genome.fa.s17.2.7.7.80.10.50.1000.113.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  113  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)
35291998--35292029	15	2.1	15	94	0	55	68	9	6	15	1.36
35292976--35293380	206	2.0	206	90	0	648	34	12	21	31	1.91
35303146--35303182	18	2.0	20	85	15	53	21	32	8	37	1.83
35310079--35310191	30	3.8	30	77	10	124	38	13	19	29	1.90
35310083--35310206	30	4.1	29	76	8	106	38	12	18	29	1.88
35310083--35310206	60	2.1	59	80	6	133	38	12	18	29	1.88
35310319--35310364	22	2.0	22	87	4	65	36	21	23	17	1.94
35312328--35312356	15	1.9	15	100	0	58	48	0	31	20	1.50
35326823--35326896	19	3.9	19	82	3	87	28	20	27	24	1.99
35328407--35328473	9	7.6	9	74	15	59	61	0	1	37	1.05
35328489--35328541	10	5.4	10	75	4	54	69	0	7	22	1.13
35328548--35328584	19	1.9	19	94	0	65	59	5	5	29	1.42
35328573--35328614	21	2.0	21	85	0	57	57	2	4	35	1.33
35329007--35329120	19	5.9	19	71	5	68	28	6	5	60	1.42
35337588--35337645	11	5.2	11	76	17	57	31	1	3	63	1.21
35338327--35338382	22	2.5	22	80	5	60	12	26	19	41	1.87
35341201--35341295	25	3.8	25	71	15	79	30	25	20	24	1.98
35347505--35347689	96	1.9	96	91	0	298	34	16	14	35	1.89
35360991--35361148	43	3.7	43	79	3	147	32	25	15	25	1.96
35362219--35362245	13	2.1	13	100	0	54	48	22	0	29	1.51
35363334--35363376	21	2.0	21	86	8	61	39	4	0	55	1.20
35366779--35366918	41	3.3	41	79	8	149	52	1	10	35	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35366793--35366917	41	3.0	42	84	5	155	51	1	9	37	1.45
35370542--35370578	19	2.0	19	89	5	58	62	13	2	21	1.44
35373556--35373713	43	3.7	43	76	12	130	28	27	19	24	1.99
35373597--35373713	42	2.7	43	79	10	125	27	28	19	24	1.99
35374793--35374819	13	2.1	13	100	0	54	48	22	0	29	1.51
35386602--35386660	27	2.2	27	81	0	64	25	28	11	33	1.91
35391461--35391536	26	3.0	26	90	1	118	32	22	9	35	1.86
35396048--35396121	29	2.6	28	79	10	78	25	22	20	31	1.98
35396294--35396403	53	2.1	54	86	5	152	28	23	11	36	1.90
35400265--35400596	164	2.1	159	92	6	553	17	19	4	58	1.56
35401296--35401346	15	3.5	15	69	15	52	49	3	13	33	1.61
35407747--35407797	26	2.0	26	92	0	84	17	25	33	23	1.96
35407773--35408002	43	5.5	41	76	7	201	23	17	24	34	1.96
35407857--35408002	42	3.5	41	77	13	163	21	17	26	33	1.96
35407773--35408009	85	2.8	84	85	3	287	23	18	24	33	1.97
35409877--35410697	153	5.4	154	88	4	1119	52	7	9	30	1.60
35423263--35423296	17	2.0	17	88	11	52	44	2	23	29	1.68
35428137--35428323	61	3.1	61	68	11	186	43	2	4	49	1.35
35428184--35428218	18	2.0	17	88	5	52	45	0	0	54	0.99
35428174--35428353	54	3.1	54	68	20	164	44	1	3	50	1.30
35428090--35428404	120	2.6	120	96	0	569	44	2	4	49	1.35
35428196--35428381	57	3.1	61	66	22	174	44	2	3	49	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35428328--35428440	26	4.2	26	63	23	63	44	1	3	50	1.29
35428567--35428672	44	2.5	41	77	18	126	35	30	3	30	1.75
35428584--35428672	44	2.0	46	91	4	146	37	30	4	28	1.77
35429109--35429141	16	2.1	16	100	0	66	24	33	6	36	1.80
35429613--35429643	3	10.3	3	100	0	62	35	0	0	64	0.94
35431159--35431233	15	5.5	13	73	17	55	60	1	2	36	1.20
35431180--35431231	14	3.8	14	78	9	54	65	0	0	34	0.93
35431198--35431236	21	1.9	21	89	5	62	74	0	0	25	0.82
35440196--35440224	6	4.8	6	100	0	58	34	13	0	51	1.42
35440529--35440581	21	2.5	21	93	0	88	37	7	26	28	1.83
35441109--35441165	11	5.2	11	81	10	64	19	31	1	47	1.60
35442861--35442944	30	2.8	29	77	12	89	40	42	8	8	1.65
35442994--35443036	18	2.4	18	92	0	68	16	27	9	46	1.77
35443292--35443335	21	2.1	21	86	0	61	27	40	22	9	1.84
35447054--35447091	19	2.0	19	94	0	67	50	15	2	31	1.58
