genome.fa.s26.2.7.7.80.10.50.1000.15.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_D13
Parameters: 2 7 7 80 10 50 1000
Length:  60343961

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   197   198   199   200   201   202   203   204   

This is table  15  of  204  ( 24404 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)
4569850--4569880	15	2.1	15	93	0	53	22	29	35	12	1.91
4572945--4573054	19	5.9	18	70	19	66	51	2	2	42	1.30
4572943--4573055	37	3.1	37	79	11	117	52	2	2	42	1.29
4577982--4578030	20	2.5	20	80	9	57	18	2	20	59	1.48
4583986--4584032	20	2.4	19	80	19	53	34	2	8	55	1.42
4584113--4584153	20	2.1	19	86	4	55	36	0	0	63	0.95
4584132--4584156	7	3.6	7	100	0	50	28	0	0	72	0.86
4584113--4584166	27	2.1	25	82	6	63	35	0	0	64	0.94
4599148--4599191	17	2.5	19	89	10	67	61	0	0	38	0.96
4607709--4607747	20	2.0	20	84	0	51	38	10	17	33	1.84
4610841--4610865	2	12.5	2	100	0	50	48	0	0	52	1.00
4614571--4614820	125	2.0	123	92	1	419	34	16	13	35	1.88
4618017--4618261	121	2.0	120	99	0	481	36	13	11	39	1.79
4618268--4618338	37	1.9	37	97	0	133	49	0	9	40	1.36
4618274--4618342	19	3.7	19	82	5	97	52	0	10	37	1.36
4618418--4618503	27	3.2	27	81	4	86	18	26	24	30	1.98
4618546--4618614	27	2.5	26	81	9	84	49	1	7	42	1.39
4622952--4622989	4	9.5	4	100	0	76	26	47	0	26	1.52
4624726--4624783	26	2.2	25	76	8	62	74	1	1	22	1.01
4626919--4626982	27	2.3	27	81	10	76	50	1	3	45	1.27
4628218--4628253	18	1.9	19	88	5	56	52	2	2	41	1.30
4632304--4632352	15	3.2	16	75	18	50	55	6	4	34	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4634034--4634063	13	2.4	12	94	5	51	36	0	0	63	0.95
4637037--4637069	6	5.8	6	92	7	52	81	0	0	18	0.68
4637037--4637069	16	2.0	17	94	5	59	81	0	0	18	0.68
4641335--4641371	9	4.1	9	92	0	65	29	10	13	45	1.77
4651282--4651338	19	3.2	17	81	18	64	45	0	28	26	1.54
4651585--4651641	29	1.9	30	89	3	89	38	0	42	19	1.51
4651696--4651729	9	3.8	9	84	0	50	32	11	11	44	1.77
4658678--4658738	15	4.3	15	77	10	65	36	42	8	13	1.74
4659048--4659089	10	4.1	10	81	12	50	76	9	4	9	1.15
4659834--4659874	3	13.7	3	100	0	82	31	0	0	68	0.90
4660024--4660052	13	2.1	14	93	6	51	27	0	0	72	0.85
4660181--4660211	16	1.9	16	93	0	53	29	6	0	64	1.18
4661357--4661396	16	2.5	16	88	8	55	0	32	0	67	0.91
4664863--4664942	18	4.2	19	81	13	94	56	3	1	38	1.25
4664870--4664926	19	2.9	20	84	5	89	50	5	1	42	1.35
4670162--4670312	74	2.0	74	100	0	302	27	35	9	27	1.88
4674028--4674183	59	2.6	59	77	10	154	25	16	11	46	1.81
4674542--4674659	60	1.9	60	82	5	146	50	11	15	22	1.75
4674617--4674776	31	5.3	31	76	8	150	43	10	18	26	1.83
4687127--4687181	23	2.4	23	85	11	85	14	10	0	74	1.07
4687474--4687504	15	2.1	15	100	0	62	19	12	29	38	1.89
4691761--4691801	21	2.0	21	90	0	64	39	26	9	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4696400--4696456	18	3.2	18	85	5	62	36	8	12	42	1.74
4696426--4696851	17	24.6	17	67	13	167	46	11	13	28	1.78
4696426--4696606	18	10.4	18	76	10	146	46	12	12	28	1.77
4696418--4696606	105	1.8	102	83	11	249	44	11	11	31	1.77
4696468--4696604	70	2.0	70	91	2	222	46	11	10	31	1.74
4696454--4696617	70	2.4	69	84	8	208	47	11	10	30	1.73
4696770--4696851	35	2.3	35	87	0	119	50	13	12	24	1.76
4696952--4696979	8	3.5	8	100	0	56	60	25	14	0	1.34
4696971--4697024	18	3.2	16	75	12	54	42	9	11	37	1.73
4697864--4697914	12	4.3	12	80	14	61	0	27	0	72	0.85
4697864--4697914	23	2.2	23	83	13	68	0	27	0	72	0.85
4697850--4697908	29	2.1	28	84	9	75	0	22	0	77	0.76
4697858--4697916	29	2.0	30	83	3	75	0	27	0	72	0.84
4697991--4698034	15	3.0	15	83	6	54	0	40	0	59	0.98
