genome.fa.s17.2.7.7.80.10.50.1000.123.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  123  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)
38461970--38462025	25	2.2	25	87	12	80	32	23	19	25	1.98
38463376--38464440	534	2.0	534	90	1	1697	36	16	15	31	1.91
38482016--38482044	8	3.6	8	100	0	58	0	13	0	86	0.58
38494151--38494237	43	2.0	44	86	2	122	31	25	16	27	1.96
38496423--38496686	40	6.6	40	90	2	361	26	28	20	24	1.99
38504364--38504624	40	6.6	40	86	5	334	24	27	21	25	1.99
38504329--38504624	40	7.5	39	82	7	314	24	28	21	26	1.99
38504364--38504624	78	3.3	79	86	6	334	24	27	21	25	1.99
38510197--38510422	40	5.7	40	90	4	298	26	26	21	25	2.00
38515830--38515876	21	2.2	21	92	0	76	36	23	8	31	1.85
38515837--38515878	21	2.0	21	100	0	84	33	23	4	38	1.76
38516912--38516985	34	2.2	34	90	4	114	33	27	10	28	1.90
38517040--38517104	27	2.4	27	92	0	103	21	26	13	38	1.91
38517201--38517317	31	3.8	31	91	0	180	26	26	18	28	1.98
38517310--38517422	33	3.4	32	85	7	138	27	23	12	37	1.90
38543398--38543435	18	2.1	19	90	5	60	21	21	5	52	1.66
38548728--38548811	43	2.0	43	87	0	123	29	14	20	35	1.92
38563581--38563807	41	5.5	41	93	0	382	23	26	20	29	1.99
38563581--38563861	82	3.4	82	86	5	358	24	25	19	29	1.98
38563580--38563861	123	2.3	123	85	6	376	24	25	19	30	1.98
38569357--38569616	101	2.6	101	82	4	296	27	23	15	33	1.95
38572146--38572198	26	2.0	26	100	0	106	43	15	22	18	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38579219--38579273	27	2.0	27	85	0	74	47	0	5	47	1.25
38583577--38583607	16	1.9	16	100	0	62	16	6	32	45	1.72
38584367--38584407	19	2.2	19	86	4	57	29	12	2	56	1.49
38587613--38587643	2	15.5	2	100	0	62	0	48	0	51	1.00
38593517--38593591	27	2.6	30	77	16	77	60	1	0	38	1.06
38593509--38593578	27	2.5	26	76	15	70	55	1	0	42	1.08
38593511--38593590	28	2.9	27	72	10	72	57	1	0	41	1.07
38595745--38595774	15	2.0	15	93	0	51	70	0	0	30	0.88
38596896--38597135	101	2.4	101	94	0	408	32	15	24	28	1.95
38596963--38597123	33	4.8	32	73	8	124	31	15	24	28	1.96
38601623--38601657	18	1.9	18	88	11	54	42	0	2	54	1.15
38601954--38602022	26	2.6	26	86	2	84	18	10	28	42	1.83
38604328--38604387	28	2.1	28	87	0	84	16	1	23	58	1.47
38605225--38605271	23	2.1	22	84	4	58	21	12	2	63	1.39
38618479--38618795	44	7.2	44	65	11	128	30	19	23	25	1.98
38618165--38618820	132	5.0	132	89	0	1026	31	19	24	25	1.98
38618807--38618833	13	2.1	13	100	0	54	29	7	37	25	1.83
38624682--38624744	23	2.7	24	82	7	67	47	3	6	42	1.44
38637091--38637222	64	2.1	64	92	0	219	25	13	30	30	1.94
38642717--38642807	45	2.0	45	91	0	146	37	24	10	27	1.89
38652462--38652554	42	2.2	43	82	1	116	29	16	25	29	1.96
38659603--38659637	13	2.6	13	90	4	52	14	8	0	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38660377--38660419	21	2.1	20	86	4	59	23	0	6	69	1.12
38663153--38663183	3	10.3	3	100	0	62	35	0	0	64	0.94
38663515--38663543	14	2.1	14	100	0	58	51	13	13	20	1.75
38663955--38664004	22	2.3	22	86	10	68	38	2	0	60	1.09
38666339--38666386	21	2.3	20	80	16	53	81	8	8	2	0.96
38673827--38674066	120	2.0	120	100	0	480	42	12	8	36	1.73
38675317--38675363	17	2.8	17	80	3	60	55	0	4	40	1.19
38678339--38678363	12	2.1	12	100	0	50	44	0	8	48	1.32
38681975--38682023	24	2.0	24	100	0	98	46	4	24	24	1.69
38687270--38687313	11	3.9	11	82	5	52	63	2	0	34	1.07
38695428--38695481	28	1.9	28	96	0	99	22	22	24	31	1.98
38702485--38702522	6	6.2	6	90	6	58	15	15	2	65	1.38
38702490--38702529	18	2.2	19	86	4	55	12	17	2	67	1.33
38702497--38702696	63	3.3	62	82	8	220	26	19	6	47	1.73
38702575--38702696	56	2.1	58	87	3	176	29	18	4	46	1.70
