genome.fa.s17.2.7.7.80.10.50.1000.180.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  180  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)
54773319--54773502	59	3.1	59	65	21	148	41	2	7	49	1.42
54773499--54773540	15	2.7	16	82	14	52	45	0	2	52	1.13
54773490--54773531	15	2.9	15	82	10	52	47	0	0	52	1.00
54773640--54773674	18	2.0	17	88	5	52	45	0	0	54	0.99
54773474--54773944	157	3.0	157	97	0	867	47	4	3	44	1.39
54773810--54773854	16	2.8	17	78	21	53	51	0	2	46	1.13
54774064--54774102	16	2.4	16	86	0	51	28	33	2	35	1.71
54774077--54774133	16	3.6	16	95	0	87	33	36	0	29	1.58
54774717--54774755	7	5.7	7	87	3	53	46	35	0	17	1.49
54774724--54774775	14	3.8	14	71	5	52	46	32	0	21	1.52
54774725--54774783	27	2.1	28	84	3	75	47	35	0	16	1.47
54775169--54775287	64	1.9	63	87	1	175	31	10	34	22	1.89
54780166--54780457	50	5.8	50	88	2	444	26	22	30	20	1.98
54783038--54783069	4	8.0	4	100	0	64	50	25	0	25	1.50
54787822--54787866	22	2.0	24	91	8	76	53	0	22	24	1.46
54790598--54790644	11	4.2	11	88	2	67	19	34	4	42	1.70
54790622--54790721	51	2.0	51	84	4	130	26	25	4	45	1.71
54791765--54792184	126	3.4	125	86	3	544	31	22	15	30	1.95
54798819--54799293	157	3.0	152	74	15	523	50	7	10	31	1.64
54798807--54799288	159	3.0	157	73	11	523	51	7	10	30	1.65
54799271--54799313	21	2.0	21	90	0	68	53	2	4	39	1.34
54803621--54803669	25	1.9	26	83	4	64	57	12	0	30	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54803750--54803786	10	3.6	10	88	3	56	0	29	0	70	0.88
54805484--54805528	20	2.2	20	84	7	56	77	4	0	17	0.92
54807630--54807763	43	3.1	43	89	2	198	29	27	17	24	1.98
54811144--54811191	21	2.2	22	92	3	80	39	6	0	54	1.26
54811931--54811991	11	5.3	11	75	11	59	50	0	3	45	1.17
54811930--54812020	24	4.2	22	71	24	70	51	0	2	46	1.13
54811978--54812010	16	2.0	17	94	5	59	54	0	0	45	0.99
54812185--54812275	45	2.0	45	100	0	182	17	19	20	41	1.90
54820781--54820807	14	1.9	14	100	0	54	37	25	7	29	1.83
54824458--54824482	13	1.9	13	100	0	50	48	0	12	40	1.40
54826734--54826773	19	2.1	20	86	9	57	72	0	12	15	1.12
54826838--54826891	21	2.6	20	82	8	63	75	1	3	18	1.03
54830445--54830472	9	3.1	9	100	0	56	42	21	10	25	1.85
54835598--54835655	29	2.0	29	83	6	73	43	0	5	51	1.24
54837948--54837981	18	1.9	18	88	5	52	61	5	0	32	1.20
54841123--54841169	24	1.9	24	86	4	67	36	0	38	25	1.56
54841721--54841808	27	3.3	27	78	12	90	39	21	17	21	1.92
54842192--54842278	28	3.1	28	82	8	115	26	25	19	28	1.99
54844588--54844755	27	6.3	26	79	8	160	42	19	20	17	1.90
54844629--54844705	25	3.0	25	85	7	109	42	16	19	20	1.89
54844587--54844741	52	2.9	52	80	7	168	42	20	20	16	1.89
54853407--54853485	27	3.0	26	84	15	108	44	22	16	16	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54853945--54854020	34	2.2	34	90	0	125	19	18	22	39	1.92
54855969--54856023	24	2.3	23	84	9	65	36	3	1	58	1.26
54857005--54857049	22	2.0	23	83	12	58	66	4	11	17	1.38
54857555--54857599	23	2.0	21	84	16	56	73	8	0	17	1.08
54863370--54863439	15	4.7	14	72	18	52	42	8	2	45	1.49
54874088--54874119	16	2.0	16	93	0	55	34	0	6	59	1.23
54874089--54874123	18	1.9	18	94	0	61	34	0	5	60	1.21
54875536--54875560	12	2.1	12	100	0	50	68	0	16	16	1.22
54881412--54881655	46	5.6	45	83	10	303	34	14	22	28	1.94
54881448--54881520	36	2.0	36	94	0	128	36	13	20	28	1.91
54881412--54881655	82	2.8	85	83	11	311	34	14	22	28	1.94
54882307--54882369	20	3.0	20	80	8	72	31	1	9	57	1.40
54886568--54886640	38	1.9	38	94	0	128	45	5	9	39	1.60
54898922--54899103	89	2.0	89	95	0	328	41	21	19	17	1.91
54903480--54903906	212	2.0	213	96	1	788	31	9	15	43	1.80
