genome.fa.s17.2.7.7.80.10.50.1000.124.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: Dt_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  65570391

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   

This is table  124  of  203  ( 24357 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)
39366791--39366836	20	2.3	20	84	0	65	36	8	0	54	1.32
39366728--39366939	100	2.1	101	91	1	336	34	8	4	52	1.51
39371655--39371724	29	2.4	29	85	0	104	58	18	11	11	1.62
39371722--39371764	20	2.2	20	87	8	61	53	16	25	4	1.62
39371734--39371784	25	2.0	25	85	7	68	49	15	27	7	1.72
39383774--39383859	20	4.2	20	76	12	75	46	24	13	15	1.82
39394127--39394161	18	1.9	18	100	0	70	40	14	11	34	1.82
39398395--39398439	19	2.3	20	84	7	65	66	0	4	28	1.11
39398408--39398499	10	9.4	10	70	16	59	64	1	5	29	1.23
39398453--39398488	18	1.9	18	88	5	54	63	0	11	25	1.27
39398512--39398570	10	6.0	10	75	9	50	67	1	8	22	1.26
39398511--39398569	19	2.9	20	80	10	66	67	3	8	20	1.31
39398524--39398604	27	3.0	26	80	10	65	61	6	4	27	1.40
39398771--39398812	20	2.1	20	82	8	50	30	7	2	59	1.37
39398781--39398821	19	2.2	18	83	12	55	34	4	0	60	1.18
39398756--39398902	9	16.1	9	65	12	59	31	3	2	62	1.26
39400251--39400605	96	3.7	96	94	0	586	28	18	24	28	1.98
39406715--39407064	124	2.8	124	93	0	601	30	14	21	33	1.93
39409120--39409158	17	2.3	17	100	0	78	28	10	12	48	1.74
39410961--39411039	37	2.1	37	90	0	122	25	31	18	24	1.98
39414514--39414633	40	3.0	40	85	0	159	23	26	24	25	2.00
39414522--39414674	80	1.9	80	83	2	200	23	24	23	28	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39414534--39414712	40	4.5	39	75	12	116	24	26	23	26	2.00
39415020--39415098	29	2.7	29	86	5	106	27	32	15	24	1.95
39420091--39420212	51	2.4	51	90	6	185	41	0	27	29	1.62
39420185--39420210	12	2.2	12	100	0	52	38	0	30	30	1.58
39420852--39420911	30	2.0	30	96	0	111	28	3	11	56	1.51
39421035--39421068	12	2.8	12	90	0	50	67	0	0	32	0.91
39425964--39426078	42	2.7	43	80	1	133	30	27	19	22	1.98
39429927--39430188	39	6.7	40	87	7	337	25	22	27	24	2.00
39437925--39438134	40	5.3	39	87	5	233	24	21	28	25	1.99
39437872--39438134	120	2.2	120	81	4	300	25	21	27	25	1.99
39437925--39438169	80	3.1	80	81	3	228	25	21	28	24	1.99
39455343--39455401	15	3.8	15	75	16	66	54	1	0	44	1.10
39455378--39455428	24	2.1	24	85	7	68	54	0	0	45	0.99
39455453--39455523	16	4.4	16	68	26	51	38	0	1	60	1.06
39455464--39455488	13	1.9	13	100	0	50	48	0	0	52	1.00
39455638--39455726	44	2.0	46	82	8	112	39	23	2	34	1.67
39459506--39459663	71	2.2	71	87	0	217	30	20	20	27	1.98
39459700--39459754	22	2.5	22	69	0	56	23	16	21	38	1.93
39462380--39462404	13	1.9	13	100	0	50	32	4	24	40	1.73
39474049--39474106	28	2.2	25	80	19	80	43	22	12	22	1.86
39474055--39474111	28	2.0	28	100	0	114	43	24	10	21	1.83
39476848--39476904	26	2.2	26	93	0	96	43	8	22	24	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39476867--39476919	26	2.0	26	85	0	70	41	16	16	24	1.89
39480138--39480184	19	2.5	19	83	16	55	68	10	17	4	1.35
39484677--39484818	43	3.3	44	82	5	157	30	24	15	29	1.96
39484700--39484832	43	3.1	42	77	6	142	28	23	15	32	1.95
39485141--39485190	21	2.4	21	100	0	100	0	46	18	36	1.49
39490640--39491007	9	40.0	9	67	18	127	35	0	19	45	1.53
39490702--39490964	49	5.7	48	72	19	136	34	0	20	44	1.54
39490702--39490837	49	2.7	49	82	5	139	36	0	19	43	1.57
39490644--39491020	34	11.0	34	69	20	177	35	0	19	45	1.53
39490872--39490938	21	3.4	21	68	16	61	34	0	20	44	1.52
39490640--39490949	38	8.5	37	70	19	169	35	0	19	44	1.53
39490760--39491036	127	2.1	128	90	5	430	35	0	19	45	1.50
39491069--39491154	9	9.3	9	75	9	75	38	1	16	44	1.55
39491069--39491154	37	2.3	37	82	7	104	38	1	16	44	1.55
