genome.fa.s16.2.7.7.80.10.50.1000.137.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  137  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)
42372982--42373051	19	3.7	19	67	16	56	25	5	1	67	1.21
42372982--42373107	38	3.3	39	72	13	111	26	3	3	66	1.24
42372981--42373088	28	3.9	27	77	12	85	25	3	3	67	1.23
42379759--42379799	16	2.6	16	88	7	57	24	0	2	73	0.96
42391283--42391441	85	1.9	84	88	1	237	33	12	10	44	1.76
42396415--42396459	13	3.2	14	87	9	65	26	0	0	73	0.84
42397108--42397149	21	2.0	21	81	9	50	11	21	4	61	1.48
42405535--42405572	2	19.0	2	100	0	76	50	0	50	0	1.00
42407063--42407094	3	10.7	3	100	0	64	31	0	0	68	0.90
42411406--42411439	17	2.0	17	100	0	68	29	5	23	41	1.78
42412854--42413113	89	2.9	90	81	1	326	26	24	16	32	1.96
42416148--42416187	14	2.8	14	88	3	62	60	0	0	40	0.97
42417841--42417874	18	1.9	18	88	5	52	52	2	11	32	1.53
42418219--42418294	21	3.3	21	72	20	64	23	10	11	53	1.68
42418615--42418659	18	2.7	18	83	16	62	44	2	0	53	1.13
42419755--42419786	17	1.9	16	93	6	55	50	18	9	21	1.75
42420256--42420308	13	4.1	13	85	0	79	43	28	0	28	1.55
42423911--42424281	46	8.6	45	82	12	460	34	14	22	29	1.93
42423995--42424149	36	4.1	36	76	16	168	36	12	20	30	1.90
42423949--42424281	81	4.0	81	85	8	438	34	14	21	29	1.93
42424075--42424146	35	2.0	36	94	2	128	36	13	20	29	1.92
42427184--42427222	19	2.0	20	85	5	53	35	12	20	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42440895--42440970	37	2.1	37	82	9	93	50	2	2	44	1.30
42442584--42442614	16	1.9	16	93	0	53	74	9	6	9	1.23
42443538--42443565	6	4.7	6	100	0	56	50	14	0	35	1.43
42443790--42443865	24	3.2	24	81	1	82	55	10	3	30	1.52
42446862--42446944	22	3.8	22	80	10	98	32	27	0	39	1.57
42446894--42446995	52	2.0	50	81	14	120	32	33	0	34	1.58
42446946--42446996	22	2.4	22	83	6	70	33	33	0	33	1.58
42447028--42447090	28	2.2	30	85	8	94	38	0	1	60	1.07
42447180--42447235	24	2.3	23	77	19	60	28	1	3	66	1.19
42449366--42449401	18	2.1	18	89	5	56	50	19	0	30	1.48
42449377--42449489	23	4.7	23	78	11	111	49	20	0	30	1.49
42449387--42449480	28	3.5	28	79	16	110	47	20	0	31	1.50
42452599--42452800	83	2.4	84	95	0	379	31	24	20	23	1.98
42452711--42452989	124	2.3	123	84	5	366	32	24	15	28	1.95
42455817--42455866	18	2.8	18	78	0	55	46	4	12	38	1.60
42457807--42457902	41	2.3	41	89	0	147	35	19	16	28	1.94
42458183--42458336	65	2.3	67	81	9	172	41	14	4	39	1.66
42460989--42461018	6	5.0	6	100	0	60	50	0	0	50	1.00
42462100--42462140	21	2.0	21	95	0	73	39	14	26	19	1.90
42465503--42465570	34	2.0	34	85	5	93	20	26	23	29	1.99
42472629--42472786	67	2.4	67	95	0	280	28	24	24	22	1.99
42477991--42478028	5	7.8	5	94	5	69	0	15	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42478530--42478563	7	4.9	7	92	7	52	0	14	0	85	0.60
42478530--42478574	14	3.0	15	83	9	56	4	15	0	80	0.87
42482500--42482532	5	7.0	5	86	13	52	21	0	0	78	0.75
42482500--42482546	24	2.0	24	87	4	69	25	2	0	72	0.96
42488431--42488547	62	1.9	59	86	5	162	41	5	4	48	1.45
42493418--42494612	132	9.1	131	88	2	1639	27	23	19	29	1.98
42495961--42495993	7	4.7	7	85	14	50	12	15	0	72	1.12
42502613--42502701	42	2.1	42	97	0	169	38	24	8	28	1.86
42502819--42502957	49	2.8	48	90	4	215	32	25	15	27	1.95
42504143--42504241	23	4.3	23	90	0	162	29	27	21	22	1.99
42505815--42505887	19	3.6	19	68	20	58	53	4	2	39	1.34
42512185--42512218	18	1.9	17	88	5	50	70	0	0	29	0.87
42515824--42515894	35	2.0	35	97	0	133	38	15	9	36	1.81
42519679--42519711	16	2.0	17	94	5	59	39	0	0	60	0.97
42519686--42519763	40	2.0	40	100	0	156	33	2	0	64	1.08
42520178--42520220	18	2.5	17	92	3	68	58	6	2	32	1.38
