genome.fa.s17.2.7.7.80.10.50.1000.108.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  108  of  185  ( 22116 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)
34031672--34031754	25	3.3	25	79	3	78	6	25	16	51	1.67
34033295--34033329	18	1.9	18	88	0	52	51	5	5	37	1.50
34041900--34042064	85	2.0	85	85	3	226	50	7	7	34	1.58
34061813--34062036	40	5.7	40	88	5	280	25	21	26	26	2.00
34061814--34062068	40	6.5	39	84	6	202	27	21	25	25	1.99
34065234--34065390	76	2.1	76	82	2	190	33	26	21	19	1.97
34065858--34065906	24	2.0	24	96	0	89	46	28	8	16	1.75
34066692--34066724	16	2.0	17	88	5	50	30	18	3	48	1.63
34066690--34066733	22	1.9	22	86	9	61	34	15	2	47	1.58
34066903--34066980	25	3.2	25	83	7	97	28	21	23	26	1.99
34076849--34076875	10	2.7	10	100	0	54	77	7	0	14	0.97
34077970--34078050	36	2.3	33	81	8	81	61	2	24	11	1.41
34090828--34090860	15	2.2	15	100	0	66	39	6	42	12	1.67
34091858--34092309	47	9.6	47	94	0	769	32	8	29	28	1.87
34093729--34094285	40	14.0	40	93	0	875	20	22	30	26	1.98
34097084--34097629	47	11.6	47	94	0	921	33	8	29	29	1.86
34103644--34103694	21	2.4	22	74	6	52	64	1	3	29	1.22
34104488--34104641	28	5.5	28	91	0	227	31	12	24	31	1.92
34105368--34105767	47	8.6	47	77	3	387	28	13	17	40	1.88
34105366--34105781	93	4.5	93	89	2	604	28	13	17	40	1.88
34105400--34105792	23	16.7	24	70	8	202	28	13	17	40	1.88
34111122--34111189	29	2.3	29	80	5	75	29	32	11	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34111292--34111370	29	2.7	30	80	13	101	29	30	16	24	1.96
34119169--34119236	29	2.3	29	80	5	75	29	32	11	26	1.92
34119339--34119417	29	2.7	30	80	13	101	30	30	16	22	1.96
34141379--34141470	45	2.0	45	91	0	148	34	14	18	32	1.91
34141391--34141465	22	3.4	22	68	3	60	36	14	20	29	1.92
34156144--34156198	27	2.3	21	70	30	56	30	3	14	50	1.60
34157161--34157257	49	2.0	46	82	11	115	31	8	11	48	1.69
34158489--34158794	91	3.4	91	94	1	542	47	2	4	46	1.36
34158802--34158852	16	3.3	15	81	13	50	47	1	0	50	1.12
34158802--34158852	15	3.2	16	81	15	54	47	1	0	50	1.12
34158489--34158850	182	2.0	182	87	5	518	47	2	3	46	1.33
34158801--34159090	120	2.4	120	97	0	544	44	3	4	48	1.37
34158922--34158956	18	2.0	17	88	5	52	45	0	0	54	0.99
34158812--34159000	59	3.2	59	67	14	170	43	4	3	48	1.40
34158878--34159058	57	3.0	59	66	23	169	43	2	6	48	1.40
34158878--34159061	61	3.0	61	67	12	189	42	2	5	48	1.39
34159042--34159076	18	2.0	17	88	5	52	45	0	0	54	0.99
34167582--34167631	26	2.0	25	88	4	73	18	6	26	50	1.69
34169472--34169523	18	2.9	18	82	5	61	23	13	15	48	1.80
34175289--34175327	20	1.9	21	85	15	55	41	2	2	53	1.28
34175521--34175568	24	2.0	24	83	4	60	47	8	0	43	1.33
34176064--34176114	21	2.4	21	87	6	68	25	5	35	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34179430--34179480	26	2.0	26	88	0	75	39	5	17	37	1.74
34179662--34179694	16	2.0	17	88	5	50	45	0	6	48	1.27
34186246--34186272	13	2.1	13	100	0	54	22	7	37	33	1.82
34192401--34192478	29	2.7	28	84	11	104	25	15	30	28	1.96
34192431--34192757	173	1.9	174	92	0	557	30	14	24	31	1.94
34202303--34202350	22	2.2	22	81	7	53	37	16	6	39	1.74
34206715--34206767	17	3.4	17	70	24	62	54	13	0	32	1.39
34206717--34206775	29	2.0	29	100	0	118	55	10	0	33	1.33
34210098--34210132	17	1.9	19	88	11	56	80	0	0	20	0.72
34210098--34210139	17	2.3	19	84	12	52	78	0	4	16	0.91
34214773--34215144	46	8.6	46	81	13	423	29	22	14	34	1.93
34214908--34215062	36	4.0	36	79	15	184	29	20	13	36	1.91
34214862--34215108	82	3.0	82	93	0	413	29	21	13	35	1.92
34214908--34215144	128	1.9	123	87	8	349	29	21	12	36	1.91
34217780--34217856	38	2.0	38	92	0	127	28	38	2	29	1.70
