genome.fa.s16.2.7.7.80.10.50.1000.2.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_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  2  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)
374259--374293	18	2.0	17	88	5	52	45	0	0	54	0.99
374236--374412	57	3.0	58	67	20	150	44	0	5	49	1.30
374379--374427	18	2.9	17	82	8	55	46	0	2	51	1.12
379954--380015	18	3.3	20	75	20	64	41	0	3	54	1.16
379965--380018	27	2.0	27	82	10	65	42	0	3	53	1.18
379961--380032	19	3.7	19	77	7	65	33	0	4	62	1.14
381892--381932	11	3.6	12	83	12	59	26	0	4	68	1.10
385391--385418	6	4.7	6	100	0	56	50	0	0	50	1.00
386345--386383	17	2.2	18	86	4	53	58	0	7	33	1.26
401537--401565	7	4.1	7	100	0	58	41	0	0	58	0.98
402041--402080	16	2.5	16	91	0	62	37	10	25	27	1.88
402363--402417	28	2.0	28	85	7	76	58	0	1	40	1.09
402380--402415	18	2.1	18	94	5	65	63	0	0	36	0.94
405454--405484	15	2.1	15	93	0	53	41	19	6	32	1.77
405935--406003	23	3.1	23	73	23	67	55	1	1	42	1.18
407615--407907	50	5.8	50	86	0	415	20	30	23	25	1.99
408245--408301	30	1.9	29	85	3	78	28	24	5	42	1.76
410460--410583	56	2.1	59	82	5	155	50	12	12	23	1.75
419028--419099	32	2.2	32	90	4	110	18	18	25	38	1.92
421371--421400	8	3.8	8	100	0	60	33	13	13	40	1.83
444406--444551	72	2.0	72	94	0	256	37	25	16	20	1.93
449520--449554	11	3.1	12	88	12	56	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449678--449739	30	2.1	30	93	0	106	59	12	3	24	1.48
457805--457856	24	2.2	24	85	0	68	51	7	5	34	1.54
464573--464614	19	2.2	20	86	4	59	35	0	2	61	1.09
470680--470755	39	1.9	39	89	0	116	30	10	19	39	1.86
473712--473778	22	3.0	22	79	16	68	29	4	0	65	1.12
473731--473769	14	2.9	14	84	3	53	33	0	0	66	0.92
474624--474776	58	2.6	58	89	0	234	37	20	9	32	1.85
476687--476724	4	9.5	4	100	0	76	26	0	23	50	1.50
478865--478897	15	2.1	16	88	5	50	48	3	12	36	1.56
480304--480359	29	1.9	29	85	0	76	37	5	8	48	1.58
485832--485872	21	2.0	21	90	0	64	19	29	21	29	1.98
490052--490108	4	14.2	4	100	0	114	26	0	24	49	1.51
499129--499987	278	3.0	282	80	7	728	27	16	18	37	1.92
500013--500075	21	3.0	22	80	17	71	65	1	33	0	1.03
501879--502229	126	2.8	126	86	3	492	31	13	20	33	1.92
505319--505776	23	19.7	23	73	15	338	28	2	23	45	1.64
505310--505377	29	2.3	29	89	0	100	27	2	25	44	1.68
505355--505690	133	2.5	134	86	7	439	29	1	21	46	1.62
505357--505690	67	4.9	67	83	7	408	29	1	21	47	1.61
505493--505750	50	5.5	49	79	12	260	27	1	23	46	1.63
505579--505649	22	3.2	22	71	15	56	28	0	21	50	1.49
505633--505699	22	3.0	22	76	6	73	26	1	25	46	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505347--505750	46	8.8	44	76	15	374	28	2	23	46	1.64
505808--505929	53	2.3	53	90	4	194	54	7	0	38	1.29
505802--505890	43	2.1	43	80	4	99	52	8	0	38	1.33
506988--507012	7	3.6	7	100	0	50	60	12	0	28	1.32
508242--508315	22	3.4	22	80	9	80	45	0	29	24	1.53
508155--508270	51	2.3	51	92	0	187	47	0	24	28	1.52
511109--511303	102	1.9	103	88	1	293	29	27	15	27	1.96
514472--514510	19	2.1	19	100	0	78	41	7	20	30	1.80
517049--517126	30	2.5	30	81	10	86	43	2	3	50	1.34
518463--518499	18	2.1	18	100	0	74	27	16	10	45	1.80
519070--519095	10	2.6	10	100	0	52	34	0	0	65	0.93
520691--520761	31	2.2	32	87	5	108	32	12	11	43	1.78
522567--522600	4	8.5	4	100	0	68	23	0	26	50	1.50
534238--534595	146	2.5	145	89	3	542	39	18	16	25	1.91
541475--541515	20	2.0	20	100	0	82	24	14	14	46	1.82
