genome.fa.s16.2.7.7.80.10.50.1000.13.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  13  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)
3822491--3822553	21	2.9	22	90	4	101	25	0	28	46	1.53
3822493--3822565	22	3.4	21	88	5	110	24	0	30	45	1.54
3822560--3822773	108	2.0	108	93	3	369	33	1	17	47	1.59
3822705--3822744	7	5.9	7	83	16	57	52	0	0	47	1.00
3822702--3822744	12	3.3	12	78	15	50	53	0	0	46	1.00
3823227--3823269	18	2.4	19	84	7	54	39	9	30	20	1.84
3825114--3825179	11	5.9	11	76	7	62	43	3	25	27	1.69
3825475--3825539	29	2.3	29	72	2	69	43	18	18	20	1.89
3825718--3825760	18	2.4	18	88	0	59	25	9	25	39	1.85
3826379--3826459	31	2.7	29	74	14	85	51	14	13	19	1.75
3827474--3827514	16	2.4	17	84	8	57	53	4	0	41	1.22
3832711--3832746	18	1.9	19	88	5	56	55	19	0	25	1.43
3835207--3835587	190	2.0	190	88	1	566	35	21	13	30	1.91
3840887--3840983	3	32.3	3	72	15	67	29	7	0	62	1.22
3840887--3840983	42	2.3	44	81	13	107	29	7	0	62	1.22
3841157--3841204	21	2.4	19	83	10	60	16	4	2	77	1.03
3841425--3841464	12	3.2	12	82	3	53	42	0	0	57	0.98
3841425--3841467	11	3.7	11	84	9	50	39	0	0	60	0.97
3841794--3842223	108	3.9	108	87	4	587	29	17	18	34	1.94
3841788--3842198	216	1.9	221	90	3	661	29	16	19	34	1.94
3843658--3843694	3	12.3	3	88	11	58	64	0	0	35	0.94
3843661--3843710	21	2.6	21	84	12	63	66	2	0	32	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3843966--3844071	53	2.0	54	94	1	187	11	19	3	65	1.40
3844039--3844071	14	2.4	14	85	14	50	3	9	0	87	0.63
3844202--3844277	21	3.7	21	84	7	102	36	11	10	40	1.76
3844179--3844270	21	4.4	20	85	8	96	39	13	8	39	1.75
3844214--3844278	19	3.3	19	82	4	76	36	13	9	40	1.77
3845028--3845572	50	11.1	49	76	11	367	33	20	23	23	1.97
3845092--3845572	99	4.9	99	78	6	439	32	19	23	23	1.98
3845089--3845572	98	5.0	95	77	10	363	32	19	23	23	1.98
3850863--3851558	103	6.8	99	76	10	509	33	24	18	23	1.97
3850863--3851511	99	6.4	99	76	10	483	34	24	18	23	1.96
3850863--3851558	50	13.7	50	77	8	519	33	24	18	23	1.97
3853788--3853972	100	1.8	101	86	5	268	33	22	10	32	1.89
3854332--3854382	20	2.5	20	90	0	75	31	17	13	37	1.89
3854462--3854517	20	2.8	20	70	2	60	67	0	3	28	1.07
3854472--3854550	28	2.8	27	81	13	79	63	1	2	32	1.16
3854539--3854689	10	15.3	10	65	19	52	62	1	5	29	1.29
3854510--3854632	20	6.1	20	70	7	70	61	1	4	32	1.24
3854539--3854632	31	3.1	30	80	6	118	62	1	4	31	1.21
3854546--3854652	30	3.6	29	77	9	108	62	1	5	29	1.28
3855082--3855311	89	2.6	86	75	15	241	33	9	20	36	1.85
3863865--3863899	3	11.7	3	100	0	70	34	0	0	65	0.93
3866307--3866373	22	2.8	24	78	10	68	47	0	1	50	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3875143--3875178	16	2.2	16	100	0	72	25	0	36	38	1.56
3875406--3875469	17	4.0	17	74	21	59	46	0	3	50	1.17
3875472--3875523	26	2.0	25	92	3	86	51	5	0	42	1.25
3875385--3875655	108	2.7	99	80	12	259	50	4	1	43	1.30
3887270--3887362	18	5.2	18	85	0	132	29	23	15	32	1.95
3897039--3897103	25	2.5	26	74	18	73	36	0	1	61	1.05
3897198--3897238	2	20.5	2	100	0	82	48	0	0	51	1.00
3900443--3900529	9	9.4	10	73	21	66	39	0	0	60	0.97
3900437--3900484	18	2.5	20	80	13	64	35	0	0	64	0.94
3900437--3900529	29	3.3	29	73	13	86	39	0	0	60	0.97
3900475--3900516	20	2.0	21	90	4	68	47	0	0	52	1.00
3900457--3900534	38	2.0	39	85	7	106	46	0	0	53	1.00
3905204--3905266	31	2.0	31	100	0	126	57	23	3	15	1.53
3908491--3908540	25	2.0	25	92	3	84	66	14	4	16	1.40
3909719--3909757	18	2.2	17	86	13	53	33	0	20	46	1.51
