genome.fa.s9.2.7.7.80.10.50.1000.126.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   

This is table  126  of  259  ( 31025 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)
40673466--40673800	144	2.3	145	86	2	442	36	26	16	20	1.93
40676366--40676495	39	3.3	39	97	0	251	25	21	28	24	1.99
40690191--40690368	27	6.6	27	83	3	205	26	15	28	29	1.96
40690192--40690347	82	1.9	81	88	3	233	26	15	28	29	1.96
40690188--40690368	82	2.2	81	83	2	229	27	15	27	29	1.96
40695924--40696013	29	3.1	28	75	12	92	25	30	17	26	1.98
40696245--40696289	16	2.8	16	82	0	63	15	22	17	44	1.86
40696237--40696295	24	2.5	24	86	5	84	11	22	18	47	1.81
40696237--40696291	8	6.9	8	76	0	56	12	23	20	43	1.86
40697505--40697536	16	2.0	16	93	0	55	18	6	21	53	1.67
40698771--40698819	25	2.0	25	83	0	62	42	14	6	36	1.70
40706357--40706669	47	6.6	47	93	2	509	32	8	30	28	1.87
40706357--40706669	96	3.3	96	93	2	526	32	8	30	28	1.87
40706357--40706669	143	2.2	141	92	2	509	32	8	30	28	1.87
40713930--40713970	18	2.2	18	86	4	55	56	14	4	24	1.58
40717527--40717702	46	3.8	46	76	11	171	22	20	27	29	1.98
40717524--40717695	93	1.8	93	88	2	265	22	20	27	28	1.99
40720774--40720818	23	2.0	22	87	12	65	44	17	13	24	1.85
40720774--40720818	22	2.0	23	87	12	67	44	17	13	24	1.85
40720888--40720974	27	3.2	27	85	0	111	19	19	19	41	1.91
40720966--40721121	27	5.8	27	91	0	249	34	16	16	33	1.90
40720966--40721121	81	1.9	81	94	0	276	34	16	16	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40731419--40731615	55	3.6	54	77	5	202	39	17	23	19	1.92
40738177--40738224	20	2.4	20	100	0	96	29	22	16	31	1.96
40742984--40743030	24	2.0	24	91	0	76	34	29	12	23	1.92
40742994--40743056	24	2.6	24	89	0	90	31	34	14	19	1.91
40755022--40755337	47	6.6	47	91	1	479	32	9	30	27	1.88
40755456--40755534	37	2.1	37	88	4	115	26	18	29	25	1.98
40757400--40757502	43	2.4	43	100	0	206	22	15	35	26	1.94
40757484--40757557	29	2.6	29	89	4	105	25	16	32	25	1.96
40757868--40758050	40	4.6	40	84	5	192	24	22	27	25	2.00
40761513--40761856	47	7.3	47	94	0	571	31	10	30	27	1.90
40761975--40762053	37	2.1	37	88	4	115	25	18	30	25	1.98
40764392--40764520	39	3.2	38	74	10	141	27	27	21	23	1.99
40764418--40764549	42	3.2	42	75	6	162	28	29	20	21	1.98
40764378--40764563	81	2.3	81	96	1	338	27	27	20	24	1.99
40764451--40764578	42	3.1	41	71	11	111	27	29	20	22	1.98
40772215--40772343	39	3.2	38	71	10	123	28	27	21	22	1.99
40772241--40772372	42	3.2	42	71	10	146	28	29	20	21	1.98
40772201--40772386	81	2.3	81	93	1	320	28	27	20	23	1.99
40777936--40777972	8	4.6	8	89	0	56	18	40	29	10	1.85
40777935--40777972	16	2.4	16	100	0	76	18	39	31	10	1.85
40777943--40777981	16	2.4	16	91	0	60	20	43	25	10	1.83
40811720--40811772	27	2.0	27	88	0	79	13	24	24	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40811881--40811943	31	2.0	31	93	0	108	28	17	17	36	1.93
40814548--40814705	7	22.0	7	71	7	75	42	36	0	20	1.57
40814556--40814708	43	3.5	43	75	9	132	42	34	0	22	1.58
40814601--40814708	22	5.0	21	77	4	90	40	37	0	21	1.60
40815064--40815158	40	2.4	40	79	10	104	36	17	22	23	1.95
40815247--40815392	40	3.7	39	79	9	138	31	20	21	26	1.98
40815052--40815392	186	1.8	186	90	1	549	33	19	19	28	1.96
40815288--40815405	40	3.0	39	74	6	103	27	20	19	32	1.97
40816270--40816323	28	1.9	28	92	0	90	40	20	7	31	1.80
40823647--40823745	12	8.9	11	74	22	68	47	0	1	51	1.07
40823893--40823986	44	2.1	46	88	7	140	34	25	6	34	1.81
40823968--40824022	16	3.4	16	92	0	92	29	29	7	34	1.84
40825900--40825948	25	1.9	25	83	4	62	38	2	2	57	1.22
40828494--40828526	16	2.0	17	88	5	50	36	12	0	51	1.39
40833837--40833862	7	3.7	7	100	0	52	57	30	0	11	1.34
