genome.fa.s16.2.7.7.80.10.50.1000.54.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  54  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)
15857675--15857708	14	2.5	14	90	4	52	26	20	2	50	1.63
15858638--15858670	8	4.2	8	88	3	50	15	0	9	75	1.03
15860063--15860101	20	2.0	20	90	10	62	51	30	5	12	1.62
15860508--15860551	20	2.2	20	83	0	52	18	18	2	61	1.45
15861210--15861287	25	3.2	24	80	12	95	30	21	23	24	1.99
15861219--15861298	25	3.2	25	79	10	101	35	18	22	23	1.96
15861597--15861638	17	2.4	18	80	4	50	52	7	2	38	1.42
15867275--15867564	51	5.7	51	74	6	257	29	14	25	30	1.95
15867275--15867552	102	2.7	102	85	1	380	29	14	26	30	1.95
15874996--15875281	51	5.6	50	79	6	308	28	14	26	30	1.95
15874993--15875273	102	2.8	102	90	1	422	28	14	27	29	1.96
15877311--15877392	17	4.4	17	71	21	56	42	1	3	52	1.26
15877378--15877471	31	3.1	31	72	14	95	36	3	6	54	1.42
15878392--15878457	15	4.6	14	73	16	55	65	0	3	31	1.08
15878439--15878509	24	2.8	24	80	6	70	60	2	7	29	1.37
15878643--15878686	21	2.0	23	86	8	65	61	4	2	31	1.28
15880049--15880894	50	17.0	50	66	3	355	24	24	21	29	1.99
15880106--15880837	100	7.4	100	88	0	1004	24	24	21	30	1.99
15880106--15880876	398	1.9	398	86	3	1086	24	23	21	30	1.99
15880854--15881164	166	1.9	167	84	0	426	26	26	18	28	1.98
15880854--15881217	166	2.2	167	81	0	406	26	26	18	28	1.98
15885212--15885247	18	2.0	18	100	0	72	44	27	5	22	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15886150--15886206	27	2.1	27	90	6	89	66	8	8	15	1.43
15886712--15886758	18	2.6	18	93	0	85	17	40	6	36	1.75
15905496--15906049	44	12.8	44	69	11	266	29	20	22	27	1.98
15905667--15905992	173	1.9	173	79	7	376	29	21	22	26	1.99
15905469--15906100	217	2.9	217	91	0	996	29	20	22	26	1.99
15919360--15919453	25	3.8	25	78	5	93	25	23	22	28	1.99
15922464--15922549	29	3.0	29	79	3	75	31	9	20	38	1.85
15922439--15922579	58	2.4	58	80	4	142	27	12	21	37	1.90
15922499--15922585	29	3.0	29	77	1	86	31	14	21	32	1.94
15925893--15925948	26	2.1	28	86	6	80	39	21	5	33	1.76
15939251--15939298	25	1.9	25	83	8	62	66	12	2	18	1.33
15941724--15941912	43	4.5	42	77	7	159	37	23	15	23	1.93
15941695--15941913	42	5.2	42	77	10	187	36	24	15	23	1.93
15941682--15941916	85	2.8	85	86	1	303	35	24	15	24	1.94
15947737--15947861	45	2.8	44	80	1	133	26	21	15	36	1.93
15947750--15947861	44	2.5	45	79	4	120	26	21	13	38	1.90
15947839--15947954	45	2.6	45	84	2	144	18	16	16	48	1.82
15958349--15958509	40	4.0	40	88	1	216	16	31	16	36	1.91
15958387--15958488	20	5.1	20	70	9	91	15	32	16	35	1.91
15958355--15958498	20	7.2	20	62	17	66	15	30	15	37	1.90
15961963--15962014	20	2.7	20	84	3	79	65	1	0	32	1.04
15962092--15962130	20	1.9	21	84	5	53	51	10	0	38	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15963758--15963851	23	4.1	23	85	0	134	47	4	25	22	1.69
15968261--15968354	23	4.1	23	85	0	134	47	4	25	22	1.69
15969002--15969084	42	2.0	42	100	0	166	37	28	9	24	1.87
15969448--15969502	25	2.2	24	84	9	67	65	1	0	32	1.03
15971396--15971430	18	1.9	18	88	11	54	57	2	11	28	1.48
15973348--15973509	44	3.6	45	78	8	154	27	24	18	29	1.98
15974562--15974621	30	2.0	31	83	9	79	41	0	38	20	1.52
15974837--15974873	9	4.1	9	92	0	65	29	10	13	45	1.77
15974927--15974957	9	3.4	9	90	0	53	38	22	12	25	1.90
15987461--15987495	18	1.9	18	88	11	54	57	2	11	28	1.48
15989521--15989555	17	2.1	16	94	5	61	17	0	8	74	1.06
15990431--15990509	41	1.9	42	86	2	115	50	3	5	40	1.42
15990610--15990651	16	2.6	17	81	11	52	38	0	0	61	0.96
15994819--15994859	20	2.0	22	85	9	59	48	4	0	46	1.23
15996099--15996146	22	2.2	22	92	0	78	39	20	12	27	1.89
