genome.fa.s9.2.7.7.80.10.50.1000.77.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  77  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)
30663299--30663451	71	2.2	70	89	1	225	34	4	13	47	1.64
30663306--30663451	35	4.1	35	84	1	202	35	4	13	46	1.64
30663306--30663470	35	4.7	35	83	2	186	36	4	13	44	1.66
30665449--30665511	31	2.0	31	100	0	126	39	15	15	28	1.89
30668902--30669002	44	2.3	44	94	0	175	27	14	15	41	1.87
30673358--30673395	19	2.0	19	100	0	76	42	31	0	26	1.56
30675817--30675854	20	1.9	20	100	0	76	28	5	21	44	1.73
30675908--30675965	28	2.1	27	81	12	73	31	22	22	24	1.99
30678809--30678950	70	2.0	70	83	2	178	45	19	14	20	1.86
30678809--30678950	35	4.1	35	80	1	160	45	19	14	20	1.86
30679125--30679195	29	2.4	29	85	0	88	15	29	7	47	1.71
30679764--30679902	74	1.9	74	86	0	197	46	10	4	38	1.59
30686364--30686694	102	3.2	101	78	3	315	24	19	12	42	1.86
30686396--30686574	52	3.5	50	71	11	139	23	24	12	40	1.89
30688874--30688958	34	2.5	34	90	0	134	44	21	15	18	1.86
30688943--30689030	35	2.5	36	84	3	124	48	20	10	20	1.78
30690507--30690563	25	2.3	25	76	11	64	10	26	10	52	1.68
30691085--30691117	2	17.0	2	87	6	50	48	3	0	48	1.17
30695910--30695941	15	2.1	15	94	0	55	9	0	3	87	0.64
30734285--30734420	72	1.9	72	85	0	191	31	23	12	32	1.92
30747464--30747507	21	2.0	22	82	4	54	59	15	11	13	1.62
30755802--30755842	2	20.5	2	100	0	82	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30756786--30756819	2	17.0	2	100	0	68	50	0	0	50	1.00
30757347--30757381	2	17.5	2	87	0	52	45	2	2	48	1.32
30767434--30767470	16	2.3	16	95	0	65	10	27	8	54	1.63
30768583--30768729	35	4.2	35	89	0	213	30	8	35	25	1.86
30771715--30771756	21	2.0	21	90	0	66	23	16	26	33	1.96
30771552--30771745	45	4.3	45	89	0	271	33	18	19	28	1.95
30771670--30771871	67	3.0	66	89	2	307	31	17	21	29	1.96
30771782--30771833	21	2.5	21	90	0	77	25	19	25	30	1.98
30771670--30771878	66	3.2	66	89	2	312	31	17	21	29	1.96
30771910--30771965	24	2.3	24	87	0	85	41	19	12	26	1.87
30771552--30771947	45	8.8	45	77	7	234	33	17	19	30	1.95
30771920--30771971	24	2.2	24	89	0	77	42	19	15	23	1.89
30771962--30772008	21	2.2	21	80	0	58	25	21	21	31	1.98
30771625--30772096	180	2.6	177	84	4	574	32	17	20	30	1.95
30771983--30772096	45	2.5	45	85	0	156	29	17	21	31	1.96
30772088--30772184	29	3.3	29	87	5	126	38	11	12	38	1.79
30773161--30773207	24	2.0	24	86	0	67	31	0	17	51	1.46
30783512--30783553	2	21.0	2	100	0	84	50	0	0	50	1.00
30789799--30789841	19	2.4	18	76	7	52	51	0	0	48	1.00
30792756--30792789	2	17.0	2	100	0	68	50	0	50	0	1.00
30798187--30798224	15	2.4	17	86	8	53	31	7	7	52	1.59
30804194--30804227	16	2.1	16	88	0	50	88	0	11	0	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30806130--30806154	3	8.3	3	100	0	50	36	0	0	64	0.94
30811745--30812088	118	2.9	118	87	0	492	22	17	31	28	1.96
30811986--30812055	30	2.3	31	80	9	81	24	17	34	24	1.96
30811988--30812179	93	2.1	92	89	1	285	22	16	32	28	1.96
30811986--30812152	31	5.4	30	72	11	115	21	16	34	28	1.95
30812080--30812359	118	2.4	118	84	1	337	22	19	30	26	1.98
30813662--30813767	48	2.2	50	78	13	123	21	26	24	27	1.99
30814545--30814872	145	2.3	143	81	6	383	29	17	22	30	1.97
30816262--30816642	31	12.3	31	88	0	503	41	14	16	26	1.87
30816617--30816709	46	2.0	46	89	2	143	37	21	18	22	1.94
30817369--30817564	47	4.2	46	86	2	248	22	30	19	27	1.98
30817849--30817972	63	2.0	63	83	3	160	20	29	15	35	1.93
30818322--30818430	31	3.5	31	92	0	182	23	19	21	35	1.96
30822312--30822832	118	4.4	118	87	1	677	22	19	30	27	1.98
30824151--30824253	48	2.1	48	90	0	161	23	27	23	26	2.00
