genome.fa.s11.2.7.7.80.10.50.1000.142.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  142  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)
43199353--43199397	5	9.4	5	90	9	76	62	0	0	37	0.96
43214981--43215031	22	2.2	23	82	10	59	35	1	1	60	1.19
43222701--43222754	22	2.5	22	77	11	58	29	7	5	57	1.49
43225958--43225998	21	2.0	20	85	9	55	17	21	39	21	1.93
43225970--43226015	21	2.2	21	84	7	58	21	26	36	15	1.93
43233721--43233754	18	2.0	18	88	11	54	38	17	26	17	1.92
43239043--43239077	2	17.5	2	100	0	70	48	0	0	51	1.00
43243182--43243312	55	2.4	55	85	0	181	22	19	33	23	1.97
43246135--43246202	34	2.1	31	83	8	82	22	23	20	33	1.97
43246491--43246554	27	2.4	27	78	0	74	31	15	20	32	1.94
43247569--43247657	44	2.0	44	93	4	153	29	35	7	26	1.85
43255391--43255443	23	2.3	23	83	0	70	41	22	11	24	1.86
43265042--43265383	44	7.8	44	91	0	540	28	18	28	24	1.98
43265835--43265879	21	2.1	21	100	0	90	11	13	17	57	1.64
43272828--43272894	34	2.0	34	82	11	84	26	22	22	28	1.99
43273131--43273212	27	3.1	27	80	3	96	40	17	13	29	1.87
43274236--43274324	44	2.0	44	93	4	153	28	38	7	25	1.84
43276372--43276402	16	1.9	16	93	0	53	35	6	9	48	1.62
43276436--43276482	23	2.0	23	87	0	67	31	4	4	59	1.36
43284620--43284663	22	2.0	22	100	0	88	59	13	13	13	1.62
43284724--43284788	23	2.8	23	69	17	62	12	7	33	46	1.70
43303743--43303856	33	3.7	30	72	21	85	64	12	4	19	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43303777--43303851	22	3.2	23	78	14	73	68	12	2	17	1.32
43303764--43303832	26	2.5	27	84	13	79	66	13	2	17	1.36
43303787--43303866	12	6.4	12	73	15	65	67	13	1	17	1.30
43303802--43303833	16	2.0	16	100	0	64	68	18	0	12	1.20
43303988--43304019	15	2.1	15	94	0	55	65	6	3	25	1.31
43305514--43305985	132	3.6	132	90	1	732	27	24	19	28	1.99
43305915--43306028	44	2.6	45	79	9	144	29	24	18	27	1.98
43307290--43307378	44	2.0	44	89	2	135	15	26	15	41	1.88
43318446--43318477	15	2.1	15	94	0	55	65	6	3	25	1.31
43321088--43321150	26	2.4	27	81	2	74	34	20	22	22	1.96
43329139--43329179	16	2.6	16	96	0	73	39	2	36	21	1.67
43329139--43329187	16	3.1	16	90	0	71	38	2	34	24	1.67
43329166--43329256	45	2.0	44	85	6	121	32	4	27	35	1.77
43329401--43329442	15	2.7	16	82	14	52	52	2	0	45	1.13
43329410--43329451	15	2.9	15	82	10	52	52	0	0	47	1.00
43329399--43329696	120	2.5	120	97	0	551	49	5	2	43	1.36
43329541--43329575	18	2.0	17	88	5	52	54	0	0	45	0.99
43329659--43329695	16	2.2	17	86	13	51	54	0	2	43	1.14
43329678--43329845	47	3.7	46	70	18	143	47	4	2	45	1.37
43329737--43329797	28	2.2	28	85	5	81	50	3	0	45	1.17
43329712--43329919	91	2.3	91	93	0	344	46	4	3	46	1.39
43329737--43329879	44	3.2	43	68	16	119	48	3	2	46	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43329762--43329900	47	3.0	47	68	17	137	49	4	2	43	1.34
43330960--43330985	6	4.3	6	100	0	52	50	0	0	50	1.00
43331426--43331450	13	1.9	13	100	0	50	20	16	8	56	1.65
43331579--43331638	21	2.9	21	97	0	111	55	13	3	28	1.54
43331957--43332025	29	2.4	29	92	0	111	40	21	8	28	1.83
43341694--43341720	2	13.5	2	100	0	54	51	0	0	48	1.00
43342013--43342049	11	3.5	11	96	3	67	70	0	0	29	0.88
43342013--43342073	22	2.8	23	79	20	69	68	1	0	29	0.99
43344544--43344592	20	2.6	18	78	12	53	38	0	4	57	1.18
43344582--43344625	9	5.0	9	81	15	56	27	0	2	70	0.99
43348634--43348670	3	12.3	3	94	0	56	32	5	32	29	1.80
43359656--43359728	28	2.6	28	80	4	85	30	23	23	23	1.99
43360067--43360299	27	8.6	27	85	3	290	17	20	20	42	1.90
43364193--43364225	17	2.0	17	88	5	50	36	3	6	54	1.41
43364803--43364858	25	2.2	25	82	17	80	35	1	5	57	1.32
43366911--43366964	27	2.0	27	100	0	108	37	14	11	37	1.82
