genome.fa.s20.2.7.7.80.10.50.1000.178.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  178  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)
52925287--52925324	13	2.8	14	84	8	60	73	0	26	0	0.83
52929432--52929480	6	8.0	6	93	2	62	51	6	0	42	1.27
52929431--52929479	12	4.0	12	89	2	71	51	8	0	40	1.32
52932610--52932803	105	1.9	104	83	3	255	23	21	30	24	1.99
52932742--52932848	42	2.5	42	87	1	142	23	27	36	13	1.92
52932608--52932823	105	2.1	104	78	2	236	21	22	31	24	1.98
52932768--52932865	42	2.4	42	85	1	126	20	27	35	16	1.94
52940778--52940963	36	4.9	36	83	12	255	38	10	20	30	1.87
52940737--52940963	82	2.9	82	89	6	339	37	11	21	30	1.88
52940883--52940948	21	3.5	20	63	25	52	34	9	19	36	1.84
52948900--52948939	11	3.5	11	82	3	53	7	2	5	85	0.83
52950031--52950072	20	2.1	20	86	0	57	26	23	9	40	1.85
52954220--52954375	30	5.2	30	81	5	172	35	23	1	40	1.63
52954227--52954375	59	2.5	59	87	3	199	36	23	0	39	1.60
52954553--52954623	32	2.3	31	83	11	83	73	7	11	8	1.25
52954870--52954916	7	6.3	7	81	13	58	78	0	21	0	0.75
52955154--52955212	25	2.4	25	91	2	93	77	1	20	0	0.85
52955154--52955229	25	3.0	25	86	5	91	78	1	17	2	0.93
52955160--52955231	26	2.9	25	82	10	76	80	1	15	2	0.89
52955378--52955415	16	2.4	16	90	0	58	31	0	0	68	0.90
52955575--52955636	19	3.2	18	80	13	61	33	14	9	41	1.79
52955575--52955636	20	3.2	19	80	14	65	33	14	9	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52955860--52956185	18	18.4	18	71	12	228	31	14	10	43	1.78
52955860--52956185	35	9.2	35	75	12	177	31	14	10	43	1.78
52956057--52956154	17	5.6	17	70	18	69	34	15	9	40	1.79
52956232--52956293	18	3.5	18	77	4	63	38	11	11	38	1.77
52956274--52956338	32	2.0	33	85	8	89	23	10	10	55	1.65
52956274--52956344	33	2.2	33	85	10	92	23	9	9	56	1.62
52965306--52965414	41	2.6	41	91	1	164	24	22	28	24	1.99
52966576--52967445	79	11.3	76	84	7	943	25	17	20	36	1.94
52966577--52967445	150	5.6	151	85	6	1020	26	17	20	36	1.94
52966577--52967445	156	5.6	151	84	7	940	26	17	20	36	1.94
52967614--52967769	30	5.2	30	86	3	217	35	23	1	39	1.63
52967621--52967769	59	2.5	59	90	3	226	36	24	0	38	1.60
52967614--52967783	89	1.9	89	86	4	245	35	24	1	38	1.66
52968538--52968596	25	2.4	25	91	2	93	77	1	20	0	0.85
52968538--52968607	25	2.9	25	87	4	90	80	1	17	1	0.87
52968765--52968796	16	2.0	16	93	0	55	34	0	0	65	0.93
52968952--52969017	19	3.5	18	78	15	62	30	15	9	45	1.77
52969246--52969569	17	18.4	18	75	9	274	30	13	11	44	1.79
52969265--52969565	18	17.2	17	71	14	163	30	13	11	44	1.79
52969247--52969565	35	9.1	35	76	10	285	30	13	11	44	1.79
52969617--52969711	17	5.5	17	74	17	72	29	10	11	48	1.73
52969664--52969712	16	3.0	16	84	3	53	30	10	10	48	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52970456--52970532	14	5.0	15	71	20	52	42	15	9	32	1.78
52970472--52970511	20	2.0	20	90	0	62	50	12	10	27	1.72
52970460--52970526	34	1.9	35	90	3	109	46	13	8	31	1.74
52970495--52970534	14	2.9	14	84	0	53	42	17	7	32	1.77
52970784--52970849	26	2.5	26	97	0	123	22	31	13	31	1.93
52973164--52973525	17	20.7	17	70	15	170	46	11	12	29	1.76
52973164--52973525	18	20.7	17	71	13	200	46	11	12	29	1.76
52973231--52973507	35	7.8	35	76	9	231	46	11	12	29	1.77
52973238--52973541	53	5.8	52	74	10	212	46	11	12	29	1.76
52973232--52973504	71	3.9	70	80	13	242	46	10	13	29	1.77
52973660--52973700	21	2.0	20	90	4	64	41	9	14	34	1.79
52973863--52973887	5	5.0	5	100	0	50	80	0	0	20	0.72
52974065--52974115	5	10.0	5	79	12	50	0	17	0	82	0.67
52974068--52974109	19	2.2	19	87	8	59	0	16	0	83	0.65
52974067--52974109	20	2.2	19	91	4	68	0	16	0	83	0.64
