genome.fa.s10.2.7.7.80.10.50.1000.34.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_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  34  of  172  ( 20562 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)
10646788--10646832	20	2.1	22	84	12	58	44	15	8	31	1.77
10651557--10651710	42	3.7	42	76	10	127	29	25	16	29	1.96
10659152--10659315	42	3.9	42	81	7	172	30	26	14	28	1.95
10660765--10660812	20	2.4	20	100	0	96	20	14	29	35	1.93
10662428--10662603	46	3.8	46	79	12	207	20	20	29	29	1.98
10662425--10662596	93	1.8	93	94	0	308	20	20	29	28	1.98
10667215--10667274	25	2.5	23	86	7	84	63	3	1	31	1.20
10667225--10667296	25	2.7	26	77	14	76	56	5	1	36	1.31
10667503--10667550	22	2.1	24	85	11	66	68	0	2	29	1.01
10667705--10667755	9	5.6	9	76	19	52	27	0	0	72	0.85
10667711--10667744	11	3.1	11	100	0	68	35	0	0	64	0.94
10668356--10668404	23	2.2	22	85	10	64	42	0	0	57	0.99
10669103--10669157	15	3.6	16	80	7	69	43	0	0	56	0.99
10669104--10669157	23	2.3	24	84	6	67	44	0	0	55	0.99
10669146--10669185	9	3.9	10	87	12	55	50	0	0	50	1.00
10679860--10679940	35	2.3	35	80	4	92	22	17	24	35	1.95
10693255--10693288	15	2.3	15	90	5	52	64	2	0	32	1.08
10696567--10696596	15	2.0	15	100	0	60	46	13	26	13	1.80
10699295--10699322	11	2.5	11	100	0	56	39	0	0	60	0.97
10702226--10702373	43	3.5	41	80	9	149	33	21	18	26	1.96
10702667--10702714	21	2.3	21	88	0	69	2	56	18	22	1.52
10706240--10706276	17	2.2	17	95	0	65	35	0	27	37	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10706250--10706366	47	2.5	47	85	1	144	30	8	32	28	1.87
10706489--10706568	37	2.2	37	88	0	115	25	16	30	28	1.96
10708685--10708716	16	2.0	16	100	0	64	37	25	12	25	1.91
10717032--10717101	24	2.9	24	77	10	79	47	8	4	40	1.54
10717818--10717863	24	1.9	24	100	0	92	58	8	15	17	1.61
10718731--10718764	14	2.4	14	95	0	59	44	47	0	8	1.34
10719028--10719086	7	8.4	7	75	0	55	40	42	1	15	1.57
10719187--10719232	15	3.1	15	76	14	51	36	41	0	21	1.54
10719261--10719290	14	2.1	14	100	0	60	56	23	0	20	1.42
10719447--10719493	14	3.5	13	82	2	58	48	29	0	21	1.50
10720259--10720338	41	1.9	41	82	7	99	27	18	21	32	1.97
10720168--10720535	155	2.4	155	79	5	368	29	19	20	30	1.97
10720289--10720567	155	1.8	155	80	3	346	27	19	21	31	1.97
10720563--10720664	40	2.5	40	80	4	98	30	21	17	30	1.96
10720599--10720676	40	2.0	40	89	0	120	30	24	14	30	1.94
10727717--10727793	36	2.2	35	84	9	95	28	2	2	66	1.18
10728851--10728991	51	3.1	44	72	16	124	21	16	28	33	1.95
10728892--10728998	51	2.1	52	87	1	153	22	16	28	31	1.96
10731623--10731792	94	1.8	92	83	7	227	28	20	28	22	1.98
10731620--10731924	138	2.2	138	80	5	321	27	19	28	24	1.98
10731807--10731972	93	1.8	92	82	8	214	27	18	27	27	1.98
10734517--10734686	94	1.8	92	83	7	227	28	20	28	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10734514--10734818	138	2.2	138	80	5	321	27	19	28	24	1.98
10734701--10734866	93	1.8	92	82	8	214	27	18	27	27	1.98
10737143--10737283	51	3.1	43	78	16	151	19	17	30	31	1.95
10742052--10742127	40	1.9	40	86	0	107	34	34	11	19	1.89
10748781--10748873	40	2.4	36	72	11	87	30	35	15	19	1.92
10748802--10748879	40	2.0	40	84	0	102	32	33	15	19	1.93
10761948--10762310	47	7.7	46	73	9	225	23	27	19	28	1.98
10761948--10762310	94	3.9	94	78	7	373	23	27	19	28	1.98
10771597--10771781	79	2.3	81	84	7	236	24	22	27	25	2.00
10771598--10771781	40	4.6	40	83	9	216	24	22	27	25	2.00
10771650--10771814	79	2.1	79	84	6	210	26	21	27	25	1.99
10777793--10777825	17	1.9	17	88	11	50	24	0	0	75	0.80
10778093--10778141	12	4.3	12	73	23	52	26	2	22	48	1.61
10785539--10785602	27	2.4	27	86	5	85	43	34	3	18	1.66
10785525--10785602	27	3.0	25	80	15	79	42	33	2	21	1.67
