genome.fa.s26.2.7.7.80.10.50.1000.43.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   

This is table  43  of  221  ( 26413 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)
12053696--12053791	44	2.2	44	92	1	156	39	11	22	26	1.88
12053809--12054057	50	5.0	50	87	1	338	27	20	30	21	1.98
12060858--12060889	9	3.6	9	91	0	55	31	3	21	43	1.68
12060933--12060959	13	2.1	13	100	0	54	37	11	0	51	1.37
12065644--12065886	50	4.8	50	84	0	297	20	30	21	26	1.98
12065644--12065886	100	2.4	100	88	0	351	20	30	21	26	1.98
12071784--12071838	27	2.0	27	89	0	83	18	12	45	23	1.83
12072035--12072067	13	2.8	12	86	13	50	27	15	18	39	1.90
12072667--12072814	56	2.8	51	86	8	192	24	21	31	22	1.99
12080543--12080652	41	2.7	42	85	5	154	31	20	25	22	1.98
12080626--12080678	26	2.0	26	92	0	88	18	20	33	26	1.96
12080652--12080766	43	2.7	42	81	13	137	20	16	26	37	1.93
12082919--12082970	14	3.2	18	70	30	53	26	3	0	69	1.06
12088936--12088999	27	2.4	27	91	0	101	32	17	15	34	1.91
12090722--12090781	20	3.0	20	82	0	75	33	8	15	43	1.76
12091414--12091453	21	1.9	21	85	10	55	27	22	15	35	1.94
12093927--12094116	94	2.0	94	97	0	362	41	21	7	29	1.81
12094493--12095040	272	2.0	271	95	0	979	32	16	14	37	1.89
12113596--12113731	39	3.5	38	75	5	119	39	18	19	22	1.92
12113787--12113843	30	1.9	30	96	0	105	24	24	19	31	1.98
12113811--12113999	41	4.6	41	88	5	265	21	23	22	32	1.98
12113811--12113999	84	2.3	82	88	3	272	21	23	22	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12114083--12114121	19	2.2	19	86	9	55	53	0	5	41	1.23
12114246--12114275	7	4.3	7	100	0	60	26	0	33	40	1.57
12114219--12114275	22	2.6	22	83	2	62	29	0	29	40	1.57
12114295--12114346	15	3.5	15	76	7	52	21	0	44	34	1.52
12114274--12114352	22	3.6	22	80	8	81	25	0	39	35	1.56
12120609--12120654	20	2.3	20	85	14	60	58	2	4	34	1.30
12120663--12120788	43	2.9	44	83	4	159	27	13	30	27	1.94
12120676--12120870	43	4.5	44	77	8	159	29	16	28	25	1.97
12120716--12120904	43	4.4	43	81	4	184	28	17	28	26	1.98
12121382--12121452	28	2.5	28	73	8	72	46	2	4	46	1.37
12122350--12122389	20	2.0	20	85	9	55	22	27	0	50	1.50
12132399--12132572	87	2.0	88	89	5	273	37	22	7	32	1.82
12132585--12132612	13	2.2	13	100	0	56	71	0	7	21	1.09
12132612--12132659	18	2.6	19	77	6	55	62	0	2	35	1.07
12132923--12132993	19	3.7	19	73	3	79	26	4	2	66	1.24
12132856--12132956	46	2.1	47	82	7	125	33	5	1	58	1.34
12132923--12132993	18	3.7	18	73	12	61	26	4	2	66	1.24
12133095--12133267	89	2.0	89	87	5	253	31	10	19	37	1.87
12133713--12133763	27	1.9	26	84	4	66	58	0	1	39	1.09
12133770--12133805	8	4.2	8	86	13	54	75	0	2	22	0.94
12133758--12133802	18	2.4	18	92	3	72	73	0	4	22	1.01
12134039--12134091	27	2.0	27	81	7	63	28	1	3	66	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12134070--12134127	30	1.9	31	86	6	84	31	3	1	63	1.21
12134136--12134352	89	2.4	89	87	4	312	33	9	22	35	1.86
12135576--12135609	17	1.9	17	88	5	50	0	17	0	82	0.67
12140335--12140447	44	2.5	45	85	1	147	25	21	14	38	1.91
12140335--12140495	45	3.6	45	80	8	152	24	21	13	39	1.90
12142704--12143005	142	2.1	144	80	6	335	44	14	11	29	1.79
12147026--12147195	46	3.7	46	86	1	216	28	24	20	27	1.99
12149097--12149148	25	2.1	25	96	0	95	36	0	44	19	1.51
12159195--12159261	9	7.4	9	81	6	82	25	8	23	41	1.83
12159193--12159261	18	3.8	18	90	0	111	27	8	23	40	1.84
12159315--12159351	9	4.1	9	92	0	65	45	13	10	29	1.77
12159530--12159589	30	2.0	31	86	3	86	20	40	0	40	1.52
12162611--12163675	533	2.0	533	100	0	2130	35	17	15	30	1.92
12170155--12170189	17	2.1	17	94	0	61	45	17	5	31	1.71
12170159--12170197	17	2.3	17	86	0	51	43	15	2	38	1.60
