genome.fa.s20.2.7.7.80.10.50.1000.64.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  64  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)
20060071--20060120	21	2.3	22	83	10	59	18	34	28	20	1.95
20065587--20065814	121	1.9	121	99	0	447	37	5	20	36	1.76
20068559--20068593	18	2.0	17	88	5	52	40	11	34	14	1.82
20076479--20076557	40	2.0	39	97	0	140	22	29	12	34	1.91
20079510--20079597	41	2.1	41	100	0	176	39	20	2	37	1.65
20094775--20094816	16	2.6	16	78	14	50	33	2	7	57	1.39
20095215--20095262	20	2.3	20	92	3	78	60	6	0	33	1.22
20096964--20097003	21	2.0	20	90	5	62	20	5	5	70	1.26
20097636--20097693	29	2.0	29	86	0	80	17	20	34	27	1.95
20100250--20100401	27	5.6	27	91	2	232	30	28	14	26	1.95
20100250--20100401	55	2.8	54	89	2	232	30	28	14	26	1.95
20100250--20100401	82	1.9	82	91	0	250	30	28	14	26	1.95
20104257--20104320	20	3.2	20	79	0	65	9	14	17	59	1.60
20104277--20104342	31	2.2	30	83	2	78	7	13	16	62	1.53
20104463--20104501	20	2.0	20	84	0	51	7	23	17	51	1.71
20104460--20104529	25	2.8	25	80	4	88	5	24	18	51	1.68
20114055--20114104	20	2.3	22	80	16	59	48	2	12	38	1.52
20114911--20115706	416	1.9	416	88	2	1206	30	15	18	36	1.91
20121539--20121564	13	2.0	13	100	0	52	23	46	7	23	1.78
20129315--20129480	81	2.0	81	97	0	314	36	21	13	28	1.92
20132910--20132981	9	7.7	9	76	11	65	34	2	1	61	1.19
20132890--20132980	28	3.2	28	73	17	82	35	4	1	59	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20138072--20138397	174	1.9	174	88	1	492	41	11	24	22	1.87
20151289--20151332	21	2.1	21	100	0	88	34	18	0	47	1.49
20152548--20152578	7	4.4	7	95	0	53	45	25	0	29	1.54
20156869--20156965	24	4.1	25	73	11	71	18	22	20	38	1.94
20159426--20159516	45	2.0	45	100	0	182	29	17	24	28	1.97
20187428--20187639	94	2.3	91	82	7	239	28	17	29	24	1.97
20187423--20187639	44	4.7	45	75	13	149	28	17	29	24	1.97
20192984--20193051	35	1.9	35	85	5	93	23	20	20	35	1.96
20202621--20202665	21	2.1	21	91	0	72	44	17	22	15	1.86
20202686--20202730	20	2.3	20	82	14	58	53	4	8	33	1.52
20205016--20205275	134	1.9	134	80	0	295	31	13	13	41	1.83
20205846--20205898	13	4.1	13	72	18	56	32	5	24	37	1.79
20206674--20206713	20	2.0	20	85	9	55	32	7	0	60	1.25
20206737--20206791	28	2.0	27	82	10	67	29	9	1	60	1.38
20206752--20206801	19	2.7	19	81	12	59	28	6	2	64	1.28
20206788--20206830	19	2.3	19	84	8	52	25	4	0	69	1.07
20206798--20206847	18	2.7	18	82	11	57	24	6	4	66	1.32
20207537--20207620	9	8.4	10	67	18	50	65	2	3	28	1.22
20207526--20207583	31	1.9	30	89	6	91	60	0	6	32	1.23
20207566--20207620	20	2.8	20	79	20	62	69	3	0	27	1.05
20208262--20208303	19	2.2	20	91	4	68	35	0	2	61	1.09
20213737--20213784	24	1.9	25	83	8	62	62	4	0	33	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20215143--20215187	20	2.2	20	88	0	63	48	2	13	35	1.54
20222198--20222360	48	3.4	48	86	3	206	30	19	26	23	1.98
20222244--20222457	48	4.5	48	76	2	189	29	18	27	24	1.98
20225609--20225775	69	2.5	68	85	3	212	19	21	24	34	1.97
20234130--20234291	69	2.3	69	90	0	243	31	19	22	27	1.97
20234169--20234515	137	2.5	136	76	5	322	32	23	22	20	1.98
20236584--20236651	21	3.2	21	68	15	68	30	23	11	33	1.91
20236584--20236663	42	1.9	42	100	0	160	31	23	10	35	1.88
20241237--20241294	5	10.8	5	80	12	62	43	0	1	55	1.10
20241238--20241295	8	6.7	9	74	21	61	43	0	1	55	1.10
20241240--20241295	12	4.5	12	81	16	69	42	0	1	55	1.10
20242563--20242619	15	3.9	15	88	2	89	35	0	12	52	1.39
20242991--20243077	21	4.0	23	80	10	92	14	21	25	37	1.92
20244219--20244550	166	2.0	166	100	0	664	40	14	13	31	1.84
20245419--20245454	18	2.0	18	100	0	72	38	11	11	38	1.76
20250644--20250695	19	2.7	20	75	16	56	48	0	1	50	1.12
