genome.fa.s16.2.7.7.80.10.50.1000.98.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  98  of  175  ( 20966 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)
31295993--31296039	23	2.0	23	88	8	69	72	12	2	12	1.21
31297365--31297405	3	14.0	3	84	5	57	29	2	0	68	1.03
31301662--31301712	20	2.5	20	78	12	59	29	11	13	45	1.79
31304951--31304981	15	2.1	15	100	0	62	0	25	0	74	0.82
31316634--31316735	50	2.0	50	100	0	204	35	1	28	34	1.69
31322741--31322978	125	1.9	124	87	4	354	28	14	23	33	1.94
31323868--31323916	16	2.9	16	74	11	53	61	0	0	38	0.96
31323967--31324008	22	1.9	22	90	0	66	33	0	33	33	1.58
31324010--31324093	22	3.9	22	86	7	118	39	0	29	30	1.57
31336328--31336376	23	2.1	23	96	0	89	44	32	8	14	1.74
31338815--31338902	21	4.2	21	75	2	79	15	19	18	46	1.84
31338832--31338970	42	3.3	42	82	1	172	14	23	18	43	1.86
31338906--31338974	21	3.3	21	66	8	50	14	27	18	39	1.90
31344976--31345137	77	2.1	77	97	0	306	41	7	9	41	1.66
31345496--31345573	26	3.3	24	67	22	58	43	1	0	55	1.08
31345428--31345560	56	2.3	57	82	10	155	43	0	3	53	1.16
31345518--31345550	11	3.0	11	91	8	50	42	0	0	57	0.98
31345675--31345764	45	2.0	45	82	6	112	36	23	4	35	1.75
31346428--31346454	6	4.5	6	100	0	54	51	14	18	14	1.76
31354907--31354934	5	5.6	5	100	0	56	17	0	0	82	0.68
31367502--31367537	18	2.0	18	94	0	63	58	0	0	41	0.98
31370609--31370673	7	9.8	6	77	14	58	63	0	1	35	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31370609--31370673	13	4.9	12	75	17	58	63	0	1	35	1.04
31370609--31370663	19	2.9	19	82	15	69	63	0	1	34	1.05
31370607--31370681	7	11.0	7	72	17	52	61	0	1	37	1.05
31371047--31371090	22	2.0	21	83	12	54	50	4	2	43	1.35
31371163--31371195	14	2.4	14	100	0	66	30	0	0	69	0.88
31376125--31376178	27	2.0	27	85	10	74	72	7	11	9	1.29
31376850--31376901	7	7.4	7	95	0	86	30	0	0	69	0.89
31385829--31385858	14	2.1	15	93	6	53	63	3	0	33	1.11
31390218--31390277	24	2.5	24	80	0	75	30	0	5	65	1.14
31392736--31392777	22	2.0	21	90	4	66	57	0	4	38	1.20
31392730--31392786	28	2.1	27	83	3	69	57	0	5	36	1.21
31392806--31392852	3	15.7	3	82	8	60	59	0	4	36	1.17
31394374--31394639	92	3.0	89	83	5	338	27	24	17	30	1.97
31394405--31394644	44	5.3	44	70	14	159	27	23	17	31	1.97
31394805--31394989	100	1.9	100	89	4	293	24	24	20	30	1.99
31406846--31406887	2	21.0	2	83	9	50	50	0	4	45	1.23
31406916--31406965	3	16.7	3	83	8	66	60	0	4	36	1.16
31408258--31408299	20	2.0	22	86	9	61	45	0	0	54	0.99
31408343--31408399	15	3.5	15	71	17	51	49	1	1	47	1.22
31409251--31409473	96	2.3	96	81	3	261	30	34	21	14	1.93
31409250--31409474	48	4.7	48	81	0	234	30	34	20	14	1.92
31415063--31415101	18	2.1	18	86	13	53	46	7	0	46	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31416865--31416890	13	2.0	13	100	0	52	61	0	23	15	1.33
31417672--31417736	28	2.3	28	89	0	94	29	4	4	61	1.36
31420037--31420070	17	2.1	16	88	5	50	58	5	5	29	1.45
31420580--31420658	31	2.5	31	81	10	88	39	29	0	31	1.57
31420745--31420789	19	2.2	21	77	18	51	6	35	0	57	1.25
31422745--31422790	17	2.8	18	84	15	64	28	41	30	0	1.56
31428261--31428519	69	3.8	69	77	5	220	38	11	34	15	1.84
31430714--31430747	16	2.1	16	89	10	52	38	5	2	52	1.41
31435634--31435669	19	1.9	18	88	5	54	58	5	5	30	1.44
31437242--31437273	9	3.6	9	91	0	55	40	0	0	59	0.97
31443895--31443935	21	1.9	22	95	5	75	29	12	0	58	1.34
31444829--31444882	26	2.1	26	92	0	90	33	20	20	25	1.97
31451084--31451227	74	2.0	72	87	4	209	15	9	15	58	1.63
31451200--31451243	19	2.3	19	88	0	61	15	9	22	52	1.71
31460074--31460110	19	2.0	19	89	5	58	27	18	0	54	1.44
31462163--31462205	22	2.0	22	81	9	52	25	11	4	58	1.52
