genome.fa.s20.2.7.7.80.10.50.1000.74.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  74  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)
23807995--23808345	40	8.8	40	98	0	659	25	22	27	24	2.00
23816871--23817158	48	6.0	48	79	2	317	26	28	18	27	1.98
23816875--23817158	96	2.9	96	88	1	408	26	28	17	27	1.98
23816879--23817158	144	1.9	145	84	5	370	26	28	17	27	1.98
23823866--23824097	56	4.1	56	98	0	437	45	9	22	22	1.81
23829204--23829350	44	3.4	43	79	4	152	40	20	17	22	1.92
23831892--23832264	185	2.0	186	87	1	534	24	26	26	23	2.00
23832968--23833152	38	4.9	38	76	6	142	35	27	21	16	1.95
23832965--23833172	76	2.8	76	83	3	242	35	26	21	16	1.94
23833144--23833185	16	2.6	16	84	0	57	38	26	21	14	1.91
23835272--23835304	16	2.1	16	94	0	57	42	36	9	12	1.74
23835594--23835795	43	4.7	43	83	2	210	31	18	24	25	1.97
23835594--23835800	86	2.4	86	80	1	236	30	18	25	25	1.98
23835872--23835937	31	2.1	31	88	0	96	48	21	10	19	1.79
23836193--23836233	21	2.0	21	95	0	73	2	53	14	29	1.54
23836196--23836241	21	2.2	21	88	0	65	6	52	13	28	1.65
23836654--23836682	13	2.1	14	93	6	51	55	10	0	34	1.34
23841459--23841611	9	18.0	9	74	15	96	38	1	15	44	1.55
23841496--23841605	18	6.0	18	76	12	107	40	1	14	43	1.56
23841514--23841625	56	2.0	56	92	0	188	39	1	14	44	1.55
23841874--23842537	104	6.4	104	87	7	930	54	3	5	35	1.42
23842045--23842071	5	5.4	5	100	0	54	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23841865--23842170	111	2.9	107	86	7	460	55	2	5	35	1.38
23841874--23842537	209	3.2	207	87	9	925	54	3	5	35	1.42
23843051--23843091	16	2.8	16	78	17	52	60	19	12	7	1.54
23850931--23851470	27	20.2	27	83	3	583	39	20	9	30	1.84
23851425--23851516	27	3.4	27	87	0	121	38	16	16	29	1.90
23851974--23851999	11	2.4	11	100	0	52	26	0	19	53	1.45
23865225--23865343	50	2.4	50	92	0	202	35	12	23	28	1.91
23865326--23865393	31	2.2	31	89	0	100	29	16	26	27	1.97
23867793--23867965	43	4.0	43	78	11	174	24	17	25	32	1.96
23867803--23867980	86	2.1	87	78	7	193	24	16	25	33	1.96
23878892--23878987	48	2.0	48	95	0	174	37	6	20	35	1.78
23887454--23887502	25	2.0	25	88	8	73	28	18	22	30	1.97
23887651--23887712	31	2.1	30	82	17	76	45	8	17	29	1.77
23888047--23888106	25	2.4	25	78	10	61	16	11	23	48	1.79
23890518--23890581	30	2.1	30	91	0	101	26	25	12	35	1.91
23898276--23898310	17	2.1	17	94	0	61	31	20	5	42	1.75
23901180--23901329	60	2.5	60	93	0	255	28	26	17	28	1.98
23901373--23901416	19	2.2	20	84	4	54	34	25	18	22	1.96
23902644--23902680	16	2.2	17	86	13	51	67	0	27	5	1.12
23921273--23921363	31	3.0	31	80	13	116	43	4	0	51	1.21
23921313--23921369	6	9.0	6	77	11	60	40	1	0	57	1.09
23921287--23921385	29	3.3	29	81	17	105	44	3	0	52	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23923526--23923840	46	6.7	46	73	15	225	28	20	28	22	1.98
23923526--23923840	94	3.4	94	90	4	442	28	20	28	22	1.98
23923570--23923844	140	2.0	142	82	4	342	28	20	29	22	1.98
23924792--23924847	28	2.0	29	89	3	87	12	23	46	17	1.82
23925611--23925712	50	2.0	50	96	0	186	37	4	22	35	1.76
23925851--23926505	40	16.4	40	92	0	1076	25	20	27	27	1.99
23926533--23926689	57	2.8	57	88	0	206	22	17	28	31	1.97
23926562--23926689	29	4.5	27	77	9	112	21	16	29	32	1.95
23926565--23926675	29	3.9	29	78	11	120	22	16	28	32	1.95
23930503--23930881	47	8.1	47	87	0	508	34	10	28	27	1.89
23930855--23931037	46	4.0	46	91	0	276	35	9	30	24	1.87
23938359--23938499	40	3.5	40	81	6	151	29	24	19	26	1.99
23938349--23938515	40	4.2	40	82	3	140	28	23	20	26	1.99
23943679--23943810	65	2.0	65	98	0	255	34	18	13	33	1.90
23944032--23944162	63	2.1	63	97	1	246	32	28	3	35	1.75