16001128--16001169	22	1.9	22	100	0	84	47	21	9	21	1.79
16002316--16002353	18	2.1	18	90	0	58	7	23	18	50	1.73
16004017--16004052	18	2.0	18	88	0	54	77	0	19	2	0.88
16004418--16004442	12	2.1	12	100	0	50	24	0	0	76	0.80
16004403--16004446	21	2.1	21	87	8	63	29	0	2	68	1.02
16004468--16004543	28	2.7	29	83	4	102	35	3	0	60	1.15
16004532--16004576	19	2.4	18	85	14	56	20	4	0	75	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16004527--16004574	18	2.5	20	77	16	57	22	4	0	72	1.01
16014082--16014109	14	2.0	14	100	0	56	50	21	0	28	1.49
16015445--16015488	20	2.2	20	84	8	54	47	15	2	34	1.58
16018364--16018434	30	2.4	30	92	0	115	50	9	4	35	1.55
16022090--16022194	25	4.2	25	75	2	86	31	20	21	25	1.98
16028800--16028835	16	2.2	16	90	0	54	27	25	16	30	1.97
16030471--16030498	12	2.3	12	100	0	56	35	42	14	7	1.73
16034614--16034668	28	1.9	29	85	3	76	45	21	0	32	1.52
16037733--16037775	7	5.9	7	81	10	50	55	0	0	44	0.99
16040952--16040984	16	2.1	15	94	5	57	63	0	0	36	0.95
16043755--16044164	124	3.3	124	85	2	538	31	16	17	34	1.92
16044068--16044283	84	2.5	85	88	2	317	32	18	16	33	1.93
16044449--16044500	22	2.4	21	90	6	77	23	0	30	46	1.53
16044456--16044531	30	2.5	31	87	4	102	23	0	30	46	1.53
16044485--16044558	23	3.3	23	88	5	98	22	0	28	48	1.51
16044487--16044564	8	10.2	8	73	13	58	21	0	28	50	1.49
16049352--16049665	43	7.3	43	75	7	242	28	15	23	33	1.95
16050003--16050090	46	1.9	46	97	0	167	26	30	5	37	1.79
16055988--16056056	32	2.2	32	97	0	129	34	2	26	36	1.71
16065318--16065589	144	2.0	133	86	11	372	43	4	27	24	1.74
16065757--16065874	51	2.3	51	94	1	202	47	1	18	32	1.59
16065952--16066007	19	2.8	20	74	15	62	58	3	10	26	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16067957--16068088	66	2.0	67	95	1	239	28	13	33	25	1.93
16068240--16068290	25	2.0	25	96	0	93	39	0	17	43	1.49
16069314--16069358	24	1.9	23	82	13	56	48	13	11	26	1.75
16081863--16082232	182	2.0	182	95	0	659	44	25	4	25	1.73
16083006--16083164	46	3.4	46	76	8	142	32	19	20	28	1.97
16094035--16094067	15	2.1	17	88	11	52	42	0	0	57	0.98
16094173--16094245	29	2.4	29	86	4	92	26	13	13	46	1.80
16096682--16096717	18	1.9	19	94	5	65	63	13	0	22	1.29
16104876--16104915	19	2.0	20	85	4	55	25	20	7	47	1.75
16106785--16106826	20	2.1	20	91	8	68	11	14	4	69	1.34
16107742--16107787	23	1.9	25	86	8	69	73	0	13	13	1.09
16109084--16109845	89	8.6	89	90	1	980	30	16	24	28	1.96
16109823--16109859	14	2.6	14	95	0	65	51	8	24	16	1.71
16109084--16109851	222	3.4	221	83	4	661	30	16	25	28	1.96
16110785--16110831	8	5.5	8	82	12	58	10	4	2	82	0.88
16110785--16110838	8	6.1	9	85	8	51	12	5	1	79	0.98
16113454--16113726	29	9.4	29	80	4	217	23	26	12	37	1.91
16113454--16113701	87	2.8	87	76	5	257	22	26	12	38	1.90
16113458--16113726	116	2.3	116	86	1	360	23	25	13	37	1.91
16138154--16138248	25	3.8	25	73	5	84	23	22	24	30	1.99
16144619--16144650	12	2.6	13	85	14	50	56	6	0	37	1.25
16147085--16147224	43	3.3	42	77	6	158	36	22	17	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16147152--16147298	74	2.0	74	86	0	204	38	19	17	23	1.93
16147280--16147329	26	1.9	26	91	0	82	26	34	22	18	1.96
16158110--16158141	16	2.0	16	100	0	64	6	31	31	31	1.82
16158113--16158148	16	2.2	16	90	0	54	8	30	33	27	1.86
16158134--16158230	38	2.6	38	98	0	185	12	20	31	35	1.90
16158151--16158215	22	3.2	22	63	24	61	12	18	32	36	1.88
16169987--16170187	27	7.4	27	84	3	242	27	14	26	30	1.95
16175660--16175698	19	2.0	21	90	10	64	23	10	10	56	1.63
16184429--16184454	12	2.2	12	100	0	52	15	38	30	15	1.88
16187400--16187435	8	4.5	8	96	0	63	66	8	0	25	1.19

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