genome.fa.s17.2.7.7.80.10.50.1000.164.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_D04
Parameters: 2 7 7 80 10 50 1000
Length:  52479919

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   

This is table  164  of  173  ( 20651 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)
49095452--49095521	34	2.0	35	83	8	90	68	2	7	21	1.27
49095834--49095907	21	3.4	21	73	10	67	9	22	1	66	1.29
49096043--49096134	19	4.8	19	90	0	130	39	13	8	39	1.75
49096020--49096134	38	2.9	38	80	5	122	40	13	8	37	1.76
49101469--49101510	18	2.3	18	83	0	57	35	0	0	64	0.94
49106724--49106765	13	3.5	12	78	9	50	11	14	11	61	1.56
49109375--49109496	23	5.3	23	88	0	190	21	21	27	30	1.98
49111246--49111287	18	2.4	17	84	7	57	47	0	4	47	1.23
49113042--49113072	16	2.0	16	93	6	55	58	0	19	22	1.40
49114692--49114785	21	4.5	21	69	0	62	19	7	52	21	1.70
49119505--49119554	18	2.5	20	87	9	68	66	0	2	32	1.03
49120942--49121596	159	4.1	160	92	1	1048	54	9	7	28	1.59
49120942--49121600	319	2.1	318	92	1	1088	54	8	7	28	1.59
49122642--49122692	3	16.7	3	88	11	77	62	0	0	37	0.95
49123908--49123951	13	3.4	13	78	12	54	68	6	0	25	1.14
49123791--49124318	159	3.3	159	93	1	869	54	8	8	28	1.60
49124252--49124512	129	2.0	131	96	3	492	49	10	11	28	1.72
49124608--49124731	50	2.5	48	81	11	128	26	5	4	63	1.34
49124768--49124834	27	2.5	27	80	0	71	8	29	32	28	1.88
49129413--49129440	2	14.0	2	100	0	56	50	0	0	50	1.00
49129752--49129777	2	13.0	2	100	0	52	0	0	50	50	1.00
49141239--49141268	12	2.5	12	94	0	51	30	0	40	30	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49141802--49141846	22	2.0	22	95	0	81	20	4	31	44	1.71
49145416--49145445	15	1.9	16	93	6	53	53	6	0	40	1.27
49145597--49145627	4	7.8	4	92	0	53	48	0	3	48	1.17
49151949--49152039	25	3.6	25	75	11	71	31	21	24	21	1.98
49151949--49152089	50	2.9	48	79	8	133	33	21	24	21	1.97
49152086--49152153	27	2.6	27	88	2	102	35	14	27	22	1.93
49152092--49152160	27	2.6	27	81	4	86	34	14	30	20	1.92
49152018--49152238	25	8.8	25	72	11	109	34	19	27	18	1.95
49151996--49152245	25	10.0	26	69	16	104	34	18	27	19	1.95
49154059--49154155	33	2.8	33	84	7	106	37	22	10	29	1.87
49154369--49154524	41	3.8	41	89	6	226	27	22	21	28	1.99
49154836--49154889	25	2.2	25	96	0	99	25	31	5	37	1.79
49161713--49161810	33	2.9	33	84	7	108	36	22	10	30	1.87
49162025--49162221	41	4.8	41	92	5	317	27	22	20	28	1.99
49164458--49164514	30	1.9	30	85	0	78	38	8	22	29	1.85
49164954--49165052	23	4.3	23	94	0	180	20	21	26	32	1.97
49189055--49189081	6	4.5	6	100	0	54	14	33	14	37	1.88
49198876--49198937	8	6.5	10	83	12	62	59	0	0	40	0.97
49198876--49198926	8	5.8	9	90	6	70	60	0	0	39	0.97
49200816--49200863	16	3.1	15	77	17	53	39	22	4	33	1.74
49202076--49202169	37	2.4	37	82	7	107	30	26	18	24	1.97
49203063--49203146	4	21.0	4	77	16	77	1	23	1	73	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49203063--49203116	9	6.3	9	76	18	53	0	25	0	74	0.83
49203063--49203143	34	2.4	33	91	6	135	1	24	1	72	0.99
49203171--49203219	26	1.9	25	87	4	71	36	4	0	59	1.17
49205599--49205636	20	1.9	20	100	0	76	47	0	0	52	1.00
49206297--49206367	11	6.9	11	76	19	73	56	0	1	42	1.08
49206307--49206399	41	2.2	41	90	7	143	59	0	2	38	1.10
49206310--49206407	16	5.4	17	74	21	76	60	0	2	37	1.09
49206298--49206385	10	9.1	10	76	21	73	59	0	1	39	1.05
49206947--49207002	17	3.3	18	80	9	57	44	1	1	51	1.22
49206875--49207006	70	1.9	69	80	9	151	47	1	1	49	1.20
49207723--49207750	3	9.3	3	100	0	56	32	0	35	32	1.58
49212569--49212735	79	2.1	80	92	1	273	34	12	12	40	1.81
49212827--49212889	31	2.1	30	88	8	92	65	4	1	28	1.22
49212827--49212885	10	5.9	10	79	13	68	67	3	1	27	1.16