23951084--23952053	40	24.3	40	98	0	1816	24	20	27	27	1.99
23955542--23955830	46	6.3	46	88	5	422	30	28	20	20	1.98
23955542--23955830	139	2.1	137	88	4	379	30	28	20	20	1.98
23956074--23956223	75	2.0	75	97	0	282	35	18	6	39	1.77
23956565--23956756	96	2.0	96	96	0	357	43	20	17	18	1.88
23957943--23958041	50	1.9	53	89	6	159	29	32	22	16	1.95
23960611--23960637	14	1.9	14	100	0	54	81	0	0	18	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23960714--23960767	28	1.9	28	92	0	90	51	3	20	24	1.63
23963366--23963394	14	2.0	15	93	6	51	31	13	0	55	1.39
23965061--23965104	5	8.8	5	90	9	72	81	0	0	18	0.68
23966402--23966441	16	2.5	16	83	0	53	37	5	0	57	1.21
23968366--23968415	24	2.0	25	96	3	93	46	8	24	22	1.78
23970440--23970478	18	2.1	19	86	13	55	51	0	2	46	1.14
23974812--23974863	15	3.2	15	73	19	50	46	0	0	53	1.00
23974825--23974861	19	1.9	19	88	0	56	51	0	0	48	1.00
23974878--23974918	13	2.9	14	77	22	50	41	0	0	58	0.98
23974878--23974914	15	2.3	17	86	13	60	37	0	0	62	0.96
23974900--23974935	18	1.9	18	88	5	54	58	0	0	41	0.98
23974946--23974976	16	1.9	16	93	0	53	48	0	0	51	1.00
23975528--23975614	12	6.9	13	76	17	53	52	1	2	43	1.21
23975531--23975614	26	3.4	25	79	11	91	52	1	2	44	1.21
23975540--23975682	63	2.3	63	83	7	173	54	2	1	41	1.21
23979217--23979255	19	2.1	19	100	0	78	35	0	23	41	1.55
23982496--23982552	24	2.4	24	93	0	96	36	8	31	22	1.85
23984953--23985194	47	5.1	47	86	4	322	32	12	30	25	1.92
23984953--23985194	94	2.5	96	89	2	362	32	12	30	25	1.92
23985168--23985258	46	2.0	46	84	0	119	32	9	31	25	1.89
23985405--23985513	37	2.9	37	94	0	182	23	19	30	26	1.98
23994576--23994658	39	2.3	36	86	12	116	51	18	14	15	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23994587--23994666	39	2.0	40	95	2	144	50	20	13	16	1.78
24008746--24008852	28	3.8	28	93	0	169	28	25	11	34	1.90
24015094--24015126	16	2.1	16	88	11	50	30	6	15	48	1.69
24020057--24020105	24	2.0	24	100	0	98	28	8	20	42	1.80
24027353--24027393	21	1.9	22	90	5	66	31	2	9	56	1.45
24032763--24032789	13	2.1	13	100	0	54	22	25	7	44	1.79
24034637--24034694	30	1.9	30	92	0	98	31	31	10	27	1.90
24038041--24038180	74	1.9	74	95	0	253	25	25	16	32	1.96
24040671--24040761	14	6.6	14	74	18	50	70	1	16	12	1.23
24041724--24041822	40	2.6	37	73	14	94	15	23	30	31	1.95
24047600--24047642	8	5.4	8	91	0	59	39	16	23	20	1.92
24047854--24047912	29	2.1	28	93	3	100	28	13	27	30	1.94
24052055--24052085	16	1.9	16	93	0	53	35	22	0	41	1.54
24052052--24052091	20	2.0	20	85	0	53	37	22	0	40	1.54
24052164--24052208	23	1.9	24	86	4	65	22	22	11	44	1.84
24052274--24052460	55	3.5	53	72	13	166	22	24	17	35	1.95
24054886--24054944	29	2.1	28	90	3	91	28	11	27	32	1.92
24057847--24057907	15	4.2	14	76	13	61	73	3	18	4	1.14
24057852--24057926	15	5.2	14	76	14	55	74	2	18	4	1.09
24059050--24059099	26	1.9	26	84	8	66	48	0	18	34	1.48
24061534--24061705	49	3.5	49	74	10	138	22	28	21	27	1.99
24061651--24061848	48	4.2	46	75	11	172	23	27	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24069098--24069154	28	2.0	28	96	0	105	19	28	15	36	1.92
24076716--24076740	13	1.9	13	100	0	50	76	8	0	16	1.02
24077511--24077635	44	2.8	43	80	8	135	43	13	19	24	1.87
24085902--24085934	16	2.0	17	88	5	50	42	12	15	30	1.83
24089010--24089061	24	2.2	23	83	16	63	76	5	3	13	1.10
24089111--24089176	21	3.1	21	78	8	62	77	3	4	15	1.06
24089152--24089205	17	3.1	16	77	15	54	70	1	3	24	1.13
24089589--24089646	30	1.9	30	89	0	89	18	39	22	18	1.92
24095429--24095749	162	2.0	162	96	0	597	26	11	15	46	1.80
24101162--24101206	18	2.6	17	82	3	54	31	0	6	62	1.21

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