54923164--54923282	64	1.9	63	87	1	175	31	11	33	22	1.90
54925424--54925465	22	1.9	22	85	9	59	76	0	9	14	1.02
54932550--54932840	142	2.1	138	89	5	442	38	7	17	36	1.79
54933231--54933262	3	10.7	3	100	0	64	31	0	0	68	0.90
54948349--54948374	13	2.0	13	100	0	52	61	0	0	38	0.96
54948484--54948527	20	2.2	20	84	8	54	61	4	0	34	1.16
54953128--54953171	24	2.0	23	86	13	65	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54954322--54954368	23	2.0	24	87	4	69	38	12	6	42	1.69
54954345--54954399	19	2.8	20	86	5	69	41	9	7	41	1.64
54956610--54956656	2	25.0	2	81	12	55	53	0	0	46	1.00
54956611--54956651	11	3.7	11	90	0	64	53	0	0	46	1.00
54956610--54956662	26	2.1	26	89	6	83	54	0	0	45	0.99
54956611--54956652	22	1.9	22	95	0	75	54	0	0	45	0.99
54956611--54956662	11	4.4	11	80	17	59	55	0	0	44	0.99
54964018--54964062	24	1.9	23	90	4	72	13	0	26	60	1.34
54966490--54966539	19	2.7	19	73	14	50	70	2	2	26	1.09
54966461--54966561	18	5.5	18	71	20	59	63	1	1	32	1.17
54966684--54966710	13	2.1	13	100	0	54	77	0	0	22	0.76
54966990--54967043	19	2.7	19	78	13	56	35	0	3	61	1.14
54967125--54967175	7	7.1	7	78	12	50	27	0	1	70	0.98
54967119--54967175	21	2.7	21	80	2	69	28	0	1	70	0.98
54967187--54967216	15	2.1	15	93	6	53	30	0	0	70	0.88
54967178--54967227	25	2.0	25	84	7	66	32	2	2	64	1.16
54980526--54980566	19	2.2	19	100	0	82	58	0	4	36	1.20
54981551--54981584	17	2.0	17	94	0	59	44	50	0	5	1.26
54986189--54986222	17	2.0	17	94	0	59	44	50	0	5	1.26
54988430--54988479	20	2.5	20	84	9	59	64	6	0	30	1.18
54988430--54988517	24	4.2	21	77	16	69	62	4	0	32	1.15
54988458--54988511	24	2.2	25	83	3	74	59	3	0	37	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54993718--54993772	20	2.8	20	74	0	56	41	3	1	52	1.29
55009518--55009603	31	2.9	30	75	5	75	39	9	12	38	1.76
55012223--55012257	18	1.9	18	94	0	61	48	5	8	37	1.58
55028749--55028775	12	2.2	12	100	0	54	29	0	0	70	0.88
55028969--55029018	22	2.3	22	82	6	57	62	4	16	18	1.48
55031782--55031832	8	6.4	8	80	8	50	56	0	1	41	1.10
55032863--55032920	29	2.0	29	86	3	82	39	13	3	43	1.61
55039203--55039252	24	2.1	24	100	0	100	18	32	4	46	1.67
55044676--55044701	13	2.0	13	100	0	52	30	15	0	53	1.42
55055277--55055317	21	2.0	21	90	0	64	29	21	29	19	1.98
55060321--55060382	27	2.3	27	91	0	97	11	37	27	24	1.89
55072845--55072894	24	2.1	24	96	0	91	46	26	14	14	1.81
55073697--55073758	28	2.2	28	91	0	97	22	0	24	53	1.46
55074136--55074179	17	2.5	17	88	3	61	47	9	6	36	1.62
55079085--55079124	2	20.0	2	100	0	80	0	50	0	50	1.00
55080452--55080538	3	29.0	3	100	0	174	0	33	0	66	0.92
55082512--55082551	16	2.4	17	83	4	55	57	0	2	40	1.12
55082544--55082572	6	4.8	6	100	0	58	82	0	0	17	0.66
55084900--55084959	31	1.9	31	96	0	111	30	11	13	45	1.79
55086572--55086652	31	2.6	32	82	5	87	55	11	7	25	1.61
55090543--55090981	223	2.0	223	86	1	621	33	17	13	35	1.89
55091432--55091870	223	2.0	223	86	1	612	33	18	13	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55124748--55124793	12	3.8	12	79	0	56	30	52	0	17	1.45
55124792--55124822	3	10.3	3	92	0	53	0	64	0	35	0.94
55124889--55124968	39	2.1	39	85	4	108	32	41	3	22	1.72
55134551--55134790	101	2.4	101	90	0	372	29	25	14	30	1.94
55136731--55136764	11	3.0	11	86	4	50	76	2	0	20	0.92
55139075--55139144	33	2.1	33	86	5	97	27	32	5	34	1.80
55139806--55139893	41	2.1	43	93	4	153	27	9	6	56	1.55
55156079--55156123	23	2.0	23	81	0	54	20	2	8	68	1.27
55161465--55161500	7	5.3	7	90	3	56	55	13	2	27	1.52
55166239--55166277	20	2.0	20	84	0	51	35	7	12	43	1.72

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