genome.fa.s20.2.7.7.80.10.50.1000.15.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  15  of  189  ( 22580 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)
4899244--4899295	16	3.2	16	94	0	86	34	36	0	28	1.58
4903316--4903397	43	1.9	43	100	0	164	24	17	7	51	1.70
4908936--4909009	35	2.2	35	87	4	107	41	10	10	36	1.75
4911478--4911668	43	4.5	42	77	7	188	29	32	15	22	1.94
4911478--4911667	86	2.2	86	85	4	242	29	33	15	22	1.94
4913251--4913279	14	2.1	14	100	0	58	48	13	10	27	1.75
4915833--4915872	21	2.0	21	90	5	64	52	27	0	20	1.46
4915840--4915978	7	19.6	7	71	11	68	47	30	1	20	1.59
4915863--4915978	21	5.4	20	76	11	88	46	31	1	19	1.60
4916190--4916266	40	1.9	40	86	0	109	37	23	18	20	1.94
4916230--4916516	41	7.0	41	85	2	378	29	32	20	17	1.95
4926285--4926332	22	2.2	22	81	7	53	27	16	18	37	1.92
4930285--4930475	94	2.0	94	92	0	319	32	12	13	41	1.82
4930470--4930645	41	4.3	41	73	13	123	26	13	26	34	1.93
4930487--4930645	83	1.9	82	81	10	189	25	13	27	33	1.94
4931270--4931380	46	2.4	46	87	4	161	27	11	19	41	1.86
4931270--4931381	24	4.9	23	74	19	99	27	11	19	41	1.86
4932150--4932198	13	3.8	13	94	0	89	24	46	20	8	1.77
4935582--4935627	21	2.2	21	84	7	58	52	2	0	45	1.13
4935594--4935669	29	2.6	27	76	13	80	51	3	2	42	1.34
4936791--4937061	123	2.2	123	88	5	406	29	24	18	27	1.98
4936792--4937061	41	6.6	41	89	4	368	29	24	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4938631--4938655	13	1.9	13	100	0	50	68	24	0	8	1.16
4939200--4939257	25	2.3	25	93	0	98	32	17	25	24	1.96
4945088--4945151	27	2.4	26	82	7	83	54	25	0	20	1.44
4951657--4951798	41	3.5	39	80	12	128	34	2	1	61	1.19
4951690--4951721	9	3.6	9	91	0	55	28	0	3	68	1.04
4951663--4951798	40	3.4	40	81	9	152	33	2	1	62	1.19
4954527--4954624	19	4.8	20	68	10	65	62	1	2	34	1.14
4954512--4954632	31	4.1	29	75	11	113	65	0	1	32	1.08
4954527--4954573	10	4.7	10	78	7	51	63	0	2	34	1.06
4954601--4954642	18	2.3	19	91	4	68	69	4	2	23	1.20
4954819--4954952	9	14.0	9	65	25	53	29	7	1	61	1.32
4954819--4954904	39	2.2	38	82	8	102	32	6	1	59	1.32
4954851--4954953	29	3.6	29	73	16	97	28	7	1	62	1.34
4966831--4967015	46	4.0	46	95	0	307	34	10	26	28	1.90
4981520--4981645	34	3.6	34	80	8	130	38	0	15	45	1.51
4981702--4981970	126	2.1	125	93	3	459	34	15	18	31	1.92
4983703--4983731	7	4.3	7	95	4	51	62	10	0	27	1.28
4986048--4986103	28	2.0	28	96	0	103	44	0	30	25	1.54
4992750--4992816	31	2.1	32	81	8	75	67	2	2	26	1.20
4993156--4993210	26	2.1	26	100	0	110	18	14	12	54	1.71
4993629--4993660	15	2.1	15	100	0	64	18	28	18	34	1.95
4997852--4997891	20	2.0	20	100	0	80	45	20	20	15	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5007452--5007523	32	2.2	33	83	9	94	44	13	8	33	1.74
5008664--5008712	10	4.8	10	80	12	55	38	0	2	59	1.09
5008704--5008739	17	2.1	18	89	5	56	50	0	0	50	1.00
5008737--5008780	18	2.5	17	82	13	54	40	0	6	52	1.28
5010526--5010565	22	1.9	21	85	10	55	47	2	0	50	1.14
5010666--5010752	40	2.2	40	81	6	97	35	2	8	54	1.43
5017667--5017691	8	3.1	8	100	0	50	16	0	48	36	1.46
5017778--5017849	36	2.0	36	94	0	126	38	16	11	33	1.84
5021160--5021201	17	2.3	18	80	12	50	33	0	9	57	1.31
5021568--5021602	18	1.9	18	88	11	54	20	0	0	80	0.72
5037796--5037820	3	8.3	3	100	0	50	68	0	32	0	0.90
5048444--5048528	30	2.8	30	96	0	152	36	0	42	21	1.53
5051546--5051663	40	3.0	38	81	12	150	38	2	0	59	1.11
5057275--5057328	12	4.4	13	86	11	62	37	1	61	0	1.07
5057283--5057326	6	7.5	6	92	5	72	34	2	63	0	1.07
