genome.fa.s8.2.7.7.80.10.50.1000.2.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: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

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   

This is table  2  of  135  ( 16172 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)
240569--240609	16	2.6	16	92	0	73	60	0	0	39	0.96
240574--240603	8	3.8	8	90	0	51	60	0	0	40	0.97
243188--243248	26	2.3	28	88	11	101	52	0	6	40	1.27
262142--262176	6	5.7	6	90	6	52	20	11	68	0	1.20
275915--275941	13	2.1	13	100	0	54	40	0	0	59	0.98
277184--277318	70	1.9	71	92	4	229	48	11	0	39	1.45
277215--277272	25	2.3	25	90	0	89	43	13	1	41	1.55
277215--277315	25	4.2	25	69	14	88	46	11	0	40	1.47
277461--277505	21	2.1	21	84	8	56	8	24	31	35	1.86
281380--281417	20	1.9	20	84	10	51	55	7	2	34	1.43
282361--282437	11	6.9	11	78	19	72	42	1	31	24	1.63
282361--282437	22	3.5	22	83	16	97	42	1	31	24	1.63
282361--282436	33	2.3	35	84	9	104	42	1	31	25	1.63
289368--289392	7	3.6	7	100	0	50	0	12	24	64	1.27
290110--290151	21	2.0	21	95	0	75	42	11	21	23	1.86
295539--295747	104	2.0	105	99	0	411	42	13	19	24	1.87
302795--302822	6	4.7	6	100	0	56	32	50	0	17	1.47
303663--303701	19	2.1	19	90	0	60	48	12	10	28	1.74
303651--303715	33	1.9	34	87	3	96	44	12	9	33	1.74
303685--303724	14	2.9	14	84	0	53	42	17	7	32	1.77
310273--310420	48	3.1	48	98	1	278	18	32	10	39	1.84
325583--325627	24	1.9	23	86	4	63	42	6	35	15	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
325687--325733	23	2.0	24	84	15	64	40	2	4	53	1.32
326045--326090	16	2.9	16	86	0	65	26	30	2	41	1.68
327021--327045	8	3.1	8	100	0	50	40	12	36	12	1.79
328078--328302	123	1.8	123	92	0	378	28	15	22	33	1.94
331478--331657	55	3.2	54	88	4	229	46	4	12	37	1.62
331652--331699	24	2.0	25	91	4	80	20	0	33	45	1.52
331651--331936	29	9.7	29	84	5	351	23	0	30	45	1.53
331651--331936	59	4.8	58	84	6	360	23	0	30	45	1.53
331656--331936	88	3.2	87	85	5	359	23	0	31	45	1.53
331873--331925	13	3.7	13	73	22	52	18	0	32	49	1.48
333536--334147	307	2.0	307	91	0	999	26	30	17	25	1.97
337401--337458	30	1.9	31	85	3	82	34	20	1	43	1.62
338531--338654	51	2.4	51	85	5	171	45	0	22	30	1.58
338630--338669	11	3.6	11	86	6	55	47	0	32	20	1.50
338853--339056	101	2.0	101	91	2	329	36	10	3	49	1.55
349469--349795	163	2.0	163	99	0	645	41	21	8	29	1.82
355495--355694	95	2.1	95	78	4	217	42	5	15	37	1.68
355757--355873	48	2.4	48	84	4	164	45	7	6	40	1.60
356440--356482	18	2.4	18	88	0	59	44	9	27	18	1.80
358302--358343	11	3.9	11	90	3	59	50	0	30	19	1.48
358996--359051	29	2.0	29	82	3	69	55	5	0	39	1.23
375583--375659	33	2.3	34	80	10	95	44	3	27	24	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375591--375658	11	6.0	11	87	3	73	44	2	29	23	1.68
391589--391618	8	3.8	8	100	0	60	23	0	0	76	0.78
394310--394382	31	2.4	31	81	2	85	42	16	9	31	1.80
394328--394393	31	2.1	31	82	0	78	42	15	9	33	1.78
397291--397335	11	4.3	10	80	8	54	4	11	8	75	1.17
397289--397332	16	2.8	16	86	6	63	4	11	11	72	1.25
397343--397425	30	2.8	30	75	13	75	48	2	3	45	1.33
398905--398947	19	2.3	19	84	8	52	34	2	4	58	1.32
416168--416233	30	2.2	30	89	5	98	21	22	18	37	1.94
420923--420966	16	2.8	15	80	10	52	77	0	22	0	0.77
420923--420967	15	2.9	15	84	12	56	77	0	22	0	0.76
421212--421236	2	12.5	2	100	0	50	52	0	0	48	1.00
423086--423171	45	1.9	45	85	4	120	44	19	13	22	1.86
449049--449202	75	2.0	76	98	1	301	40	16	9	33	1.81
