genome.fa.s17.2.7.7.80.10.50.1000.120.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  120  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)
37557268--37557645	125	3.0	125	92	0	630	29	16	23	30	1.96
37560861--37561482	23	28.5	22	77	12	552	26	0	26	47	1.52
37560822--37561482	45	15.2	41	75	12	207	26	0	25	47	1.55
37561247--37561280	7	5.0	7	89	3	52	17	0	41	41	1.50
37563540--37563588	23	2.1	24	84	3	64	61	0	4	34	1.15
37563634--37563710	11	6.9	11	75	19	79	45	1	28	24	1.61
37563634--37563709	33	2.3	35	80	13	88	44	1	28	25	1.62
37563904--37564003	42	2.4	42	91	0	164	13	35	33	19	1.90
37571320--37571507	50	3.6	50	79	4	178	27	22	27	23	1.99
37576206--37576351	59	2.4	59	80	5	150	23	19	15	41	1.90
37576249--37576362	59	1.9	60	87	5	169	22	20	16	40	1.91
37581107--37581141	17	2.1	17	94	0	61	42	0	2	54	1.15
37594712--37594762	21	2.4	22	83	6	68	41	3	33	21	1.72
37595216--37595251	17	2.1	17	94	0	63	22	11	8	58	1.59
37595216--37595262	17	2.8	17	83	3	51	21	10	12	55	1.67
37600613--37600671	5	11.4	5	85	7	82	42	0	23	33	1.55
37603128--37603174	25	1.9	24	82	4	58	38	0	34	27	1.57
37605747--37605805	26	2.3	26	90	0	91	35	10	15	38	1.81
37611063--37611112	25	2.0	25	100	0	100	16	32	8	44	1.76
37612639--37612683	23	1.9	24	86	4	65	20	2	51	26	1.59
37618399--37618442	5	8.8	5	89	0	61	38	0	20	40	1.53
37621111--37621283	88	2.0	88	94	0	301	42	7	6	43	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37622579--37622666	24	3.7	24	75	3	70	37	6	40	14	1.73
37624055--37624702	323	2.0	323	94	0	1145	27	21	25	26	1.99
37625992--37626021	16	1.9	15	93	6	51	63	20	3	13	1.43
37634344--37634376	14	2.2	16	89	10	52	6	9	6	78	1.08
37641887--37642242	87	4.1	87	91	0	532	29	22	23	24	1.99
37642034--37642170	43	3.2	43	67	13	118	29	24	21	24	1.99
37642232--37642654	131	3.2	130	88	2	623	30	20	24	24	1.99
37642812--37642895	44	1.9	44	82	0	105	27	19	25	28	1.98
37643275--37643336	26	2.6	22	85	10	70	40	37	6	16	1.74
37643603--37643635	14	2.2	16	89	10	52	6	9	6	78	1.08
37644401--37644442	21	2.0	22	86	13	61	23	11	0	64	1.27
37645875--37645931	25	2.3	25	75	6	62	57	1	10	29	1.42
37646475--37646519	23	2.0	22	91	4	72	35	17	8	37	1.81
37646475--37646551	19	3.8	19	87	6	100	37	16	9	36	1.81
37681230--37681301	27	2.7	27	82	8	85	30	1	19	48	1.57
37684381--37684408	5	5.6	5	100	0	56	60	0	0	39	0.97
37685363--37685493	33	4.0	33	83	3	156	19	12	30	37	1.89
37691514--37691667	63	2.4	65	81	8	206	31	9	15	43	1.78
37696375--37696426	26	2.0	26	88	0	77	19	25	28	26	1.98
37703827--37703963	42	3.5	42	75	17	166	22	17	26	33	1.96
37703791--37703966	75	2.4	75	95	0	309	22	18	26	32	1.97
37703866--37704066	102	2.0	102	92	2	332	21	18	27	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37703763--37704101	177	1.9	176	93	1	581	21	18	27	32	1.97
37708264--37708310	24	1.9	25	86	4	69	21	4	25	48	1.68
37708933--37709067	63	2.1	63	89	2	200	31	5	15	46	1.70
37711293--37711317	12	2.1	12	100	0	50	36	0	32	32	1.58
37712766--37712865	33	3.2	33	65	21	97	34	2	14	50	1.54
37712752--37712871	60	2.0	60	100	0	240	36	1	13	48	1.52
37714297--37714520	54	4.1	54	91	2	344	18	13	20	46	1.83
37714294--37714520	81	2.8	80	84	6	314	18	14	21	46	1.83
37714294--37714520	27	8.4	27	82	3	269	18	14	21	46	1.83
37729009--37729204	66	3.0	66	98	0	374	33	7	26	33	1.85
37729598--37729645	10	5.2	9	82	12	62	27	0	2	70	0.98
37729601--37729645	18	2.4	19	92	3	74	26	0	2	71	0.98
37730625--37730855	117	2.0	117	93	1	401	32	14	16	36	1.89
37742163--37742280	58	2.0	58	96	0	218	44	12	11	30	1.78
37742598--37742622	2	12.5	2	100	0	50	52	0	48	0	1.00
