genome.fa.s20.2.7.7.80.10.50.1000.108.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  108  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)
30149272--30149337	24	2.7	25	81	9	73	59	4	0	36	1.18
30153311--30153358	24	2.0	24	84	4	62	22	12	22	41	1.88
30155278--30155504	45	4.8	50	83	9	202	22	16	26	34	1.95
30155326--30155504	45	4.0	45	89	1	263	21	16	27	34	1.95
30164217--30164362	43	3.4	43	74	16	133	28	23	17	30	1.97
30164710--30164931	68	3.2	68	92	0	345	40	16	16	27	1.89
30167806--30167841	19	1.9	18	88	5	54	66	8	0	25	1.19
30167784--30167848	19	3.3	19	72	14	51	64	4	0	30	1.14
30167825--30167873	21	2.3	21	82	10	55	63	4	2	30	1.24
30168338--30168423	28	3.1	28	67	26	74	59	4	4	31	1.38
30168326--30168432	57	1.9	56	88	5	162	59	3	3	32	1.33
30168418--30168468	27	1.9	27	92	4	86	43	5	0	50	1.26
30168566--30168633	34	2.0	34	88	2	102	36	1	4	57	1.28
30168627--30168688	29	2.1	29	82	5	72	35	3	1	59	1.23
30168674--30168713	20	2.0	20	85	9	55	30	7	2	60	1.38
30195806--30195943	40	3.5	40	81	0	168	27	23	23	26	2.00
30196177--30196229	18	2.9	18	80	2	61	41	45	1	11	1.51
30196271--30196301	6	5.0	6	96	4	53	64	16	0	19	1.29
30196260--30196301	12	3.3	13	87	12	61	66	14	0	19	1.25
30196265--30196309	6	6.6	7	89	10	51	62	13	2	22	1.42
30196333--30196435	9	11.4	9	88	0	152	25	9	23	41	1.84
30200882--30200925	11	4.2	11	82	8	56	34	25	0	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30202419--30202462	19	2.3	19	88	4	61	34	0	2	63	1.07
30202420--30202462	20	2.2	19	87	4	59	34	0	2	62	1.08
30202877--30203323	23	19.2	23	71	16	251	40	18	13	27	1.88
30202822--30203346	93	5.6	93	96	0	942	40	18	13	28	1.88
30204040--30204158	28	4.2	28	89	0	166	34	25	9	31	1.87
30207180--30207218	11	3.5	11	89	0	60	23	5	23	48	1.70
30207208--30207271	9	7.2	9	81	10	69	25	7	23	43	1.80
30207181--30207227	22	2.2	21	85	7	60	23	6	21	48	1.72
30207223--30207271	17	2.8	17	90	3	71	28	6	20	44	1.75
30210073--30211512	70	20.6	70	83	1	1594	28	28	19	23	1.98
30211970--30212003	17	2.0	17	88	11	52	29	0	0	70	0.87
30215382--30215418	17	2.1	18	90	5	58	29	5	5	59	1.42
30220791--30220823	15	2.2	15	94	0	57	15	15	0	69	1.19
30222721--30222800	27	3.0	27	76	7	81	32	21	11	35	1.89
30225835--30225924	45	2.0	45	100	0	180	33	17	13	35	1.89
30226299--30226365	9	7.4	9	86	0	98	41	22	11	23	1.87
30229164--30229276	54	2.1	54	96	0	208	44	1	8	45	1.45
30229179--30229264	28	3.1	27	65	24	63	46	2	8	43	1.46
30229275--30229316	15	2.7	16	82	14	52	47	0	2	50	1.14
30229536--30229566	16	1.9	16	100	0	62	32	38	3	25	1.72
30229627--30229670	18	2.4	18	88	0	61	13	2	43	40	1.57
30232279--30232311	17	1.9	17	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30232273--30232308	17	2.2	16	90	5	54	41	2	0	55	1.14
30243849--30243903	22	2.5	22	88	2	76	45	20	27	7	1.77
30243896--30243953	25	2.3	24	85	8	80	32	22	25	18	1.97
30244925--30244956	13	2.5	13	94	0	55	56	0	3	40	1.15
30255391--30255440	26	2.0	26	84	7	68	26	0	4	70	1.05
30256263--30256315	3	17.7	3	96	0	97	64	0	1	33	1.05
30268344--30268401	23	2.5	22	80	2	62	31	10	15	43	1.80
30269326--30269358	2	16.5	2	100	0	66	51	0	0	48	1.00
30270776--30270831	28	2.0	28	100	0	112	28	17	10	42	1.83
30275930--30276168	72	3.3	72	91	1	374	23	6	14	55	1.62
30283738--30283816	41	1.9	41	89	5	124	31	17	27	22	1.97
30283745--30283835	41	2.2	41	86	2	119	30	18	27	23	1.98
30284024--30284146	38	3.2	38	76	11	110	34	7	17	41	1.77
30288144--30288597	239	1.9	242	86	3	648	50	11	3	34	1.57
30288144--30288610	120	3.9	120	87	2	618	50	11	3	34	1.56
30288630--30288706	16	4.5	16	70	24	50	51	12	0	35	1.40
