genome.fa.s20.2.7.7.80.10.50.1000.126.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  126  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)
41924374--41924425	20	2.6	20	84	0	59	34	7	21	36	1.82
41930601--41930710	23	4.8	23	79	9	109	25	24	18	31	1.97
41930601--41930744	46	3.1	45	83	10	148	25	22	17	34	1.96
41930633--41930744	24	4.8	24	85	6	140	25	21	16	36	1.94
41933157--41933215	25	2.4	25	82	5	75	57	1	0	40	1.09
41933929--41933962	16	2.2	15	89	5	50	55	0	0	44	0.99
41934028--41934085	30	1.9	30	82	6	73	46	12	8	32	1.71
41939664--41939830	43	3.9	43	76	3	158	34	22	13	29	1.92
41944667--41944720	26	2.1	25	82	3	63	55	3	7	33	1.45
41948199--41948256	28	2.1	28	93	0	98	34	20	10	34	1.87
41960948--41960976	11	2.7	11	94	5	51	17	0	0	82	0.66
41964160--41964202	22	2.0	22	95	0	77	41	11	16	30	1.83
41965889--41966069	40	4.6	40	88	2	258	26	25	22	24	2.00
41968758--41968791	5	6.6	5	93	6	59	17	0	2	79	0.86
41968758--41968788	16	1.9	16	100	0	62	19	0	3	77	0.90
41972865--41972924	13	4.8	12	76	13	50	33	0	3	63	1.11
41972873--41972932	20	3.1	19	77	13	52	35	0	5	60	1.19
41975067--41975246	46	3.9	46	84	0	234	39	15	25	20	1.91
41975065--41975241	92	1.9	92	90	0	282	40	14	25	19	1.90
41975527--41975559	17	2.0	17	94	5	59	48	0	15	36	1.45
41977928--41978021	46	2.0	47	85	2	127	24	23	22	29	1.99
41982688--41982734	20	2.3	20	85	7	60	29	8	2	59	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41983060--41983086	7	3.9	7	100	0	54	14	0	11	74	1.08
41985611--41985682	24	3.0	24	67	13	58	36	2	4	56	1.33
41986946--41987006	17	3.7	17	75	18	58	67	0	1	31	1.01
41986946--41987002	15	3.7	15	76	19	55	66	0	1	31	1.02
41992522--41992556	16	2.2	16	95	5	63	25	5	22	45	1.74
41994131--41994176	19	2.4	19	77	0	56	30	4	2	63	1.26
41996163--41996206	17	2.6	17	96	0	79	27	18	15	38	1.91
41997998--41998070	14	5.1	14	66	18	51	46	0	1	52	1.09
41997968--41998128	61	2.7	59	83	10	193	42	0	2	54	1.18
42003849--42003882	18	1.9	18	94	5	61	26	11	5	55	1.58
42006850--42006897	21	2.3	21	88	0	69	29	4	2	64	1.23
42012407--42012444	20	1.9	20	94	0	67	28	2	0	68	1.03
42016423--42016456	18	1.9	18	94	5	61	26	11	5	55	1.58
42032600--42032632	3	11.0	3	100	0	66	66	0	0	33	0.92
42037624--42037717	47	2.0	49	85	4	129	30	8	25	35	1.86
42040971--42041193	46	4.8	44	76	11	189	23	28	20	28	1.99
42042740--42042770	14	2.2	14	100	0	62	25	6	19	48	1.72
42043399--42043438	18	2.2	19	86	13	57	50	12	0	37	1.41
42045550--42045587	18	2.2	16	90	9	58	21	7	0	71	1.11
42057680--42057709	3	10.3	3	92	7	53	70	0	0	30	0.88
42059993--42060057	16	4.1	16	80	11	62	35	3	1	60	1.22
42061671--42061722	16	3.3	15	77	17	52	59	0	1	38	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42067734--42067819	43	2.0	43	97	0	163	30	17	13	38	1.89
42069353--42069479	45	2.9	45	83	8	138	23	26	23	25	2.00
42069796--42069913	43	2.7	43	90	0	191	29	33	24	12	1.92
42076637--42076757	46	2.7	44	85	7	145	24	28	19	26	1.99
42076637--42076805	46	3.6	46	78	7	130	24	28	19	26	1.99
42078432--42078601	41	4.2	40	72	18	143	28	27	21	22	1.99
42082666--42082805	37	3.8	37	82	0	181	36	16	15	32	1.90
42082667--42082827	37	4.4	37	77	4	110	37	15	15	31	1.89
42088927--42089008	26	3.2	26	89	0	137	32	8	24	34	1.86
42090807--42090881	33	2.2	34	79	9	82	28	18	24	29	1.98
42092100--42092134	16	2.2	16	89	0	52	62	17	5	14	1.49
42098510--42098537	3	9.3	3	100	0	56	32	0	0	67	0.91
42099381--42099458	6	12.8	6	76	12	70	47	15	16	20	1.83
42099401--42099481	31	2.6	31	90	2	126	49	14	14	20	1.79
42099618--42099719	27	3.8	26	88	5	132	36	20	24	18	1.95
42099878--42099939	22	2.8	23	82	7	74	33	22	22	20	1.97
