genome.fa.s20.2.7.7.80.10.50.1000.121.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: At_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  121  of  186  ( 22216 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)
40068145--40068464	96	3.3	94	81	6	349	25	27	20	27	1.99
40068144--40068462	144	2.2	146	84	4	405	25	27	20	27	1.99
40068145--40068477	48	6.9	49	83	5	286	25	27	19	27	1.99
40070947--40070980	17	1.9	18	94	5	61	17	23	41	17	1.90
40078243--40078299	20	2.8	20	74	10	62	43	17	24	14	1.86
40078223--40078323	40	2.5	40	85	3	123	42	17	27	11	1.85
40083268--40083306	21	1.9	20	89	5	60	41	25	7	25	1.82
40088393--40088577	79	2.3	81	80	6	207	25	27	22	24	2.00
40088374--40088577	40	5.1	40	79	8	211	25	27	22	25	2.00
40093004--40093062	28	2.1	28	96	0	109	37	27	8	27	1.85
40098084--40098207	46	2.7	46	82	6	153	29	17	28	24	1.97
40098267--40098374	49	2.2	49	80	3	110	31	21	26	20	1.98
40103714--40103764	20	2.7	19	82	14	54	41	0	21	37	1.54
40104396--40104522	46	2.8	46	84	9	170	28	20	29	21	1.98
40104583--40104707	49	2.6	49	83	2	153	28	20	29	22	1.98
40114667--40114852	40	4.7	40	83	6	193	24	21	27	26	1.99
40120273--40120327	26	2.1	26	100	0	110	30	29	16	23	1.96
40121754--40121784	10	3.2	10	90	9	55	0	9	0	90	0.46
40121754--40121784	9	3.3	9	95	4	53	0	9	0	90	0.46
40131860--40131920	30	2.0	30	83	0	77	31	22	8	37	1.84
40137954--40138085	40	3.4	39	74	12	126	30	23	19	26	1.98
40139881--40139919	20	2.0	20	84	0	51	51	0	2	46	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40140374--40140408	15	2.2	16	90	5	54	51	0	0	48	1.00
40154920--40154958	20	2.0	20	84	0	51	25	5	2	66	1.25
40157774--40157931	78	2.0	78	97	0	298	32	12	17	36	1.88
40157955--40158006	24	2.2	24	89	0	77	55	9	1	32	1.43
40165003--40165067	32	2.0	32	84	0	85	44	4	9	41	1.57
40165148--40165212	32	2.0	32	84	0	85	44	4	9	41	1.57
40164976--40165577	145	4.2	145	97	0	1132	40	12	10	37	1.77
40165293--40165357	32	2.0	32	84	0	85	44	4	9	41	1.57
40165438--40165502	32	2.0	32	84	0	85	44	4	9	41	1.57
40170913--40171041	49	2.6	49	80	4	145	22	26	21	29	1.99
40171059--40171179	46	2.6	46	82	2	143	23	28	18	29	1.98
40174695--40174965	29	9.4	29	75	6	165	37	13	24	24	1.91
40174765--40174965	29	6.9	29	78	6	174	38	13	24	22	1.91
40184995--40185262	29	9.2	29	80	2	214	38	14	23	22	1.92
40186960--40187186	49	4.5	49	84	6	276	29	14	29	26	1.95
40186966--40187154	101	1.9	99	88	6	283	29	13	29	28	1.94
40192206--40192231	10	2.6	10	100	0	52	23	0	0	76	0.78
40195544--40195626	24	3.4	24	74	11	71	34	19	20	25	1.96
40204184--40204230	16	2.9	16	75	12	51	44	0	0	55	0.99
40204187--40204234	14	2.9	17	74	25	50	45	0	0	54	0.99
40205946--40206020	37	2.1	36	94	2	132	25	16	17	41	1.89
40209912--40209938	5	5.4	5	100	0	54	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40210860--40210912	16	3.3	15	74	10	52	33	7	24	33	1.84
40218092--40218123	5	6.4	5	100	0	64	40	0	0	59	0.97
40218341--40218382	13	3.2	13	86	6	57	78	0	21	0	0.75
40218340--40218372	17	2.0	17	94	5	59	78	0	21	0	0.75
40226489--40226685	42	4.7	42	82	2	216	46	15	19	18	1.84
40226489--40226685	84	2.3	84	86	0	268	46	15	19	18	1.84
40226489--40226663	21	8.3	21	77	0	161	46	16	18	18	1.84
40232704--40232782	21	3.9	21	66	3	63	41	12	26	18	1.87
40232721--40232907	21	9.0	21	64	10	71	44	13	20	20	1.85
40232718--40232916	42	4.8	42	77	6	183	46	13	20	19	1.84
40234554--40234761	53	3.9	53	86	3	276	27	27	11	32	1.91
40235692--40235755	17	4.0	16	72	15	53	60	0	1	37	1.06
40235895--40235960	32	2.1	32	91	0	105	18	3	16	62	1.46
40238166--40238209	19	2.4	19	85	7	56	50	0	9	40	1.34
40247341--40247385	15	3.2	13	87	12	54	15	8	2	73	1.18
