genome.fa.s5.2.7.7.80.10.50.1000.13.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: Dt_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  56894857

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   176   
          177   178   179   180   181   182   183   184   185   

This is table  13  of  185  ( 22150 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)
3548377--3548401	6	4.2	6	100	0	50	52	0	0	48	1.00
3548632--3548695	29	2.2	29	82	2	74	39	10	18	31	1.86
3549329--3549354	13	2.0	13	100	0	52	30	7	38	23	1.83
3550141--3550175	18	1.9	18	88	0	52	5	48	0	45	1.26
3555039--3555070	14	2.1	16	88	11	50	46	0	0	53	1.00
3555548--3555618	21	3.4	21	68	14	65	30	0	22	46	1.52
3555663--3555768	34	3.2	33	82	5	133	33	0	15	50	1.44
3557658--3558177	126	4.1	127	89	1	755	37	17	16	28	1.92
3558338--3558399	28	2.2	28	91	0	97	37	14	14	33	1.87
3560757--3560794	20	1.9	20	100	0	76	36	18	15	28	1.92
3561679--3561722	18	2.4	18	80	0	52	40	9	27	22	1.84
3564576--3564637	20	3.2	20	63	9	56	29	6	12	51	1.65
3564564--3564639	38	2.0	38	100	0	152	26	7	10	55	1.61
3578910--3579055	49	3.0	49	88	3	222	31	29	14	24	1.94
3579981--3580089	37	3.0	37	93	2	177	24	22	16	36	1.94
3580053--3580307	46	5.3	46	82	12	323	28	21	14	35	1.92
3580096--3580307	52	4.2	52	86	7	310	28	22	13	35	1.92
3580053--3580307	98	2.6	98	93	1	422	28	21	14	35	1.92
3583158--3583189	14	2.2	15	94	5	57	75	0	6	18	1.01
3583864--3583983	41	2.9	41	87	0	150	27	20	25	27	1.99
3584326--3584394	18	3.3	18	70	30	57	34	5	14	44	1.69
3584337--3584411	25	3.2	25	78	18	106	30	8	16	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3584322--3584411	45	2.0	45	100	0	180	33	6	15	44	1.73
3584322--3584390	20	3.2	20	77	18	84	36	5	14	43	1.70
3588714--3588787	37	2.0	37	100	0	148	35	18	21	24	1.96
3590109--3590136	14	2.0	14	100	0	56	64	7	7	21	1.43
3595751--3595798	17	2.8	17	93	0	78	60	6	14	18	1.55
3602276--3602352	38	2.0	38	89	0	118	25	12	10	50	1.72
3604270--3604306	17	2.1	18	95	5	67	10	13	24	51	1.73
3605176--3605648	236	2.0	236	99	0	937	33	19	14	32	1.92
3615348--3615569	77	2.9	76	80	11	245	15	16	17	50	1.78
3617807--3617840	4	8.0	4	90	9	50	23	0	2	73	0.97
3617790--3617849	22	2.7	22	73	19	61	26	0	6	66	1.16
3633802--3633861	30	2.0	30	96	0	111	43	5	6	45	1.52
3633903--3633964	28	2.1	27	82	11	70	29	12	8	50	1.69
3638447--3638472	2	13.0	2	100	0	52	50	0	0	50	1.00
3640934--3641047	56	2.0	56	98	0	219	57	4	22	14	1.55
3643202--3643266	16	4.1	16	73	0	58	44	4	21	29	1.72
3643427--3643490	26	2.7	24	81	13	78	54	0	0	45	0.99
3644124--3644148	5	5.0	5	100	0	50	20	0	40	40	1.52
3644357--3644398	16	2.6	16	92	0	66	40	2	35	21	1.66
3644360--3644404	16	2.9	16	90	3	65	42	2	31	24	1.67
3644627--3644669	15	2.9	15	83	13	54	53	0	0	46	1.00
3644618--3644659	15	2.7	16	82	14	52	52	2	0	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3644638--3644673	18	2.0	18	89	10	56	58	0	0	41	0.98
3644627--3644669	13	3.1	14	86	6	52	53	0	0	46	1.00
3644738--3644789	15	3.6	15	80	12	56	53	1	0	44	1.11
3644621--3644904	120	2.4	121	93	1	473	51	4	2	41	1.37
3644667--3644853	61	3.1	61	68	17	181	49	6	2	41	1.44
3645548--3645589	20	2.1	20	90	0	66	52	11	9	26	1.68
3649543--3649678	67	2.0	67	98	0	263	50	20	10	18	1.75
3651240--3651343	41	2.5	41	88	0	154	23	30	20	25	1.98
3660192--3660295	41	2.5	41	88	0	154	22	31	20	25	1.98
3663326--3663448	41	3.0	41	84	9	169	29	30	21	17	1.97
3663507--3663605	40	2.5	39	81	3	126	24	22	20	33	1.97
3663995--3664021	7	3.9	7	100	0	54	44	0	0	55	0.99
3664807--3664992	42	4.4	42	78	6	198	33	29	16	20	1.95
3667035--3667077	17	2.5	17	96	3	77	37	4	4	53	1.43