40835563--40835686	63	2.0	63	90	0	194	31	13	14	40	1.85
40836968--40837049	26	3.2	26	87	0	128	31	4	24	39	1.76
40849617--40849677	31	2.0	31	83	6	79	42	8	11	37	1.71
40850156--40850211	16	3.5	16	87	0	76	37	5	26	30	1.79
40850406--40850526	61	2.0	61	85	6	163	52	4	2	40	1.34
40850404--40850535	63	2.1	62	82	9	162	53	4	2	40	1.34
40856402--40856622	40	5.6	40	89	3	331	21	23	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40864687--40864906	40	5.6	40	85	4	295	22	22	26	28	1.99
40867786--40867936	28	5.4	28	91	1	214	33	28	12	25	1.92
40868381--40868419	18	2.2	18	95	0	69	43	5	5	46	1.48
40876137--40876287	28	5.4	28	91	1	214	33	28	12	25	1.92
40880505--40880567	31	2.0	31	90	0	99	25	23	14	36	1.93
40880776--40880859	26	3.4	25	90	6	118	27	22	22	27	1.99
40880907--40880973	20	3.3	20	97	0	125	34	20	8	35	1.84
40880893--40880973	40	2.0	39	86	9	110	34	19	9	35	1.85
40880907--40880974	9	6.7	11	73	19	67	35	20	8	35	1.84
40883218--40883248	15	2.1	15	100	0	62	9	25	0	64	1.24
40894108--40894196	37	2.4	39	80	14	100	20	24	26	28	1.99
40902186--40902405	40	5.6	40	87	4	304	22	21	28	28	1.99
40902186--40902405	79	2.8	80	86	5	304	22	21	28	28	1.99
40902186--40902405	119	1.8	119	88	3	336	22	21	28	28	1.99
40910106--40910280	46	3.8	46	76	11	169	29	29	19	21	1.98
40910113--40910284	93	1.8	93	88	2	265	29	29	19	22	1.98
40916038--40916204	83	2.0	83	100	0	334	22	23	27	25	2.00
40917761--40917935	46	3.8	46	78	13	205	29	29	20	20	1.98
40917768--40917939	93	1.8	93	94	0	308	28	29	20	20	1.98
40923543--40923568	12	2.2	12	100	0	52	7	30	38	23	1.83
40924411--40924486	35	2.2	35	100	0	152	50	14	5	30	1.65
40929490--40929807	48	6.6	48	78	7	297	28	19	29	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40929475--40929807	96	3.5	96	84	1	407	27	18	29	23	1.98
40935373--40935442	34	2.1	34	100	0	140	27	5	20	47	1.72
40945893--40946078	48	3.9	47	81	6	212	25	18	30	26	1.98
40945889--40946078	96	2.0	96	89	2	292	24	17	30	26	1.97
40947968--40948236	141	1.9	141	90	3	434	35	10	22	31	1.88
40954858--40954990	45	3.0	43	77	11	128	24	18	26	31	1.97
40957082--40957180	47	2.1	47	84	3	128	21	22	18	38	1.93
40957058--40957176	24	4.9	24	69	6	71	23	20	18	37	1.94
40961733--40961852	47	2.6	47	91	0	195	38	12	23	25	1.90
40961840--40962040	55	3.7	54	81	5	210	35	17	25	21	1.95
40961833--40962040	53	3.8	55	82	6	228	36	16	25	21	1.94
40969407--40969842	47	9.1	47	93	1	692	31	8	31	29	1.87
40971733--40971775	10	4.3	10	80	11	52	23	4	2	69	1.18
40979570--40979594	12	2.1	12	100	0	50	8	16	8	68	1.38
40979598--40979642	21	2.1	21	95	0	81	26	2	0	71	0.98
40981590--40981641	10	5.1	10	83	2	59	23	5	1	69	1.20
40983464--40983558	44	2.1	45	84	1	120	26	15	28	29	1.96
40984133--40984176	18	2.4	18	96	0	79	27	18	20	34	1.96
40986427--40986483	22	2.6	22	81	13	64	31	22	0	45	1.53
40987394--40987423	15	1.9	15	93	6	51	60	0	0	40	0.97
40987532--40987608	5	15.8	5	71	24	58	55	2	0	41	1.13
40987538--40987592	8	6.2	8	82	15	56	56	1	0	41	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40990714--40990769	25	2.2	25	93	0	94	16	30	32	21	1.95
40995676--40995841	43	3.9	43	73	15	121	33	26	15	24	1.95
40997669--40997786	40	3.0	39	82	5	139	30	17	22	29	1.97
40998133--40998187	21	2.6	21	79	0	56	21	0	29	49	1.50
40998140--40998198	21	2.8	21	78	0	55	20	0	27	52	1.47
40998154--40998235	14	5.9	14	81	8	78	14	0	30	54	1.40
40998809--40998873	8	8.5	8	79	6	55	69	3	4	23	1.21
40998810--40998873	7	8.6	7	81	8	65	68	3	4	23	1.23
40998809--40998873	15	4.3	15	76	9	60	69	3	4	23	1.21
40998925--40998961	17	2.1	18	90	5	58	70	10	2	16	1.27

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