genome.fa.s17.2.7.7.80.10.50.1000.130.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  130  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)
39704129--39704165	16	2.3	17	81	13	51	59	0	2	37	1.12
39704307--39704368	29	2.1	30	85	14	85	27	12	6	53	1.63
39704318--39704375	30	2.0	29	83	10	73	27	15	6	50	1.70
39704845--39704885	17	2.4	17	87	4	55	39	2	0	58	1.11
39714759--39714797	20	1.9	21	89	5	62	43	2	7	46	1.46
39722975--39723040	32	2.1	32	100	0	132	50	12	15	22	1.77
39729188--39729262	27	2.7	29	81	8	75	38	1	1	58	1.15
39729309--39729369	24	2.4	25	83	5	70	31	1	1	65	1.12
39729376--39729459	34	2.6	31	75	15	82	45	0	1	53	1.08
39729386--39729458	16	4.5	16	73	17	53	39	0	1	58	1.06
39729415--39729457	16	2.8	16	82	10	54	37	0	2	60	1.10
39729415--39729458	15	2.9	15	80	12	54	36	0	2	61	1.09
39735130--39735177	20	2.5	19	80	12	53	39	6	6	47	1.54
39735448--39735535	29	3.0	30	73	9	108	40	4	18	36	1.71
39738555--39738586	15	2.1	15	94	0	55	12	9	12	65	1.47
39739941--39740191	68	3.7	68	81	0	286	35	18	19	27	1.95
39739938--39740183	136	1.8	136	84	1	341	36	18	18	26	1.94
39748241--39748425	68	2.7	68	83	1	228	33	17	20	28	1.96
39751491--39751604	42	2.7	43	72	11	119	32	26	15	25	1.96
39754221--39754266	19	2.4	19	89	7	67	43	4	10	41	1.59
39754869--39755483	305	2.0	304	99	0	1212	24	12	13	49	1.77
39758391--39758453	31	2.1	29	82	5	72	39	12	3	44	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39766443--39766503	29	2.1	30	84	3	79	27	6	16	49	1.70
39770990--39771018	2	14.5	2	100	0	58	51	0	0	48	1.00
39772472--39772505	17	1.9	17	88	5	50	32	26	0	41	1.56
39774358--39774392	18	1.9	18	94	0	61	22	28	5	42	1.76
39774949--39775006	26	2.1	27	87	9	82	50	34	0	15	1.45
39774969--39775987	21	47.2	21	83	6	1096	46	28	0	24	1.56
39774952--39775012	27	2.3	26	83	13	72	50	31	0	18	1.47
39775052--39775136	27	3.3	27	76	17	90	47	28	0	24	1.53
39775195--39775248	27	2.0	27	92	0	90	44	31	0	24	1.54
39775640--39775699	27	2.2	28	87	3	86	43	31	0	25	1.55
39775995--39776263	114	2.4	114	97	0	502	39	9	8	42	1.68
39779269--39779781	125	4.1	124	91	0	810	32	22	16	28	1.95
39779269--39779781	249	2.1	249	92	0	839	32	22	16	28	1.95
39779823--39779865	15	2.7	16	75	10	52	55	27	0	16	1.41
39780170--39780259	41	2.2	40	80	11	103	60	8	13	17	1.58
39780179--39780256	41	2.0	39	85	7	104	58	10	11	19	1.60
39784097--39784131	2	17.5	2	100	0	70	51	0	48	0	1.00
39799059--39799120	26	2.4	26	91	0	97	38	12	12	35	1.82
39813603--39813639	18	2.0	19	89	5	58	45	2	5	45	1.40
39828263--39828313	22	2.3	22	86	6	68	35	21	31	11	1.90
39831076--39831125	26	1.9	26	100	0	100	62	12	8	18	1.53
39835166--39835218	26	2.0	26	96	0	97	45	9	9	35	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39844752--39844982	69	3.3	67	70	12	176	30	26	22	20	1.98
39844717--39844983	144	1.9	144	89	1	419	30	26	22	20	1.98
39844721--39844983	35	7.4	35	69	11	108	30	26	22	20	1.98
39850096--39850121	12	2.2	12	100	0	52	23	7	15	53	1.67
39852833--39852899	33	2.1	31	89	8	100	28	5	13	52	1.64
39855399--39855429	14	2.2	14	94	0	53	38	9	6	45	1.63
39855841--39855907	24	2.8	25	75	11	68	25	11	19	43	1.85
39858198--39858232	18	1.9	18	94	0	61	42	5	40	11	1.65
39864240--39864288	24	2.0	25	84	4	64	55	4	18	22	1.60
39875737--39875767	10	3.1	10	95	0	53	45	0	9	45	1.36
39880046--39880109	29	2.3	27	78	10	67	51	6	0	42	1.27
39880401--39880862	244	1.9	249	85	8	656	41	8	16	33	1.79
39882676--39882706	16	1.9	16	100	0	62	32	12	19	35	1.90
39887838--39887868	16	1.9	16	100	0	62	38	22	12	25	1.90
39890023--39890253	90	2.7	82	82	12	293	46	9	5	38	1.59
