genome.fa.s17.2.7.7.80.10.50.1000.13.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_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  13  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)
3547192--3547234	20	2.2	19	83	4	50	58	2	0	39	1.11
3550205--3550238	9	3.8	9	92	0	50	47	14	11	26	1.79
3551937--3551967	7	4.3	7	95	4	53	83	0	0	16	0.64
3557305--3557355	15	3.4	15	73	10	50	52	0	0	47	1.00
3561419--3561483	26	2.5	25	80	5	67	44	1	1	52	1.19
3563686--3563725	20	2.1	19	86	13	55	22	0	15	62	1.32
3563946--3563971	2	13.0	2	100	0	52	50	0	0	50	1.00
3566547--3566635	44	2.0	44	100	0	178	46	8	13	31	1.74
3570146--3570210	26	2.5	25	80	5	67	44	1	1	52	1.19
3574690--3574714	3	8.3	3	100	0	50	32	0	0	68	0.90
3574803--3574867	32	2.1	32	94	2	114	30	9	10	49	1.69
3575412--3575517	20	5.8	18	75	13	76	76	12	9	1	1.10
3575412--3575516	9	11.4	9	75	16	76	76	12	9	1	1.10
3575456--3575566	12	9.5	12	69	14	54	73	11	12	1	1.17
3575412--3575492	20	4.2	19	81	9	85	74	12	11	2	1.18
3575485--3575517	12	2.8	12	95	0	57	84	12	3	0	0.72
3575487--3575566	24	3.4	24	78	11	85	76	11	11	1	1.09
3575412--3575566	11	14.4	11	71	18	62	74	12	11	1	1.16
3575477--3575568	13	7.5	13	72	16	70	75	11	11	1	1.11
3575447--3575567	60	2.1	55	86	10	163	74	11	12	1	1.15
3580085--3580149	32	2.1	32	94	2	114	32	9	10	47	1.70
3585998--3586038	21	2.0	21	90	0	64	19	29	21	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3595686--3595723	19	2.0	19	89	0	58	26	5	26	42	1.76
3601218--3601255	18	2.1	18	85	9	51	15	15	7	60	1.57
3610810--3610847	18	2.1	18	85	9	51	60	7	15	15	1.57
3613160--3613209	25	2.0	25	84	7	66	46	14	12	28	1.79
3622270--3622329	18	3.2	19	76	23	56	50	0	0	50	1.00
3622276--3622332	25	2.3	25	82	11	64	49	0	0	50	1.00
3624615--3624658	21	2.2	19	84	8	52	34	0	4	61	1.16
3633531--3634121	294	2.0	294	98	0	1139	27	20	14	37	1.92
3634815--3634844	13	2.3	13	94	0	51	6	10	16	66	1.41
3638452--3638492	21	2.0	21	100	0	82	34	0	9	56	1.32
3638812--3638855	16	2.8	16	89	0	70	27	31	2	38	1.69
3639327--3639369	18	2.6	16	85	10	59	46	0	2	51	1.13
3642631--3642702	37	2.0	36	83	8	92	54	1	9	34	1.42
3642833--3642875	3	14.3	3	80	0	50	62	2	4	30	1.28
3643351--3643378	12	2.3	12	100	0	56	0	42	35	21	1.53
3644283--3644840	46	12.9	44	72	11	345	26	22	19	31	1.98
3644288--3644839	44	12.8	44	71	12	276	26	22	20	30	1.98
3644373--3644839	87	5.4	87	72	11	363	26	21	19	31	1.98
3644283--3644840	174	3.2	174	93	2	912	26	22	19	31	1.98
3644882--3645111	44	5.2	45	64	8	139	23	22	22	32	1.98
3644863--3645112	88	2.9	88	94	0	421	24	22	23	30	1.99
3647245--3647274	8	3.6	8	95	4	51	13	0	13	73	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3652170--3652241	37	2.0	36	83	8	92	54	1	9	34	1.42
3652372--3652414	3	14.3	3	80	0	50	62	2	4	30	1.28
3652892--3652919	12	2.3	12	100	0	56	0	42	35	21	1.53
3664484--3664553	31	2.3	31	79	0	77	35	10	8	45	1.68
3664510--3664570	31	2.0	30	83	3	77	31	9	8	50	1.65
3667912--3668037	62	2.0	62	93	3	218	50	3	12	33	1.59
3668853--3668906	24	2.3	23	81	12	65	50	0	1	48	1.11
3669835--3669882	23	2.2	23	85	7	64	58	4	4	33	1.36
3676545--3676609	29	2.2	29	81	5	78	49	7	13	29	1.70
3679485--3679790	114	2.7	114	91	0	495	24	21	27	26	1.99
3680045--3680075	15	2.1	15	93	0	53	19	0	45	35	1.51
3680314--3680360	14	3.3	15	82	8	62	27	0	31	40	1.57
3680375--3680441	15	4.7	15	78	14	54	22	0	41	35	1.54
3681051--3681241	105	1.8	106	88	3	296	51	12	11	24	1.72
3681290--3681500	102	2.0	102	84	8	273	48	13	12	25	1.78