460036--460088	20	2.7	20	82	5	63	26	7	1	64	1.31
460151--460227	27	2.8	28	76	4	84	33	2	0	63	1.08
463790--463996	103	2.0	104	99	0	407	41	12	12	33	1.81
465970--466031	30	2.1	30	96	0	115	35	24	8	32	1.85
466541--466674	57	2.3	59	83	10	161	24	15	15	44	1.86
467457--467501	19	2.4	19	85	7	56	42	8	0	48	1.34
467771--467827	20	2.9	19	89	10	80	66	0	3	29	1.08
469932--470065	57	2.4	55	83	9	166	40	6	5	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470958--470997	21	1.9	21	89	0	62	55	2	0	42	1.13
475605--475636	5	6.4	5	100	0	64	81	18	0	0	0.70
484897--485190	142	2.1	142	100	0	588	30	18	19	31	1.96
487794--487836	5	8.6	5	90	10	70	60	0	39	0	0.97
487958--487990	6	5.7	6	92	7	59	87	0	12	0	0.53
487958--487990	11	2.8	12	95	4	59	87	0	12	0	0.53
488600--488717	45	2.6	46	81	2	141	31	11	14	43	1.80
491168--491219	26	2.0	25	82	14	61	59	3	0	36	1.16
491453--491486	16	2.1	16	89	10	52	20	5	2	70	1.21
493452--493497	23	2.0	23	95	0	83	28	21	6	43	1.77
510264--510297	15	2.3	15	89	0	50	64	0	11	23	1.26
513656--513712	25	2.2	26	77	19	66	64	1	0	33	1.04
516264--516289	2	13.0	2	100	0	52	50	0	0	50	1.00
522341--522374	17	1.9	18	88	5	52	41	0	23	35	1.55
522765--522803	19	2.1	19	100	0	78	30	10	25	33	1.89
522847--522910	21	3.0	22	72	9	69	18	18	25	37	1.94
523447--523510	21	3.0	22	70	9	60	39	25	17	18	1.92
529582--529618	12	3.2	12	85	14	51	56	2	0	40	1.13
529562--529618	11	5.3	11	75	25	59	56	1	1	40	1.20
529602--529647	22	2.2	20	82	17	58	58	4	4	32	1.37
529603--529647	23	2.0	21	87	8	63	60	4	4	31	1.37
537172--537210	2	19.5	2	100	0	78	0	0	48	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537322--537550	101	2.3	101	94	0	404	30	15	25	28	1.96
537555--537605	24	2.1	24	92	0	84	45	5	25	23	1.75
538137--538176	20	2.0	20	85	9	55	22	5	27	45	1.73
539076--539159	42	2.0	42	95	4	154	29	4	4	60	1.38
544908--544974	35	1.9	35	96	0	125	43	22	2	31	1.68
554642--554804	89	1.8	89	82	11	210	37	6	15	40	1.74
554894--554942	23	2.1	24	88	3	73	57	16	4	22	1.56
557775--557811	2	18.5	2	100	0	74	51	0	0	48	1.00
569229--569478	123	2.0	123	98	0	482	34	13	12	40	1.82
585833--585875	17	2.4	17	84	7	50	53	2	0	44	1.13
597365--597392	6	4.7	6	100	0	56	35	28	0	35	1.58
607726--607999	112	2.4	112	77	5	286	31	19	22	27	1.98
607994--608606	115	5.4	114	80	4	637	31	20	23	24	1.98
607994--608606	229	2.7	225	83	5	728	31	20	23	24	1.98
612025--612203	42	4.2	43	76	4	157	30	19	20	29	1.97
612086--612198	41	2.7	42	83	5	158	32	21	20	25	1.97
613712--613744	5	6.8	5	96	3	59	42	0	0	57	0.98
613682--613744	13	4.6	14	77	18	62	42	1	1	53	1.19
613750--613801	4	13.2	4	80	11	63	75	0	23	1	0.91
613750--613800	15	3.3	15	89	10	68	76	0	21	1	0.88
613755--613812	20	3.0	19	85	5	80	74	0	25	0	0.82
613759--613810	11	4.2	13	81	16	58	75	0	25	0	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
622647--622718	21	3.4	21	90	0	99	19	30	29	20	1.97
624642--624705	25	2.4	26	84	7	76	62	4	3	29	1.31
625034--625080	23	2.0	24	83	8	60	44	2	2	51	1.25
630260--630284	8	3.1	8	100	0	50	52	0	24	24	1.48
635135--635199	5	12.8	5	74	19	55	75	6	18	0	1.00
635136--635198	9	6.3	9	75	15	54	74	6	19	0	1.02
650585--650705	59	2.1	59	100	0	242	63	4	10	20	1.45
668305--668335	14	2.2	14	100	0	62	48	19	6	25	1.72
672548--672904	173	2.1	174	98	0	698	37	9	7	45	1.65
683931--683972	21	2.0	22	90	4	68	52	0	2	45	1.13

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