genome.fa.s25.2.7.7.80.10.50.1000.14.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_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   186   187   188   189   190   191   192   
          193   194   195   196   

This is table  14  of  196  ( 23409 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)
3996703--3996733	6	5.0	6	92	7	53	19	0	0	80	0.71
4002620--4002681	30	2.1	29	82	11	72	46	0	3	50	1.17
4004338--4004363	6	4.3	6	100	0	52	15	0	50	34	1.45
4004835--4004876	22	2.0	22	90	4	68	45	16	4	33	1.69
4006350--4006404	20	2.8	20	86	5	76	36	0	5	58	1.21
4006345--4006404	19	3.2	19	85	4	77	38	0	5	56	1.21
4008043--4008078	18	2.0	18	94	0	63	25	16	13	44	1.85
4008827--4008877	20	2.6	20	81	3	59	31	15	1	50	1.55
4009335--4009646	43	7.3	43	80	5	303	29	29	17	23	1.97
4009335--4009646	127	2.4	129	83	6	377	29	29	17	23	1.97
4009921--4010011	43	2.1	43	89	2	139	43	9	9	36	1.71
4014046--4014072	13	2.1	13	100	0	54	29	7	7	55	1.55
4014544--4014603	21	2.8	20	82	9	75	31	40	0	28	1.57
4014649--4014699	7	7.4	7	80	12	52	37	45	0	17	1.49
4014901--4014937	14	2.6	14	91	0	65	45	29	0	24	1.53
4015304--4015585	41	6.9	41	89	1	415	30	30	21	18	1.97
4015621--4015754	40	3.4	40	82	6	150	22	18	20	38	1.94
4019756--4019816	30	2.0	30	90	6	97	24	24	18	32	1.97
4019821--4019888	26	2.7	26	79	6	68	16	19	23	41	1.90
4019786--4020009	24	9.1	25	68	12	90	20	24	19	36	1.95
4019930--4020047	48	2.4	49	78	10	134	21	25	18	34	1.96
4020235--4020272	5	7.6	5	100	0	76	39	0	21	39	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4023327--4023372	21	2.0	24	84	12	62	39	8	4	47	1.54
4023497--4023534	20	1.9	19	89	5	58	39	0	7	52	1.31
4024782--4024832	14	3.5	14	70	19	50	27	5	13	52	1.63
4026737--4027160	27	14.9	27	73	10	222	23	17	5	54	1.64
4026704--4027188	27	17.0	27	72	11	186	23	18	5	53	1.64
4026870--4026950	39	2.1	39	92	0	135	17	20	6	55	1.63
4026812--4026994	95	1.9	97	85	2	253	22	16	6	54	1.64
4026905--4027142	53	4.3	56	78	5	189	23	15	4	56	1.58
4026905--4027152	58	4.5	55	78	7	178	24	15	4	56	1.58
4028059--4028110	26	2.0	26	85	7	70	32	21	19	26	1.97
4030781--4030823	18	2.4	19	80	11	54	44	0	2	53	1.13
4031338--4031434	50	1.9	51	83	6	126	42	15	5	37	1.69
4031490--4031550	25	2.5	24	76	12	63	70	3	1	24	1.11
4031574--4031644	24	3.0	23	74	13	72	56	2	2	38	1.29
4035212--4035283	35	2.1	35	97	0	135	36	13	9	40	1.78
4046828--4046859	16	1.9	17	93	6	57	46	3	0	50	1.17
4050155--4050408	125	2.0	125	95	0	454	24	16	21	38	1.92
4051464--4051771	102	3.0	102	100	0	616	37	15	16	29	1.90
4053779--4053840	29	2.1	30	81	3	72	50	4	8	37	1.54
4063091--4063139	22	2.3	22	85	3	64	61	12	6	20	1.52
4064637--4064697	24	2.5	24	82	10	63	39	24	19	16	1.92
4068211--4068276	30	2.3	28	80	12	80	50	6	3	40	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4068560--4068625	30	2.2	31	89	8	100	51	0	1	46	1.10
4068556--4068643	30	2.6	34	73	24	89	48	0	1	50	1.08
4082062--4082121	7	8.7	7	77	14	54	41	1	3	53	1.27
4083119--4083257	40	3.5	40	72	10	117	27	17	24	30	1.97
4085104--4085133	14	2.1	15	93	6	53	40	10	0	50	1.36
4085594--4085655	31	2.0	32	90	3	99	29	17	27	25	1.98
4085998--4086056	27	2.1	28	93	3	102	33	20	13	32	1.91
4091393--4091560	47	3.6	45	70	19	132	45	2	3	47	1.35
4091319--4091526	91	2.3	91	89	0	317	46	3	3	46	1.37
4091340--4091501	44	3.6	43	69	19	116	45	1	3	48	1.30
4091339--4091415	28	2.8	28	73	9	52	42	1	3	51	1.28
4091676--4091730	24	2.2	26	81	12	71	45	0	1	52	1.11
4091854--4091958	44	2.5	40	76	15	113	31	29	4	34	1.78
4091852--4091961	45	2.6	44	81	8	131	31	29	5	33	1.80
4091940--4091977	16	2.4	16	90	0	58	34	34	0	31	1.58
