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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   174   175   

This is table  13  of  175  ( 20966 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)
3736131--3736234	52	2.0	52	96	0	190	25	25	12	35	1.92
3736409--3736442	16	2.1	16	100	0	68	44	11	0	44	1.40
3736630--3736658	12	2.4	12	100	0	58	17	34	13	34	1.89
3738884--3738979	45	2.1	45	92	3	158	36	12	13	37	1.83
3739323--3739366	21	2.1	21	100	0	88	56	0	0	43	0.99
3742502--3742532	13	2.4	13	100	0	62	41	32	6	19	1.77
3744291--3744350	30	2.0	32	90	9	99	31	0	3	65	1.09
3748645--3748687	22	1.9	23	85	4	61	27	2	4	65	1.25
3749829--3749870	9	4.4	9	80	19	50	57	0	2	40	1.12
3756897--3757068	46	3.7	46	81	2	202	34	20	19	25	1.96
3768406--3768438	13	2.5	13	95	0	57	0	18	0	81	0.68
3768400--3768444	6	7.5	6	82	9	56	0	20	0	80	0.72
3768623--3768665	22	2.0	20	82	13	50	65	2	0	32	1.06
3774431--3774514	39	2.2	39	93	0	141	33	23	9	33	1.87
3787432--3787459	11	2.5	11	100	0	56	53	17	0	28	1.44
3789360--3789412	27	2.0	26	85	3	70	18	20	33	26	1.96
3789304--3789488	102	1.8	101	88	1	280	24	20	26	28	1.99
3789952--3790086	41	3.5	41	72	16	151	23	17	26	31	1.97
3789915--3790092	75	2.4	74	92	1	293	21	19	27	31	1.97
3790065--3790118	27	2.0	26	92	3	90	16	18	33	31	1.93
3789991--3790193	101	2.0	101	91	1	327	21	19	27	31	1.97
3789890--3790226	176	1.9	176	91	1	559	20	19	27	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3790429--3790631	101	2.0	101	92	3	338	31	27	20	21	1.98
3790530--3790707	75	2.4	75	94	1	304	31	26	19	22	1.97
3790396--3790734	176	1.9	176	93	1	581	31	27	20	21	1.98
3790682--3790734	27	2.0	27	100	0	106	28	30	22	18	1.98
3792757--3792976	25	8.9	24	67	18	107	35	20	25	19	1.95
3792755--3792927	76	2.3	75	79	8	192	35	20	24	18	1.95
3792869--3792976	50	2.2	49	85	5	137	34	21	25	19	1.96
3795592--3795642	12	4.2	12	76	14	50	45	3	7	43	1.51
3796375--3796516	41	3.5	40	85	5	194	27	22	25	24	2.00
3799498--3799779	36	7.8	36	85	3	286	23	41	22	13	1.89
3801557--3801588	6	5.3	6	92	0	55	0	46	0	53	1.00
3803813--3803849	18	2.1	18	100	0	74	43	0	0	56	0.99
3809231--3809273	13	3.1	14	84	12	54	60	0	0	39	0.97
3811041--3811073	15	2.3	15	89	5	50	12	3	12	72	1.23
3813211--3813273	13	4.8	13	75	7	65	33	3	23	39	1.71
3813208--3813271	26	2.5	26	80	10	85	32	4	23	39	1.75
3814278--3814306	14	2.0	15	93	6	51	72	13	6	6	1.26
3830644--3830675	15	2.0	17	88	11	50	71	0	3	25	1.00
3830671--3830710	14	2.7	16	81	14	50	57	0	0	42	0.98
3830664--3830721	24	2.6	23	76	10	59	60	0	0	39	0.97
3838620--3838649	14	2.1	14	93	0	51	43	0	0	56	0.99
3844488--3844530	18	2.5	17	82	14	52	53	2	18	25	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3845365--3845405	15	2.8	14	85	10	55	58	0	4	36	1.20
3860176--3860215	6	6.7	6	100	0	80	50	0	0	50	1.00
3860215--3860268	22	2.4	23	76	17	60	38	1	1	57	1.20
3860570--3860612	19	2.3	19	83	0	50	34	0	0	65	0.93
3866429--3866457	11	2.5	12	88	11	51	48	0	0	51	1.00
3866432--3866461	11	2.8	11	95	5	53	53	0	0	46	1.00
3866458--3866482	9	2.8	9	100	0	50	76	0	0	24	0.80
3867203--3867228	7	3.7	7	100	0	52	73	0	0	26	0.84
3879239--3879285	16	2.9	16	80	3	58	80	10	4	4	0.98
3884054--3884100	24	1.9	25	86	4	69	57	4	4	34	1.38
3895875--3895929	14	3.4	16	79	18	53	34	3	0	61	1.13
3895857--3895929	30	2.5	29	72	26	80	34	2	0	63	1.09
3895874--3895921	14	3.3	14	77	11	60	31	4	0	64	1.12
3895886--3895937	16	3.3	15	77	15	50	26	1	0	71	0.97
3900013--3900079	27	2.5	27	92	0	107	41	23	8	25	1.83