42520085--42520316	111	2.1	111	84	6	299	47	6	6	40	1.54
42520433--42520488	20	2.6	22	83	5	71	44	3	3	48	1.37
42520561--42520593	17	1.9	17	88	11	50	60	0	0	39	0.97
42521217--42521278	26	2.3	27	83	2	90	43	1	3	51	1.27
42521330--42521423	48	1.9	48	93	2	161	22	5	12	59	1.53
42521479--42521536	26	2.1	28	87	6	84	44	0	5	50	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42521623--42521651	15	2.0	15	93	6	51	24	6	6	62	1.45
42526948--42526998	23	2.2	23	89	0	75	27	7	21	43	1.80
42527735--42527790	28	2.0	28	100	0	112	32	17	28	21	1.96
42527896--42527969	28	2.6	28	86	0	103	28	25	21	24	1.99
42528324--42528763	27	16.4	26	82	4	425	17	18	20	44	1.87
42528324--42528763	54	8.2	54	83	2	512	17	18	20	44	1.87
42528323--42528763	81	5.5	80	84	4	489	17	18	19	43	1.88
42534203--42534237	10	3.2	11	88	12	54	34	45	11	8	1.71
42535479--42535514	15	2.5	14	86	8	54	44	8	0	47	1.33
42537141--42537173	10	3.3	10	95	0	57	75	0	0	24	0.80
42543626--42543661	15	2.5	14	86	8	54	44	8	0	47	1.33
42544577--42544617	20	2.0	21	90	4	66	46	0	17	36	1.48
42544661--42544820	47	3.4	47	86	1	223	30	12	21	35	1.90
42545967--42546008	21	2.0	21	90	0	66	30	4	19	45	1.71
42546218--42546261	22	1.9	24	86	9	65	40	13	2	43	1.57
42549971--42550029	3	20.0	3	89	3	93	3	30	0	66	1.08
42550290--42550455	56	2.9	56	79	6	183	39	5	33	21	1.76
42550469--42550526	30	1.9	30	92	0	98	39	1	29	29	1.67
42551091--42551120	15	2.0	15	100	0	60	46	13	20	20	1.83
42555995--42556040	22	2.1	22	100	0	92	21	36	8	32	1.84
42558472--42558515	17	2.6	17	85	3	54	45	0	6	47	1.29
42559405--42559619	102	2.2	99	88	5	317	40	13	16	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42559560--42559671	51	2.2	52	93	1	190	49	9	10	30	1.70
42562132--42562584	97	4.5	98	81	9	504	29	16	15	37	1.90
42565569--42565599	16	1.9	16	93	0	53	48	6	6	38	1.55
42566551--42566591	21	1.9	22	95	5	75	29	0	0	70	0.87
42568199--42568238	15	2.7	15	88	7	55	27	20	12	40	1.88
42570410--42570470	8	7.5	8	80	8	70	3	21	0	75	0.94
42570414--42570470	25	2.3	24	80	14	62	3	22	0	73	0.98
42572398--42572445	13	3.7	13	80	0	51	50	0	4	45	1.21
42586806--42586929	43	2.9	43	80	9	153	19	16	29	33	1.94
42604568--42604659	37	2.4	38	85	1	141	33	32	16	17	1.92
42606266--42606336	26	2.8	26	89	2	108	36	7	22	33	1.81
42623835--42623870	19	1.9	19	88	5	56	58	2	2	36	1.27
42632623--42632674	23	2.3	22	75	21	54	9	23	1	65	1.32
42632668--42632706	18	2.2	18	85	0	51	12	23	2	61	1.43
42642960--42643033	9	8.3	9	93	1	105	41	25	10	21	1.85
42643717--42643741	7	3.6	7	100	0	50	28	0	16	56	1.41
42646044--42646462	125	3.3	127	90	2	675	27	20	16	35	1.94
42646501--42646934	97	4.4	97	84	5	498	38	18	1	41	1.59
42646491--42646934	196	2.2	198	81	7	544	38	18	1	40	1.60
42647511--42647578	10	6.3	11	75	24	56	30	30	0	38	1.58
42647521--42647578	22	2.6	22	94	2	98	32	29	0	37	1.58
42647548--42647663	51	2.3	51	90	3	180	30	23	0	46	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42649041--42649109	23	3.1	23	75	14	81	44	26	2	26	1.68
42649073--42649120	23	2.0	23	84	4	60	43	27	2	27	1.66
42651486--42651853	125	3.0	124	81	4	436	34	20	14	29	1.93
42654889--42654953	22	2.9	22	80	14	71	33	4	4	56	1.40
42655125--42655168	18	2.5	17	82	10	52	22	2	0	75	0.92
42658694--42658739	25	1.9	24	82	8	58	21	17	4	56	1.58
42659549--42659591	13	3.4	13	83	3	52	79	4	9	6	1.06
42661830--42661960	45	2.9	45	87	4	192	29	15	23	32	1.95
42661799--42662101	88	3.4	87	72	5	259	29	17	24	29	1.97
42662065--42662666	132	4.6	129	87	2	781	30	19	23	26	1.98

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