genome.fa.s20.2.7.7.80.10.50.1000.16.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  16  of  199  ( 23844 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)
5366810--5366860	6	8.7	6	78	4	50	5	11	39	43	1.66
5366892--5366943	18	2.9	18	73	0	50	11	7	51	28	1.65
5367412--5367459	24	2.0	24	95	0	87	35	12	14	37	1.84
5368457--5368700	120	2.0	120	100	0	488	33	9	13	43	1.78
5388648--5388686	21	1.9	20	84	5	51	53	2	28	15	1.55
5390952--5390994	20	2.0	22	86	8	63	69	4	11	13	1.33
5393486--5393529	20	2.4	19	85	14	65	27	0	0	72	0.85
5393493--5393529	10	3.5	11	78	14	51	27	0	0	72	0.84
5398645--5398669	12	2.1	12	100	0	50	52	8	8	32	1.60
5400857--5400906	23	2.2	23	82	7	57	66	2	2	30	1.14
5403894--5403934	17	2.4	17	87	0	55	43	14	9	31	1.78
5414573--5414603	9	3.6	9	95	4	55	61	0	0	38	0.96
5416050--5416630	189	3.0	193	83	6	625	32	13	19	34	1.91
5417839--5417882	17	2.5	17	74	3	52	70	0	2	27	0.99
5418660--5418707	23	2.1	23	100	0	96	27	12	20	39	1.89
5430816--5430855	21	2.0	20	85	5	53	50	0	2	47	1.14
5431892--5431918	7	3.9	7	100	0	54	29	0	0	70	0.88
5432097--5432406	152	2.0	152	99	0	611	32	16	23	27	1.96
5439767--5439834	31	2.2	31	89	0	100	42	5	8	42	1.60
5450662--5450719	16	3.6	16	77	11	55	50	1	1	46	1.22
5450729--5450791	23	2.7	24	74	16	69	58	0	1	39	1.07
5456415--5456463	18	2.5	20	84	15	68	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5456415--5456477	18	3.2	19	80	19	67	41	0	0	58	0.98
5459737--5459788	27	1.9	27	92	7	88	21	23	30	25	1.99
5459660--5459864	103	2.0	103	95	0	365	20	20	27	32	1.97
5459764--5459976	76	2.8	77	93	0	347	23	20	26	30	1.99
5459844--5459978	33	3.7	34	70	26	116	23	21	25	28	1.99
5463090--5463224	33	3.7	34	72	26	125	28	25	22	22	1.99
5463092--5463304	76	2.8	77	91	1	338	30	26	20	22	1.98
5463280--5463331	27	1.9	27	92	0	86	28	30	19	21	1.97
5463204--5463408	103	2.0	103	95	0	365	32	27	20	20	1.97
5465082--5465141	29	2.0	30	84	9	79	60	3	1	35	1.23
5468519--5468558	20	2.0	20	85	0	53	50	10	10	30	1.69
5470837--5470861	13	1.9	13	100	0	50	88	0	4	8	0.64
5470801--5470859	30	2.0	30	83	6	75	66	0	3	30	1.08
5473212--5473237	12	2.2	12	100	0	52	46	0	0	53	1.00
5481052--5481110	31	1.9	31	85	0	82	28	23	15	32	1.95
5485620--5485654	18	2.0	17	88	5	52	20	37	11	31	1.88
5488759--5488787	12	2.4	12	100	0	58	34	0	13	51	1.42
5488794--5488918	59	2.1	59	85	5	164	32	3	1	62	1.21
5489768--5489893	9	13.8	9	68	17	55	57	4	0	36	1.25
5489764--5489823	29	2.0	30	83	3	77	61	3	1	33	1.22
5494677--5494713	19	1.9	19	100	0	74	29	0	5	64	1.15
5501053--5501103	23	2.2	23	82	0	66	49	0	3	47	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5508343--5508401	24	2.5	23	76	13	57	28	20	1	49	1.59
5508454--5508498	24	1.9	23	86	4	63	57	2	0	40	1.11
5514953--5514977	11	2.3	11	100	0	50	24	8	12	56	1.62
5522058--5522122	33	1.9	34	84	9	89	46	3	3	47	1.33
5522328--5522395	23	3.0	23	82	4	75	48	1	2	47	1.26
5522530--5522571	14	2.9	14	83	16	59	54	0	7	38	1.28
5522615--5522657	23	2.0	22	90	9	70	44	6	4	44	1.52
5522615--5522665	21	2.5	21	84	15	63	49	7	3	39	1.51
5534676--5534700	12	2.1	12	100	0	50	36	16	8	40	1.77
5535054--5535231	93	1.9	93	82	4	225	45	11	12	29	1.78
5539372--5539417	15	2.9	17	71	15	53	28	2	0	69	1.00
5541631--5541687	30	1.9	30	85	0	78	57	0	5	36	1.21
5544902--5544938	14	2.4	17	86	13	53	48	0	0	51	1.00
5545127--5545160	16	2.1	16	88	5	50	76	5	14	2	1.09
5545855--5545897	11	3.8	12	81	12	54	37	0	2	60	1.10
5546032--5546108	27	3.1	25	78	14	70	38	0	24	36	1.56
