genome.fa.s6.2.7.7.80.10.50.1000.39.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  42799318

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   

This is table  39  of  141  ( 16820 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)
11748480--11748523	22	2.0	21	91	4	70	2	11	4	81	0.92
11749217--11749251	16	2.1	16	89	10	52	22	0	8	68	1.16
11752217--11752452	50	4.6	50	80	4	220	29	20	27	22	1.99
11752226--11752465	100	2.3	102	80	8	263	28	20	27	23	1.99
11758987--11759049	30	2.0	32	87	12	94	57	12	7	22	1.61
11766528--11766616	29	3.3	28	67	27	84	29	24	0	46	1.53
11766513--11766620	51	2.1	50	94	3	189	29	24	0	46	1.53
11767553--11767590	20	1.9	20	84	10	51	34	5	2	57	1.35
11767761--11767785	7	3.6	7	100	0	50	28	0	12	60	1.32
11768437--11768471	18	1.9	18	94	0	61	25	31	8	34	1.86
11768894--11768981	45	2.0	46	88	4	135	38	0	12	48	1.41
11768949--11769110	25	6.7	25	83	11	221	42	0	14	43	1.45
11768904--11769075	69	2.5	69	94	1	290	40	0	13	45	1.43
11769159--11769467	23	13.3	23	71	22	195	44	24	0	30	1.57
11769257--11769316	29	2.1	29	96	0	111	45	26	0	28	1.54
11769207--11769388	97	1.9	97	100	0	364	45	25	0	29	1.54
11769286--11769458	68	2.5	71	85	5	228	43	26	0	30	1.55
11769461--11769816	116	3.1	116	97	0	658	38	8	10	42	1.69
11769792--11769833	17	2.4	18	80	4	50	42	7	4	45	1.52
11771930--11772401	126	3.8	126	93	1	815	32	22	16	28	1.96
11775747--11775844	48	2.0	48	88	6	142	27	34	6	31	1.81
11778005--11778058	22	2.5	22	93	0	99	29	27	24	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11780705--11780759	24	2.3	24	87	0	74	43	3	36	16	1.65
11782047--11782091	20	2.2	20	84	0	54	28	8	6	55	1.56
11791621--11792048	213	2.0	214	97	0	804	32	24	16	26	1.96
11792431--11792728	113	2.7	111	82	9	338	40	13	16	30	1.86
11792728--11793008	108	2.5	111	86	7	381	35	14	11	38	1.81
11797059--11797107	25	2.0	25	84	8	64	51	6	0	42	1.27
11797255--11797306	21	2.6	20	85	11	63	38	3	0	57	1.17
11798965--11799003	19	2.1	18	86	13	53	82	0	12	5	0.83
11807348--11807406	9	7.1	8	74	18	50	59	1	0	38	1.08
11807344--11807406	16	3.8	17	74	18	53	58	1	0	39	1.07
11807348--11807406	25	2.4	24	83	8	75	59	1	0	38	1.08
11807869--11807912	22	2.0	22	82	8	54	45	4	0	50	1.22
11812174--11812236	31	2.0	31	96	0	117	25	23	15	34	1.95
11817557--11817620	31	2.1	31	84	0	83	46	21	1	29	1.61
11818263--11818289	13	2.1	13	100	0	54	37	0	22	40	1.54
11820757--11820803	25	2.0	23	84	16	60	8	27	2	61	1.36
11823991--11824327	51	6.7	50	82	5	383	29	26	14	28	1.95
11823987--11824327	102	3.4	102	88	2	481	29	26	14	28	1.95
11827288--11827348	30	2.0	30	96	0	113	34	9	13	42	1.77
11829905--11829939	10	3.5	10	96	0	61	34	0	2	62	1.10
11832841--11833046	71	2.9	71	81	2	234	17	21	30	31	1.96
11840042--11840102	25	2.4	25	80	0	77	19	31	18	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11842197--11842337	71	2.0	71	95	1	257	29	17	24	29	1.97
11842782--11843098	109	2.9	109	95	0	548	34	18	17	30	1.94
11843224--11843254	16	1.9	16	93	0	53	67	3	6	22	1.28
11843416--11843449	18	1.9	18	88	5	52	52	0	14	32	1.42
11843716--11843746	13	2.4	13	100	0	62	54	6	0	38	1.26
11843873--11844012	70	2.0	70	97	0	262	52	13	22	12	1.73
11859886--11859911	10	2.6	10	100	0	52	61	11	26	0	1.30
11881874--11881933	21	2.9	21	85	9	86	46	16	23	13	1.82
11896400--11896442	19	2.1	21	87	8	63	46	4	0	48	1.22
11897571--11897629	10	6.1	10	80	7	59	35	1	1	61	1.16
11902972--11903047	18	4.2	18	83	3	73	42	7	42	7	1.63
11904840--11904873	17	1.9	18	88	5	52	61	5	0	32	1.20
11907520--11907562	18	2.5	17	85	7	52	44	2	0	53	1.13
11914396--11914430	18	2.0	18	94	5	63	11	28	45	14	1.79
11915372--11915420	18	2.7	18	83	3	62	40	2	20	36	1.64