40249761--40250031	136	2.0	136	93	0	461	28	17	9	44	1.79
40251170--40251230	30	2.0	30	83	0	77	31	22	8	37	1.84
40253967--40254014	25	1.9	25	95	0	87	35	10	14	39	1.80
40256931--40256963	16	2.0	17	94	5	59	36	12	0	51	1.39
40257250--40257517	46	5.8	46	81	2	288	20	22	14	42	1.88
40257294--40257519	91	2.5	92	87	0	319	20	22	14	42	1.89
40257245--40257507	137	1.9	137	85	0	364	20	21	15	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40269142--40269184	18	2.4	18	77	14	52	46	6	9	37	1.63
40269654--40269763	27	4.0	27	88	6	143	30	12	24	32	1.92
40276408--40276433	7	3.7	7	100	0	52	30	11	26	30	1.92
40286024--40286147	62	2.0	62	93	0	212	35	25	15	24	1.94
40294092--40294231	48	2.9	48	92	1	219	27	19	23	30	1.98
40295313--40295371	30	2.0	30	86	0	82	23	25	27	23	2.00
40297893--40297937	20	2.3	20	88	3	65	33	17	22	26	1.96
40297928--40298042	60	1.9	60	80	7	135	29	17	23	29	1.97
40303726--40303759	16	2.1	16	88	0	50	44	2	17	35	1.64
40305175--40305222	21	2.2	22	81	7	53	18	2	8	70	1.22
40306387--40306437	20	2.5	20	83	0	66	43	39	7	9	1.67
40311207--40311261	26	2.3	23	74	17	56	29	12	29	29	1.93
40322884--40323120	116	2.0	117	98	0	458	35	16	8	39	1.79
40330595--40330629	17	2.1	17	89	10	54	40	0	2	57	1.14
40331131--40331249	30	4.0	29	78	12	109	55	0	0	42	1.11
40331255--40331299	20	2.2	21	88	4	65	42	4	2	51	1.34
40331249--40331298	21	2.4	22	83	10	68	42	4	2	52	1.31
40331600--40331668	19	3.6	19	100	0	138	36	11	15	36	1.84
40332292--40332380	44	2.0	44	86	4	126	43	2	8	44	1.48
40342553--40342584	15	2.1	15	100	0	64	18	6	6	68	1.32
40344163--40344275	37	3.1	36	74	18	101	39	2	5	52	1.38
40346625--40346726	47	2.2	47	83	3	125	34	23	19	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40347646--40347700	27	2.0	27	82	6	67	7	16	7	69	1.35
40348105--40348137	3	11.3	3	87	6	50	60	0	3	36	1.12
40352976--40353105	67	2.0	66	95	1	233	31	20	22	25	1.98
40353711--40353776	25	2.6	25	92	0	105	22	18	24	34	1.96
40353836--40353886	27	1.9	27	84	4	68	49	1	17	31	1.58
40353868--40353944	13	5.8	13	73	4	55	46	2	15	35	1.60
40353953--40353977	13	1.9	13	100	0	50	48	4	16	32	1.64
40358019--40358236	40	5.5	40	92	2	334	23	23	27	25	2.00
40360350--40360377	3	9.3	3	100	0	56	32	0	0	67	0.91
40361690--40361830	3	47.3	3	70	14	51	21	7	5	65	1.39
40361754--40361840	21	4.1	21	71	16	63	22	5	5	65	1.36
40362016--40362067	13	3.9	12	80	12	50	28	3	3	63	1.30
40362487--40362843	127	2.8	127	83	3	407	27	17	16	38	1.91
40367179--40367212	4	8.8	4	87	6	52	76	0	23	0	0.79
40367176--40367215	11	3.5	11	86	6	62	80	0	20	0	0.72
40367185--40367221	19	1.9	19	88	0	56	78	2	18	0	0.87
40368795--40368915	64	1.9	64	94	0	215	30	17	15	36	1.91
40369293--40369461	44	3.8	44	81	2	187	28	17	24	29	1.97
40371019--40371243	3	75.3	3	69	14	81	24	7	4	63	1.40
40371439--40371501	28	2.2	28	83	5	74	31	3	3	61	1.27
40371714--40371765	13	3.9	12	80	12	50	28	3	3	63	1.30
40372812--40372854	18	2.4	18	88	0	59	16	20	18	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40376564--40376601	19	2.0	19	89	0	58	26	7	18	47	1.76
40379731--40380634	39	23.2	39	99	0	1754	35	20	30	12	1.90
40390671--40390718	17	2.9	16	88	11	78	68	0	0	31	0.90
40391493--40391596	54	1.9	54	84	3	138	26	1	19	51	1.57
40391504--40392037	128	4.2	128	87	1	732	28	6	19	45	1.75
40395937--40395981	22	2.0	22	91	0	72	48	15	2	33	1.57
40399710--40399754	22	2.0	22	91	0	72	48	15	2	33	1.57
40418407--40418446	20	2.0	20	100	0	80	50	0	0	50	1.00
40418402--40418446	20	2.4	18	85	7	54	46	2	0	51	1.13
40423646--40423979	171	1.9	170	84	8	446	48	10	29	12	1.73

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