genome.fa.s25.2.7.7.80.10.50.1000.24.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   

This is table  24  of  214  ( 25680 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)
6730708--6730821	56	2.0	56	98	0	219	57	4	22	14	1.55
6732976--6733040	16	4.1	16	73	0	58	44	4	21	29	1.72
6733201--6733264	26	2.7	24	81	13	78	54	0	0	45	0.99
6733898--6733922	5	5.0	5	100	0	50	20	0	40	40	1.52
6734131--6734172	16	2.6	16	92	0	66	40	2	35	21	1.66
6734134--6734178	16	2.9	16	90	3	65	42	2	31	24	1.67
6734401--6734443	15	2.9	15	83	13	54	53	0	0	46	1.00
6734392--6734433	15	2.7	16	82	14	52	52	2	0	45	1.13
6734412--6734447	18	2.0	18	89	10	56	58	0	0	41	0.98
6734401--6734443	13	3.1	14	86	6	52	53	0	0	46	1.00
6734395--6734812	59	7.0	61	68	16	250	50	4	2	42	1.37
6734512--6734563	15	3.6	15	80	12	56	53	1	0	44	1.11
6734651--6734687	16	2.2	17	86	13	51	54	0	2	43	1.14
6734398--6734808	120	3.4	120	95	1	689	49	4	2	42	1.37
6734849--6734909	28	2.2	28	85	5	81	50	3	0	45	1.17
6734958--6734995	18	2.1	18	90	0	58	52	2	5	39	1.38
6734824--6735030	91	2.3	91	89	1	308	46	4	3	44	1.42
6735598--6735674	14	5.0	15	71	20	52	42	14	9	33	1.77
6735614--6735653	20	2.0	20	90	0	62	50	12	10	27	1.72
6735602--6735668	34	1.9	35	90	3	109	46	13	8	31	1.74
6742276--6742379	41	2.5	41	88	0	154	23	30	20	25	1.98
6750045--6750148	41	2.5	41	88	0	154	22	31	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6753454--6753492	18	2.2	18	85	0	51	61	2	23	12	1.43
6757822--6757864	17	2.5	17	96	3	77	37	4	4	53	1.43
6759069--6759094	11	2.4	11	100	0	52	69	0	15	15	1.20
6761060--6761118	7	8.4	7	85	7	50	32	40	0	27	1.56
6761042--6761118	21	3.7	21	79	6	66	33	38	0	27	1.57
6761093--6761159	34	2.0	34	91	5	109	34	41	1	22	1.63
6761579--6761731	41	3.8	41	86	5	222	27	31	24	16	1.97
6761579--6761732	80	1.9	81	90	5	249	27	31	24	16	1.96
6761867--6761892	12	2.2	12	100	0	52	46	30	15	7	1.74
6768764--6768818	27	2.0	27	96	0	101	23	7	20	49	1.74
6771022--6771177	80	2.0	80	90	0	249	34	14	16	34	1.89
6771656--6771700	14	3.2	13	84	12	54	2	20	4	73	1.11
6777280--6777378	42	2.3	42	84	5	128	31	22	16	30	1.95
6777261--6777419	43	3.7	41	78	9	158	31	26	16	25	1.96
6778375--6778405	15	2.1	15	100	0	62	41	12	12	32	1.81
6782975--6783178	106	1.9	108	89	4	324	35	20	16	28	1.94
6784199--6784237	12	3.2	12	85	0	51	56	2	2	38	1.27
6790488--6790526	19	2.1	19	100	0	78	33	15	5	46	1.68
6796922--6796946	13	1.9	13	100	0	50	24	16	8	52	1.70
6801403--6801427	13	1.9	13	100	0	50	24	16	8	52	1.70
6807303--6807357	6	9.2	6	100	0	110	16	0	67	16	1.24
6807377--6807469	46	2.0	46	97	0	177	54	12	11	20	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6808075--6808128	22	2.5	22	78	6	56	51	1	1	44	1.22
6808189--6808247	29	2.1	28	80	3	64	38	3	1	55	1.26
6813426--6813468	22	2.0	21	86	4	59	27	9	0	62	1.25
6819139--6819163	4	6.2	4	100	0	50	24	0	0	76	0.80
6825047--6825084	15	2.8	13	82	17	51	65	0	0	34	0.93
6844980--6845056	7	11.0	7	74	0	55	28	32	2	36	1.71
6846575--6846681	42	2.5	42	84	0	142	43	16	25	14	1.85
6846578--6846658	21	3.9	21	65	0	54	44	18	23	13	1.85
6846606--6846670	21	3.1	21	72	0	67	43	18	24	13	1.87
6850107--6850136	12	2.5	12	100	0	60	50	0	13	36	1.42
6852280--6852341	22	2.9	22	70	2	63	22	19	17	40	1.91
6852287--6852355	22	3.2	21	72	4	66	23	18	15	42	1.89
6857364--6857392	14	2.1	14	93	6	51	48	13	6	31	1.69
6871548--6871592	18	2.5	18	86	13	58	60	8	4	26	1.46
6871596--6871623	14	2.0	14	100	0	56	71	14	0	14	1.15