52974117--52974173	26	2.2	25	81	3	69	0	24	47	28	1.52
52974242--52974285	13	3.5	13	81	12	56	4	6	6	81	0.97
52974240--52974286	11	4.0	12	81	13	53	4	8	8	78	1.07
52974340--52974377	8	4.9	8	93	6	60	0	18	0	81	0.69
52974342--52974417	15	5.2	15	77	14	79	0	25	1	73	0.91
52974352--52974416	3	21.7	3	75	12	62	0	27	1	70	0.96
52974501--52974532	16	2.0	16	93	0	55	3	37	0	59	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52974785--52974895	29	3.9	29	76	7	118	41	5	18	34	1.74
52974806--52974887	28	2.9	28	76	8	85	41	4	18	35	1.72
52977184--52977289	9	11.3	9	68	16	56	43	0	2	52	1.22
52977209--52977288	20	4.1	20	73	26	73	42	0	2	55	1.13
52977566--52977609	23	2.0	23	82	13	56	47	9	6	36	1.62
52981092--52981337	122	2.0	122	100	0	492	34	17	6	41	1.75
52981928--52981977	25	2.0	24	81	11	57	52	0	4	44	1.20
52987027--52987064	4	9.5	4	100	0	76	23	0	26	50	1.50
52988256--52988370	58	2.0	58	100	0	230	34	8	13	43	1.74
52988687--52988746	30	2.1	30	84	6	79	35	15	5	45	1.68
52988909--52988972	23	2.7	22	76	7	56	64	4	1	29	1.23
52989080--52989123	20	2.1	21	84	12	56	54	0	9	36	1.32
52989110--52989164	28	2.0	28	85	0	74	50	3	9	36	1.51
52990064--52990146	3	27.7	3	100	0	166	67	0	32	0	0.91
52990947--52991000	24	2.2	24	86	0	72	35	3	5	55	1.41
52996162--52996200	20	2.0	20	85	5	53	43	5	10	41	1.61
52996147--52996200	18	2.8	19	83	5	56	40	3	9	46	1.54
53000492--53000603	46	2.4	47	83	3	154	9	18	25	45	1.80
53000492--53000620	22	5.6	22	72	9	98	11	18	25	44	1.84
53004432--53004499	29	2.4	30	82	7	79	60	2	4	32	1.32
53013183--53013626	149	2.9	152	83	6	571	43	10	4	41	1.59
53016636--53016684	26	1.9	25	91	4	80	34	12	10	42	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53022925--53022973	21	2.3	21	86	6	64	38	42	0	18	1.50
53049179--53049883	349	2.0	349	99	0	1385	26	26	17	29	1.97
53057512--53057560	20	2.7	18	77	22	57	51	4	2	42	1.32
53060119--53060153	19	1.9	17	88	11	52	60	11	8	20	1.57
53060161--53060220	22	2.7	22	71	0	57	61	5	10	23	1.47
53067839--53067871	11	2.9	12	86	13	52	33	0	0	66	0.92
53067995--53068057	30	2.1	30	87	0	90	60	11	1	26	1.40
53076378--53076484	53	2.0	53	94	0	187	44	14	15	24	1.85
53077170--53077194	12	2.1	12	100	0	50	16	24	0	60	1.36
53086883--53086910	3	9.3	3	100	0	56	35	32	0	32	1.58
53093658--53093722	29	2.3	28	81	5	78	49	0	3	47	1.17
53093934--53093976	22	2.0	22	81	9	52	55	0	6	37	1.27
53094861--53094919	28	2.1	27	81	9	66	55	3	10	30	1.49
53111935--53111991	21	2.7	21	77	0	69	35	36	1	26	1.67
53112504--53112537	16	2.1	16	100	0	68	41	11	0	47	1.40
53119303--53119342	18	2.4	16	84	12	53	65	7	10	17	1.46
53119305--53119342	17	2.2	17	90	4	58	65	5	10	18	1.41
53141078--53141102	10	2.5	10	100	0	50	28	0	0	72	0.86
53141130--53141156	5	5.4	5	100	0	54	18	0	0	81	0.69
53143200--53143229	14	2.1	14	93	0	51	43	3	6	46	1.46
53153588--53153662	9	8.2	9	70	14	55	29	1	0	69	0.97
53153659--53153709	11	4.9	11	77	18	56	41	1	0	56	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53153622--53153710	30	3.0	30	83	8	103	38	1	0	60	1.04
53153613--53153709	38	2.5	40	81	11	112	36	1	0	62	1.02
53156352--53156428	29	2.7	29	95	0	136	63	9	0	27	1.24
53156381--53156613	19	11.9	19	66	14	66	57	6	1	33	1.35
53156488--53156558	30	2.4	30	79	9	74	59	8	1	30	1.36
53157104--53157176	19	3.7	19	75	15	69	24	2	2	69	1.14
53157104--53157187	10	8.6	10	74	17	70	25	2	3	69	1.17
53157101--53157206	20	5.4	19	76	15	74	26	1	6	65	1.28
53157244--53157370	9	13.8	9	73	13	73	30	1	5	62	1.27
53157249--53157308	28	2.2	27	85	8	86	31	0	3	65	1.09

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