genome.fa.s17.2.7.7.80.10.50.1000.29.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  29  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)
9746640--9746666	6	4.5	6	100	0	54	29	33	18	18	1.95
9751621--9751680	31	2.0	31	83	3	77	38	8	11	41	1.72
9753966--9754014	23	2.0	24	88	7	73	42	0	0	57	0.99
9759455--9759500	17	2.5	20	79	17	62	56	0	0	43	0.99
9764103--9764672	203	2.7	211	84	5	764	41	21	11	24	1.87
9765414--9765438	5	5.0	5	100	0	50	40	20	20	20	1.92
9766279--9766343	31	2.1	31	88	0	94	35	6	18	40	1.76
9782151--9782259	51	2.1	51	85	6	141	35	6	20	37	1.78
9783396--9783434	16	2.4	16	87	8	53	23	12	0	64	1.28
9785523--9786570	210	4.9	215	88	4	1472	34	17	15	33	1.91
9785523--9786570	431	2.4	426	89	3	1586	34	17	15	33	1.91
9787106--9787181	37	2.1	37	92	5	127	31	10	10	47	1.72
9789987--9790056	28	2.4	29	83	9	90	44	10	15	30	1.79
9791618--9791810	94	2.1	89	87	4	269	40	13	16	29	1.86
9798725--9798761	18	2.1	17	90	5	56	56	0	0	43	0.99
9798853--9798894	13	2.9	14	80	13	50	57	0	2	40	1.12
9807350--9807389	21	2.0	20	95	5	71	37	0	10	52	1.35
9810044--9810093	20	2.4	21	86	3	75	16	0	36	48	1.46
9812318--9812450	30	4.4	30	88	1	169	15	56	6	22	1.61
9812336--9812483	15	9.9	15	73	0	107	14	56	7	20	1.62
9812320--9812453	45	3.0	45	72	10	121	14	55	6	23	1.62
9812398--9812498	30	3.4	30	81	0	103	17	59	7	14	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9812336--9812495	45	3.6	45	78	0	122	15	57	6	20	1.61
9820740--9820778	21	1.9	21	89	5	62	53	17	0	28	1.44
9824444--9824469	13	2.0	13	100	0	52	61	0	7	30	1.24
9827414--9827446	16	2.1	16	94	0	57	48	3	12	36	1.56
9827603--9827640	15	2.4	17	82	13	53	57	0	7	34	1.28
9827948--9827987	19	2.1	19	86	9	55	67	7	7	17	1.38
9827951--9827995	18	2.4	19	81	3	56	66	8	8	15	1.43
9829765--9829809	18	2.3	20	77	18	58	2	37	11	48	1.51
9829773--9829808	18	1.9	19	94	5	65	0	44	11	44	1.39
9829845--9829912	33	2.1	33	91	0	109	8	27	14	48	1.74
9832593--9832715	18	6.8	18	64	20	60	45	1	3	49	1.28
9832517--9832765	91	2.7	91	98	0	480	46	2	2	47	1.30
9832576--9832718	47	3.1	47	71	20	156	44	2	3	49	1.31
9832781--9832950	59	2.8	61	69	11	152	43	2	2	51	1.29
9832881--9832910	16	1.9	15	93	6	51	40	0	10	50	1.36
9832915--9832956	15	2.7	16	82	14	52	45	0	2	52	1.13
9832906--9832947	15	2.9	15	82	10	52	47	0	0	52	1.00
9833081--9833181	39	2.6	39	87	7	134	33	27	5	32	1.81
9833652--9833701	24	2.1	23	88	3	73	70	0	4	26	1.05
9833660--9833710	23	2.2	24	85	3	68	72	1	1	23	1.05
9834047--9834089	11	3.9	11	84	0	50	72	6	9	11	1.29
9834037--9834083	22	2.1	22	88	0	67	72	8	8	10	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9844985--9845070	30	2.8	31	79	11	97	38	2	16	43	1.61
9850851--9850896	16	3.0	15	80	20	51	30	2	0	67	1.03
9859462--9859486	3	8.3	3	100	0	50	68	0	0	32	0.90
9860311--9860380	37	1.9	36	83	13	90	28	7	1	62	1.30
9860367--9860445	10	8.6	9	74	20	58	26	3	1	68	1.14
9860313--9860398	37	2.3	39	76	10	88	27	8	1	62	1.30
9860346--9860415	29	2.5	28	86	6	88	27	7	1	64	1.28
9860307--9860497	9	21.0	9	69	20	96	29	5	0	64	1.19
9871317--9871368	26	2.0	25	81	3	59	32	1	5	59	1.32
9872072--9872096	13	1.9	13	100	0	50	32	0	32	36	1.58
9873928--9873967	21	1.9	21	85	10	55	47	5	0	47	1.24
9874451--9874484	16	2.1	16	89	10	52	50	0	47	2	1.16
9883010--9883036	3	9.0	3	100	0	54	0	33	0	66	0.92
9883874--9884315	221	2.0	220	96	0	812	29	14	19	37	1.91
9884434--9884471	6	6.3	6	100	0	76	50	0	15	34	1.45
9885471--9885518	21	2.4	19	86	6	60	64	4	0	31	1.12
