genome.fa.s4.2.7.7.80.10.50.1000.127.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_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   

This is table  127  of  253  ( 30316 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)
40398508--40398543	13	2.8	13	91	8	56	44	5	16	33	1.71
40403650--40403720	24	3.0	24	95	0	124	30	4	42	22	1.73
40405153--40405263	27	4.2	26	85	5	141	16	23	22	37	1.93
40411540--40411592	24	2.2	24	89	0	88	35	3	39	20	1.71
40413023--40413133	27	4.2	26	88	5	150	16	24	23	36	1.94
40413023--40413133	54	2.1	53	89	1	168	16	24	23	36	1.94
40422960--40422988	14	2.0	15	93	6	51	24	0	6	68	1.13
40427468--40427514	19	2.3	20	82	10	60	36	0	14	48	1.44
40427868--40428257	50	7.7	50	77	4	345	25	17	25	31	1.97
40427905--40428147	101	2.4	102	84	4	307	25	17	26	30	1.97
40427912--40428257	150	2.3	151	87	2	480	25	18	25	30	1.98
40428068--40428256	101	1.9	100	93	1	324	26	19	24	29	1.98
40428819--40429144	180	1.8	179	87	2	492	39	9	17	33	1.82
40440825--40441031	27	7.7	27	84	0	243	29	14	18	37	1.90
40441035--40441123	27	3.3	27	89	6	135	43	21	16	17	1.88
40441025--40441139	54	2.1	54	85	7	155	43	17	20	19	1.88
40442722--40442785	30	2.1	30	85	0	83	31	23	9	35	1.87
40448159--40448246	27	3.3	26	87	4	122	36	21	22	19	1.95
40449420--40449493	37	2.0	37	100	0	148	45	21	13	18	1.84
40452668--40452731	22	3.0	21	84	10	87	35	20	20	23	1.96
40453281--40453348	27	2.4	27	80	11	66	27	17	1	52	1.53
40454940--40454992	25	2.1	25	96	0	97	28	28	7	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40456746--40456843	42	2.3	43	81	10	121	33	25	16	24	1.96
40463182--40463281	22	4.5	23	75	15	86	38	19	20	23	1.94
40467581--40467668	27	3.3	27	83	4	124	35	19	20	25	1.96
40467669--40467719	27	1.9	26	88	4	75	21	19	21	37	1.95
40468313--40468364	27	2.0	26	84	3	68	17	26	21	34	1.95
40468395--40468428	2	17.0	2	100	0	68	50	0	0	50	1.00
40471057--40471163	40	2.7	40	84	5	119	25	27	21	26	1.99
40471099--40471227	40	3.3	38	81	10	154	28	27	19	24	1.98
40471063--40471280	79	2.8	77	76	11	201	27	27	20	25	1.99
40478997--40479176	80	2.3	80	83	10	210	27	27	20	23	1.99
40478994--40479176	40	4.6	40	81	8	187	28	27	20	24	1.99
40482490--40482667	27	6.6	27	82	3	196	27	15	27	29	1.96
40482491--40482646	82	1.9	81	86	3	224	27	15	27	29	1.96
40482487--40482667	82	2.2	81	82	2	220	27	15	27	29	1.96
40488797--40488884	27	3.3	26	80	7	97	40	18	9	31	1.81
40488820--40488908	27	3.3	27	79	3	81	38	17	13	30	1.89
40491833--40491876	21	2.1	21	87	4	63	36	20	18	25	1.95
40493312--40493345	16	2.1	17	88	5	52	14	0	14	70	1.17
40503015--40503383	40	9.3	40	81	3	370	23	28	17	30	1.97
40503015--40503390	80	4.7	79	83	2	414	23	28	18	30	1.97
40503017--40503383	119	3.1	120	84	2	443	23	28	17	30	1.97
40503081--40503383	159	1.9	159	85	4	414	22	29	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40510224--40510280	23	2.4	23	82	2	69	36	15	21	26	1.93
40510653--40510914	40	6.6	40	88	1	348	26	23	26	24	2.00
40518770--40519031	40	6.6	40	93	1	384	25	22	28	23	1.99
40522002--40522091	45	2.0	45	100	0	180	26	17	24	31	1.97
40523078--40523129	27	2.0	26	84	3	68	17	26	21	34	1.95
40524625--40524651	11	2.5	11	100	0	54	37	7	18	37	1.79
40525501--40525538	19	2.0	19	85	10	51	18	0	36	44	1.50
40531096--40531138	20	2.1	21	87	8	63	32	16	27	23	1.96
40535694--40535755	27	2.2	28	85	8	90	29	17	12	40	1.87
40538600--40538663	29	2.3	29	83	5	87	29	15	28	26	1.96
40538600--40538659	27	2.1	27	84	6	75	28	16	28	26	1.97
40542282--40542379	48	2.0	48	94	0	169	33	6	29	30	1.82
40542524--40542659	37	3.7	37	96	0	245	24	18	32	25	1.97
40546501--40546572	27	2.7	27	78	8	83	41	11	19	27	1.85
40546533--40546720	81	2.3	81	84	3	236	38	15	16	28	1.90