39491069--39491144	28	2.7	29	80	13	88	38	0	17	44	1.49
39491270--39491310	20	2.0	20	100	0	82	14	19	9	56	1.66
39491380--39491560	75	2.4	75	92	0	301	48	8	11	32	1.69
39491693--39491843	66	2.3	65	86	3	203	49	11	3	35	1.56
39494291--39494503	7	29.9	7	73	9	117	41	33	1	23	1.63
39494291--39494362	29	2.5	30	86	6	103	36	41	1	20	1.61
39494796--39495096	114	2.7	113	88	2	437	27	24	20	27	1.99
39495025--39495157	40	3.3	40	79	2	124	23	26	21	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39495231--39495264	10	3.4	10	87	0	50	44	14	0	41	1.45
39498613--39498663	2	25.5	2	100	0	102	0	0	50	49	1.00
39501385--39501422	19	2.0	19	85	10	51	42	2	5	50	1.39
39506835--39506922	43	2.0	43	100	0	176	28	14	25	31	1.95
39509556--39509702	74	2.0	74	94	0	258	37	8	12	41	1.74
39511017--39511045	13	2.1	14	93	6	51	82	0	6	10	0.83
39511095--39511126	11	2.9	11	100	0	64	56	15	9	18	1.66
39511095--39511135	11	3.7	11	93	0	55	58	12	7	21	1.58
39512520--39512550	15	2.1	15	93	0	53	19	45	9	25	1.81
39514902--39515127	40	5.7	40	98	0	425	30	20	27	21	1.98
39516502--39516952	217	2.1	218	90	0	706	27	22	19	30	1.98
39516616--39516952	45	7.7	45	71	11	198	26	24	19	29	1.98
39525344--39525396	15	3.5	15	76	5	54	60	7	1	30	1.35
39528985--39529048	32	2.0	32	96	0	119	12	29	9	48	1.72
39532461--39532527	34	2.0	32	94	5	116	50	2	2	43	1.32
39534173--39534223	26	2.0	26	84	7	68	17	0	9	72	1.11
39537247--39537329	41	2.1	39	84	8	105	32	13	19	34	1.90
39537696--39537730	17	2.0	18	88	5	54	34	8	11	45	1.71
39541855--39541889	17	2.0	18	88	5	54	34	8	11	45	1.71
39543027--39543061	17	2.0	18	88	5	54	34	8	11	45	1.71
39544122--39544156	17	2.0	18	94	5	63	34	5	11	48	1.63
39557025--39557059	17	2.0	18	88	5	54	34	8	11	45	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39560506--39560546	14	2.8	15	82	10	50	24	2	4	68	1.22
39560602--39560734	35	3.8	35	79	0	131	25	21	12	41	1.87
39562815--39562843	6	4.8	6	100	0	58	34	0	48	17	1.47
39565350--39565416	29	2.3	30	80	10	86	35	2	4	56	1.35
39569806--39570172	5	73.4	5	100	0	734	59	0	0	40	0.97
39571432--39571497	34	1.9	34	90	0	105	15	13	27	43	1.84
39571432--39571509	34	2.3	34	86	4	104	15	11	29	43	1.82
39580892--39580919	6	4.7	6	100	0	56	32	17	17	32	1.94
39581441--39581478	18	2.2	18	90	4	60	18	39	26	15	1.91
39585976--39586017	21	2.0	21	86	4	59	33	9	2	54	1.46
39592609--39592677	34	2.0	34	100	0	138	33	34	2	28	1.72
39596132--39596200	26	2.7	26	86	0	102	26	14	17	42	1.87
39610746--39610793	19	2.5	20	82	6	62	10	4	6	79	1.05
39611024--39611086	3	21.0	3	85	6	83	28	1	1	68	1.08
39616593--39616890	49	6.4	46	75	11	234	34	20	18	26	1.96
39616593--39616861	46	5.7	48	77	10	252	34	19	18	26	1.95
39616593--39616805	93	2.3	90	82	7	232	34	20	18	26	1.96
39616588--39616994	44	8.9	45	74	10	224	34	20	17	27	1.95
39616588--39616993	139	3.0	139	85	3	522	33	20	17	27	1.96
39616636--39616861	95	2.4	92	81	5	258	34	19	19	26	1.96
39616549--39616980	93	4.8	88	75	9	228	33	20	17	28	1.95
39627470--39627500	6	5.2	6	100	0	62	0	67	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39633399--39633430	14	2.4	14	94	5	57	21	6	0	71	1.07
39636500--39636557	22	2.6	23	81	8	66	34	22	24	18	1.96
39636499--39636589	23	4.0	22	77	9	78	36	19	23	20	1.95
39639052--39639085	16	2.1	17	88	5	52	23	2	2	70	1.15
39642169--39642365	89	2.2	88	81	3	216	27	23	20	27	1.99
39649897--39649934	3	12.3	3	84	15	51	65	0	2	31	1.06
39649897--39649934	11	3.1	12	88	11	51	65	0	2	31	1.06
39649897--39649934	14	2.7	14	91	0	58	65	0	2	31	1.06
39653723--39653785	30	2.1	30	96	0	117	30	11	20	38	1.87
39655673--39655712	21	1.9	21	85	10	55	47	2	15	35	1.58

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