genome.fa.s17.2.7.7.80.10.50.1000.37.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  37  of  185  ( 22116 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)
10277455--10277527	27	2.7	27	76	8	76	52	2	0	45	1.15
10277633--10277674	17	2.5	17	85	14	52	54	0	0	45	0.99
10277640--10277674	18	2.0	17	88	5	52	54	0	0	45	0.99
10277416--10277686	143	1.9	147	93	4	478	46	3	2	46	1.34
10277840--10277886	17	2.9	16	78	18	53	46	2	6	44	1.40
10277859--10277892	17	2.0	17	94	0	59	50	0	5	44	1.26
10277925--10278118	92	2.1	91	88	5	284	46	4	4	44	1.41
10279521--10279547	11	2.5	11	100	0	54	51	18	7	22	1.70
10286593--10286650	21	2.7	21	86	2	80	60	0	3	36	1.14
10288074--10288317	50	4.7	50	86	3	308	22	29	22	25	1.99
10288073--10288322	100	2.4	105	86	5	339	22	29	22	25	1.99
10288658--10288715	30	1.9	30	85	0	80	29	22	5	43	1.75
10292952--10292995	17	2.7	17	89	6	65	36	2	18	43	1.63
10293209--10293378	41	4.1	41	91	0	268	29	18	28	24	1.98
10293216--10293378	82	2.0	82	97	0	308	29	19	27	23	1.98
10293573--10293682	37	3.3	34	79	14	106	28	10	27	33	1.90
10293593--10293682	37	2.5	37	85	7	116	28	10	25	35	1.88
10297087--10297113	12	2.2	12	100	0	54	7	51	7	33	1.58
10297356--10297596	119	2.0	119	96	0	446	32	22	13	31	1.92
10298798--10299091	50	5.7	50	87	2	354	22	29	22	25	1.99
10299432--10299489	30	1.9	30	89	0	89	29	24	5	41	1.76
10301919--10301975	7	8.0	7	83	9	53	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10301934--10301981	15	3.3	15	82	11	64	70	0	0	29	0.87
10301917--10301965	21	2.4	20	82	3	62	65	0	0	34	0.93
10302066--10302095	4	7.2	4	96	3	51	26	0	0	73	0.84
10307528--10307565	18	2.1	19	95	5	69	63	0	0	36	0.95
10307516--10307577	31	2.0	31	84	12	83	62	1	0	35	1.05
10307638--10307720	20	3.8	22	87	12	127	61	0	0	38	0.96
10307747--10307794	24	2.0	24	91	0	78	75	6	0	18	1.01
10307755--10307799	20	2.2	20	81	14	56	75	4	2	17	1.07
10309821--10309856	18	1.9	19	88	5	56	19	11	19	50	1.77
10312480--10312512	10	3.2	11	87	12	52	78	0	0	21	0.75
10313101--10313125	11	2.3	11	100	0	50	36	0	0	64	0.94
10313109--10313172	25	2.5	26	70	7	60	37	1	4	56	1.30
10318729--10318755	13	2.1	13	100	0	54	55	0	0	44	0.99
10325311--10325506	82	2.4	82	87	0	293	25	19	27	28	1.99
10325316--10325469	41	3.8	41	97	0	290	25	21	27	25	1.99
10328608--10328804	43	4.7	41	76	11	182	32	25	18	23	1.97
10328573--10328813	42	5.7	41	75	10	200	32	25	17	25	1.96
10328565--10328804	85	2.8	85	86	2	304	32	25	18	24	1.97
10330181--10330228	25	2.0	25	91	4	80	35	18	27	18	1.95
10333608--10333670	30	2.1	30	90	0	99	11	33	30	25	1.90
10335321--10335353	14	2.3	15	89	5	50	0	24	0	75	0.80
10343094--10343469	187	2.0	187	96	0	698	39	17	12	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10343687--10343757	24	2.9	25	75	8	65	32	22	23	21	1.98
10343765--10343824	27	2.2	28	83	13	74	36	18	25	20	1.94
10343908--10343978	24	2.9	24	77	4	70	36	21	26	15	1.93
10344284--10344323	21	1.9	21	84	0	53	40	22	0	37	1.54
10359758--10360278	261	2.0	261	95	0	927	32	18	15	34	1.92
10362380--10362500	61	2.0	61	85	3	163	40	4	13	42	1.63
10368705--10368738	17	2.0	18	88	11	54	50	0	8	41	1.34
10369099--10369182	36	2.3	36	87	6	116	27	26	20	26	1.99
10369237--10369290	22	2.4	22	84	3	72	31	24	11	33	1.90
10377858--10378040	87	2.1	87	81	4	208	37	13	25	22	1.91
10377855--10378102	29	8.5	29	75	7	146	37	12	26	22	1.91
10378054--10378115	29	2.1	30	84	3	81	37	16	24	22	1.94
10380064--10380133	9	7.8	9	93	0	104	38	27	10	24	1.87
10381569--10381607	20	2.0	20	100	0	78	25	30	5	38	1.78
10381682--10381955	68	4.0	68	77	10	238	27	23	11	37	1.89
