genome.fa.s25.2.7.7.80.10.50.1000.33.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  33  of  196  ( 23409 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)
9270301--9270328	9	3.1	9	100	0	56	57	10	0	32	1.33
9270401--9270442	16	2.6	16	88	0	57	45	4	2	47	1.36
9270401--9270468	22	3.4	20	71	23	54	45	2	1	50	1.26
9274689--9274803	35	3.3	35	74	7	117	29	28	6	34	1.83
9277992--9278348	178	2.0	178	100	0	714	44	11	9	34	1.73
9279166--9279205	19	2.1	19	85	0	53	40	12	0	47	1.41
9279642--9279747	56	1.9	56	94	0	185	50	14	13	21	1.76
9282665--9282726	27	2.3	27	83	5	72	24	14	32	29	1.94
9282780--9282839	27	2.2	27	87	0	84	26	18	33	21	1.96
9283461--9283485	6	4.2	6	100	0	50	16	16	0	68	1.22
9284922--9284953	15	2.1	16	94	5	57	28	6	0	65	1.16
9286204--9286228	9	2.8	9	100	0	50	24	0	8	68	1.16
9286507--9286701	98	2.0	98	92	0	327	29	8	23	38	1.85
9288362--9288435	36	2.1	36	100	0	148	36	18	20	24	1.95
9295970--9296914	44	21.7	43	71	13	429	29	19	23	27	1.98
9296014--9296341	173	1.9	173	81	7	407	30	20	21	27	1.98
9295944--9296676	217	3.4	217	93	0	1243	29	20	22	27	1.98
9296799--9296924	45	2.8	44	81	12	150	27	18	26	26	1.98
9297439--9297467	14	2.0	15	93	6	51	27	6	0	65	1.18
9298622--9298646	9	2.8	9	100	0	50	24	0	8	68	1.16
9298926--9299120	98	2.0	98	93	0	336	28	9	25	37	1.86
9302835--9302894	31	1.9	31	83	10	77	53	8	3	35	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9307578--9307603	11	2.4	11	100	0	52	30	0	15	53	1.42
9316462--9316747	50	5.8	50	85	5	388	19	30	23	26	1.98
9316606--9316746	44	3.1	43	84	11	176	19	30	24	25	1.98
9316469--9316747	143	1.9	147	92	5	476	19	30	24	26	1.98
9316842--9316873	13	2.5	13	94	0	55	56	12	0	31	1.37
9317084--9317140	30	1.9	29	85	3	78	31	24	1	42	1.65
9324073--9324354	50	5.8	50	82	9	327	19	30	24	25	1.98
9324080--9324354	139	1.9	148	88	8	424	18	30	24	26	1.98
9324449--9324480	13	2.5	13	94	0	55	56	12	0	31	1.37
9324692--9324749	30	1.9	30	89	0	89	31	24	3	41	1.71
9325978--9326013	16	2.3	16	90	4	56	58	5	13	22	1.56
9328009--9328046	20	1.9	20	88	0	58	31	2	0	65	1.06
9329858--9329893	16	2.2	16	100	0	72	25	0	36	38	1.56
9330017--9330327	151	2.0	155	93	3	540	44	3	4	47	1.40
9330261--9330302	15	2.7	16	82	14	52	52	2	0	45	1.13
9330270--9330311	15	2.9	15	82	10	52	52	0	0	47	1.00
9330259--9330556	120	2.5	121	92	4	496	49	4	2	43	1.37
9330380--9330431	15	3.6	15	80	12	56	53	1	0	44	1.11
9330587--9330777	92	2.1	89	85	6	251	46	4	4	45	1.43
9333793--9333819	11	2.5	11	100	0	54	25	0	25	48	1.52
9333908--9334240	97	3.4	97	98	0	648	38	6	13	41	1.71
9338985--9339544	126	4.5	125	84	6	710	31	16	23	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9339286--9339511	118	1.9	116	88	1	335	33	14	21	30	1.93
9339023--9339544	242	2.1	246	87	4	732	30	16	22	29	1.96
9342719--9343045	21	15.1	22	78	5	301	26	1	25	45	1.62
9342719--9343053	43	7.7	42	76	7	233	27	1	25	45	1.62
9342719--9343102	21	18.1	21	72	15	190	27	1	25	46	1.61
9342933--9343059	22	5.8	22	72	9	73	28	0	24	46	1.58
9343049--9343102	22	2.5	22	75	3	56	29	0	20	50	1.49
9343021--9343169	36	4.1	35	73	13	122	28	1	22	47	1.59
9343129--9343199	22	3.3	22	88	7	110	25	0	23	50	1.49
9343131--9343198	21	3.2	21	89	6	102	26	0	23	50	1.50
9345990--9346039	21	2.5	20	80	6	57	32	6	8	54	1.54
9350266--9350308	3	14.3	3	100	0	86	67	0	0	32	0.91
9351767--9351826	22	2.7	22	76	19	70	31	11	16	40	1.85
9359212--9359410	28	7.0	28	75	8	134	18	12	7	62	1.51
9359226--9359411	57	3.2	55	78	9	167	19	11	6	62	1.49