49216554--49216593	2	20.0	2	100	0	80	50	0	50	0	1.00
49218266--49218301	18	2.0	18	94	0	63	50	13	5	30	1.65
49225686--49225741	29	1.9	29	85	7	78	55	3	3	37	1.35
49225623--49225741	54	2.2	53	77	15	120	57	5	5	32	1.42
49225817--49225913	23	4.2	23	70	17	60	53	4	7	35	1.48
49225863--49225951	22	4.0	21	75	16	65	58	4	3	33	1.35
49234382--49234420	17	2.4	16	87	8	60	46	5	0	48	1.24
49234493--49234540	15	3.2	14	80	11	51	72	0	0	27	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49239338--49239363	2	13.0	2	100	0	52	50	0	50	0	1.00
49246875--49246960	42	2.0	42	95	0	154	30	19	10	39	1.85
49254141--49254170	14	2.1	14	93	6	51	56	0	3	40	1.16
49254313--49254363	14	3.6	14	74	7	50	68	0	13	17	1.21
49254352--49254385	16	2.1	16	88	5	50	76	5	14	2	1.09
49255480--49255575	39	2.5	39	80	6	108	20	23	28	27	1.99
49259465--49259503	19	2.1	19	90	9	62	43	0	2	53	1.14
49259467--49259513	24	2.0	23	87	4	67	46	0	2	51	1.13
49260614--49260646	17	1.9	17	100	0	66	42	9	0	48	1.35
49274657--49274715	24	2.6	23	86	7	77	55	1	6	35	1.36
49279691--49279738	24	2.0	25	83	4	62	47	10	4	37	1.57
49280523--49280595	36	2.0	36	97	0	137	30	34	2	32	1.72
49284828--49284866	19	2.1	19	90	0	60	51	0	23	25	1.49
49284832--49284875	19	2.3	19	100	0	88	45	0	27	27	1.54
49287792--49287820	12	2.4	12	100	0	58	48	0	10	41	1.37
49288012--49288046	3	11.7	3	100	0	70	68	0	0	31	0.90
49295306--49295350	22	2.0	22	82	0	54	64	13	11	11	1.50
49296199--49296246	21	2.3	22	78	10	55	18	4	35	41	1.70
49296219--49296257	21	1.9	20	85	15	53	17	5	30	46	1.70
49299686--49299795	44	2.6	42	80	7	114	25	19	24	30	1.98
49299686--49299813	42	3.0	42	78	12	118	25	17	25	32	1.97
49300143--49300187	17	2.6	18	76	16	51	44	0	20	35	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49307250--49307290	21	2.0	21	90	0	64	29	21	29	19	1.98
49309562--49309618	22	2.5	22	78	18	64	22	7	5	64	1.38
49309567--49309617	21	2.5	20	78	9	57	25	7	3	62	1.40
49318680--49318748	27	2.5	26	76	4	66	18	26	15	39	1.91
49325763--49325792	13	2.2	14	94	5	53	26	0	20	53	1.46
49335555--49335596	21	2.0	21	86	4	59	54	4	16	23	1.61
49335790--49335836	23	1.9	26	87	12	73	53	6	8	31	1.57
49336762--49336829	35	1.9	35	91	5	111	39	14	2	42	1.61
49336762--49336819	20	3.2	19	68	31	54	39	15	1	43	1.57
49340273--49340340	35	1.9	35	91	5	111	39	14	2	42	1.61
49340273--49340330	20	3.2	19	68	31	54	39	15	1	43	1.57
49342261--49342299	20	1.9	21	94	5	71	33	5	0	61	1.18
49342552--49342607	22	2.4	23	83	16	64	28	0	12	58	1.34
49344242--49344293	24	2.2	24	85	0	68	53	9	3	32	1.51
49347202--49347321	47	2.5	49	85	6	147	39	12	4	44	1.62
49352656--49352684	3	10.0	3	92	7	51	68	0	0	31	0.89
49360131--49360394	45	5.9	45	90	1	386	39	15	19	25	1.91
49360131--49360394	135	2.0	135	91	1	431	39	15	19	25	1.91
49366532--49366795	45	5.9	45	90	1	386	39	15	19	25	1.91
49366532--49366795	135	2.0	135	91	1	431	39	15	19	25	1.91
49367624--49367697	25	3.0	25	75	0	76	28	21	28	21	1.99
49367625--49367847	26	8.8	26	69	12	94	33	21	25	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49370843--49370923	22	3.4	25	71	23	77	44	2	8	44	1.48
49372045--49372080	17	2.1	18	89	5	56	55	0	5	38	1.23
49377376--49377477	41	2.5	40	84	6	132	28	23	19	28	1.98
49384147--49384201	22	2.6	21	82	2	74	69	10	7	12	1.37
49385705--49385923	72	3.0	72	93	0	348	22	18	36	22	1.95
49387175--49387217	18	2.5	17	76	3	50	34	0	2	62	1.08
49388757--49388799	16	2.7	15	82	10	50	41	11	13	32	1.81
49392415--49392453	6	5.7	7	88	11	55	0	10	0	89	0.48
49392416--49392452	13	2.9	12	88	11	56	0	10	0	89	0.49
49392415--49392454	21	2.0	20	95	5	71	0	10	0	90	0.47

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