9893245--9893275	13	2.4	13	94	0	53	0	25	0	74	0.82
9899972--9900020	25	2.0	25	84	11	66	55	0	2	42	1.11
9899998--9900040	18	2.4	17	85	11	59	46	0	2	51	1.13
9900002--9900073	20	3.7	20	85	7	85	37	1	2	58	1.21
9900023--9900075	10	5.3	10	74	0	52	33	1	1	62	1.17
9904309--9904353	21	2.1	21	84	8	56	55	6	6	31	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9913027--9913113	43	2.0	43	100	0	174	32	14	25	27	1.95
9914752--9914798	20	2.4	19	82	6	67	34	0	4	61	1.15
9931141--9931203	21	2.8	23	80	9	76	65	3	4	26	1.28
9931386--9931424	19	2.0	21	85	14	57	33	7	2	56	1.41
9931680--9931710	15	2.1	15	93	0	53	38	0	6	54	1.26
9931813--9931842	15	1.9	16	93	6	53	23	3	0	73	0.98
9931829--9931883	22	2.6	22	77	11	62	23	3	3	69	1.21
9938661--9938716	22	2.5	22	82	11	60	42	3	1	51	1.29
9942231--9942276	20	2.2	21	84	7	58	45	0	0	54	0.99
9942430--9942455	12	2.2	12	100	0	52	50	0	7	42	1.31
9943681--9943725	20	2.2	20	84	4	54	26	2	2	68	1.12
9943690--9943730	20	2.0	22	90	9	68	21	2	2	73	1.07
9943690--9943732	9	4.4	9	83	13	50	20	2	2	74	1.04
9943849--9943916	18	3.6	19	77	15	70	29	2	0	67	1.05
9943873--9943909	17	2.1	17	95	5	65	27	2	0	70	1.01
9943851--9943906	29	2.0	29	89	3	87	30	3	0	66	1.09
9954039--9954068	15	1.9	16	93	6	53	60	16	6	16	1.56
9965842--9965866	13	1.9	13	100	0	50	16	4	0	80	0.87
9967793--9968296	80	6.3	80	93	1	843	37	33	3	24	1.73
9967793--9968296	240	2.1	239	96	1	929	37	33	3	24	1.73
9968264--9968326	33	1.9	33	90	0	99	41	22	4	31	1.74
9968193--9968409	112	1.9	113	85	2	303	38	29	5	26	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9968318--9968465	80	1.9	80	84	2	199	36	32	6	24	1.82
9968105--9968463	192	1.9	193	87	1	533	36	32	5	25	1.79
9973507--9973544	18	2.1	19	90	5	60	28	23	5	42	1.76
9985003--9985287	142	2.0	142	97	0	543	31	20	20	28	1.97
10009161--10009200	19	2.2	18	86	4	53	65	0	7	27	1.20
10017128--10017168	21	2.0	21	90	0	64	17	19	51	12	1.76
10022667--10022702	18	2.0	18	100	0	72	27	27	11	33	1.91
10022669--10022708	18	2.2	18	90	0	62	25	32	5	37	1.77
10029496--10029554	31	1.9	31	92	0	100	35	6	6	50	1.55
10037126--10037193	27	2.5	27	90	0	100	45	19	16	19	1.85
10040549--10040605	11	5.1	11	77	12	53	64	3	0	31	1.10
10041049--10041095	23	2.0	23	91	0	76	31	6	19	42	1.76
10042052--10042078	14	1.9	14	100	0	54	44	0	7	48	1.31
10043493--10043558	25	2.6	25	73	0	69	25	25	16	31	1.96
10053573--10053657	32	2.6	33	80	17	90	34	1	0	64	1.01
10053573--10053636	16	3.9	16	75	15	51	35	0	0	64	0.94
10053595--10053698	23	4.7	22	69	19	72	33	2	0	62	1.16
10053587--10053644	27	2.2	26	81	3	62	34	1	0	63	1.04
10059834--10059907	28	2.7	26	87	6	94	33	32	9	24	1.87
10059864--10059924	27	2.3	26	82	5	68	36	27	9	26	1.88
10073944--10074071	64	2.0	64	96	0	238	33	4	12	49	1.61
10074402--10074451	18	2.6	21	72	21	54	40	2	0	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10082911--10082935	1	25.0	1	100	0	50	0	100	0	0	0.00
10092696--10092751	21	2.7	21	85	0	85	26	8	35	28	1.87
10092920--10093075	30	5.2	29	89	6	231	36	10	1	51	1.47
10093168--10093270	28	3.6	28	71	15	93	10	53	3	32	1.54
10093175--10093264	21	4.4	21	62	27	50	10	54	4	31	1.53
10093256--10093293	6	6.2	6	93	6	67	15	47	0	36	1.46
10105602--10105700	49	2.0	49	92	3	164	30	11	18	40	1.85
10111905--10111945	21	2.0	21	90	4	66	29	0	7	63	1.21
10117493--10117601	42	2.6	40	78	8	110	33	22	20	23	1.97
10117497--10117615	42	2.9	42	73	6	107	34	24	18	22	1.96

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