3900013--3900079	9	7.4	9	85	6	91	41	23	8	25	1.83
3902097--3902403	90	3.4	90	88	2	413	28	15	24	31	1.96
3902099--3902403	45	6.8	45	78	6	323	27	15	24	31	1.96
3904394--3904619	106	2.1	106	90	0	371	32	17	17	32	1.93
3907181--3907221	16	2.4	18	88	8	59	9	4	12	73	1.24
3908091--3908121	9	3.4	9	90	0	53	25	12	22	38	1.90
3909218--3909243	5	5.2	5	100	0	52	19	19	19	42	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3914216--3914276	31	2.0	32	87	12	92	29	9	11	49	1.71
3916900--3916929	15	2.1	14	93	6	51	16	0	13	70	1.18
3917814--3917865	21	2.4	21	75	18	52	51	5	0	42	1.25
3920471--3920540	31	2.3	30	80	2	86	20	22	40	17	1.92
3923139--3923184	3	15.3	3	100	0	92	67	0	32	0	0.91
3923898--3923939	21	2.0	21	86	4	59	9	14	11	64	1.50
3926033--3926107	39	1.9	39	94	0	132	28	4	20	48	1.67
3930122--3930165	21	2.1	21	100	0	88	27	13	27	31	1.94
3935334--3935499	72	2.3	72	85	5	248	25	6	13	54	1.62
3937266--3937293	8	3.5	8	100	0	56	50	0	0	50	1.00
3937548--3937585	13	2.9	13	100	0	76	39	28	7	23	1.83
3938224--3938739	256	2.0	258	95	1	937	35	18	16	29	1.93
3948541--3948565	6	4.2	6	100	0	50	16	0	68	16	1.22
3948681--3948804	65	1.9	64	82	6	153	29	16	15	38	1.89
3948745--3948894	79	1.9	79	86	2	212	30	19	13	36	1.90
3948827--3948953	66	1.9	65	88	1	191	31	18	14	36	1.90
3948682--3948948	144	1.9	142	85	4	376	31	17	13	37	1.89
3949697--3949763	13	5.1	13	80	8	82	37	25	5	31	1.80
3956825--3956993	60	2.8	60	88	1	250	25	48	11	14	1.77
3957002--3957032	12	2.6	12	100	0	62	32	61	6	0	1.21
3957017--3957197	54	3.1	56	72	12	177	27	50	8	13	1.70
3961554--3961593	21	1.9	21	84	0	53	37	2	0	60	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3961552--3961599	21	2.3	20	79	10	51	39	2	0	58	1.10
3962676--3962712	14	2.6	14	91	0	56	18	5	10	64	1.43
3962826--3962869	21	2.0	21	82	4	52	61	0	0	38	0.96
3967581--3967688	41	2.6	41	82	1	126	25	19	21	34	1.96
3967663--3967859	42	4.7	42	83	1	243	32	20	19	26	1.97
3972023--3972114	44	2.1	44	89	4	141	32	0	41	26	1.56
3972294--3972576	148	1.9	147	88	0	422	38	21	14	25	1.91
3972852--3972908	20	2.8	20	73	7	53	47	33	0	19	1.50
3972934--3973014	7	11.6	7	77	0	63	48	20	2	28	1.63
3972934--3972986	21	2.5	21	84	0	70	49	24	1	24	1.61
3973221--3973253	7	4.9	7	88	3	50	27	54	0	18	1.44
3973131--3973404	102	2.7	102	95	1	489	41	29	0	28	1.59
3973323--3973355	7	4.9	7	88	3	50	27	54	0	18	1.44
3973456--3973507	7	7.7	7	78	8	54	34	46	0	19	1.50
3973456--3973507	14	3.9	13	82	9	61	34	46	0	19	1.50
3973534--3973566	14	2.3	15	94	5	59	36	30	0	33	1.58
3973811--3974374	114	5.0	113	81	6	628	28	25	20	25	1.99
3976262--3976623	46	8.6	44	87	9	389	29	20	13	35	1.91
3976440--3976582	36	4.0	36	97	0	250	31	18	10	39	1.85
3979861--3979914	28	2.0	28	81	3	65	38	5	3	51	1.43
3980046--3980078	16	2.0	17	88	5	50	18	3	9	69	1.28
3990375--3990412	20	1.9	20	94	0	67	76	2	13	7	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3997974--3998061	44	2.0	44	97	0	167	42	11	21	25	1.86
3997974--3998082	44	2.5	44	89	5	150	39	13	22	24	1.90
4000863--4001226	179	2.0	180	94	0	649	28	8	16	46	1.76
4002475--4002513	18	2.2	18	86	9	53	48	0	10	41	1.37
4002672--4002730	3	20.0	3	83	10	77	64	0	3	32	1.10
4004163--4006665	128	19.6	128	92	0	4080	25	20	21	31	1.98
4004376--4006531	84	25.3	85	64	13	316	25	20	21	31	1.98
4006685--4007783	99	11.1	100	82	5	1041	25	20	21	32	1.98
4006695--4007724	50	20.7	50	68	5	285	26	20	21	31	1.98
4006685--4007783	100	11.1	99	82	4	1050	25	20	21	32	1.98

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   174   175