genome.fa.s9.2.7.7.80.10.50.1000.38.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:  38630433

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   

This is table  38  of  97  ( 11551 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)
15601168--15601671	273	1.8	274	92	1	850	35	19	17	26	1.94
15612224--15612261	19	2.0	19	100	0	76	42	31	0	26	1.56
15617100--15617147	2	24.0	2	100	0	96	50	0	0	50	1.00
15618724--15618855	52	2.7	49	85	10	178	6	21	1	70	1.19
15618840--15618874	9	3.8	9	85	7	52	0	22	0	77	0.78
15618839--15618877	10	4.0	10	83	6	53	0	25	0	74	0.82
15618783--15618912	60	2.2	60	83	10	160	4	24	1	69	1.16
15618811--15618925	60	1.9	61	82	8	146	6	25	1	66	1.24
15618801--15618936	60	2.2	60	77	13	145	5	23	2	68	1.23
15619115--15619158	18	2.5	18	81	3	54	6	18	0	75	1.02
15619187--15619257	33	2.2	32	82	7	83	5	21	4	69	1.27
15619676--15619705	15	2.1	15	93	6	53	40	0	16	43	1.48
15619749--15619781	14	2.4	14	90	10	50	51	0	3	45	1.16
15619978--15620056	40	2.0	40	92	2	124	43	2	8	44	1.49
15620544--15620770	111	2.1	109	83	3	276	36	5	9	48	1.59
15628414--15628442	2	14.5	2	100	0	58	51	0	0	48	1.00
15635825--15635912	27	3.3	27	65	17	74	42	18	2	37	1.63
15635828--15635933	54	2.0	54	92	0	176	46	16	1	35	1.58
15641498--15641677	35	5.1	35	84	1	182	21	13	16	48	1.81
15654689--15654731	18	2.4	18	84	7	52	23	0	6	69	1.12
15676308--15676346	17	2.2	19	86	13	57	12	7	17	61	1.54
15697706--15697791	28	3.1	28	81	0	100	26	9	15	48	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15699502--15699778	90	3.1	90	90	3	414	22	29	35	12	1.91
15699517--15699798	92	3.1	92	90	3	419	24	29	35	11	1.91
15719551--15719588	19	2.0	19	85	10	51	81	13	2	2	0.90
15723918--15723952	18	1.9	18	88	0	52	28	0	20	51	1.47
15725186--15725224	19	2.2	18	86	9	53	79	2	15	2	0.95
15725514--15725578	33	2.0	33	93	0	112	29	7	0	63	1.22
15727484--15727513	2	15.5	2	93	6	53	46	0	0	53	1.00
15730308--15730349	2	21.0	2	100	0	84	50	0	50	0	1.00
15731443--15731529	30	2.9	30	79	5	88	45	9	14	29	1.76
15735695--15735740	19	2.4	20	82	10	60	54	0	2	43	1.12
15748277--15748346	36	2.0	36	82	2	88	30	30	10	30	1.90
15748288--15748413	35	3.7	34	71	17	91	33	29	8	28	1.87
15748297--15748428	67	1.9	68	81	6	160	33	31	8	27	1.86
15752703--15752859	35	4.5	35	76	3	131	38	7	10	43	1.68
15754844--15754873	15	1.9	16	93	6	53	30	0	0	70	0.88
15757217--15757255	2	19.5	2	100	0	78	51	0	0	48	1.00
15757538--15757661	40	3.1	40	88	0	176	33	9	15	41	1.80
15761338--15761736	212	1.9	212	88	0	609	45	5	9	39	1.60
15761707--15761769	33	1.9	32	87	3	90	46	1	3	49	1.27
15762451--15762502	6	8.3	6	75	8	50	76	0	0	23	0.78
15762451--15762502	19	2.8	18	88	5	68	76	0	0	23	0.78
15765756--15765837	31	2.8	29	82	12	80	39	2	0	58	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15765770--15765837	31	2.3	30	87	7	95	36	2	0	60	1.12
15765770--15765840	30	2.4	29	86	9	99	38	2	0	59	1.12
15767811--15767874	28	2.3	28	86	0	83	42	9	9	39	1.70
15768718--15768768	16	3.1	16	74	17	50	31	17	5	45	1.72
15775194--15775219	6	4.3	6	100	0	52	19	34	0	46	1.50
15792145--15792192	25	1.9	25	87	8	71	75	0	8	16	1.04
15792487--15792564	25	3.1	26	92	5	133	42	7	34	15	1.75
15792494--15792572	25	3.2	24	85	7	72	41	7	36	13	1.74
15796688--15796792	52	2.0	51	89	5	158	31	13	11	43	1.79
15817199--15817239	18	2.3	18	87	4	57	19	4	7	68	1.32
15822058--15822100	22	2.0	22	95	0	77	30	6	20	41	1.79
15822088--15822134	15	3.1	15	76	11	51	25	2	17	55	1.53
15823472--15823750	127	2.3	121	86	5	380	50	18	10	20	1.76
15824991--15825039	2	24.5	2	91	8	82	48	2	0	48	1.12
15826070--15826112	2	21.0	2	90	4	68	48	2	2	46	1.27
