genome.fa.s16.2.7.7.80.10.50.1000.109.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  109  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)
33792205--33792245	20	2.0	20	95	0	73	24	14	17	43	1.86
33796499--33796778	134	2.0	140	94	4	500	35	12	11	41	1.78
33796836--33796902	27	2.5	27	92	7	111	41	11	0	46	1.41
33797044--33797109	12	5.4	12	83	3	60	68	0	31	0	0.90
33797053--33797209	4	38.2	4	79	16	146	70	0	29	0	0.92
33797108--33797178	10	7.1	11	72	16	57	69	0	29	1	0.98
33797080--33797241	16	9.3	16	70	23	57	69	0	29	0	0.93
33797609--33797683	28	2.7	28	93	4	125	41	12	1	45	1.49
33797803--33797945	4	34.2	4	76	15	82	68	0	31	0	0.90
33797803--33797945	25	6.8	20	73	20	82	68	0	31	0	0.90
33797839--33797997	10	15.3	10	70	17	67	66	0	33	0	0.92
33797802--33797882	5	17.6	5	87	2	77	61	0	38	0	0.96
33797876--33797977	17	5.6	19	74	17	101	71	0	28	0	0.86
33797904--33797968	22	3.0	22	80	12	66	72	0	27	0	0.85
33803358--33803388	12	2.6	12	94	0	53	61	19	0	19	1.35
33803394--33803446	26	2.0	26	85	7	72	47	7	1	43	1.42
33803723--33803761	20	2.0	21	85	10	55	66	10	0	23	1.22
33803880--33803955	27	2.8	28	86	7	104	18	28	26	26	1.98
33803999--33804075	29	2.7	29	95	4	138	46	0	11	41	1.40
33804728--33804765	3	12.7	3	88	0	58	34	0	5	60	1.19
33804728--33804761	12	2.8	12	100	0	68	35	0	5	58	1.22
33805280--33805345	29	2.2	29	83	5	78	37	13	9	39	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33812938--33813049	53	2.1	54	86	5	156	53	8	2	35	1.45
33814689--33815149	229	2.0	229	100	0	922	37	11	18	33	1.86
33815140--33815282	73	2.0	73	87	0	205	33	16	19	30	1.94
33815577--33815627	12	3.9	13	76	16	52	68	0	9	21	1.18
33815578--33815660	27	3.1	26	78	11	69	71	0	6	22	1.08
33815623--33815662	8	4.9	8	93	6	71	77	0	0	22	0.77
33815892--33815950	21	2.7	22	82	10	68	54	3	1	40	1.27
33815938--33815998	11	5.9	11	71	21	60	50	0	1	47	1.10
33816463--33816513	26	2.0	26	84	7	68	49	0	7	43	1.32
33816472--33816547	41	1.9	38	84	7	98	56	0	7	35	1.28
33819130--33819199	2	35.0	2	91	0	113	0	0	45	54	0.99
33822536--33822569	17	2.0	17	100	0	68	35	11	17	35	1.87
33826698--33826768	17	4.1	18	80	10	85	42	0	0	57	0.98
33826698--33826772	5	15.6	5	74	22	72	42	0	0	57	0.98
33826698--33826776	23	3.3	25	78	16	80	44	0	0	55	0.99
33830919--33830958	21	2.0	20	85	5	53	40	20	10	30	1.85
33847731--33847803	31	2.4	30	77	8	78	39	9	1	49	1.44
33854048--33854108	11	5.5	11	78	5	70	22	29	1	45	1.62
33854048--33854110	33	1.9	33	93	6	110	23	28	1	46	1.62
33854061--33854108	22	2.2	22	92	0	78	25	29	2	43	1.66
33855967--33856009	18	2.4	18	88	0	59	18	27	9	44	1.80
33856250--33856297	21	2.3	22	82	17	66	31	41	16	10	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33856259--33856305	21	2.2	22	81	11	53	27	48	14	8	1.73
33856430--33856547	49	2.4	49	98	0	227	45	2	9	42	1.49
33857504--33857916	125	3.3	125	94	0	700	29	21	17	31	1.96
33858111--33858136	6	4.3	6	100	0	52	38	46	0	15	1.46
33859944--33860006	21	3.2	21	77	18	64	39	1	0	58	1.07
33868254--33868280	13	2.1	13	100	0	54	29	0	22	48	1.51
33868887--33869053	43	3.9	43	79	7	169	24	14	26	33	1.95
33870439--33870558	51	2.4	51	92	0	204	30	25	13	31	1.93
33871171--33871317	74	2.0	74	98	0	285	42	19	6	31	1.78
33875121--33875149	14	2.0	15	93	6	51	48	0	51	0	1.00
33875127--33875172	14	3.3	14	87	0	56	65	0	34	0	0.93
33875137--33875283	38	3.8	38	74	12	122	66	0	31	1	1.00
33875152--33875277	34	3.7	34	75	9	121	66	0	31	1	1.01
33875148--33875218	10	7.5	10	76	14	62	67	0	32	0	0.91
33875191--33875247	21	2.8	21	75	2	62	71	0	26	1	0.95
33875138--33875252	10	11.9	10	69	18	57	67	0	31	0	0.96