40546531--40546716	27	6.9	27	85	0	201	38	15	16	29	1.89
40546833--40546866	17	1.9	17	88	5	50	14	44	29	11	1.81
40551329--40551383	27	2.0	27	82	6	67	21	29	21	27	1.99
40557043--40557164	47	2.6	47	93	0	199	36	14	22	25	1.93
40557151--40557339	55	3.5	54	80	6	204	35	17	23	22	1.95
40557137--40557339	54	3.8	53	79	4	183	37	16	23	22	1.94
40562259--40562474	40	5.4	40	91	2	321	25	28	22	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40564614--40564671	30	2.0	30	86	3	82	48	8	8	34	1.65
40573281--40573318	18	2.1	18	100	0	76	26	5	15	52	1.64
40573708--40573871	40	4.1	40	84	3	222	23	23	28	25	1.99
40576759--40576824	27	2.5	26	85	9	82	28	27	15	28	1.96
40579582--40579651	27	2.7	26	86	8	90	28	27	14	30	1.95
40588896--40589184	102	3.0	96	82	6	332	26	18	29	25	1.98
40588909--40589184	48	5.6	48	73	13	215	27	19	29	24	1.98
40592905--40592965	30	2.0	30	87	0	86	29	22	8	39	1.83
40594507--40594549	18	2.4	18	96	0	77	34	18	11	34	1.87
40597189--40597322	43	3.1	43	84	3	180	26	15	23	33	1.95
40599188--40599253	33	2.0	34	90	3	107	28	18	21	31	1.96
40601482--40601659	27	6.6	27	83	3	196	26	14	29	29	1.95
40601482--40601659	54	3.3	55	84	4	236	26	14	29	29	1.95
40601483--40601638	81	1.9	82	88	3	235	26	14	29	29	1.95
40609743--40609920	27	6.6	27	83	3	196	26	14	29	29	1.95
40609743--40609920	54	3.3	55	84	4	236	26	14	29	29	1.95
40611369--40611453	39	2.2	39	80	16	97	27	23	23	25	2.00
40614382--40614565	40	4.6	40	82	6	196	23	20	27	28	1.99
40614382--40614562	80	2.3	81	83	9	221	23	20	27	27	1.99
40614463--40614612	40	3.8	38	80	10	131	25	22	28	24	1.99
40614503--40614625	40	3.1	39	80	6	97	26	21	28	23	1.99
40622283--40622466	40	4.6	40	82	6	196	23	20	27	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40622283--40622463	80	2.3	81	83	9	221	23	20	27	27	1.99
40622364--40622513	40	3.8	38	80	10	131	25	22	28	24	1.99
40622404--40622526	40	3.1	39	80	6	97	26	21	28	23	1.99
40633639--40633782	55	2.6	55	78	0	162	14	29	29	26	1.95
40641355--40641383	15	1.9	15	100	0	58	55	10	6	27	1.59
40642605--40642688	27	3.1	26	79	6	87	29	10	23	35	1.89
40645496--40645530	16	2.1	18	89	10	56	45	17	11	25	1.81
40646093--40646212	43	2.8	43	84	1	161	22	28	20	29	1.98
40651820--40651875	20	2.6	22	88	8	89	30	19	21	28	1.98
40652231--40652319	27	3.3	27	80	13	94	33	13	15	37	1.87
40652255--40652349	27	3.5	27	75	11	79	33	11	17	36	1.86
40659788--40659890	27	3.9	26	75	6	82	29	10	20	39	1.86
40669705--40669756	26	2.0	26	92	0	86	28	34	21	15	1.94
40669717--40669867	72	2.1	71	91	2	241	30	29	16	23	1.96
40669984--40670034	26	2.0	26	96	0	93	29	35	23	11	1.90
40669786--40670112	104	3.2	104	96	1	577	31	31	19	18	1.96
40670441--40670504	30	2.2	29	81	10	76	29	28	6	35	1.82
40670448--40670504	30	1.9	30	85	3	80	29	24	7	38	1.82
40673845--40674029	40	4.7	40	80	6	198	25	26	22	24	2.00
40673845--40674029	79	2.3	81	80	9	211	25	26	22	24	2.00
40681820--40681924	39	2.7	39	83	8	124	30	25	20	23	1.98
40686668--40686844	27	6.6	27	84	2	176	29	28	14	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40686668--40686844	54	3.3	54	85	2	230	29	28	14	27	1.95
40686689--40686843	81	1.9	81	89	2	240	29	28	14	27	1.95
40694586--40694763	27	6.6	27	85	3	133	29	28	14	26	1.95
40694586--40694762	54	3.3	54	83	5	214	29	28	14	26	1.95
40694607--40694762	81	1.9	82	88	3	235	29	28	14	26	1.95
40697011--40697095	27	3.2	26	85	6	116	42	16	9	31	1.80
40697021--40697276	27	9.5	26	75	9	138	39	20	10	30	1.85
40697024--40697237	54	4.0	54	83	4	218	39	21	9	28	1.85
40697077--40697261	81	2.3	81	81	7	198	38	22	9	29	1.86
40697078--40697237	54	3.0	54	87	1	232	39	23	9	28	1.85

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