genome.fa.s17.2.7.7.80.10.50.1000.139.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_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  139  of  173  ( 20651 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)
42278657--42278706	24	2.1	24	81	7	57	40	0	2	58	1.10
42279138--42279289	82	1.9	82	83	8	202	21	21	6	50	1.71
42279246--42279316	20	3.6	20	78	1	81	21	23	0	54	1.44
42279307--42279356	20	2.5	21	80	6	59	20	16	10	54	1.70
42279753--42279845	20	4.6	20	69	12	55	46	12	21	19	1.83
42280773--42280865	48	1.9	49	91	2	152	17	18	12	51	1.76
42286853--42286893	21	2.0	21	90	0	64	29	21	29	19	1.98
42291306--42291341	3	12.0	3	100	0	72	66	0	0	33	0.92
42291971--42292034	29	2.2	29	86	5	85	48	7	6	37	1.57
42294094--42294138	23	2.0	23	91	4	74	46	17	4	31	1.68
42294120--42294172	19	3.0	17	73	10	52	33	18	9	37	1.83
42294091--42294148	22	2.6	22	86	7	82	43	18	3	34	1.68
42300158--42300202	23	2.0	23	91	4	74	46	17	4	31	1.68
42300184--42300236	19	3.0	17	73	10	52	33	20	9	35	1.85
42300155--42300212	22	2.6	22	86	7	82	43	18	3	34	1.68
42303655--42303883	123	1.9	118	86	10	324	49	14	2	33	1.55
42303867--42303924	28	2.1	28	78	6	75	60	18	0	20	1.36
42317105--42317173	5	12.8	5	79	14	75	78	0	1	20	0.83
42317100--42317170	17	4.2	17	74	15	67	77	0	1	21	0.85
42321610--42321660	13	3.9	13	92	0	84	29	7	21	41	1.81
42325009--42325074	23	2.7	26	79	13	84	39	16	39	4	1.69
42327753--42327833	40	2.0	40	92	0	135	18	11	30	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42337112--42337279	27	6.3	26	86	4	228	16	17	22	42	1.88
42337112--42337274	80	2.0	81	88	3	240	16	18	23	41	1.90
42339190--42339234	3	15.0	3	80	0	54	33	0	4	62	1.15
42339301--42339334	13	2.6	13	95	0	59	38	0	2	58	1.13
42349364--42349654	50	5.7	50	76	6	205	29	21	25	23	1.99
42352891--42353010	45	2.5	48	81	10	140	39	18	29	13	1.88
42354273--42354472	44	4.6	43	76	10	190	32	19	23	25	1.98
42354324--42354509	88	2.1	88	90	4	288	33	17	22	26	1.96
42354361--42354507	44	3.3	43	74	8	152	31	17	21	29	1.96
42354531--42354648	45	2.6	45	80	6	123	31	17	22	27	1.97
42354414--42354649	128	1.8	130	80	7	284	32	17	22	27	1.96
42354356--42354776	44	9.8	44	67	17	136	31	18	21	28	1.97
42361885--42361937	17	3.1	17	86	0	79	50	3	22	22	1.64
42368021--42368139	41	2.9	41	87	3	161	26	18	23	31	1.97
42369574--42369623	17	2.9	17	93	0	91	44	6	26	24	1.76
42375153--42375191	20	2.0	20	90	10	62	51	30	5	12	1.62
42376319--42376443	25	5.0	25	77	0	142	27	16	23	32	1.96
42376293--42376472	50	3.6	50	86	0	234	27	17	23	31	1.97
42376332--42376472	25	5.6	25	78	0	138	26	18	24	30	1.98
42376965--42377002	20	1.9	20	94	0	67	23	7	0	68	1.16
42392960--42392995	16	2.3	16	90	4	56	33	2	5	58	1.36
42395679--42395712	17	2.0	17	94	0	59	38	2	11	47	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42401150--42401209	30	2.0	31	83	9	79	28	15	6	50	1.69
42411473--42411526	24	2.2	24	86	0	72	27	16	31	24	1.96
42411693--42411726	15	2.4	14	90	5	50	26	2	0	70	1.01
42420290--42420334	19	2.3	20	88	3	65	24	35	0	40	1.56
42422394--42422428	11	3.4	11	88	11	56	77	0	0	22	0.78
42423776--42423828	23	2.4	22	76	20	56	9	18	1	69	1.25
42426173--42426204	12	2.6	12	95	5	55	65	3	6	25	1.31
42429434--42429466	16	1.9	17	88	11	50	39	0	30	30	1.57
42429838--42429874	9	4.1	9	92	0	65	29	10	13	45	1.77
42435825--42435889	33	2.0	33	96	0	121	44	12	7	35	1.71
42439416--42439452	18	2.0	19	89	5	58	64	0	0	35	0.94
42439483--42439659	56	3.1	55	69	22	159	51	3	9	36	1.50
42439591--42439643	22	2.4	23	72	18	58	56	0	7	35	1.28
42439483--42439703	114	2.0	112	90	7	351	52	3	9	35	1.51
42440459--42440489	12	2.6	12	89	0	53	83	3	6	6	0.88
