	5	20	17	1.60
5393757--5393926	91	1.9	90	87	1	250	33	18	20	27	1.96
5393513--5395308	165	11.4	161	76	14	1365	31	20	18	29	1.96
5392582--5395308	242	11.9	232	79	11	2245	32	19	17	30	1.95
5394147--5394333	91	2.1	90	82	5	225	34	19	20	25	1.96
5394389--5394560	93	1.8	93	85	4	240	32	18	21	27	1.96
5394492--5395308	147	5.5	146	86	3	1118	30	20	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5394482--5395308	222	3.7	219	87	3	1147	31	20	17	30	1.96
5403200--5403235	12	3.0	12	87	0	54	41	5	27	25	1.77
5403196--5403227	16	1.9	17	93	6	57	40	6	28	25	1.79
5405886--5405941	17	3.5	17	68	26	59	3	3	21	71	1.17
5405888--5405941	30	1.9	27	85	14	74	3	3	18	74	1.12
5409180--5409234	27	2.1	25	86	6	74	58	5	9	27	1.51
5409408--5409470	27	2.3	27	78	15	74	60	3	3	33	1.28
5411467--5411530	17	3.5	18	81	10	67	32	0	0	67	0.91
5411470--5411530	18	3.5	18	80	14	65	32	0	0	67	0.91
5413189--5413216	6	4.7	6	100	0	56	14	50	0	35	1.43
5419829--5419899	36	1.9	37	91	2	117	42	11	15	30	1.82
5420376--5420991	308	2.0	305	97	0	1160	37	15	21	25	1.93
5421601--5421908	105	3.1	97	80	10	241	25	10	44	19	1.81
5421617--5421932	103	3.0	103	87	2	463	25	10	44	20	1.82
5422104--5422156	25	2.1	25	92	0	88	39	3	15	41	1.65
5422081--5422248	83	2.0	83	96	0	309	34	7	24	33	1.84
5422187--5422239	25	2.1	25	92	0	88	39	7	15	37	1.75
5427827--5427873	23	2.0	23	95	0	85	40	4	14	40	1.66
5427980--5428007	2	14.0	2	100	0	56	50	0	0	50	1.00
5429093--5429123	2	15.0	2	93	6	53	48	0	3	48	1.17
5437289--5437331	10	4.4	10	76	5	52	67	2	0	30	1.03
5439349--5439400	25	2.0	26	85	10	72	53	3	13	28	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5444288--5444509	40	5.6	40	93	1	374	27	21	28	22	1.99
5444288--5444513	79	2.8	80	93	1	382	26	21	28	23	1.99
5444288--5444536	119	2.1	119	90	1	383	26	20	28	24	1.99
5452689--5452910	40	5.6	40	93	1	374	27	21	28	22	1.99
5452689--5452914	79	2.8	80	93	1	382	26	21	28	23	1.99
5452689--5452937	119	2.1	119	90	1	383	26	20	28	24	1.99
5456818--5456842	9	2.8	9	100	0	50	52	0	0	48	1.00
5459694--5459748	3	18.3	3	100	0	110	32	0	0	67	0.91
5462069--5462094	6	4.3	6	100	0	52	0	0	15	84	0.62
5464792--5464825	8	4.2	8	85	14	52	76	0	0	23	0.79
5464786--5464827	16	2.8	15	85	7	59	73	0	0	26	0.83
5474346--5474390	22	2.0	24	82	8	58	31	4	2	62	1.27
5483994--5484022	15	1.9	15	100	0	58	72	20	6	0	1.07
5485103--5485304	53	3.8	54	80	7	193	36	15	25	22	1.93
5488910--5488956	24	2.0	24	100	0	94	40	25	17	17	1.90
5491217--5491271	20	2.8	20	78	10	67	61	1	1	34	1.17
5491294--5491331	20	1.9	20	88	0	58	57	0	5	36	1.21
5493734--5493788	12	4.7	11	78	10	56	69	0	10	20	1.18
5494022--5494118	3	32.0	3	73	6	70	58	6	4	30	1.41
5494032--5494086	20	2.8	20	88	0	74	60	5	1	32	1.30
5495331--5495407	18	4.3	18	91	5	120	36	11	14	37	1.82
5495331--5495420	35	2.5	36	89	7	137	38	11	13	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5495906--5495964	16	3.5	16	74	23	50	35	1	0	62	1.05
5495899--5495973	30	2.6	29	76	17	75	36	1	0	62	1.04
