genome.fa.s20.2.7.7.80.10.50.1000.100.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  100  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)
32759731--32759770	21	1.9	21	89	0	62	30	12	32	25	1.92
32767004--32767094	21	4.2	21	80	8	92	20	5	54	18	1.63
32767042--32767094	24	2.2	24	93	0	88	16	3	58	20	1.54
32767211--32767434	96	2.5	88	82	11	297	14	19	30	35	1.92
32767252--32767442	96	2.0	96	91	0	310	14	18	31	35	1.90
32770985--32771027	19	2.4	18	85	11	61	25	32	0	41	1.56
32794536--32794584	24	2.0	24	100	0	98	24	20	12	42	1.86
32798964--32799026	26	2.4	27	81	2	65	30	14	23	31	1.94
32801082--32801110	15	1.9	15	100	0	58	58	0	0	41	0.98
32803931--32804063	56	2.4	56	89	2	196	26	12	25	35	1.92
32803931--32804092	56	2.9	54	79	14	159	26	13	25	34	1.93
32809428--32809495	35	1.9	35	96	0	127	23	23	29	23	1.99
32812116--32812226	20	5.5	21	69	17	65	54	9	19	16	1.70
32813630--32813675	22	2.1	22	95	0	83	30	21	13	34	1.91
32817234--32817289	26	2.2	25	87	3	76	33	14	1	50	1.53
32818002--32818230	125	1.8	125	88	1	352	28	17	15	38	1.90
32821861--32821926	33	2.0	33	96	0	123	30	15	25	28	1.96
32832055--32832304	44	5.7	44	67	11	136	28	17	27	27	1.97
32832032--32832551	177	3.0	175	85	4	664	29	17	26	26	1.98
32833907--32834107	55	3.7	53	78	4	170	21	23	18	35	1.95
32838196--32838226	16	1.9	16	93	0	53	35	22	0	41	1.54
32838193--32838232	20	2.0	20	85	0	53	37	22	0	40	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32838305--32838349	23	1.9	24	90	4	74	22	24	11	42	1.86
32838477--32838672	55	3.6	53	79	6	189	21	25	16	35	1.95
32841371--32841436	28	2.3	29	82	7	73	31	10	3	54	1.50
32841454--32841493	19	2.1	19	100	0	80	27	0	5	67	1.11
32845259--32845424	43	3.9	43	82	5	185	25	16	27	31	1.96
32850211--32850266	21	2.7	20	76	13	67	64	1	8	25	1.32
32850218--32850270	23	2.4	22	84	12	72	64	1	7	26	1.31
32850948--32850987	3	13.3	3	100	0	80	35	0	0	65	0.93
32854938--32854979	14	2.9	15	78	7	50	40	4	2	52	1.35
32854939--32854982	15	3.0	15	80	6	54	38	4	2	54	1.33
32867838--32867939	51	2.0	51	92	0	168	39	3	21	35	1.72
32868465--32868571	48	2.2	48	93	3	180	34	5	28	30	1.80
32868712--32868814	37	2.8	37	89	0	161	23	17	32	27	1.97
32870550--32870752	41	5.0	41	79	5	198	28	13	23	34	1.93
32870550--32870752	82	2.5	81	81	4	228	28	13	23	34	1.93
32874485--32874608	44	2.6	46	81	13	128	26	27	15	30	1.96
32874478--32874655	95	1.9	96	84	4	243	25	26	17	29	1.97
32880924--32880973	21	2.4	21	93	0	91	22	30	36	12	1.90
32882109--32882327	46	4.7	47	76	13	188	23	29	19	27	1.98
32884653--32884678	13	2.0	13	100	0	52	38	23	15	23	1.92
32889051--32889110	29	2.1	29	83	0	75	35	26	10	28	1.89
32893094--32893285	47	4.1	47	91	0	294	32	9	30	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32893404--32893482	37	2.1	37	90	0	122	24	18	31	25	1.98
32895486--32895604	54	2.2	54	80	0	130	20	30	24	25	1.99
32902427--32902466	20	2.0	20	85	0	53	27	27	20	25	1.99
32903925--32903971	13	3.5	13	82	2	58	70	0	27	2	0.99
32903943--32903981	18	2.1	19	85	4	53	69	0	28	2	1.02
32906507--32906550	19	2.2	20	84	4	54	31	27	20	20	1.97
32907993--32908048	25	2.3	23	77	17	60	66	0	32	1	1.03
32910786--32910815	15	2.1	15	93	6	53	53	13	0	33	1.40
32923720--32923746	6	4.5	6	100	0	54	51	0	0	48	1.00
32926136--32926193	20	2.9	19	80	14	64	50	1	5	43	1.35
32927191--32927255	28	2.3	28	82	10	80	36	0	21	41	1.53
32927194--32927340	79	1.9	76	81	6	179	35	0	24	40	1.56
32928499--32928538	21	2.0	21	90	5	64	30	2	17	50	1.59
32934469--32935925	488	3.0	488	97	0	2738	36	15	21	26	1.93
32940131--32940170	21	2.0	21	90	5	64	30	2	17	50	1.59