15826064--15826106	10	4.3	10	93	0	59	46	4	0	48	1.22
15826418--15826453	18	2.0	18	88	0	54	25	5	38	30	1.78
15826616--15826640	6	4.2	6	100	0	50	32	36	0	32	1.58
15827879--15827911	2	16.5	2	93	0	57	54	0	0	45	0.99
15840186--15840226	3	13.7	3	100	0	82	31	0	0	68	0.90
15849676--15849702	8	3.4	8	100	0	54	25	11	25	37	1.89
15851269--15851329	23	2.7	23	78	14	56	73	1	3	21	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15851264--15851328	19	3.4	18	77	10	58	70	1	4	23	1.14
15853971--15854002	16	2.0	16	93	0	55	40	12	9	37	1.75
15855998--15856056	24	2.5	23	76	10	66	10	10	6	72	1.27
15865195--15865225	2	15.5	2	93	0	53	48	3	0	48	1.17
15871612--15871642	4	8.0	4	92	7	55	77	0	22	0	0.77
15878381--15878429	20	2.5	20	78	21	59	32	0	26	40	1.56
15879642--15879666	13	1.9	13	100	0	50	44	0	8	48	1.32
15892235--15892299	20	3.2	20	75	0	58	52	3	0	44	1.16
15895924--15895962	17	2.3	17	90	0	60	12	5	28	53	1.60
15898458--15898482	13	1.9	13	100	0	50	48	8	0	44	1.32
15902664--15902773	43	2.5	44	77	4	125	39	12	8	40	1.73
15908178--15908261	32	2.9	27	82	16	114	15	25	27	32	1.95
15908190--15908253	32	2.0	32	100	0	128	15	21	31	31	1.95
15908266--15908302	12	3.1	12	88	0	56	2	29	0	67	1.04
15909014--15909118	48	2.2	48	100	0	210	32	17	14	36	1.89
15912999--15913031	2	17.0	2	93	6	59	48	0	51	0	1.00
15919253--15919287	10	3.2	11	84	15	54	82	0	17	0	0.66
15920834--15920908	30	2.5	30	82	6	98	46	5	20	28	1.72
15921363--15921395	11	2.8	12	81	9	50	57	0	39	3	1.14
15921345--15921395	25	2.2	24	89	10	79	56	0	39	3	1.18
15922725--15922947	67	3.3	68	77	4	191	26	21	19	32	1.97
15927062--15927103	12	3.6	12	78	15	52	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15947040--15947097	27	2.2	27	87	3	82	20	8	18	51	1.72
15958648--15958763	25	5.3	25	58	29	66	37	4	14	43	1.66
15958646--15958772	42	3.0	42	100	0	254	38	4	14	42	1.66
15969303--15969336	2	17.0	2	100	0	68	50	0	0	50	1.00
15969389--15969426	19	2.1	19	90	5	60	60	5	2	31	1.33
15974220--15975371	390	3.0	390	95	1	2026	36	15	19	28	1.93
15976971--15977023	26	2.0	26	100	0	106	30	30	9	30	1.89
15981396--15981437	17	2.3	17	88	12	57	69	0	0	30	0.89
15982217--15982276	25	2.4	25	91	0	93	38	8	10	43	1.68
15986307--15986344	20	1.9	20	94	0	67	44	21	7	26	1.79
15992148--15992193	18	2.6	18	89	0	74	19	8	19	52	1.72
15992370--15992459	20	4.7	20	69	15	64	40	0	2	57	1.11
15993392--15993426	18	1.9	18	94	0	61	74	0	0	25	0.82
16004218--16004256	20	2.0	19	90	5	60	48	2	0	48	1.15
16004214--16004262	20	2.4	21	76	13	57	51	2	0	46	1.12
16004250--16004318	28	2.4	30	75	20	74	36	2	2	57	1.28
16024834--16024896	33	1.9	33	86	0	90	28	17	4	49	1.67
16031719--16031756	19	2.0	20	89	5	60	23	0	36	39	1.55
16036895--16036949	23	2.4	23	93	0	101	27	45	5	21	1.74
16036986--16037076	43	2.1	43	83	0	110	21	30	19	27	1.98
16043666--16043744	38	2.1	38	97	0	149	34	21	11	32	1.89
16047175--16047200	13	2.0	13	100	0	52	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16053683--16053749	10	7.0	9	77	16	64	82	4	11	1	0.89
16053677--16053749	12	6.4	11	73	20	69	82	4	12	1	0.88
16058254--16058303	24	2.2	22	82	7	55	50	6	16	28	1.68
16059208--16059251	22	2.0	21	86	4	61	18	11	40	29	1.85
16059407--16059574	22	7.5	22	79	3	138	22	8	23	45	1.80
16059413--16059574	67	2.4	67	96	1	297	22	8	23	45	1.79
16059708--16059738	16	1.9	16	93	0	53	19	12	32	35	1.90
16059728--16059847	43	2.7	44	87	2	152	17	12	30	40	1.86
16059725--16059877	22	6.9	22	72	3	110	18	12	30	38	1.88
16059740--16059899	45	3.6	44	81	5	162	19	11	28	40	1.87

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