3668286--3668311	11	2.4	11	100	0	52	69	0	15	15	1.20
3670279--3670337	7	8.4	7	85	7	50	32	40	0	27	1.56
3670261--3670337	21	3.7	21	79	6	66	33	38	0	27	1.57
3670312--3670378	34	2.0	34	91	5	109	34	41	1	22	1.63
3670799--3670951	41	3.8	41	86	5	222	27	31	24	16	1.97
3670799--3670952	80	1.9	81	90	5	249	27	31	24	16	1.96
3671087--3671112	12	2.2	12	100	0	52	46	30	15	7	1.74
3677984--3678038	27	2.0	27	96	0	101	23	7	20	49	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3680242--3680397	80	2.0	80	90	0	249	34	14	16	34	1.89
3680876--3680920	14	3.2	13	84	12	54	2	20	4	73	1.11
3686500--3686598	42	2.3	42	84	5	128	31	22	16	30	1.95
3686481--3686639	43	3.7	41	78	9	158	31	26	16	25	1.96
3687595--3687625	15	2.1	15	100	0	62	41	12	12	32	1.81
3692195--3692398	106	1.9	108	89	4	324	35	20	16	28	1.94
3693419--3693457	12	3.2	12	85	0	51	56	2	2	38	1.27
3699708--3699746	19	2.1	19	100	0	78	33	15	5	46	1.68
3706143--3706167	13	1.9	13	100	0	50	24	16	8	52	1.70
3710624--3710648	13	1.9	13	100	0	50	24	16	8	52	1.70
3716525--3716579	6	9.2	6	100	0	110	16	0	67	16	1.24
3716599--3716691	46	2.0	46	97	0	177	54	12	11	20	1.69
3717297--3717350	22	2.5	22	78	6	56	51	1	1	44	1.22
3717411--3717469	29	2.1	28	80	3	64	38	3	1	55	1.26
3722648--3722690	22	2.0	21	86	4	59	27	9	0	62	1.25
3728361--3728385	4	6.2	4	100	0	50	24	0	0	76	0.80
3734269--3734306	15	2.8	13	82	17	51	65	0	0	34	0.93
3754214--3754290	7	11.0	7	74	0	55	28	32	2	36	1.71
3755809--3755915	42	2.5	42	84	0	142	43	16	25	14	1.85
3755812--3755892	21	3.9	21	65	0	54	44	18	23	13	1.85
3755840--3755904	21	3.1	21	72	0	67	43	18	24	13	1.87
3759341--3759370	12	2.5	12	100	0	60	50	0	13	36	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3761514--3761575	22	2.9	22	70	2	63	22	19	17	40	1.91
3761521--3761589	22	3.2	21	72	4	66	23	18	15	42	1.89
3766598--3766626	14	2.1	14	93	6	51	48	13	6	31	1.69
3780782--3780826	18	2.5	18	86	13	58	60	8	4	26	1.46
3780830--3780857	14	2.0	14	100	0	56	71	14	0	14	1.15
3780891--3780946	20	2.7	21	83	5	69	71	8	8	10	1.31
3781291--3781349	31	1.9	31	82	0	73	40	8	10	40	1.69
3786499--3786526	13	2.2	13	100	0	56	28	10	14	46	1.78
3787041--3787093	13	4.1	13	72	0	52	35	22	7	33	1.83
3788230--3788271	13	3.3	12	81	18	50	42	0	9	47	1.36
3796792--3796843	18	2.8	18	85	2	68	50	1	0	48	1.12
3802190--3802280	40	2.3	42	79	11	118	34	19	27	18	1.96
3804112--3804158	21	2.2	22	84	3	60	48	10	0	40	1.38
3804538--3804570	15	2.1	17	88	11	52	81	0	12	6	0.85
3809999--3810057	23	2.6	23	77	0	64	52	3	0	44	1.17
3813385--3813417	6	5.5	6	100	0	66	33	0	18	48	1.48
3822268--3822301	17	2.0	17	88	0	50	50	0	11	38	1.39
3827449--3827766	101	3.1	101	93	2	503	28	16	26	28	1.97
3827479--3827779	33	8.9	34	68	12	145	28	16	27	27	1.97
3829201--3829234	5	6.8	5	90	10	52	79	2	0	17	0.86
3831566--3831629	12	5.3	12	80	12	53	45	0	0	54	0.99
3831568--3831607	6	6.7	6	100	0	80	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3834688--3834720	10	3.5	10	92	8	52	63	6	6	24	1.40
3837389--3837428	14	2.9	15	82	14	50	47	0	0	52	1.00
3837354--3837421	16	4.2	17	74	22	67	41	0	1	57	1.08
3838492--3838526	18	2.0	17	88	5	52	45	0	0	54	0.99
3838385--3838783	120	3.3	120	99	0	782	43	2	4	49	1.36
3838612--3838646	18	2.0	17	88	5	52	45	0	0	54	0.99
3838732--3838766	18	2.0	17	88	5	52	45	0	0	54	0.99
3839002--3839069	16	4.2	16	96	0	127	38	35	0	26	1.57
3845995--3846072	21	3.7	21	72	6	68	48	0	0	51	1.00
3846027--3846072	21	2.2	22	88	7	69	52	0	0	47	1.00

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   176   
          177   178   179   180   181   182   183   184   185