6871657--6871712	20	2.7	21	83	5	69	71	8	8	10	1.31
6872057--6872115	31	1.9	31	82	0	73	40	8	10	40	1.69
6877265--6877292	13	2.2	13	100	0	56	28	10	14	46	1.78
6877807--6877859	13	4.1	13	72	0	52	35	22	7	33	1.83
6878996--6879037	13	3.3	12	81	18	50	42	0	9	47	1.36
6887579--6887630	18	2.8	18	85	2	68	50	1	0	48	1.12
6892977--6893067	40	2.3	42	79	11	118	34	19	27	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6894899--6894945	21	2.2	22	84	3	60	48	10	0	40	1.38
6895325--6895357	15	2.1	17	88	11	52	81	0	12	6	0.85
6900556--6900614	23	2.6	23	77	0	64	52	3	0	44	1.17
6904220--6904252	6	5.5	6	100	0	66	33	0	18	48	1.48
6913044--6913077	17	2.0	17	88	0	50	50	0	11	38	1.39
6916233--6916260	2	14.0	2	100	0	56	50	0	0	50	1.00
6918243--6918459	105	2.1	101	87	5	301	29	16	26	27	1.97
6918276--6918457	33	5.3	33	70	13	100	29	16	26	27	1.97
6919894--6919927	5	6.8	5	90	10	52	79	2	0	17	0.86
6922259--6922322	12	5.3	12	80	12	53	45	0	0	54	0.99
6922261--6922300	6	6.7	6	100	0	80	50	0	0	50	1.00
6929585--6929792	44	4.9	44	67	19	120	44	0	5	48	1.33
6929521--6929903	120	3.2	120	98	0	721	44	1	6	47	1.37
6929852--6929893	17	2.6	16	82	17	52	54	0	0	45	0.99
6930122--6930189	16	4.2	16	96	0	127	38	35	0	26	1.57
6937115--6937192	21	3.7	21	72	6	68	48	0	0	51	1.00
6937147--6937192	21	2.2	22	88	7	69	52	0	0	47	1.00
6937701--6937745	20	2.1	22	84	8	58	24	11	13	51	1.73
6942764--6942898	39	3.4	39	76	7	105	34	21	19	24	1.96
6942949--6943042	41	2.4	41	85	5	122	24	18	21	36	1.95
6943361--6943460	22	4.7	21	71	9	58	23	1	29	47	1.58
6943349--6943460	7	15.7	7	69	10	57	22	0	28	48	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6944194--6944225	13	2.3	15	89	10	50	43	0	0	56	0.99
6947633--6947719	43	2.0	43	86	0	120	32	11	12	43	1.78
6947980--6948248	43	6.3	43	80	7	280	23	15	30	30	1.95
6947982--6948248	86	3.1	84	81	5	320	23	15	31	29	1.95
6953117--6953147	15	2.1	15	100	0	62	54	12	12	19	1.70
6963160--6963207	24	2.1	22	88	7	69	62	8	2	27	1.35
6963164--6963218	25	2.3	23	84	6	65	61	9	1	27	1.36
6963163--6963218	23	2.3	24	81	12	69	60	8	1	28	1.37
6963640--6963701	29	2.1	29	82	5	72	72	1	0	25	0.94
6963676--6963721	22	2.1	21	84	4	56	65	2	0	32	1.05
6963684--6963722	20	2.0	20	89	0	60	66	2	0	30	1.05
6963794--6963855	29	2.1	29	82	8	72	58	3	1	37	1.24
6963777--6963854	19	4.6	19	67	26	66	58	3	1	35	1.24
6963830--6963892	31	2.0	32	84	6	83	63	4	0	31	1.15
6963820--6963879	19	3.5	18	74	19	65	63	3	0	33	1.11
6972635--6972762	64	2.0	64	96	0	238	28	13	13	44	1.81
6984004--6984063	16	3.7	15	78	12	66	28	0	1	70	0.97
6986096--6986188	44	2.1	44	87	0	132	44	5	23	26	1.75
6992754--6992782	4	7.5	4	92	7	51	0	0	24	75	0.80
6993228--6993280	16	3.3	16	91	0	88	39	3	33	22	1.72
6993494--6993535	15	2.7	16	82	14	52	52	2	0	45	1.13
6993503--6993544	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)
6993492--6994120	120	5.2	120	97	0	1145	50	5	1	42	1.36
6993609--6993655	16	3.0	16	78	12	53	51	2	0	46	1.13
6993729--6993775	16	3.0	16	78	12	53	51	2	0	46	1.13
6993849--6993895	16	3.0	16	78	12	53	51	2	0	46	1.13
6993969--6994015	16	3.0	16	78	12	53	51	2	0	46	1.13
6994441--6994499	30	2.0	30	90	6	93	59	0	1	38	1.08
6994441--6994492	10	5.1	10	75	13	52	55	0	1	42	1.10
6994441--6994624	40	4.5	41	85	9	236	61	0	2	35	1.10
6994440--6994534	11	9.3	11	76	9	51	56	0	2	41	1.11
6994475--6994561	29	3.0	29	79	12	81	60	0	2	36	1.09

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214