genome.fa.s11.2.7.7.80.10.50.1000.145.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  145  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)
44122553--44122677	42	3.0	42	100	0	250	38	9	19	32	1.84
44125848--44125884	17	2.2	18	85	9	51	72	5	8	13	1.24
44125854--44125907	23	2.4	23	85	11	69	72	5	7	14	1.26
44133916--44133983	17	4.1	15	74	17	64	79	4	2	13	1.00
44134073--44134168	15	6.3	15	71	9	70	69	3	5	21	1.22
44137240--44137264	11	2.3	11	100	0	50	68	8	0	24	1.16
44141570--44141633	33	1.9	34	87	9	96	29	3	7	59	1.41
44143025--44143051	4	6.8	4	100	0	54	74	0	0	25	0.83
44147363--44147393	3	10.3	3	100	0	62	64	0	35	0	0.94
44150907--44151041	69	2.0	69	85	2	182	32	13	24	29	1.93
44151179--44151270	25	3.7	25	77	0	76	23	21	20	33	1.97
44156433--44156484	27	1.9	27	92	0	86	32	32	21	13	1.92
44156191--44156561	103	3.6	103	92	3	575	30	29	19	19	1.97
44167749--44167787	19	2.1	19	85	9	53	41	5	5	48	1.47
44182782--44182825	21	2.1	21	95	0	79	40	11	9	38	1.73
44187138--44187205	26	2.6	26	78	0	73	36	11	7	44	1.69
44187140--44187205	13	5.1	13	78	7	62	36	10	7	45	1.67
44191843--44191906	9	7.1	9	87	0	92	40	23	12	23	1.88
44191930--44191987	20	3.0	20	75	10	57	24	1	8	65	1.30
44200132--44200167	16	2.2	16	100	0	72	38	36	0	25	1.56
44201062--44201119	18	3.0	18	79	18	71	60	0	0	39	0.97
44201075--44201111	11	3.4	11	100	0	74	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44204608--44204633	2	13.0	2	100	0	52	50	0	50	0	1.00
44215506--44215546	21	2.0	21	85	0	55	19	26	34	19	1.96
44215645--44215711	21	3.2	21	87	4	100	26	32	19	20	1.97
44217003--44217072	24	2.8	25	74	26	76	42	0	7	50	1.30
44226350--44226426	25	3.2	23	71	15	66	44	2	1	51	1.23
44226356--44226452	48	2.0	48	82	10	115	40	3	3	53	1.32
44231972--44232011	21	1.9	21	85	10	55	30	10	15	45	1.78
44237572--44237611	20	2.0	20	95	0	71	30	10	12	47	1.74
44237591--44237627	15	2.5	15	86	4	58	29	8	18	43	1.79
44239949--44240003	25	2.2	26	96	3	103	36	12	30	20	1.90
44245018--44245095	2	38.5	2	97	2	147	48	0	1	50	1.09
44249423--44249476	27	2.0	27	96	0	99	31	22	27	18	1.97
44253546--44253614	25	3.0	22	75	17	61	50	0	2	46	1.16
44257586--44257631	11	4.0	12	83	5	60	54	4	0	41	1.20
44259754--44260223	121	3.8	124	91	2	743	30	15	21	32	1.95
44263339--44263363	10	2.5	10	100	0	50	48	0	8	44	1.32
44263347--44263648	55	5.3	55	81	13	303	46	4	10	37	1.61
44263402--44263428	10	2.7	10	100	0	54	51	0	7	40	1.30
44263505--44263539	18	1.9	18	94	0	61	48	2	14	34	1.58
44263656--44263697	18	2.3	18	95	0	75	28	0	23	47	1.52
44263643--44263837	47	4.2	47	70	26	180	28	0	27	44	1.59
44263674--44263819	29	4.8	29	88	9	220	26	0	28	43	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44263674--44263804	64	2.0	64	98	0	253	25	0	29	43	1.60
44263798--44263844	18	2.6	18	96	0	85	27	0	21	51	1.48
44263840--44263969	25	5.3	25	70	13	92	39	10	3	47	1.53
44263862--44264007	71	2.1	70	96	1	265	41	10	4	43	1.60
44264382--44264416	18	1.9	18	88	0	52	31	8	34	25	1.86
44266180--44266227	23	2.2	21	92	7	78	60	0	0	39	0.97
44266177--44266239	33	1.9	33	90	0	99	58	0	0	41	0.98
44266274--44266324	22	2.3	22	100	0	102	39	0	33	27	1.57
44266658--44266688	13	2.4	13	94	0	53	54	16	0	29	1.42
44267158--44267194	19	1.9	19	100	0	74	21	10	0	67	1.21
44280675--44280728	20	2.7	20	85	0	63	14	16	22	46	1.84
44284812--44285565	218	3.5	218	90	0	1143	26	18	26	28	1.98
44285178--44285293	45	2.6	44	82	6	119	25	18	27	29	1.98
44285004--44285551	44	12.5	44	71	11	204	26	17	25	29	1.98
44286749--44286817	30	2.3	30	100	0	138	18	31	39	10	1.84
44292341--44292374	2	17.0	2	100	0	68	50	0	0	50	1.00
