genome.fa.s26.2.7.7.80.10.50.1000.197.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_D13
Parameters: 2 7 7 80 10 50 1000
Length:  60343961

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   

This is table  197  of  204  ( 24404 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)
58212215--58212248	4	8.5	4	100	0	68	23	0	26	50	1.50
58212625--58212821	98	2.0	98	94	0	349	43	10	18	28	1.82
58212842--58212919	31	2.5	31	79	4	95	24	14	17	43	1.86
58213259--58213292	6	5.7	6	89	0	50	64	17	5	11	1.45
58219944--58220242	33	8.4	33	66	23	135	33	26	19	21	1.97
58219982--58220167	102	1.8	102	96	0	345	33	25	18	22	1.97
58220073--58220209	42	3.5	41	73	21	139	35	24	16	23	1.95
58220084--58220247	75	2.2	75	96	0	301	33	26	16	23	1.96
58225465--58225490	13	2.0	13	100	0	52	84	0	0	15	0.62
58231590--58231626	18	2.1	18	94	0	65	62	5	0	32	1.18
58233665--58233738	30	2.5	30	88	0	112	18	6	18	55	1.64
58240581--58240673	42	2.2	41	83	9	109	36	16	18	29	1.92
58244593--58244647	27	2.0	27	96	0	101	34	10	9	45	1.71
58246897--58246934	20	1.9	20	94	0	67	60	0	10	28	1.30
58246985--58247015	15	2.1	15	93	0	53	38	0	6	54	1.26
58247025--58247072	20	2.4	20	80	10	53	33	6	2	58	1.35
58250663--58250905	128	1.9	127	84	5	330	31	25	15	27	1.96
58250669--58250949	43	6.5	41	77	6	229	30	25	16	27	1.96
58250724--58250905	85	2.1	85	91	2	294	32	24	15	27	1.95
58253596--58253625	6	5.0	6	95	0	51	0	0	13	86	0.57
58257289--58257355	31	2.2	31	84	12	86	25	8	13	52	1.69
58263345--58263395	13	3.9	13	81	0	57	33	7	23	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58264115--58264170	28	2.0	28	100	0	112	32	14	17	35	1.90
58264771--58264797	2	13.5	2	100	0	54	51	0	0	48	1.00
58265681--58265712	9	3.6	9	91	0	55	31	6	0	62	1.20
58265681--58265715	18	1.9	18	100	0	70	34	5	0	60	1.21
58269218--58269245	2	14.0	2	100	0	56	50	0	0	50	1.00
58269487--58269529	22	2.0	22	86	9	61	37	0	0	62	0.95
58273398--58273435	18	2.1	19	90	5	60	23	0	0	76	0.79
58283020--58283391	131	2.8	131	87	4	532	33	11	15	40	1.82
58294978--58295010	16	2.0	17	94	5	59	48	12	6	33	1.65
58300409--58300448	16	2.5	17	84	11	50	55	35	5	5	1.44
58301471--58301576	3	35.3	3	79	7	108	30	6	1	61	1.32
58301712--58301780	36	2.0	34	83	11	86	36	7	1	55	1.37
58301883--58301912	13	2.3	13	94	0	51	16	0	0	83	0.65
58314559--58314706	43	3.4	43	79	7	156	31	22	20	25	1.98
58314559--58314722	87	1.9	88	82	6	208	31	21	21	25	1.98
58314644--58314970	173	1.9	171	85	5	455	29	19	22	27	1.98
58314862--58315008	43	3.4	43	73	8	156	29	16	23	31	1.96
58314902--58315043	41	3.4	41	70	9	133	26	19	22	31	1.97
58314722--58315053	85	3.9	85	81	5	364	29	18	22	28	1.98
58315491--58315530	16	2.5	17	84	11	50	55	35	5	5	1.44
58316549--58316657	3	36.3	3	80	7	114	30	6	1	61	1.31
58316792--58316860	36	2.0	34	83	11	86	36	7	1	55	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58316963--58316992	13	2.3	13	94	0	51	16	0	0	83	0.65
58321917--58321954	18	2.0	21	85	15	55	23	2	31	42	1.68
58323011--58323036	2	13.0	2	100	0	52	0	50	0	50	1.00
58331218--58331264	22	2.1	22	84	7	60	55	6	10	27	1.58
58331988--58332049	22	3.1	22	60	26	55	22	14	11	51	1.74
58332314--58332353	21	1.9	21	84	0	53	30	5	10	55	1.54
58338797--58339388	151	3.9	151	89	4	912	33	11	12	42	1.79
58340058--58340090	12	2.6	13	85	9	50	75	0	0	24	0.80
58340670--58340696	3	9.0	3	100	0	54	0	33	0	66	0.92
58341010--58341074	31	2.1	31	88	5	96	46	1	1	50	1.20
58341022--58341081	30	2.0	31	86	3	86	48	0	1	50	1.11
58341677--58341725	25	1.9	26	83	4	64	40	8	4	46	1.52
58353777--58353801	13	1.9	13	100	0	50	0	16	0	84	0.63
58354641--58354841	109	1.8	110	88	7	311	44	18	13	23	1.85
