genome.fa.s19.2.7.7.80.10.50.1000.178.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  178  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)
53290436--53290512	35	2.2	35	84	6	104	27	15	10	46	1.78
53290406--53290516	52	2.1	53	85	8	147	26	13	9	50	1.72
53290509--53290562	23	2.4	23	84	3	65	40	1	9	48	1.46
53290440--53290639	110	1.8	112	83	8	275	29	10	10	50	1.69
53290442--53290681	127	1.9	126	87	5	349	29	9	10	50	1.67
53290712--53290752	18	2.3	18	91	0	64	36	14	9	39	1.79
53302638--53303646	141	7.1	143	95	2	1739	30	17	18	33	1.94
53302638--53303646	71	14.1	71	95	3	1717	30	17	18	33	1.94
53303570--53303736	84	2.0	87	82	8	209	26	20	17	35	1.94
53303769--53303962	49	3.8	49	88	6	253	29	16	18	35	1.93
53303769--53303962	104	1.9	103	90	4	311	29	16	18	35	1.93
53304203--53304242	20	2.0	21	90	5	64	75	2	0	22	0.93
53304239--53304355	30	3.9	29	80	7	119	30	21	3	44	1.69
53304566--53304622	19	3.1	19	78	12	64	61	0	38	0	0.96
53304641--53304683	18	2.5	17	78	14	52	23	32	44	0	1.54
53304701--53304765	3	23.0	3	80	12	75	72	0	27	0	0.85
53304702--53304768	11	6.3	11	78	14	70	73	0	26	0	0.84
53304702--53304773	6	13.4	5	80	16	58	73	0	26	0	0.83
53304818--53304860	18	2.4	18	92	0	68	18	46	27	6	1.75
53336425--53336480	25	2.2	26	96	3	105	41	0	3	55	1.17
53340894--53340964	33	2.2	33	89	0	106	29	4	29	36	1.76
53343643--53343671	15	1.9	15	100	0	58	68	3	13	13	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53346445--53346497	18	2.8	19	77	11	65	62	1	0	35	1.06
53346445--53346525	37	2.3	35	80	8	83	61	1	0	37	1.04
53346482--53346531	17	2.9	17	80	13	57	62	0	0	38	0.96
53354859--53354900	22	1.9	22	85	0	57	35	7	0	57	1.26
53361585--53361724	43	3.3	43	82	5	158	30	25	15	28	1.96
53377931--53377958	14	2.0	14	100	0	56	57	0	7	35	1.26
53384265--53384783	27	19.2	27	83	3	616	44	19	18	18	1.88
53384986--53385058	26	2.8	26	82	0	92	17	26	21	34	1.96
53385130--53385186	28	2.0	28	89	0	87	26	26	24	22	2.00
53387414--53387578	43	3.9	43	77	7	158	30	25	15	28	1.96
53389667--53389710	7	6.3	7	92	7	72	61	0	0	38	0.96
53389654--53389706	22	2.4	21	78	15	54	60	0	0	39	0.97
53401036--53401103	16	4.2	16	94	0	118	27	0	33	38	1.57
53401339--53401373	18	2.0	18	88	5	54	54	0	0	45	0.99
53401325--53401505	54	3.1	55	70	19	152	50	2	2	44	1.31
53402125--53402154	13	2.3	13	94	0	51	56	13	6	23	1.60
53405215--53405259	20	2.2	20	88	7	65	35	0	2	62	1.08
53405215--53405265	20	2.4	20	83	9	57	39	0	1	58	1.09
53411871--53411923	21	2.5	21	93	0	88	30	37	9	22	1.86
53416142--53416166	2	12.5	2	100	0	50	48	0	0	52	1.00
53425842--53425893	26	2.0	26	100	0	104	34	15	23	26	1.94
53428199--53428880	45	15.7	45	71	16	291	29	20	23	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53428243--53429127	172	5.1	171	83	7	1024	29	19	22	28	1.98
53428587--53429009	216	1.9	218	90	2	674	29	19	22	28	1.98
53428850--53429127	128	2.2	128	92	3	452	29	18	19	32	1.96
53428289--53429097	44	18.8	44	69	13	172	29	19	22	28	1.98
53432294--53432463	60	2.8	60	94	1	297	38	9	22	29	1.85
53432354--53432450	32	3.2	32	60	16	78	37	10	21	30	1.87
53441091--53441120	15	1.9	15	93	6	51	0	13	6	80	0.91
53441135--53441160	3	8.7	3	100	0	52	65	0	0	34	0.93
53441290--53441335	14	3.3	14	93	0	83	56	2	0	41	1.11
53447238--53447311	21	3.5	22	85	10	100	35	27	22	14	1.94
53447237--53447324	21	4.0	23	82	10	96	34	25	22	18	1.96
53447238--53447324	44	2.0	41	82	6	102	34	25	22	17	1.96
53448313--53448338	3	8.7	3	100	0	52	65	0	0	34	0.93
53448468--53448513	14	3.3	14	93	0	83	56	2	0	41	1.11
53449049--53449093	23	2.0	23	95	0	81	42	20	8	28	1.82
