genome.fa.s16.2.7.7.80.10.50.1000.141.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  141  of  175  ( 20966 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)
43480686--43480720	18	1.9	18	88	11	54	31	2	2	62	1.24
43480781--43480825	24	1.9	23	81	4	54	35	2	6	55	1.38
43481155--43481202	22	2.1	23	88	3	71	50	2	0	47	1.12
43487240--43487292	25	2.1	25	82	0	61	24	3	3	67	1.23
43494367--43494816	51	8.9	49	76	7	357	30	13	25	30	1.94
43494372--43494822	102	4.4	102	88	1	622	30	13	25	30	1.94
43494383--43494823	153	2.9	150	77	6	397	30	13	25	30	1.94
43497792--43497870	27	2.9	27	81	3	97	25	32	22	18	1.97
43497948--43497974	3	9.0	3	100	0	54	33	0	0	66	0.92
43502571--43502599	7	4.3	7	91	8	51	0	13	0	86	0.58
43502572--43502597	13	2.0	13	100	0	52	0	7	0	92	0.39
43509631--43509679	24	2.0	24	100	0	98	28	30	8	32	1.86
43509862--43509892	16	1.9	16	93	0	53	9	9	9	70	1.33
43510994--43511022	14	2.0	15	93	6	51	44	0	13	41	1.44
43511480--43511551	32	2.2	33	78	9	78	45	1	4	48	1.30
43514292--43514323	8	4.0	8	95	0	55	12	0	15	71	1.14
43516311--43516498	59	3.2	59	66	11	150	41	3	3	51	1.35
43516300--43516588	119	2.4	120	93	2	492	43	2	4	50	1.34
43516420--43516475	15	3.5	18	75	24	63	42	0	0	57	0.99
43516374--43516556	56	3.1	58	66	23	146	42	2	6	49	1.39
43516540--43516574	18	2.0	17	88	5	52	45	0	0	54	0.99
43516528--43516802	147	1.9	149	95	1	500	47	2	3	46	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43516687--43516721	18	2.0	17	88	5	52	45	0	0	54	0.99
43516883--43516977	45	2.1	45	86	1	129	33	25	5	35	1.78
43516958--43517025	16	4.2	16	90	0	100	38	33	0	27	1.57
43516958--43517025	32	2.1	32	94	0	118	38	33	0	27	1.57
43517397--43517463	29	2.3	27	80	14	64	49	17	1	31	1.56
43517958--43518244	42	6.8	42	77	3	263	24	24	25	26	2.00
43517964--43518244	126	2.2	126	82	2	332	24	24	24	26	2.00
43527283--43527356	20	3.7	20	81	0	94	40	21	28	9	1.84
43539814--43539859	22	2.1	22	100	0	92	36	15	17	30	1.91
43549122--43549207	26	3.4	26	82	6	88	17	29	23	30	1.97
43549139--43549210	26	2.8	26	87	6	112	15	29	25	30	1.96
43555502--43555623	41	2.9	41	82	7	147	28	15	25	30	1.96
43561560--43561607	22	2.2	22	100	0	96	16	8	20	54	1.68
43562323--43562407	26	3.4	25	73	11	75	18	25	21	34	1.96
43562334--43562401	26	2.7	26	81	4	86	16	27	23	32	1.96
43562323--43562483	24	6.6	24	72	12	89	17	26	22	34	1.96
43566264--43566324	30	2.0	31	90	3	97	39	0	4	55	1.21
43566291--43566398	29	3.7	29	75	10	94	36	3	4	55	1.38
43571620--43571688	11	5.9	13	79	17	57	23	28	1	46	1.61
43571624--43571680	11	5.0	11	86	4	69	22	29	1	45	1.63
43571624--43571688	22	2.9	23	81	9	80	24	27	1	46	1.62
43572842--43572881	7	5.7	7	100	0	80	27	0	15	57	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43576146--43576587	126	3.5	125	90	1	665	29	23	17	30	1.97
43582017--43582041	4	6.2	4	100	0	50	76	24	0	0	0.80
43583848--43583886	13	3.0	13	82	10	53	30	0	0	69	0.89
43584030--43584064	17	1.9	19	88	11	56	65	11	2	20	1.37
43592169--43592207	13	3.1	13	85	3	53	51	15	17	15	1.77
43597539--43597745	85	2.4	84	86	1	270	33	19	22	24	1.97
43597520--43597790	42	6.4	42	82	5	287	31	19	22	25	1.98
43597539--43597782	85	2.9	81	81	6	265	33	19	22	25	1.97
43597541--43597789	127	2.0	127	81	7	301	31	19	22	25	1.98
43598243--43598311	21	3.3	21	77	4	59	2	39	18	39	1.66
43603090--43603910	9	94.2	9	67	21	196	40	0	14	44	1.50
43603095--43603214	16	7.9	16	69	19	96	35	1	17	45	1.58
43603109--43603263	25	6.2	25	77	11	129	38	1	15	45	1.55
43603135--43603940	34	23.2	35	68	20	185	40	0	13	45	1.49
43603270--43603302	16	2.1	16	100	0	66	30	0	24	45	1.53
