genome.fa.s26.2.7.7.80.10.50.1000.17.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  17  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)
5039437--5039488	24	2.2	24	85	0	68	50	3	3	42	1.39
5044905--5044937	17	2.0	17	88	5	50	63	6	0	30	1.18
5051690--5051845	84	1.9	84	85	4	217	36	5	10	46	1.63
5051690--5051852	83	2.0	84	83	3	213	35	5	12	46	1.66
5057517--5057547	16	1.9	16	100	0	62	83	9	6	0	0.79
5057524--5057564	19	2.2	20	87	12	61	85	9	4	0	0.73
5058947--5058998	27	2.0	27	88	3	79	59	19	1	19	1.47
5058995--5059085	31	2.9	30	79	12	94	12	37	20	29	1.89
5063833--5063955	25	5.0	25	76	7	101	22	21	20	34	1.96
5064066--5064117	26	2.0	26	85	7	70	40	3	17	38	1.68
5067082--5067260	47	3.7	47	87	4	216	24	20	31	24	1.98
5074052--5074081	14	2.1	14	93	0	51	30	6	20	43	1.77
5074221--5074282	20	3.0	20	86	9	72	59	9	1	29	1.38
5074235--5074287	19	2.8	19	85	5	63	56	9	0	33	1.32
5086250--5086306	26	2.2	26	96	0	105	15	21	26	36	1.93
5086857--5086897	22	1.9	21	85	5	55	29	4	26	39	1.77
5089360--5089458	50	2.0	50	85	0	135	20	37	20	22	1.95
5091774--5091810	15	2.5	15	90	0	56	56	8	10	24	1.60
5092242--5093295	268	3.9	268	98	0	2056	37	15	10	36	1.82
5092242--5093295	535	2.0	536	99	0	2065	37	15	10	36	1.82
5094752--5094809	26	2.3	26	85	8	75	39	18	24	17	1.92
5094738--5094820	25	3.3	25	77	9	80	36	16	26	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5100273--5100474	84	2.4	84	97	0	386	30	20	19	29	1.97
5119830--5119876	5	9.8	5	84	9	53	31	0	4	63	1.13
5119830--5119884	18	2.9	19	78	5	58	32	0	5	61	1.19
5124591--5124638	24	2.0	25	84	15	66	37	12	6	43	1.68
5125255--5125279	11	2.3	11	100	0	50	40	0	8	52	1.31
5125246--5125330	38	2.2	38	87	0	125	37	0	2	60	1.10
5125292--5125333	11	3.9	11	81	6	59	42	0	0	57	0.99
5125301--5125340	21	1.9	21	89	0	62	40	0	0	60	0.97
5125299--5125359	23	2.7	23	80	9	65	42	0	3	54	1.17
5127075--5127112	17	2.2	18	85	4	51	31	7	0	60	1.25
5127168--5127202	18	2.1	17	89	10	54	34	14	11	40	1.82
5131552--5131846	145	2.0	145	98	0	563	23	17	21	37	1.94
5137594--5137626	13	2.5	14	90	9	52	42	0	0	57	0.98
5140676--5140718	18	2.4	18	92	7	70	51	0	0	48	1.00
5156185--5156214	15	2.0	15	93	0	51	56	6	13	23	1.60
5160761--5160840	38	2.1	38	90	0	124	16	17	28	37	1.91
5160761--5160840	19	4.2	18	76	9	79	16	17	28	37	1.91
5167166--5167223	30	1.9	30	89	0	89	41	3	24	31	1.71
5167435--5167466	13	2.5	13	94	0	55	31	0	12	56	1.37
5167561--5167802	50	4.7	50	86	3	295	26	23	29	19	1.99
5167561--5167810	100	2.4	103	88	5	362	26	23	29	20	1.99
5174754--5174811	30	1.9	30	89	0	89	41	3	24	31	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5175023--5175054	13	2.5	13	94	0	55	31	0	12	56	1.37
5175149--5175390	50	4.7	50	84	3	268	27	23	28	20	1.99
5175149--5175398	100	2.4	102	84	7	326	26	22	28	21	1.99
5176642--5176747	50	2.1	50	100	0	212	26	22	29	21	1.99
5177680--5177729	24	2.1	24	100	0	100	28	28	8	36	1.85
5180786--5180958	27	6.4	27	79	2	186	46	20	14	18	1.84
5180787--5180958	81	2.1	81	90	0	263	46	20	13	18	1.83
5188891--5188948	26	2.2	26	87	6	82	27	15	13	43	1.85
5199921--5200111	22	9.4	21	65	21	88	61	0	2	35	1.10
5199915--5199978	9	6.1	10	76	20	60	53	0	1	45	1.10
5199917--5200107	40	4.7	41	80	13	191	61	0	2	36	1.10
5199974--5200034	10	6.4	10	74	9	56	72	0	1	26	0.94
5199916--5200111	18	9.8	19	66	20	80	60	0	2	36	1.10
5200541--5200593	23	2.3	24	84	15	76	24	16	26	32	1.97
5207286--5207339	27	2.0	27	100	0	108	33	7	25	33	1.84
