genome.fa.s16.2.7.7.80.10.50.1000.15.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  15  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)
4307564--4307588	13	1.9	13	100	0	50	32	8	16	44	1.76
4309587--4309648	33	1.9	33	86	3	90	25	19	24	30	1.98
4312543--4312583	21	2.0	21	90	0	64	29	21	29	19	1.98
4318494--4318542	25	1.9	26	87	4	73	4	16	6	73	1.19
4319669--4319706	20	1.9	20	88	0	58	34	15	15	34	1.90
4323546--4323597	10	4.9	10	75	13	50	5	11	1	80	0.96
4323572--4323596	11	2.3	11	100	0	50	0	8	0	92	0.40
4328189--4328219	16	1.9	16	93	0	53	61	0	3	35	1.12
4335011--4335072	32	1.9	32	87	12	92	43	1	1	53	1.20
4335011--4335059	14	3.2	14	80	13	53	46	2	0	51	1.12
4340588--4340654	29	2.3	29	92	5	109	49	14	2	32	1.59
4344459--4344547	6	14.8	6	98	0	169	32	0	17	49	1.47
4349039--4349140	52	2.0	52	88	0	150	57	0	8	33	1.29
4350007--4350075	36	1.9	36	93	0	120	36	17	5	40	1.74
4351856--4351909	22	2.5	22	78	6	56	59	11	9	20	1.59
4354354--4354556	107	1.9	106	87	3	300	36	20	15	27	1.93
4355093--4355124	12	2.7	12	95	0	55	71	0	9	18	1.12
4355319--4355368	26	2.0	25	84	4	64	56	2	10	32	1.44
4355291--4355385	48	2.0	48	82	11	117	52	3	9	34	1.50
4355330--4355382	22	2.4	22	74	0	61	52	1	7	37	1.41
4357005--4357031	10	2.7	10	100	0	54	33	11	37	18	1.86
4357231--4357301	28	2.5	29	75	9	74	57	8	0	33	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4358150--4358227	30	2.6	30	79	2	86	41	2	5	51	1.38
4360665--4360735	36	2.0	36	97	0	133	52	8	21	18	1.71
4363653--4363694	21	2.0	21	85	0	57	42	7	9	40	1.65
4364995--4365039	23	2.0	22	86	4	63	37	6	17	37	1.76
4365005--4365049	23	2.0	23	82	4	56	33	6	15	44	1.73
4365215--4365253	19	2.0	21	85	10	55	15	10	5	69	1.34
4365476--4365515	3	13.3	3	89	10	64	35	0	0	65	0.93
4365476--4365516	21	2.0	20	95	4	73	36	0	0	63	0.95
4372066--4372209	44	3.3	44	62	13	107	25	31	22	20	1.98
4371876--4372286	88	4.7	88	90	0	651	28	28	23	19	1.98
4372286--4372617	44	7.7	44	84	6	419	27	18	25	28	1.98
4372413--4372535	38	3.1	38	80	13	147	30	18	24	26	1.98
4372286--4372617	126	2.6	129	85	7	431	27	18	25	28	1.98
4372286--4372611	170	1.9	170	89	1	501	27	19	25	27	1.98
4372820--4372945	50	2.5	50	90	0	180	29	21	26	22	1.99
4372834--4372945	50	2.2	50	95	0	206	28	21	26	23	1.99
4373509--4373623	19	5.8	19	92	4	167	38	7	15	38	1.77
4373510--4373612	21	5.1	21	89	6	160	38	7	14	38	1.75
4373509--4373630	40	3.2	38	85	11	167	38	7	16	37	1.77
4373510--4373623	61	1.9	60	90	3	185	38	7	14	38	1.76
4373602--4373660	23	2.7	22	79	7	66	37	3	16	42	1.66
4373583--4373660	19	3.7	23	83	9	71	37	3	16	42	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4373820--4373858	19	2.0	21	85	10	55	15	10	5	69	1.34
4374079--4374112	3	11.3	3	87	12	52	35	0	0	64	0.94
4374079--4374113	18	2.0	17	94	5	61	37	0	0	62	0.95
4374140--4374201	31	2.1	31	84	6	83	43	4	1	50	1.33
4377044--4377082	21	1.9	20	89	5	60	20	0	35	43	1.52
4379658--4379692	12	2.9	12	95	0	61	51	0	8	40	1.33
4380307--4380653	9	39.6	9	68	10	146	47	12	3	36	1.57
4380309--4380675	53	6.8	53	83	10	426	47	12	2	37	1.57
4380312--4380675	26	13.5	27	82	10	406	47	12	3	37	1.57
4380632--4380692	9	6.8	9	76	14	54	39	19	1	39	1.62
4380369--4380692	18	18.4	18	68	9	114	46	13	2	37	1.57
4386196--4386264	21	3.3	21	78	8	77	36	18	42	2	1.66
4386229--4386288	12	5.2	12	76	11	63	40	20	38	1	1.62
4386752--4386972	43	5.2	43	91	2	320	25	18	22	33	1.96
4386752--4386961	85	2.5	86	90	1	316	25	17	22	34	1.96
4391070--4391114	18	2.5	18	78	7	56	37	2	17	42	1.62