43603166--43603307	25	5.6	25	71	17	89	39	0	16	42	1.54
43603326--43603425	22	4.8	21	70	25	68	39	0	12	49	1.40
43603286--43603920	31	20.0	31	77	14	579	40	0	13	45	1.47
43603219--43603919	168	4.1	177	88	8	1071	41	0	13	44	1.47
43603494--43603593	22	4.8	21	70	25	68	39	0	12	49	1.40
43603761--43603809	16	3.1	16	100	0	98	30	0	24	44	1.54
43603761--43603809	25	2.0	25	78	21	52	30	0	24	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43603322--43603954	162	4.0	156	79	14	669	40	0	13	45	1.47
43604155--43604197	18	2.4	18	76	0	50	65	6	0	27	1.18
43604497--43604585	18	4.8	18	81	14	110	42	0	12	44	1.42
43604480--43604585	39	2.8	37	86	12	144	44	0	11	44	1.40
43604468--43604594	22	6.0	22	68	23	85	44	0	11	44	1.41
43604472--43604632	57	2.8	56	71	17	143	42	1	12	43	1.50
43607332--43607379	24	2.0	24	87	0	69	37	39	0	22	1.55
43607582--43607818	114	2.1	114	86	0	330	28	27	18	24	1.98
43607724--43607889	73	2.3	73	83	0	215	29	27	18	24	1.98
43607784--43608093	114	2.7	114	88	0	442	26	26	20	26	1.99
43607597--43608005	187	2.2	188	85	1	581	27	27	19	24	1.99
43611349--43611402	26	2.1	26	85	0	72	35	9	14	40	1.78
43615764--43615826	26	2.5	25	81	2	81	23	19	23	33	1.97
43616356--43616544	56	3.2	56	63	19	132	21	6	23	48	1.73
43616304--43616550	120	2.1	120	98	0	476	21	7	22	48	1.75
43617044--43617080	15	2.5	15	90	0	65	32	24	27	16	1.96
43618996--43619034	21	2.0	20	85	10	53	28	12	7	51	1.67
43619422--43619485	31	2.1	31	91	2	103	59	14	3	23	1.49
43621042--43621076	18	1.9	19	88	11	56	54	11	0	34	1.37
43621298--43621361	22	3.0	22	76	4	58	62	12	6	18	1.50
43621704--43621743	3	13.3	3	100	0	80	65	0	0	35	0.93
43622238--43622314	16	4.3	17	71	19	59	49	2	5	42	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43623011--43623051	16	2.7	14	82	17	55	19	2	24	53	1.57
43623597--43623696	22	4.5	21	70	18	78	53	4	2	41	1.31
43623565--43623737	67	2.9	57	78	18	192	53	4	2	39	1.35
43623598--43623743	67	2.1	67	94	2	256	53	4	2	40	1.32
43624185--43624221	19	1.9	19	89	10	58	37	0	2	59	1.12
43624186--43624226	5	8.4	5	81	13	50	36	0	2	60	1.10
43624185--43624225	9	4.3	9	84	9	55	39	0	2	58	1.11
43631776--43631802	14	1.9	14	100	0	54	48	14	7	29	1.71
43632392--43632437	24	1.9	24	86	0	65	34	8	43	13	1.74
43636308--43636503	50	3.9	50	80	0	221	27	22	29	20	1.99
43638697--43638755	29	2.0	31	83	6	77	40	0	38	20	1.53
43638891--43638931	21	2.0	21	85	9	57	39	0	39	21	1.54
43638969--43639005	9	4.1	9	92	0	65	29	10	13	45	1.77
43639059--43639089	9	3.4	9	90	0	53	41	19	12	25	1.87
43639266--43639311	4	11.2	4	90	4	74	52	21	0	26	1.47
43639382--43639428	18	2.6	19	77	12	55	59	12	4	23	1.51
43639331--43639416	18	4.4	18	67	25	59	53	13	4	27	1.60
43639384--43639472	43	2.0	43	87	10	128	59	13	1	25	1.41
43639403--43639486	25	3.6	24	73	16	79	58	16	0	25	1.38
43639333--43639486	60	2.5	60	78	7	134	55	14	2	27	1.53
43640185--43640244	21	2.8	21	75	12	59	13	5	30	51	1.62
43640252--43640303	22	2.4	22	80	6	61	11	7	46	34	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43640302--43640364	23	2.8	22	77	17	67	19	0	31	49	1.48
43640324--43640357	16	2.2	15	89	5	50	14	0	32	52	1.42
43640329--43640566	14	17.0	14	68	13	71	25	2	28	43	1.67
43640212--43640383	7	23.6	7	71	10	51	18	2	36	42	1.66
43640512--43640566	22	2.5	21	82	8	65	25	3	30	40	1.73
43640740--43641150	115	3.6	116	83	1	513	25	13	21	40	1.89
43641378--43641434	24	2.4	24	77	11	64	26	38	0	35	1.57
43641414--43641443	8	3.6	8	95	4	51	33	40	0	26	1.57
43644497--43644591	21	4.6	20	82	8	77	38	21	36	3	1.69
43644925--43645084	84	1.9	85	85	3	225	28	20	26	24	1.99

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