genome.fa.s11.2.7.7.80.10.50.1000.104.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  104  of  210  ( 25152 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)
30298578--30298620	20	2.2	20	91	0	68	44	0	30	25	1.55
30299969--30300004	19	1.9	18	88	5	54	47	5	19	27	1.72
30300837--30300879	22	2.0	22	100	0	86	37	13	25	23	1.92
30301382--30301451	28	2.5	28	86	2	97	37	8	7	47	1.62
30308964--30308994	14	2.2	14	94	0	53	19	32	16	32	1.94
30310803--30310885	31	2.7	30	76	7	78	31	10	15	42	1.82
30311008--30311107	43	2.3	44	85	1	139	26	16	26	32	1.96
30312571--30312602	4	8.0	4	100	0	64	25	0	0	75	0.81
30313392--30313475	25	3.4	25	79	0	96	25	22	22	29	1.99
30326649--30326689	21	2.0	21	85	0	55	56	14	7	21	1.63
30327517--30327667	72	2.1	72	98	0	293	34	7	16	41	1.78
30333973--30334015	21	2.0	22	86	4	61	23	27	30	18	1.98
30338822--30338858	19	2.0	18	89	5	56	67	0	0	32	0.91
30338824--30338882	26	2.3	26	85	2	75	69	0	0	30	0.89
30342288--30342334	20	2.3	20	85	7	60	8	25	38	27	1.85
30347387--30347470	44	1.9	44	80	4	98	29	26	19	25	1.98
30347438--30347557	44	2.7	44	80	10	138	24	28	21	25	1.99
30347614--30347709	43	2.2	45	83	7	117	18	26	26	29	1.98
30350113--30350182	6	12.7	6	77	11	53	14	5	8	71	1.29
30350107--30350201	42	2.3	42	81	7	122	10	10	6	72	1.27
30357945--30358036	27	3.4	27	81	0	121	36	26	18	18	1.94
30365716--30365767	23	2.3	23	100	0	104	30	21	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30371760--30371896	61	2.2	61	92	0	229	40	3	18	37	1.69
30372827--30372860	17	1.9	18	94	5	61	76	0	2	20	0.92
30372803--30372857	28	2.0	28	82	7	67	72	0	3	23	1.00
30373179--30373234	19	2.9	18	76	12	58	26	1	1	69	1.08
30373354--30373410	17	3.3	18	78	11	57	21	3	1	73	1.07
30374136--30374173	3	12.7	3	100	0	76	0	0	31	68	0.90
30374996--30375065	37	1.9	36	91	2	113	30	18	18	32	1.95
30376252--30376311	3	20.0	3	100	0	120	33	0	0	66	0.92
30384580--30384623	18	2.4	18	92	0	70	40	40	2	15	1.60
30384730--30384823	27	3.5	27	89	5	154	24	7	22	45	1.78
30384730--30384823	9	10.4	9	88	4	136	24	7	22	45	1.78
30389837--30389878	15	2.9	15	82	10	52	47	0	0	52	1.00
30390102--30390137	16	2.2	16	95	0	63	38	33	0	27	1.57
30392784--30392827	19	2.3	19	88	4	61	22	4	2	70	1.17
30395888--30396093	62	3.3	63	73	3	191	23	18	29	28	1.98
30412403--30412435	15	2.1	16	94	5	59	60	0	15	24	1.35
30413557--30413591	7	4.9	7	93	6	61	11	0	42	45	1.40
30422050--30422101	25	2.1	25	92	7	88	17	28	3	50	1.64
30427091--30427161	21	3.3	21	66	14	54	39	8	22	29	1.83
30427074--30427185	44	2.5	45	80	2	136	36	13	21	28	1.91
30427100--30427170	23	3.2	23	63	15	58	40	8	22	28	1.83
30437294--30437516	24	9.7	23	71	14	106	53	5	6	34	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30437294--30437446	69	2.2	69	78	10	163	53	5	5	35	1.48
30441066--30441139	34	2.1	34	80	11	80	44	2	1	51	1.24
30441151--30441219	26	2.7	24	78	12	66	55	8	4	31	1.50
30442156--30442190	16	2.2	16	90	10	54	48	0	0	51	1.00
30444945--30444988	18	2.4	18	92	0	70	18	6	50	25	1.71
30447558--30447631	33	2.2	33	92	0	121	45	4	2	47	1.35
30447683--30447722	13	2.9	14	82	17	57	55	0	0	45	0.99
30447749--30447811	15	4.0	15	77	16	65	50	1	3	44	1.27
30467463--30467843	102	4.1	92	81	12	406	35	17	7	40	1.76
30467564--30467866	90	3.4	89	83	8	364	35	16	8	39	1.78
30467701--30467886	90	2.1	90	82	4	223	38	17	9	34	1.82
30468063--30468166	17	5.8	18	70	15	65	64	1	4	28	1.25
30468393--30468553	9	17.4	9	68	18	64	30	2	1	65	1.16
30468381--30468421	20	2.0	20	90	9	66	24	2	4	68	1.22
30468437--30468477	19	2.3	19	83	8	50	24	2	2	70	1.11
30468473--30468528	21	2.7	22	78	10	73	41	0	0	58	0.98
