genome.fa.s11.2.7.7.80.10.50.1000.108.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  108  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)
31661059--31661155	40	2.5	40	78	6	101	20	28	21	28	1.98
31673008--31673050	20	2.2	20	100	0	86	41	13	11	32	1.81
31675240--31675268	9	3.0	10	90	10	51	20	17	0	62	1.33
31676234--31676273	18	2.2	19	90	4	64	7	37	0	55	1.29
31679633--31679657	13	1.9	13	100	0	50	88	0	12	0	0.53
31679629--31679661	16	2.1	16	88	5	50	84	0	15	0	0.61
31687635--31687666	2	16.0	2	100	0	64	50	0	0	50	1.00
31693995--31694020	13	2.0	13	100	0	52	23	0	15	61	1.33
31697552--31697886	51	6.6	51	75	8	276	28	14	26	29	1.95
31697552--31697890	102	3.4	102	80	10	349	28	15	26	29	1.96
31705148--31705482	51	6.6	51	72	10	251	28	14	26	30	1.95
31705144--31705485	102	3.4	101	78	10	335	28	14	26	29	1.95
31705354--31705477	50	2.5	49	92	1	194	30	16	23	29	1.96
31715565--31715606	16	2.6	16	85	7	59	52	0	2	45	1.13
31715661--31715721	30	2.1	30	84	9	81	49	11	6	32	1.65
31721640--31721794	43	3.6	43	70	14	124	29	25	16	28	1.97
31721640--31721775	43	3.2	44	74	11	131	30	26	17	25	1.97
31730038--31730329	50	5.8	50	89	1	424	21	30	21	25	1.98
31736478--31736763	50	5.7	50	84	2	324	21	29	20	28	1.98
31736478--31736763	100	2.8	100	87	0	383	21	29	20	28	1.98
31736478--31736755	150	1.8	151	84	2	380	21	29	20	28	1.98
31742864--31743065	41	5.1	41	80	7	191	19	26	16	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31742907--31743008	35	2.7	35	83	8	114	20	26	15	37	1.93
31742866--31743008	76	1.9	76	89	0	223	18	26	18	36	1.94
31742945--31743005	20	3.0	20	69	11	61	19	32	16	31	1.94
31753275--31753486	41	5.2	41	84	2	228	20	27	15	36	1.93
31760285--31760326	19	2.2	20	83	12	52	19	42	2	35	1.64
31765115--31765166	27	1.9	27	96	0	95	30	30	23	15	1.95
31765188--31765342	33	4.6	34	67	23	94	33	29	20	16	1.95
31764979--31765346	102	3.6	101	88	2	556	32	29	19	19	1.96
31766732--31766757	11	2.4	11	100	0	52	34	7	11	46	1.69
31769632--31769666	16	2.1	17	89	5	54	40	0	37	22	1.55
31769637--31769672	16	2.1	18	90	10	58	30	0	41	27	1.56
31781487--31781520	18	1.9	18	88	5	52	41	0	35	23	1.55
31795972--31796005	16	2.1	16	88	0	50	23	5	11	58	1.55
31799818--31799998	77	2.4	76	87	4	258	32	27	18	22	1.97
31800330--31800386	30	1.9	30	85	3	80	29	24	7	38	1.82
31807256--31807521	103	2.6	103	89	4	410	30	30	20	19	1.97
31822995--31823023	12	2.3	13	94	5	51	65	6	6	20	1.40
31829003--31829035	17	2.0	17	94	5	59	15	54	0	30	1.41
31836759--31836783	8	3.1	8	100	0	50	24	0	0	76	0.80
31839330--31839531	101	2.0	101	87	5	293	24	17	27	30	1.97
31839336--31839522	51	3.7	50	82	3	205	24	17	28	29	1.97
31839436--31839516	26	3.2	26	64	28	64	23	13	29	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31839540--31839589	26	1.9	26	100	0	100	16	24	32	28	1.96
31839568--31839708	33	4.0	33	75	17	131	19	19	24	36	1.95
31839601--31839738	42	3.5	40	74	18	137	22	16	26	34	1.95
31839567--31839765	75	2.6	76	91	0	310	21	18	26	34	1.96
31843412--31843436	2	12.5	2	100	0	50	0	0	48	52	1.00
31851411--31851853	28	15.8	28	89	0	634	31	23	20	24	1.98
31851964--31852064	26	3.9	26	83	5	114	36	20	21	20	1.95
31851964--31852066	52	2.0	52	86	7	147	36	21	21	20	1.95
31852216--31852577	27	13.5	28	77	12	209	23	19	18	38	1.93
31852219--31852554	80	4.2	79	83	4	363	22	18	19	39	1.92
31852218--31852554	54	6.3	54	86	4	389	22	18	19	39	1.92
31854374--31854418	23	2.0	23	90	0	72	40	24	0	35	1.56
31862078--31862107	5	5.8	5	96	4	51	23	0	0	76	0.78
31863489--31863557	21	3.3	21	85	4	86	39	10	28	21	1.86
31866108--31866185	23	3.4	23	77	11	81	34	20	21	23	1.97
