genome.fa.s22.2.7.7.80.10.50.1000.14.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  14  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)
3697921--3698355	176	2.5	176	84	7	537	29	19	23	26	1.98
3697921--3698356	88	5.0	87	81	5	445	29	19	23	26	1.98
3698545--3698731	50	3.8	49	76	7	180	32	20	19	27	1.97
3698549--3698747	100	2.0	100	87	2	283	33	20	18	28	1.96
3698764--3698885	44	2.8	44	82	2	138	32	18	20	28	1.96
3700276--3700301	3	8.7	3	100	0	52	34	0	0	65	0.93
3700468--3700502	10	3.3	10	85	14	52	45	8	0	45	1.34
3705634--3705658	13	1.9	13	100	0	50	24	32	36	8	1.84
3709748--3709789	11	3.7	11	81	12	50	19	0	9	71	1.13
3710997--3711088	29	3.0	30	82	9	107	63	0	1	35	1.02
3711023--3711127	41	2.6	41	92	4	169	64	0	3	31	1.11
3711200--3711270	31	2.2	33	82	14	85	18	32	14	35	1.90
3715732--3715783	23	2.2	24	89	3	79	32	1	9	55	1.43
3721043--3721093	15	3.5	15	84	10	70	52	0	11	35	1.38
3722442--3722510	35	2.0	35	97	0	129	18	11	52	17	1.74
3722950--3723619	130	5.1	130	90	1	1081	27	24	19	28	1.98
3722950--3723619	43	15.4	43	63	8	122	27	24	19	28	1.98
3722950--3723695	262	2.9	261	92	1	1219	27	24	19	28	1.99
3723600--3723793	95	2.0	95	93	0	334	28	21	19	30	1.97
3723590--3724024	231	1.9	229	94	0	762	29	22	19	29	1.98
3723829--3724119	95	3.0	95	94	1	510	28	22	18	29	1.98
3723600--3724350	326	2.3	326	95	0	1351	28	22	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3724155--3724350	97	2.0	95	93	1	329	28	21	18	31	1.97
3723926--3724393	231	2.0	229	92	0	774	29	22	18	29	1.97
3757398--3757437	20	2.0	20	85	9	55	2	17	25	55	1.55
3761271--3761680	132	3.1	131	78	4	466	28	21	20	28	1.98
3761837--3762125	132	2.2	133	89	1	456	28	24	18	28	1.98
3761837--3762137	133	2.3	132	88	1	442	27	24	18	29	1.98
3762192--3762377	50	3.7	50	69	7	144	27	22	19	30	1.98
3762135--3762403	100	2.7	100	86	3	353	26	24	21	28	1.99
3763640--3763681	7	6.0	7	79	20	52	14	16	0	69	1.20
3768551--3768616	31	2.2	29	86	5	96	53	3	9	34	1.48
3768554--3768616	29	2.2	28	83	11	74	53	3	7	34	1.46
3770515--3770549	14	2.5	14	90	9	54	85	2	11	0	0.69
3770497--3770556	19	3.2	19	79	13	54	80	5	15	0	0.88
3771717--3771756	19	2.0	20	85	4	55	37	12	2	47	1.55
3772038--3772088	27	1.9	27	88	11	79	21	9	11	56	1.63
3779794--3779819	7	3.7	7	100	0	52	84	0	15	0	0.62
3787047--3787196	30	5.1	30	95	1	259	32	10	17	40	1.82
3794141--3794263	30	4.1	30	88	0	165	34	8	14	43	1.75
3794141--3794287	60	2.3	66	86	6	207	33	8	14	42	1.77
3795908--3795954	12	3.9	12	77	0	58	2	38	27	31	1.69
3796888--3796963	31	2.4	32	77	4	82	42	11	21	25	1.86
3826247--3826285	19	1.9	19	85	10	51	64	5	0	30	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3831708--3831759	17	2.9	17	85	5	59	17	5	1	75	1.10
3831701--3831757	29	2.0	28	86	3	78	19	3	1	75	1.04
3832380--3832404	5	5.0	5	100	0	50	80	0	0	20	0.72
3832552--3832744	105	1.8	105	83	4	255	30	13	25	30	1.94
3832740--3832778	10	3.8	10	86	3	51	87	2	2	7	0.73
3832740--3832780	20	2.0	20	90	4	64	82	2	2	12	0.86
3845028--3845147	63	1.9	62	86	5	170	28	25	20	25	1.99
3862124--3862246	46	2.7	46	80	1	140	19	17	15	47	1.83
3862215--3862381	45	3.7	45	81	0	172	23	20	17	38	1.93
3862359--3862476	45	2.6	45	89	0	173	20	14	16	48	1.81
3863453--3863515	28	2.3	27	83	5	74	65	1	0	33	1.03
3869607--3869636	16	1.9	15	93	6	51	3	13	0	83	0.77
3871341--3871384	18	2.4	18	88	0	61	63	11	0	25	1.27
3871359--3871396	15	2.5	15	91	0	58	63	10	5	21	1.46
3877850--3878197	123	2.8	123	95	0	635	29	16	22	31	1.95
