genome.fa.s20.2.7.7.80.10.50.1000.106.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  106  of  189  ( 22580 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)
29603344--29603379	16	2.3	16	95	4	65	33	5	22	38	1.77
29604047--29604252	97	2.1	98	84	5	265	47	8	17	26	1.76
29604522--29604586	5	12.8	5	80	15	55	3	15	0	81	0.81
29604520--29604586	20	3.3	20	84	12	91	2	14	0	82	0.79
29604518--29604588	21	3.0	24	80	17	87	2	15	0	81	0.80
29604520--29604585	29	2.2	30	80	17	75	3	15	0	81	0.80
29606803--29606845	19	2.3	19	84	8	52	39	16	20	23	1.92
29609193--29609217	3	8.3	3	100	0	50	68	0	0	32	0.90
29610146--29610182	17	2.2	16	90	4	56	0	21	5	72	1.04
29612202--29612242	8	5.4	8	88	8	59	65	0	0	34	0.93
29612201--29612243	15	3.0	14	84	15	61	65	0	0	34	0.93
29613935--29614004	31	2.3	31	92	2	115	42	17	14	25	1.86
29623472--29623504	15	2.2	15	94	0	57	48	6	21	24	1.72
29623805--29623863	16	3.2	17	77	22	66	52	0	0	47	1.00
29623810--29623853	22	2.0	22	86	8	63	54	0	0	45	0.99
29626686--29626741	22	2.5	22	85	0	76	41	19	23	16	1.90
29627065--29627089	12	2.1	12	100	0	50	28	16	8	48	1.74
29630567--29630594	9	3.1	9	100	0	56	78	0	10	10	0.96
29632051--29632123	3	24.3	3	73	13	53	65	2	5	26	1.27
29632081--29632114	13	2.6	13	90	9	52	70	0	5	23	1.09
29632060--29632116	16	3.8	16	77	15	59	66	1	7	24	1.26
29632229--29632297	3	22.7	3	72	19	54	66	2	2	27	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29632229--29632302	12	5.8	12	76	17	69	67	2	2	27	1.17
29632239--29632301	16	3.9	16	78	17	67	66	3	3	26	1.22
29635944--29635996	11	4.6	11	76	15	54	60	5	5	28	1.42
29638783--29638815	16	2.1	16	88	11	50	21	3	9	66	1.33
29655405--29655442	20	1.9	20	88	0	58	34	2	2	60	1.24
29655406--29655449	20	2.2	20	83	0	52	34	4	2	59	1.30
29658558--29658601	20	2.2	20	84	8	54	27	4	11	56	1.53
29662602--29662686	44	1.9	45	90	7	138	32	7	7	52	1.55
29670127--29670151	12	2.1	12	100	0	50	16	24	8	52	1.70
29675844--29676013	48	3.5	48	90	0	232	26	20	30	22	1.99
29678303--29678354	21	2.5	21	87	3	70	40	7	11	40	1.70
29680336--29680415	21	3.9	19	71	14	52	33	21	30	15	1.94
29690480--29690511	15	2.1	15	94	0	55	68	9	6	15	1.36
29692677--29692715	16	2.5	16	83	4	53	38	5	28	28	1.78
29692697--29692789	45	2.1	44	90	6	143	33	2	26	37	1.69
29692697--29692801	44	2.5	41	77	18	110	33	1	26	38	1.68
29692896--29693024	56	2.3	57	80	9	147	51	3	0	44	1.25
29695069--29695997	475	2.0	475	99	0	1849	34	20	12	32	1.90
29696570--29696613	20	2.2	20	92	4	72	63	6	25	4	1.38
29696566--29696616	20	2.5	21	84	12	70	64	5	25	3	1.33
29701978--29702007	6	5.0	6	100	0	60	16	33	0	50	1.46
29701978--29702028	18	2.9	18	78	16	54	23	31	0	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29702393--29702457	5	13.2	5	75	19	57	40	20	1	38	1.62
29703052--29703098	17	2.8	17	76	20	53	55	6	4	34	1.45
29703359--29703418	30	2.0	31	83	3	77	38	1	40	20	1.62
29703626--29703662	9	4.1	9	89	0	56	32	8	13	45	1.73
29707253--29707297	18	2.6	18	86	10	58	46	2	0	51	1.13
29715379--29715412	14	2.4	14	100	0	68	58	5	0	35	1.22
29715379--29715415	7	5.3	7	90	0	56	59	8	0	32	1.27
29719178--29719229	24	2.2	24	89	0	77	55	9	1	32	1.43
29719443--29719473	16	1.9	16	93	0	53	3	12	0	83	0.75
29723998--29724047	17	2.7	20	78	18	70	10	0	44	46	1.37
29728628--29728677	17	2.7	20	78	18	70	10	0	44	46	1.37
29735752--29735823	26	2.8	26	85	8	101	44	13	13	27	1.82
29739227--29739267	16	2.5	17	80	11	50	53	4	9	31	1.55
29744621--29744658	15	2.5	15	100	0	76	28	39	0	31	1.57
29748167--29748351	79	2.3	82	82	7	220	24	27	23	24	2.00
29748148--29748351	40	5.1	40	80	8	220	24	27	23	25	2.00