31866152--31866234	22	3.8	22	78	0	94	34	16	24	24	1.95
31866674--31866719	20	2.3	21	85	11	69	21	21	21	34	1.97
31879906--31879955	15	3.6	13	84	12	64	22	8	0	70	1.13
31879906--31879958	14	3.7	14	92	5	88	22	9	0	67	1.19
31879999--31880043	12	3.7	12	80	16	56	13	4	8	73	1.23
31879999--31880047	13	3.8	13	84	12	66	14	6	10	69	1.35
31890663--31890826	86	1.9	87	86	3	235	49	5	3	41	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31891899--31892247	50	7.0	49	67	11	145	29	20	22	27	1.99
31891913--31892424	100	5.1	100	88	0	700	30	20	22	26	1.98
31891966--31892424	50	9.2	50	69	7	268	30	20	22	26	1.98
31894122--31894174	27	2.0	27	81	7	63	28	1	5	64	1.27
31899245--31899292	7	6.2	8	81	18	50	75	0	12	12	1.06
31899236--31899292	14	4.1	13	82	11	60	75	0	12	12	1.05
31899236--31899284	23	2.3	20	80	16	62	77	0	10	12	0.99
31899237--31899299	21	3.0	21	81	11	67	73	0	12	14	1.11
31900813--31901532	50	14.2	50	66	5	327	29	21	21	26	1.99
31900826--31901546	100	7.1	100	84	4	838	30	21	21	26	1.98
31900852--31901468	309	2.0	309	88	0	910	29	22	20	27	1.99
31901553--31901674	44	2.8	44	82	2	138	30	22	22	24	1.99
31907563--31907592	4	7.5	4	100	0	60	26	0	0	73	0.84
31909904--31909949	8	5.8	8	89	0	65	47	4	2	45	1.34
31912905--31912931	12	2.2	12	100	0	54	29	7	0	62	1.22
31923259--31923303	22	2.0	24	82	8	58	17	26	17	37	1.93
31945183--31945232	26	1.9	26	95	0	91	30	16	10	44	1.80
31945714--31945779	31	2.1	31	86	5	89	37	12	22	27	1.90
31946323--31946449	65	2.0	65	98	0	245	45	8	11	34	1.70
31956237--31956266	13	2.3	13	100	0	60	36	13	30	20	1.90
31964811--31964852	11	3.6	11	90	6	57	71	0	7	21	1.09
31964809--31964853	12	3.8	12	94	5	74	71	0	8	20	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31967066--31967112	19	2.4	19	89	3	67	78	2	12	6	1.02
31974849--31974899	26	2.0	26	84	0	66	27	9	25	37	1.87
31987723--31987782	26	2.3	27	80	13	72	25	3	18	53	1.60
32001268--32001306	20	2.0	20	84	0	51	43	12	2	41	1.56
32007593--32007654	27	2.3	27	85	0	88	35	1	16	46	1.56
32007657--32007707	9	5.7	9	72	9	50	35	0	19	45	1.51
32007940--32007989	14	3.5	14	78	5	55	72	0	2	26	0.96
32007949--32007987	15	2.5	15	87	4	51	79	0	2	17	0.84
32007935--32007987	8	7.0	8	77	16	51	73	0	1	24	0.93
32010513--32010565	18	3.0	18	91	2	90	49	3	39	7	1.49
32011300--32011456	7	22.3	7	68	8	50	49	30	0	20	1.49
32011307--32011348	22	1.9	22	90	0	66	52	30	0	16	1.44
32011363--32011407	22	2.0	22	86	0	63	53	28	0	17	1.44
32011371--32011400	15	2.0	15	93	0	51	53	30	0	16	1.44
32011493--32011772	148	1.9	147	81	4	343	31	15	12	40	1.84
32014108--32014214	41	2.6	41	95	0	187	36	17	15	29	1.92
32020111--32020156	23	2.0	23	100	0	92	21	34	26	17	1.95
32023907--32023953	24	2.0	24	100	0	94	25	31	8	34	1.86
32027083--32027108	10	2.6	10	100	0	52	61	19	7	11	1.53
32027216--32027261	25	1.9	23	83	16	58	39	13	0	47	1.42
32032743--32032773	16	1.9	16	93	0	53	48	16	9	25	1.76
32035048--32035073	10	2.6	10	100	0	52	61	19	7	11	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32035181--32035226	25	1.9	23	83	16	58	39	13	0	47	1.42
32035232--32035265	2	17.5	2	90	6	52	52	2	0	44	1.16
32035739--32035781	22	2.0	22	95	0	77	9	20	27	41	1.83
32035845--32036154	43	7.3	43	81	4	333	26	29	19	25	1.98
32037881--32038111	46	5.0	46	93	1	374	35	8	27	28	1.86
32045592--32045822	46	5.0	46	91	1	347	35	7	27	29	1.85
32048581--32048620	20	2.0	20	100	0	80	65	10	0	25	1.24
32049168--32049245	39	2.0	39	89	0	120	38	23	8	29	1.85
32050636--32050693	32	1.9	31	83	13	77	46	3	1	48	1.29
32050514--32050920	204	2.0	205	96	1	746	38	9	3	49	1.51

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