42100397--42100690	80	3.7	80	93	2	457	24	20	19	34	1.96
42100369--42100690	27	12.0	27	88	1	434	25	21	19	34	1.96
42100397--42100722	107	3.0	107	83	6	419	26	19	19	35	1.95
42100678--42100859	27	6.8	27	79	9	149	30	8	19	41	1.82
42100678--42100876	54	3.7	53	78	4	170	30	8	20	40	1.82
42100734--42100876	27	5.3	27	78	5	128	28	6	20	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42100712--42100876	81	2.0	82	84	3	217	29	7	19	43	1.79
42100709--42100897	54	3.5	53	75	5	150	30	7	19	41	1.80
42100880--42101858	27	36.3	27	98	0	1787	37	4	25	32	1.77
42101873--42101957	27	3.2	26	81	6	98	29	8	22	40	1.83
42105488--42105554	32	2.1	32	88	0	98	40	0	26	32	1.57
42105488--42105554	16	4.2	16	90	0	89	40	0	26	32	1.57
42106210--42106246	18	2.1	18	89	0	56	32	13	10	43	1.79
42107396--42107444	15	3.3	15	77	11	64	53	0	22	24	1.47
42112784--42112824	12	3.4	13	80	16	52	75	0	0	24	0.80
42112786--42112824	16	2.5	16	87	4	53	76	0	0	23	0.78
42120737--42120783	23	2.0	23	95	0	85	42	4	6	46	1.48
42121532--42121565	17	2.0	18	88	11	54	44	50	0	5	1.26
42122102--42122132	14	2.3	14	94	5	55	0	19	0	80	0.71
42122103--42122144	16	2.6	16	85	14	59	0	21	0	78	0.75
42123241--42123289	22	2.1	24	81	11	57	32	4	6	57	1.42
42135416--42135926	259	2.0	259	98	0	979	33	17	18	31	1.94
42135845--42136690	75	11.1	75	89	6	1265	28	17	22	31	1.97
42135845--42136884	150	6.8	150	85	9	1339	28	17	22	31	1.96
42136238--42136884	225	2.8	228	89	5	914	28	17	22	31	1.97
42136517--42136852	165	2.0	163	88	6	493	27	16	20	35	1.94
42136442--42136913	239	2.0	238	86	6	659	27	17	21	33	1.96
42136683--42136914	73	3.1	74	83	9	267	28	15	21	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42137123--42137234	44	2.5	44	88	0	152	28	16	27	27	1.97
42138067--42138107	14	3.0	14	92	3	66	0	17	0	82	0.66
42138728--42138773	3	15.3	3	100	0	92	32	0	0	67	0.91
42139137--42139182	18	2.5	19	82	10	60	39	2	0	58	1.10
42139256--42139322	28	2.3	29	80	16	77	31	2	7	58	1.41
42139278--42139322	16	3.1	15	81	12	58	33	0	6	60	1.23
42139282--42139321	18	2.2	19	86	4	55	35	0	5	60	1.19
42139366--42139418	21	2.5	22	82	8	58	35	5	5	52	1.49
42139658--42139713	3	18.7	3	83	7	69	30	7	0	62	1.22
42139648--42139701	27	2.0	27	96	0	99	25	7	1	64	1.30
42141653--42141797	74	1.9	74	84	2	166	39	15	8	36	1.78
42141714--42148816	776	9.1	775	82	6	7912	37	18	12	31	1.88
42144696--42144884	101	1.9	101	88	2	290	38	19	14	28	1.90
42144801--42148816	754	5.3	768	88	4	5597	36	18	12	31	1.89
42149506--42149583	39	2.0	39	94	0	138	25	7	28	38	1.83
42150844--42151715	39	22.3	39	98	0	1620	18	22	30	29	1.97
42155671--42155796	40	3.2	40	94	1	209	26	26	23	23	2.00
42157099--42157132	13	2.5	13	90	9	50	47	14	2	35	1.60
42158167--42158591	218	1.9	219	99	0	834	42	14	14	28	1.85
42164856--42165229	50	7.7	50	76	16	299	22	32	19	25	1.97
42166980--42167094	54	2.1	54	90	3	178	23	33	20	22	1.98
42167983--42168105	35	3.5	35	82	0	129	43	28	7	21	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42168706--42168746	19	2.2	19	90	0	64	41	26	0	31	1.56
42171401--42171443	20	2.0	22	86	8	63	62	0	9	27	1.25
42171549--42171594	19	2.5	19	77	19	53	56	4	6	32	1.45
42172494--42172532	16	2.5	15	88	12	60	25	2	0	71	0.98
42174000--42174036	18	2.1	18	90	10	58	35	0	0	64	0.94
42174005--42174052	23	2.0	24	88	11	73	31	0	0	68	0.90
42174534--42174606	17	4.4	17	72	18	55	42	1	2	53	1.23
42175515--42175550	12	3.0	12	91	0	54	41	0	8	50	1.33
42180038--42180078	16	2.5	17	80	15	50	31	2	0	65	1.05
42180091--42180179	45	2.0	45	100	0	178	42	2	5	49	1.38

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