genome.fa.s17.2.7.7.80.10.50.1000.36.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  36  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)
11885392--11885476	18	4.7	18	68	22	54	32	4	42	20	1.72
11888429--11888483	27	2.0	28	85	7	76	29	3	14	52	1.58
11888896--11888940	17	2.6	18	82	10	58	55	4	2	37	1.32
11888896--11888942	18	2.6	18	86	6	60	53	4	4	38	1.40
11890560--11890614	4	13.8	4	96	0	101	50	23	1	23	1.58
11895052--11895092	19	2.2	19	95	0	73	43	14	19	21	1.87
11895767--11895839	36	2.0	36	100	0	146	36	13	10	38	1.80
11899797--11899985	88	2.1	88	99	0	369	34	8	23	33	1.86
11905935--11906015	18	4.3	18	68	17	58	37	14	12	35	1.84
11908852--11908897	20	2.3	20	96	3	85	32	13	13	41	1.82
11914163--11914272	34	3.3	33	78	7	105	39	0	12	47	1.48
11914329--11914853	126	4.2	126	86	1	716	36	16	17	29	1.92
11918373--11918415	18	2.4	18	88	0	59	41	9	25	23	1.84
11920167--11920223	30	1.9	30	89	7	89	38	5	24	31	1.78
11925320--11925846	273	1.9	273	90	4	848	40	8	6	44	1.61
11927801--11927883	41	2.0	42	83	9	107	56	1	7	34	1.35
11927801--11927881	39	2.0	41	83	4	103	56	1	7	34	1.35
11927822--11927947	61	2.0	63	87	3	184	53	2	7	36	1.43
11928794--11928952	23	6.9	23	69	19	98	45	21	6	25	1.76
11928740--11928990	70	3.6	69	84	4	299	45	18	8	27	1.78
11929013--11929050	16	2.3	16	86	13	51	47	21	0	31	1.51
11929826--11929982	41	3.8	41	82	3	199	32	27	20	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11944105--11944166	27	2.2	27	86	11	81	22	4	19	53	1.64
11949221--11949262	16	2.7	15	73	20	50	47	0	4	47	1.23
11958694--11958728	16	2.1	17	89	5	54	57	14	2	25	1.51
11971816--11971929	44	2.6	43	93	6	192	44	30	3	21	1.69
11971915--11971944	13	2.3	13	94	0	51	60	13	6	20	1.55
11972562--11972601	21	1.9	21	94	0	71	55	10	5	30	1.54
11972601--11972655	26	2.1	26	86	6	76	40	10	14	34	1.81
11972600--11972645	17	2.6	17	93	3	74	43	10	13	32	1.78
11973905--11973948	3	14.7	3	95	0	79	63	2	0	34	1.07
11974066--11974104	10	3.8	10	80	6	51	0	25	0	74	0.82
11974194--11974282	27	3.3	27	78	12	110	21	34	22	21	1.97
11984013--11984053	21	2.0	21	85	9	57	14	26	4	53	1.61
11993712--11993911	99	2.0	99	98	0	382	23	31	14	31	1.94
11996507--11996572	28	2.4	27	83	11	82	51	0	0	48	1.00
11999566--11999591	6	4.3	6	100	0	52	80	0	0	19	0.71
12010329--12010379	25	2.0	25	100	0	102	19	15	3	60	1.50
12016799--12016833	11	3.2	11	88	12	54	62	0	0	37	0.95
12017553--12017591	18	2.1	20	86	13	57	58	0	0	41	0.98
12017550--12017594	17	2.5	18	76	23	58	55	0	0	44	0.99
12017730--12017805	31	2.5	31	77	0	80	27	21	11	39	1.88
12018244--12018375	59	2.2	60	81	9	144	46	15	17	19	1.83
12023562--12023591	5	6.0	5	100	0	60	0	20	0	80	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12026689--12026717	15	1.9	15	100	0	58	58	20	0	20	1.39
12027957--12028007	23	2.2	23	83	16	70	60	0	0	39	0.97
12033418--12033476	30	2.0	30	83	9	77	27	5	3	64	1.30
12033429--12033496	30	2.2	31	80	12	79	26	2	2	67	1.19
12037705--12037733	2	14.5	2	100	0	58	51	0	48	0	1.00
12038626--12038687	30	2.1	30	88	11	92	46	11	14	27	1.78
12038462--12040623	892	2.5	863	82	7	2538	34	13	12	38	1.84
12050518--12050574	26	2.2	26	84	3	71	35	1	3	59	1.25
12054188--12054221	17	1.9	18	94	5	61	35	5	0	58	1.22
12054596--12054644	21	2.3	22	82	13	66	46	0	0	53	1.00
12057820--12057894	26	2.8	26	78	15	66	70	4	22	2	1.16
12058761--12058867	37	2.7	39	78	8	128	27	16	23	32	1.96
12059057--12059107	22	2.5	20	81	9	66	45	3	23	27	1.70
12063732--12063794	31	2.0	31	90	0	99	38	14	12	34	1.84
12064154--12064236	35	2.4	34	76	15	80	45	1	1	51	1.16