37747170--37747223	21	2.6	21	90	0	90	20	29	31	18	1.96
37748637--37748677	15	2.8	15	85	10	50	7	29	0	63	1.21
37755774--37755832	25	2.4	25	82	5	75	32	1	1	64	1.13
37761334--37761460	26	4.9	26	79	7	123	20	11	33	35	1.88
37761326--37761460	52	2.6	53	80	10	147	20	11	33	34	1.88
37762833--37762862	12	2.5	12	94	0	51	0	30	33	36	1.58
37765713--37765749	11	3.5	11	92	3	58	37	0	5	56	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37775735--37775766	14	2.3	14	100	0	64	18	28	18	34	1.95
37784576--37784629	24	2.2	24	87	6	74	20	25	22	31	1.98
37784550--37784694	25	5.9	24	70	11	73	19	25	20	34	1.96
37786404--37786432	14	2.1	14	100	0	58	20	31	6	41	1.79
37803133--37803166	9	3.8	9	92	0	59	58	2	0	38	1.13
37813738--37813764	13	2.1	13	100	0	54	77	7	0	14	0.97
37829436--37829523	45	2.0	45	93	0	149	32	23	19	23	1.97
37829535--37829720	51	3.7	50	79	6	223	31	27	17	23	1.97
37829533--37829716	100	1.8	101	91	2	307	31	27	17	23	1.97
37831019--37831148	61	2.1	61	91	0	206	43	3	3	50	1.33
37831041--37831145	31	3.4	30	72	12	97	41	3	1	52	1.30
37834657--37834697	21	2.0	21	85	9	57	46	2	0	51	1.14
37835427--37835460	15	2.3	15	90	10	52	76	2	0	20	0.92
37836905--37836931	14	1.9	14	100	0	54	29	0	3	66	1.09
37837003--37837047	24	1.9	23	86	4	63	31	8	2	57	1.41
37837256--37837299	22	1.9	23	81	9	54	25	11	9	54	1.65
37837299--37837342	18	2.5	18	88	3	63	15	4	6	72	1.22
37839171--37839244	3	24.7	3	75	15	64	31	2	4	62	1.28
37841833--37841888	28	2.0	28	100	0	112	32	17	3	46	1.66
37841900--37841949	15	3.2	15	78	18	57	84	4	8	4	0.87
37841900--37841945	24	1.9	24	95	0	83	84	2	8	4	0.83
37841908--37841945	8	4.8	8	84	12	51	86	2	7	2	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37842615--37842667	3	17.7	3	100	0	106	66	0	0	33	0.92
37843015--37843080	34	2.1	31	86	11	89	48	16	13	21	1.80
37848793--37848902	23	5.1	21	78	9	123	37	22	20	19	1.94
37849209--37849240	16	1.9	17	93	6	57	25	21	0	53	1.46
37849469--37849512	8	5.2	8	78	10	52	0	18	4	77	0.94
37849466--37849512	17	2.8	17	100	0	94	0	17	6	76	0.98
37849466--37849509	9	5.1	9	78	10	56	0	15	6	77	0.97
37849525--37849562	3	12.7	3	83	10	51	63	2	0	34	1.09
37849695--37849759	30	2.3	27	84	7	76	44	3	0	52	1.16
37849725--37849761	16	2.3	17	81	13	51	48	0	0	51	1.00
37850392--37850481	43	2.1	44	83	6	112	31	11	8	48	1.69
37859164--37859201	19	2.0	19	94	0	67	28	26	7	36	1.84
37859477--37859535	17	3.4	17	71	17	57	57	6	3	32	1.41
37859610--37859663	26	2.1	25	86	6	72	31	1	38	27	1.67
37859876--37859906	14	2.2	14	94	0	53	58	0	0	41	0.98
37861544--37861575	16	2.0	16	100	0	64	31	25	6	37	1.81
37867323--37867387	32	2.1	32	97	2	123	47	12	9	30	1.72
37872949--37872982	14	2.4	14	100	0	68	0	20	0	79	0.73
37872949--37872988	17	2.3	18	83	12	57	0	20	0	80	0.72
37873535--37873599	32	2.1	32	91	2	105	44	13	9	32	1.76
37874993--37875136	78	1.9	76	92	2	243	22	6	25	45	1.75
37875566--37875595	15	2.0	15	93	0	51	10	6	10	73	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37876685--37876717	13	2.5	13	100	0	66	45	0	15	39	1.46
37883846--37884065	80	2.8	80	85	2	293	15	15	24	44	1.85
37883846--37884059	40	5.4	40	80	3	227	14	15	24	44	1.84
37891353--37891392	21	1.9	21	84	0	53	45	2	15	37	1.59
37892974--37893023	21	2.4	21	80	6	57	2	38	20	40	1.64
37900643--37900682	16	2.5	16	91	0	62	47	2	7	42	1.45
37900693--37900832	59	2.4	59	98	0	271	39	4	9	47	1.55
37900814--37900841	9	3.1	9	100	0	56	32	0	10	57	1.33
37900938--37900981	24	1.9	24	90	9	74	61	2	0	36	1.09
37901438--37901462	10	2.5	10	100	0	50	32	8	0	60	1.26

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