58355654--58355874	113	2.0	113	88	0	334	35	18	14	31	1.92
58358141--58358195	13	4.2	13	74	19	51	47	1	1	49	1.23
58358136--58358201	28	2.3	29	94	5	118	46	1	3	48	1.26
58358153--58358208	16	3.6	16	71	24	57	42	3	3	50	1.37
58359418--58359476	27	2.4	23	79	20	66	77	0	15	6	0.96
58359440--58359482	18	2.4	17	76	7	50	76	0	20	2	0.89
58359420--58359472	27	2.0	27	85	7	72	75	0	16	7	1.02
58368583--58368628	22	2.0	23	83	4	58	30	15	0	54	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58372842--58373047	60	3.4	60	88	1	288	40	18	17	22	1.91
58379751--58379790	21	1.9	21	89	0	62	42	12	20	25	1.86
58396999--58397075	24	3.2	24	67	17	61	48	3	6	41	1.47
58397000--58397096	47	2.0	47	86	2	131	50	5	6	38	1.50
58398406--58398722	152	2.1	153	80	9	366	30	11	14	43	1.81
58399838--58399903	10	6.7	9	79	16	60	57	7	1	33	1.36
58401370--58401407	9	4.2	9	83	9	51	34	0	2	63	1.09
58401983--58402038	19	3.1	18	84	7	60	42	0	5	51	1.24
58401989--58402055	19	3.5	19	78	8	66	40	0	7	52	1.30
58403998--58404078	36	2.2	36	91	0	126	19	7	46	25	1.76
58404074--58405337	30	42.3	27	69	15	338	20	9	41	28	1.83
58404034--58405248	240	5.1	240	92	0	1804	20	8	41	28	1.82
58404034--58405506	120	12.3	120	85	0	1508	20	9	41	28	1.83
58404034--58405438	240	5.9	240	89	0	1761	20	9	41	28	1.83
58403948--58405506	60	26.0	60	84	2	757	21	9	40	28	1.83
58410907--58411035	60	2.2	60	98	0	249	36	3	44	16	1.63
58411003--58413242	48	46.5	48	87	0	2500	25	3	49	21	1.65
58411147--58412051	27	37.5	27	62	21	163	24	3	49	22	1.64
58412065--58412144	27	3.2	27	62	20	64	21	6	52	20	1.68
58412140--58412221	27	3.3	26	63	19	66	19	3	60	15	1.49
58412212--58412285	21	3.0	27	69	22	88	27	6	48	17	1.72
58412330--58412408	21	3.5	21	65	18	59	25	2	48	24	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58412335--58412413	24	3.3	24	65	19	65	25	2	49	22	1.62
58412639--58412723	27	3.4	27	67	18	83	27	4	45	22	1.72
58412866--58412939	24	3.1	24	70	14	71	27	0	52	20	1.46
58417367--58418466	48	22.8	48	84	2	1153	26	5	48	20	1.70
58417461--58417543	27	3.3	27	66	19	79	31	4	44	19	1.71
58417701--58417783	27	3.3	27	66	19	79	30	6	45	18	1.73
58417893--58418072	27	7.3	26	61	21	66	25	5	49	20	1.69
58418289--58418365	24	3.2	24	64	14	68	25	5	44	24	1.75
58418281--58418368	27	3.5	27	65	17	80	23	4	45	26	1.72
58418356--58418385	15	2.0	15	93	0	51	23	0	56	20	1.42
58418433--58418521	30	3.0	30	74	0	88	23	5	44	25	1.75
58420493--58420544	24	2.2	24	89	0	77	55	9	1	32	1.43
58423563--58423606	23	1.9	23	86	9	63	47	11	2	38	1.52
58424774--58424856	44	1.9	43	80	11	98	57	4	14	22	1.56
58429483--58429529	17	2.8	16	83	6	58	59	0	0	40	0.97
58429483--58429522	8	4.8	8	87	9	53	60	0	0	40	0.97
58429491--58429529	15	2.4	17	83	12	55	61	0	0	38	0.96
58438275--58438309	18	1.9	18	88	0	52	34	0	8	57	1.29
58441675--58442281	210	2.9	205	80	6	593	40	7	14	37	1.74
58446229--58446258	4	7.5	4	100	0	60	76	0	0	23	0.78
58452009--58452042	18	1.9	18	88	5	52	29	0	5	64	1.17
58452871--58452919	21	2.4	19	78	15	53	51	2	2	44	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58454411--58454467	26	2.1	27	83	3	71	26	1	5	66	1.22
58454626--58454670	18	2.5	19	82	13	60	46	0	0	53	1.00
58454629--58454672	12	3.8	12	81	6	54	45	0	0	54	0.99
58454791--58455001	88	2.4	88	81	7	223	39	18	9	32	1.83
58455143--58455186	19	2.4	19	80	3	54	70	2	2	25	1.10
58456002--58456044	21	2.0	21	95	0	77	41	6	27	23	1.80
58456192--58456221	3	10.0	3	100	0	60	33	0	0	66	0.92
58493806--58493838	8	4.1	8	92	0	57	0	0	9	90	0.44
58497677--58497728	5	10.4	5	100	0	104	40	0	0	59	0.97
58520915--58520951	2	18.5	2	100	0	74	51	0	48	0	1.00

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