genome.fa.s15.2.7.7.80.10.50.1000.173.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   

This is table  173  of  222  ( 26535 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)
55677092--55677336	116	2.0	121	87	6	358	51	3	1	44	1.25
55678170--55678197	14	2.0	14	100	0	56	50	7	14	28	1.69
55683589--55683632	18	2.4	18	88	0	61	27	9	25	38	1.86
55701100--55701183	24	3.5	24	69	11	82	33	20	25	21	1.97
55701112--55701226	48	2.4	48	97	1	212	33	18	26	21	1.96
55701129--55701205	24	3.2	24	68	14	77	29	19	27	23	1.98
55701282--55701362	25	3.2	25	75	15	69	38	20	19	20	1.94
55705367--55705464	27	3.5	28	90	2	135	26	13	28	31	1.94
55705395--55705477	27	3.0	27	87	5	96	30	12	25	32	1.92
55705367--55705478	28	4.0	27	83	6	98	28	12	25	33	1.92
55710890--55711013	41	3.0	41	96	0	230	45	13	4	36	1.63
55711247--55711350	25	4.2	25	75	6	104	31	19	26	22	1.97
55714546--55714588	18	2.4	18	88	0	59	69	4	13	11	1.33
55714582--55714629	19	2.6	19	80	3	53	43	0	56	0	0.99
55720660--55720735	22	3.5	22	76	15	68	75	5	5	14	1.16
55722222--55722258	12	3.0	12	88	4	56	70	2	0	27	1.01
55722272--55722339	31	2.3	30	80	16	79	64	1	4	29	1.21
55727523--55727574	20	2.6	20	81	0	59	48	11	13	26	1.77
55727709--55727759	20	2.5	20	80	3	57	33	13	9	43	1.77
55731642--55731799	84	1.9	83	85	5	223	34	24	6	34	1.81
55734004--55734056	25	2.1	25	82	6	63	58	1	5	33	1.32
55739180--55739216	19	2.0	19	85	15	51	45	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55739381--55739471	45	2.0	45	85	2	121	37	28	6	27	1.82
55739452--55739520	16	4.2	16	94	3	120	37	39	0	23	1.55
55739452--55739520	33	2.1	32	94	2	120	37	39	0	23	1.55
55740444--55740506	27	2.3	28	91	2	101	33	1	14	50	1.52
55740839--55740876	17	2.2	18	85	4	51	34	5	7	52	1.53
55740910--55740950	18	2.3	18	86	0	55	29	2	19	48	1.61
55740874--55740953	36	2.2	36	82	4	90	28	5	20	46	1.71
55741531--55741639	51	2.1	51	88	6	159	27	8	17	46	1.76
55744422--55744849	46	9.3	46	86	8	497	34	14	21	28	1.93
55744356--55744722	98	3.7	97	84	9	501	34	14	22	28	1.93
55744370--55744722	196	1.8	196	92	0	607	34	14	22	28	1.93
55744686--55744758	36	2.0	36	94	0	128	36	13	20	28	1.91
55744640--55744804	82	2.0	82	95	0	294	35	13	21	29	1.92
55746344--55746397	21	2.6	21	77	8	56	31	9	29	29	1.88
55749970--55750023	5	11.2	5	75	15	51	0	22	18	59	1.38
55753253--55753300	13	3.7	13	85	0	69	43	25	6	25	1.77
55753382--55753414	17	1.9	17	93	0	57	12	3	6	78	1.04
55753358--55753442	26	3.3	25	79	8	82	20	2	3	74	1.08
55753404--55753445	12	3.4	12	78	15	50	30	0	0	69	0.89
55759489--55759547	29	2.0	29	100	0	118	55	6	6	30	1.52
55768819--55769239	209	2.0	208	98	0	815	29	22	13	34	1.92
55770553--55770619	34	1.9	35	87	3	100	32	8	11	46	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55770568--55770607	20	2.0	20	85	0	53	30	10	10	50	1.69
55778769--55778827	30	1.9	31	86	3	84	30	22	6	40	1.79
55787857--55787890	16	2.1	17	88	5	52	79	2	11	5	1.02
55790112--55790249	61	2.3	59	84	2	168	23	16	13	46	1.82
55794319--55794397	38	2.1	38	100	0	158	16	20	10	53	1.71
55809220--55810026	44	18.7	43	70	13	291	28	18	24	28	1.98
55809343--55809668	173	1.9	173	81	8	396	28	18	23	28	1.98
55809478--55810033	84	6.5	84	69	14	294	28	19	23	28	1.98
55809214--55810017	217	3.7	217	92	0	1243	28	18	23	28	1.98
55809560--55809885	173	1.9	173	79	12	366	27	19	23	28	1.98
55817383--55817429	21	2.2	21	85	7	60	40	4	42	12	1.63
55817380--55817432	21	2.4	22	78	12	54	39	3	45	11	1.58
55819135--55819179	23	1.9	24	86	4	65	11	6	6	75	1.18
55819135--55819185	23	2.1	25	82	10	61	11	5	7	74	1.21
55820780--55820842	35	1.9	34	84	12	87	58	1	4	34	1.29
55825287--55825427	43	3.3	42	75	11	135	41	19	17	22	1.90