12071729--12071766	18	2.1	18	90	9	60	28	2	0	68	1.03
12073894--12073923	6	5.2	6	92	8	53	83	0	0	16	0.65
12073888--12073923	11	3.2	11	88	7	54	80	0	0	19	0.71
12081807--12081874	29	2.3	27	76	16	64	61	5	4	27	1.38
12081811--12081871	29	2.0	29	84	6	77	59	6	4	29	1.44
12083607--12083637	15	2.1	15	93	0	53	29	29	19	22	1.98
12086931--12087002	29	2.4	31	79	9	76	38	9	9	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12088177--12088219	18	2.3	19	80	4	52	18	6	27	46	1.75
12090474--12090642	82	2.1	82	98	0	329	28	17	9	44	1.80
12096627--12096656	15	2.0	15	93	0	51	33	3	30	33	1.74
12101691--12101821	43	3.0	43	82	0	181	29	29	18	23	1.98
12101699--12101840	43	3.3	43	80	0	158	28	28	19	23	1.98
12105845--12105889	23	2.0	23	86	8	65	40	6	6	46	1.56
12108407--12108451	23	2.0	23	86	8	65	40	6	6	46	1.56
12109852--12109878	14	1.9	14	100	0	54	48	0	29	22	1.51
12112001--12112036	17	2.2	16	90	9	56	13	16	0	69	1.19
12114483--12114749	50	5.4	50	77	11	230	26	21	28	22	1.99
12114545--12114719	90	1.9	90	89	0	251	25	22	32	20	1.98
12114484--12114749	140	1.9	142	82	6	340	26	21	28	22	1.99
12115014--12115052	12	3.2	12	85	0	51	51	5	23	20	1.67
12117805--12117847	21	2.0	21	86	8	61	34	0	6	58	1.25
12117830--12117994	58	2.9	58	80	8	178	42	1	3	52	1.29
12118174--12118219	16	2.9	16	90	0	74	28	30	6	34	1.82
12126279--12126306	9	3.1	9	100	0	56	10	42	0	46	1.38
12128068--12128097	7	4.3	7	100	0	60	30	0	0	70	0.88
12134193--12134257	32	2.0	32	93	0	112	67	6	9	16	1.38
12134207--12134264	21	2.8	21	77	10	50	68	8	8	13	1.37
12135059--12135113	23	2.4	24	85	8	71	56	1	0	41	1.10
12146454--12146499	24	1.9	24	81	0	56	36	10	13	39	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12148065--12148095	3	10.3	3	100	0	62	67	0	0	32	0.91
12166242--12166282	21	2.0	21	90	0	64	29	21	29	19	1.98
12168188--12168221	16	2.1	16	88	0	50	50	14	17	17	1.79
12169416--12169468	21	2.5	21	87	0	79	32	7	28	32	1.85
12176178--12176213	18	2.0	18	89	10	56	61	2	2	33	1.25
12177097--12177257	41	3.9	40	79	6	162	26	25	19	28	1.99
12179631--12179707	29	2.5	30	81	6	75	44	14	9	32	1.76
12180454--12180494	21	1.9	22	85	5	57	29	9	4	56	1.53
12181480--12181515	18	2.0	18	89	10	56	61	2	2	33	1.25
12186079--12186239	41	3.9	40	79	9	155	26	25	19	27	1.99
12189718--12189794	29	2.5	30	81	6	75	44	14	9	32	1.76
12190151--12190231	41	2.0	41	97	0	153	23	13	23	39	1.90
12197485--12197519	18	1.9	18	94	0	61	45	0	5	48	1.26
12217191--12217238	22	2.2	21	82	10	53	29	10	6	54	1.59
12240577--12240624	19	2.3	22	86	13	66	39	2	2	56	1.23
12240582--12240624	20	2.2	21	84	12	56	37	0	2	60	1.10
12240905--12240998	11	9.4	11	74	24	84	58	0	2	39	1.10
12240898--12240987	28	3.1	28	92	6	137	60	0	2	37	1.09
12240915--12240975	17	4.0	17	74	25	73	59	0	0	40	0.98
12243215--12243261	21	2.3	21	92	3	78	6	14	48	29	1.69
12243503--12243545	18	2.4	18	92	0	68	41	9	27	20	1.83
12244932--12245000	25	2.9	23	74	12	59	55	7	4	33	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12245651--12245728	29	2.8	29	81	12	85	3	3	23	69	1.22
12245650--12245728	25	2.8	30	83	12	89	3	5	22	68	1.26
12245675--12245728	25	2.2	25	96	3	101	3	3	18	74	1.12
12246556--12246616	30	2.0	30	90	6	97	42	27	9	19	1.83
12246516--12246717	84	2.4	84	99	0	395	39	20	11	28	1.88
12246640--12246700	30	2.0	30	90	6	97	42	27	9	19	1.83
12246849--12247535	77	8.8	77	76	12	461	33	19	17	29	1.95
12247130--12247156	14	1.9	14	100	0	54	62	7	14	14	1.51
12247042--12247214	94	1.8	94	86	2	249	32	19	20	28	1.96
12247136--12247535	74	5.3	75	82	4	489	32	20	17	30	1.95

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