genome.fa.s4.2.7.7.80.10.50.1000.176.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  176  of  255  ( 30512 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)
58055487--58055538	27	2.0	26	84	3	68	34	21	26	17	1.95
58055772--58056018	27	9.2	27	86	1	300	42	7	21	28	1.79
58055783--58056018	106	2.2	108	86	3	332	42	7	20	29	1.80
58059183--58059226	22	2.0	22	86	0	61	43	0	2	54	1.12
58072358--58072412	29	1.9	29	85	3	76	32	21	21	23	1.98
58072504--58072561	29	2.0	29	96	0	107	24	22	20	32	1.98
58073815--58073887	36	2.0	36	100	0	146	24	10	8	56	1.61
58090724--58090838	27	4.3	26	83	5	104	37	20	22	19	1.94
58090764--58090835	28	2.6	28	88	2	101	34	22	22	20	1.97
58090724--58090838	54	2.1	53	82	3	131	37	20	22	19	1.94
58096984--58097103	56	2.1	56	98	0	231	45	9	23	22	1.81
58098552--58099199	47	13.6	47	90	4	887	33	8	29	28	1.87
58098552--58099199	145	4.5	143	89	6	890	33	8	29	28	1.87
58104567--58104670	43	2.4	43	81	7	131	32	27	16	23	1.96
58109953--58110073	47	2.6	48	77	5	131	20	16	29	33	1.95
58111265--58111373	27	4.0	26	89	4	137	34	21	23	20	1.96
58111647--58111769	47	2.6	47	82	0	129	26	13	25	34	1.93
58114019--58114057	19	2.1	19	85	0	51	71	7	5	15	1.26
58114521--58114610	27	3.2	27	85	7	119	32	23	24	20	1.98
58114716--58114780	28	2.3	28	91	0	103	32	7	27	32	1.85
58115847--58115879	12	2.6	13	85	9	50	45	0	45	9	1.35
58118271--58118384	40	2.8	40	87	0	165	22	17	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58142946--58143006	28	2.1	29	96	3	115	22	21	27	27	1.99
58154687--58154716	12	2.5	12	100	0	60	6	26	40	26	1.81
58158253--58158300	7	6.7	7	92	2	78	45	2	0	52	1.12
58158261--58158303	21	2.0	21	100	0	86	44	4	0	51	1.22
58161147--58161273	42	3.0	43	83	5	150	33	24	15	25	1.95
58164410--58164521	42	2.6	44	83	7	131	37	26	14	21	1.92
58165252--58165316	32	2.0	32	96	0	121	55	15	10	18	1.68
58165259--58165312	18	3.2	18	75	20	71	57	14	9	18	1.64
58167988--58168052	22	3.0	22	78	13	71	32	20	26	21	1.97
58168199--58168316	41	2.9	41	88	2	166	28	28	19	22	1.98
58168576--58168871	27	10.9	26	76	9	173	31	10	16	41	1.82
58168581--58168792	81	2.6	82	79	5	223	31	8	16	42	1.79
58168581--58168864	81	3.5	81	77	5	198	30	9	17	42	1.81
58168574--58168864	54	5.4	54	76	6	257	31	10	16	41	1.82
58168853--58168982	27	5.1	27	73	16	116	30	21	16	32	1.95
58168857--58168948	46	2.0	46	100	0	184	28	19	15	36	1.92
58171959--58172079	41	3.0	41	87	0	179	28	28	22	20	1.99
58172317--58172633	27	11.7	27	83	2	305	30	9	19	40	1.83
58172317--58172633	81	3.9	81	81	2	339	30	9	19	40	1.83
58172616--58172698	27	3.1	27	82	6	96	30	20	16	32	1.95
58174929--58175085	43	3.7	43	76	10	169	23	19	27	29	1.98
58178480--58178573	47	2.0	47	100	0	188	25	17	25	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58184780--58184866	41	2.1	42	87	6	124	33	29	13	22	1.93
58187490--58187592	46	2.2	47	82	6	129	23	23	15	37	1.93
58192547--58192666	48	2.5	48	78	5	111	35	15	20	28	1.94
58196124--58196218	30	3.2	31	73	5	97	27	29	15	27	1.96
58204716--58205039	96	3.4	96	82	3	323	27	20	29	22	1.99
58204706--58205036	143	2.3	143	84	3	405	27	19	29	23	1.99
58204807--58205039	96	2.4	95	87	2	324	28	20	28	22	1.99
58204716--58205038	48	6.8	48	78	2	274	27	20	29	22	1.99
58208307--58208422	57	2.0	57	91	0	187	34	12	12	40	1.81
58210691--58210852	50	3.2	50	94	0	288	41	22	11	24	1.87
58217646--58217790	50	2.9	50	87	0	218	44	18	11	25	1.84
58224248--58224285	18	2.1	18	90	9	60	65	0	0	34	0.93
58225220--58225298	31	2.6	29	82	8	77	43	5	6	45	1.51
58225476--58225545	29	2.3	29	85	9	88	41	15	8	34	1.78
58226060--58226107	25	1.9	25	83	8	62	6	12	2	79	1.01
