genome.fa.s12.2.7.7.80.10.50.1000.1.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: Chr5
Parameters: 2 7 7 80 10 50 1000
Length:  43060996

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   

This is table  1  of  128  ( 15303 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)
3274--3331	4	14.5	4	100	0	116	25	0	24	50	1.50
7209--7234	4	6.5	4	100	0	52	26	0	0	73	0.84
11453--11512	28	2.1	28	87	6	84	56	0	0	43	0.99
13329--13362	17	2.0	17	88	0	50	35	0	0	64	0.94
16390--16442	25	2.1	25	93	6	90	26	18	24	30	1.98
24601--24631	2	15.5	2	100	0	62	48	0	0	51	1.00
25571--25595	1	25.0	1	100	0	50	100	0	0	0	0.00
26722--26746	12	2.1	12	100	0	50	0	8	32	60	1.26
33664--33860	95	2.0	97	88	5	292	34	10	7	47	1.66
36492--36656	82	2.0	83	98	1	323	38	6	3	51	1.44
38167--38237	34	2.1	34	94	0	124	39	30	9	19	1.84
40197--40251	21	2.6	21	85	0	74	25	9	36	29	1.87
43601--43633	6	5.5	6	92	0	57	39	0	60	0	0.97
43601--43641	18	2.3	18	87	8	57	41	0	58	0	0.98
50871--50915	14	3.1	14	87	6	63	44	0	6	48	1.29
58511--58542	6	5.3	6	100	0	64	0	15	65	18	1.27
71084--71229	36	4.1	36	90	0	220	15	19	39	25	1.91
73394--73420	4	6.8	4	100	0	54	25	0	0	74	0.83
76735--76764	14	2.1	14	93	0	51	43	0	3	53	1.17
76790--76837	23	2.1	22	81	14	53	68	6	2	22	1.23
77076--77105	9	3.3	9	100	0	60	10	33	0	56	1.32
78625--78667	18	2.4	18	84	0	59	41	0	44	13	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
81821--81926	4	26.5	4	90	0	77	43	33	6	16	1.74
84898--84951	25	2.1	26	89	3	83	53	16	14	14	1.73
98950--98990	21	1.9	21	90	5	64	58	4	14	21	1.55
105383--105443	31	2.0	31	87	6	88	44	9	8	37	1.68
112876--113279	129	3.2	126	85	4	546	40	11	18	29	1.86
116012--116040	12	2.4	12	100	0	58	34	34	13	17	1.89
119458--119490	4	8.2	4	100	0	66	51	24	0	24	1.48
124401--124453	26	2.0	26	82	7	63	24	5	0	69	1.09
125476--126031	275	2.0	276	99	0	1098	34	13	10	41	1.79
134522--134552	13	2.4	13	94	0	53	41	6	12	38	1.69
134701--134748	14	3.3	15	80	11	55	39	4	6	50	1.47
138108--138178	36	2.0	36	94	0	124	25	36	5	32	1.79
149290--149336	20	2.5	19	75	6	51	40	2	2	55	1.24
149568--149639	13	5.5	13	89	0	99	41	23	11	23	1.86
149564--149639	26	2.9	26	94	0	125	39	25	10	25	1.87
170486--170531	19	2.4	19	85	7	58	39	13	2	45	1.55
171550--171589	19	2.1	19	86	9	55	57	2	0	40	1.12
180927--180967	19	2.0	21	86	13	59	43	0	2	53	1.13
185029--185073	15	2.8	17	74	19	51	48	2	2	46	1.26
185629--185693	34	1.9	34	87	6	96	46	6	0	47	1.27
194678--194771	47	2.0	47	100	0	188	48	19	19	12	1.80
201373--201421	24	2.0	24	84	0	62	24	24	14	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
205691--205732	13	3.3	13	83	3	50	69	4	9	16	1.33
212143--212296	31	4.6	31	66	21	96	49	5	4	40	1.47
212138--212344	103	2.0	104	99	0	407	47	5	4	41	1.48
232894--233094	98	2.0	99	99	0	395	34	3	3	57	1.34
233094--233146	19	2.6	20	88	8	72	33	3	7	54	1.46
233727--233772	24	1.9	24	90	0	74	43	6	10	39	1.66
239947--239995	25	1.9	25	87	4	71	32	2	10	55	1.45
240254--240279	12	2.2	12	100	0	52	53	0	15	30	1.42
246523--246561	5	7.8	5	88	0	60	41	5	0	53	1.23
246524--246561	20	1.9	20	94	0	67	42	5	0	52	1.24
251407--251850	221	2.0	222	99	0	881	32	8	14	44	1.75
254579--254648	30	2.5	28	81	9	79	38	4	4	52	1.41
254588--254661	30	2.4	31	80	13	82	37	2	4	55	1.33
267623--267722	49	2.0	49	94	0	173	23	17	22	38	1.93
278705--278745	22	1.9	21	85	5	55	46	9	24	19	1.80
