genome.fa.s17.2.7.7.80.10.50.1000.46.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  46  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)
12593977--12594021	21	2.4	17	85	14	54	40	0	22	37	1.54
12594245--12594342	23	4.3	23	90	2	162	20	21	26	31	1.98
12594247--12594335	45	2.0	45	95	0	160	19	22	26	31	1.97
12599459--12599497	18	2.2	17	86	13	53	33	0	20	46	1.51
12599502--12599647	74	2.0	74	97	2	276	37	7	21	33	1.81
12599796--12599894	23	4.3	23	90	2	164	20	21	27	31	1.98
12599798--12599886	45	2.0	45	95	0	160	19	22	26	31	1.97
12605012--12605155	73	2.0	75	94	5	260	37	7	22	32	1.82
12605306--12605391	45	1.9	45	95	0	154	18	22	27	31	1.97
12605304--12605400	23	4.3	23	89	3	153	20	20	26	31	1.97
12605304--12605400	45	2.2	46	86	5	153	20	20	26	31	1.97
12610492--12610530	18	2.2	17	86	13	53	33	0	20	46	1.51
12610535--12610680	74	2.0	74	97	2	276	37	8	21	32	1.83
12610829--12610919	23	4.0	23	87	5	139	18	21	26	32	1.97
12610830--12610919	46	2.0	45	93	2	153	18	22	26	32	1.97
12621128--12621906	217	3.6	217	89	0	1123	28	22	20	28	1.98
12621180--12621897	44	16.6	43	70	12	332	28	23	20	28	1.99
12639514--12639624	36	3.1	34	73	14	125	30	11	14	43	1.81
12639513--12639655	72	2.0	72	91	0	232	29	11	15	44	1.81
12639520--12639639	36	3.3	35	70	10	107	30	10	15	43	1.81
12647280--12647340	30	2.0	30	100	0	122	26	6	19	47	1.74
12647649--12647797	76	2.0	76	93	0	253	32	14	25	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12648729--12648782	25	2.1	26	82	3	65	42	3	9	44	1.54
12651289--12651499	72	3.0	70	81	12	250	28	25	12	32	1.93
12651434--12651552	51	2.4	51	85	4	161	29	24	13	32	1.93
12651515--12651799	50	5.7	50	79	3	331	27	19	20	32	1.97
12651488--12651804	100	3.2	100	91	1	503	26	20	19	33	1.97
12653049--12653104	18	3.1	18	79	7	69	1	19	0	78	0.84
12653051--12653091	21	1.9	22	90	5	66	0	21	0	78	0.76
12653047--12653094	21	2.3	20	83	13	62	0	22	0	77	0.78
12653048--12653109	7	8.7	7	76	13	56	3	17	0	79	0.87
12658279--12658420	71	2.0	71	90	0	221	35	17	17	28	1.93
12658875--12658928	25	2.1	26	82	3	65	42	3	9	44	1.54
12664349--12664389	14	2.9	14	85	0	55	26	2	19	51	1.59
12667663--12667844	39	4.7	39	80	1	168	42	22	4	30	1.73
12672580--12672653	26	2.9	26	83	2	78	36	20	6	36	1.79
12672741--12672814	36	2.1	36	100	0	148	37	18	2	40	1.65
12674043--12674097	19	2.9	19	91	2	85	69	20	5	5	1.29
12686659--12686708	20	2.5	20	86	0	82	38	18	30	14	1.89
12699098--12699173	11	6.8	11	70	24	52	55	2	1	40	1.22
12699098--12699173	37	2.1	36	85	11	102	55	2	1	40	1.22
12699586--12699625	19	2.1	19	86	9	55	32	2	7	57	1.40
12700606--12700683	40	2.0	39	84	2	102	39	15	24	20	1.91
12700715--12701039	41	7.9	41	83	4	325	20	20	28	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12700718--12701039	82	3.9	81	83	2	376	20	20	27	30	1.98
12700719--12701039	123	2.6	123	83	2	376	20	20	27	30	1.98
12701404--12701430	14	1.9	14	100	0	54	25	0	37	37	1.57
12701407--12701533	35	3.7	33	75	14	96	24	2	37	35	1.69
12701692--12701744	21	2.5	21	79	11	63	22	0	39	37	1.54
12701762--12701790	8	3.8	8	90	9	51	24	0	37	37	1.56
12702208--12702358	40	3.8	40	90	3	223	30	22	21	25	1.99
12702208--12702358	81	1.9	80	87	4	223	30	22	21	25	1.99
12704461--12704534	23	3.2	23	64	11	60	31	16	6	45	1.73
12705554--12705690	42	3.3	42	80	7	145	24	13	27	35	1.93
12707666--12707719	23	2.4	23	82	14	60	46	11	3	38	1.57
12713521--12713571	20	2.5	20	100	0	102	31	3	31	33	1.76
12716942--12717002	29	2.1	29	85	8	81	27	13	13	45	1.80
12725312--12725337	13	2.0	13	100	0	52	76	7	0	15	0.99
12729048--12729082	3	11.3	3	87	6	52	65	2	31	0	1.07
