genome.fa.s9.2.7.7.80.10.50.1000.216.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  216  of  226  ( 27023 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)
67768992--67769096	25	4.2	25	76	11	106	45	19	2	32	1.65
67774682--67774860	42	4.3	42	94	0	313	22	21	21	34	1.97
67780399--67780498	45	2.2	45	83	3	121	27	19	15	39	1.91
67780483--67780569	45	1.9	45	88	4	131	25	17	10	47	1.79
67781633--67781665	15	2.1	16	88	5	50	48	0	24	27	1.51
67782509--67782589	42	1.9	42	85	5	110	19	27	37	16	1.93
67782448--67782689	104	2.3	105	85	2	326	22	21	33	23	1.98
67783643--67783712	35	2.0	35	100	0	140	22	14	20	42	1.88
67784173--67784226	19	2.6	20	77	14	56	37	1	0	61	1.07
67784179--67784228	19	2.4	21	80	16	59	38	0	0	62	0.96
67795780--67795826	15	3.1	15	73	11	51	40	8	21	29	1.83
67795773--67795836	30	2.1	31	91	2	103	39	6	26	28	1.80
67797410--67797496	45	1.9	45	92	0	147	43	10	13	32	1.78
67815674--67815736	30	2.1	30	96	0	117	57	12	3	26	1.51
67819719--67819756	20	1.9	20	100	0	76	28	28	10	31	1.90
67821467--67821529	29	2.2	29	79	0	72	50	11	6	31	1.63
67823362--67823398	18	2.1	17	90	5	56	48	0	8	43	1.32
67825125--67825293	87	1.9	87	85	3	232	35	12	15	36	1.85
67828231--67828257	5	5.4	5	100	0	54	22	0	0	77	0.76
67834335--67834367	2	16.0	2	93	6	57	48	3	0	48	1.17
67835270--67835315	22	2.2	21	85	14	60	45	0	2	52	1.13
67836599--67836644	23	2.0	23	86	0	65	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67844732--67844770	11	3.5	11	86	6	51	10	33	2	53	1.48
67845506--67845782	44	6.3	43	83	7	240	29	24	13	33	1.93
67845533--67845782	88	2.8	88	87	2	340	30	24	13	32	1.94
67845533--67845782	133	1.9	131	85	5	340	30	24	13	32	1.94
67845884--67846201	44	7.2	44	64	9	153	28	22	18	30	1.98
67846037--67846242	43	4.7	44	65	18	124	26	23	19	30	1.98
67845761--67846297	132	4.1	132	91	0	860	27	23	18	30	1.97
67846289--67846669	89	4.3	88	88	3	534	26	22	17	32	1.97
67846289--67846687	44	9.0	44	81	4	446	27	23	17	31	1.97
67848957--67848998	18	2.3	18	83	0	57	64	7	16	11	1.48
67853743--67853781	11	3.5	11	86	6	51	10	33	2	53	1.48
67856379--67856412	13	2.5	13	95	4	59	88	11	0	0	0.52
67863831--67863907	18	4.3	18	85	6	84	41	23	10	24	1.85
67863833--67863907	27	2.8	27	85	0	105	40	24	10	25	1.87
67864010--67864053	18	2.4	18	88	0	61	13	2	43	40	1.57
67874399--67874447	19	2.5	19	80	9	55	38	0	4	57	1.18
67874372--67874460	28	3.1	27	80	9	72	39	0	3	57	1.15
67875973--67876038	2	32.5	2	90	3	105	46	3	1	48	1.26
67881258--67881284	7	3.9	7	100	0	54	25	0	0	74	0.83
67882144--67882195	20	2.5	21	68	6	52	59	3	1	34	1.27
67882250--67882298	3	16.3	3	100	0	98	32	0	0	67	0.91
67889268--67889438	85	2.0	85	85	2	227	42	18	11	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67903759--67903839	40	2.0	40	100	0	162	50	7	14	27	1.69
67904230--67904283	19	2.8	19	94	0	90	38	20	7	33	1.80
67904744--67904910	43	3.9	42	78	7	167	26	17	26	29	1.97
67905671--67905732	31	2.0	31	84	6	81	40	9	6	43	1.63
67907498--67907526	6	4.8	6	100	0	58	17	13	34	34	1.89
67907748--67907777	3	10.0	3	100	0	60	66	0	33	0	0.92
67909782--67909829	15	3.2	15	81	0	60	45	16	0	37	1.48
67910042--67910103	29	2.2	29	80	8	74	58	3	8	30	1.43
67911415--67911475	15	4.1	15	80	0	77	32	14	1	50	1.53
67912770--67912857	7	12.7	7	74	2	61	38	35	5	20	1.76
67912866--67912894	13	2.1	14	93	6	51	20	0	31	48	1.50
67912897--67912945	21	2.3	21	85	0	71	20	8	30	40	1.81
67913707--67913758	22	2.3	22	83	3	68	48	0	1	50	1.12
67914542--67914585	13	3.5	13	75	12	56	56	6	2	34	1.38
67914541--67914592	24	2.2	24	92	0	86	57	5	1	34	1.33
