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: 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  123  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)
39078384--39078482	28	3.1	34	73	19	86	21	27	26	25	1.99
39079190--39079301	9	12.4	9	83	7	147	40	21	12	25	1.88
39079346--39079389	20	2.2	20	84	8	54	25	0	6	68	1.14
39079403--39079446	18	2.4	18	88	0	61	13	2	43	40	1.57
39079905--39080052	75	2.0	75	88	5	219	45	10	13	31	1.77
39090243--39091607	683	2.0	682	89	2	2089	33	16	21	28	1.95
39096528--39096730	104	2.0	104	98	0	397	34	14	16	33	1.89
39097689--39097734	21	2.3	20	78	14	51	30	6	17	45	1.73
39099231--39099272	19	2.2	19	83	8	50	52	11	19	16	1.74
39099612--39099709	17	5.8	17	69	21	62	40	4	3	52	1.36
39099615--39099744	68	1.9	69	90	1	208	40	3	3	51	1.38
39100628--39100676	13	3.8	13	78	21	50	12	8	2	77	1.07
39100628--39100676	19	2.6	19	83	6	64	12	8	2	77	1.07
39103143--39103286	72	2.0	72	94	0	252	40	15	5	38	1.71
39105405--39105604	50	3.9	50	77	7	179	28	21	27	23	1.99
39109088--39109117	14	2.1	14	100	0	60	6	20	13	60	1.55
39113730--39113780	18	2.8	18	69	0	57	13	41	3	41	1.63
39116095--39116124	14	2.1	14	100	0	60	23	26	13	36	1.92
39116830--39116868	14	2.7	15	92	7	64	35	17	5	41	1.72
39130212--39130238	9	3.0	9	100	0	54	44	0	0	55	0.99
39131439--39131493	28	2.0	28	88	0	83	29	16	14	40	1.88
39132355--39132394	21	1.9	21	84	0	53	52	22	5	20	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39132383--39132530	68	2.2	68	92	3	248	39	14	14	31	1.87
39137853--39137999	52	2.8	52	98	0	285	29	16	11	42	1.83
39154296--39154375	25	3.2	25	79	10	92	23	26	21	28	1.99
39154296--39154409	50	2.3	50	81	6	124	25	25	21	28	1.99
39154346--39154413	25	2.7	25	72	17	68	29	26	17	26	1.98
39158425--39158451	13	2.1	13	100	0	54	29	7	14	48	1.71
39159302--39159454	43	3.6	43	70	11	125	37	18	19	24	1.94
39159328--39159613	86	3.4	85	79	1	279	35	18	18	27	1.94
39164668--39164737	34	2.1	34	97	0	131	21	0	28	50	1.49
39166409--39166444	18	2.0	18	88	0	54	33	0	0	66	0.92
39166473--39166503	15	2.1	15	100	0	62	32	0	25	41	1.56
39167913--39167996	42	2.0	42	97	0	159	26	25	22	26	2.00
39168595--39168644	25	2.0	25	100	0	100	40	16	12	32	1.84
39168672--39168901	126	1.8	126	91	0	379	29	19	14	36	1.91
39170530--39170627	50	1.9	51	89	2	153	39	14	15	30	1.87
39171125--39171220	31	3.1	31	95	3	174	45	13	9	31	1.75
39173059--39173182	35	3.6	35	77	1	115	37	16	29	16	1.92
39173128--39173264	35	3.9	35	75	3	96	32	16	32	18	1.93
39173618--39173651	18	1.9	17	88	5	50	41	20	14	23	1.89
39176228--39176259	17	1.9	16	93	6	55	40	0	6	53	1.26
39177565--39177615	23	2.2	23	92	0	84	41	21	9	27	1.84
39183927--39183979	27	2.0	26	85	3	70	35	30	13	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39184148--39184316	35	4.9	35	70	2	108	36	20	27	15	1.93
39188054--39188194	61	2.3	61	80	0	138	31	11	29	27	1.91
39188226--39188297	27	2.6	27	80	10	74	33	19	20	26	1.97
39190850--39190890	19	2.1	20	90	4	66	65	0	0	34	0.93
39190861--39190996	35	3.9	33	76	9	112	64	2	1	31	1.14
39190970--39191030	21	3.0	20	79	13	63	57	1	1	39	1.18
39190966--39191101	19	7.2	19	70	19	72	61	2	1	33	1.20
39190966--39191101	28	4.8	28	68	20	84	61	2	1	33	1.20
39190861--39191102	9	26.6	9	70	18	103	62	2	1	33	1.20
39191534--39191607	27	2.7	28	82	10	82	29	1	2	66	1.14
39191614--39191670	17	3.3	17	77	17	55	31	7	0	61	1.23
39197801--39198055	120	2.1	120	99	0	501	41	5	7	45	1.55
39198834--39198925	46	2.0	46	100	0	184	32	21	21	23	1.98
39201474--39201534	4	15.2	4	100	0	122	49	26	0	24	1.51
39201848--39201885	4	9.5	4	100	0	76	23	0	26	50	1.50