44296842--44296890	14	3.3	14	77	11	53	40	0	4	55	1.19
44304311--44304353	21	2.0	22	82	13	54	16	20	25	37	1.93
44311763--44311927	41	4.0	41	94	0	276	23	23	23	30	1.99
44311763--44311956	82	2.4	82	87	0	289	23	22	23	30	1.99
44311763--44311956	41	4.7	41	88	2	246	23	22	23	30	1.99
44315250--44315362	45	2.5	45	86	0	145	20	18	19	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44322366--44322403	18	2.1	18	85	9	51	44	0	0	55	0.99
44324869--44324912	21	2.1	21	95	0	79	43	20	20	15	1.88
44331040--44331265	43	5.3	43	79	5	215	23	25	23	26	2.00
44331040--44331394	86	4.1	85	75	9	265	26	26	21	25	2.00
44331274--44331418	43	3.4	42	78	12	152	32	28	17	21	1.96
44331298--44331438	43	3.3	42	78	8	140	27	29	20	22	1.99
44331770--44331849	21	3.8	21	79	0	88	7	41	15	36	1.75
44331770--44331865	21	4.6	21	80	0	75	6	42	14	36	1.71
44331770--44331862	42	2.2	42	84	0	114	6	43	15	35	1.72
44331894--44332022	66	2.0	66	89	3	197	15	23	17	43	1.87
44337526--44337592	9	7.7	9	73	6	66	35	2	19	41	1.67
44337534--44337601	34	2.0	35	85	2	93	35	4	19	41	1.71
44337561--44337653	22	4.2	22	66	15	66	37	3	15	44	1.62
44337548--44337629	35	2.4	35	81	2	94	37	3	15	42	1.65
44337637--44337667	16	1.9	16	93	0	53	32	3	25	38	1.72
44337571--44337735	82	2.0	82	92	4	280	38	3	15	42	1.64
44337681--44337784	34	3.1	34	80	8	151	42	3	8	45	1.53
44337614--44337810	22	9.3	22	64	25	86	41	2	12	43	1.56
44337653--44337836	65	2.8	65	83	8	239	40	2	11	45	1.55
44337696--44337862	87	1.9	86	89	7	257	40	2	10	46	1.52
44337734--44337852	56	2.1	56	83	6	143	39	3	9	47	1.52
44337708--44337892	87	2.1	86	84	9	234	41	2	9	47	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44337983--44338022	19	2.2	17	86	8	53	35	0	10	55	1.34
44338040--44338124	31	2.6	32	81	10	93	35	2	11	50	1.52
44338790--44338834	21	2.1	21	87	0	63	46	13	28	11	1.77
44340406--44340449	19	2.2	20	88	8	63	13	6	0	79	0.92
44340758--44340797	18	2.2	19	86	8	57	35	22	7	35	1.82
44340968--44341008	7	5.9	7	83	11	57	39	43	0	17	1.49
44340968--44341008	13	2.9	15	85	10	59	39	43	0	17	1.49
44341119--44341151	7	4.7	7	96	0	57	30	51	0	18	1.46
44341592--44341835	114	2.2	112	86	4	346	31	25	22	20	1.98
44351543--44352770	43	28.2	44	81	5	1322	42	29	1	26	1.65
44351543--44352763	65	18.7	65	81	5	1215	42	29	1	26	1.64
44351936--44352016	27	3.2	25	79	16	80	43	34	1	20	1.60
44351961--44352013	27	2.0	27	92	0	88	43	32	1	22	1.64
44351543--44352770	22	56.4	22	82	5	1322	42	29	1	26	1.65
44352874--44353049	21	8.2	21	84	3	226	44	28	0	27	1.55
44353143--44353310	37	4.4	38	64	14	105	42	9	7	41	1.65
44353049--44353327	114	2.4	114	96	0	522	42	9	6	41	1.64
44356246--44356689	126	3.5	126	89	0	615	29	23	15	31	1.95
44365157--44365405	136	1.8	136	100	0	498	25	10	26	37	1.89
44370006--44370064	22	2.7	22	84	10	84	28	16	25	28	1.97
44376725--44376764	18	2.2	19	90	4	64	10	5	10	75	1.19
44376807--44377067	135	2.0	131	83	4	335	15	13	15	55	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44378550--44378680	65	2.0	65	95	0	235	31	15	16	36	1.90
44381700--44381745	2	23.0	2	95	0	83	52	47	0	0	1.00
44382558--44382596	5	7.8	5	100	0	78	41	0	0	58	0.98
44382675--44382714	20	2.0	20	95	0	71	25	10	22	42	1.84
44382835--44382899	30	2.2	30	94	0	112	27	26	4	41	1.75
44385277--44385309	14	2.3	15	89	5	50	21	0	6	72	1.05
44391876--44391926	26	2.0	26	92	0	84	27	15	27	29	1.96
44392621--44392794	60	2.9	61	81	6	201	43	2	14	39	1.60
44393556--44393602	22	2.1	22	100	0	94	31	4	29	34	1.77
44395029--44395107	39	2.0	39	100	0	158	30	20	15	34	1.93

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