genome.fa.s19.2.7.7.80.10.50.1000.106.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   223   224   
          225   226   227   228   229   230   

This is table  106  of  230  ( 27491 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)
30364892--30364948	16	3.4	17	76	18	57	78	7	1	12	1.01
30367741--30368144	47	8.6	47	92	1	639	29	29	8	32	1.87
30371163--30371272	45	2.4	45	89	3	168	40	18	18	23	1.91
30380220--30380346	46	2.8	45	84	3	157	46	14	20	18	1.84
30386848--30386915	35	1.9	35	87	3	100	29	11	13	45	1.79
30387997--30388045	20	2.5	20	89	0	71	30	6	8	55	1.54
30388491--30388534	22	2.0	23	86	4	63	31	0	2	65	1.05
30388483--30388536	14	4.0	14	73	7	58	33	0	1	64	1.04
30402340--30402406	33	2.0	33	100	0	134	29	2	23	43	1.69
30402387--30402455	19	3.6	19	65	7	59	43	4	20	31	1.71
30410212--30410245	4	8.0	4	90	9	50	23	0	2	73	0.97
30410195--30410254	22	2.7	22	73	19	61	26	0	6	66	1.16
30413990--30414023	4	8.0	4	90	9	50	23	0	2	73	0.97
30413973--30414032	22	2.7	22	73	19	61	26	0	6	66	1.16
30416936--30417004	34	2.0	34	100	0	138	28	8	17	44	1.78
30428101--30428156	21	2.7	21	85	0	85	28	8	33	28	1.87
30445733--30445809	27	2.9	27	80	5	93	32	28	16	22	1.96
30445732--30445821	27	3.3	27	76	6	92	33	27	15	23	1.95
30445649--30445991	171	2.0	171	96	0	632	36	25	17	21	1.95
30445904--30446040	27	5.1	27	74	7	125	34	27	16	21	1.95
30450743--30450993	43	5.9	43	82	1	299	29	31	17	21	1.96
30453445--30453470	9	2.9	9	100	0	52	23	30	11	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30454443--30454476	14	2.4	14	95	0	59	29	47	0	23	1.52
30454468--30454508	21	2.0	20	85	4	55	39	41	0	19	1.52
30455574--30455887	41	7.7	41	87	1	396	30	27	21	20	1.98
30455946--30456060	40	2.9	40	78	6	126	27	20	20	32	1.97
30461856--30461886	16	1.9	16	100	0	62	12	9	6	70	1.31
30466091--30466193	43	2.4	43	73	1	100	28	20	20	31	1.97
30467361--30467385	13	1.9	13	100	0	50	40	24	4	32	1.73
30470070--30470100	16	2.0	16	93	6	55	74	6	12	6	1.21
30477957--30478354	199	2.0	198	92	1	654	29	12	25	32	1.92
30478605--30478682	41	1.9	41	91	0	129	30	12	6	50	1.66
30478697--30478765	36	1.9	35	88	2	102	39	1	20	39	1.61
30478927--30479080	75	2.0	76	87	1	220	21	19	25	33	1.97
30482618--30482661	20	2.2	20	92	8	72	31	11	11	45	1.76
30482633--30483060	216	2.0	216	92	1	707	34	18	14	33	1.91
30503712--30503785	24	3.2	24	64	21	68	37	4	4	54	1.39
30503708--30503798	44	2.1	44	95	0	164	37	5	3	53	1.40
30503724--30503796	24	3.2	24	64	33	61	35	6	4	53	1.47
30506279--30506312	17	2.0	17	100	0	68	23	23	17	35	1.95
30512682--30512755	24	3.0	24	67	18	62	36	21	18	22	1.95
30522692--30522744	28	1.9	28	88	3	81	26	26	26	20	1.99
30522703--30522779	28	2.8	28	87	0	109	25	25	25	22	2.00
30523150--30523793	27	24.0	27	78	8	543	19	20	18	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30524397--30524426	12	2.5	12	88	0	51	53	0	46	0	1.00
30526155--30526851	359	1.9	358	96	0	1277	38	22	10	27	1.88
30526608--30528111	523	2.9	522	86	3	2011	41	19	13	25	1.88
30534541--30534617	23	3.5	22	75	19	70	5	9	10	75	1.18
30538317--30538441	41	3.0	41	91	3	198	41	18	7	32	1.78
30552167--30552246	22	3.7	22	75	13	76	28	13	5	52	1.61
30556473--30556518	23	2.0	23	95	0	83	30	23	6	39	1.80
30558794--30559247	224	2.0	224	93	3	770	33	9	18	38	1.83
30559691--30559726	13	2.8	13	91	8	56	47	5	8	38	1.57
30560475--30560508	16	2.1	17	88	5	52	47	0	20	32	1.51
30560819--30560908	25	3.6	24	90	3	126	18	31	22	27	1.97
30560819--30560923	25	4.2	25	89	3	88	20	30	20	28	1.98
30581076--30581203	64	2.0	64	98	0	247	46	16	20	16	1.84
30586110--30586139	3	10.0	3	100	0	60	33	0	0	66	0.92
30589934--30590002	29	2.4	29	85	7	95	30	27	15	26	1.96