33875529--33876006	160	3.1	153	76	13	524	51	7	10	30	1.64
33875935--33876114	96	1.9	94	84	11	240	51	7	12	28	1.67
33878678--33878802	39	3.1	37	78	15	133	49	11	4	34	1.60
33878663--33878792	42	3.1	43	73	21	107	50	11	3	33	1.57
33878961--33878997	10	3.6	10	88	3	56	0	29	0	70	0.88
33880647--33880697	26	2.0	26	100	0	102	35	11	17	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33881936--33881994	27	2.2	27	87	6	84	38	13	22	25	1.90
33906756--33906811	22	2.5	22	72	18	53	66	10	8	14	1.45
33908910--33910145	129	9.6	129	91	1	1923	32	19	23	24	1.98
33911095--33911127	6	5.7	6	89	3	50	12	0	12	75	1.04
33911095--33911131	18	2.2	16	90	9	56	10	0	10	78	0.97
33913683--33913806	6	21.7	6	81	14	111	71	12	2	12	1.24
33915931--33916055	44	2.8	44	87	2	171	29	22	24	23	1.99
33916018--33917782	128	13.8	128	89	1	2626	31	19	23	25	1.98
33917753--33917896	44	3.2	44	76	5	112	29	17	25	27	1.97
33917773--33917894	44	2.8	43	81	5	138	29	17	22	31	1.96
33922779--33922819	18	2.3	19	83	8	50	31	19	19	29	1.96
33926338--33926375	11	3.5	11	88	0	58	57	21	10	10	1.61
33926333--33926375	22	2.0	22	90	0	68	60	18	11	9	1.57
33927203--33927244	13	3.2	13	77	9	50	9	9	4	76	1.15
33933579--33933630	24	2.2	24	85	0	68	55	7	3	32	1.46
33938728--33938856	64	2.0	63	93	1	222	41	8	24	25	1.83
33939765--33940549	261	3.0	257	82	7	967	36	18	14	31	1.90
33942633--33942685	27	1.9	27	84	3	70	22	11	3	62	1.45
33943095--33943144	16	3.2	16	72	13	50	48	2	2	48	1.24
33946343--33946386	18	2.4	18	92	0	70	15	2	40	40	1.60
33948406--33948443	18	2.2	18	86	9	53	68	0	7	23	1.16
33952310--33952339	11	2.8	11	95	5	53	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33952310--33952339	5	5.8	5	92	7	51	80	0	0	20	0.72
33954044--33954374	42	7.8	42	81	2	349	25	19	21	33	1.97
33954757--33954828	21	3.4	21	82	0	90	5	43	16	34	1.72
33957034--33957108	27	2.8	27	89	0	114	33	0	12	54	1.37
33957034--33957107	9	8.2	9	81	0	76	33	0	12	54	1.38
33957310--33957349	9	4.8	9	76	17	50	35	0	17	47	1.48
33957324--33957486	43	3.6	43	75	15	177	38	4	12	44	1.62
33958090--33958125	15	2.5	15	90	4	56	63	8	16	11	1.49
33960281--33960314	15	2.3	15	89	0	50	55	35	0	8	1.31
33961101--33961948	229	3.7	229	80	6	903	26	21	21	30	1.98
33970087--33970228	32	4.4	32	83	3	169	35	8	10	45	1.69
33972803--33972853	23	2.2	23	89	0	75	27	9	19	43	1.82
33974698--33974758	19	3.2	19	77	15	63	68	3	0	27	1.05
33974698--33974754	10	5.7	10	73	8	53	66	3	0	29	1.08
33975133--33975204	30	2.5	31	74	19	73	48	16	1	33	1.55
33977462--33977496	5	7.0	5	100	0	70	80	0	0	20	0.72
33985085--33985176	25	3.8	25	85	12	120	14	8	20	56	1.64
33985098--33985166	21	3.1	21	89	8	93	17	5	18	57	1.59
33986299--33986471	73	2.3	75	97	2	323	31	6	8	52	1.59
33986534--33986570	16	2.3	16	100	0	74	27	0	0	72	0.84
33988913--33989016	49	2.1	49	91	3	165	30	6	10	51	1.62
33990401--33991841	120	12.0	120	94	1	2398	42	1	4	52	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33990694--33990847	26	5.2	31	65	24	82	42	0	5	51	1.29
33990828--33990865	18	2.2	17	90	4	58	34	2	0	63	1.09
33990934--33990984	18	2.9	18	85	8	61	39	1	0	58	1.09
33990960--33991011	16	3.5	15	80	17	56	36	1	0	61	1.07
33990955--33990996	16	2.5	18	77	18	54	40	2	0	57	1.12
33990971--33991026	28	2.0	29	86	10	80	39	0	1	58	1.08
33991189--33991224	18	2.1	17	90	10	56	33	0	0	66	0.92
33990401--33991834	478	3.0	477	94	1	2482	42	1	4	52	1.29
33991546--33991583	18	2.2	17	90	4	58	34	2	0	63	1.09
33992016--33992078	16	3.9	16	87	0	99	26	30	3	39	1.72

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