genome.fa.s23.2.7.7.80.10.50.1000.106.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: D10
Parameters: 2 7 7 80 10 50 1000
Length:  67973905

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   

This is table  106  of  228  ( 27298 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)
30829312--30829524	60	3.5	59	80	5	178	10	6	58	24	1.54
30829414--30829580	78	2.1	78	84	2	210	12	5	59	22	1.54
30829491--30829541	24	2.1	24	85	0	66	9	3	58	27	1.47
30829492--30829531	15	2.7	15	80	0	53	7	5	60	27	1.45
30829508--30829553	24	1.9	24	86	8	67	6	6	58	28	1.48
30829635--30829731	30	3.2	29	66	21	74	16	8	56	18	1.64
30829635--30829874	60	4.0	60	88	0	327	13	10	57	18	1.65
30829651--30829742	30	3.1	30	65	22	75	11	9	56	21	1.64
30829663--30829757	30	3.2	30	68	21	90	11	11	55	21	1.66
30829679--30829772	30	3.1	30	66	27	81	10	10	58	20	1.61
30829746--30829791	24	1.9	24	86	0	65	8	4	65	21	1.38
30829663--30829907	120	2.0	120	81	4	280	13	10	57	19	1.64
30829896--30829952	30	1.9	30	92	0	96	12	7	59	21	1.56
30829890--30829994	42	2.5	42	87	0	156	11	6	60	21	1.54
30829902--30829964	30	2.1	30	88	5	92	15	6	60	17	1.55
30829992--30830054	30	2.1	30	84	0	81	12	0	57	30	1.36
30829983--30830066	18	4.5	18	73	7	62	10	0	58	30	1.32
30830004--30830072	30	2.3	30	87	0	93	13	0	56	30	1.37
30830021--30830072	18	2.9	18	80	5	61	9	0	55	34	1.32
30836312--30836496	50	3.7	50	86	1	228	22	29	21	26	1.99
30847749--30847820	28	2.6	28	91	4	110	38	8	1	51	1.41
30847949--30848075	4	31.0	4	76	19	72	69	0	29	0	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30847940--30848106	22	8.0	22	72	18	94	68	0	30	0	0.94
30847953--30848007	18	2.9	18	79	15	67	63	0	34	1	1.05
30847969--30848137	39	4.6	38	78	16	144	69	0	29	0	0.93
30847972--30848143	40	4.1	43	77	18	159	70	0	28	0	0.91
30847954--30848142	63	3.0	62	73	17	149	70	0	29	0	0.92
30847972--30848140	83	2.0	84	85	8	231	71	0	28	0	0.91
30848666--30848696	15	2.1	15	93	0	53	74	3	0	22	0.96
30852767--30852795	3	9.7	3	100	0	58	68	31	0	0	0.89
30853035--30853093	27	2.2	27	84	0	73	18	30	23	27	1.98
30853152--30853219	27	2.6	27	95	2	120	47	0	10	42	1.37
30854132--30854192	13	4.7	13	81	0	77	36	26	4	32	1.78
30856117--30856170	24	2.3	24	80	3	65	29	5	18	46	1.72
30856919--30856960	21	2.0	21	90	9	68	52	4	4	38	1.44
30857265--30857331	29	2.4	28	85	9	93	4	7	20	67	1.34
30859054--30859187	62	2.2	62	84	0	169	25	26	26	20	1.99
30864328--30864570	50	4.9	50	87	2	328	27	21	30	21	1.98
30864328--30864570	99	2.4	100	84	2	328	27	21	30	21	1.98
30879163--30879305	49	2.9	50	90	2	216	25	23	31	20	1.98
30886148--30886213	32	2.1	32	97	0	123	37	19	12	30	1.88
30893814--30893856	16	2.7	16	82	7	52	44	2	16	37	1.60
30899169--30899201	17	1.9	17	93	0	57	63	3	18	15	1.43
30902390--30902462	36	2.0	36	94	0	128	35	13	10	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30915648--30915683	18	2.0	18	94	0	63	41	27	8	22	1.82
30917328--30917379	21	2.5	22	71	6	54	17	9	21	51	1.73
30921951--30922055	20	5.2	20	74	6	86	13	30	16	40	1.86
30921951--30922054	40	2.5	41	81	9	106	13	30	16	39	1.87
30935161--30935345	79	2.3	81	83	7	227	24	22	27	24	2.00
30935162--30935345	40	4.6	40	82	9	207	25	22	27	24	2.00
30935214--30935368	79	2.0	79	83	7	199	26	21	27	25	1.99
30943036--30943219	40	4.7	40	80	9	200	24	22	28	25	1.99
30943088--30943252	79	2.1	79	83	6	201	26	21	27	24	1.99
30958997--30959168	40	4.3	40	87	2	213	25	28	21	24	1.99
30958997--30959221	80	2.8	79	80	7	231	25	28	21	24	1.99
30959153--30959230	40	1.9	41	82	10	97	26	28	20	24	1.99
30966524--30966694	39	4.3	40	87	3	213	25	28	21	24	1.99
30966524--30966747	79	2.8	79	80	8	231	25	28	20	25	1.99