42440763--42440793	15	2.1	15	93	0	53	19	19	29	32	1.96
42448334--42448369	3	12.0	3	100	0	72	33	33	0	33	1.58
42451558--42451601	11	3.9	11	79	5	52	75	6	0	18	1.02
42451556--42451599	23	1.9	23	95	0	79	75	6	0	18	1.02
42451845--42452505	159	4.3	153	85	5	827	51	7	10	31	1.64
42452635--42452677	11	4.2	10	85	11	52	16	0	9	74	1.06
42452635--42452674	20	2.0	20	85	9	55	15	0	7	77	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42453942--42454220	123	2.3	124	95	1	499	30	15	20	33	1.94
42457363--42457460	29	3.4	25	90	9	88	27	0	26	45	1.54
42457365--42458167	30	26.8	30	85	10	1049	29	0	24	46	1.55
42457365--42458167	59	13.4	60	84	10	1049	29	0	24	46	1.55
42457541--42457585	23	1.9	23	86	4	63	28	0	28	42	1.56
42457732--42457844	23	4.4	23	72	23	100	29	0	22	48	1.51
42457718--42457814	23	3.9	23	78	15	104	29	0	22	47	1.52
42458049--42458116	23	2.9	23	95	2	118	29	0	25	45	1.54
42460339--42460394	25	2.3	25	80	14	64	62	5	0	32	1.18
42460552--42460610	30	2.0	30	96	0	109	35	0	32	32	1.58
42461993--42462033	7	5.9	7	82	0	55	43	34	0	21	1.53
42461993--42462038	14	3.4	14	93	3	76	45	30	0	23	1.53
42476260--42476359	40	2.6	39	78	12	100	23	3	11	63	1.41
42479080--42479157	33	2.3	34	82	2	95	12	17	19	50	1.78
42479080--42479191	34	3.3	34	81	1	109	14	22	16	46	1.83
42479112--42479205	34	2.8	34	85	0	116	18	25	14	41	1.88
42479331--42479427	51	1.9	49	83	8	124	20	25	12	41	1.87
42488062--42488113	25	2.1	25	100	0	104	42	3	7	46	1.51
42502853--42503041	50	3.8	49	79	8	193	60	4	6	27	1.42
42502853--42503267	26	15.8	26	67	19	166	59	3	7	28	1.42
42502996--42503136	60	2.4	58	78	11	142	62	2	5	29	1.32
42503090--42503253	27	6.4	25	68	16	79	60	1	8	29	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42503187--42503227	15	2.8	16	82	10	52	70	2	0	26	0.99
42504059--42504104	19	2.2	21	85	11	60	23	6	13	56	1.60
42522969--42523014	16	3.0	16	81	9	60	43	10	4	41	1.59
42528551--42528578	5	5.6	5	100	0	56	17	21	17	42	1.89
42528811--42528845	16	2.2	16	90	5	54	40	8	17	34	1.80
42536966--42537008	18	2.4	18	80	7	52	30	4	0	65	1.13
42548243--42548275	14	2.5	14	90	9	52	66	0	15	18	1.25
42549570--42549930	44	7.8	44	68	18	194	32	19	20	27	1.97
42549559--42549981	142	3.0	142	92	0	702	32	18	21	27	1.97
42549837--42549973	44	3.1	44	81	6	127	32	18	22	26	1.97
42556179--42556314	67	2.0	67	98	0	263	32	14	24	28	1.95
42557171--42557242	31	2.4	31	84	13	96	43	12	11	33	1.78
42557913--42557942	2	15.0	2	100	0	60	50	0	0	50	1.00
42558913--42558958	18	2.6	18	89	0	65	43	8	8	39	1.66
42559510--42559547	9	4.2	9	80	12	51	65	0	2	31	1.06
42559865--42559939	30	2.5	29	80	16	82	41	8	6	44	1.60
42571232--42571282	22	2.3	23	83	6	61	45	1	11	41	1.52
42573156--42573198	19	2.3	19	80	11	54	44	16	2	37	1.60
42574349--42574395	21	2.2	22	85	7	62	63	6	0	29	1.19
42574357--42574396	21	1.9	21	90	10	64	65	2	0	32	1.06
42575492--42575538	14	3.3	15	72	22	55	78	12	0	8	0.95
42576842--42576889	20	2.4	21	80	16	57	22	8	2	66	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42576891--42576931	15	2.7	16	81	11	50	21	9	2	65	1.34
42577066--42577090	12	2.1	12	100	0	50	24	8	0	68	1.16
42588344--42588396	17	3.2	17	78	2	54	32	5	1	60	1.31
42588343--42588409	28	2.4	28	82	9	75	29	7	1	61	1.32
42588373--42588408	12	2.9	12	88	8	54	33	8	0	58	1.28
42588346--42588425	22	3.6	21	70	14	63	32	6	2	58	1.36
42594441--42594474	11	3.1	11	86	0	50	76	0	11	11	1.02
42595811--42596189	50	7.6	50	72	7	286	34	24	17	24	1.95
42595781--42596252	100	4.7	100	88	1	653	34	23	18	24	1.96
42596844--42596913	27	2.6	26	75	24	65	70	4	17	8	1.29

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