12171140--12171210	30	2.5	29	80	11	85	45	16	1	36	1.57
12171140--12171214	28	2.6	30	80	16	88	45	17	1	36	1.57
12175006--12175050	9	5.0	9	88	0	63	15	42	6	35	1.73
12177202--12177270	10	6.7	10	74	9	50	43	5	0	50	1.26
12177214--12177260	16	2.9	16	90	6	69	46	6	0	46	1.28
12184569--12184593	2	12.5	2	100	0	50	52	0	0	48	1.00
12185276--12185325	24	2.1	23	81	3	55	36	0	4	60	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12186617--12186646	15	1.9	16	93	6	53	13	0	13	73	1.10
12189606--12189647	3	14.0	3	100	0	84	33	33	0	33	1.58
12190842--12190892	25	2.0	25	81	7	59	45	1	1	50	1.24
12209242--12209342	26	3.9	26	84	6	125	35	14	7	41	1.76
12209242--12209340	52	1.9	51	91	2	162	34	15	8	42	1.76
12216440--12216490	24	2.1	24	96	0	93	29	27	13	29	1.94
12217729--12217777	25	2.0	25	100	0	98	28	24	6	40	1.79
12218572--12218615	9	4.9	9	94	0	79	31	0	22	45	1.53
12222418--12222504	44	2.0	43	93	2	147	32	17	13	36	1.89
12235983--12236012	15	2.0	15	93	0	51	20	36	0	43	1.52
12236724--12236804	25	3.3	25	77	14	96	34	22	22	20	1.97
12245586--12245649	2	32.0	2	100	0	128	50	0	50	0	1.00
12247231--12247526	42	7.0	42	86	5	384	33	21	21	23	1.97
12247231--12247526	85	3.5	85	86	5	386	33	21	21	23	1.97
12247944--12247983	12	3.3	12	92	0	53	2	37	17	42	1.63
12247968--12248036	21	3.3	21	87	0	93	2	42	20	34	1.67
12250063--12250141	39	2.0	39	87	2	113	36	5	41	16	1.70
12250096--12250146	23	2.2	24	82	10	61	37	3	39	19	1.70
12250680--12250732	22	2.5	22	96	3	99	37	26	3	32	1.74
12250693--12250769	15	5.3	14	72	7	55	40	29	1	28	1.65
12250696--12250770	29	2.6	30	83	6	84	38	30	1	29	1.66
12250742--12250789	21	2.3	21	85	7	62	43	35	0	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12251320--12251851	259	2.0	261	90	5	851	29	19	19	32	1.96
12251910--12252191	113	2.5	112	81	3	287	31	17	21	29	1.96
12264387--12264469	33	2.5	34	88	3	116	43	6	4	45	1.49
12274760--12274805	17	2.7	17	89	0	74	28	30	26	15	1.96
12274795--12274839	17	2.6	17	82	0	54	33	28	17	20	1.95
12281880--12282027	17	8.8	18	70	16	77	33	31	18	15	1.93
12285358--12285425	34	2.0	34	100	0	136	29	20	26	23	1.99
12289873--12289988	54	2.1	54	84	3	144	22	19	31	26	1.98
12296293--12296333	18	2.2	19	87	12	59	68	7	19	4	1.32
12296349--12296397	24	2.1	24	85	11	66	67	4	16	12	1.37
12313870--12314133	43	6.2	42	71	10	153	23	20	22	32	1.98
12313891--12314046	44	3.6	44	71	10	142	25	24	21	28	1.99
12313880--12314091	84	2.5	86	87	5	313	24	22	22	30	1.99
12336054--12336133	21	3.8	21	73	8	72	47	25	12	15	1.80
12336048--12336166	42	2.8	43	87	3	154	47	24	12	15	1.81
12341444--12341489	13	3.5	13	81	0	56	26	2	17	54	1.54
12347632--12348955	659	2.0	658	92	1	2235	34	14	15	35	1.88
12351900--12351939	20	2.0	20	95	0	71	37	20	0	42	1.52
12352173--12352363	42	4.5	42	72	7	127	38	17	18	25	1.92
12352221--12352363	43	3.4	42	72	7	128	37	16	18	26	1.92
12352214--12352375	85	1.9	85	84	5	220	38	17	19	25	1.93
12353808--12354092	85	3.4	85	87	0	401	22	15	25	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12353815--12354084	43	6.4	42	73	9	210	21	14	26	37	1.93
12364555--12364979	214	2.0	214	82	4	518	35	16	20	26	1.94
12370714--12370789	27	2.8	27	87	0	107	27	27	18	26	1.98
12374855--12374886	14	2.3	14	94	0	55	21	12	31	34	1.91
12393070--12393112	20	2.2	20	100	0	86	74	0	9	16	1.06
12397804--12397829	4	6.5	4	100	0	52	76	0	23	0	0.78
12399809--12399848	20	2.0	20	90	0	62	22	7	2	67	1.28
12410228--12410261	16	2.1	16	100	0	68	0	32	17	50	1.47
12411494--12411535	22	2.1	19	86	13	57	45	2	0	52	1.13
12412256--12412311	25	2.2	24	79	17	69	33	1	1	62	1.16

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