genome.fa.s8.2.7.7.80.10.50.1000.109.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  109  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)
40220696--40221416	100	7.1	100	85	4	870	26	21	21	30	1.98
40220696--40221390	309	2.3	309	85	2	913	27	21	21	30	1.98
40222937--40222990	15	3.8	14	80	11	56	14	14	0	70	1.17
40222943--40222989	21	2.2	21	85	7	60	14	12	0	72	1.13
40222950--40222997	8	6.4	8	79	18	50	12	12	0	75	1.06
40222951--40223005	22	2.6	21	86	13	69	12	12	0	74	1.07
40222950--40223003	28	1.9	28	85	7	74	12	12	0	74	1.08
40229058--40229115	29	2.0	30	86	3	82	36	1	12	50	1.50
40229589--40229630	2	21.0	2	95	0	75	50	0	2	47	1.14
40245503--40245535	13	2.8	12	86	13	50	72	0	3	24	0.98
40246665--40246706	19	2.3	18	91	4	66	11	7	7	73	1.23
40248364--40248408	17	2.6	16	86	10	54	62	0	6	31	1.21
40248364--40248450	18	4.6	18	71	16	52	57	0	6	35	1.26
40253221--40253382	80	2.0	80	85	0	216	38	3	20	37	1.70
40253213--40253384	40	4.3	40	82	0	191	38	3	19	37	1.69
40253498--40253683	13	14.0	13	69	12	101	40	2	19	38	1.64
40253518--40253587	27	2.6	27	83	0	86	42	2	18	35	1.65
40253545--40253694	40	3.8	40	79	3	158	40	2	19	38	1.63
40253093--40253666	278	2.0	281	89	5	881	35	9	19	35	1.84
40253510--40253670	67	2.4	68	80	5	184	39	2	20	37	1.66
40254833--40254975	25	5.8	25	80	1	144	21	27	18	32	1.97
40254832--40254994	50	3.3	49	81	7	168	22	26	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40254833--40254994	25	6.5	25	75	5	114	22	26	18	32	1.97
40265904--40265976	31	2.3	32	80	2	85	34	12	12	41	1.80
40267811--40267848	15	2.6	15	91	4	60	68	0	5	26	1.11
40269728--40269770	9	4.7	9	88	5	68	74	2	2	20	1.04
40269728--40269770	19	2.3	18	92	4	68	74	2	2	20	1.04
40270755--40270994	44	5.5	44	77	5	252	30	26	15	27	1.96
40270755--40270966	88	2.4	88	92	0	352	29	26	15	28	1.96
40285281--40285525	107	2.3	107	100	0	490	31	17	18	32	1.94
40285978--40286007	7	4.3	7	91	0	51	70	0	3	26	1.03
40287723--40287752	12	2.6	11	90	10	51	63	6	6	23	1.43
40291014--40291078	28	2.4	28	92	2	114	41	7	0	50	1.31
40291136--40291214	27	2.9	27	86	3	115	27	22	30	18	1.98
40291521--40291586	19	3.5	19	79	4	89	37	10	1	50	1.47
40291731--40292116	198	2.0	188	89	6	585	39	17	16	26	1.91
40292110--40292186	27	2.9	27	80	7	86	20	29	22	27	1.98
40292250--40292315	28	2.4	28	97	0	123	48	0	10	40	1.38
40293332--40293390	19	3.0	20	75	9	66	69	3	6	20	1.26
40293423--40293470	21	2.3	21	89	3	71	47	22	2	27	1.62
40295913--40295949	2	18.5	2	94	0	65	54	0	0	45	1.00
40300467--40300691	43	5.3	43	86	0	308	24	16	31	27	1.96
40300895--40300922	2	14.0	2	100	0	56	50	0	0	50	1.00
40302215--40302281	11	6.4	11	75	19	54	40	4	0	55	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40302216--40302296	41	2.0	39	92	4	135	40	3	0	55	1.17
40302265--40302312	20	2.3	21	85	3	62	39	2	0	58	1.10
40302262--40302318	21	2.6	22	80	8	71	43	1	0	54	1.10
40313101--40313125	12	2.1	12	100	0	50	44	24	24	8	1.80
40319090--40319124	6	5.8	6	86	0	52	77	5	0	17	0.96
40319076--40319122	12	4.1	12	78	10	53	74	10	0	14	1.07
40325478--40325520	18	2.2	20	84	8	54	67	2	27	2	1.15
40328978--40329019	16	2.7	15	85	7	57	57	2	2	38	1.25
40329323--40329393	19	3.5	19	83	12	88	57	9	1	30	1.40
40329325--40329391	22	3.2	22	87	8	95	59	10	1	28	1.39
40329460--40329485	12	2.2	12	100	0	52	46	15	0	38	1.46
40329717--40329781	27	2.4	27	97	0	121	13	32	23	30	1.93
40329859--40329892	17	1.9	18	88	5	52	52	2	0	44	1.16
40336145--40336200	6	9.3	6	96	0	103	33	17	48	0	1.48
40338406--40339246	2	420.5	2	99	0	1655	0	50	0	49	1.00
40348127--40348180	6	9.0	6	91	0	81	35	20	44	0	1.52