34220511--34220565	10	5.6	10	75	12	51	60	1	3	34	1.25
34220501--34220597	29	3.4	28	77	13	92	57	1	7	34	1.33
34222004--34222028	7	3.6	7	100	0	50	16	0	0	84	0.63
34222154--34222178	3	8.3	3	100	0	50	32	0	0	68	0.90
34222602--34222691	47	1.9	47	95	0	162	21	38	2	37	1.66
34223529--34223755	118	1.9	118	97	0	427	30	8	17	44	1.78
34226611--34226650	19	2.0	19	85	9	53	65	5	0	30	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34226674--34226714	7	6.0	7	91	5	66	82	0	0	17	0.66
34226674--34226714	13	3.0	14	89	7	66	82	0	0	17	0.66
34230573--34231031	119	3.9	115	77	9	390	30	12	17	39	1.87
34238245--34238312	14	4.4	15	72	24	52	44	0	2	52	1.16
34238276--34238317	14	2.9	15	79	10	52	50	0	0	50	1.00
34238330--34238366	16	2.3	16	86	13	58	40	0	0	59	0.97
34238361--34238418	24	2.3	24	88	8	80	56	0	0	43	0.99
34238361--34238431	25	2.8	25	83	10	67	53	0	0	46	1.00
34239945--34240073	66	2.0	66	95	0	231	45	20	3	29	1.69
34241879--34241921	21	2.0	21	81	0	50	39	6	18	34	1.78
34244285--34244461	63	2.8	64	79	5	200	36	28	7	27	1.85
34272466--34272548	44	1.9	43	90	2	130	49	2	21	26	1.62
34277596--34277670	37	2.0	37	94	0	132	33	17	6	42	1.75
34285665--34285786	40	3.0	39	75	12	111	32	20	23	22	1.98
34286654--34286684	13	2.4	13	88	0	53	48	0	9	41	1.36
34286720--34286790	23	3.1	23	93	0	124	49	2	15	32	1.59
34287840--34287890	26	2.0	26	88	3	77	25	3	5	64	1.33
34288530--34288598	35	2.0	35	97	0	129	46	13	4	36	1.62
34294839--34294900	22	2.7	23	76	11	58	22	24	19	33	1.97
34295097--34295154	20	2.9	20	76	0	62	31	6	20	41	1.79
34301985--34302071	23	3.8	23	79	11	90	18	21	21	37	1.94
34302258--34302315	20	2.9	20	76	0	62	31	6	20	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34310242--34310312	34	2.1	34	100	0	142	28	8	22	40	1.83
34312425--34312481	25	2.3	24	85	8	78	38	21	21	19	1.93
34312457--34312580	64	1.9	64	85	3	169	34	22	21	20	1.97
34317713--34317763	17	3.1	17	88	5	70	66	0	0	33	0.92
34317716--34317763	10	4.4	10	80	17	51	66	0	0	33	0.92
34318382--34318422	18	2.3	18	87	8	57	60	31	4	2	1.30
34328838--34328872	17	2.1	17	89	5	54	68	0	0	31	0.90
34329145--34329183	13	3.2	13	82	10	55	51	0	0	48	1.00
34329270--34329326	16	3.5	15	84	15	69	49	0	0	50	1.00
34329268--34329332	19	3.6	18	74	17	62	47	0	0	52	1.00
34329989--34330025	10	3.7	10	85	0	56	70	0	0	29	0.88
34329986--34330032	20	2.3	20	81	0	58	61	0	4	34	1.15
34330247--34330281	16	2.2	16	89	0	52	37	0	2	60	1.12
34338352--34338410	22	2.7	22	82	10	75	44	0	30	25	1.55
34339564--34339600	9	4.1	9	85	0	56	32	10	13	43	1.79
34350083--34350133	19	2.5	20	84	12	61	29	13	21	35	1.92
34352222--34352314	27	3.4	26	85	4	114	43	9	22	24	1.83
34362723--34362757	18	1.9	18	94	0	61	8	11	8	71	1.31
34363726--34363857	19	6.8	19	91	3	219	37	10	15	36	1.82
34363726--34363864	59	2.4	57	89	6	219	38	10	15	36	1.81
34364608--34364657	25	2.0	26	88	4	75	32	8	4	56	1.47
34365326--34365520	98	2.0	98	92	2	329	28	10	24	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34370000--34370043	8	5.8	8	84	10	65	88	9	0	2	0.59
34370002--34370048	14	3.3	14	90	3	67	87	8	0	4	0.67
34370000--34370042	22	2.0	22	95	0	77	88	9	0	2	0.60
34371375--34371582	44	4.7	44	67	11	129	28	21	27	23	1.99
34371412--34371597	44	4.2	44	66	10	137	27	22	26	24	2.00
34371301--34371704	132	3.1	132	97	0	736	27	20	27	24	1.99
34371681--34372277	44	13.8	43	73	11	372	28	20	23	27	1.99
34371677--34372282	217	2.8	217	94	0	1059	28	20	23	27	1.99
34371806--34372129	173	1.9	172	81	7	397	27	20	23	28	1.99
34372448--34372541	19	4.8	19	92	5	161	37	11	15	35	1.85

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