3681051--3681657	255	2.4	255	92	3	981	47	14	13	24	1.80
3681568--3681738	85	2.0	88	90	3	276	51	11	10	26	1.70
3681422--3681880	226	2.0	226	85	9	617	48	13	12	25	1.77
3681788--3681987	108	1.9	107	89	4	312	52	12	11	24	1.72
3681169--3682064	481	1.8	481	84	8	1204	47	13	13	25	1.79
3682113--3682154	21	2.0	22	90	4	68	28	47	0	23	1.52
3683690--3683815	66	1.9	66	98	0	243	26	38	18	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3683937--3684084	57	2.5	60	86	9	214	21	26	22	29	1.99
3688374--3688421	22	2.0	23	84	11	62	54	2	2	41	1.24
3688449--3688696	43	5.8	43	88	0	336	24	18	31	25	1.98
3689252--3689314	6	10.2	6	76	11	56	3	53	1	41	1.26
3689270--3689303	13	2.8	12	90	4	50	5	58	0	35	1.22
3691822--3691861	20	2.0	20	90	0	62	50	12	10	27	1.72
3691810--3691876	34	1.9	35	87	3	100	46	11	8	32	1.72
3691845--3691884	14	2.9	14	84	0	53	42	17	7	32	1.77
3692931--3693014	25	3.4	24	82	12	82	21	25	23	29	1.99
3692922--3693019	50	2.0	49	84	6	126	22	24	21	31	1.98
3692946--3693025	25	3.2	25	84	7	99	25	25	21	28	1.99
3706645--3706739	31	3.1	30	76	8	102	51	4	3	41	1.37
3708820--3708896	39	2.0	39	97	0	145	35	23	22	19	1.96
3710671--3710751	34	2.3	35	80	16	98	55	1	1	41	1.15
3710717--3710762	21	2.2	20	81	11	58	56	0	2	41	1.11
3713981--3714114	19	6.7	21	78	10	77	39	14	6	39	1.72
3713981--3714038	22	2.6	22	81	7	64	41	17	5	36	1.72
3714017--3714127	19	5.8	19	86	0	168	36	13	9	40	1.76
3714017--3714120	38	2.7	38	96	0	190	37	12	8	41	1.74
3717487--3717563	39	2.0	39	97	0	145	36	24	20	18	1.95
3719360--3719408	21	2.3	21	89	0	71	26	8	38	26	1.84
3726489--3726563	34	2.3	32	78	15	82	53	2	1	42	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3733973--3734021	5	9.8	5	90	0	80	42	18	18	20	1.89
3739550--3739580	15	2.1	15	93	0	53	64	19	6	9	1.45
3740504--3740528	2	12.5	2	100	0	50	52	0	0	48	1.00
3741656--3741769	29	3.8	29	69	13	81	52	2	0	43	1.21
3742038--3742091	26	2.1	26	100	0	108	37	3	14	44	1.63
3743964--3744015	23	2.3	23	96	0	95	46	15	0	38	1.46
3745491--3745551	27	2.3	26	77	2	68	55	4	3	36	1.38
3745515--3745571	30	1.9	30	89	7	89	57	3	3	35	1.33
3745733--3745776	17	2.6	17	85	3	63	47	0	11	40	1.39
3745902--3745926	3	8.3	3	100	0	50	68	0	0	32	0.90
3745950--3745979	7	4.4	7	91	8	53	73	0	0	26	0.84
3746251--3746298	24	2.0	25	87	4	71	37	16	6	39	1.74
3746290--3746315	12	2.2	12	100	0	52	42	15	7	34	1.75
3746860--3746932	37	2.0	37	88	0	110	31	23	20	24	1.98
3746948--3747060	43	2.6	42	84	5	145	31	19	19	29	1.96
3747410--3747476	35	1.9	35	84	6	91	29	25	22	22	1.99
3747442--3747607	44	3.8	43	84	4	217	27	27	19	26	1.99
3747442--3747606	88	1.9	88	89	2	260	27	27	18	26	1.98
3747618--3748271	88	7.4	88	89	0	1004	21	24	26	27	1.99
3747764--3747892	43	3.0	43	65	6	107	19	24	29	26	1.98
3747618--3748268	351	1.9	352	90	0	1052	21	24	26	27	1.99
3750414--3750467	26	2.1	26	82	3	65	59	5	12	22	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3754340--3754395	28	2.0	29	85	3	78	57	5	3	33	1.39
3754356--3754440	30	2.8	31	82	10	88	58	4	2	34	1.31
3754354--3754440	29	3.1	27	80	16	97	58	4	2	34	1.31
3754573--3754611	17	2.2	18	81	13	53	51	0	10	38	1.36
3754546--3754662	60	1.9	62	84	3	157	50	1	11	36	1.48
3754740--3754778	3	13.0	3	88	0	60	64	2	2	30	1.21
3761269--3761306	19	2.0	19	94	0	67	28	0	0	71	0.87
3761267--3761304	7	5.7	7	90	6	53	26	0	0	73	0.83
3761269--3761306	13	3.0	13	88	7	60	28	0	0	71	0.87
3761270--3761306	6	6.0	6	90	6	56	29	0	0	70	0.88

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