20255467--20255519	26	2.0	26	96	0	97	32	13	20	33	1.91
20256421--20256469	21	2.3	21	86	13	66	36	2	2	59	1.21
20256438--20256548	59	1.9	58	86	1	159	45	0	2	52	1.15
20262660--20262732	21	3.6	19	78	10	65	47	1	0	50	1.09
20262954--20263024	13	5.5	13	87	0	106	42	25	7	25	1.80
20262954--20263022	26	2.7	26	95	0	120	42	24	7	26	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20263288--20263386	51	1.9	51	89	0	153	32	16	16	35	1.91
20275691--20275750	30	2.0	30	93	0	102	58	11	0	30	1.34
20278779--20279220	127	3.5	126	88	0	607	26	14	19	38	1.91
20279710--20279789	40	2.0	40	100	0	160	40	12	15	32	1.84
20290431--20290552	64	1.9	64	93	0	208	30	16	13	39	1.88
20290628--20291382	177	4.3	177	90	2	1151	31	20	21	25	1.98
20291334--20291612	84	3.3	84	86	0	387	37	21	21	19	1.95
20293842--20294277	127	3.5	127	88	0	599	26	14	20	38	1.91
20295749--20295872	46	2.7	46	96	0	221	24	30	8	36	1.86
20299484--20299524	15	2.8	15	88	3	66	21	4	12	60	1.50
20299815--20300073	88	3.0	88	83	2	308	34	14	11	39	1.82
20300003--20300239	79	3.0	79	84	1	305	32	16	11	39	1.84
20303015--20303061	23	2.0	23	100	0	94	29	19	12	38	1.89
20314327--20314679	180	2.0	179	90	0	562	32	18	9	38	1.84
20315010--20315041	16	2.0	16	93	0	55	34	12	0	53	1.39
20315252--20315534	50	5.6	50	82	5	329	30	25	17	26	1.97
20315245--20315428	101	1.8	101	96	0	341	30	25	18	26	1.98
20315252--20315534	151	1.9	152	87	0	424	30	25	17	26	1.97
20319859--20320073	46	4.6	47	75	11	165	22	27	20	29	1.99
20319859--20320031	94	1.8	94	83	2	231	22	28	19	28	1.98
20324665--20324837	93	1.9	93	90	2	276	30	28	19	21	1.98
20324658--20324830	46	3.7	46	72	9	163	30	28	18	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20338043--20338102	30	2.0	30	90	0	93	38	8	25	28	1.84
20340786--20340817	5	6.6	5	92	7	57	81	0	0	18	0.70
20340787--20340817	9	3.3	9	95	4	53	80	0	0	19	0.71
20350589--20350659	26	2.8	25	87	4	106	28	21	25	25	1.99
20350790--20350837	25	1.9	25	91	0	78	29	14	22	33	1.94
20357945--20358030	31	2.8	31	94	1	156	24	26	17	31	1.97
20358248--20358318	26	2.8	25	89	4	106	28	22	23	25	2.00
20358365--20358412	20	2.3	21	89	3	71	33	18	12	35	1.89
20358449--20358496	25	1.9	25	91	0	78	29	14	22	33	1.94
20359608--20359632	13	1.9	13	100	0	50	76	0	24	0	0.80
20360752--20360972	46	4.8	44	78	11	162	22	29	19	28	1.98
20373238--20373336	6	16.3	6	74	10	85	18	4	1	76	0.99
20373232--20373336	17	6.2	16	74	19	90	18	3	0	77	0.98
20377055--20377276	46	4.8	46	75	11	170	22	28	20	28	1.98
20395007--20395437	214	2.0	215	96	0	803	26	13	15	44	1.84
20400617--20400693	29	2.7	29	87	0	118	49	11	9	29	1.70
20401295--20401337	23	1.9	22	86	13	61	51	13	2	32	1.54
20413093--20413145	26	2.0	26	85	0	70	43	7	5	43	1.56
20413394--20413423	11	2.8	11	95	5	53	26	0	0	73	0.84
20413488--20413519	14	2.4	13	90	10	55	15	0	0	84	0.63
20418489--20418529	20	2.0	20	100	0	82	24	0	24	51	1.49
20420503--20420659	39	4.0	39	92	2	210	30	29	22	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20426801--20427095	39	7.5	39	93	1	486	29	29	22	18	1.98
20431499--20431989	241	2.0	241	92	0	820	36	11	19	31	1.88
20432155--20432276	47	2.6	44	82	12	147	27	19	31	21	1.97
20432248--20432419	48	3.7	45	78	10	127	30	18	27	23	1.97
20432440--20432565	47	2.6	47	87	5	164	24	20	29	25	1.99
20433560--20433641	28	2.9	28	92	0	128	24	20	35	19	1.96
20433690--20434131	241	1.8	241	93	0	767	36	11	19	31	1.89
20434297--20434418	47	2.6	44	82	12	147	27	19	31	21	1.97
20434390--20434561	48	3.7	45	78	10	127	30	18	27	23	1.97
20434582--20434707	47	2.6	47	87	5	164	24	20	29	25	1.99

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