541476--541520	20	2.5	17	86	13	56	26	15	15	42	1.87
541682--541740	29	2.0	29	100	0	118	33	16	16	32	1.92
544905--544963	18	3.3	17	83	11	57	81	3	11	3	0.94
544916--544953	13	3.1	13	88	7	53	86	0	10	2	0.66
545763--545933	66	2.6	65	84	1	207	29	17	30	22	1.97
549020--549075	29	1.9	29	92	0	94	35	14	7	42	1.73
549359--549398	20	2.0	20	85	9	55	67	2	2	27	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562300--562691	174	2.3	170	86	4	538	35	19	18	26	1.95
568502--569117	164	3.7	164	87	3	810	26	20	17	34	1.95
573705--573795	37	2.7	33	75	17	87	39	3	0	57	1.15
579714--579807	47	2.0	46	89	6	145	36	12	9	41	1.76
580100--580136	19	1.9	19	89	10	58	75	10	0	13	1.04
580437--580837	198	2.0	198	95	0	721	30	18	14	36	1.91
585261--585312	7	7.0	7	78	20	52	59	0	0	40	0.97
585260--585312	23	2.4	22	84	12	72	60	0	0	39	0.97
587675--587714	21	2.0	20	85	5	53	65	12	10	12	1.49
590137--590180	17	2.6	17	79	13	54	29	4	11	54	1.56
591864--591905	15	2.8	15	78	7	50	35	0	4	59	1.19
593137--593178	15	2.5	17	74	18	52	69	0	0	30	0.89
593984--594011	13	2.2	13	100	0	56	21	0	0	78	0.75
593978--594013	18	2.0	18	94	0	63	22	2	0	75	0.94
594919--594948	11	2.7	11	89	0	51	63	10	6	20	1.47
596078--596177	41	2.5	40	80	6	116	32	22	18	28	1.97
597097--597140	5	8.8	5	100	0	88	59	0	0	40	0.98
602773--602835	4	15.8	4	96	0	99	25	4	23	46	1.72
602733--603188	244	1.9	244	80	10	549	28	11	21	39	1.88
617629--617685	21	2.8	19	82	15	62	35	40	12	12	1.80
643521--643562	22	2.0	21	85	4	57	47	4	0	47	1.23
646797--646821	7	3.6	7	100	0	50	12	0	0	88	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661266--661291	3	8.7	3	100	0	52	34	65	0	0	0.93
662644--663122	137	3.4	140	84	4	586	27	16	21	33	1.95
662644--663125	144	3.4	143	84	5	554	27	16	21	33	1.95
664919--664992	26	2.8	26	81	0	85	16	6	32	44	1.73
666704--666731	13	2.2	13	100	0	56	32	39	14	14	1.86
667118--667176	31	1.9	31	82	0	73	44	3	3	49	1.36
671345--671378	10	3.4	10	87	0	50	23	0	0	76	0.79
671346--671381	18	2.1	18	89	5	56	27	0	0	72	0.85
672777--673013	127	1.9	125	80	8	275	36	8	20	35	1.82
673138--673190	28	1.9	27	84	3	70	45	30	1	22	1.63
676787--676905	59	2.0	59	100	0	238	40	22	15	21	1.91
679485--679524	20	2.0	20	100	0	80	45	5	15	35	1.68
679656--679703	13	4.0	13	76	15	50	41	0	2	56	1.11
679650--679687	12	3.1	13	81	11	53	42	0	0	57	0.98
679650--679701	23	2.2	23	83	10	61	40	0	1	57	1.10
682410--682434	2	12.5	2	100	0	50	0	0	48	52	1.00
685437--685500	16	3.9	16	77	6	58	31	1	12	54	1.47
691135--691176	19	2.2	20	86	4	59	54	33	7	4	1.49
696092--696478	159	2.4	159	95	0	684	27	10	20	41	1.85
698506--698637	31	4.4	31	70	5	99	20	18	19	41	1.90
698833--698916	31	2.7	31	88	1	116	45	19	15	20	1.86
712548--712978	166	2.6	165	86	2	585	31	17	17	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
715439--715521	22	3.5	22	68	23	69	45	7	9	37	1.65
715440--715541	50	2.0	50	100	0	204	42	9	9	38	1.71
718318--718385	24	2.8	23	78	8	82	69	5	7	17	1.33
721115--721217	51	2.0	52	86	1	145	34	17	14	33	1.90
721019--721317	153	2.0	151	87	4	431	31	16	16	36	1.90
721179--721364	101	1.8	103	88	2	286	29	13	16	41	1.86
724207--724275	30	2.4	28	81	11	77	50	4	7	37	1.50
724628--724661	16	2.1	17	88	5	52	58	0	0	41	0.98
729950--729988	18	2.2	17	86	4	51	23	0	10	66	1.22
735153--735189	19	2.0	19	89	5	58	37	0	8	54	1.30

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