genome.fa.s15.2.7.7.80.10.50.1000.123.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   

This is table  123  of  222  ( 26535 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)
39984215--39986286	882	2.4	874	85	3	2777	33	15	19	31	1.93
39995705--39995951	50	4.8	50	76	11	191	29	19	27	23	1.99
39998434--39998560	49	2.6	49	82	6	159	29	22	23	24	1.99
40005380--40005621	50	4.7	50	78	8	188	27	22	26	23	1.99
40023711--40023772	29	2.2	29	80	11	74	38	3	3	54	1.32
40026766--40026845	29	2.8	29	76	16	78	70	3	17	8	1.29
40034760--40035232	42	11.3	42	86	3	557	22	19	21	36	1.95
40034760--40035232	84	5.6	84	86	1	635	22	19	21	36	1.95
40034760--40035232	126	3.8	125	85	2	635	22	19	21	36	1.95
40035213--40035248	16	2.2	16	90	0	54	22	22	2	52	1.59
40035956--40036400	156	2.9	154	84	6	587	43	4	10	41	1.60
40035956--40036369	157	2.7	155	86	5	568	42	5	10	41	1.61
40037441--40037509	27	2.6	27	90	0	111	33	27	17	21	1.96
40037505--40037579	26	3.0	25	72	16	66	21	14	22	41	1.89
40037568--40037627	24	2.5	24	81	5	68	25	6	18	50	1.71
40037690--40037752	27	2.4	27	82	15	78	20	25	20	33	1.97
40037708--40037786	27	3.0	26	79	5	68	18	25	24	31	1.98
40037742--40037792	26	2.0	26	92	0	84	15	23	25	35	1.94
40037752--40037807	26	2.2	26	83	0	67	16	21	28	33	1.95
40037801--40038000	32	6.3	32	84	0	231	23	19	18	38	1.93
40037801--40037986	64	2.9	64	86	0	255	24	19	18	37	1.94
40038730--40038833	52	2.0	52	96	0	190	25	26	13	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40039014--40039047	16	2.1	16	100	0	68	44	11	0	44	1.40
40041493--40041588	45	2.1	45	90	7	151	37	12	12	37	1.81
40043028--40043059	10	3.2	10	100	0	64	50	0	9	40	1.35
40050158--40050206	18	2.7	18	96	0	89	61	0	2	36	1.08
40060199--40060226	14	2.0	14	100	0	56	21	14	7	57	1.61
40060994--40061466	232	2.0	232	89	2	729	26	14	28	30	1.95
40075465--40075499	12	2.9	12	100	0	70	25	34	17	22	1.96
40081523--40081579	19	3.2	19	70	27	61	26	12	15	45	1.82
40082889--40082930	20	2.1	20	86	0	57	47	21	23	7	1.75
40084559--40084797	23	10.4	23	75	2	185	48	23	17	10	1.78
40084559--40084797	91	2.6	92	79	2	248	48	23	17	10	1.78
40089921--40090206	51	5.6	50	82	5	342	29	15	26	29	1.96
40089921--40090198	102	2.7	102	91	1	434	29	15	26	29	1.96
40093497--40093627	50	2.6	52	79	6	151	37	12	14	35	1.85
40095280--40095309	11	2.7	11	94	0	51	46	0	3	50	1.18
40096759--40096873	57	2.0	57	98	0	221	35	6	18	39	1.78
40100352--40100654	40	7.6	40	90	2	396	24	20	28	27	1.99
40115438--40115740	40	7.6	40	90	2	396	24	20	28	27	1.99
40120963--40121246	85	3.4	85	92	0	464	34	24	15	25	1.95
40120963--40121284	169	1.9	169	85	1	448	35	24	15	24	1.94
40120963--40121284	85	3.8	85	86	3	418	35	24	15	24	1.94
40121261--40121310	26	1.9	26	87	0	73	26	34	22	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40121647--40121704	30	1.9	30	89	0	89	29	22	6	41	1.80
40140955--40141029	37	2.0	37	97	0	141	21	33	10	34	1.88
40140962--40141039	37	2.3	33	86	10	104	20	35	10	33	1.86
40141762--40141808	20	2.4	19	82	10	58	25	14	4	55	1.58
40142708--40142739	6	5.3	6	92	0	55	18	0	0	81	0.70
40145522--40146070	47	11.6	47	92	2	882	32	8	29	29	1.87
40145522--40146070	143	3.9	143	93	1	917	32	8	29	29	1.87
40148950--40148987	18	2.1	18	85	9	51	21	2	2	73	1.07
40149881--40150068	94	2.0	94	88	2	279	40	11	21	27	1.87
40153238--40153278	21	2.0	21	85	0	55	26	21	34	17	1.95
40154724--40154972	50	4.9	50	75	6	182	28	20	28	22	1.99
40159032--40159200	50	3.4	50	90	1	257	27	23	14	34	1.94
40159089--40159207	51	2.6	43	77	19	139	28	23	16	31	1.96
40171588--40171800	50	4.2	50	93	1	336	28	24	15	32	1.95
40171614--40171804	101	1.9	100	95	1	346	29	23	16	30	1.96
