genome.fa.s22.2.7.7.80.10.50.1000.2.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_D09
Parameters: 2 7 7 80 10 50 1000
Length:  51526817

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   

This is table  2  of  172  ( 20605 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)
315722--315832	56	2.0	56	87	8	163	46	6	18	27	1.73
324250--324305	21	2.7	21	88	0	85	25	7	37	30	1.82
327687--327712	13	2.0	13	100	0	52	69	7	7	15	1.35
328035--328066	12	2.7	12	95	0	55	18	18	6	56	1.62
328327--328353	12	2.2	12	100	0	54	37	0	62	0	0.95
329116--329192	38	2.0	38	89	0	118	27	14	10	48	1.76
329985--330019	18	2.1	16	89	10	52	71	11	17	0	1.14
331606--331634	3	9.7	3	100	0	58	34	0	31	34	1.58
331824--331875	24	2.2	24	85	0	68	38	3	7	50	1.50
336227--336278	24	2.2	24	85	0	68	38	3	9	48	1.54
337678--337702	13	1.9	13	100	0	50	48	0	12	40	1.40
341503--341588	45	1.9	45	95	0	154	33	24	15	26	1.95
341590--341785	51	3.9	50	78	4	214	31	28	16	23	1.96
341596--341781	101	1.8	101	87	3	248	32	27	16	23	1.96
348889--348940	26	2.0	26	100	0	104	23	15	15	46	1.83
354294--354332	18	2.1	19	85	9	53	30	0	17	51	1.46
358995--359040	5	9.4	5	78	21	53	58	0	0	41	0.98
358999--359040	17	2.4	17	84	4	57	59	0	0	40	0.97
362445--362795	24	15.0	22	69	19	196	39	14	11	33	1.82
362445--362795	47	7.5	47	94	1	589	39	14	11	33	1.82
363033--363081	15	3.2	15	85	8	55	48	20	0	30	1.50
373466--373511	22	2.1	22	100	0	92	30	19	13	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
385576--385691	62	1.9	60	82	5	144	41	5	5	48	1.48
387790--387834	19	2.4	18	89	10	72	48	8	17	24	1.75
391923--392159	19	11.1	20	70	23	130	31	0	12	55	1.43
391957--392162	83	2.4	84	83	12	244	32	0	12	54	1.42
392067--392207	21	6.0	24	76	19	145	31	0	12	56	1.41
392057--392212	48	3.2	48	88	2	242	32	1	11	54	1.44
392222--392291	27	2.6	27	90	0	113	22	38	21	17	1.93
404897--404956	26	2.4	25	82	2	75	30	21	21	26	1.99
409513--409601	37	2.4	37	77	3	90	33	17	15	32	1.92
412136--412228	28	2.9	33	75	16	106	27	22	25	23	2.00
412590--412846	27	9.5	27	87	1	327	17	19	20	42	1.89
418829--418866	18	2.2	18	90	4	60	15	23	10	50	1.75
419676--419780	28	3.8	28	85	0	129	32	23	23	20	1.98
420135--420465	27	12.4	27	84	4	388	18	20	18	42	1.90
424047--424103	12	4.8	12	78	18	57	0	31	1	66	1.02
424043--424103	20	3.0	20	83	6	79	0	31	1	67	1.01
429480--429849	201	1.8	201	100	0	740	31	27	12	27	1.93
444707--444732	3	8.7	3	100	0	52	65	0	34	0	0.93
445282--445308	13	2.1	13	100	0	54	74	0	0	25	0.83
447155--447224	20	3.3	20	82	6	77	35	8	1	54	1.40
451288--451352	20	3.3	19	74	6	67	76	6	6	10	1.13
451320--451389	29	2.4	29	81	6	88	71	5	8	14	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451760--451799	21	2.0	20	90	5	62	67	0	17	15	1.23
453062--453360	131	2.3	131	83	6	351	31	19	25	24	1.98
453300--453951	130	5.0	130	89	0	941	28	18	26	26	1.98
453970--454086	45	2.6	44	80	1	117	26	22	24	26	2.00
453888--454130	44	5.6	44	71	6	154	27	18	25	28	1.98
456053--456099	20	2.3	20	88	0	67	29	8	4	57	1.48
481380--481606	41	5.5	41	91	1	348	21	27	20	30	1.98
489070--489296	41	5.5	41	91	1	357	22	28	18	30	1.97
489069--489341	123	2.2	123	86	5	374	22	27	18	31	1.97
492391--492452	25	2.5	25	89	0	88	27	22	24	25	2.00
492375--492464	25	3.7	24	79	7	83	27	22	25	24	2.00
493791--493839	11	4.5	11	94	0	89	65	10	0	24	1.23
503759--503896	50	2.8	49	87	6	197	23	16	29	29	1.96
503819--503900	26	3.2	26	65	22	73	25	14	28	31	1.95