5064281--5064317	9	4.1	9	89	0	56	45	13	13	27	1.81
5064417--5064441	5	5.0	5	100	0	50	0	80	0	20	0.72
5064541--5064600	30	2.0	31	83	9	79	20	38	0	41	1.52
5064856--5064884	9	3.2	9	100	0	58	31	0	0	68	0.89
5065364--5065389	5	5.2	5	100	0	52	19	19	19	42	1.90
5077626--5077659	16	2.2	16	89	5	52	11	26	0	61	1.30
5077894--5077945	21	2.5	19	71	17	50	44	5	1	48	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5090584--5090628	20	2.3	20	88	3	65	40	0	0	60	0.97
5090649--5090693	18	2.4	18	88	3	63	62	2	0	35	1.08
5097938--5097985	25	1.9	25	83	8	62	58	0	8	33	1.28
5097938--5097986	26	1.9	25	83	4	62	59	0	8	32	1.27
5098407--5098433	5	5.4	5	100	0	54	18	0	0	81	0.69
5098507--5098544	18	2.1	19	85	5	51	34	15	0	50	1.45
5103978--5104031	21	2.5	22	80	14	60	29	1	1	66	1.12
5104793--5104861	36	1.9	36	85	5	95	55	4	7	33	1.47
5106306--5106371	31	2.2	30	79	17	75	33	4	6	56	1.44
5110904--5110933	2	15.0	2	100	0	60	50	0	50	0	1.00
5115341--5115402	31	2.0	32	81	15	76	41	3	12	41	1.59
5117078--5117216	46	3.0	46	90	2	217	30	26	7	35	1.84
5135091--5135142	24	2.2	24	89	0	77	50	9	3	36	1.54
5139523--5139574	24	2.2	24	85	0	68	50	7	3	38	1.50
5142577--5142637	27	2.3	27	100	0	122	24	3	18	54	1.58
5148243--5148289	21	2.2	22	84	3	60	42	0	2	55	1.12
5148591--5148628	3	12.7	3	100	0	76	0	31	0	68	0.90
5151199--5151233	3	11.7	3	93	0	61	65	0	2	31	1.07
5166471--5166506	17	2.1	17	100	0	72	27	5	19	47	1.72
5182751--5182785	16	2.1	17	94	5	63	28	5	20	45	1.73
5204911--5204979	34	2.1	33	91	2	111	62	14	10	13	1.55
5209938--5209991	26	2.1	26	100	0	108	22	22	11	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5222623--5222671	22	2.2	22	77	0	53	20	10	8	61	1.53
5222860--5222896	17	2.1	18	90	5	58	37	0	0	62	0.96
5229544--5229683	40	3.5	40	80	6	169	31	24	17	26	1.97
5229553--5229684	41	3.3	40	79	11	155	32	24	17	25	1.97
5230662--5230709	19	2.5	20	86	6	64	39	10	4	45	1.58
5235887--5235951	34	1.9	34	84	12	89	23	9	1	66	1.29
5236780--5236804	2	12.5	2	100	0	50	52	0	48	0	1.00
5239886--5239931	22	2.2	22	88	7	69	36	0	2	60	1.09
5241605--5241653	17	2.6	20	71	18	59	36	18	16	28	1.92
5246229--5246264	11	3.4	11	92	7	65	75	0	25	0	0.81
5246229--5246265	10	3.3	12	88	11	53	75	0	24	0	0.80
5246292--5246330	19	2.0	21	85	10	55	17	0	15	66	1.25
5247221--5247258	18	2.1	18	90	0	58	36	7	42	13	1.73
5252163--5252218	27	2.1	27	93	0	94	8	32	14	44	1.76
5252987--5253154	14	11.5	13	68	23	50	0	30	0	69	0.89
5252949--5253133	41	4.6	41	76	12	159	0	31	0	68	0.90
5253011--5253154	13	11.3	13	67	24	58	0	30	0	69	0.89
5253013--5253155	4	36.0	4	72	20	81	0	30	0	69	0.89
5252986--5253148	38	4.6	36	75	17	153	0	31	0	68	0.90
5252947--5253137	79	2.5	77	84	9	268	0	32	0	67	0.91
5253280--5253350	30	2.5	29	80	13	85	47	0	8	43	1.33
5253280--5253350	27	2.6	27	84	8	90	47	0	8	43	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5256780--5256825	23	2.0	23	91	0	74	34	4	4	56	1.39
5259523--5259580	20	2.9	21	80	10	59	37	1	3	56	1.26
5263309--5263349	18	2.4	18	88	8	59	70	7	4	17	1.28
5263331--5263381	24	2.0	24	82	14	59	70	5	1	21	1.18
5291248--5292104	150	5.7	150	91	1	1263	38	16	7	37	1.77
5291248--5292108	301	2.9	299	89	2	1271	38	16	7	37	1.76
5292005--5292209	109	1.9	107	85	4	286	37	17	7	37	1.79
5293037--5293084	14	3.5	14	74	5	53	33	2	2	62	1.18
5296782--5296935	42	3.7	42	82	0	182	44	18	19	17	1.87
5296782--5296833	21	2.5	21	77	0	59	44	21	21	13	1.86

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