4698539--4698602	30	2.2	30	88	2	94	40	4	20	34	1.73
4699105--4699178	17	4.0	17	72	24	60	39	1	0	59	1.06
4699099--4699176	18	4.1	19	71	19	63	35	1	0	62	1.03
4699122--4699188	11	6.4	11	75	20	72	40	2	0	56	1.14
4699104--4699188	40	2.1	40	95	0	152	37	2	0	60	1.10
4701225--4701462	124	1.9	123	89	3	370	29	14	23	31	1.95
4704631--4705557	28	33.5	28	79	12	917	30	0	22	46	1.52
4704937--4704994	23	2.9	20	80	17	59	31	0	24	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4705237--4705271	17	2.0	18	88	5	54	31	0	20	48	1.50
4705543--4705577	17	2.0	18	88	5	54	31	0	20	48	1.50
4705501--4705589	23	3.8	23	81	8	117	28	0	25	46	1.53
4707705--4707745	12	3.6	12	77	12	50	63	4	0	31	1.15
4707706--4707752	10	4.4	11	82	12	53	61	4	0	34	1.15
4707943--4707984	22	1.9	22	90	0	66	33	0	33	33	1.58
4707934--4708036	52	2.0	51	83	9	129	34	0	32	33	1.58
4707986--4708077	22	4.2	23	82	8	111	42	0	27	30	1.56
4707986--4708077	44	2.1	44	85	4	123	42	0	27	30	1.56
4708789--4708830	13	3.3	13	78	15	52	40	38	7	14	1.73
4710957--4711152	101	2.0	97	92	5	324	42	6	7	43	1.58
4711230--4711271	17	2.3	18	88	12	59	69	0	0	30	0.89
4714406--4714463	30	1.9	30	82	6	73	65	3	3	27	1.25
4715615--4715647	12	2.8	12	90	9	50	75	0	9	15	1.03
4716770--4716823	19	2.8	19	82	2	63	53	5	3	37	1.42
4718099--4718133	10	3.5	10	84	0	52	77	2	2	17	1.02
4718897--4718941	20	2.2	21	88	4	65	51	8	0	40	1.33
4718686--4719136	151	3.0	150	83	9	553	44	9	3	42	1.54
4723639--4723985	122	2.8	120	80	13	350	36	13	6	43	1.70
4723717--4723985	122	2.2	119	90	3	405	35	13	6	44	1.68
4726001--4726042	11	3.1	14	77	22	54	38	4	0	57	1.20
4725987--4726042	25	2.2	25	87	0	85	42	3	0	53	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4728624--4728692	30	2.4	29	85	9	97	46	21	7	24	1.77
4734528--4734579	22	2.3	24	75	21	58	48	0	1	50	1.12
4740914--4740969	22	2.4	23	82	5	60	8	5	8	76	1.14
4740933--4741012	34	2.4	34	89	2	117	11	6	10	72	1.27
4740944--4741006	11	5.6	11	83	3	63	12	6	9	71	1.30
4740953--4741012	11	5.4	11	84	4	66	13	5	11	70	1.33
4742368--4742452	41	2.1	42	95	4	156	34	7	7	51	1.56
4746083--4746149	34	1.9	35	87	3	100	31	8	14	44	1.76
4750477--4750526	26	2.0	25	85	14	68	40	20	10	30	1.85
4754770--4754814	24	1.9	23	86	4	63	46	8	0	44	1.34
4754787--4754836	26	1.9	26	87	0	73	44	4	2	50	1.32
4755086--4755150	29	2.3	29	83	2	87	56	0	1	41	1.08
4755378--4755417	19	2.1	19	90	0	62	17	15	10	57	1.64
4760896--4760928	17	1.9	17	100	0	66	36	6	12	45	1.66
4763707--4763755	22	2.2	22	89	7	73	75	0	0	24	0.80
4767633--4767726	38	2.5	38	76	10	102	28	19	13	38	1.90
4776419--4776465	24	2.0	24	86	0	67	48	17	4	29	1.65
4784643--4784676	13	2.7	12	90	9	50	8	0	41	50	1.34
4793610--4793656	25	1.9	24	95	4	85	40	27	6	25	1.80
4798049--4798164	57	2.0	57	98	0	223	31	13	18	37	1.90
4807901--4807977	25	3.1	25	66	17	61	27	25	14	32	1.94
4807952--4808156	72	2.8	72	84	0	257	35	22	17	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4809193--4809229	15	2.5	15	86	0	56	48	0	0	51	1.00
4817858--4817898	14	2.8	15	81	7	57	58	2	0	39	1.11
4824791--4824851	10	6.2	9	78	14	52	21	4	3	70	1.21
4824800--4824851	19	2.6	20	84	6	61	21	3	3	71	1.18
4825365--4825479	60	1.9	60	81	0	140	24	20	14	40	1.90
4825999--4826030	15	2.0	17	88	11	50	34	3	6	56	1.40
4830960--4831013	28	2.0	27	81	3	63	48	3	16	31	1.64
4833912--4834072	50	3.2	50	69	0	142	24	22	22	30	1.99
4833871--4834151	100	2.8	99	86	2	373	26	20	22	30	1.98
4834168--4834779	169	3.6	169	89	0	927	27	25	17	29	1.98

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   197   198   199   200   201   202   203   204