genome.fa.s17.2.7.7.80.10.50.1000.96.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  96  of  185  ( 22116 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)
30209469--30209499	9	3.4	9	90	0	53	38	22	12	25	1.90
30210481--30210505	12	2.1	12	100	0	50	32	12	8	48	1.69
30210521--30210566	23	2.0	23	91	0	74	39	0	13	47	1.42
30214909--30214950	4	10.5	4	100	0	84	73	0	0	26	0.83
30215825--30215889	13	5.5	13	70	20	61	36	0	15	47	1.46
30215825--30215889	23	2.8	23	97	0	121	36	0	15	47	1.46
30215983--30216008	11	2.4	11	100	0	52	0	19	0	80	0.71
30217319--30217343	12	2.1	12	100	0	50	32	12	8	48	1.69
30217353--30217404	23	2.3	23	89	0	77	38	1	11	48	1.51
30218225--30218276	18	2.9	17	80	11	50	17	5	3	73	1.19
30223113--30223173	29	2.0	30	84	6	79	34	0	13	52	1.40
30223350--30223419	31	2.3	30	82	4	79	41	12	8	37	1.74
30229323--30229405	32	2.6	32	86	3	114	36	20	12	31	1.89
30233235--30233260	11	2.4	11	100	0	52	50	19	0	30	1.48
30236123--30236168	14	3.1	15	81	9	58	4	15	2	78	1.01
30236672--30236745	29	2.5	29	82	2	76	14	27	33	24	1.94
30236694--30236751	29	2.0	29	86	0	80	13	27	34	24	1.93
30253156--30253344	100	1.9	99	85	3	263	34	21	13	29	1.92
30255466--30255551	43	2.0	43	81	4	102	23	22	1	53	1.53
30256648--30256678	13	2.4	13	94	0	53	0	19	0	80	0.71
30256709--30256741	16	1.9	18	88	11	52	21	12	0	66	1.23
30256935--30256968	16	2.0	18	88	11	54	47	14	0	38	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30262010--30262103	49	1.9	49	88	0	143	27	23	5	43	1.75
30263321--30263368	25	1.9	25	91	0	78	20	20	4	54	1.61
30264482--30264514	16	1.9	18	88	11	52	21	12	0	66	1.23
30269076--30269101	8	3.2	8	100	0	52	38	0	0	61	0.96
30268325--30272618	692	6.2	686	78	9	3502	37	13	12	36	1.82
30272626--30272910	143	2.0	143	90	0	453	38	22	10	28	1.88
30273431--30273511	25	3.2	24	72	19	76	48	28	6	17	1.71
30274979--30275027	7	7.3	7	81	4	57	46	36	0	16	1.47
30275499--30275633	69	2.0	69	84	7	177	49	6	14	28	1.69
30278420--30278452	17	1.9	17	93	0	57	63	0	0	36	0.95
30279757--30279866	40	2.8	40	80	6	143	36	18	28	17	1.93
30284047--30284198	27	5.6	27	93	3	232	30	28	13	26	1.94
30284047--30284223	55	3.2	55	90	0	264	31	29	13	25	1.94
30285708--30285832	49	2.5	49	84	3	162	28	23	28	20	1.99
30287737--30287809	21	3.1	24	75	18	73	17	8	1	72	1.16
30287919--30287959	21	2.0	21	85	0	55	14	17	2	65	1.37
30289401--30289439	20	1.9	21	89	5	62	12	7	0	79	0.93
30290295--30290319	7	3.6	7	100	0	50	44	40	0	16	1.47
30293616--30293726	54	2.1	52	83	9	136	48	10	7	33	1.65
30294565--30294627	28	2.2	29	81	13	69	31	3	1	63	1.19
30295584--30295608	7	3.6	7	100	0	50	28	0	12	60	1.32
30296233--30296275	18	2.4	18	88	0	59	16	30	9	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30296694--30296790	34	2.7	36	87	7	128	42	3	6	48	1.44
30299965--30300255	126	2.3	126	89	0	440	27	21	18	32	1.97
30301282--30301323	16	2.5	17	80	7	50	2	9	16	71	1.23
30302757--30302787	16	1.9	16	100	0	62	35	0	6	58	1.24
30306577--30306656	26	3.1	26	77	13	76	16	5	36	42	1.70
30307381--30307421	15	2.8	15	88	3	57	12	7	4	75	1.16
30312307--30312364	30	1.9	30	89	0	89	36	22	13	27	1.92
30315640--30315690	3	17.3	3	75	4	50	60	3	1	33	1.26
30317248--30317922	88	7.7	88	77	6	544	30	26	15	27	1.96
30317341--30317925	132	4.4	132	94	0	954	30	26	15	27	1.96
30338679--30338725	23	2.0	24	83	8	60	34	19	4	42	1.70
30338873--30338916	23	1.9	22	82	17	54	36	25	0	38	1.56
30338964--30339054	45	2.0	45	93	0	155	32	23	16	27	1.96
30340941--30340992	27	2.0	26	88	7	79	26	17	17	38	1.92
30340975--30341253	27	10.4	27	85	3	348	17	16	20	44	1.87
