genome.fa.s22.2.7.7.80.10.50.1000.157.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  50190067

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   

This is table  157  of  161  ( 19208 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)
48902448--48902493	22	2.0	23	87	4	67	30	4	32	32	1.77
48902455--48902504	23	2.2	22	85	3	64	30	2	32	36	1.69
48903112--48903247	39	3.5	39	94	3	238	49	2	16	32	1.58
48907743--48907773	15	2.1	15	100	0	62	54	0	38	6	1.26
48914309--48915075	205	3.7	203	92	2	1196	29	17	22	30	1.97
48915192--48915761	44	13.0	44	74	9	441	31	18	24	25	1.98
48915192--48915762	133	4.3	132	85	5	719	31	18	24	25	1.98
48915129--48915688	88	6.4	88	79	7	516	31	19	24	25	1.98
48916222--48916278	22	2.5	23	85	2	71	29	3	29	36	1.74
48916229--48916278	23	2.2	22	85	3	64	30	2	30	38	1.69
48916753--48916907	40	3.9	40	93	3	244	47	3	19	30	1.65
48916753--48916907	78	2.0	80	89	5	244	47	3	19	30	1.65
48924214--48924271	30	1.9	29	83	13	73	62	6	0	31	1.22
48931807--48931861	29	2.0	28	86	13	80	40	0	1	58	1.09
48936939--48936976	16	2.4	16	86	0	58	44	21	23	10	1.83
48937203--48937277	29	2.6	29	87	2	89	24	16	34	25	1.95
48937209--48937277	28	2.4	29	90	2	104	26	14	31	27	1.95
48942632--48942662	16	1.9	16	100	0	62	29	12	25	32	1.93
48942712--48942925	47	4.7	44	78	12	171	21	29	20	28	1.98
48943265--48943321	30	1.9	30	92	0	96	28	22	14	35	1.93
48943938--48943979	22	1.9	22	95	0	75	19	40	28	11	1.87
48944066--48944104	11	3.6	10	89	10	51	61	0	38	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48944066--48944104	16	2.4	16	87	12	53	61	0	38	0	0.96
48944066--48944104	5	7.2	5	91	8	51	61	0	38	0	0.96
48944140--48944210	6	11.7	6	79	7	63	74	0	23	1	0.90
48944143--48944200	20	3.0	20	85	5	75	70	0	27	1	0.97
48944136--48944208	26	2.8	26	83	2	85	73	0	24	1	0.90
48944952--48945003	15	3.4	16	76	10	54	67	3	3	25	1.25
48944951--48945007	30	1.9	29	85	3	78	66	3	3	26	1.24
48944613--48945295	141	4.9	142	89	5	973	59	7	5	27	1.48
48945084--48945154	14	5.3	13	73	17	56	74	2	1	21	1.02
48945089--48945134	14	3.2	14	84	6	65	73	0	0	26	0.83
48945083--48945134	14	3.4	15	84	10	61	73	0	0	26	0.84
48944613--48946033	146	10.0	141	77	11	1019	56	7	6	29	1.52
48945657--48945731	30	2.8	25	75	16	78	70	4	2	22	1.16
48945696--48945731	13	2.9	12	84	8	54	77	5	0	16	0.94
48945842--48945876	13	2.9	12	88	12	54	74	8	0	17	1.06
48957278--48957312	17	2.1	17	100	0	70	65	0	11	22	1.24
48960018--48960065	12	3.8	12	79	15	60	29	18	18	33	1.95
48960017--48960080	27	2.4	27	100	0	128	31	20	17	31	1.95
48960030--48960080	15	3.6	15	79	15	72	31	21	15	31	1.95
48960056--48960132	41	1.9	40	86	2	109	28	18	18	35	1.94
48960547--48960610	28	2.3	28	78	7	78	37	0	0	62	0.95
48960547--48960613	27	2.5	25	79	13	71	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48969534--48969581	25	1.9	25	100	0	96	27	25	12	35	1.92
48977745--48977814	30	2.3	30	76	11	72	48	7	4	40	1.50
48978126--48978168	20	2.2	19	83	4	50	34	2	2	60	1.22
48978812--48978898	41	2.1	41	83	6	106	39	21	21	17	1.93
48978891--48979162	41	6.6	41	88	1	375	23	20	29	26	1.99
48978891--48979162	123	2.2	123	90	0	427	23	20	29	26	1.99
48979468--48979518	18	2.8	18	85	8	68	45	3	1	49	1.32
48979938--48979969	15	2.1	15	94	0	55	59	0	9	31	1.29
48993091--48993330	43	5.6	43	93	3	403	24	32	20	22	1.97
48993091--48993330	129	1.9	129	97	1	455	24	32	20	22	1.97
48994215--48994248	16	2.1	16	100	0	68	38	29	0	32	1.58
48996709--48996767	24	2.5	24	97	0	109	40	11	6	40	1.68
49009235--49009272	18	2.1	18	85	9	51	13	15	10	60	1.59
49016412--49016515	26	4.0	26	91	0	172	32	6	24	36	1.81