10381893--10382021	68	1.9	68	81	0	159	31	23	9	36	1.86
10393958--10394006	9	5.4	9	87	0	71	38	24	10	26	1.87
10393958--10394006	18	2.7	18	93	0	80	38	24	10	26	1.87
10394127--10394170	18	2.4	18	88	0	61	13	2	43	40	1.57
10401985--10402033	23	2.1	23	85	7	64	44	2	8	44	1.45
10403419--10403452	16	2.2	15	89	5	50	50	5	5	38	1.51
10409506--10409553	23	2.1	23	88	0	69	50	8	2	39	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10412581--10412630	25	2.0	25	84	11	66	36	22	0	42	1.54
10413519--10413626	5	21.0	5	76	13	78	57	1	0	40	1.09
10423773--10423836	33	1.9	33	93	0	110	53	0	3	43	1.16
10424767--10424809	3	14.7	3	81	13	54	65	4	30	0	1.13
10425243--10425300	9	6.4	9	76	7	64	43	18	8	29	1.80
10425243--10425300	18	3.2	18	85	0	71	43	18	8	29	1.80
10425409--10425433	13	1.9	13	100	0	50	12	0	48	40	1.40
10427984--10428217	122	1.9	122	83	7	305	42	14	13	29	1.83
10442606--10442750	72	2.0	72	100	0	290	28	26	11	33	1.90
10466157--10466298	71	2.0	71	95	4	261	34	11	25	28	1.90
10475473--10475523	23	2.2	22	83	13	59	27	3	1	66	1.20
10497710--10497739	16	1.9	16	93	6	53	50	20	0	30	1.49
10498257--10498794	269	2.0	269	99	0	1058	35	23	7	32	1.84
10499084--10499207	25	5.0	25	72	14	87	32	14	23	29	1.94
10499088--10499231	49	2.9	49	84	7	168	33	15	22	28	1.95
10499131--10499231	25	4.1	25	83	6	109	33	16	22	26	1.96
10501009--10501040	16	2.0	16	100	0	64	62	6	12	18	1.50
10509774--10509823	16	3.2	16	85	2	66	48	4	20	28	1.67
10525743--10525890	41	3.6	41	80	5	147	22	20	28	28	1.99
10527203--10527247	9	5.1	9	82	15	58	44	0	2	53	1.13
10527590--10527621	17	2.0	17	88	11	50	62	15	21	0	1.32
10528347--10528429	40	2.1	41	82	8	100	33	4	20	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10528601--10528731	45	3.2	39	77	15	131	20	18	20	40	1.92
10528632--10528733	45	2.2	45	89	1	150	20	16	20	42	1.90
10528849--10528875	7	3.9	7	100	0	54	44	0	14	40	1.46
10535700--10535735	11	3.2	12	84	15	58	38	8	8	44	1.65
10536542--10536671	30	4.3	30	82	3	163	25	26	23	24	2.00
10536536--10536671	60	2.3	60	94	0	236	24	26	25	24	2.00
10543190--10543225	15	2.4	15	90	0	54	30	11	0	58	1.33
10544282--10544319	18	2.1	18	90	0	58	34	5	0	60	1.19
10551546--10551619	38	1.9	38	86	0	103	33	22	13	29	1.93
10563635--10563669	17	2.1	17	94	0	61	54	5	20	20	1.64
10579753--10579784	16	1.9	17	93	6	57	37	21	0	40	1.54
10579945--10580114	42	4.0	43	77	12	190	32	27	18	21	1.97
10579945--10580114	43	4.0	42	77	16	181	32	27	18	21	1.97
10581732--10581851	26	4.8	24	74	7	89	35	23	25	15	1.95
10583448--10583484	19	1.9	19	94	0	65	62	2	2	32	1.23
10584796--10584826	6	5.2	6	92	0	53	0	12	16	70	1.16
10589083--10589152	27	2.6	27	80	8	79	25	2	21	50	1.63
10589121--10589188	35	2.0	33	86	13	95	27	2	19	50	1.62
10590497--10590563	34	1.9	35	90	3	109	43	11	10	34	1.76
10590637--10590681	21	2.1	22	87	4	65	62	2	2	33	1.20
10604161--10604222	13	4.8	13	87	0	88	29	9	24	37	1.87
10604855--10604922	22	3.0	23	68	23	72	45	4	10	39	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10605889--10605913	12	2.1	12	100	0	50	64	20	8	8	1.46
10606835--10606888	19	2.9	17	78	21	56	51	18	27	1	1.56
10610017--10610108	23	4.0	22	79	8	103	22	25	17	34	1.96
10616929--10617010	23	3.6	23	94	0	137	19	28	20	31	1.97
10616929--10617033	23	4.4	23	89	6	86	21	27	21	28	1.99
10618259--10618363	45	2.4	44	80	6	115	46	8	18	26	1.77
10621377--10621409	17	1.9	17	88	11	50	27	6	0	66	1.15
10625166--10625255	15	6.0	15	86	0	126	26	25	33	14	1.94
10629246--10629326	29	2.9	28	85	5	101	24	28	25	20	1.99
10629273--10629328	29	1.9	29	100	0	112	17	28	30	23	1.97

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