31463115--31463166	15	3.2	15	73	19	50	44	0	1	53	1.11
31463202--31463252	17	2.9	18	74	8	52	60	1	0	37	1.08
31468033--31468096	26	2.6	24	74	13	67	45	1	0	53	1.10
31468028--31468096	25	2.7	26	75	18	74	44	1	0	53	1.09
31471879--31471908	3	10.0	3	100	0	60	0	33	0	66	0.92
31477636--31477693	9	6.4	9	85	0	62	39	24	10	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31477858--31477912	27	2.0	27	96	0	101	38	1	25	34	1.67
31477915--31477992	38	2.0	39	95	2	140	17	2	28	51	1.59
31477973--31477997	13	1.9	13	100	0	50	12	0	48	40	1.40
31479116--31479177	32	1.9	32	83	6	81	17	19	17	45	1.86
31480558--31480621	19	3.3	19	89	8	101	39	9	14	37	1.78
31480559--31480634	21	3.7	21	92	3	120	40	10	11	36	1.76
31480626--31480670	21	2.0	23	83	8	58	37	4	13	44	1.64
31480827--31480865	19	2.0	21	85	10	55	15	10	5	69	1.34
31481087--31481126	3	13.3	3	84	10	55	32	0	0	67	0.91
31481071--31481125	15	3.7	15	74	16	53	30	0	1	67	1.01
31481073--31481124	12	4.1	12	80	14	52	28	0	1	69	0.99
31481383--31481503	51	2.4	48	80	10	118	31	4	6	57	1.46
31487737--31487776	17	2.4	17	91	0	62	72	2	15	10	1.21
31487739--31487783	8	5.6	8	79	10	56	73	2	13	11	1.19
31489216--31489410	44	4.4	44	65	12	112	31	19	23	26	1.98
31489049--31489446	132	3.0	132	92	0	654	30	19	24	24	1.98
31489732--31489788	21	2.7	21	86	0	78	40	7	15	36	1.75
31489982--31490020	19	2.0	21	85	10	55	15	10	5	69	1.34
31490243--31490285	3	14.3	3	85	9	61	32	0	0	67	0.91
31490227--31490284	15	3.7	15	76	13	55	31	0	1	67	1.01
31498790--31498898	45	2.6	43	82	10	136	33	4	29	32	1.78
31499033--31499074	15	2.9	15	82	10	52	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31499181--31499439	47	5.7	46	69	19	184	47	3	3	46	1.33
31499241--31499296	26	2.2	25	84	12	69	50	1	0	48	1.11
31499215--31499460	91	2.7	91	94	0	429	47	2	2	47	1.32
31499702--31499745	22	2.0	23	90	4	72	43	0	0	56	0.99
31500826--31500886	23	2.7	23	94	0	104	14	19	21	44	1.86
31505198--31505251	20	2.6	21	85	5	74	37	7	7	48	1.59
31506107--31506244	41	3.4	41	88	2	197	26	26	20	27	1.99
31523862--31523915	20	2.6	21	85	5	74	37	7	7	48	1.59
31524770--31524908	41	3.4	41	90	0	197	25	25	20	28	1.99
31532437--31532550	41	2.8	41	80	1	138	26	24	20	28	1.99
31533234--31533525	114	2.6	114	97	0	539	25	22	27	25	2.00
31533816--31533854	15	2.6	15	91	0	60	25	0	43	30	1.55
31534067--31534118	14	3.5	15	76	12	63	30	0	28	40	1.57
31534067--31534122	29	1.9	29	89	7	87	30	0	32	37	1.58
31534071--31534136	29	2.3	29	82	7	82	30	0	33	36	1.58
31534133--31534171	15	2.6	15	91	0	60	25	0	43	30	1.55
31533772--31534425	317	2.1	317	99	0	1283	29	1	28	40	1.67
31534440--31534480	14	2.9	14	82	13	57	24	0	43	31	1.54
31534758--31535800	241	4.3	241	94	2	1711	46	13	13	26	1.79
31535589--31536013	212	2.0	213	96	0	789	47	12	12	26	1.78
31536117--31536228	55	2.0	55	98	0	215	33	19	16	30	1.95
31538469--31538658	95	2.0	94	85	2	254	15	24	14	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31539954--31540243	43	6.7	43	84	8	245	29	16	22	32	1.96
31539971--31540202	129	1.8	128	83	4	306	28	15	22	32	1.95
31539971--31540243	86	3.2	86	83	2	325	28	16	22	32	1.96
31539954--31540243	129	2.2	129	78	4	300	29	16	22	32	1.96
31540331--31540374	22	2.0	22	81	0	52	47	25	15	11	1.79
31552156--31552191	17	2.1	17	100	0	72	25	11	5	58	1.54
31553848--31553941	45	2.1	45	87	0	134	32	22	18	26	1.97
31553943--31554064	51	2.4	51	85	0	163	33	28	15	22	1.94
31557535--31557578	20	2.2	20	87	0	61	56	11	11	20	1.64
31559746--31559792	20	2.3	20	85	7	60	38	0	8	53	1.32

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