genome.fa.s11.2.7.7.80.10.50.1000.168.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  168  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)
50420213--50420266	24	2.2	24	80	0	63	40	3	5	50	1.44
50420925--50421005	28	2.9	28	81	0	90	20	14	7	56	1.62
50420895--50421013	28	4.2	28	76	3	87	20	17	8	53	1.69
50422279--50422348	32	2.2	32	82	14	83	24	38	18	18	1.93
50423552--50423787	90	2.6	90	83	0	301	27	24	14	33	1.95
50423837--50423939	51	2.0	51	98	0	197	26	11	26	35	1.90
50424561--50424604	23	2.0	23	81	4	54	45	11	4	38	1.61
50425507--50425563	28	2.0	28	100	0	114	40	7	0	52	1.28
50426756--50426869	58	2.0	58	92	0	192	34	7	16	41	1.78
50427166--50427235	29	2.5	28	84	6	88	47	5	1	45	1.35
50427631--50427672	19	2.2	20	91	4	68	40	0	4	54	1.21
50436960--50437151	96	2.0	96	100	0	384	33	15	12	38	1.85
50438608--50439034	109	3.9	109	91	0	678	35	18	16	29	1.93
50439060--50439104	21	2.2	21	88	11	67	60	2	8	28	1.39
50441150--50441486	131	2.6	131	91	1	532	28	24	17	29	1.97
50441522--50442100	50	11.7	50	70	4	319	23	21	22	31	1.98
50441506--50442112	99	6.1	100	87	2	751	24	21	22	32	1.98
50447406--50447914	254	2.0	254	94	0	885	19	30	13	36	1.90
50454167--50454594	109	3.9	109	92	0	687	35	19	16	29	1.93
50454620--50454664	21	2.2	21	88	11	67	60	2	8	28	1.39
50469650--50469712	33	1.9	33	90	0	99	33	23	19	23	1.97
50472940--50472976	18	2.1	18	89	0	56	8	18	32	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50473838--50473868	6	5.0	6	96	4	53	3	32	16	48	1.62
50474530--50474554	5	5.0	5	100	0	50	20	0	0	80	0.72
50479682--50479722	22	1.9	22	90	5	66	34	7	7	51	1.58
50479791--50479825	17	2.0	18	88	5	54	60	2	0	37	1.12
50480432--50480476	19	2.4	18	81	7	54	55	2	8	33	1.43
50480440--50480485	21	2.2	22	77	14	53	45	2	6	45	1.41
50494571--50494603	17	1.9	18	88	11	52	42	9	0	48	1.35
50496217--50496386	51	3.4	49	78	5	169	24	17	27	31	1.97
50496376--50496408	14	2.4	14	94	0	57	24	18	24	33	1.97
50501798--50501972	51	3.5	51	77	3	149	25	16	25	32	1.96
50501962--50502012	14	3.6	14	97	0	93	21	17	27	33	1.96
50502014--50502108	45	2.1	45	92	0	163	26	18	24	30	1.98
50506564--50506592	14	2.0	15	93	6	51	27	0	20	51	1.47
50506784--50506840	28	2.0	28	90	6	89	56	0	5	38	1.22
50507745--50507900	42	3.7	41	72	14	138	26	18	24	30	1.98
50510540--50510678	59	2.4	58	85	7	192	40	12	28	18	1.88
50525428--50525476	5	9.6	5	86	4	71	40	0	18	40	1.50
50525921--50525984	23	2.7	23	82	7	74	18	26	20	34	1.96
50525921--50526023	49	2.1	47	84	7	127	18	25	21	34	1.96
50528626--50528681	16	3.4	16	82	2	58	41	7	10	41	1.67
50528814--50528868	3	18.3	3	100	0	110	34	0	0	65	0.93
50529060--50529091	5	6.4	5	100	0	64	21	0	0	78	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50538597--50538638	5	8.4	5	94	0	75	23	19	16	40	1.91
50551770--50551796	13	2.1	13	100	0	54	48	14	0	37	1.45
50556689--50557009	95	3.4	93	81	3	365	36	14	18	30	1.91
50556689--50557041	190	1.9	190	82	2	449	36	14	18	30	1.91
50556689--50557050	95	3.8	94	81	2	359	36	14	18	29	1.91
50556973--50557310	130	2.6	130	83	1	408	38	17	15	28	1.90
50561077--50561111	11	3.1	11	87	4	52	77	0	5	17	0.96
50576704--50576749	23	2.0	24	91	4	76	67	0	2	30	1.03
50585855--50585888	15	2.3	15	94	0	59	64	17	0	17	1.29
50585895--50585932	13	2.8	14	80	19	53	65	7	5	21	1.38
50586026--50586071	22	2.0	22	84	12	58	78	2	6	13	1.04
50585987--50586062	15	4.6	15	72	24	64	75	3	6	14	1.16
50586663--50586701	13	3.0	13	81	11	53	74	2	0	23	0.94
50586668--50586702	15	2.2	16	90	5	54	77	2	0	20	0.90
50588173--50588511	44	7.8	44	72	10	153	28	20	20	30	1.97
50588095--50588524	217	2.0	219	87	1	623	28	20	20	30	1.98
