genome.fa.s15.2.7.7.80.10.50.1000.167.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  167  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)
53459804--53459968	47	3.5	46	81	7	181	29	13	15	41	1.85
53474844--53474882	12	3.3	12	82	7	53	35	0	0	64	0.94
53474999--53475059	30	2.0	30	93	0	104	55	14	3	26	1.55
53480895--53480928	17	2.0	17	88	0	50	29	0	0	70	0.87
53483486--53483523	2	19.0	2	100	0	76	50	0	50	0	1.00
53485961--53486010	21	2.4	21	89	0	73	22	36	22	20	1.96
53500759--53500783	10	2.5	10	100	0	50	40	8	0	52	1.31
53501768--53501819	5	9.8	5	85	10	68	76	1	1	19	0.97
53505997--53506191	43	4.5	43	76	5	205	31	21	17	28	1.96
53512927--53512970	23	1.9	23	81	9	54	59	4	6	29	1.44
53521549--53521677	59	2.2	59	83	5	161	34	5	6	52	1.51
53529542--53530026	127	3.9	126	83	3	584	28	16	15	40	1.88
53529545--53530026	124	3.9	124	81	4	558	28	16	15	40	1.88
53535760--53535800	18	2.3	18	100	0	82	60	12	0	26	1.31
53536849--53536892	17	2.6	17	88	0	61	45	4	2	47	1.35
53548261--53548341	3	27.0	3	84	0	72	34	8	1	55	1.38
53557389--53557415	6	4.5	6	100	0	54	48	0	0	51	1.00
53557501--53557543	17	2.7	15	82	17	52	30	37	30	2	1.70
53560722--53560784	25	2.5	24	75	10	63	53	9	1	34	1.43
53565346--53565372	7	3.9	7	100	0	54	40	0	0	59	0.98
53568954--53568997	19	2.3	19	88	4	61	61	0	0	38	0.96
53568961--53569002	19	2.2	19	83	8	50	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53569257--53569294	20	2.0	20	84	5	51	42	2	2	52	1.29
53569654--53569695	8	5.1	8	88	2	57	7	30	0	61	1.22
53569654--53569695	16	2.6	16	96	3	75	7	30	0	61	1.22
53571757--53571784	14	2.0	14	100	0	56	42	7	14	35	1.73
53576842--53577058	108	2.0	108	93	1	373	37	29	15	17	1.91
53588233--53588262	11	2.7	11	100	0	60	66	0	0	33	0.92
53589760--53589790	6	5.0	6	96	4	53	19	0	0	80	0.71
53590200--53590525	132	2.5	132	85	5	428	24	22	20	31	1.98
53601624--53601661	17	2.2	17	100	0	76	39	13	5	42	1.66
53605722--53605942	115	2.0	107	85	5	280	36	11	8	43	1.71
53609079--53609140	31	2.0	31	100	0	124	32	9	16	41	1.80
53609655--53609727	33	2.3	32	83	6	94	69	19	10	0	1.17
53609676--53609723	21	2.2	22	82	10	55	66	25	8	0	1.19
53615274--53615335	31	2.0	31	100	0	124	32	9	16	41	1.80
53616996--53617035	21	1.9	21	94	0	71	40	15	27	17	1.89
53619644--53619697	27	2.0	27	100	0	108	22	14	29	33	1.94
53623541--53623577	17	2.1	18	95	5	67	70	0	0	29	0.88
53634290--53634527	55	4.3	56	86	2	286	34	15	15	34	1.89
53634290--53634560	55	4.9	55	82	8	183	34	16	14	34	1.89
53645532--53645623	23	3.9	24	80	9	100	23	22	20	32	1.98
53645772--53645821	20	2.5	20	80	6	57	36	6	22	36	1.79
53646406--53646505	51	2.0	51	88	4	148	47	2	26	25	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53646465--53646519	22	2.5	22	80	19	69	43	1	30	23	1.64
53646465--53646518	11	4.8	12	80	15	62	42	1	31	24	1.65
53647344--53647374	16	1.9	16	93	0	53	87	0	12	0	0.55
53647554--53647580	8	3.4	8	100	0	54	77	0	0	22	0.76
53647607--53647649	19	2.3	19	80	4	52	62	2	2	32	1.20
53647990--53648089	19	5.4	18	74	11	69	44	1	1	54	1.13
53659266--53659311	19	2.3	21	88	7	69	8	4	6	80	1.01
53661532--53661705	89	1.9	90	83	5	228	39	15	8	36	1.77
53661885--53661958	28	2.6	28	80	8	78	62	0	4	33	1.14
53661885--53661950	28	2.3	28	84	7	80	60	0	3	36	1.12
53661986--53662019	11	3.1	11	86	0	50	61	2	0	35	1.11
53661967--53662030	30	2.1	30	82	5	76	62	4	3	29	1.31
53662314--53662360	20	2.3	21	89	7	71	29	2	0	68	1.02
53664505--53664540	10	3.7	10	88	7	56	77	8	0	13	0.98
53664506--53664539	9	3.7	9	88	7	50	76	8	0	14	1.01
53668860--53668897	19	2.0	20	89	5	60	47	0	7	44	1.32