30468473--30468528	20	2.7	21	78	13	71	41	0	0	58	0.98
30468615--30468652	20	1.9	20	88	0	58	36	7	21	34	1.82
30470665--30470693	14	2.1	14	100	0	58	58	20	0	20	1.39
30472327--30472572	35	7.1	35	83	2	309	42	21	10	24	1.85
30472229--30472572	69	5.1	69	83	4	380	42	22	11	23	1.85
30472917--30472949	17	1.9	17	88	11	50	6	36	12	45	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30473057--30473087	15	2.1	15	93	0	53	25	22	6	45	1.76
30474202--30474634	43	10.1	43	78	2	388	41	23	13	21	1.89
30474202--30474659	86	5.4	86	80	4	451	41	22	13	21	1.89
30480529--30480605	13	5.9	13	90	0	118	27	7	25	38	1.83
30482226--30482256	14	2.2	14	100	0	62	38	12	25	22	1.90
30487656--30487689	16	2.1	16	94	0	59	32	0	14	52	1.42
30487670--30487725	25	2.2	25	83	0	67	35	5	14	44	1.68
30489708--30489741	17	2.0	17	94	0	59	38	11	38	11	1.79
30493100--30493205	41	2.5	42	90	1	169	34	27	23	14	1.93
30493499--30493532	15	2.3	15	89	0	50	58	8	14	17	1.61
30494976--30495016	17	2.5	16	88	4	55	80	0	9	9	0.91
30494974--30495016	9	4.9	9	82	5	52	81	0	9	9	0.88
30495791--30495992	40	4.9	40	76	8	183	25	21	22	30	1.99
30495839--30495988	43	3.5	43	78	8	164	27	20	22	30	1.98
30495794--30496030	83	2.8	83	87	8	311	25	20	22	31	1.98
30496027--30496228	45	4.5	45	93	2	318	30	25	15	28	1.96
30496230--30497331	99	11.1	99	86	2	1326	25	21	21	31	1.98
30496230--30497331	199	5.6	199	86	1	1428	25	21	21	31	1.98
30496399--30497268	50	17.5	50	68	5	213	25	21	22	31	1.98
30496230--30497331	298	3.7	297	84	2	1381	25	21	21	31	1.98
30498224--30498259	15	2.4	15	95	0	63	0	13	2	83	0.76
30503222--30503255	15	2.3	15	89	0	50	58	8	14	17	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30503833--30503878	2	23.0	2	100	0	92	50	0	0	50	1.00
30507599--30507629	16	1.9	16	93	0	53	45	6	0	48	1.28
30509487--30509644	49	3.2	49	83	1	165	33	15	25	25	1.95
30510293--30510342	20	2.7	19	80	20	61	54	0	2	44	1.11
30510252--30510382	68	1.9	71	85	6	187	51	3	3	41	1.35
30514720--30514777	24	2.4	24	80	5	64	27	5	3	63	1.31
30523928--30523970	15	3.1	13	84	15	59	60	13	9	16	1.58
30527822--30528147	114	2.9	113	90	2	505	23	24	26	24	2.00
30528043--30528225	73	2.5	73	97	0	341	25	22	28	22	1.99
30528590--30528623	14	2.4	14	90	9	52	23	0	44	32	1.54
30528564--30528610	23	2.0	23	88	8	69	12	0	51	36	1.40
30528720--30529341	146	4.3	147	93	1	1054	42	16	16	24	1.88
30528720--30529341	293	2.1	293	92	1	1052	42	16	16	24	1.88
30532916--30532962	21	2.2	21	84	0	58	40	12	0	46	1.42
30533266--30533319	28	1.9	28	84	0	72	25	22	11	40	1.87
30533640--30533774	53	2.5	54	70	19	120	47	17	1	33	1.57
30533715--30533797	8	10.5	8	72	14	66	48	14	1	36	1.52
30533708--30533763	29	2.0	29	86	10	82	50	14	0	35	1.43
30533893--30533964	17	4.2	17	72	13	58	44	13	1	40	1.53
30533901--30533964	25	2.5	26	87	2	94	43	14	1	40	1.54
30534470--30534734	43	6.2	43	93	0	431	27	22	29	20	1.98
30535476--30535537	23	2.7	22	79	16	72	66	3	0	30	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30538563--30538599	15	2.4	16	95	4	67	18	10	35	35	1.86
30543374--30543425	26	2.0	26	88	0	77	21	19	21	38	1.94
30553819--30553863	21	2.1	21	83	0	54	31	26	0	42	1.56
30553792--30553846	16	3.4	16	84	0	74	36	23	1	38	1.66
30559795--30560044	39	6.4	39	86	1	331	34	20	29	15	1.94
30566925--30567171	39	6.3	39	80	1	271	19	27	18	35	1.95
30566964--30567025	20	3.2	20	73	13	65	20	30	14	33	1.93
30567085--30567147	20	3.2	20	67	13	58	20	28	17	33	1.95
30566922--30567171	78	3.2	78	82	2	313	19	27	18	35	1.95
30568364--30568416	26	2.0	26	100	0	106	30	15	7	47	1.73

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