genome.fa.s20.2.7.7.80.10.50.1000.193.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  193  of  199  ( 23844 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)
55895379--55895429	22	2.3	22	80	16	61	37	5	0	56	1.23
55898543--55899063	131	4.0	131	88	1	776	25	23	20	29	1.99
55911362--55911390	12	2.3	13	94	5	51	55	0	10	34	1.34
55914418--55914486	29	2.3	29	80	5	75	26	14	11	47	1.78
55914703--55914746	3	14.7	3	100	0	88	68	0	0	31	0.90
55921597--55921683	45	1.9	45	92	0	147	34	24	16	25	1.95
55921692--55921823	51	2.6	51	86	0	174	33	28	15	21	1.95
55923412--55923604	48	4.0	48	86	0	242	24	28	18	27	1.98
55923463--55923606	48	3.0	48	92	0	252	24	27	19	28	1.98
55929031--55929143	57	2.0	56	82	6	138	30	19	25	24	1.98
55929271--55929401	67	2.0	67	95	0	235	21	17	32	28	1.96
55938028--55938096	35	2.0	35	91	2	113	23	8	31	36	1.85
55938899--55939054	79	2.0	79	100	0	312	44	15	16	23	1.85
55942942--55943051	40	2.8	39	71	9	98	38	21	19	20	1.94
55943044--55943756	113	6.3	112	86	3	928	22	21	24	30	1.99
55943044--55943756	227	3.1	226	86	4	988	22	21	24	30	1.99
55944327--55944570	89	2.8	89	93	1	411	25	1	26	46	1.61
55948514--55948683	66	2.6	66	84	1	216	40	18	28	12	1.88
55948655--55948766	21	5.3	21	80	4	73	32	16	43	7	1.75
55948665--55948766	42	2.4	42	90	3	152	32	16	44	6	1.74
55949165--55949362	43	4.6	43	81	5	229	21	20	31	26	1.98
55949123--55949345	86	2.6	85	80	11	222	22	18	30	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55949355--55949449	43	2.2	42	86	1	127	28	34	17	18	1.94
55961348--55961386	20	1.9	21	89	5	62	41	2	5	51	1.38
55967369--55967412	20	2.3	18	81	11	52	59	2	0	38	1.10
55973634--55974880	623	2.0	622	99	0	2476	31	11	19	37	1.87
55977784--55977860	29	2.6	29	81	2	91	24	14	31	29	1.94
55985047--55985123	29	2.6	29	81	2	91	24	14	31	29	1.94
55995407--55996234	120	6.9	120	98	0	1597	43	1	6	47	1.40
55996382--55996472	45	2.0	45	85	2	121	37	28	6	27	1.82
55996453--55996521	16	4.2	16	92	3	120	36	37	1	24	1.65
55996453--55996521	33	2.1	32	94	2	120	36	37	1	24	1.65
56006198--56006236	17	2.3	18	82	13	55	51	7	0	41	1.31
56012600--56012693	29	3.2	29	81	6	109	44	17	8	29	1.78
56014132--56014212	19	4.1	19	78	13	74	44	2	3	49	1.33
56016500--56016534	15	2.4	15	90	4	54	48	0	8	42	1.33
56020439--56020514	13	5.8	12	73	17	62	19	5	0	75	1.00
56020448--56020518	20	3.5	21	84	7	85	22	4	0	73	1.01
56022121--56022155	15	2.4	15	90	4	54	48	0	8	42	1.33
56023860--56023918	27	2.2	27	87	0	82	23	20	27	28	1.99
56033895--56034739	44	19.5	44	69	11	355	31	20	20	27	1.98
56033871--56034356	217	2.2	218	89	0	742	30	19	23	26	1.98
56034111--56034731	302	2.1	302	93	0	1071	31	20	20	27	1.97
56033896--56034743	173	4.9	169	73	9	590	31	20	21	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56036248--56036298	26	2.0	26	92	0	84	37	7	0	54	1.29
56054939--56055121	48	3.8	48	93	0	303	13	8	48	29	1.72
56055019--56055108	27	3.6	27	64	22	68	15	8	48	26	1.74
56055083--56055162	33	2.4	33	89	0	124	13	5	47	33	1.65
56055082--56055184	33	3.2	31	84	4	109	12	6	47	33	1.68
56057308--56057358	25	2.0	25	88	0	75	33	19	5	41	1.76
56057742--56057831	23	4.0	23	82	7	114	36	23	21	18	1.95
56059087--56059133	23	2.0	23	91	0	76	42	6	4	46	1.48
56059108--56059137	15	2.0	15	93	0	51	36	6	3	53	1.44
56061738--56061857	34	3.5	34	94	0	204	38	8	14	39	1.76
56064447--56064506	30	2.0	30	96	0	111	35	5	13	46	1.65
56071199--56071313	44	2.6	45	84	2	142	36	13	21	27	1.92
56075872--56075925	4	12.5	4	80	18	56	72	0	25	1	0.95
56075878--56075962	30	2.8	29	85	3	107	68	0	28	3	1.06
56075869--56075935	24	3.0	22	75	16	66	71	0	25	2	1.00