30966679--30966756	40	1.9	41	82	10	97	26	28	20	24	1.99
30971231--30971279	20	2.5	20	78	15	57	12	22	6	59	1.55
30971485--30971727	50	4.7	51	79	5	215	24	27	21	26	1.99
30971935--30971976	21	2.0	21	100	0	84	42	23	4	28	1.74
30985487--30985807	160	2.0	160	99	0	633	35	21	11	31	1.90
30993994--30994048	23	2.4	23	90	6	85	27	18	21	32	1.96
30994127--30994238	28	4.0	28	73	6	75	25	27	19	26	1.99
30999858--30999934	31	2.5	31	84	0	100	46	20	19	12	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31004394--31004476	38	2.2	38	97	0	157	46	25	9	18	1.79
31024517--31024567	21	2.4	21	90	0	84	31	19	23	25	1.98
31026946--31027036	39	2.3	39	94	0	155	20	5	29	43	1.74
31028038--31028067	15	2.1	14	93	6	51	53	13	6	26	1.64
31031565--31031593	15	2.0	15	93	6	51	41	0	3	55	1.17
31038088--31038253	41	4.0	41	77	1	154	22	29	16	31	1.96
31038482--31038509	14	2.0	14	100	0	56	21	0	28	50	1.49
31050774--31051107	50	6.7	50	89	1	449	25	22	30	21	1.99
31056200--31056232	17	1.9	17	88	11	50	60	3	3	33	1.27
31056911--31056958	17	2.8	16	81	15	51	29	8	4	58	1.46
31058166--31058190	13	1.9	13	100	0	50	36	0	16	48	1.46
31060870--31061035	32	5.2	32	76	0	161	33	24	24	17	1.96
31060865--31061038	64	2.7	64	91	0	276	33	23	24	18	1.97
31061116--31061345	27	8.6	27	86	2	293	26	23	17	32	1.97
31061111--31061497	27	14.5	27	81	5	267	25	21	16	36	1.94
31061282--31061509	79	2.9	79	76	10	198	23	20	16	39	1.92
31064028--31064075	20	2.6	18	83	6	51	18	41	4	35	1.70
31064774--31064807	16	2.1	16	100	0	68	38	0	11	50	1.39
31068040--31068098	24	2.5	24	94	0	100	42	0	27	30	1.56
31068148--31068245	17	5.4	17	66	13	61	33	3	11	52	1.53
31068139--31068251	37	3.1	37	94	1	192	33	4	12	49	1.60
31068252--31068386	9	14.3	9	84	9	153	22	7	31	37	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31068252--31068386	20	7.2	18	85	6	153	22	7	31	37	1.82
31068255--31068386	29	4.6	29	85	5	164	21	7	32	37	1.82
31071141--31071173	16	1.9	18	88	11	52	66	0	0	33	0.92
31071890--31072035	73	2.0	72	82	6	179	43	6	4	46	1.47
31073093--31073130	20	1.9	20	89	10	60	28	5	13	52	1.61
31092668--31092834	42	3.9	41	78	7	154	25	16	27	31	1.96
31100597--31100801	27	7.6	27	82	4	164	27	28	15	28	1.96
31100597--31100800	54	3.8	53	80	10	209	27	28	15	28	1.96
31114675--31114719	18	2.6	18	85	3	56	66	2	2	28	1.15
31114685--31114719	18	1.9	18	94	0	61	71	0	2	25	1.00
31114793--31114838	25	1.9	23	86	8	65	60	0	4	34	1.16
31115096--31115177	26	3.1	26	75	16	80	58	0	4	36	1.20
31115141--31115182	10	4.4	10	79	11	52	61	2	0	35	1.09
31115199--31115240	15	2.9	14	86	10	57	76	2	0	21	0.90
31128223--31128368	29	5.1	29	84	2	170	26	30	15	27	1.96
31134586--31134714	43	3.0	43	78	1	143	27	17	29	25	1.97
31134705--31134782	40	1.9	41	84	2	104	25	17	28	28	1.98
31141360--31141512	29	5.4	29	82	3	152	27	30	13	28	1.94
31150681--31150942	39	6.7	40	87	7	328	25	22	27	24	2.00
31158836--31159096	39	6.7	40	86	7	319	26	22	27	24	2.00
31158888--31159129	79	3.1	79	86	7	264	26	21	27	24	1.99
31167863--31167928	25	2.6	25	84	13	91	24	21	22	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31170782--31170820	21	1.9	20	84	5	51	56	10	7	25	1.59
31171855--31172123	121	2.2	123	82	5	323	34	15	27	22	1.94
31171855--31172120	41	6.5	41	79	6	272	34	15	27	22	1.95
31178006--31178067	29	2.2	28	88	2	88	22	30	24	22	1.99
31182410--31182474	25	2.6	25	70	4	60	18	7	3	70	1.24
31182446--31182499	19	2.7	20	80	13	58	22	3	5	68	1.26
31194266--31194613	115	3.0	115	93	0	599	25	8	28	36	1.86
31201246--31201282	14	2.6	14	100	0	74	0	48	0	51	1.00
31202006--31202045	12	3.4	12	89	3	55	0	45	0	55	0.99
31202016--31202053	3	12.7	3	94	0	58	0	39	0	60	0.97

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