3881234--3881258	10	2.5	10	100	0	50	48	0	8	44	1.32
3881242--3881478	55	4.3	55	92	1	395	43	5	12	38	1.64
3881473--3882693	29	41.6	29	79	9	1063	28	2	25	44	1.65
3882129--3882156	6	4.7	6	100	0	56	14	0	50	35	1.43
3882646--3882686	23	1.9	20	94	5	55	26	0	21	51	1.48
3882738--3882848	25	4.6	25	69	20	92	45	13	2	38	1.58
3882698--3882850	71	2.2	71	95	0	270	45	15	3	35	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3883252--3883286	18	1.9	18	88	0	52	31	8	34	25	1.86
3886639--3886689	22	2.3	22	93	6	86	43	0	29	27	1.55
3886555--3886667	51	2.2	51	95	0	199	42	0	29	28	1.56
3886639--3886704	22	3.0	22	84	6	73	43	0	30	25	1.55
3888060--3888108	19	2.5	21	75	15	52	46	4	0	48	1.20
3888485--3888573	26	3.4	26	80	0	88	34	4	23	37	1.75
3888502--3888570	13	5.4	13	77	8	79	33	4	26	36	1.76
3888485--3888573	39	2.3	38	80	5	115	34	4	23	37	1.75
3889847--3889919	21	3.5	20	77	18	69	61	1	6	30	1.30
3889862--3889904	15	2.9	15	78	21	54	65	0	4	30	1.13
3894065--3894099	17	2.1	17	88	0	52	31	2	0	65	1.07
3898789--3898877	43	2.0	45	84	4	119	62	1	2	33	1.15
3898789--3898876	44	2.0	45	84	6	117	62	1	2	34	1.15
3902463--3902500	19	2.0	20	89	5	60	10	31	0	57	1.32
3903054--3903113	30	2.0	31	90	3	95	18	45	0	36	1.50
3903357--3903397	16	2.5	17	80	15	50	29	26	0	43	1.55
3907126--3907178	20	2.7	20	72	21	56	62	0	28	9	1.26
3908543--3908584	13	3.2	13	86	6	50	71	7	0	21	1.09
3908770--3908814	21	2.1	21	84	8	56	64	4	0	31	1.13
3908927--3908997	30	2.2	33	80	9	76	56	5	4	33	1.42
3909159--3909202	17	2.6	17	85	3	63	47	0	11	40	1.39
3909330--3909377	3	16.0	3	95	0	51	66	10	0	22	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3909689--3909787	21	4.7	21	83	9	114	40	14	7	38	1.73
3909725--3909787	19	3.2	19	86	8	90	39	12	7	39	1.73
3910048--3910155	44	2.5	44	83	3	128	31	21	19	27	1.97
3910347--3910479	43	3.0	42	70	12	115	21	27	26	24	1.99
3910368--3910507	44	3.2	44	67	4	111	25	25	25	24	2.00
3910284--3910603	88	3.6	88	86	0	390	23	25	24	27	2.00
3910316--3910446	44	3.0	44	73	13	144	22	27	24	25	2.00
3910558--3911189	44	14.3	45	77	5	410	29	26	14	29	1.95
3910591--3911267	133	5.1	133	80	5	638	30	26	14	29	1.95
3910591--3911271	89	7.7	89	84	3	653	30	26	14	29	1.95
3910584--3911271	221	3.1	222	86	2	864	30	26	14	28	1.95
3910675--3911271	310	1.9	309	92	1	989	30	26	14	28	1.95
3912266--3912290	13	1.9	13	100	0	50	8	0	24	68	1.16
3913821--3914017	41	4.8	41	92	5	317	28	20	22	27	1.99
3914232--3914295	33	2.0	32	90	3	101	26	9	25	39	1.86
3914239--3914312	33	2.3	33	80	2	87	28	8	25	37	1.84
3921492--3921688	41	4.8	41	92	5	317	28	20	22	27	1.99
3921903--3921966	32	2.0	31	90	3	101	28	9	23	39	1.86
3923018--3923066	12	4.0	12	87	12	73	0	8	2	89	0.55
3923019--3923066	19	2.6	19	90	9	73	0	6	2	91	0.48
3923019--3923066	1	48.0	1	82	0	60	0	6	2	91	0.48
3926803--3926844	13	3.2	13	86	6	50	71	7	0	21	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3927413--3927456	17	2.6	17	85	3	63	47	0	11	40	1.39
3927581--3927640	3	20.0	3	92	0	84	65	5	1	28	1.23
3927981--3928035	19	2.8	19	91	5	83	40	12	9	38	1.75
3927972--3928015	21	2.2	20	84	16	63	38	13	9	38	1.77
3930163--3930217	21	2.7	20	81	15	67	18	10	20	50	1.76
3930793--3930852	30	2.0	30	86	0	84	35	3	11	50	1.56
3944556--3945095	50	10.9	50	67	8	262	33	24	19	22	1.97
3944614--3945090	99	4.8	99	94	0	821	33	24	20	21	1.97
3944615--3945090	197	2.4	198	94	0	819	33	24	19	21	1.97
3946400--3946428	11	2.5	12	94	5	51	37	0	3	58	1.15

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