4104215--4104464	123	2.0	123	98	0	482	28	19	15	36	1.92
4107432--4107482	19	2.7	19	79	11	61	37	3	3	54	1.37
4111485--4111540	27	2.1	27	83	12	71	48	19	12	19	1.80
4120903--4120945	22	2.0	21	90	4	68	53	2	0	44	1.13
4131808--4131833	13	2.0	13	100	0	52	53	23	0	23	1.46
4131903--4131943	13	3.2	13	80	13	50	48	12	0	39	1.41
4132817--4132847	2	15.5	2	100	0	62	48	51	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4133497--4133541	18	2.5	18	85	7	56	13	4	2	80	0.97
4138863--4138913	10	4.8	10	79	11	57	5	11	1	80	0.97
4138863--4138913	22	2.4	21	77	6	57	5	11	1	80	0.97
4139346--4139419	29	2.5	29	82	4	85	48	5	14	31	1.67
4144763--4144806	21	2.1	21	87	8	63	29	4	4	61	1.36
4151707--4151731	13	1.9	13	100	0	50	8	0	24	68	1.16
4153306--4153577	41	6.7	40	85	9	336	27	18	24	30	1.98
4153306--4153576	123	2.2	123	88	5	397	27	18	24	29	1.98
4158596--4158642	16	2.9	17	73	20	55	25	2	6	65	1.27
4158626--4158660	17	2.0	18	88	5	54	34	0	2	62	1.10
4164625--4164728	52	2.0	52	98	0	199	32	16	21	29	1.95
4166810--4166835	3	8.7	3	100	0	52	30	0	0	69	0.89
4188102--4188370	98	2.7	99	80	8	282	46	15	7	30	1.74
4189070--4189113	22	2.0	21	83	12	54	20	0	4	75	0.98
4189180--4189239	20	3.2	20	73	20	65	33	0	1	65	1.03
4192730--4193548	30	27.2	30	86	8	1143	28	0	25	45	1.57
4192730--4193548	59	13.6	60	85	9	1143	28	0	25	45	1.57
4193076--4193129	16	3.6	16	70	14	60	29	0	31	38	1.57
4193017--4193247	29	8.4	24	83	13	124	28	0	27	44	1.55
4193365--4193497	29	4.9	24	71	27	90	28	0	25	45	1.54
4194749--4194786	7	5.4	7	93	0	58	65	13	0	21	1.26
4195722--4195777	25	2.3	25	80	14	64	62	5	0	32	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4195868--4195934	10	6.6	10	74	3	62	64	0	0	35	0.94
4195874--4195915	21	2.0	21	85	0	57	64	0	0	35	0.94
4195868--4195937	30	2.3	31	95	4	126	65	0	0	34	0.93
4195967--4196017	22	2.3	21	87	9	75	37	0	33	29	1.58
4195989--4196046	30	1.9	30	92	0	98	37	0	32	29	1.58
4201311--4201368	29	2.0	30	83	10	75	48	13	10	27	1.75
4203137--4203219	37	2.5	33	82	17	109	60	10	9	19	1.57
4203154--4203233	37	2.2	37	97	2	153	60	10	10	20	1.57
4209254--4209279	12	2.2	12	100	0	52	53	0	7	38	1.30
4213669--4213697	14	2.0	15	93	6	51	37	20	0	41	1.53
4214393--4214444	21	2.5	21	80	0	59	34	1	32	30	1.69
4214690--4214745	24	2.3	25	78	12	71	32	12	17	37	1.88
4214737--4214790	12	4.7	12	81	9	51	48	0	0	51	1.00
4218042--4218117	29	2.7	28	80	8	82	19	23	23	32	1.97
4218762--4218800	13	3.3	12	86	13	55	33	0	17	48	1.48
4227061--4227107	21	2.2	21	81	11	51	34	6	8	51	1.58
4227392--4227514	62	2.0	62	98	0	237	29	21	18	30	1.97
4227952--4227985	10	3.4	10	88	11	52	61	0	0	38	0.96
4235038--4235065	6	4.7	6	100	0	56	0	28	35	35	1.58
4235717--4236069	174	2.0	174	94	0	625	19	30	13	36	1.90
4236211--4236440	117	2.0	117	95	0	415	26	27	11	33	1.91
4246716--4246826	27	3.9	26	78	15	114	30	30	24	14	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4246579--4246764	102	1.8	102	90	0	300	30	29	22	17	1.97
4246685--4246824	60	2.3	60	92	0	226	34	28	22	15	1.94
4246590--4246902	162	1.9	162	97	0	590	31	30	21	16	1.95
4247967--4248000	11	2.8	12	91	8	52	35	8	11	44	1.72
4248628--4248969	137	2.5	138	81	0	398	38	24	16	21	1.92
4248628--4249024	69	5.8	69	77	1	339	38	23	16	21	1.93
4249046--4249248	58	3.5	57	84	7	250	34	18	8	37	1.82
4260395--4260428	17	1.9	18	88	5	52	50	35	5	8	1.58
4265746--4265912	39	4.2	39	79	12	167	18	20	22	38	1.93
4265773--4265950	45	4.1	45	80	10	199	19	19	21	40	1.92

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   186   187   188   189   190   191   192   
          193   194   195   196