43368328--43368369	19	2.2	20	86	4	59	11	35	0	52	1.38
43374439--43374543	53	2.0	53	88	0	156	46	15	9	28	1.77
43379194--43379259	18	3.2	20	71	20	57	53	4	0	42	1.21
43383385--43383435	12	4.3	12	80	14	61	74	1	0	23	0.92
43383386--43383434	23	2.2	23	88	3	73	73	2	0	24	0.94
43386685--43386734	17	2.9	17	77	11	57	28	22	4	46	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43391295--43391327	17	1.9	17	100	0	66	24	21	6	48	1.72
43397806--43397866	21	2.8	22	87	9	90	39	27	19	13	1.89
43405710--43405782	23	3.2	23	84	5	103	41	20	16	21	1.90
43410326--43410366	21	1.9	21	85	5	55	46	7	24	21	1.77
43413128--43413178	23	2.2	23	89	0	75	41	21	7	29	1.81
43435568--43435646	37	2.1	37	88	4	115	17	8	30	43	1.80
43440984--43441064	26	3.2	25	73	18	69	32	8	14	44	1.76
43449817--43449947	64	2.0	64	98	0	253	40	14	16	28	1.88
43455851--43455925	37	2.0	37	94	0	132	22	34	13	29	1.92
43467349--43467390	19	2.3	18	80	12	50	54	0	2	42	1.13
43470647--43470710	22	2.9	22	86	4	94	21	20	14	43	1.87
43480312--43480459	66	2.2	66	84	6	188	48	12	9	29	1.72
43484028--43484069	21	2.0	22	85	4	59	38	9	19	33	1.84
43484412--43484478	34	1.9	35	90	3	109	46	10	8	34	1.70
43485629--43485661	13	2.7	13	90	9	52	36	12	15	36	1.84
43486861--43487385	51	10.4	50	80	6	478	28	15	27	29	1.96
43486844--43487389	102	5.4	102	91	2	798	28	15	27	29	1.96
43486860--43487422	151	3.7	150	75	8	496	29	14	26	29	1.95
43486844--43487389	202	2.7	204	90	3	845	28	15	27	29	1.96
43494573--43494662	22	4.1	22	89	1	119	27	16	26	28	1.97
43495225--43495663	219	2.0	219	96	0	817	26	16	25	30	1.97
43496538--43496594	17	3.1	19	77	12	64	42	7	17	33	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43498493--43498521	14	2.1	14	100	0	58	51	6	13	27	1.66
43500940--43500974	18	1.9	18	94	0	61	0	0	57	42	0.99
43500946--43500976	12	2.6	12	94	0	53	0	0	61	38	0.96
43512345--43512425	41	2.0	41	81	6	96	49	4	2	43	1.37
43514656--43514705	24	2.2	23	80	13	59	34	4	4	58	1.36
43519655--43519695	15	2.7	15	96	0	73	68	9	2	19	1.29
43519699--43519731	10	3.0	11	91	8	50	78	0	21	0	0.75
43521319--43521394	36	2.1	36	97	0	143	38	18	21	22	1.94
43521756--43521949	44	4.4	45	72	11	170	30	20	20	28	1.97
43526071--43526124	25	2.2	25	93	0	90	61	9	9	20	1.54
43528894--43529024	50	2.6	52	79	6	151	37	12	15	34	1.86
43533530--43533558	2	14.5	2	100	0	58	48	0	51	0	1.00
43552473--43552544	22	3.3	22	94	0	117	30	16	27	25	1.97
43562461--43562533	35	2.1	36	92	2	121	30	26	6	36	1.82
43562036--43562924	457	1.9	457	97	0	1679	37	16	7	37	1.77
43564689--43564823	29	4.5	29	76	13	107	33	2	14	49	1.58
43565146--43565221	36	2.1	36	87	4	109	32	10	19	36	1.86
43565146--43565232	36	2.4	36	86	3	104	33	9	17	40	1.81
43565844--43565922	17	4.6	17	75	0	68	25	8	20	45	1.79
43567625--43567658	14	2.4	14	90	0	50	38	0	11	50	1.39
43567693--43567723	2	15.5	2	100	0	62	51	0	0	48	1.00
43567875--43567972	3	31.7	3	73	15	67	62	1	6	30	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43569268--43569369	43	2.4	43	88	0	150	23	28	16	31	1.96
43569529--43569953	44	9.4	44	69	14	165	29	20	18	31	1.96
43569985--43570182	44	4.5	44	76	5	175	24	26	19	29	1.98
43569980--43570182	89	2.3	89	88	3	309	24	26	19	30	1.98
43570213--43570663	90	5.0	90	89	1	654	30	25	16	27	1.97
43570214--43570664	45	10.0	46	83	4	571	30	25	16	27	1.97
43572368--43572410	22	2.0	22	90	0	68	25	11	6	55	1.60
43572440--43572502	30	2.1	30	93	0	108	25	3	14	57	1.52
43572625--43572657	11	2.9	12	86	13	52	66	0	0	33	0.92
43576845--43576960	61	1.9	58	87	5	169	50	4	4	41	1.42

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