genome.fa.s16.2.7.7.80.10.50.1000.97.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_D03
Parameters: 2 7 7 80 10 50 1000
Length:  50986338

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   

This is table  97  of  170  ( 20315 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)
30235636--30235927	97	3.0	97	75	9	299	33	10	11	44	1.75
30235636--30235943	98	3.2	97	75	11	299	33	10	11	44	1.75
30236834--30236879	24	2.0	23	82	4	56	26	4	8	60	1.44
30236938--30236987	26	1.9	26	91	0	82	44	8	12	36	1.71
30241091--30241125	18	1.9	18	94	0	61	54	25	0	20	1.45
30245357--30245684	27	12.1	27	83	0	341	40	20	18	20	1.91
30245358--30245680	54	6.0	54	84	1	387	40	20	18	20	1.92
30249130--30249640	27	19.1	27	78	4	428	42	21	16	18	1.89
30249138--30249640	53	9.4	53	82	8	459	42	21	16	18	1.89
30249130--30249640	80	6.4	79	76	7	417	42	21	16	18	1.89
30251549--30251761	97	2.2	97	77	4	223	34	12	9	43	1.75
30253572--30253656	25	3.3	24	77	16	89	63	4	5	25	1.37
30253587--30253656	28	2.6	28	80	6	74	61	5	7	25	1.44
30253449--30253720	26	10.4	25	72	15	160	59	5	6	27	1.46
30253632--30253697	33	2.0	33	82	11	82	59	6	6	28	1.46
30253573--30253730	58	2.8	53	76	12	147	62	4	5	27	1.38
30253780--30253868	29	3.3	24	78	20	88	67	3	4	24	1.25
30255121--30255165	18	2.5	18	82	7	56	40	17	4	37	1.70
30261366--30261428	25	2.5	25	84	5	74	31	17	14	36	1.90
30261725--30261780	18	3.1	18	79	7	60	33	19	5	41	1.74
30261725--30261790	18	3.6	18	73	22	57	36	18	4	40	1.71
30264846--30264934	31	3.0	29	77	11	90	41	15	8	33	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30275574--30275643	35	2.0	35	100	0	140	20	22	20	37	1.95
30286192--30286433	50	4.7	51	77	5	179	24	26	21	26	2.00
30290870--30290907	18	2.1	19	90	5	60	68	5	21	5	1.29
30296837--30296898	31	2.1	31	82	8	76	32	4	12	50	1.62
30299631--30299902	40	6.8	40	93	1	427	25	21	28	23	1.99
30299623--30299902	122	2.3	122	92	1	458	26	21	28	24	1.99
30308892--30308926	15	2.3	15	90	0	52	22	5	5	65	1.36
30317397--30317443	18	2.6	17	81	15	51	19	2	2	76	0.99
30321430--30321479	13	3.7	13	78	21	50	26	6	0	68	1.13
30326557--30326610	28	1.9	28	88	0	81	29	24	29	16	1.97
30326930--30326985	26	2.2	26	90	0	85	30	32	25	12	1.92
30327084--30327146	23	2.7	23	87	2	81	46	25	4	23	1.72
30327130--30327180	26	1.9	26	84	4	66	35	19	19	25	1.95
30327137--30327194	26	2.2	26	84	0	71	29	18	18	32	1.96
30327162--30327656	27	18.4	27	84	2	568	24	18	20	36	1.95
30335353--30335404	24	2.2	24	92	0	86	36	1	9	51	1.46
30346462--30346486	13	1.9	13	100	0	50	76	16	0	8	1.02
30347515--30347550	6	5.7	6	87	12	54	16	2	13	66	1.36
30347515--30347550	14	2.8	12	91	8	54	16	2	13	66	1.36
30352636--30352671	8	4.2	8	86	13	54	16	2	0	80	0.83
30356088--30356119	11	3.1	11	82	17	50	68	6	0	25	1.12
30356085--30356134	20	2.5	21	87	9	77	66	4	0	30	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30360992--30361030	15	2.6	15	87	0	60	35	28	5	30	1.79
30362526--30362600	27	2.8	27	83	0	69	21	29	13	36	1.91
30364512--30364548	2	18.5	2	100	0	74	48	0	51	0	1.00
30376303--30376544	50	4.7	50	81	5	229	28	21	26	23	1.99
30394974--30395090	62	1.9	61	84	8	159	49	5	5	40	1.47
30395098--30395177	37	2.2	37	78	14	85	52	3	2	41	1.33
30396169--30396227	31	1.9	31	89	0	91	45	8	8	37	1.65
30398367--30398460	39	2.4	40	87	1	127	37	22	24	15	1.93
30398412--30398477	20	3.3	20	70	8	62	27	18	36	18	1.94
30398363--30398487	40	3.2	40	87	1	171	35	19	28	17	1.94
30398429--30398493	20	3.2	20	64	14	53	32	16	30	20	1.95
30401705--30401752	24	2.0	24	100	0	96	37	8	8	45	1.64
30411494--30411526	10	3.4	10	83	8	50	24	0	0	75	0.80
30414357--30414400	22	2.0	23	86	8	65	50	0	6	43	1.29