3909976--3910042	22	3.0	23	97	2	127	17	23	26	31	1.97
3912521--3912584	30	2.1	30	97	0	119	43	6	18	31	1.75
3914699--3914739	14	3.1	14	75	10	50	43	29	19	7	1.78
3914740--3915073	43	7.8	43	89	3	435	27	31	17	23	1.97
3920263--3920292	14	2.1	14	93	0	51	40	36	0	23	1.55
3922756--3922822	9	7.4	9	89	0	98	46	22	5	25	1.74
3922755--3922822	18	3.8	18	90	0	109	47	22	5	25	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3922924--3922975	18	2.8	18	82	2	59	21	1	36	40	1.64
3923379--3923418	21	2.0	21	95	5	73	62	10	0	27	1.27
3927168--3927232	29	2.2	28	84	7	85	56	6	7	29	1.51
3927181--3927241	29	2.1	29	100	0	122	52	3	9	34	1.51
3933564--3933614	10	5.4	9	78	17	50	39	0	1	58	1.09
3933544--3933615	28	2.7	27	82	8	76	44	0	1	54	1.08
3933547--3933613	18	3.6	19	80	7	68	44	0	1	53	1.09
3933558--3933614	19	3.1	19	85	7	73	42	0	1	56	1.10
3933973--3934038	22	3.0	23	73	4	64	50	0	6	43	1.27
3939216--3939256	16	2.6	16	88	0	64	46	4	4	43	1.46
3939318--3939465	43	3.5	42	72	18	135	41	3	5	49	1.42
3939309--3939387	34	2.3	35	89	6	117	41	3	5	49	1.43
3939301--3939469	83	2.0	85	91	3	279	40	4	6	49	1.48
3939369--3939442	33	2.2	34	87	4	105	37	1	9	51	1.43
3942649--3942811	26	6.5	26	68	17	85	39	20	20	20	1.93
3943987--3944125	40	3.5	40	76	8	151	29	23	17	29	1.97
3945014--3945068	10	5.5	10	80	6	58	3	18	5	72	1.18
3945014--3945078	29	2.2	29	91	0	103	4	18	4	72	1.20
3945100--3945170	27	2.7	25	78	22	74	52	1	1	45	1.18
3946584--3946642	30	2.0	30	83	6	75	18	16	0	64	1.29
3950833--3950878	21	2.1	21	84	4	56	34	4	4	56	1.39
3956496--3956578	41	2.0	41	100	0	166	15	9	45	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3957850--3957880	12	2.6	12	94	0	53	9	16	19	54	1.68
3961732--3961789	29	2.0	29	87	12	84	48	5	20	25	1.70
3964961--3965130	88	1.9	88	98	0	331	39	20	14	25	1.91
3967647--3967689	21	2.0	21	100	0	86	20	13	32	32	1.92
3973734--3973822	47	2.0	43	84	8	115	44	3	3	48	1.36
3974636--3974694	31	1.9	32	83	13	79	55	8	6	28	1.55
3977198--3977279	31	2.6	31	86	0	119	43	12	9	34	1.75
3977198--3977293	31	3.1	30	77	5	93	46	11	9	32	1.72
3979115--3979166	24	2.2	24	89	0	77	50	7	3	38	1.50
3979859--3979910	24	2.2	24	89	0	77	50	9	3	36	1.54
3982421--3982460	14	2.9	14	84	0	53	67	0	5	27	1.11
3986723--3986776	24	2.2	25	83	12	67	50	5	7	37	1.54
3994230--3994256	3	9.0	3	100	0	54	33	0	0	66	0.92
4003113--4003149	18	2.1	17	90	5	56	35	5	8	51	1.55
4004051--4004303	140	1.8	141	81	7	318	41	13	16	29	1.86
4005491--4005525	2	17.5	2	100	0	70	51	0	48	0	1.00
4009646--4009703	21	2.7	21	83	2	80	18	34	15	31	1.93
4010520--4010603	41	2.0	41	97	0	159	25	11	17	45	1.83
4010667--4010722	22	2.5	22	82	5	78	8	17	0	73	1.08
4027369--4027478	25	4.5	25	77	7	100	31	23	26	18	1.97
4027615--4027685	25	2.9	24	72	4	61	36	21	25	16	1.94
4028001--4028041	21	2.0	21	85	0	55	43	21	0	34	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4043159--4043305	57	2.6	58	77	7	158	21	17	18	42	1.89
4044520--4044563	11	3.8	12	80	19	58	25	31	0	43	1.55
4047347--4047404	26	2.2	26	87	0	89	36	10	10	43	1.73
4047849--4047915	34	1.9	35	87	3	100	46	8	8	35	1.67
4050672--4050857	22	8.1	22	72	10	106	52	28	0	19	1.46
4050673--4050747	29	2.6	28	81	10	89	53	28	0	18	1.45
4050709--4050872	22	7.5	22	76	10	149	50	28	0	20	1.48
4050703--4050857	44	3.5	43	83	8	188	51	29	0	19	1.47
4054080--4054644	251	2.3	250	91	1	882	29	23	17	29	1.97
4054080--4054647	125	4.5	125	84	4	750	29	23	17	29	1.97

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