40171614--40171804	50	3.8	50	95	1	346	29	23	16	30	1.96
40178431--40178457	3	9.0	3	100	0	54	66	0	0	33	0.92
40180072--40180364	131	2.2	131	91	1	462	25	25	20	27	1.99
40180070--40180946	132	6.7	132	87	5	807	28	24	18	28	1.98
40180399--40180874	44	10.8	44	65	11	134	29	23	17	29	1.97
40180286--40180946	132	5.0	132	90	2	990	29	23	18	28	1.98
40180281--40180946	263	2.5	264	90	1	1007	28	24	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40180947--40181120	87	2.0	88	86	3	244	23	22	24	28	1.99
40183250--40183282	16	2.1	16	94	0	57	3	21	0	75	0.93
40183272--40183378	6	17.8	6	78	5	67	10	6	5	77	1.11
40183322--40183365	14	3.2	13	81	15	52	6	6	0	86	0.71
40184149--40184208	25	2.4	25	83	8	68	55	6	16	21	1.64
40194219--40194274	16	3.4	16	72	13	60	42	3	19	33	1.69
40194215--40194281	33	2.0	33	97	0	125	38	2	22	35	1.70
40205785--40205829	6	7.5	6	94	0	81	51	13	0	35	1.41
40205785--40205830	24	1.9	24	100	0	92	50	13	0	36	1.41
40211240--40211312	10	7.9	10	68	17	50	42	0	1	56	1.08
40211237--40211312	28	2.9	27	78	7	84	43	0	1	55	1.08
40211190--40211360	59	2.9	58	70	10	161	42	1	4	52	1.30
40211189--40211434	117	2.1	117	81	12	292	42	1	4	51	1.31
40211534--40211639	44	2.5	41	77	18	126	36	32	3	27	1.75
40211547--40211639	44	2.1	46	89	4	145	38	31	4	25	1.75
40211621--40211673	16	3.3	16	87	10	81	24	33	5	35	1.79
40212080--40212216	41	3.5	40	75	15	131	24	16	25	32	1.96
40218805--40218979	85	2.1	85	90	0	269	37	1	15	45	1.54
40224288--40224381	37	2.6	36	83	5	116	41	28	10	19	1.84
40225508--40225628	39	3.0	41	79	11	124	20	18	28	32	1.96
40225512--40225731	41	5.4	41	76	9	193	21	17	26	34	1.95
40226163--40226200	15	2.6	14	87	4	58	18	0	36	44	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40226192--40226258	22	3.1	22	82	2	73	16	1	41	40	1.57
40226213--40226283	36	2.0	36	88	0	106	19	1	39	39	1.61
40226211--40226276	29	2.3	30	76	7	82	18	0	43	37	1.50
40226418--40226452	15	2.4	15	95	4	63	20	0	37	42	1.52
40226418--40226539	7	17.0	7	70	11	77	22	0	37	40	1.54
40226477--40226538	29	2.1	30	79	8	74	24	0	35	40	1.55
40226032--40226626	255	2.3	257	91	2	953	30	2	22	44	1.67
40228177--40228274	48	2.0	48	100	0	196	33	19	14	32	1.92
40230789--40230917	43	3.1	43	75	13	126	30	13	24	31	1.93
40230810--40230930	38	3.1	38	81	6	125	28	14	25	32	1.94
40230814--40231065	43	6.2	42	75	12	172	27	17	25	28	1.97
40230879--40231019	76	1.9	76	87	3	212	26	19	25	28	1.98
40230852--40231068	119	1.8	119	82	4	276	27	18	25	28	1.98
40234014--40234198	50	3.7	50	86	2	239	25	23	29	21	1.99
40234020--40234198	99	1.8	98	83	1	241	26	22	30	21	1.99
40234015--40234237	49	4.5	49	83	4	148	27	22	27	21	1.99
40234447--40234485	12	3.2	12	85	0	51	51	5	23	20	1.67
40237891--40237938	23	2.0	26	84	12	66	31	29	10	29	1.90
40239734--40239774	20	2.0	20	100	0	82	29	0	9	60	1.28
40239741--40239782	20	2.3	18	84	12	50	35	0	11	52	1.38
40239809--40239849	21	2.0	21	85	0	55	34	0	2	63	1.08
40243207--40243395	80	2.4	78	80	8	222	45	9	17	26	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40250485--40250518	18	1.9	17	94	5	59	47	14	11	26	1.79
40254638--40254899	88	3.0	87	86	7	331	37	21	9	31	1.86
40255036--40255107	28	2.5	28	82	10	83	56	1	4	37	1.27
40255095--40255176	10	8.3	10	72	12	62	67	0	3	29	1.08
40255007--40255138	47	2.8	48	73	7	119	62	0	3	32	1.18
40255094--40255176	19	4.3	19	72	11	60	66	0	3	30	1.09
40255345--40255403	21	2.9	20	75	10	57	27	3	1	67	1.16
40255361--40255506	10	14.7	10	69	13	61	31	4	0	63	1.20
40255422--40255473	19	2.8	19	79	2	61	36	1	0	61	1.07
40255423--40255495	30	2.5	29	78	10	78	39	1	0	58	1.06

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   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222