55827736--55827837	41	2.5	41	84	6	127	35	19	18	26	1.95
55830244--55830271	4	7.0	4	100	0	56	25	0	0	75	0.81
55831912--55832031	41	2.9	41	87	0	150	27	20	25	27	1.99
55839377--55839485	41	2.7	41	86	0	137	26	19	23	30	1.98
55843388--55843473	37	2.3	37	80	7	95	31	17	25	25	1.97
55844430--55844565	57	2.4	57	77	4	148	25	17	12	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55846324--55846360	18	2.1	18	100	0	74	27	21	5	45	1.73
55850008--55850096	33	2.7	35	68	16	82	46	1	3	49	1.26
55850069--55850117	26	2.0	24	84	8	62	46	0	6	46	1.27
55852805--55852883	20	4.1	18	74	18	70	39	21	29	10	1.86
55852789--55852883	38	2.4	40	81	13	101	36	22	30	10	1.88
55854983--55855042	30	2.0	30	100	0	120	30	10	26	33	1.89
55856311--55856341	15	2.1	15	100	0	62	19	12	0	67	1.22
55856692--55856754	24	3.0	20	78	17	81	39	11	12	36	1.79
55857557--55857618	7	8.9	7	90	0	52	29	43	0	27	1.55
55857557--55857617	21	2.9	21	80	9	63	29	42	0	27	1.56
55857589--55857619	7	4.4	7	100	0	62	25	45	0	29	1.54
55857991--55858048	22	2.8	21	78	21	61	29	0	1	68	0.99
55857904--55858054	55	3.0	48	75	16	146	31	3	2	62	1.25
55864675--55864721	21	2.1	21	84	11	58	23	2	4	70	1.16
55865293--55865324	6	5.3	6	100	0	64	53	0	0	46	1.00
55867282--55867307	2	13.0	2	100	0	52	50	0	0	50	1.00
55869180--55869240	30	2.0	31	84	6	81	31	13	4	50	1.62
55871015--55871096	41	2.0	41	100	0	164	24	9	26	39	1.86
55876444--55876476	17	1.9	17	88	11	50	30	21	0	48	1.50
55877947--55877982	17	2.1	17	100	0	72	44	11	16	27	1.82
55879831--55879913	8	10.0	8	68	28	50	37	0	1	61	1.04
55879833--55879876	18	2.5	17	79	17	54	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55879826--55879881	8	6.1	9	80	19	55	39	0	0	60	0.97
55880047--55880109	28	2.2	28	100	0	126	20	34	20	23	1.96
55881356--55881392	20	1.9	18	89	10	56	37	16	21	24	1.93
55896787--55896869	23	3.6	23	77	4	69	21	14	20	43	1.87
55896829--55896878	23	2.2	23	85	0	64	28	14	16	42	1.86
55901765--55901833	29	2.4	29	100	0	138	24	11	28	34	1.91
55905018--55905058	22	2.0	20	85	9	55	34	7	17	41	1.77
55905582--55905822	81	3.0	81	82	1	286	9	38	21	30	1.86
55905609--55905822	54	4.0	54	82	1	232	10	37	22	29	1.87
55905578--55905828	27	9.3	27	86	1	207	10	38	21	29	1.87
55912621--55912663	13	3.1	14	84	12	54	60	0	0	39	0.97
55915583--55915622	8	5.0	8	90	0	62	50	0	0	50	1.00
55915584--55915666	8	9.8	9	74	12	61	48	0	2	49	1.14
55916548--55916611	31	2.2	27	83	10	74	34	1	1	62	1.14
55918283--55918343	11	5.6	11	71	11	54	59	1	1	37	1.17
55920208--55920261	19	2.8	19	85	0	72	40	7	14	37	1.74
55920468--55920512	23	2.0	23	81	0	54	22	0	15	62	1.33
55927256--55928009	88	8.6	88	88	0	1067	27	27	24	20	1.99
55927305--55927448	44	3.3	44	63	7	103	24	27	25	22	2.00
55928011--55928108	44	2.2	44	87	3	135	25	18	25	30	1.98
55928095--55928604	44	11.8	44	69	13	263	30	20	21	27	1.98
55928143--55928423	84	3.3	83	74	9	287	28	21	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55928091--55928640	173	3.2	172	80	5	556	30	20	22	27	1.98
55928225--55928732	217	2.3	218	85	3	727	29	21	23	25	1.99
55929284--55929341	19	2.7	22	84	10	68	36	8	17	37	1.80
55929525--55929569	23	2.0	23	81	0	54	22	0	15	62	1.33
55933850--55933878	15	1.9	15	100	0	58	55	0	0	44	0.99
55934515--55934559	23	1.9	23	82	13	56	15	8	40	35	1.79
55934576--55934858	126	2.3	125	81	4	338	29	13	22	33	1.93
55938034--55938563	29	20.0	27	74	18	394	31	0	21	46	1.53
55938063--55938097	17	2.0	18	88	5	54	31	0	20	48	1.50
55938225--55938259	17	2.0	18	88	5	54	31	0	20	48	1.50

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   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222