11921782--11921830	18	2.7	18	83	3	62	40	2	20	36	1.64
11929366--11929400	18	1.9	18	88	0	52	68	8	5	17	1.35
11932104--11932156	3	17.7	3	100	0	106	33	0	0	66	0.92
11932492--11932530	18	2.2	17	90	4	60	12	5	7	74	1.20
11932638--11933035	111	3.6	111	94	1	660	31	16	19	33	1.94
11944833--11945356	50	10.5	50	74	8	386	31	24	20	23	1.98
11944816--11945313	100	5.0	100	83	4	429	31	25	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11944833--11945306	150	3.2	150	80	5	496	31	24	20	23	1.98
11944878--11945356	100	4.8	100	83	4	461	31	24	20	23	1.98
11946780--11946805	3	8.7	3	100	0	52	34	0	0	65	0.93
11947141--11947179	18	2.2	17	90	4	60	12	5	7	74	1.20
11949900--11949959	28	2.1	28	100	0	120	58	3	10	28	1.46
11954226--11954395	46	3.7	45	81	3	198	42	10	21	25	1.83
11954480--11954548	27	2.6	27	85	0	84	31	23	30	14	1.94
11954498--11954554	27	2.1	27	90	0	87	26	26	31	15	1.96
11954505--11954566	27	2.3	27	82	0	79	30	24	30	14	1.95
11958187--11958306	45	2.7	46	82	3	172	40	10	23	25	1.86
11958187--11958321	45	3.0	46	81	3	166	39	13	22	24	1.90
11963301--11963529	112	2.0	112	96	1	424	17	14	24	42	1.87
11964041--11964069	14	2.0	15	93	6	51	34	3	6	55	1.44
11968717--11968778	22	2.8	21	68	18	54	43	14	20	20	1.87
11968717--11968782	23	3.0	22	68	18	64	43	13	21	21	1.86
11968711--11968888	46	3.9	46	84	0	205	40	11	23	24	1.88
11972452--11972593	50	2.8	50	97	2	266	30	11	12	44	1.79
11975388--11975455	27	2.5	27	88	4	93	36	14	33	14	1.87
11975475--11975529	27	2.0	27	82	6	67	30	7	34	27	1.84
11979115--11979184	36	2.0	35	88	2	104	35	11	21	31	1.89
11985511--11985552	14	3.1	14	75	6	50	66	7	4	21	1.35
11989573--11989901	167	2.0	166	96	0	604	31	22	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11990396--11990448	5	10.6	5	100	0	106	20	0	18	60	1.36
11990421--11990644	72	3.0	72	85	6	286	40	7	7	44	1.60
11990427--11990645	76	2.9	74	85	4	289	41	7	6	44	1.60
11993458--11993648	42	4.6	41	83	8	217	28	15	25	30	1.96
11993465--11993648	83	2.2	84	83	10	218	28	15	25	30	1.96
11997260--11997333	28	2.6	28	83	8	87	39	12	18	29	1.87
12004610--12004657	15	3.3	14	74	8	51	33	0	8	58	1.28
12004612--12004657	14	3.0	16	75	18	53	32	0	8	58	1.28
12005763--12005797	18	1.9	18	88	0	52	45	2	0	51	1.16
12006703--12006742	20	2.0	20	90	0	62	25	17	27	30	1.97
12006824--12006864	3	14.0	3	84	5	57	70	0	26	2	0.99
12013340--12013423	3	28.0	3	92	0	141	2	30	0	66	1.04
12013579--12013646	31	2.2	31	84	7	86	25	10	16	48	1.77
12014997--12015036	2	20.0	2	94	0	71	50	2	0	47	1.14
12015617--12015691	32	2.4	30	79	14	80	38	16	17	28	1.91
12017025--12017088	28	2.3	28	86	0	101	23	17	9	50	1.75
12018195--12018229	18	2.0	18	88	5	54	57	2	2	37	1.29
12020642--12020783	48	2.9	50	78	5	146	35	23	25	15	1.94
12020694--12020761	26	2.7	26	81	4	77	39	23	20	16	1.91
12020631--12020776	24	5.8	25	76	7	127	34	23	25	15	1.95
12021215--12021264	21	2.4	21	83	3	57	44	20	0	36	1.52
12022601--12022639	20	2.0	20	94	0	69	33	12	10	43	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12027316--12027394	41	1.9	41	89	0	122	22	16	30	30	1.96
12028595--12028645	25	2.0	25	84	0	66	29	23	19	27	1.98
12034668--12034754	23	3.7	23	80	4	95	33	13	16	36	1.88
12037272--12037373	25	4.2	25	77	12	88	16	24	22	36	1.94
12037393--12037446	25	2.2	24	83	3	63	18	24	20	37	1.94
12042856--12043031	69	2.5	69	82	5	196	23	6	25	45	1.76
12043542--12043600	10	6.0	10	75	9	50	57	0	0	42	0.98
12043524--12043600	40	1.9	40	86	5	111	61	0	0	38	0.96
12043533--12043611	30	2.5	30	78	15	88	59	0	0	40	0.97
12045304--12045342	2	19.5	2	100	0	78	0	0	48	51	1.00

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