40350386--40351226	2	420.5	2	99	0	1655	0	50	0	49	1.00
40351544--40352459	454	2.0	459	95	1	1653	27	15	17	39	1.90
40357336--40357362	12	2.2	12	100	0	54	14	18	25	40	1.89
40373758--40373805	16	3.1	16	82	11	57	72	0	6	20	1.05
40381797--40381837	15	2.6	16	84	11	57	48	36	7	7	1.59
40382312--40382359	19	2.6	19	90	3	62	12	8	10	68	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40382312--40382350	19	2.1	19	100	0	78	15	5	12	66	1.41
40393513--40393626	60	1.9	60	85	0	156	38	8	10	42	1.71
40393513--40393641	60	2.2	60	82	0	150	37	9	9	43	1.69
40394773--40394805	2	16.5	2	100	0	66	51	0	0	48	1.00
40412836--40413007	86	2.0	86	98	0	335	31	13	21	33	1.93
40415778--40415816	16	2.4	17	86	4	53	82	10	2	5	0.93
40416265--40416301	18	2.1	18	90	10	58	83	2	13	0	0.74
40417595--40418356	50	15.3	50	69	4	401	30	21	21	26	1.99
40417558--40418412	199	4.3	199	90	0	1289	29	21	22	26	1.99
40421687--40421740	27	2.0	27	96	0	99	38	18	1	40	1.61
40422787--40422819	4	8.2	4	100	0	66	24	0	0	75	0.80
40423951--40423992	6	7.0	6	100	0	84	83	0	16	0	0.65
40425553--40425632	30	2.7	30	90	3	126	28	13	21	36	1.92
40434602--40434644	22	2.0	22	90	0	68	32	0	11	55	1.36
40447515--40447552	18	2.1	19	90	5	60	52	5	21	21	1.66
40451409--40451504	39	2.5	39	75	12	101	27	23	26	22	2.00
40459057--40459101	23	2.0	23	90	0	72	8	28	0	62	1.25
40463464--40463489	2	13.0	2	100	0	52	50	0	0	50	1.00
40466346--40466386	20	2.0	20	100	0	82	34	24	0	41	1.55
40470172--40470212	19	2.0	21	86	9	59	56	4	9	29	1.53
40472839--40472868	14	2.1	14	93	0	51	43	10	6	40	1.64
40473248--40473314	31	2.2	31	100	0	134	58	2	23	14	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40480663--40480712	23	2.2	23	82	7	57	56	4	6	34	1.43
40480752--40480778	14	1.9	14	100	0	54	51	0	0	48	1.00
40483127--40483292	83	2.0	83	98	0	323	53	16	15	14	1.73
40486853--40486892	6	6.7	6	91	8	64	15	0	0	85	0.61
40491696--40491816	57	2.1	58	83	4	147	27	18	7	47	1.75
40496683--40496712	15	2.0	15	93	0	51	56	0	0	43	0.99
40503538--40503619	25	3.4	25	80	16	118	15	23	20	40	1.91
40503538--40503653	47	2.5	47	95	2	207	17	24	19	38	1.93
40503538--40503707	22	7.4	24	71	21	125	16	25	19	38	1.92
40503634--40503672	19	2.1	19	90	0	60	20	30	17	30	1.96
40504622--40504649	13	2.2	13	100	0	56	21	7	25	46	1.76
40504949--40504988	12	3.3	12	78	0	53	12	12	25	50	1.75
40504942--40504990	24	2.0	24	100	0	98	12	12	20	55	1.68
40509803--40510033	113	2.0	115	94	1	412	29	10	20	39	1.87
40510049--40510140	30	3.1	30	84	3	87	29	17	21	31	1.96
40510059--40510142	30	2.8	30	85	0	105	28	16	22	32	1.96
40516231--40516259	14	2.0	15	93	6	51	55	0	31	13	1.39
40519042--40519131	3	30.7	3	74	12	53	31	7	1	60	1.32
40519071--40519135	24	2.7	25	81	9	64	32	7	1	58	1.36
40536361--40536388	14	2.0	14	100	0	56	14	28	14	42	1.84
40549858--40550004	73	2.0	73	91	0	240	30	19	10	38	1.86
40551793--40551836	20	2.3	19	80	4	52	70	0	22	6	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40551824--40551863	18	2.2	18	86	8	55	62	2	25	10	1.39
40577493--40577581	41	2.2	41	84	9	112	53	1	3	41	1.24
40577533--40577928	197	2.0	198	99	0	785	36	17	8	37	1.80
40581991--40582185	33	5.4	33	70	20	111	21	17	27	34	1.95
40582020--40582156	42	3.5	40	72	17	135	21	17	27	34	1.95
40581985--40582185	75	2.7	75	91	0	312	20	16	28	33	1.95
40589823--40589961	46	3.0	46	93	0	233	33	9	28	29	1.88
40592063--40592257	33	5.4	33	69	21	131	20	17	28	32	1.96
40592059--40592269	75	2.8	75	88	0	332	21	18	28	31	1.97
40592096--40592232	42	3.5	41	70	17	128	21	16	28	33	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