32941946--32942022	38	2.0	38	97	0	145	24	20	25	28	1.99
32943463--32943539	37	2.1	37	100	0	154	16	18	12	51	1.75
32944154--32944190	18	2.1	18	94	0	65	32	10	8	48	1.67
32945308--32945382	34	2.2	34	79	9	82	46	0	2	50	1.15
32945308--32945372	33	1.9	34	81	9	80	47	0	3	49	1.17
32950886--32950942	28	2.0	28	100	0	114	57	10	0	31	1.32
32953468--32953521	16	3.5	16	73	16	60	50	0	5	44	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32953721--32953748	9	3.1	9	100	0	56	78	0	21	0	0.75
32961677--32961763	21	4.0	23	79	10	83	37	24	21	16	1.93
32962136--32962192	15	3.9	15	90	2	89	50	12	0	36	1.40
32963463--32963524	5	12.4	5	100	0	124	59	0	0	40	0.97
32967733--32967885	35	4.4	35	74	0	135	30	9	18	41	1.81
32976982--32977059	11	6.5	12	71	25	51	44	1	2	51	1.23
32976942--32977067	61	2.0	61	84	9	162	43	2	3	50	1.34
32977011--32977075	24	2.6	25	82	7	87	47	0	3	49	1.17
32976982--32977059	5	13.0	6	69	28	51	44	1	2	51	1.23
32989228--32989284	20	2.8	21	84	5	64	43	26	3	26	1.70
32989211--32989267	21	2.8	20	82	10	64	40	24	3	31	1.72
33000133--33000177	19	2.5	18	82	7	56	48	0	0	51	1.00
33000274--33000332	23	2.7	21	71	23	50	37	6	10	45	1.65
33006249--33006275	14	1.9	14	100	0	54	48	7	0	44	1.31
33013661--33013774	45	2.6	45	84	5	144	35	23	20	21	1.96
33013661--33013935	44	6.3	43	72	10	186	36	22	20	20	1.96
33013745--33014078	44	7.7	44	67	11	186	36	21	22	19	1.95
33013701--33014078	86	4.3	86	81	2	425	35	21	22	19	1.96
33013740--33014078	173	2.0	173	83	1	439	36	21	22	19	1.95
33014280--33014438	44	3.6	44	70	9	126	31	18	21	28	1.97
33014280--33014546	132	2.0	132	83	1	329	31	16	23	28	1.96
33014497--33014642	45	3.3	43	76	13	143	34	12	27	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33014885--33014942	30	1.9	30	100	0	116	24	34	13	27	1.93
33030394--33030544	40	3.8	40	85	2	182	32	16	19	31	1.94
33047647--33047718	21	3.3	23	81	13	89	37	26	22	13	1.92
33064018--33064197	47	3.8	49	79	15	200	28	29	20	21	1.98
33064026--33064197	94	1.8	93	93	1	299	28	29	20	20	1.98
33064617--33064676	30	2.0	30	90	0	93	30	25	8	36	1.85
33066215--33066322	43	2.5	43	78	3	128	25	15	24	35	1.94
33079311--33079349	20	2.0	20	89	0	60	48	0	12	38	1.42
33080452--33080505	20	2.8	19	80	5	63	22	27	25	24	2.00
33080686--33080736	20	2.6	19	75	6	57	23	23	25	27	2.00
33082271--33082316	23	2.0	23	95	0	83	26	32	21	19	1.97
33082315--33082588	48	5.7	48	80	4	232	24	27	17	30	1.97
33090027--33090182	48	3.2	48	80	3	136	23	28	19	28	1.98
33092242--33092279	17	2.2	17	100	0	76	15	26	18	39	1.91
33094893--33094927	15	2.2	16	90	5	54	54	8	2	34	1.46
33102453--33102485	7	4.7	7	96	0	57	60	15	24	0	1.35
33102658--33102691	14	2.4	14	90	0	50	0	44	2	52	1.16
33114392--33114442	19	2.6	19	87	9	68	74	0	5	19	1.02
33115390--33115428	19	2.0	20	90	5	62	48	17	0	33	1.48
33116102--33116143	21	2.0	22	90	4	68	42	16	4	35	1.69
33117646--33117679	15	2.3	15	90	10	52	2	20	2	73	1.09
33117736--33117769	11	2.8	12	86	13	52	50	0	2	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33118841--33118873	10	3.4	10	87	4	50	90	0	9	0	0.44
33118841--33118875	18	2.1	16	89	10	52	88	0	11	0	0.51
33119855--33119880	11	2.4	11	100	0	52	65	0	34	0	0.93
33119857--33119888	16	1.9	17	93	6	57	62	3	34	0	1.11
33122393--33122418	1	26.0	1	100	0	52	0	100	0	0	0.00
33131116--33131199	42	2.0	42	95	0	150	42	15	23	17	1.88
33133047--33133153	48	2.2	48	96	0	196	26	16	14	42	1.87
33133085--33133226	64	2.2	64	87	0	221	25	13	14	46	1.81
33135213--33135313	40	2.5	40	95	0	184	24	6	21	46	1.76
33135997--33136037	21	2.0	21	90	0	64	36	34	19	9	1.85

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