5211571--5211623	22	2.4	22	84	9	63	0	37	0	62	0.96
5211571--5211623	11	4.7	11	77	9	54	0	37	0	62	0.96
5216723--5216799	29	2.6	29	83	4	91	49	15	11	23	1.77
5217732--5217911	10	18.3	10	67	18	65	60	3	1	34	1.22
5217826--5217911	20	4.3	20	72	20	72	62	3	0	33	1.12
5217826--5217935	21	5.4	20	75	15	93	61	2	1	33	1.20
5217742--5217940	19	10.3	19	69	22	98	60	3	2	34	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5218322--5218384	27	2.2	28	83	5	74	28	3	3	65	1.24
5218357--5218400	20	2.2	20	88	8	63	29	2	4	63	1.26
5218362--5218421	20	2.9	22	83	14	83	26	0	5	68	1.10
5218915--5218963	25	2.0	25	84	4	64	59	2	4	34	1.28
5219091--5219128	17	2.3	16	86	8	58	34	0	2	63	1.09
5231218--5231291	35	2.1	34	85	2	94	32	9	13	44	1.76
5231470--5231507	20	1.9	20	88	0	58	52	0	0	47	1.00
5236170--5236234	29	2.3	29	72	2	69	41	15	15	27	1.87
5239558--5239618	17	3.4	17	68	12	50	32	3	13	50	1.57
5239554--5239627	37	2.0	37	97	0	139	33	5	14	45	1.68
5239626--5239683	9	6.4	10	79	15	56	29	12	18	39	1.87
5239621--5239683	27	2.3	27	81	8	74	28	12	19	39	1.88
5244434--5244500	35	1.9	35	82	14	86	7	28	10	53	1.62
5245123--5245300	81	2.2	81	87	2	259	43	17	19	19	1.89
5245123--5245300	27	6.6	27	83	7	227	43	17	19	19	1.89
5245436--5245516	26	3.1	26	71	7	74	18	22	24	34	1.96
5245619--5245684	28	2.4	28	82	5	71	25	27	22	24	2.00
5248058--5248112	16	3.4	16	92	0	92	29	25	7	38	1.83
5249179--5249236	28	2.1	28	96	0	107	15	22	32	29	1.95
5250799--5250840	21	2.0	22	90	4	68	35	9	0	54	1.33
5250795--5250847	22	2.5	22	84	6	74	33	7	0	58	1.26
5250933--5250998	21	3.2	20	78	16	64	21	4	3	71	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5252308--5252349	22	2.0	22	85	4	59	47	2	0	50	1.14
5253639--5253721	42	2.0	42	85	0	112	37	14	8	39	1.76
5256128--5256895	267	2.9	266	84	5	945	41	16	18	23	1.90
5256058--5256956	134	6.8	131	79	7	813	41	17	18	23	1.90
5259445--5259506	31	2.0	31	84	12	83	29	9	9	51	1.66
5259503--5259572	31	2.3	31	85	9	90	41	5	0	52	1.25
5259970--5260033	27	2.4	27	94	5	112	40	10	0	48	1.38
5263151--5263176	2	13.0	2	100	0	52	50	0	0	50	1.00
5268487--5268527	17	2.5	17	88	4	57	26	26	0	46	1.53
5273915--5273969	27	2.0	27	82	10	67	47	0	3	49	1.19
5273915--5273973	26	2.2	27	85	8	77	49	0	3	47	1.18
5274042--5274106	27	2.4	27	92	0	103	30	23	30	15	1.95
5274450--5274503	19	2.8	19	91	2	81	33	0	14	51	1.43
5274546--5274684	22	5.9	22	83	15	179	30	0	13	56	1.38
5274538--5274688	49	3.1	49	91	1	250	31	0	13	54	1.39
5274781--5274808	12	2.3	12	100	0	56	28	7	17	46	1.75
5277712--5277753	13	3.5	13	75	18	54	0	38	2	59	1.10
5277706--5277761	23	2.4	24	79	8	71	1	32	1	64	1.14
5278615--5278642	7	4.0	7	100	0	56	57	0	0	42	0.99
5286841--5286881	14	3.0	14	80	16	50	34	0	4	60	1.18
5291789--5291816	11	2.5	11	100	0	56	14	17	50	17	1.79
5295760--5295802	23	1.9	23	90	4	70	65	2	2	30	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5295777--5295822	14	3.2	14	78	3	56	65	4	0	30	1.12
5297843--5297878	17	2.1	17	100	0	72	55	5	0	38	1.23
5298911--5299000	45	2.0	45	93	0	153	21	33	24	21	1.97
5303337--5303381	20	2.2	20	84	11	56	26	13	6	53	1.64
5303411--5303716	108	2.8	106	82	7	341	33	15	18	33	1.92
5305934--5305972	16	2.4	16	86	0	51	51	5	2	41	1.38
5310898--5311259	46	8.5	46	76	17	329	33	14	22	29	1.93
5310982--5311045	32	2.0	32	96	0	119	37	14	20	28	1.91
5310936--5311091	78	2.0	78	97	0	294	35	14	20	29	1.93
5310898--5311242	124	2.8	126	90	3	533	33	14	22	30	1.93

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