56075918--56075962	20	2.2	20	88	0	63	66	0	28	4	1.11
56075926--56075985	20	3.1	20	85	4	79	65	0	31	3	1.09
56076290--56076323	16	2.2	16	94	5	61	73	5	5	14	1.21
56076292--56076389	17	5.8	17	69	14	62	66	6	8	19	1.39
56076320--56076897	158	3.7	159	91	2	864	55	7	8	28	1.59
56079001--56079098	40	2.4	40	98	1	187	41	11	5	41	1.63
56082082--56082170	40	2.3	39	84	9	119	52	7	4	34	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56082096--56082291	40	4.9	40	71	19	117	50	11	3	35	1.55
56082478--56082523	20	2.3	20	85	7	58	2	28	0	69	1.00
56083943--56083973	13	2.4	13	100	0	62	35	0	0	64	0.94
56086617--56086700	28	3.0	27	80	3	96	26	0	22	51	1.49
56086663--56086701	21	1.9	20	85	15	53	28	0	17	53	1.44
56087028--56087124	49	2.0	49	89	4	151	24	24	6	44	1.77
56088400--56088485	43	2.0	43	88	0	127	22	23	3	51	1.63
56089644--56089690	25	1.9	24	87	12	69	17	10	2	70	1.26
56104697--56104752	29	1.9	29	85	7	78	25	16	19	39	1.91
56109588--56109755	40	4.2	40	82	8	139	27	27	21	23	1.99
56109623--56109808	80	2.3	80	83	9	220	27	27	21	23	1.99
56109625--56109808	40	4.6	40	81	7	196	27	27	21	23	1.99
56118941--56119290	103	3.4	103	88	3	483	18	19	29	32	1.96
56119018--56119098	27	2.8	28	87	11	101	14	22	30	32	1.94
56119224--56119274	27	1.9	26	84	11	68	15	23	33	27	1.95
56137245--56137274	15	2.0	15	93	0	51	30	3	0	66	1.07
56145540--56145711	53	3.3	52	71	18	146	41	1	4	52	1.27
56145644--56145713	25	2.8	24	81	12	79	42	0	1	55	1.08
56145716--56145776	16	4.0	16	75	21	60	50	3	0	45	1.17
56146003--56146069	16	4.2	16	90	1	109	35	35	0	28	1.58
56150935--56151081	73	2.0	72	97	1	276	31	10	12	44	1.76
56151470--56151537	3	22.7	3	100	0	136	67	0	32	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56154901--56154933	14	2.5	14	90	9	52	81	0	18	0	0.68
56155552--56155610	29	2.1	29	81	9	68	22	13	1	62	1.39
56155798--56155834	18	2.1	18	90	10	58	32	0	5	62	1.18
56159344--56159519	45	4.0	45	87	1	248	26	16	25	32	1.96
56181110--56181206	45	2.2	45	98	0	185	55	8	12	23	1.63
56188898--56189512	305	2.0	305	99	0	1221	28	22	13	34	1.93
56209164--56209210	24	2.0	24	87	8	69	6	8	6	78	1.08
56214186--56214210	10	2.5	10	100	0	50	8	0	0	92	0.40
56215609--56215659	17	2.9	17	83	11	59	54	1	3	39	1.30
56215609--56215652	9	4.9	9	86	8	54	54	2	4	38	1.33
56220207--56220292	40	2.2	40	97	0	163	12	15	26	45	1.82
56220947--56221002	20	2.8	20	86	0	67	50	0	28	21	1.49
56223049--56223095	22	2.2	21	85	14	62	31	23	21	23	1.98
56225377--56225410	2	17.0	2	100	0	68	50	50	0	0	1.00
56233445--56233492	15	3.1	15	84	3	60	25	16	2	56	1.51
56233451--56233509	15	3.7	15	76	12	55	23	16	3	55	1.56
56236117--56236161	18	2.5	19	82	10	58	31	0	2	66	1.04
56246065--56246102	14	2.8	14	84	4	51	68	0	31	0	0.90
56246185--56246210	7	3.7	7	100	0	52	38	0	0	61	0.96
56246277--56246391	60	1.9	60	92	0	194	33	0	13	53	1.46
56246942--56246982	22	1.9	22	90	5	66	51	0	0	48	1.00
56250666--56250764	23	4.3	23	93	0	162	33	25	20	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56250990--56251028	18	2.2	17	86	13	53	46	20	2	30	1.64
56252896--56252967	33	2.2	33	89	0	108	15	43	12	29	1.83
56252896--56252979	33	2.5	33	84	0	96	14	44	13	28	1.82
56267560--56267718	79	2.0	79	100	0	318	32	21	11	34	1.89
56278052--56278103	15	3.2	17	81	15	56	61	1	1	34	1.18
56278072--56278106	5	7.0	5	100	0	70	60	0	0	40	0.97
56278622--56278671	25	1.9	27	92	8	86	52	26	0	22	1.48
56278622--56278671	13	3.9	13	80	12	59	52	26	0	22	1.48
56281286--56281327	20	2.1	20	86	0	57	47	0	7	45	1.30
56284654--56284839	41	4.5	41	93	0	300	29	19	26	24	1.98

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