30592752--30592791	20	2.0	20	90	0	62	25	0	15	60	1.35
30604034--30604064	13	2.4	13	94	0	53	29	22	3	45	1.68
30609404--30609488	25	3.4	25	75	13	79	36	23	22	17	1.95
30609590--30609662	25	3.0	25	85	2	103	42	19	21	16	1.89
30611347--30611422	23	3.3	22	74	15	73	21	13	18	47	1.82
30613723--30613885	69	2.4	67	80	11	163	32	20	26	20	1.97
30613719--30613919	67	2.9	68	75	10	178	34	19	26	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30613896--30613948	27	2.0	27	82	14	65	39	16	24	18	1.91
30619093--30619134	20	2.1	20	86	8	59	64	11	21	2	1.38
30626908--30626952	15	2.9	16	86	6	65	44	0	22	33	1.53
30640021--30640059	19	2.0	21	90	10	64	33	0	0	66	0.92
30644195--30644235	15	2.7	15	100	0	82	21	7	46	24	1.77
30647452--30647494	22	2.0	22	85	0	59	39	16	9	34	1.80
30658610--30658700	46	2.0	46	100	0	182	39	13	16	30	1.87
30668166--30668224	31	1.9	31	100	0	118	28	27	3	40	1.72
30675170--30675288	20	5.9	20	89	0	157	37	21	33	7	1.81
30675292--30675356	21	3.1	21	90	0	103	35	33	12	18	1.88
30677662--30677697	18	2.0	18	94	0	63	36	13	22	27	1.92
30686141--30686306	86	1.9	86	97	0	314	30	16	15	37	1.90
30689186--30689248	20	3.2	20	79	2	74	12	15	25	46	1.82
30700748--30700874	59	2.2	58	84	1	155	23	29	10	36	1.88
30700747--30700874	29	4.4	29	73	11	100	23	29	10	36	1.88
30714363--30714390	13	2.2	13	100	0	56	35	0	17	46	1.49
30714660--30714718	29	2.0	30	83	3	75	32	5	15	47	1.67
30729552--30729594	19	2.2	20	80	12	54	32	16	0	51	1.45
30738727--30738782	15	3.6	16	76	7	62	30	21	5	42	1.75
30741459--30741514	27	2.0	28	86	3	78	39	23	8	28	1.85
30743076--30743112	16	2.2	17	90	9	58	54	0	2	43	1.14
30749512--30749545	13	2.6	13	86	13	52	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30751214--30751263	25	2.1	24	85	7	66	44	6	8	42	1.58
30751275--30751334	16	3.6	17	77	18	65	40	0	0	60	0.97
30751279--30751336	8	7.4	8	75	13	50	39	0	0	60	0.97
30751296--30751339	16	3.0	15	87	12	65	40	0	0	59	0.98
30751297--30751339	13	3.1	13	90	10	59	41	0	0	58	0.98
30751485--30751523	21	1.9	21	94	5	71	30	25	10	33	1.89
30758746--30759671	307	3.0	304	89	2	1415	48	16	12	21	1.79
30768945--30768974	16	1.9	15	93	6	51	20	13	6	60	1.55
30769726--30769755	16	1.9	15	93	6	51	60	6	13	20	1.55
30771560--30771589	16	1.9	15	93	6	51	20	13	6	60	1.55
30772079--30772108	16	1.9	15	93	6	51	60	6	13	20	1.55
30774008--30774063	27	2.1	27	93	0	94	12	25	21	41	1.88
30774012--30774071	27	2.2	27	87	0	84	11	26	18	43	1.84
30780297--30780330	15	2.2	16	89	5	52	52	0	0	47	1.00
30780458--30780505	19	2.5	20	82	6	71	54	0	8	37	1.31
30780496--30780538	16	2.5	17	81	7	52	53	4	6	34	1.49
30780351--30780565	103	2.0	106	90	3	337	53	4	7	34	1.49
30781124--30781215	19	4.8	19	86	0	139	38	13	8	40	1.75
30781124--30781215	38	2.4	38	98	0	175	38	13	8	40	1.75
30781495--30781601	43	2.4	43	76	6	108	28	25	16	28	1.97
30781609--30781953	44	7.8	44	65	7	153	28	22	18	29	1.98
30781538--30782434	132	6.8	132	90	2	1399	28	23	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30781538--30782434	398	2.3	395	91	2	1422	28	23	18	29	1.98
30786368--30786413	24	1.9	24	86	0	65	13	26	15	45	1.82
30788654--30788691	20	1.9	20	88	0	58	55	0	13	31	1.38
30788649--30788806	48	3.2	48	69	19	151	52	4	8	34	1.53
30788683--30788844	50	3.1	54	71	20	180	54	4	6	34	1.47
30788646--30788856	102	2.1	102	95	0	377	54	4	7	34	1.49
30788750--30788796	20	2.3	20	85	0	67	55	0	8	36	1.31
30788787--30788829	16	2.5	17	81	7	52	53	4	6	34	1.49
30789417--30789470	19	2.8	19	82	0	81	37	12	9	40	1.76
30790259--30790292	17	2.0	17	88	0	50	64	8	0	26	1.22

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   223   224   
          225   226   227   228   229   230