282127--282162	3	12.0	3	93	0	63	36	0	33	30	1.58
282335--282363	15	1.9	15	100	0	58	13	0	0	86	0.58
284865--284899	2	17.5	2	100	0	70	48	0	0	51	1.00
293575--293600	13	2.0	13	100	0	52	46	0	7	46	1.31
294124--294175	27	2.0	25	85	7	68	65	5	1	26	1.26
294658--294704	25	1.9	24	86	4	67	27	6	6	59	1.46
320582--320645	28	2.3	28	78	10	69	39	1	1	57	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
321610--321661	24	2.1	25	89	3	79	59	0	3	36	1.16
321744--321776	16	2.1	16	100	0	66	36	0	6	57	1.23
325014--325039	12	2.2	12	100	0	52	46	15	15	23	1.83
326919--326971	21	2.5	21	96	0	97	35	13	13	37	1.83
327034--327077	21	2.1	21	83	8	54	50	4	11	34	1.59
340827--340872	2	23.0	2	86	0	65	50	0	6	43	1.28
343236--343425	94	2.0	95	98	1	373	37	9	4	48	1.55
349719--349764	20	2.4	19	81	3	56	30	0	19	50	1.48
360688--360756	37	1.9	34	83	13	86	47	0	1	50	1.09
360720--360770	26	1.9	26	88	4	75	47	0	0	52	1.00
360805--360977	57	3.0	57	100	0	346	32	17	8	40	1.81
378946--378979	2	17.0	2	93	0	59	52	0	0	47	1.00
387425--387474	16	3.1	16	72	16	50	64	0	18	18	1.30
389320--389386	31	2.2	31	86	2	91	40	2	14	41	1.62
393347--393385	20	2.0	20	89	0	60	53	5	0	41	1.23
395335--395647	156	2.0	157	99	0	619	45	12	12	30	1.79
396565--396597	15	2.1	17	88	11	52	36	12	24	27	1.91
398300--398348	24	2.0	24	100	0	98	24	12	20	42	1.86
406416--406467	25	2.1	25	100	0	104	19	15	15	50	1.79
416942--417118	69	2.5	70	82	5	223	42	20	10	27	1.84
422949--423027	31	2.5	30	80	11	79	27	20	13	37	1.91
434269--434315	23	2.1	22	84	7	60	34	2	8	55	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439077--439124	21	2.2	22	77	3	53	58	2	16	22	1.49
441547--441663	60	2.0	60	91	3	191	29	12	29	27	1.93
446054--446092	19	2.1	19	90	0	60	28	23	0	48	1.51
446075--446166	28	3.3	29	67	19	79	31	14	1	53	1.48
446155--446195	19	2.2	19	86	4	57	21	9	0	68	1.18
446326--446368	21	2.0	21	82	8	52	34	4	0	60	1.17
449129--449185	18	3.0	18	68	22	53	38	19	3	38	1.69
450776--450820	18	2.6	18	85	3	65	40	11	2	46	1.52
456483--456538	3	18.7	3	100	0	112	0	33	0	66	0.92
459807--460033	43	5.3	43	88	1	339	28	33	18	20	1.96
459800--460033	128	1.8	128	91	0	387	29	32	17	20	1.96
459814--460033	85	2.6	86	88	1	334	28	32	18	20	1.96
460776--460827	23	2.3	23	79	0	59	34	7	30	26	1.85
462590--462870	41	6.9	41	86	4	363	31	30	19	17	1.95
467385--467409	7	3.6	7	100	0	50	56	0	0	44	0.99
468107--468271	79	2.1	79	96	0	303	21	15	24	38	1.92
468277--468312	17	2.1	17	90	10	56	30	5	0	63	1.17
469896--469929	12	2.9	11	91	4	50	76	0	2	20	0.92
480577--480632	20	2.6	22	76	18	64	48	0	0	51	1.00
481439--481463	13	1.9	13	100	0	50	40	4	0	56	1.18
486121--486153	15	2.3	15	89	5	50	33	15	6	45	1.70
487047--487198	43	3.5	43	85	3	196	34	21	21	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487047--487174	45	2.9	42	87	6	184	33	19	21	25	1.97
487099--487252	43	3.6	42	78	6	123	31	22	20	25	1.98
487744--487785	21	2.0	21	86	9	59	11	47	11	28	1.76
488934--489045	9	13.2	9	72	20	82	33	2	19	44	1.65
488939--489010	25	3.0	24	82	15	94	33	0	19	47	1.50
488947--488983	16	2.3	16	100	0	74	29	0	18	51	1.47
488939--489047	41	2.6	41	81	9	141	32	1	19	46	1.60
488947--489024	16	5.3	16	74	22	64	30	1	20	47	1.58
492107--492375	98	3.0	85	79	8	234	29	19	17	32	1.95
492197--492395	98	2.0	98	90	1	310	30	20	16	33	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