9359306--9359425	57	2.1	57	80	6	127	20	10	5	63	1.45
9367115--9367167	27	2.0	27	85	7	72	37	9	11	41	1.73
9370821--9370953	43	3.1	43	87	1	187	32	28	17	21	1.96
9370833--9370966	42	3.2	43	87	3	173	32	27	15	24	1.96
9374836--9374883	23	2.0	24	84	8	62	27	6	8	58	1.51
9375431--9375508	21	3.5	22	81	15	81	38	43	0	17	1.50
9375472--9375549	21	3.7	21	81	5	77	42	33	0	24	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9376910--9377069	41	3.9	41	89	0	230	26	27	20	25	1.99
9377109--9377247	40	3.5	40	80	3	147	20	18	20	41	1.91
9380338--9380364	13	2.1	13	100	0	54	33	0	7	59	1.25
9380765--9380834	33	2.3	30	85	14	90	60	11	10	18	1.58
9386096--9386297	35	5.5	35	67	15	138	20	22	22	34	1.97
9386085--9386356	75	3.6	75	85	0	364	21	23	22	33	1.97
9388853--9388887	9	3.7	9	85	14	52	31	0	8	60	1.27
9390417--9390510	48	2.0	48	87	4	136	41	26	12	19	1.87
9392929--9393022	48	2.0	48	83	8	120	40	29	12	17	1.86
9395694--9395718	7	3.6	7	100	0	50	12	0	0	88	0.53
9398490--9398535	24	1.9	24	90	0	74	26	10	19	43	1.84
9402278--9402318	19	2.1	19	86	9	55	70	0	0	29	0.87
9402295--9402324	14	2.1	15	93	6	53	73	0	0	26	0.84
9405611--9405685	20	3.7	19	76	13	60	70	1	22	5	1.15
9412873--9412919	24	2.0	24	84	16	62	51	17	0	31	1.46
9413272--9413307	18	1.9	19	88	5	56	33	22	0	44	1.53
9413660--9413729	23	2.9	24	77	14	81	51	2	0	45	1.16
9413673--9413729	25	2.4	22	78	16	60	52	3	0	43	1.18
9415051--9415087	16	2.3	17	86	9	51	16	21	0	62	1.33
9422169--9422225	21	2.7	22	78	13	66	21	26	40	12	1.88
9424053--9424266	106	2.0	106	91	0	347	31	18	16	33	1.93
9424912--9424960	23	2.1	24	84	3	64	12	14	2	71	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9425812--9425859	14	3.5	13	86	8	60	27	2	4	66	1.21
9425916--9425972	20	2.8	20	83	0	69	29	8	5	56	1.52
9427428--9427471	19	2.4	19	88	3	63	70	0	6	22	1.11
9427528--9427554	14	1.9	14	100	0	54	66	3	0	29	1.09
9437366--9437395	10	2.8	11	90	10	53	10	6	6	76	1.15
9437902--9437942	16	2.6	16	88	7	57	19	2	2	75	1.03
9437916--9437949	16	2.2	16	89	5	52	26	0	0	73	0.83
9441955--9441994	20	2.0	20	95	0	71	30	22	15	32	1.94
9450051--9450863	100	8.1	100	93	0	1306	30	20	23	25	1.98
9451950--9451979	10	2.8	11	90	10	53	10	6	6	76	1.15
9457431--9457633	102	2.0	102	91	3	329	27	18	31	23	1.97
9458817--9458844	13	2.2	13	100	0	56	53	0	0	46	1.00
9460037--9460070	7	4.7	7	85	7	50	41	2	0	55	1.15
9460456--9460513	22	2.6	23	78	8	66	37	1	0	60	1.07
9461734--9461758	12	2.1	12	100	0	50	16	40	36	8	1.77
9463434--9463468	18	1.9	18	88	0	52	54	2	0	42	1.15
9470810--9470855	19	2.5	19	89	10	69	30	2	0	67	1.03
9470821--9470877	19	2.9	19	82	10	53	36	3	0	59	1.14
9470820--9470877	20	2.9	20	84	5	64	36	3	0	60	1.14
9470850--9470907	31	1.9	30	82	10	73	43	3	1	51	1.28
9471475--9471553	29	2.7	29	80	4	77	27	12	10	49	1.73
9471738--9471793	25	2.1	27	81	12	64	71	3	8	16	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9472813--9472887	37	2.0	37	84	5	98	57	4	9	29	1.48
9474805--9474862	22	2.6	23	81	8	66	34	3	0	62	1.12
9476073--9476128	22	2.5	22	88	5	78	32	14	19	33	1.92
9478622--9478682	25	2.4	25	83	0	77	27	18	29	24	1.98
9478610--9478705	25	3.9	24	76	13	70	32	16	28	22	1.96
9479748--9479774	4	6.8	4	100	0	54	0	22	0	77	0.76
9479772--9479810	19	2.2	18	86	9	53	2	15	7	74	1.15
9479836--9479874	18	2.0	20	90	9	64	46	0	0	53	1.00
9481790--9481826	20	2.0	19	85	15	51	37	8	0	54	1.30
9484206--9484245	20	2.0	20	85	0	53	10	20	22	47	1.79

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