35448325--35448372	19	2.6	19	83	3	62	22	22	22	31	1.99
35450020--35450056	13	2.8	13	83	0	56	62	8	13	16	1.54
35469118--35469210	46	2.0	46	85	0	123	35	12	15	36	1.85
35470331--35470541	45	4.7	45	86	4	219	22	21	14	42	1.88
35471019--35471060	22	1.9	22	85	9	59	59	2	4	33	1.31
35471852--35471972	13	9.3	13	75	3	91	42	0	16	40	1.54
35484878--35484907	15	2.0	15	93	0	51	40	16	23	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35491601--35491676	38	2.0	38	100	0	152	18	18	7	55	1.66
35502546--35502598	27	2.0	27	84	0	70	41	9	9	39	1.70
35510329--35510416	45	2.0	45	100	0	176	50	4	26	19	1.67
35522378--35522459	42	2.0	42	87	4	121	46	3	23	26	1.69
35524339--35524373	18	1.9	19	88	11	56	14	28	5	51	1.65
35527094--35527133	16	2.5	16	91	0	62	37	7	25	30	1.83
35527115--35527207	44	2.1	44	90	6	143	33	4	26	35	1.76
35527321--35527442	56	2.2	56	79	8	140	51	4	0	43	1.26
35527660--35527718	23	2.6	21	80	15	73	47	15	1	35	1.55
35533399--35533520	23	5.3	23	83	0	163	22	20	26	31	1.98
35533399--35533520	46	2.7	46	90	0	190	22	20	26	31	1.98
35533636--35533686	13	3.9	13	78	0	66	27	7	29	35	1.85
35533881--35533926	24	1.9	24	86	0	65	52	2	0	45	1.13
35535997--35536027	16	1.9	16	93	0	53	74	9	6	9	1.23
35542815--35542879	34	1.9	34	81	6	78	27	27	20	24	1.99
35545854--35546034	50	3.6	50	84	3	204	27	23	27	21	1.99
35552801--35553023	50	4.3	50	82	4	232	26	22	27	22	1.99
35563635--35563664	15	1.9	16	93	6	53	33	0	0	66	0.92
35563933--35563970	3	12.7	3	88	0	58	36	28	0	34	1.58
35580028--35580270	50	4.7	52	76	10	175	28	20	26	24	1.99
35580076--35580269	50	3.9	49	80	2	183	28	21	27	22	1.99
35598036--35598064	15	1.9	15	100	0	58	31	13	27	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35600882--35600978	49	2.0	49	89	0	149	43	9	17	29	1.80
35607435--35607483	10	4.5	11	74	20	50	63	0	4	32	1.13
35607701--35607733	12	2.6	13	85	9	50	57	0	0	42	0.98
35610012--35610063	14	3.9	14	75	14	65	40	0	1	57	1.10
35610949--35611005	30	1.9	30	88	0	87	36	5	12	45	1.64
35611743--35611784	22	1.9	22	85	9	59	76	7	14	2	1.10
35625574--35625621	22	2.2	22	88	0	69	47	14	16	20	1.82
35625624--35625815	32	6.0	32	80	3	163	37	20	20	21	1.94
35625613--35625793	64	2.8	64	80	0	193	38	19	19	22	1.94
35625818--35625871	26	2.1	26	85	0	72	35	27	24	12	1.92
35625991--35626085	24	4.0	24	83	0	91	47	20	7	25	1.75
35626025--35626097	24	3.0	24	89	0	101	43	20	6	28	1.77
35625999--35626095	48	2.0	48	80	7	108	46	20	6	26	1.74
35626115--35626217	26	3.9	26	72	20	79	27	22	16	33	1.95
35626114--35626300	27	7.0	27	76	4	157	24	20	19	36	1.95
35626114--35626310	81	2.5	80	81	5	236	24	20	18	36	1.95
35627354--35627440	41	2.1	41	89	0	129	59	2	22	14	1.47
35629214--35629264	24	2.1	24	92	7	86	21	27	0	50	1.48
35629205--35629264	24	2.8	20	73	26	68	21	30	0	48	1.51
35633073--35633112	21	2.0	20	90	9	64	67	10	12	10	1.42
35634262--35634342	32	2.5	33	87	2	119	24	7	54	13	1.65
35637465--35637498	3	11.3	3	93	0	59	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35648304--35648473	41	4.1	41	88	0	232	21	26	17	35	1.95
35649841--35649882	20	2.1	20	100	0	84	42	14	14	28	1.84
35662994--35663039	23	2.0	23	83	8	58	32	8	15	43	1.77
35668532--35668776	126	1.9	126	97	0	463	21	7	25	44	1.79
35675927--35676243	40	7.9	40	84	1	341	22	29	16	32	1.95
35676096--35676161	20	3.3	20	64	8	53	15	33	18	33	1.92
35679097--35679178	30	2.7	30	88	0	119	18	31	29	20	1.96
35683189--35683250	26	2.4	26	91	0	97	35	12	12	38	1.82
35683388--35683418	6	5.2	6	100	0	62	51	16	16	16	1.77
35707696--35708024	171	1.9	171	92	0	550	25	15	27	30	1.96

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