39890067--39890257	90	2.1	90	98	0	366	45	9	5	39	1.59
39895145--39895208	17	3.9	17	71	8	51	37	32	20	9	1.85
39896319--39896386	34	2.0	34	83	8	86	22	4	4	69	1.25
39896338--39896394	29	2.0	29	86	6	80	21	3	1	73	1.07
39897081--39897277	98	2.0	98	94	0	349	27	10	24	37	1.89
39908783--39908962	88	2.0	88	94	0	315	31	23	22	22	1.99
39908665--39908902	132	1.8	132	88	0	368	31	20	25	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39908795--39908940	44	3.3	42	66	16	107	32	20	26	21	1.98
39908665--39909096	213	2.0	216	92	4	719	30	21	24	23	1.99
39908871--39910692	132	13.9	132	92	0	2924	30	19	26	23	1.98
39912388--39912429	17	2.4	18	80	11	52	21	2	2	73	1.06
39912749--39912945	98	2.0	98	92	0	331	28	11	23	36	1.89
39914261--39914311	22	2.3	22	100	0	102	27	33	0	39	1.57
39914357--39914419	32	2.1	32	88	8	96	34	0	0	65	0.93
39914371--39914413	22	1.9	23	90	4	70	34	0	0	65	0.93
39915499--39915523	7	3.6	7	100	0	50	28	0	12	60	1.32
39916175--39916209	18	1.9	18	88	0	52	25	34	8	31	1.86
39916760--39917739	28	34.4	28	88	3	1352	49	23	0	27	1.51
39916760--39917739	57	17.2	56	88	3	1352	49	23	0	27	1.51
39916753--39917739	85	11.5	84	88	4	1293	49	23	0	27	1.51
39917739--39917792	25	2.2	25	100	0	108	25	7	7	59	1.51
39917887--39917911	10	2.5	10	100	0	50	44	8	0	48	1.32
39921020--39921358	127	2.7	126	96	1	619	32	21	15	30	1.94
39922304--39922336	9	3.7	9	95	0	57	9	3	0	87	0.63
39926823--39926858	13	2.8	13	91	0	54	44	38	0	16	1.48
39927006--39927058	9	5.8	9	74	12	54	22	9	26	41	1.84
39930906--39930973	23	2.9	23	70	18	59	48	8	4	38	1.54
39936291--39936317	9	3.0	9	100	0	54	22	0	0	77	0.76
39937709--39938142	23	18.5	23	72	10	272	40	18	14	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39937723--39938095	70	5.3	70	90	2	570	40	19	13	26	1.88
39937729--39938095	141	2.6	141	92	3	598	40	19	13	26	1.88
39937725--39938152	47	9.1	46	70	13	257	41	18	13	26	1.88
39942436--39942467	11	2.9	11	100	0	64	15	28	9	46	1.77
39945659--39945990	70	4.7	70	92	1	529	40	19	13	26	1.88
39945666--39946037	23	15.8	24	68	10	173	41	18	14	25	1.88
39945769--39946039	47	5.8	47	74	8	237	40	17	15	26	1.90
39945657--39945990	141	2.4	141	92	1	564	40	19	13	26	1.89
39950251--39950290	21	1.9	21	89	0	62	75	2	0	22	0.93
39950240--39950303	27	2.3	28	81	5	76	73	1	3	21	1.06
39954706--39954738	14	2.3	15	89	5	50	30	12	0	57	1.35
39958876--39959047	43	4.0	43	64	19	106	26	18	26	29	1.98
39963249--39963282	17	2.1	16	88	5	50	70	0	14	14	1.17
39964752--39964789	12	3.0	13	84	7	51	63	0	0	36	0.95
39964753--39964793	13	3.2	13	86	6	57	65	0	0	34	0.93
39971702--39971744	21	2.0	22	86	4	61	41	11	2	44	1.53
39973731--39973825	21	4.6	21	68	19	65	54	1	0	44	1.07
39981286--39981350	28	2.3	27	80	15	78	27	3	1	67	1.14
39981306--39981345	14	2.9	14	76	0	53	27	2	0	70	1.01
39981288--39981332	22	2.0	22	86	0	63	24	2	2	71	1.09
39983878--39984024	62	2.4	62	86	4	199	29	24	20	25	1.99
39983979--39984022	23	1.9	23	90	0	70	29	27	22	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39984114--39984269	42	3.7	41	86	1	186	37	19	11	31	1.87
39986331--39986621	126	2.3	126	91	2	469	31	19	20	27	1.97
39989922--39989969	23	2.1	23	84	0	60	41	35	4	18	1.70
39991072--39991096	3	8.3	3	100	0	50	32	0	0	68	0.90
39992659--39992706	21	2.3	21	78	7	53	6	18	41	33	1.76
39992887--39992929	18	2.4	18	88	0	59	44	9	27	18	1.80
39993542--39993629	7	12.6	7	100	0	176	56	14	0	28	1.39
39993625--39993657	7	4.7	7	100	0	66	57	15	0	27	1.38
39995185--39995280	33	3.1	33	63	25	91	47	5	3	43	1.41
39996392--39996416	2	12.5	2	100	0	50	48	0	52	0	1.00

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