49023452--49023551	26	3.8	26	91	0	164	33	6	24	37	1.80
49025037--49025089	26	2.0	26	85	7	72	39	20	15	24	1.91
49032673--49032823	76	2.0	76	96	0	275	41	19	19	19	1.91
49035708--49035842	41	3.3	41	71	13	141	46	1	3	48	1.29
49035749--49035863	21	5.5	21	67	22	82	48	0	3	46	1.25
49035698--49035875	83	2.1	82	94	3	320	48	1	3	47	1.26
49035719--49035850	38	3.3	38	69	17	122	48	1	3	46	1.29
49035840--49035876	14	2.7	14	91	4	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49035757--49035874	27	4.3	27	65	19	73	49	0	3	46	1.24
49036713--49036750	19	2.0	19	100	0	76	57	26	10	5	1.53
49037903--49038028	50	2.5	51	92	2	209	34	16	23	24	1.95
49039854--49039895	20	2.0	22	86	9	61	42	0	0	57	0.99
49040199--49040418	109	2.0	109	100	0	440	46	9	10	34	1.69
49043593--49043649	28	2.0	28	86	0	78	29	7	5	57	1.47
49056220--49056703	75	6.4	74	88	7	629	30	17	21	30	1.96
49056347--49056635	158	1.8	159	92	2	492	29	17	20	33	1.95
49057863--49057908	11	3.8	12	83	13	58	80	0	2	17	0.81
49058169--49058265	48	2.0	48	97	0	185	32	12	9	45	1.74
49058774--49058830	28	2.0	28	86	0	78	29	7	5	57	1.47
49060673--49062444	591	3.0	591	99	0	3472	21	21	20	36	1.95
49069536--49069724	107	1.8	102	83	10	249	28	12	7	51	1.66
49089064--49089092	10	2.9	10	100	0	58	51	0	48	0	1.00
49091435--49091584	56	2.7	55	80	5	176	47	7	15	30	1.72
49099436--49099487	24	2.2	24	85	0	68	53	9	3	32	1.51
49101303--49101365	30	2.1	29	83	13	76	53	1	11	33	1.46
49109484--49109534	22	2.4	21	83	9	59	56	17	5	19	1.61
49112351--49112409	4	14.8	4	78	0	55	8	20	45	25	1.79
49112351--49112397	20	2.3	20	92	0	76	8	19	46	25	1.77
49113385--49113443	29	2.1	28	81	9	66	49	0	22	28	1.50
49121647--49121707	30	2.0	30	90	6	97	24	34	24	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49123094--49123125	5	6.6	5	92	7	57	81	0	0	18	0.70
49128805--49128852	25	1.9	25	83	8	62	31	18	18	31	1.95
49133324--49133380	29	2.0	29	96	0	105	36	8	15	38	1.79
49134100--49134139	21	1.9	21	94	0	71	20	27	12	40	1.88
49137348--49137413	22	3.1	22	66	16	66	15	33	30	21	1.94
49137331--49137413	42	2.0	42	92	0	139	18	31	28	21	1.97
49140154--49140244	46	2.0	46	95	0	164	40	29	13	16	1.86
49149787--49149834	6	8.3	6	86	4	64	14	0	4	81	0.84
49153051--49153095	18	2.4	19	92	3	74	44	0	2	53	1.13
49167222--49167601	43	8.6	43	85	6	528	30	32	25	12	1.93
49167594--49167736	38	3.8	38	86	0	196	31	28	19	20	1.97
49167593--49167757	76	2.1	78	84	3	217	30	27	20	20	1.98
49173258--49173284	14	1.9	14	100	0	54	55	0	44	0	0.99
49176793--49176842	26	1.9	26	100	0	100	38	24	6	32	1.79
49193294--49193349	29	1.9	29	86	13	80	71	0	8	19	1.12
49193440--49193480	21	2.0	21	85	0	55	29	26	14	29	1.95
49194920--49194970	18	2.8	18	82	8	59	68	1	0	29	1.00
49195065--49195128	33	1.9	33	87	0	92	29	14	46	9	1.75
49198019--49198058	19	2.1	19	100	0	80	60	15	0	25	1.35
49198149--49198180	13	2.5	13	100	0	64	34	21	15	28	1.94
49200730--49200777	20	2.5	20	82	3	53	72	2	6	18	1.15
49202686--49202812	35	3.6	35	93	2	202	40	32	11	15	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49207867--49207916	27	1.9	25	92	8	82	66	4	0	30	1.10
49211903--49211956	28	1.9	28	100	0	108	44	27	11	16	1.82
49219669--49219700	7	4.6	7	100	0	64	87	0	0	12	0.54
49220110--49220151	3	14.0	3	100	0	84	33	33	0	33	1.58
49228993--49229036	18	2.4	18	88	0	61	45	0	2	52	1.13
49235606--49235656	25	2.1	24	82	10	59	3	23	0	72	1.01
49235615--49235653	14	2.7	15	84	8	53	2	23	0	74	0.94
49235695--49235732	13	2.7	15	80	12	53	0	28	0	71	0.87
49238771--49238802	14	2.3	14	94	0	55	31	46	18	3	1.65
49239303--49239431	43	3.0	44	76	6	147	17	32	31	17	1.94

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