12729578--12729947	125	3.0	125	91	3	584	29	15	21	32	1.95
12734597--12734621	7	3.6	7	100	0	50	60	12	0	28	1.32
12734792--12734829	20	1.9	20	84	10	51	55	7	2	34	1.43
12735722--12735764	11	3.8	12	81	6	54	58	0	0	41	0.98
12735834--12735867	11	3.2	11	95	4	61	44	0	32	23	1.54
12741322--12741387	28	2.4	28	94	0	114	33	18	27	21	1.96
12751122--12751169	24	2.0	24	91	0	78	31	22	14	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12753343--12753394	9	5.8	9	95	0	86	23	9	28	38	1.86
12753456--12753513	27	2.1	27	83	3	71	44	8	17	29	1.78
12753552--12753576	12	2.1	12	100	0	50	16	24	36	24	1.94
12754617--12754693	13	5.9	13	76	0	64	31	7	23	37	1.83
12754617--12754688	26	2.8	25	75	8	72	26	8	25	40	1.83
12755162--12755256	15	6.5	15	81	13	126	37	0	9	52	1.34
12755167--12755247	29	2.8	29	100	0	162	38	0	9	51	1.35
12755182--12755232	14	3.6	14	80	15	68	37	0	11	50	1.39
12755162--12755256	44	2.2	44	85	11	124	37	0	9	52	1.34
12756537--12756605	35	2.0	35	85	5	95	43	11	8	36	1.72
12762519--12762549	9	3.6	9	91	8	55	35	9	22	32	1.87
12764366--12764400	18	1.9	18	88	0	52	57	5	0	37	1.23
12764394--12764434	13	3.2	13	78	0	55	46	0	0	53	1.00
12764700--12764736	19	1.9	19	94	0	65	43	21	0	35	1.53
12766831--12766934	49	2.1	49	90	0	163	31	9	9	49	1.68
12768415--12768449	18	2.0	17	88	5	52	45	0	0	54	0.99
12768415--12768468	15	3.4	16	80	19	53	46	0	0	53	1.00
12768535--12768569	18	2.0	17	88	5	52	45	0	0	54	0.99
12768535--12768588	15	3.4	16	80	19	53	46	0	0	53	1.00
12768654--12768688	18	2.0	17	88	5	52	45	0	0	54	0.99
12768654--12768707	15	3.4	16	80	19	53	46	0	0	53	1.00
12768317--12768769	239	1.9	241	96	0	838	43	1	4	50	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12768757--12768782	7	3.7	7	100	0	52	46	0	0	53	1.00
12768317--12768769	120	3.8	120	96	0	836	43	1	4	50	1.28
12770196--12770250	27	2.0	27	96	0	101	34	21	12	30	1.91
12772964--12773028	23	2.8	23	83	4	69	33	6	9	50	1.59
12778027--12778061	15	2.3	15	95	0	61	25	22	5	45	1.74
12779109--12779141	15	2.2	16	89	10	52	81	0	6	12	0.85
12779099--12779145	16	2.9	17	81	9	53	78	2	4	14	0.99
12779115--12779148	15	2.3	15	89	0	50	85	0	2	11	0.71
12780928--12781525	44	13.7	44	70	14	312	27	22	19	29	1.98
12780927--12781349	129	3.2	129	83	3	438	27	22	19	30	1.98
12781198--12781618	217	1.9	217	92	0	700	28	22	20	28	1.99
12780910--12781525	89	7.0	89	70	17	301	27	22	19	30	1.98
12793278--12793320	19	2.3	19	84	8	52	53	6	9	30	1.59
12801876--12802246	67	5.5	67	80	5	408	37	19	19	23	1.94
12801877--12802246	135	2.7	134	84	5	444	37	19	19	23	1.94
12804753--12805105	180	2.0	180	90	0	553	36	15	16	31	1.90
12810001--12810092	40	2.4	39	81	3	96	38	1	2	58	1.17
12811511--12811535	12	2.1	12	100	0	50	16	12	8	64	1.49
12823702--12823821	61	2.0	62	83	5	154	38	15	7	39	1.75
12830795--12830830	18	1.9	19	88	5	56	16	0	5	77	0.94
12831216--12831246	16	2.0	16	93	6	55	80	0	0	19	0.71
12831216--12831246	5	6.0	5	92	7	53	80	0	0	19	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12835425--12835450	13	2.0	13	100	0	52	53	0	0	46	1.00
12836486--12836537	21	2.5	21	100	0	104	36	9	9	44	1.70
12850924--12850966	22	2.0	22	85	0	59	65	2	2	30	1.18
12852229--12852262	6	5.7	6	100	0	68	14	0	50	35	1.44
12856877--12856921	13	3.4	13	85	14	65	17	13	15	53	1.73
12856881--12856932	6	8.3	6	76	23	54	17	15	15	51	1.76
12857646--12857685	15	2.5	17	84	15	59	62	0	0	37	0.95
12857646--12857686	16	2.7	14	88	11	55	60	0	0	39	0.96
12858733--12858776	19	2.3	18	88	7	61	75	4	9	11	1.19
12864672--12864720	18	2.7	18	75	6	55	38	4	40	16	1.67

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