50588853--50588996	44	3.3	44	67	7	121	29	24	18	27	1.98
50588828--50588997	88	1.9	88	89	0	259	27	25	18	28	1.98
50589174--50589230	15	3.8	15	97	0	105	26	31	5	36	1.79
50590278--50590315	18	2.2	18	90	4	60	0	18	0	81	0.69
50591090--50591155	25	2.6	25	83	9	71	56	6	18	19	1.62
50599119--50599259	57	2.5	57	83	2	167	37	2	21	39	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50616362--50616397	18	2.0	18	94	0	63	58	0	0	41	0.98
50619494--50619630	2	68.5	2	76	5	107	42	2	54	1	1.21
50621477--50621542	18	3.6	18	70	10	53	42	3	0	54	1.15
50622111--50622172	30	2.1	30	100	0	124	37	27	6	29	1.82
50635765--50635904	70	2.0	70	100	0	280	37	18	15	28	1.92
50636286--50636764	88	5.6	85	78	10	329	35	13	10	40	1.78
50636469--50636762	85	3.4	85	84	7	323	34	13	11	40	1.81
50636948--50637283	87	3.8	86	73	15	265	45	9	11	33	1.71
50636948--50637278	179	1.9	174	84	5	441	46	9	11	33	1.72
50636986--50637283	87	3.4	87	77	7	307	45	9	10	34	1.71
50637275--50637299	13	1.9	13	100	0	50	36	8	0	56	1.29
50643317--50643644	31	10.6	31	75	8	276	46	14	5	33	1.67
50643317--50643657	92	3.7	91	83	4	364	46	14	5	34	1.66
50643821--50644094	91	3.0	91	69	18	246	41	21	7	29	1.80
50643652--50644169	180	2.8	181	90	4	781	43	20	8	28	1.80
50660402--50660448	21	2.3	21	85	3	69	57	8	6	27	1.53
50663268--50663338	3	24.3	3	77	11	67	25	1	5	67	1.20
50666783--50666875	29	3.3	27	71	14	73	40	0	2	56	1.11
50666829--50666879	15	3.5	15	71	15	52	43	0	1	54	1.11
50668940--50668973	17	2.0	17	94	0	59	38	0	5	55	1.24
50672517--50672781	131	2.0	132	97	2	496	37	6	21	34	1.79
50675023--50675064	20	2.1	20	86	0	57	47	0	7	45	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50685141--50685178	19	2.0	20	89	5	60	36	5	2	55	1.37
50687957--50688033	28	2.8	26	80	11	66	23	7	29	38	1.83
50690587--50690627	21	2.0	21	95	0	73	21	12	12	53	1.70
50692169--50692257	25	3.6	24	77	6	79	34	23	22	19	1.96
50692202--50692373	25	6.9	24	71	11	82	33	20	25	19	1.97
50694013--50694061	25	2.0	24	84	4	62	40	0	0	59	0.98
50694059--50694097	18	2.2	18	86	4	53	43	2	0	53	1.14
50696937--50697013	33	2.4	31	81	16	93	32	28	11	27	1.92
50696958--50697021	33	1.9	33	93	0	110	34	26	9	29	1.88
50697209--50697408	41	4.9	41	85	3	233	21	28	21	29	1.98
50701641--50701726	42	2.0	42	100	0	172	22	19	20	37	1.95
50703707--50703766	21	3.0	21	75	4	61	51	21	5	21	1.66
50706159--50706200	21	1.9	23	85	9	61	30	7	21	40	1.80
50715935--50715993	29	2.0	30	86	3	84	25	8	16	49	1.74
50716139--50716217	31	2.6	30	78	5	88	40	13	10	35	1.79
50716483--50716541	3	19.7	3	100	0	118	32	0	0	67	0.91
50721697--50721873	95	1.9	95	85	0	246	40	13	15	29	1.86
50724130--50724180	21	2.4	21	90	6	77	13	23	33	29	1.93
50725954--50726017	33	1.9	33	96	0	119	26	17	26	29	1.97
50728772--50728805	2	17.0	2	100	0	68	50	0	0	50	1.00
50735534--50735633	48	2.1	48	96	0	182	28	25	19	28	1.98
50753771--50753878	37	2.9	37	75	2	101	46	20	5	27	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50755326--50755371	12	3.9	12	77	11	51	2	26	0	71	0.97
50756270--50756382	42	2.7	42	86	5	156	21	23	35	20	1.96
50756848--50756903	29	2.0	28	82	10	69	39	16	10	33	1.83
50758219--50758244	11	2.4	11	100	0	52	38	0	0	61	0.96
50759281--50759323	21	2.0	22	81	4	52	32	4	0	62	1.15
50759291--50759330	21	1.9	21	85	10	55	30	2	0	67	1.04
50763206--50763244	20	2.0	20	100	0	78	46	10	15	28	1.78
50770574--50770613	20	2.1	19	90	4	62	47	7	0	45	1.31
50770575--50770615	11	4.0	11	84	15	52	51	7	0	41	1.30
50777317--50777383	34	1.9	35	84	3	91	44	13	8	32	1.75

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