genome.fa.s11.2.7.7.80.10.50.1000.185.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  185  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)
54783781--54783847	9	7.4	9	85	6	91	26	11	20	40	1.88
54788321--54788419	46	2.1	47	85	5	130	39	19	16	25	1.91
54788338--54788447	24	4.7	24	77	8	109	40	20	16	23	1.91
54789139--54789274	41	3.3	42	81	7	156	33	25	15	25	1.95
54790224--54790252	14	2.1	14	93	6	51	6	6	3	82	0.93
54791231--54791290	3	20.0	3	74	6	50	35	3	3	58	1.31
54791563--54791603	12	3.6	12	83	6	50	41	2	0	56	1.13
54791568--54791597	16	1.9	16	93	6	53	43	3	0	53	1.17
54795099--54795128	2	15.5	2	93	6	53	46	0	0	53	1.00
54795176--54795247	28	2.5	28	84	2	81	33	11	6	48	1.65
54795264--54795303	5	7.8	5	97	2	71	57	0	0	42	0.98
54795609--54795689	36	2.2	36	82	4	92	29	8	18	43	1.80
54795635--54795689	18	3.1	18	75	0	56	29	10	20	40	1.86
54796333--54796440	51	2.1	51	86	3	146	28	12	17	41	1.85
54796333--54796440	17	6.4	17	72	4	83	28	12	17	41	1.85
54804089--54804126	20	1.9	20	94	0	67	39	0	26	34	1.57
54805816--54805847	12	2.6	13	85	14	50	37	0	6	56	1.25
54809717--54809762	19	2.3	20	85	3	58	26	6	2	65	1.28
54815581--54815709	61	2.1	61	92	0	213	24	27	28	19	1.98
54837694--54837736	7	6.0	7	81	5	50	72	2	9	16	1.21
54841324--54841375	20	2.6	20	96	0	95	5	17	17	59	1.56
54841946--54841971	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54842596--54842632	16	2.3	16	90	0	56	78	13	5	2	1.03
54842955--54842993	20	1.9	20	89	5	60	7	17	0	74	1.05
54843014--54843045	17	1.9	16	93	6	55	12	6	0	81	0.87
54843944--54844000	22	2.6	22	77	0	69	38	7	1	52	1.39
54843962--54844011	26	2.0	25	84	4	64	32	10	2	56	1.44
54846230--54846273	7	6.6	7	84	10	65	68	0	15	15	1.22
54846230--54846273	13	3.3	14	87	6	65	68	0	15	15	1.22
54846230--54846273	20	2.2	20	95	0	79	68	0	15	15	1.22
54847768--54848929	87	13.3	87	70	11	603	29	20	22	27	1.98
54847768--54848893	131	8.6	129	72	10	612	29	20	22	27	1.98
54847702--54848929	218	5.6	218	93	1	2068	30	19	22	27	1.98
54847768--54848806	44	23.8	44	72	10	582	29	20	22	27	1.98
54847702--54848884	438	2.7	436	95	0	2091	30	19	22	27	1.98
54847702--54849073	438	3.1	433	85	7	1736	30	19	22	26	1.98
54849613--54849661	22	2.2	23	96	3	91	34	12	24	28	1.91
54856762--54856804	22	2.0	22	100	0	86	51	2	9	37	1.47
54857879--54857933	29	1.9	28	85	3	74	40	3	3	52	1.36
54859120--54859160	20	2.0	20	85	0	55	43	0	2	53	1.13
54862142--54862166	8	3.1	8	100	0	50	24	24	0	52	1.48
54863953--54863986	14	2.2	16	90	10	54	11	20	0	67	1.21
54866973--54867173	23	8.8	23	84	4	264	40	16	11	31	1.84
54866976--54867173	46	4.3	46	89	2	292	40	17	11	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54866985--54867165	90	2.0	90	90	2	283	41	17	11	29	1.83
54867915--54868049	40	3.3	40	81	5	146	31	28	16	23	1.96
54873243--54873274	5	6.4	5	100	0	64	18	0	0	81	0.70
54879245--54879288	20	2.3	19	80	7	54	40	2	4	52	1.34
54881510--54881543	14	2.4	14	95	0	59	35	5	32	26	1.81
54884300--54884372	38	1.9	38	91	5	121	38	12	13	35	1.83
54889132--54889197	20	3.2	20	75	16	64	50	3	3	43	1.33
54889664--54889722	9	6.4	9	82	2	64	61	6	0	32	1.22
54893148--54893200	24	2.2	24	89	0	79	37	3	9	49	1.53
54893155--54893211	24	2.4	24	85	5	71	36	5	10	47	1.61
54905063--54905484	106	4.0	106	94	0	702	32	18	18	29	1.95
54916353--54916454	41	2.5	41	91	3	161	26	19	25	28	1.99
54924002--54924100	41	2.4	41	84	3	128	26	19	24	30	1.98
54928577--54928987	106	3.9	106	88	2	598	32	18	18	30	1.95
54932803--54932838	18	1.9	19	88	5	56	8	22	0	69	1.15
54940686--54940952	27	9.9	26	83	5	302	42	20	17	19	1.89