5503617--5503694	6	13.7	6	74	18	51	76	0	21	1	0.85
5503634--5503688	21	2.5	22	85	5	85	78	0	20	1	0.85
5503612--5503715	27	3.8	27	82	6	111	79	0	17	2	0.85
5503618--5503695	21	3.9	21	70	21	60	76	0	21	1	0.85
5503612--5503715	13	7.8	13	73	13	77	79	0	17	2	0.85
5503630--5503715	34	2.5	35	83	9	113	80	0	16	3	0.85
5504784--5505440	119	5.5	119	94	0	1136	31	16	20	31	1.95
5506089--5506195	19	5.8	19	91	6	166	38	11	14	36	1.81
5506107--5506181	17	4.5	15	72	27	62	38	10	14	36	1.81
5506679--5506738	17	3.5	17	74	21	63	33	1	0	65	1.03
5506680--5506738	16	3.5	16	76	23	59	33	1	0	64	1.04
5511113--5511230	26	4.5	26	85	0	146	28	5	5	60	1.42
5511144--5511212	14	5.2	13	69	13	52	24	1	8	65	1.30
5511229--5511267	18	2.2	18	86	4	53	33	15	20	30	1.94
5519415--5519498	40	2.1	40	88	4	125	26	16	23	33	1.96
5519530--5519588	28	2.1	28	83	0	73	33	10	28	27	1.89
5519543--5519608	28	2.4	28	84	0	87	36	7	25	30	1.84
5521468--5521522	27	2.0	28	82	10	69	32	0	23	43	1.54
5529469--5529527	30	2.0	30	93	0	100	32	32	18	16	1.94
5529717--5529803	33	2.6	33	88	0	120	32	13	19	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5529717--5529814	33	3.0	33	86	0	106	32	16	19	31	1.94
5529892--5529949	22	2.6	22	88	0	89	32	22	15	29	1.95
5530559--5530641	41	2.0	41	100	0	166	36	7	18	38	1.78
5535258--5535315	30	1.9	31	85	3	82	37	3	6	51	1.46
5537281--5537339	21	2.8	21	78	2	64	20	6	5	67	1.33
5537361--5537549	9	20.6	9	65	13	64	31	4	2	60	1.31
5539812--5540193	27	14.1	27	88	1	541	27	22	10	40	1.86
5540126--5540219	27	2.9	35	67	22	87	28	21	9	40	1.84
5540126--5540247	62	2.0	62	81	0	145	30	21	9	38	1.86
5540212--5540474	27	9.8	27	80	7	198	39	21	11	27	1.87
5540212--5540473	54	4.9	54	79	7	221	39	21	11	27	1.88
5540212--5540419	81	2.6	80	82	9	228	40	22	9	27	1.85
5540409--5540677	27	10.0	27	85	3	353	35	18	19	26	1.95
5540923--5540974	27	2.0	26	84	3	68	17	26	21	34	1.95
5541193--5541280	6	14.3	6	73	17	74	17	17	13	52	1.75
5541193--5541260	25	2.7	25	90	0	109	16	19	13	51	1.76
5543417--5543815	27	14.9	27	88	3	484	28	20	8	42	1.81
5543807--5544015	81	2.6	81	82	8	239	40	22	9	28	1.84
5543807--5544015	27	7.8	26	85	5	217	40	22	9	28	1.84
5544004--5544272	27	10.0	27	83	1	297	34	16	21	26	1.95
5544004--5544269	54	4.9	54	85	1	329	34	16	22	26	1.95
5544608--5544667	27	2.3	26	85	2	75	21	23	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5544786--5544864	6	12.8	6	74	15	72	17	18	11	51	1.75
5544786--5544853	25	2.7	25	88	0	109	17	20	11	50	1.77
5545529--5545570	4	11.0	4	89	5	61	73	2	0	23	0.94
5545606--5545737	3	45.0	3	72	11	78	62	3	6	28	1.34
5545611--5545732	31	3.9	31	70	9	86	62	3	6	27	1.36
5545694--5545752	17	3.4	18	79	9	61	62	1	6	28	1.30
5545807--5545854	19	2.5	19	83	12	55	70	2	4	22	1.15
5545884--5546033	3	49.0	3	65	16	58	58	0	10	31	1.36
5545885--5545948	24	2.9	21	84	11	92	67	1	4	26	1.19
5545931--5545989	26	2.2	27	82	8	68	54	0	11	33	1.37

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