genome.fa.s20.2.7.7.80.10.50.1000.16.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  16  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)
5296796--5296863	21	3.2	21	67	8	57	45	17	19	17	1.86
5298559--5298585	14	1.9	14	100	0	54	59	7	0	33	1.25
5312129--5312179	6	8.7	6	78	4	50	5	11	39	43	1.66
5312204--5312261	18	3.2	18	71	9	55	13	5	53	27	1.61
5312211--5312262	18	2.9	18	76	0	59	11	5	53	28	1.60
5312732--5312778	24	2.0	24	100	0	94	34	10	17	38	1.84
5333841--5333879	21	1.9	20	84	5	51	53	2	28	15	1.55
5336145--5336187	20	2.0	22	86	8	63	69	4	11	13	1.33
5343817--5343841	12	2.1	12	100	0	50	52	8	8	32	1.60
5346032--5346081	23	2.2	23	82	7	57	66	2	2	30	1.14
5349070--5349110	17	2.4	17	87	0	55	43	14	9	31	1.78
5354308--5354357	16	3.2	16	75	10	50	46	0	0	54	1.00
5359270--5359304	6	5.8	6	100	0	70	82	0	0	17	0.66
5359709--5359739	9	3.6	9	95	4	55	61	0	0	38	0.96
5361188--5361768	189	3.0	193	83	6	616	32	13	19	34	1.91
5363796--5363843	23	2.1	23	96	0	87	25	12	22	39	1.89
5376010--5376049	21	2.0	20	85	5	53	50	0	2	47	1.14
5377085--5377111	7	3.9	7	100	0	54	29	0	0	70	0.88
5377290--5377751	152	3.0	152	99	0	915	32	16	23	27	1.96
5385113--5385180	31	2.2	31	89	0	100	42	5	8	42	1.60
5396026--5396083	16	3.6	16	77	11	55	50	1	1	46	1.22
5401774--5401838	21	3.0	21	76	13	53	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5405099--5405150	27	1.9	27	88	7	79	23	23	28	25	1.99
5405022--5405226	103	2.0	103	94	0	356	20	20	26	32	1.97
5405126--5405338	76	2.8	77	93	0	356	23	20	26	30	1.98
5405206--5405327	33	3.4	33	69	28	104	22	19	27	30	1.98
5408453--5408587	33	3.7	34	70	26	116	29	25	21	22	1.99
5408455--5408667	76	2.8	77	91	1	338	31	26	19	22	1.98
5408535--5408771	103	2.2	103	90	4	366	32	27	19	20	1.97
5410447--5410506	29	2.0	30	84	9	79	60	3	1	35	1.23
5413397--5413589	50	3.8	50	88	0	287	20	29	23	26	1.99
5413684--5413714	13	2.4	13	94	0	53	54	12	0	32	1.38
5413927--5413984	30	1.9	30	89	0	89	31	24	3	41	1.71
5414657--5414682	13	2.0	13	100	0	52	46	15	7	30	1.74
5416601--5416640	20	2.0	20	85	0	53	50	10	10	30	1.69
5416624--5416663	14	2.9	14	84	0	53	42	17	7	32	1.77
5416589--5416655	34	1.9	35	84	3	91	46	10	8	34	1.70
5421282--5421307	12	2.2	12	100	0	52	46	0	0	53	1.00
5429102--5429160	31	1.9	31	85	0	82	28	23	15	32	1.95
5431893--5431942	6	8.5	6	75	20	52	66	0	0	34	0.92
5433673--5433707	18	2.0	17	88	5	52	20	37	11	31	1.88
5436845--5436965	59	2.2	59	82	12	150	32	4	1	61	1.24
5437817--5437942	9	13.8	9	69	17	64	58	3	0	36	1.22
5437813--5437872	29	2.0	30	83	3	77	61	3	1	33	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5437865--5437939	19	4.3	17	71	17	57	58	4	0	37	1.17
5442713--5442749	19	1.9	19	100	0	74	29	0	5	64	1.15
5453838--5453906	3	24.0	3	78	8	54	34	8	0	56	1.30
5453848--5453898	15	3.5	15	84	10	70	35	11	0	52	1.38
5456108--5456151	19	2.3	20	84	7	56	27	20	11	40	1.86
5460263--5460404	44	3.3	43	67	18	114	25	24	22	27	2.00
5460255--5460435	86	2.1	87	91	1	301	28	23	22	25	1.99
5460426--5460813	97	4.0	96	95	2	681	29	19	22	28	1.98
5460426--5460813	192	2.0	192	97	0	731	29	19	22	28	1.98
5460618--5461052	231	1.9	229	96	0	798	28	20	23	28	1.98
5460829--5461060	95	2.6	88	82	10	304	28	21	22	28	1.99
5460849--5461042	95	2.0	95	97	0	370	29	19	23	27	1.98
5461023--5461431	44	9.4	44	68	2	236	28	19	25	26	1.99
5461052--5461431	86	4.4	86	66	7	221	27	20	25	26	1.99
5460962--5461431	130	3.6	130	94	0	787	27	20	24	27	1.99