508248--508438	56	3.4	55	77	7	190	30	21	21	26	1.99
512126--512212	21	4.1	21	76	7	77	36	22	20	19	1.95
512161--512212	23	2.3	23	83	6	72	34	21	19	25	1.96
513498--513564	5	13.6	5	74	3	64	59	0	2	37	1.13
517080--517113	7	4.7	7	92	7	59	0	11	0	88	0.52
517080--517113	15	2.4	14	95	5	59	0	11	0	88	0.52
519578--519868	38	7.4	39	68	16	138	42	2	5	49	1.37
519744--519789	16	2.9	16	78	12	51	45	0	2	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519584--519899	120	2.7	120	95	2	568	43	1	5	49	1.35
519864--519908	15	2.8	16	83	10	56	48	0	0	51	1.00
519865--519905	16	2.6	16	88	7	57	46	0	0	53	1.00
520051--520140	45	2.0	45	89	6	139	34	27	5	32	1.80
520119--520172	16	3.4	16	89	0	81	25	35	3	35	1.74
520905--520964	23	2.4	26	83	10	81	33	5	0	61	1.17
527078--527173	36	2.7	36	90	1	131	42	19	7	30	1.78
534707--535213	252	2.0	252	96	0	924	35	20	17	25	1.95
541037--541236	48	4.2	48	75	5	125	27	19	30	23	1.98
550751--550787	18	2.1	18	90	10	58	43	0	43	13	1.44
553447--553593	66	2.2	66	87	2	206	42	28	10	18	1.84
555933--555977	18	2.5	18	92	7	74	26	31	24	17	1.97
555982--556052	28	2.5	28	90	0	115	32	12	30	23	1.92
569730--569824	37	2.6	37	79	3	102	40	15	11	32	1.84
573417--573452	15	2.5	14	91	8	63	44	5	0	50	1.25
575032--575144	49	2.3	49	80	6	131	33	25	13	27	1.93
576477--576510	17	2.1	17	88	5	52	50	0	17	32	1.47
577378--577477	42	2.4	42	93	0	164	35	11	28	26	1.90
581546--581596	25	1.9	26	84	11	68	56	5	0	37	1.23
586008--586034	3	9.0	3	100	0	54	66	0	0	33	0.92
587824--587870	21	2.2	22	92	3	78	21	38	19	21	1.94
590732--590854	39	3.3	38	70	17	112	23	24	20	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
590682--590866	74	2.5	74	86	1	264	23	24	21	30	1.99
593726--593753	14	2.0	14	100	0	56	7	28	0	64	1.20
593706--593750	19	2.5	18	83	16	58	6	26	0	66	1.16
597522--597598	35	2.2	37	79	11	90	45	1	2	50	1.23
597692--597780	45	2.0	44	86	6	126	35	26	5	31	1.80
610811--610882	30	2.4	30	80	2	90	29	9	15	45	1.78
615295--615346	26	2.0	26	96	0	95	44	0	3	51	1.19
615323--615382	21	2.9	21	76	0	57	35	3	5	56	1.37
617210--617257	21	2.2	23	88	7	73	58	0	0	41	0.98
617217--617335	24	5.3	24	67	16	67	48	1	1	47	1.21
621662--622216	138	4.1	138	90	3	897	45	6	7	40	1.58
621662--622214	271	2.0	273	92	1	930	45	6	7	39	1.58
623067--623126	24	2.5	24	84	12	88	43	0	0	56	0.99
623069--623129	22	2.6	24	87	10	83	44	0	0	55	0.99
623319--623379	31	2.0	31	83	0	77	47	11	18	22	1.80
627502--627526	10	2.5	10	100	0	50	56	0	0	44	0.99
634583--634693	57	2.0	56	80	16	124	38	1	0	58	1.15
639601--639645	23	2.0	23	86	0	63	71	4	2	22	1.15
639618--639643	7	3.7	7	100	0	52	76	0	0	23	0.78
650458--650506	22	2.3	20	83	10	62	51	0	2	46	1.12
656719--656743	9	2.8	9	100	0	50	36	0	24	40	1.55
662978--663025	21	2.3	20	89	10	71	18	37	29	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
663544--663636	37	2.5	37	84	5	107	16	10	40	32	1.82
666358--666411	19	2.8	19	88	0	81	37	9	18	35	1.83
666358--666437	19	3.9	21	80	8	69	36	7	18	37	1.79
666969--667045	37	2.1	37	80	11	86	37	9	1	51	1.42
667436--667473	13	2.8	14	80	19	53	21	5	7	65	1.38
667480--667513	15	2.3	15	94	0	59	17	0	17	64	1.29
672972--673090	61	2.0	61	91	0	193	53	1	1	42	1.20
679569--679597	14	2.1	14	93	6	51	24	0	0	75	0.80
680704--680736	7	4.7	7	92	0	57	30	0	12	57	1.35
681391--681428	18	2.1	18	90	0	58	21	26	10	42	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