53672214--53672303	45	2.0	45	97	0	171	22	16	17	43	1.88
53676127--53676158	7	4.6	7	96	0	55	37	0	28	34	1.57
53695873--53695912	17	2.2	17	86	8	53	22	7	0	70	1.12
53696235--53696267	16	2.0	17	88	5	50	42	6	6	45	1.53
53707257--53707872	89	6.9	89	92	0	1009	30	17	25	27	1.97
53709732--53709764	16	2.0	17	88	5	50	42	6	6	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53716006--53716045	21	1.9	21	89	0	62	22	20	5	52	1.65
53723019--53723088	36	1.9	37	91	2	115	48	2	1	47	1.25
53725661--53725713	6	9.2	6	76	15	58	47	13	0	39	1.43
53725678--53725745	26	2.8	24	76	8	73	41	17	0	41	1.50
53725864--53725896	15	2.1	16	94	5	59	42	12	0	45	1.41
53727478--53727870	109	3.6	109	92	1	621	34	18	17	30	1.94
53728902--53729238	45	7.5	45	83	2	399	28	25	16	29	1.97
53728902--53729238	135	2.5	134	85	2	460	28	25	16	29	1.97
53735335--53735380	6	7.7	6	97	0	74	73	15	0	10	1.08
53735328--53735380	18	3.0	18	88	2	81	73	15	0	11	1.09
53735329--53735399	6	11.8	6	85	10	56	76	12	2	8	1.12
53735328--53735381	12	4.6	12	90	2	74	74	14	0	11	1.08
53737092--53737607	87	5.9	87	89	0	782	29	23	22	24	1.99
53739110--53739144	16	2.3	15	90	5	52	34	5	2	57	1.37
53741595--53741629	17	2.1	17	89	10	54	2	17	0	80	0.84
53745335--53745537	106	1.9	107	86	3	293	35	21	15	27	1.94
53746001--53746061	19	3.3	19	77	9	63	49	0	8	42	1.32
53746558--53746614	27	2.2	26	93	3	96	15	26	31	26	1.96
53746648--53746747	29	3.5	29	93	4	168	48	0	13	39	1.42
53747170--53747310	57	2.5	56	84	6	180	51	2	1	43	1.25
53747597--53747650	21	2.6	21	80	8	65	9	18	12	59	1.60
53758009--53758116	31	3.5	31	81	5	137	19	25	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53758192--53758305	59	1.9	58	82	7	140	35	19	21	24	1.96
53764879--53765116	102	2.3	100	79	8	257	31	19	15	32	1.93
53765078--53765350	102	2.7	98	79	11	264	31	19	17	31	1.95
53766304--53766573	101	2.7	99	87	5	382	32	16	20	30	1.95
53769028--53769065	17	2.3	17	86	4	51	52	5	0	42	1.24
53771494--53771608	40	3.0	40	73	12	123	26	19	17	37	1.93
53771461--53771632	76	2.3	76	83	7	224	23	22	19	34	1.96
53774823--53775027	28	7.4	27	85	4	230	33	11	25	28	1.91
53774819--53775020	56	3.6	56	86	0	260	34	11	24	29	1.90
53774819--53775025	84	2.5	84	84	1	263	34	11	25	28	1.90
53778159--53778199	18	2.3	18	100	0	82	9	9	34	46	1.70
53783974--53784019	18	2.5	18	78	21	51	45	0	0	54	0.99
53785692--53785734	21	2.0	21	90	0	68	32	11	11	44	1.77
53786671--53786701	16	1.9	16	93	0	53	9	9	9	70	1.33
53792684--53792845	57	2.8	57	98	0	306	43	7	17	30	1.77
53792828--53792865	13	3.0	13	96	3	69	68	0	15	15	1.22
53792828--53792865	6	6.2	6	93	6	67	68	0	15	15	1.22
53793088--53793147	30	2.0	30	96	0	111	25	13	10	51	1.71
53794338--53794390	23	2.2	24	86	6	81	45	16	11	26	1.82
53798698--53798955	80	3.3	78	85	4	331	37	3	17	41	1.68
53799316--53799542	31	7.2	30	75	15	167	28	7	20	43	1.79
53799314--53799543	33	7.2	33	76	15	216	28	7	20	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53799314--53799521	64	3.3	64	93	0	346	27	8	20	43	1.81
53799301--53799542	64	3.8	64	90	2	335	28	7	19	43	1.78
53803562--53803627	32	2.1	32	97	0	123	30	6	16	46	1.71
53804618--53804657	16	2.6	15	84	4	53	65	2	7	25	1.32
53804618--53804658	15	2.6	16	84	3	57	63	2	7	26	1.33
53811888--53812116	110	2.1	106	76	13	230	33	17	16	33	1.92
53823165--53823189	13	1.9	13	100	0	50	68	8	0	24	1.16
53823514--53823552	19	2.0	20	90	5	62	43	10	12	33	1.77
53823570--53823612	20	2.2	20	91	0	68	44	11	6	37	1.68
53824254--53824297	22	2.0	23	86	13	65	47	11	13	27	1.77

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