30297626--30297701	31	2.5	31	88	0	116	42	17	13	27	1.86
30298103--30298203	40	2.5	40	95	0	184	33	25	17	22	1.96
30313548--30313789	28	8.6	28	87	1	270	23	21	14	40	1.90
30317726--30317759	18	1.9	17	88	5	50	58	0	5	35	1.22
30319687--30319779	44	2.1	45	86	6	127	32	5	29	33	1.80
30330876--30330962	27	3.2	27	85	3	104	24	21	32	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30331987--30332029	19	2.2	20	84	12	63	32	18	0	48	1.48
30341296--30341328	12	2.8	12	95	0	57	0	42	0	57	0.98
30341643--30341867	124	1.8	124	91	1	371	22	19	19	38	1.94
30343108--30343153	17	2.6	18	79	6	58	39	6	0	54	1.26
30345419--30345476	22	3.0	18	75	20	55	62	1	0	36	1.06
30349539--30349706	81	2.0	85	89	5	263	19	10	18	51	1.74
30352578--30352608	16	1.9	16	93	0	53	9	9	9	70	1.33
30353242--30353517	138	2.0	138	99	0	543	43	10	18	27	1.82
30369570--30369604	18	2.0	17	88	5	52	54	0	0	45	0.99
30369688--30369724	16	2.2	17	86	13	51	54	0	0	45	1.00
30369550--30369968	120	3.5	119	94	1	723	48	4	2	44	1.37
30369927--30369963	16	2.2	17	86	13	51	54	0	2	43	1.14
30369907--30369963	15	3.6	16	80	20	50	50	0	1	47	1.11
30369980--30370368	91	4.3	91	97	0	715	46	3	3	46	1.35
30375362--30375438	38	2.0	38	100	0	154	40	15	7	36	1.76
30378328--30378370	22	2.0	22	86	9	61	62	6	0	30	1.21
30378476--30378512	18	2.0	19	89	5	58	48	8	5	37	1.56
30379752--30379790	15	2.6	15	100	0	78	25	7	25	41	1.82
30379786--30380026	120	2.0	120	98	0	464	24	15	17	42	1.88
30388880--30389418	69	7.8	69	86	0	630	35	24	19	20	1.96
30388886--30389418	207	2.6	207	85	0	715	35	24	19	19	1.96
30392775--30392835	22	2.8	22	85	5	79	40	13	24	21	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30414342--30414432	29	3.2	29	68	14	71	38	14	23	24	1.91
30414320--30414441	57	2.1	57	89	3	183	34	14	22	27	1.94
30414999--30415124	63	2.0	63	98	0	243	31	13	23	30	1.93
30422546--30422687	50	2.8	51	80	4	164	20	30	21	26	1.98
30422969--30423279	155	2.0	155	93	1	534	35	19	7	37	1.80
30430215--30430448	100	2.3	100	84	2	292	22	27	20	29	1.99
30430176--30430457	50	5.7	50	81	1	262	22	26	20	30	1.98
30433203--30433593	202	1.9	202	88	0	584	33	16	17	32	1.92
30442176--30442213	20	1.9	20	88	0	58	57	2	5	34	1.35
30458057--30458103	2	23.5	2	100	0	94	48	0	51	0	1.00
30458518--30458547	15	1.9	15	93	6	51	23	0	13	63	1.29
30459820--30459948	40	3.3	39	78	6	138	29	22	22	25	1.99
30459982--30460213	40	5.7	40	73	11	195	28	22	21	27	1.99
30460595--30460653	29	2.0	29	83	6	75	23	0	47	28	1.52
30461360--30461398	20	2.0	20	94	0	69	17	25	0	56	1.41
30463882--30464150	9	28.6	9	72	14	134	46	16	1	35	1.58
30464007--30464150	47	3.1	47	87	6	195	45	16	0	37	1.48
30464034--30464150	56	2.1	56	91	3	191	46	17	0	35	1.49
30469818--30470085	43	6.1	43	73	11	213	26	17	24	32	1.97
30469828--30470003	92	1.9	92	82	6	223	27	16	25	31	1.96
30471482--30471725	92	2.6	92	84	3	287	27	20	22	30	1.98
30471482--30471729	46	5.4	46	77	7	202	27	20	21	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30471483--30471749	138	1.9	138	80	3	304	29	19	20	30	1.97
30489760--30489805	24	1.9	24	90	0	74	15	28	10	45	1.79
30489777--30489881	41	2.6	39	88	8	149	20	23	8	46	1.78
30498595--30498620	13	2.0	13	100	0	52	30	7	7	53	1.57
30507594--30507618	2	12.5	2	100	0	50	0	0	48	52	1.00
30513045--30513096	21	2.5	21	83	0	68	59	13	13	13	1.61
30525534--30525599	10	5.8	11	76	16	55	37	1	1	59	1.16
30525532--30525597	22	2.9	21	80	10	60	39	1	1	57	1.17
30525534--30525584	13	4.2	12	80	16	61	37	1	0	60	1.08
30533180--30533316	61	2.3	58	88	7	195	52	2	0	44	1.18

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