38712755--38712798	19	2.2	20	96	4	81	36	4	9	50	1.55
38715620--38715660	19	2.2	19	87	12	59	58	2	0	39	1.11
38722394--38722786	69	5.7	69	81	3	418	36	25	17	21	1.94
38722426--38722779	137	2.6	138	84	3	428	36	27	16	19	1.94
38722805--38722963	58	2.7	57	76	9	169	31	18	10	39	1.84
38726782--38727151	102	3.6	104	90	3	577	19	19	30	31	1.96
38729593--38729634	22	1.9	22	90	0	66	16	26	16	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38743323--38743646	162	2.0	162	95	0	576	42	21	12	23	1.87
38746783--38746844	21	2.9	20	77	13	61	30	0	12	56	1.37
38747488--38747536	25	2.0	26	84	8	66	48	10	0	40	1.37
38747613--38747655	20	2.2	20	87	8	61	55	2	2	39	1.25
38747647--38747683	19	1.9	19	88	0	56	43	0	5	51	1.24
38756314--38756372	20	3.1	19	81	15	68	47	0	3	49	1.18
38769939--38770061	47	2.6	46	79	5	140	40	5	15	38	1.71
38769925--38770220	161	1.8	160	91	4	488	40	6	14	38	1.71
38770118--38770287	47	3.7	47	80	3	227	40	7	17	35	1.76
38770096--38770289	92	2.1	92	97	0	361	39	6	15	38	1.74
38770422--38770619	41	4.8	41	88	0	279	18	19	30	32	1.95
38771706--38771734	4	7.2	4	100	0	58	72	0	0	27	0.85
38775848--38775878	12	2.5	13	94	5	55	41	12	0	45	1.42
38784328--38784493	45	3.7	45	79	6	158	43	16	16	24	1.87
38785694--38785737	18	2.4	19	84	3	54	29	4	4	61	1.36
38797650--38797690	21	2.0	21	85	0	55	21	21	43	12	1.85
38802662--38802696	16	2.2	16	90	10	54	74	2	5	17	1.14
38813481--38813559	36	2.2	36	86	0	104	35	35	17	11	1.86
38814843--38814891	21	2.3	21	75	6	55	28	10	28	32	1.90
38818605--38818665	17	3.6	17	86	0	86	42	14	3	39	1.62
38819645--38819789	31	4.5	30	73	13	94	44	12	4	38	1.61
38822442--38822466	8	3.1	8	100	0	50	88	0	0	12	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38824985--38825185	68	2.9	69	71	7	185	31	26	16	24	1.97
38824970--38825267	136	2.2	136	80	5	334	33	26	16	23	1.95
38833110--38833217	51	2.1	52	81	8	123	37	3	14	43	1.64
38843392--38843421	13	2.3	13	100	0	60	30	10	20	40	1.85
38852812--38852868	9	6.8	9	82	15	61	8	7	35	49	1.61
38852865--38853241	125	3.0	124	93	0	619	29	16	22	31	1.96
38856455--38856776	22	14.6	21	72	15	181	27	0	24	46	1.59
38856758--38856905	74	2.0	74	88	8	223	26	0	24	49	1.51
38856456--38858208	23	78.4	22	73	13	1137	26	0	24	48	1.55
38857039--38857657	65	9.5	62	78	15	316	25	0	25	48	1.53
38857179--38858161	66	14.7	71	75	16	279	25	0	24	49	1.54
38856456--38858208	45	39.2	44	76	12	1305	26	0	24	48	1.55
38859366--38859398	7	4.7	7	100	0	66	57	15	0	27	1.38
38859568--38859605	20	1.9	20	84	10	51	55	7	2	34	1.43
38860593--38860658	11	5.9	11	76	16	57	42	1	30	25	1.64
38860593--38860661	22	3.0	23	76	18	72	42	1	31	24	1.64
38860611--38860657	11	4.2	11	86	2	58	42	2	31	23	1.66
38861288--38861390	50	2.1	50	94	0	179	33	2	5	58	1.37
38865692--38865718	3	9.0	3	100	0	54	66	0	0	33	0.92
38866295--38866326	15	2.1	16	94	5	57	53	0	15	31	1.43
38866581--38866647	22	3.0	22	82	6	73	40	17	5	35	1.75
38866594--38866655	22	2.8	22	90	2	88	37	19	8	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38868689--38868722	10	3.1	11	87	12	52	17	35	0	47	1.48
38868708--38868763	22	2.5	22	94	2	94	28	30	0	41	1.57
38869942--38869966	7	3.6	7	100	0	50	28	0	12	60	1.32
38870613--38870647	18	1.9	18	94	0	61	25	31	8	34	1.86
38871124--38871356	25	9.7	25	72	15	197	43	0	13	42	1.47
38871080--38871356	95	2.9	95	93	2	461	42	0	13	43	1.46
38871372--38871860	29	16.7	29	71	16	287	44	27	0	27	1.57
38871352--38871440	23	3.6	23	68	16	70	46	26	0	26	1.53
38871371--38871566	64	3.1	63	88	8	285	43	29	0	26	1.59
38871545--38871589	21	2.2	20	85	14	58	42	28	2	26	1.67

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