54940678--54940952	54	5.1	53	84	3	354	42	20	17	20	1.89
54940678--54940952	81	3.4	80	85	5	340	42	20	17	20	1.89
54941148--54941207	26	2.3	26	82	2	66	21	23	18	36	1.95
54941160--54941214	26	2.1	26	86	0	74	23	20	20	36	1.95
54941319--54941433	28	4.1	27	83	6	140	22	24	23	29	1.99
54945543--54945568	3	8.7	3	100	0	52	65	0	34	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54947692--54947724	17	2.0	17	88	5	50	39	0	6	54	1.25
54948127--54948186	20	2.9	21	80	11	70	60	3	15	21	1.49
54948627--54948667	20	2.0	21	86	13	59	56	7	4	31	1.48
54948716--54948786	29	2.5	28	88	2	97	67	4	0	28	1.09
54948675--54948866	9	19.3	10	68	15	53	63	5	1	29	1.25
54948727--54948763	20	2.0	20	89	10	60	64	5	0	29	1.15
54950591--54950640	3	16.3	3	95	4	91	66	0	0	34	0.92
54953369--54953401	16	2.1	16	100	0	66	24	6	24	45	1.75
54954431--54954472	12	3.5	12	75	12	50	33	0	42	23	1.55
54954431--54954477	24	1.9	24	91	4	76	34	0	38	27	1.57
54955145--54955554	27	15.2	27	83	0	408	41	20	18	19	1.91
54955896--54955980	28	3.0	28	89	6	136	22	25	24	27	2.00
54956983--54957030	18	2.7	18	76	0	51	68	4	4	22	1.24
54972579--54972614	14	2.5	14	90	4	54	69	0	0	30	0.89
54972795--54972909	9	12.8	9	72	14	51	34	2	3	59	1.28
54976381--54976437	20	2.7	22	77	20	68	59	5	15	19	1.55
54978143--54978232	33	2.7	33	81	3	101	22	44	1	32	1.60
54979538--54979576	6	6.3	6	82	5	51	17	20	0	61	1.34
54979538--54979576	18	2.1	19	90	4	62	17	20	0	61	1.34
54982977--54983004	12	2.3	12	100	0	56	32	32	21	14	1.93
54985962--54985990	15	1.9	15	100	0	58	37	13	20	27	1.91
54987301--54987337	19	1.9	19	88	0	56	54	5	2	37	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54987492--54987530	15	2.6	15	87	0	51	64	2	5	28	1.28
54987558--54987602	17	2.7	16	78	21	56	66	4	2	26	1.22
54989390--54989817	114	3.8	114	87	1	610	30	20	18	30	1.96
54989384--54989817	228	1.9	227	89	1	672	30	20	18	30	1.96
54990592--54990632	21	2.0	20	85	4	55	41	7	2	48	1.44
54990656--54990704	20	2.4	20	86	3	62	32	2	8	57	1.40
54990670--54990712	20	2.2	20	100	0	86	34	0	9	55	1.32
54991371--54991425	19	2.9	19	84	10	69	29	40	0	30	1.57
54993351--54993404	26	2.0	26	85	10	72	33	0	1	64	1.04
54993654--54993690	9	4.1	9	92	0	65	29	10	13	45	1.77
54994258--54994426	9	19.0	9	70	17	88	43	15	2	38	1.60
54994264--54994411	30	4.8	30	76	13	147	43	14	2	38	1.60
54994300--54994432	64	2.1	64	95	0	239	45	16	1	36	1.57
54994330--54994459	34	3.9	33	75	13	115	46	16	0	36	1.52
54999091--54999134	21	2.1	21	82	0	52	38	13	43	4	1.65
54999450--54999841	43	9.1	43	84	1	394	35	21	18	23	1.96
55000445--55000566	48	2.6	47	78	1	136	28	21	14	35	1.93
55002548--55002606	30	1.9	32	86	6	86	44	10	0	45	1.37
55004958--55005053	48	2.0	48	83	4	122	29	6	4	60	1.40
55008624--55008659	18	1.9	19	94	5	65	50	27	5	16	1.68
55018479--55018523	22	2.1	21	91	4	72	11	17	28	42	1.84
55018594--55018778	43	4.3	43	83	7	216	28	28	17	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55018594--55018754	87	1.9	86	84	6	218	28	29	17	24	1.97
55023175--55023371	41	4.8	41	78	6	211	30	25	19	23	1.98
55023414--55023545	40	3.3	40	78	1	140	24	21	18	35	1.96
55026255--55026298	11	3.9	11	79	5	52	36	0	4	59	1.18
55028622--55028655	17	2.0	17	88	11	52	2	20	11	64	1.39
55029103--55029133	2	15.5	2	93	0	53	45	0	3	51	1.17
55034270--55035209	88	10.6	88	87	1	931	26	23	24	25	2.00
55034915--55035142	45	5.1	44	66	11	142	25	24	26	23	2.00
55034938--55035169	45	5.2	45	64	12	145	24	22	26	26	2.00
55034879--55035209	178	1.9	178	86	2	477	26	23	24	25	2.00

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