30343304--30343471	28	6.0	28	88	6	245	29	22	23	25	1.99
30343308--30343466	83	1.9	84	89	6	252	28	23	23	25	2.00
30343578--30343642	26	2.5	26	78	9	78	35	24	20	20	1.96
30343873--30344234	27	13.4	27	78	6	331	19	15	21	43	1.88
30343873--30344234	81	4.5	81	82	4	428	19	15	21	43	1.88
30345363--30345400	9	4.2	9	80	12	51	21	10	26	42	1.85
30345360--30345396	18	2.1	18	94	0	65	21	10	29	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30345379--30345451	33	2.2	33	97	0	137	23	13	21	41	1.89
30347134--30347274	62	2.3	63	83	7	180	21	21	25	31	1.98
30349050--30349155	32	3.4	31	79	8	90	36	16	21	24	1.94
30349069--30349156	32	2.8	32	89	0	122	35	18	22	23	1.96
30349113--30349251	32	4.3	32	81	5	156	35	19	21	23	1.96
30349113--30349251	64	2.2	64	84	5	174	35	19	21	23	1.96
30349423--30349481	24	2.5	23	78	8	64	47	23	5	23	1.71
30349476--30349727	27	9.4	27	78	6	210	20	23	20	36	1.95
30349495--30349727	54	4.3	54	81	3	247	20	22	20	36	1.95
30349491--30349727	107	2.2	108	82	4	291	19	21	21	36	1.95
30350206--30350333	66	2.0	61	92	7	211	30	32	17	20	1.95
30359436--30359619	60	3.1	60	84	2	210	27	17	22	32	1.96
30360716--30360755	21	1.9	21	94	0	71	30	7	22	40	1.81
30361881--30361960	40	2.0	40	100	0	160	35	22	17	25	1.95
30362070--30362212	77	1.9	77	96	0	268	25	19	17	37	1.94
30368725--30368781	30	1.9	30	100	0	114	38	7	17	36	1.77
30372197--30372499	40	7.6	40	90	2	396	24	20	28	27	1.99
30400561--30400624	22	3.1	21	72	23	64	59	12	9	18	1.59
30405036--30405098	21	3.0	21	88	2	81	33	31	4	30	1.78
30407210--30407262	14	3.5	15	82	5	54	22	11	3	62	1.45
30407210--30407260	15	3.3	15	91	2	66	21	9	3	64	1.40
30407303--30407336	13	2.6	13	100	0	68	11	0	5	82	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30408483--30408548	21	3.0	22	84	4	71	30	3	30	36	1.73
30412541--30412602	10	5.9	10	74	10	52	33	32	3	30	1.74
30412541--30412603	21	3.0	21	88	2	90	33	33	3	30	1.74
30413899--30413997	6	16.0	6	71	10	74	72	2	20	5	1.13
30413959--30413996	13	2.8	13	82	17	51	73	0	18	7	1.06
30414015--30414054	18	2.3	18	82	4	55	65	7	20	7	1.43
30414015--30414064	17	2.9	17	77	8	57	62	6	24	8	1.46
30414001--30414080	35	2.3	34	81	12	90	57	6	23	12	1.58
30414022--30414096	16	4.6	16	72	26	52	56	4	29	10	1.52
30415334--30415372	20	1.9	21	89	5	62	23	28	12	35	1.91
30415760--30415785	13	2.0	13	100	0	52	46	0	7	46	1.31
30426724--30426778	24	2.3	23	75	9	58	23	3	29	43	1.71
30426758--30426799	22	2.0	21	86	13	59	28	4	35	30	1.78
30433093--30433137	21	2.3	18	85	11	54	17	26	0	55	1.42
30433246--30433277	15	2.1	16	94	5	57	6	21	0	71	1.07
30434127--30434192	28	2.3	29	92	2	107	10	12	3	74	1.18
30434127--30434197	29	2.4	29	90	9	110	9	12	2	74	1.17
30434243--30434291	13	3.5	13	79	15	62	12	2	8	77	1.07
30434243--30434291	16	3.4	15	84	13	59	12	2	8	77	1.07
30441164--30441203	16	2.6	15	80	4	53	25	5	5	65	1.34
30453458--30453538	12	6.6	11	72	19	54	74	4	11	9	1.22
30453458--30453528	25	2.8	24	83	14	74	71	5	11	11	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30464584--30464645	10	5.9	10	74	10	52	33	32	3	30	1.74
30464584--30464646	21	3.0	21	88	2	90	33	33	3	30	1.74
30469206--30469308	12	8.9	12	71	18	76	12	21	1	64	1.37
30469222--30469308	33	2.5	35	85	10	117	11	20	1	66	1.29
30470353--30470387	16	2.2	17	90	10	56	34	0	8	57	1.29
30472465--30472508	22	2.0	22	90	0	70	36	4	34	25	1.76
30474289--30474334	10	4.7	10	86	2	58	82	2	2	13	0.85
30474289--30474334	20	2.3	20	88	3	67	82	2	2	13	0.85
30474289--30474335	9	4.8	10	86	5	53	80	2	2	14	0.89
30487047--30487084	20	2.0	20	94	5	69	26	26	15	31	1.96

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