39206550--39206603	27	2.0	27	96	0	99	37	9	18	35	1.83
39223372--39223501	50	2.6	49	86	4	163	31	21	23	23	1.98
39223365--39223550	50	3.8	49	80	7	155	31	21	23	23	1.98
39226748--39226786	19	2.1	19	100	0	78	38	10	20	30	1.86
39230665--39230820	50	3.1	49	77	5	161	28	21	28	21	1.99
39236773--39236830	28	2.1	28	84	9	75	18	0	34	46	1.50
39237625--39237667	5	8.6	5	100	0	86	81	0	0	18	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39238555--39238597	13	3.5	13	75	18	56	48	13	0	37	1.43
39238555--39238606	23	2.3	23	100	0	104	48	13	0	38	1.43
39238555--39238619	23	2.8	23	88	4	60	50	12	0	36	1.40
39242937--39242985	20	2.5	19	77	9	53	71	4	4	20	1.19
39243811--39243853	13	3.5	13	81	18	65	48	16	0	34	1.46
39243809--39243855	23	2.0	23	100	0	94	46	17	0	36	1.48
39243813--39243862	23	2.2	23	92	0	82	52	14	0	34	1.42
39250971--39251025	3	18.3	3	100	0	110	67	0	32	0	0.91
39255662--39255800	72	1.9	72	89	2	217	30	15	11	43	1.82
39255734--39256231	89	5.7	89	81	5	498	35	13	10	40	1.79
39255734--39256231	178	2.8	175	83	6	571	35	13	10	40	1.79
39256177--39256501	167	2.0	165	87	2	472	34	10	8	46	1.70
39255733--39256580	89	9.9	84	79	7	479	34	11	10	43	1.75
39264424--39264597	40	4.3	40	81	1	179	21	29	16	31	1.96
39264439--39264601	80	2.0	80	85	2	220	20	28	17	33	1.95
39264491--39264598	20	5.4	20	67	8	67	24	32	16	26	1.96
39266114--39266336	40	5.6	40	85	3	236	26	27	21	24	1.99
39266268--39266345	40	1.9	41	82	10	97	26	28	21	23	1.99
39271117--39271206	25	3.6	25	81	11	103	28	22	21	27	1.99
39272080--39272131	20	2.7	20	72	16	56	28	9	1	59	1.40
39274039--39274071	16	2.1	16	94	0	57	36	6	12	45	1.66
39278058--39278193	40	3.4	40	92	0	209	19	33	16	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39278098--39278163	20	3.3	20	66	8	62	15	34	18	31	1.92
39278098--39278250	78	1.9	78	80	6	175	22	31	14	32	1.94
39293681--39293745	21	3.0	21	75	16	62	49	0	1	49	1.10
39293693--39293738	22	2.0	24	91	8	78	52	0	2	45	1.13
39303300--39303356	27	2.1	27	100	0	114	36	15	17	29	1.91
39317235--39317264	14	2.1	14	93	0	51	26	6	20	46	1.75
39318013--39318038	8	3.2	8	100	0	52	26	0	34	38	1.57
39321003--39321067	17	3.2	21	64	27	59	20	15	15	49	1.80
39324938--39324991	20	2.7	20	82	2	63	29	25	16	27	1.97
39324936--39324991	21	2.7	21	80	2	69	28	25	17	28	1.98
39328869--39328960	37	2.5	36	85	5	130	13	14	31	41	1.83
39330081--39330123	19	2.3	19	88	8	61	25	6	4	62	1.40
39330457--39330606	27	5.6	26	76	15	96	28	25	16	30	1.97
39330476--39330769	54	5.4	53	77	11	199	27	24	17	29	1.97
39330562--39330765	26	7.6	26	80	3	156	27	25	17	28	1.98
39330539--39330715	52	3.3	52	78	9	160	29	24	15	30	1.95
39333241--39333274	17	2.0	17	94	0	59	32	11	2	52	1.53
39333242--39333283	17	2.4	17	88	4	57	33	16	2	47	1.60
39334692--39334791	35	2.9	34	82	5	119	36	14	26	24	1.93
39334532--39334755	114	2.0	113	90	4	353	32	17	25	25	1.97
39335588--39335665	39	2.0	39	94	0	138	51	20	3	24	1.64
39342604--39342628	12	2.1	12	100	0	50	44	8	0	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39342860--39342898	21	1.9	20	84	5	51	12	12	23	51	1.74
39344436--39344553	59	2.0	59	98	0	227	34	28	11	25	1.90
39356271--39356367	48	2.0	48	95	0	176	28	30	6	34	1.82
39360835--39360948	39	2.9	39	80	2	122	43	21	6	28	1.76
39363407--39363449	20	2.2	19	87	4	59	74	6	4	13	1.19
39363633--39363704	34	2.1	34	82	10	85	66	25	2	5	1.27
39363656--39363681	11	2.4	11	100	0	52	76	15	0	7	0.99
39366755--39366797	16	2.5	17	81	7	52	34	6	4	53	1.49
39366728--39366885	48	3.2	48	70	16	142	35	6	3	53	1.46
39366788--39366839	20	2.8	18	78	13	61	38	7	0	53	1.30

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