58233144--58233178	14	2.5	14	100	0	70	37	34	11	17	1.85
58241140--58241190	27	2.0	26	84	7	68	50	1	5	41	1.37
58241892--58241941	20	2.5	22	81	15	63	58	0	4	38	1.17
58241892--58241947	20	2.8	19	82	15	60	55	1	3	39	1.28
58243580--58243637	18	3.3	18	72	18	68	34	18	6	39	1.78
58243569--58243638	34	2.1	34	100	0	140	34	17	5	42	1.73
58254840--58255058	40	5.5	40	83	5	214	27	27	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58254874--58255057	40	4.6	40	87	5	228	28	27	21	21	1.99
58254874--58255057	81	2.3	80	85	3	235	28	27	21	21	1.99
58265340--58265393	29	2.0	28	82	13	69	25	3	29	40	1.73
58275346--58275522	40	4.4	40	80	4	207	23	22	27	26	1.99
58275346--58275522	80	2.2	79	86	6	241	23	22	27	26	1.99
58275750--58275791	22	1.9	22	85	9	59	33	9	14	42	1.78
58283538--58283607	27	2.6	27	95	2	113	31	28	12	27	1.93
58283538--58283635	28	3.5	28	88	2	126	30	28	14	26	1.95
58289483--58289584	28	3.7	27	82	11	125	25	34	14	25	1.94
58289798--58289840	8	5.4	8	82	0	50	9	20	23	46	1.79
58289798--58289835	16	2.4	16	95	0	67	7	23	23	44	1.79
58294187--58294366	71	2.6	69	79	5	209	42	18	11	27	1.84
58302656--58302806	28	5.4	28	91	1	214	26	11	27	33	1.92
58307889--58307942	27	2.0	27	85	3	74	35	20	22	22	1.96
58307947--58308061	54	2.1	54	87	1	160	24	18	17	40	1.91
58307943--58308060	27	4.4	27	82	0	128	24	16	18	39	1.91
58313425--58313476	27	2.0	26	84	3	68	34	21	26	17	1.95
58315304--58315479	27	6.5	27	84	3	201	30	27	14	27	1.95
58315323--58315478	82	1.9	81	88	3	233	29	28	15	26	1.96
58323357--58323534	27	6.6	27	84	3	205	29	28	15	26	1.96
58323378--58323533	82	1.9	81	88	3	233	29	28	15	26	1.96
58325441--58325556	27	4.3	27	78	1	117	26	18	17	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58325441--58325556	54	2.2	53	84	1	151	26	18	17	37	1.92
58329359--58329582	40	5.6	40	89	1	308	29	25	21	23	1.99
58337808--58338031	40	5.6	40	90	2	319	28	26	22	23	1.99
58342774--58342812	10	3.7	11	86	10	55	15	7	25	51	1.70
58343125--58343191	30	2.2	30	89	7	109	22	25	31	20	1.98
58354493--58354553	30	2.0	30	87	0	86	29	24	8	37	1.84
58358184--58358219	14	2.6	14	95	0	63	41	33	8	16	1.78
58358275--58358335	28	2.2	28	88	2	88	29	13	16	40	1.86
58358315--58358389	27	2.8	27	86	11	109	30	8	20	41	1.81
58363179--58363219	19	2.2	19	100	0	82	14	36	26	21	1.93
58364671--58364735	28	2.4	27	86	2	85	33	21	23	21	1.97
58366754--58366786	10	3.2	10	95	4	57	30	51	0	18	1.46
58372553--58372609	22	2.6	22	80	0	60	33	22	24	19	1.97
58372921--58373008	27	3.3	27	74	4	79	27	11	19	42	1.85
58372935--58373039	27	3.9	27	80	7	106	30	8	19	41	1.81
58373376--58373409	17	1.9	17	94	5	59	20	38	23	17	1.93
58397101--58397223	43	2.9	43	86	0	165	21	17	17	43	1.88
58397106--58397259	43	3.6	43	80	3	148	20	16	20	42	1.89
58397096--58397294	86	2.3	86	79	0	200	21	17	19	41	1.90
58401924--58401981	30	1.9	30	82	6	73	31	12	27	29	1.92
58402319--58402528	46	4.6	44	73	15	158	27	17	30	25	1.97
58404182--58405037	436	2.0	436	92	0	1444	29	23	25	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58406747--58406781	17	2.1	17	100	0	70	34	37	28	0	1.58
58420640--58420698	30	2.0	30	82	0	73	32	11	27	28	1.92
58424851--58425066	118	1.8	118	79	2	254	31	24	18	25	1.97
58426282--58426340	26	2.2	28	82	14	79	55	0	3	40	1.16
58427162--58427215	28	1.9	28	84	0	72	48	3	1	46	1.30
58427918--58427966	25	2.0	24	88	4	71	55	0	4	40	1.19
58429759--58429806	21	2.3	21	74	0	51	45	2	8	43	1.45
58429940--58430069	58	2.3	58	90	2	210	43	6	10	40	1.63
58447872--58447922	10	5.2	9	80	15	57	15	1	1	80	0.89
58447867--58447922	12	5.1	11	76	20	55	17	1	1	78	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