10787387--10787447	22	2.6	22	80	10	61	21	6	3	68	1.27
10791646--10791680	6	5.8	6	93	0	61	14	2	0	82	0.77
10792748--10792777	15	2.0	15	93	0	51	13	26	10	50	1.73
10798721--10798842	28	4.3	28	76	8	129	28	13	31	25	1.94
10798721--10798843	29	4.3	28	76	10	124	28	13	32	25	1.94
10807938--10808113	40	4.4	40	90	2	266	25	26	23	24	2.00
10814474--10814597	29	4.4	28	75	11	135	29	16	29	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10819633--10819707	21	3.5	22	72	18	68	77	2	5	14	1.06
10819636--10819707	26	2.7	27	76	8	76	77	2	4	15	1.03
10819806--10819901	5	19.2	5	75	15	76	73	2	3	20	1.07
10828788--10828828	22	1.9	22	85	5	57	39	0	7	53	1.29
10829202--10829256	28	2.0	28	100	0	110	40	9	7	43	1.64
10831496--10831581	27	3.2	28	90	4	124	34	22	22	20	1.96
10833975--10834021	10	4.6	10	80	12	51	55	27	0	17	1.42
10836899--10837059	42	3.7	43	77	12	161	27	18	26	27	1.98
10844002--10844026	8	3.1	8	100	0	50	40	12	24	24	1.88
10852105--10852252	43	3.4	44	77	5	160	34	27	15	22	1.94
10854021--10854252	40	5.8	40	98	0	437	28	29	20	21	1.98
10881863--10882001	42	3.2	42	77	9	136	30	23	18	27	1.98
10892270--10892425	43	3.7	41	83	11	183	32	25	19	22	1.97
10896518--10896593	36	2.1	36	95	0	134	23	3	30	42	1.72
10896790--10896847	30	1.9	30	89	0	89	34	13	24	27	1.93
10897184--10897503	46	6.7	50	73	18	215	26	18	30	24	1.98
10898629--10898655	13	2.1	13	100	0	54	14	37	33	14	1.88
10913728--10913904	49	3.7	49	87	4	218	26	29	17	25	1.97
10913727--10914138	49	8.7	47	75	9	200	25	30	16	27	1.97
10913727--10914141	94	4.4	95	73	12	302	25	30	16	27	1.97
10916161--10916187	6	4.5	6	100	0	54	48	0	18	33	1.49
10918201--10918246	20	2.3	20	92	0	74	34	21	6	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10918240--10918273	15	2.2	16	89	5	52	41	14	5	38	1.70
10926114--10926168	29	2.0	29	85	7	78	29	5	0	65	1.15
10937919--10937997	40	1.9	43	82	12	103	17	26	0	55	1.42
10945060--10945120	30	2.0	30	93	0	104	27	18	21	32	1.96
10946261--10946308	21	2.4	20	83	13	55	45	2	12	39	1.54
10947872--10947910	15	2.6	15	88	8	53	20	20	0	58	1.39
10949533--10949567	5	6.6	5	87	12	52	37	2	0	60	1.12
10949509--10949572	20	3.7	17	79	12	60	37	3	3	56	1.31
10949544--10949659	59	2.0	58	86	10	164	41	4	2	51	1.35
10954845--10954894	16	2.9	17	75	16	57	48	2	4	46	1.32
10963340--10963421	29	2.8	30	87	5	105	51	1	26	20	1.55
10964142--10964191	22	2.3	20	80	12	55	76	8	12	4	1.15
10964267--10964320	25	2.2	25	89	0	81	16	11	1	70	1.25
10967290--10967341	26	2.0	26	100	0	104	19	15	23	42	1.89
10969376--10969426	23	2.3	23	86	6	70	54	5	0	39	1.24
10969464--10969509	23	2.0	23	100	0	92	52	21	8	17	1.71
10973286--10973318	17	1.9	17	93	0	57	72	0	0	27	0.85
10973288--10973330	23	1.9	23	90	4	70	72	2	0	25	0.97
10973288--10973335	22	2.2	22	85	7	62	70	4	0	25	1.04
10978874--10978899	8	3.2	8	100	0	52	76	0	0	23	0.78
10988046--10988075	5	5.8	5	96	4	51	76	3	0	20	0.92
10989192--10989249	21	2.9	21	82	5	66	44	15	24	15	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10989211--10989253	21	2.0	21	90	0	68	41	11	25	20	1.86
10994530--10994591	21	2.9	22	72	11	58	12	37	29	20	1.90
11001046--11001101	25	2.2	25	100	0	112	30	28	26	14	1.95
11002850--11002917	30	2.2	32	79	10	79	48	22	10	19	1.78
11004162--11004516	47	7.6	45	74	10	277	27	21	29	21	1.99
11004165--11004525	94	3.9	93	77	10	362	27	20	29	22	1.98
11004162--11004525	141	2.6	140	77	8	348	27	21	29	21	1.99
11004575--11005670	548	2.0	548	100	0	2192	30	11	19	38	1.88
11006390--11006431	3	14.0	3	89	0	66	71	0	28	0	0.86
11011507--11012109	212	2.9	211	91	2	955	40	10	6	42	1.65

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