30415401--30415446	24	1.9	24	86	0	65	41	8	26	23	1.83
30419259--30419283	10	2.5	10	100	0	50	0	16	0	84	0.63
30423864--30424039	50	3.5	49	80	6	176	38	13	14	33	1.85
30427691--30427734	22	1.9	24	81	9	56	27	13	13	45	1.81
30432268--30432311	20	2.1	21	87	4	63	13	0	40	45	1.44
30436388--30436417	15	2.0	15	100	0	60	53	13	13	20	1.72
30437922--30437983	27	2.3	27	86	2	81	33	0	3	62	1.11
30442950--30443166	41	5.3	41	92	0	344	25	28	17	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30443514--30443554	17	2.5	17	88	7	59	41	12	2	43	1.55
30444685--30444709	13	1.9	13	100	0	50	68	24	0	8	1.16
30446894--30446933	20	2.0	20	90	0	62	27	10	12	50	1.72
30446879--30446945	34	1.9	35	84	3	91	34	8	10	46	1.70
30450371--30450473	41	2.5	42	81	9	115	26	22	20	31	1.98
30456649--30456706	22	2.7	22	89	2	82	12	8	18	60	1.57
30459231--30459272	21	2.0	21	86	9	59	42	19	11	26	1.85
30463562--30463606	20	2.2	20	84	7	56	31	6	15	46	1.72
30471298--30471440	45	3.2	45	69	7	139	25	30	20	24	1.99
30471435--30471947	44	11.7	44	83	0	641	21	26	20	31	1.97
30471435--30471951	88	5.9	88	93	2	788	21	26	20	32	1.97
30474084--30474112	6	4.8	6	100	0	58	17	0	13	68	1.20
30474120--30474188	10	6.8	10	82	14	88	11	1	7	79	0.98
30474121--30474174	19	2.8	19	94	2	90	11	1	5	81	0.93
30474121--30474178	9	6.2	9	80	11	64	12	1	6	79	1.00
30474127--30474185	18	3.1	19	83	9	59	13	0	8	77	0.97
30478490--30478537	23	2.0	24	88	4	71	72	12	2	12	1.20
30478486--30478537	24	2.1	24	86	10	70	71	13	1	13	1.24
30479702--30479728	10	2.7	10	100	0	54	44	11	22	22	1.84
30487379--30487467	45	2.0	45	84	4	117	44	17	21	15	1.86
30488697--30489257	134	4.2	134	81	4	471	30	19	23	26	1.98
30488715--30489257	45	12.2	43	75	6	324	30	19	23	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30488715--30489180	45	10.4	45	78	4	453	29	19	24	25	1.98
30489582--30489628	23	2.0	23	88	8	69	72	12	2	12	1.21
30490949--30490992	3	15.0	3	85	4	63	29	2	2	65	1.16
30490949--30491010	9	7.1	8	76	18	54	27	3	3	66	1.23
30495254--30495304	20	2.5	20	78	12	59	29	11	13	45	1.79
30498546--30498576	15	2.1	15	100	0	62	0	25	0	74	0.82
30516243--30516498	125	2.1	124	87	3	363	29	15	23	31	1.95
30517477--30517518	22	1.9	23	85	9	61	35	0	30	33	1.58
30517520--30517604	22	3.9	22	83	11	104	40	1	29	29	1.64
30529794--30529842	23	2.1	23	96	0	89	44	32	8	14	1.74
30532279--30532329	20	2.5	21	87	3	68	17	19	17	45	1.86
30532296--30532434	42	3.3	42	84	1	181	13	23	19	43	1.87
30532364--30532438	21	3.5	21	67	8	53	13	26	18	41	1.87
30538446--30538607	77	2.1	77	96	0	297	41	7	9	41	1.65
30539906--30539932	6	4.5	6	100	0	54	51	14	18	14	1.76
30544704--30544742	15	2.7	15	88	4	53	89	0	10	0	0.48
30548367--30548394	5	5.6	5	100	0	56	17	0	0	82	0.68
30560966--30561001	18	2.0	18	94	0	63	58	0	0	41	0.98
30564092--30564168	7	10.9	8	74	22	50	62	0	0	37	0.96
30564090--30564160	13	5.3	13	75	13	56	61	0	0	38	0.96
30564085--30564167	19	4.1	20	76	19	82	61	0	0	38	0.96
30564085--30564159	7	11.0	7	75	17	61	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30564524--30564567	22	2.0	21	83	12	54	50	4	2	43	1.35
30564640--30564672	14	2.4	14	100	0	66	30	0	0	69	0.88
30569598--30569650	27	2.0	27	82	14	65	69	7	13	9	1.35
30570321--30570365	7	6.4	7	94	0	72	31	0	0	68	0.89
30571610--30571637	6	4.7	6	100	0	56	0	14	0	85	0.59
30579301--30579330	14	2.1	15	93	6	53	63	3	0	33	1.11
30583684--30583743	24	2.5	24	80	0	75	30	0	5	65	1.14
30584157--30584203	24	2.0	24	86	0	67	21	2	12	63	1.39
30586260--30586315	3	18.7	3	85	7	78	60	0	3	35	1.14
30587824--30588089	92	3.0	88	82	6	327	27	25	17	29	1.97

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