53452104--53452442	50	6.8	50	83	2	387	26	22	29	22	1.99
53452056--53452442	100	3.8	99	82	5	409	27	20	28	23	1.99
53453923--53453966	23	1.9	23	90	0	70	43	22	4	29	1.73
53464921--53464994	24	3.0	24	82	5	87	35	22	24	17	1.95
53469807--53469833	10	2.7	10	100	0	54	92	0	7	0	0.38
53471904--53471954	20	2.5	20	84	12	61	27	7	3	60	1.42
53473068--53473113	6	7.5	6	87	2	65	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53476519--53476562	21	2.0	21	86	4	61	47	4	4	43	1.44
53479899--53479932	5	6.8	5	90	9	52	0	0	14	85	0.60
53479896--53479933	16	2.5	15	91	8	67	0	0	13	86	0.56
53479899--53479933	11	3.4	11	92	7	56	0	0	14	85	0.59
53484062--53484107	19	2.4	19	85	10	58	43	2	0	54	1.12
53484068--53484119	19	2.8	18	80	8	59	46	1	1	50	1.23
53485154--53485188	14	2.4	14	90	9	52	60	0	2	37	1.12
53485298--53485327	9	3.4	9	90	9	53	60	0	0	40	0.97
53485727--53485919	103	1.9	104	87	3	291	31	21	8	38	1.84
53485955--53486161	9	22.4	9	69	11	73	61	3	3	31	1.30
53486025--53486097	37	1.9	38	83	2	94	61	2	4	31	1.29
53486074--53486151	28	2.8	28	80	7	86	65	2	3	28	1.23
53486037--53486186	47	3.2	46	73	16	130	62	3	4	29	1.31
53486326--53486411	19	4.5	19	69	13	68	36	2	2	59	1.23
53486396--53486445	19	2.6	19	82	14	59	40	2	0	58	1.10
53487869--53487903	17	2.0	18	88	5	54	17	14	5	62	1.49
53488695--53488783	33	2.6	35	84	12	114	39	0	13	47	1.43
53488856--53489752	251	3.6	250	88	1	1300	37	17	17	28	1.92
53488856--53489749	125	7.1	126	87	2	1248	37	17	17	28	1.92
53490007--53491074	125	8.5	126	87	1	1407	36	16	17	28	1.92
53494105--53494183	20	3.6	21	73	15	61	48	7	1	43	1.39
53495608--53495641	18	2.0	16	88	11	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)
53504901--53504938	10	3.5	11	86	13	53	34	0	2	63	1.09
53510827--53510865	11	3.4	11	86	13	60	51	0	0	48	1.00
53510829--53510864	12	3.0	12	88	11	56	50	0	0	50	1.00
53510842--53510882	17	2.7	15	88	11	57	48	0	0	51	1.00
53510832--53510882	14	3.6	14	79	20	54	49	0	0	50	1.00
53510814--53510895	28	2.8	28	80	7	83	54	0	1	43	1.07
53511886--53511949	21	3.0	22	72	9	69	18	18	25	37	1.94
53517116--53517464	124	2.8	125	92	0	601	31	22	17	28	1.96
53517436--53517492	28	2.0	28	100	0	114	28	19	14	38	1.90
53517445--53517507	28	2.2	28	82	0	72	31	19	12	36	1.89
53519280--53519317	20	1.9	20	89	10	60	34	2	0	63	1.09
53519277--53519332	20	2.8	19	76	10	58	33	1	0	64	1.04
53519620--53519650	9	3.4	9	90	0	53	25	12	22	38	1.90
53519703--53519739	9	4.1	9	92	0	65	45	13	10	29	1.77
53519953--53520012	30	2.0	31	83	9	79	20	38	0	41	1.52
53520267--53520295	9	3.2	9	100	0	58	31	0	0	68	0.89
53520766--53520796	5	6.2	5	100	0	62	19	19	19	41	1.90
53520832--53520872	7	5.7	7	85	2	55	68	0	0	31	0.90
53527862--53527906	7	6.4	7	85	10	65	84	0	15	0	0.62
53527862--53527901	15	2.7	15	92	3	64	85	0	15	0	0.61
53527862--53527906	22	2.1	21	91	4	72	84	0	15	0	0.62
53528781--53528879	51	1.9	52	83	6	130	50	16	17	16	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53530259--53530531	44	6.2	44	84	2	307	29	16	23	30	1.96
53530277--53530530	88	2.9	88	90	2	384	30	14	24	31	1.94
53530259--53530531	132	2.1	132	84	2	352	29	16	23	30	1.96
53530260--53530546	88	3.3	87	85	4	364	29	15	24	30	1.96
53530320--53530602	132	2.1	132	79	8	292	32	14	22	29	1.94
53530460--53530885	220	1.9	220	81	5	504	29	19	23	27	1.98
53530848--53531058	88	2.4	88	83	1	235	28	24	23	23	2.00
53531174--53531260	45	2.0	45	83	2	113	25	24	28	21	1.99
53531690--53531721	9	3.6	9	100	0	64	34	37	9	18	1.83
53532228--53532266	16	2.5	15	84	12	51	0	17	0	82	0.68

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