29750637--29750755	31	3.9	31	78	9	111	40	14	10	35	1.79
29750697--29750777	31	2.6	31	92	0	135	43	12	11	33	1.78
29751308--29751424	61	2.0	58	88	5	171	41	4	2	52	1.35
29754255--29754289	9	3.9	9	88	0	52	11	20	0	68	1.20
29760958--29761062	28	3.7	28	76	3	102	34	6	11	47	1.66
29762116--29762243	68	1.9	68	96	0	238	34	7	12	45	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29763818--29763867	19	2.6	20	78	18	61	52	2	0	46	1.12
29765881--29765957	29	2.6	29	81	6	91	53	2	1	42	1.23
29774415--29774454	14	2.9	14	84	0	53	32	7	17	42	1.77
29774438--29774477	20	2.0	20	90	0	62	27	10	12	50	1.72
29774423--29774489	34	1.9	35	87	3	100	32	8	11	46	1.72
29774815--29774872	26	2.2	26	96	0	107	43	10	12	34	1.76
29776929--29777027	27	3.6	27	70	20	96	51	21	14	13	1.75
29777438--29777468	14	2.2	14	94	0	53	32	19	9	38	1.84
29783140--29783171	12	2.7	12	95	0	55	34	9	6	50	1.60
29783147--29783212	25	2.6	26	79	13	66	39	4	6	50	1.48
29783248--29783282	11	3.3	11	84	8	54	48	0	0	51	1.00
29783251--29783285	10	3.4	10	84	7	52	51	0	0	48	1.00
29784782--29784816	17	2.1	17	88	0	52	40	2	14	42	1.60
29786116--29786164	25	1.9	26	88	12	75	24	2	6	67	1.24
29786112--29786166	19	2.9	19	72	22	53	25	1	7	65	1.28
29787753--29787790	20	1.9	20	89	10	60	18	0	2	78	0.86
29787753--29787798	21	2.2	20	85	11	58	19	0	2	78	0.86
29787753--29787794	13	3.3	12	86	6	57	19	0	2	78	0.86
29789558--29789606	24	2.0	24	100	0	98	38	4	12	44	1.61
29797780--29797809	13	2.3	13	94	0	51	36	0	10	53	1.35
29797915--29797993	39	2.0	39	100	0	158	22	12	10	54	1.68
29800370--29800585	45	4.8	44	76	7	166	41	13	20	24	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29801659--29801696	20	1.9	20	89	10	60	28	10	0	60	1.30
29801965--29802084	56	2.2	56	86	1	161	33	8	11	46	1.70
29803589--29803625	9	4.1	9	92	0	65	45	13	10	29	1.77
29803663--29803703	21	2.0	21	85	9	57	24	34	0	41	1.55
29809986--29810040	26	2.2	25	84	9	69	50	3	1	43	1.30
29811396--29811480	30	2.8	30	96	0	161	40	7	7	45	1.58
29825754--29825781	10	2.8	10	100	0	56	89	0	10	0	0.49
29825967--29826000	18	1.9	18	88	5	52	0	5	29	64	1.17
29834676--29834703	14	2.0	14	100	0	56	28	21	35	14	1.92
29839177--29839237	31	2.0	31	96	0	113	31	11	31	26	1.91
29839333--29839369	19	1.9	19	88	0	56	40	5	16	37	1.71
29841188--29841223	11	3.2	11	92	4	54	38	0	0	61	0.96
29845920--29846092	95	1.8	92	87	6	258	34	20	7	38	1.81
29846216--29846363	30	5.0	29	70	14	97	64	2	5	27	1.29
29846233--29846348	11	11.7	10	69	16	55	63	2	4	29	1.26
29846199--29846348	19	7.7	19	67	21	53	63	2	4	29	1.28
29846261--29846363	28	3.6	26	72	21	73	63	2	5	28	1.32
29846590--29846778	86	2.2	88	80	6	199	32	6	19	42	1.76
29847362--29847411	17	2.9	17	85	11	59	52	0	0	48	1.00
29847372--29847416	17	2.9	16	87	9	58	46	0	0	53	1.00
29855314--29855344	16	2.0	15	93	6	53	67	0	6	25	1.14
29858555--29858889	51	6.6	51	78	6	288	25	16	26	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29858552--29858889	101	3.3	100	81	5	333	25	16	27	31	1.97
29858761--29858793	14	2.5	14	90	9	52	24	9	27	39	1.85
29858553--29858889	152	2.2	152	94	0	575	24	16	27	31	1.97
29866557--29866581	12	2.1	12	100	0	50	16	24	36	24	1.94
29866612--29866642	16	1.9	16	93	0	53	29	3	19	48	1.64
29866874--29866915	16	2.4	18	81	18	54	40	23	7	28	1.81
29872137--29872216	38	2.1	38	90	0	124	42	18	8	30	1.81
29872671--29872719	9	5.6	9	80	9	57	36	0	2	61	1.08
29872671--29872722	26	2.0	25	88	3	77	40	0	1	57	1.10
29872741--29872779	20	2.1	18	90	9	60	30	2	2	64	1.21

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