4393122--4393176	25	2.2	26	78	15	62	23	7	16	52	1.68
4394274--4394561	46	6.4	46	78	9	270	32	4	25	37	1.76
4394288--4394550	23	11.7	23	75	9	220	33	3	24	38	1.72
4396060--4396134	28	2.7	28	87	0	105	33	29	18	18	1.95
4396242--4396316	26	2.9	26	87	0	105	38	22	22	16	1.92
4396479--4396741	27	9.7	27	78	6	237	19	16	20	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4396493--4396741	81	3.1	81	81	4	263	18	16	20	44	1.86
4401126--4401168	21	2.0	21	86	8	61	34	0	6	58	1.25
4401147--4401228	38	2.2	37	85	8	105	42	2	2	52	1.27
4401386--4401482	46	2.2	44	82	14	119	39	24	4	31	1.74
4401461--4401515	16	3.4	16	87	0	83	30	25	7	36	1.83
4402929--4402957	15	1.9	15	100	0	58	41	3	0	55	1.17
4406549--4406585	15	2.5	15	90	0	56	32	16	0	51	1.45
4408106--4408154	22	2.1	23	92	7	82	30	20	4	44	1.70
4410716--4410754	12	3.3	12	78	7	53	53	7	0	38	1.30
4410705--4410761	23	2.4	23	97	2	105	56	8	0	35	1.31
4412215--4412253	20	2.0	20	84	0	51	23	2	2	71	1.10
4416058--4416277	43	5.1	43	79	6	198	29	16	22	31	1.96
4416053--4416268	86	2.5	87	85	3	244	30	16	22	31	1.96
4416107--4416276	86	2.0	86	91	0	277	27	15	23	32	1.95
4416110--4416278	43	4.0	42	85	3	221	27	15	23	33	1.95
4419475--4419513	20	2.0	20	100	0	78	20	12	10	56	1.65
4420132--4420194	12	5.4	12	71	22	55	47	0	3	49	1.17
4420132--4420194	22	2.7	23	77	20	69	47	0	3	49	1.17
4420157--4420293	61	2.3	57	82	6	157	44	1	3	50	1.28
4420259--4420310	25	2.0	26	88	3	79	53	7	0	38	1.30
4420455--4420524	16	4.4	16	76	3	61	34	21	1	42	1.62
4423869--4423898	15	2.0	15	93	0	51	23	6	6	63	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4427473--4427505	14	2.3	15	89	5	50	81	3	0	15	0.80
4429954--4430089	39	3.5	39	68	8	100	48	3	10	37	1.55
4430822--4430868	21	2.2	22	77	11	53	63	12	14	8	1.50
4434648--4434672	12	2.1	12	100	0	50	48	36	8	8	1.62
4437209--4437244	15	2.4	15	90	0	54	30	16	0	52	1.44
4440937--4440972	15	2.4	15	90	0	54	30	16	0	52	1.44
4443790--4443824	15	2.4	15	90	4	54	48	0	8	42	1.33
4448775--4448927	56	2.7	56	76	13	161	33	13	2	49	1.56
4452541--4452573	7	4.6	7	96	3	57	75	24	0	0	0.80
4452540--4452615	7	10.9	7	73	16	50	77	15	2	3	1.03
4453392--4453478	45	1.9	45	88	4	131	27	12	9	50	1.70
4453448--4453643	108	1.8	108	87	0	293	26	16	9	47	1.76
4454162--4454922	44	17.3	43	72	9	409	27	14	26	30	1.95
4454132--4454933	132	6.1	132	90	0	1167	27	14	26	31	1.95
4454132--4454933	263	3.0	263	90	0	1244	27	14	26	31	1.95
4455019--4455278	50	5.2	50	68	3	173	29	21	21	26	1.99
4454981--4455352	100	3.7	100	87	0	476	29	21	23	25	1.99
4455362--4455659	132	2.3	132	83	2	366	30	18	24	27	1.98
4455362--4455871	44	11.8	44	71	14	251	31	20	22	24	1.98
4455582--4455868	40	6.8	40	77	13	274	33	22	21	22	1.98
4455582--4455893	84	3.7	85	91	2	504	33	23	20	22	1.97
4455586--4455893	170	1.8	168	91	2	510	33	23	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4459138--4459184	5	9.6	5	80	13	53	19	2	0	78	0.85
4459373--4459422	22	2.3	22	86	6	66	24	46	10	20	1.81
4460367--4460556	101	1.9	101	83	4	249	26	16	25	31	1.96
4461173--4461202	15	2.0	15	93	0	51	50	0	10	40	1.36
4462515--4462574	30	2.0	31	90	9	97	46	6	20	26	1.75
4467111--4467174	30	2.1	31	94	2	112	42	6	25	26	1.78
4467109--4467158	15	3.2	16	72	11	59	44	6	24	26	1.76
4468097--4468124	14	2.0	14	100	0	56	35	28	28	7	1.84
4468616--4468681	13	5.1	13	76	7	71	39	22	6	31	1.79
4472877--4472949	29	2.5	29	93	0	119	52	9	12	26	1.69

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