5461873--5461941	35	2.0	35	100	0	138	17	50	11	20	1.76
5461890--5461969	34	2.3	35	84	2	99	22	51	10	16	1.74
5463287--5463355	3	24.0	3	78	8	54	33	8	1	56	1.39
5463297--5463347	15	3.5	15	84	10	70	35	11	0	52	1.38
5466085--5466122	19	2.0	19	100	0	76	52	15	5	26	1.64
5468625--5468683	24	2.5	23	76	13	57	28	20	1	49	1.59
5468745--5468789	24	1.9	23	86	4	63	57	2	0	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5482071--5482135	33	1.9	34	84	9	89	46	3	3	47	1.33
5482341--5482408	23	3.0	23	82	4	75	48	1	2	47	1.26
5482543--5482584	14	2.9	14	83	16	59	54	0	7	38	1.28
5482628--5482670	23	2.0	22	90	9	70	44	6	4	44	1.52
5482628--5482678	21	2.5	21	84	15	63	49	7	3	39	1.51
5485047--5485103	25	2.3	25	75	0	60	40	0	5	54	1.23
5492136--5492192	25	2.3	25	75	0	60	40	0	5	54	1.23
5494703--5494730	12	2.3	12	100	0	56	35	14	7	42	1.73
5495084--5495254	93	1.8	93	82	5	220	45	11	12	30	1.77
5496999--5497024	3	8.7	3	100	0	52	69	0	0	30	0.89
5499413--5499458	15	2.9	17	71	15	53	28	2	0	69	1.00
5501682--5501738	30	1.9	30	85	0	78	57	0	5	36	1.21
5504959--5504995	14	2.4	17	86	13	53	48	0	0	51	1.00
5505184--5505217	16	2.1	16	88	5	50	76	5	14	2	1.09
5506084--5506160	27	3.1	25	78	14	70	38	0	24	36	1.56
5506084--5506141	23	2.5	24	80	11	66	39	0	24	36	1.55
5506304--5506399	39	2.5	39	80	6	108	20	23	28	27	1.99
5512411--5512447	14	2.4	17	86	13	53	48	0	0	51	1.00
5512594--5512646	13	3.9	13	76	13	54	71	0	11	16	1.13
5512635--5512668	16	2.1	16	88	5	50	76	5	14	2	1.09
5513533--5513609	27	3.1	25	78	14	70	38	0	24	36	1.56
5513533--5513590	23	2.5	24	80	11	66	39	0	24	36	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5513753--5513848	39	2.5	39	80	6	108	20	23	28	27	1.99
5517983--5518072	9	9.4	9	77	11	72	66	0	2	31	1.04
5517979--5518063	28	2.9	28	87	7	116	63	0	2	34	1.07
5518009--5518071	8	7.0	8	77	19	54	63	0	1	34	1.04
5517983--5518072	29	3.1	28	83	12	103	66	0	2	31	1.04
5518009--5518103	40	2.4	39	89	5	147	60	0	3	36	1.13
5521336--5521365	16	1.9	16	93	6	53	40	6	3	50	1.45
5528533--5528572	11	3.5	11	80	6	53	35	7	22	35	1.82
5528525--5528572	23	2.1	23	100	0	96	33	8	20	37	1.83
5528525--5528563	12	3.3	12	78	7	53	33	7	20	38	1.81
5529654--5529852	99	2.0	99	88	0	290	35	12	15	36	1.85
5539863--5539918	26	2.2	25	81	9	60	58	21	1	17	1.47
5545551--5545579	2	14.5	2	100	0	58	0	0	48	51	1.00
5553863--5554197	172	1.9	172	91	2	548	44	17	8	29	1.78
5554754--5555254	91	5.5	91	86	1	637	34	18	18	28	1.95
5554758--5555252	273	1.8	273	88	0	767	34	18	18	28	1.95
5555167--5556122	122	7.8	122	87	2	1247	33	17	18	30	1.94
5556126--5556605	123	3.9	122	88	1	658	33	17	17	31	1.94
5556127--5556605	245	2.0	244	87	2	692	33	17	17	31	1.94
5558697--5558753	26	2.2	26	93	0	96	26	7	5	61	1.43
5558874--5558914	21	2.0	21	85	9	57	46	2	0	51	1.14
5560940--5561191	126	2.0	124	91	1	405	40	17	9	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5572201--5572804	152	4.0	153	84	7	747	50	8	10	31	1.65
5572855--5572910	21	2.8	19	82	10	67	37	8	16	37	1.80
5572856--5572899	21	2.1	21	91	0	70	38	9	13	38	1.77
5573108--5573145	18	2.0	21	85	15	55	18	10	2	68	1.30
5573364--5573403	3	13.3	3	84	10	55	32	0	0	67	0.91
5573349--5573401	12	4.0	13	81	16	56	30	0	1	67	1.01
5574755--5575119	154	2.4	153	87	7	517	52	8	9	29	1.63
5575220--5575256	19	1.9	20	88	5	58	21	0	5	72	1.04
5578094--5578153	31	1.9	31	86	0	84	26	13	10	50	1.73
5580168--5580445	130	2.1	130	79	7	296	37	12	14	35	1.84

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