67920551--67920667	34	3.4	34	83	0	99	35	5	15	43	1.71
67927302--67927363	27	2.3	27	97	0	115	37	0	12	50	1.41
67928368--67928586	72	3.1	70	79	6	244	46	12	5	35	1.65
67928345--67928548	72	2.8	72	76	8	220	46	12	6	34	1.69
67932159--67932206	25	1.9	25	95	0	87	56	0	8	35	1.30
67932591--67932731	40	3.5	40	82	1	174	17	24	17	40	1.91
67937116--67937145	10	2.8	11	95	5	53	70	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67937799--67937840	20	2.1	20	90	0	66	11	26	19	42	1.85
67937805--67937850	20	2.3	20	80	0	56	13	21	26	39	1.90
67950534--67950573	21	1.9	21	89	0	62	25	2	10	62	1.39
67951489--67951634	70	2.1	72	89	2	224	26	7	7	58	1.53
67951596--67951679	27	3.3	26	75	21	72	25	3	3	67	1.22
67951614--67951679	27	2.4	27	85	5	80	25	4	3	66	1.25
67959377--67959625	50	4.8	50	84	4	291	20	28	23	26	1.99
67959376--67959625	100	2.4	104	87	5	346	20	28	23	26	1.99
67959720--67959750	13	2.4	13	94	0	53	54	12	0	32	1.38
67959963--67960020	30	1.9	30	89	0	89	31	24	3	41	1.71
67965539--67965787	50	4.8	50	84	4	291	20	28	23	26	1.99
67965538--67965787	100	2.4	104	87	5	346	20	28	23	26	1.99
67965882--67965912	13	2.4	13	94	0	53	54	12	0	32	1.38
67966125--67966182	30	1.9	30	92	0	98	32	24	3	39	1.72
67969093--67969150	17	3.6	16	75	15	57	58	1	0	39	1.08
67969490--67969520	9	3.3	9	95	4	53	41	0	0	58	0.98
67979524--67980255	366	2.0	367	95	0	1331	29	24	17	27	1.97
67983562--67983665	27	3.9	27	72	7	95	29	18	31	20	1.96
67994383--67994426	18	2.4	18	81	11	54	56	2	0	40	1.11
67995299--67995341	2	21.5	2	100	0	86	51	0	0	48	1.00
67995956--67996180	104	2.2	104	82	4	265	25	22	29	22	1.99
67995956--67996192	105	2.3	104	81	3	271	24	21	30	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67999183--67999231	21	2.4	21	86	6	66	73	0	6	20	1.04
68001013--68001071	20	2.9	19	74	18	57	27	0	22	50	1.49
68001152--68001191	20	2.0	21	85	5	55	47	5	15	32	1.66
68005881--68005906	2	13.0	2	100	0	52	50	0	0	50	1.00
68006495--68006543	5	10.4	5	93	6	61	65	0	2	32	1.04
68007520--68007544	12	2.1	12	100	0	50	76	0	0	24	0.80
68007511--68007560	21	2.2	23	83	16	61	66	2	0	32	1.03
68008571--68008742	86	2.0	86	96	0	317	42	24	14	18	1.88
68011335--68011398	20	3.3	20	76	8	53	57	3	0	39	1.14
68014879--68014967	37	2.4	37	84	1	115	23	37	17	21	1.94
68018488--68018528	18	2.3	18	86	0	64	31	7	7	53	1.56
68019777--68019892	3	37.7	3	86	8	153	28	4	1	65	1.21
68019999--68020023	2	12.5	2	100	0	50	52	0	0	48	1.00
68024112--68024173	5	12.2	5	80	16	74	79	1	16	3	0.95
68024110--68024159	9	5.2	9	85	9	64	84	0	14	2	0.72
68025378--68025849	86	5.5	86	90	1	730	28	23	23	25	2.00
68025801--68026116	89	3.6	89	89	1	490	29	24	23	21	1.99
68025722--68026127	45	9.2	45	71	12	297	28	24	23	23	2.00
68026213--68026397	44	4.2	45	69	9	130	28	21	23	27	1.99
68026107--68026414	132	2.4	131	92	1	510	28	19	24	27	1.98
68026381--68027014	82	7.7	82	93	1	1047	30	24	20	23	1.98
68028745--68028855	3	34.7	3	83	13	125	29	2	1	65	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68028962--68028986	2	12.5	2	100	0	50	52	0	0	48	1.00
68030088--68030122	16	2.1	18	89	10	56	60	0	0	40	0.97
68032116--68032181	27	2.5	26	85	9	89	31	1	3	63	1.19
68032143--68032182	18	2.2	19	91	8	66	30	0	0	70	0.88
68032116--68032192	27	2.9	27	83	9	79	33	1	3	61	1.23
68035015--68035130	30	3.9	30	80	0	124	31	27	26	13	1.94
68035684--68035817	30	4.5	30	71	6	110	16	25	27	30	1.97
68035684--68035817	60	2.2	60	80	5	146	16	25	27	30	1.97
68036045--68036088	19	2.2	20	88	8	72	40	11	15	31	1.83
68036147--68036322	44	4.0	44	95	0	307	21	17	19	41	1.90

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226