30825030--30825345	145	2.2	145	83	2	384	29	18	22	30	1.97
30826755--30826984	31	7.4	31	89	0	352	41	17	17	23	1.90
30826950--30827048	46	2.2	46	88	1	155	38	28	15	18	1.91
30827706--30827825	47	2.6	47	80	0	141	23	27	20	29	1.98
30827788--30827940	58	2.6	58	82	0	171	24	28	18	28	1.98
30827887--30827987	47	2.1	47	83	7	125	27	30	10	30	1.91
30833326--30833408	41	2.0	42	90	2	132	36	4	10	48	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30835761--30835808	24	2.0	24	87	0	69	45	22	8	22	1.79
30838677--30840392	156	11.0	156	99	0	3423	34	15	19	31	1.93
30853543--30853633	44	2.1	44	100	0	182	13	4	36	46	1.63
30864018--30864159	28	5.0	28	80	8	151	40	9	12	36	1.77
30864021--30864180	58	2.8	57	82	4	196	39	8	11	40	1.72
30864024--30864169	29	5.1	27	78	11	139	41	8	11	38	1.73
30864310--30864349	18	2.1	18	86	13	53	65	0	12	22	1.26
30864348--30864386	17	2.2	18	90	4	62	41	2	12	43	1.56
30868166--30868215	21	2.3	22	80	12	59	18	0	2	80	0.82
30868184--30868213	11	2.7	11	100	0	60	16	0	0	83	0.65
30877246--30877278	16	2.1	16	88	5	50	12	18	0	69	1.18
30888203--30888252	20	2.5	20	81	9	57	24	4	0	72	1.02
30888200--30888251	21	2.3	22	78	15	54	23	3	0	73	1.00
30888335--30888364	16	1.9	16	93	6	53	30	0	6	63	1.20
30888523--30888569	22	2.2	22	84	3	60	46	2	12	38	1.54
30888825--30888861	17	2.1	18	85	14	51	37	2	5	54	1.38
30911768--30911803	18	2.0	18	100	0	72	61	11	11	16	1.57
30914741--30914765	2	12.5	2	100	0	50	48	0	0	52	1.00
30918948--30918973	4	6.5	4	100	0	52	0	26	0	73	0.84
30920499--30920535	2	18.5	2	100	0	74	51	0	0	48	1.00
30926366--30926397	2	16.0	2	93	0	55	50	3	0	46	1.17
30928890--30928943	27	2.1	27	93	6	94	42	1	0	55	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30928894--30929004	30	3.8	30	70	11	88	39	2	1	55	1.24
30929208--30929240	17	1.9	17	88	11	50	36	12	12	39	1.80
30940528--30940572	22	2.1	22	84	8	58	40	4	2	53	1.33
30939829--30941916	500	4.2	499	83	4	2424	32	11	7	48	1.66
30939829--30941915	252	8.3	251	84	4	2381	32	11	7	48	1.66
30939827--30941916	752	2.8	751	84	4	2578	32	11	7	48	1.66
30960194--30960218	9	2.8	9	100	0	50	80	0	8	12	0.92
30960222--30960283	25	2.5	25	86	5	81	33	17	6	41	1.75
30962209--30962268	25	2.4	25	94	0	102	31	15	8	45	1.75
30979892--30979945	24	2.3	24	90	3	83	33	5	20	40	1.76
30982279--30982318	18	2.2	18	90	0	62	30	0	15	55	1.41
30985658--30985937	118	2.3	119	84	4	366	35	18	10	35	1.86
30985658--30985937	59	4.7	59	80	4	303	35	18	10	35	1.86
30994943--30994971	2	14.5	2	100	0	58	48	0	0	51	1.00
30995906--30995998	42	2.2	43	75	11	102	18	1	21	59	1.44
30995904--30996000	43	2.3	42	74	16	101	17	1	22	58	1.44
31000538--31000586	25	2.0	25	96	4	91	24	8	16	51	1.71
31018159--31018266	35	3.0	36	83	2	101	48	14	13	23	1.80
31018207--31018282	35	2.2	35	87	0	116	44	13	13	28	1.81
31018219--31018299	35	2.3	35	82	0	90	48	14	13	23	1.80
31020715--31020821	48	2.2	48	86	0	142	39	28	8	23	1.84
31025409--31025482	30	2.5	30	84	0	85	31	14	14	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31025502--31025535	15	2.3	15	89	0	50	38	17	14	29	1.90
31025975--31026039	29	2.2	30	81	8	80	16	30	7	44	1.76
31027831--31027889	25	2.4	25	97	2	111	28	27	22	22	1.99
31028078--31028121	20	2.3	19	88	4	61	4	11	0	84	0.77
31028079--31028121	17	2.5	17	85	11	52	4	11	0	83	0.78
31028097--31028129	13	2.5	14	90	9	52	12	3	0	84	0.72
31028279--31028308	11	2.6	12	94	5	53	80	0	20	0	0.72
31030986--31031030	20	2.2	20	96	0	81	35	4	35	24	1.76
31032644--31032676	17	1.9	17	93	0	57	33	27	21	18	1.96
31032745--31032770	7	3.7	7	100	0	52	61	0	0	38	0.96

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