5546032--5546089	23	2.5	24	80	11	66	39	0	24	36	1.55
5546252--5546347	39	2.5	39	80	6	108	20	23	28	27	1.99
5552364--5552400	14	2.4	17	86	13	53	48	0	0	51	1.00
5552550--5552600	14	3.6	14	74	7	50	68	1	13	15	1.30
5552589--5552622	16	2.1	16	88	5	50	76	5	14	2	1.09
5553494--5553570	27	3.1	25	78	14	70	38	0	24	36	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5553494--5553551	23	2.5	24	80	11	66	39	0	24	36	1.55
5553714--5553809	39	2.5	39	80	6	108	20	23	28	27	1.99
5557924--5558015	9	9.4	9	70	18	60	67	0	2	30	1.03
5557920--5558005	29	2.9	29	83	10	111	63	0	2	33	1.07
5557938--5558045	41	2.6	41	86	4	155	61	0	3	35	1.14
5557938--5558045	40	2.6	41	86	5	148	61	0	3	35	1.14
5557924--5558015	30	3.1	28	74	21	82	67	0	2	30	1.03
5558012--5558037	11	2.4	11	100	0	52	53	0	7	38	1.30
5561290--5561319	16	1.9	16	93	6	53	40	6	3	50	1.45
5568491--5568530	11	3.5	11	80	6	53	35	7	22	35	1.82
5568483--5568530	23	2.1	23	100	0	96	33	8	20	37	1.83
5568483--5568521	12	3.3	12	78	7	53	33	7	20	38	1.81
5569617--5569815	99	2.0	99	89	0	299	35	12	15	37	1.85
5579815--5579870	26	2.2	25	81	9	60	58	21	1	17	1.47
5593789--5594120	171	1.9	170	89	1	513	43	17	8	30	1.78
5594675--5595175	91	5.5	91	86	1	637	34	18	18	28	1.95
5594679--5595173	273	1.8	273	88	0	758	34	18	17	28	1.95
5595088--5596589	122	12.3	122	85	2	1849	33	17	17	31	1.94
5595146--5596517	733	1.9	729	88	2	2097	33	17	18	31	1.94
5598631--5598687	26	2.2	26	93	0	96	26	7	5	61	1.43
5598808--5598848	21	2.0	21	85	9	57	46	2	0	51	1.14
5600872--5601123	126	2.0	124	91	1	405	40	17	9	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5605697--5605813	44	2.7	44	74	11	114	23	23	24	29	1.99
5605965--5606470	88	5.8	88	94	0	836	25	22	22	28	1.99
5611010--5611058	19	2.5	20	80	6	57	42	12	18	26	1.85
5612612--5612654	18	2.4	18	80	0	50	34	13	6	44	1.72
5613066--5613177	8	14.0	8	75	11	52	54	4	5	35	1.43
5613140--5613186	10	4.5	10	77	17	51	63	0	4	31	1.13
5613266--5613342	30	2.6	30	73	6	75	55	14	20	9	1.66
5617502--5617613	57	2.0	57	96	0	206	45	14	8	31	1.75
5617766--5617815	26	2.0	25	84	4	64	62	6	8	24	1.46
5618059--5618967	304	3.0	298	81	4	940	37	11	15	35	1.83
5620501--5620587	22	4.2	21	82	11	99	31	0	11	57	1.34
5620525--5620581	19	2.9	19	86	2	78	33	0	14	52	1.41
5620646--5620703	22	2.9	19	72	22	55	32	1	13	51	1.51
5620656--5620793	21	6.0	21	73	19	114	30	1	13	54	1.48
5620622--5620805	48	3.8	47	85	5	233	32	1	13	53	1.47
5620743--5620799	21	2.9	19	80	10	69	35	1	12	50	1.50
5620624--5620805	96	1.9	97	90	4	294	31	1	13	53	1.47
5625042--5625083	16	2.7	15	85	7	57	57	2	2	38	1.25
5625458--5625653	27	7.8	26	76	18	193	53	13	1	31	1.49
5625462--5625655	49	3.9	49	87	7	286	54	13	1	30	1.49
5625463--5625655	97	2.0	100	92	3	329	54	13	1	30	1.48
5625479--5625536	22	2.9	19	76	14	62	51	12	1	34	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5625576--5625633	22	2.9	19	76	14	62	53	13	1	31	1.50
5625692--5625778	20	4.2	21	82	11	99	57	11	0	31	1.34
5635610--5635643	17	1.9	18	88	5	52	70	8	5	14	1.31
5650203--5650807	42	14.3	42	69	15	259	28	17	25	29	1.97
5650224--5650889	83	7.9	86	68	16	216	29	16	25	28	1.97
5650165--5650889	129	5.7	130	88	7	1032	28	17	24	29	1.97
5661887--5662003	44	2.7	44	74	11	114	23	23	24	29	1.99
5662155--5662659	88	5.8	88	94	0	827	25	22	22	28	1.99
5664362--5664417	18	3.1	19	76	7	53	10	10	7	71	1.31
5666889--5666937	19	2.5	20	80	6	57	42	12	18	26	1.85

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