genome.fa.s9.2.7.7.80.10.50.1000.29.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  29  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)
12261391--12261423	17	1.9	17	88	11	50	6	6	15	72	1.24
12265842--12265910	31	2.2	32	80	10	81	28	8	15	46	1.76
12265864--12265933	29	2.3	30	82	4	79	28	11	15	44	1.81
12270539--12270578	20	2.0	20	95	0	71	15	37	10	37	1.80
12270789--12270847	2	29.5	2	92	0	100	54	0	45	0	0.99
12271391--12271452	2	31.0	2	90	0	97	48	1	0	50	1.10
12274246--12274369	43	2.9	43	81	0	158	23	16	37	21	1.93
12274366--12274425	23	2.6	23	94	0	102	21	3	43	31	1.69
12280633--12280671	20	1.9	21	94	5	71	17	35	10	35	1.84
12280874--12280920	2	23.5	2	91	0	76	55	0	44	0	0.99
12283001--12283106	35	3.0	35	83	8	108	23	14	34	27	1.93
12295170--12295216	22	2.2	22	88	3	69	25	23	23	27	2.00
12304048--12304105	21	2.6	22	91	5	91	31	43	3	22	1.70
12304115--12304224	43	2.6	43	86	0	139	20	36	18	25	1.94
12307265--12307299	17	2.1	16	94	5	61	28	0	31	40	1.57
12308356--12308404	22	2.2	22	88	0	71	24	26	20	28	1.99
12311612--12311664	20	2.6	20	81	3	61	18	1	1	77	0.96
12315391--12315435	22	2.2	21	84	11	58	31	2	2	64	1.18
12316593--12316619	14	1.9	14	100	0	54	29	0	11	59	1.32
12319729--12319783	28	2.0	27	92	7	85	36	3	21	36	1.71
12330556--12330598	24	1.9	23	86	13	63	18	27	9	44	1.80
12330765--12330868	32	3.2	32	77	17	122	25	11	27	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12330765--12330895	67	2.0	67	89	3	201	27	12	25	33	1.93
12332706--12332854	55	2.7	54	88	2	217	20	12	42	24	1.87
12334651--12334757	42	2.5	42	87	1	142	23	32	17	26	1.97
12335535--12335559	3	8.3	3	100	0	50	68	0	32	0	0.90
12345629--12345690	26	2.4	26	94	0	106	32	40	4	22	1.75
12345715--12345852	42	3.3	42	86	6	181	25	33	20	21	1.97
12352167--12352214	5	9.8	5	86	4	71	2	16	2	79	0.93
12352482--12352561	35	2.3	35	78	8	92	42	26	8	22	1.82
12352720--12352760	19	2.2	19	86	8	57	0	17	7	75	1.02
12352971--12352996	2	13.0	2	100	0	52	50	0	0	50	1.00
12359987--12360029	22	2.0	21	81	4	50	41	18	9	30	1.82
12362083--12362131	5	9.6	5	91	4	80	0	22	0	77	0.77
12362083--12362138	15	3.6	15	87	4	76	0	25	0	75	0.81
12362416--12362509	35	2.7	35	88	6	145	38	23	9	28	1.86
12362495--12362541	22	2.1	22	84	0	58	44	23	14	17	1.85
12365288--12365386	38	2.5	39	82	6	121	21	19	37	22	1.94
12368447--12368623	54	3.2	54	88	1	246	18	13	43	24	1.86
12368594--12368940	172	2.0	174	97	1	662	26	8	25	39	1.84
12375480--12375521	19	2.2	19	86	0	57	38	11	11	38	1.79
12376584--12376640	29	2.0	29	82	0	69	26	10	14	49	1.75
12386238--12386280	21	2.0	21	86	0	59	30	16	18	34	1.93
12386244--12386290	21	2.2	22	84	3	60	27	17	19	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12394626--12394750	43	2.9	43	84	4	146	24	16	36	21	1.94
12395105--12395273	60	2.8	60	81	0	203	26	22	17	34	1.96
12400981--12401250	139	1.9	139	89	0	414	35	9	14	40	1.79
12406961--12406985	2	12.5	2	100	0	50	48	0	0	52	1.00
12415281--12415406	42	3.0	42	79	5	137	28	19	30	21	1.97
12420691--12420789	42	2.4	42	82	3	110	26	28	22	23	1.99
12424073--12424166	42	2.3	42	86	1	127	22	31	21	24	1.98
12424957--12425006	19	2.6	19	72	12	57	44	8	36	12	1.71
12430248--12430454	42	4.9	42	85	3	215	24	31	22	21	1.98
12430308--12430370	21	3.0	21	62	25	51	23	33	25	17	1.96
12430291--12430454	84	2.0	84	90	0	256	25	31	22	21	1.98
12431028--12431080	23	2.3	23	80	9	63	35	28	1	33	1.68
12433073--12433160	40	2.3	39	84	4	106	34	26	10	29	1.89
12433425--12433724	161	1.9	161	85	4	426	19	19	9	51	1.74
12437142--12437253	43	2.6	42	76	10	120	29	16	31	22	1.96
12437116--12437261	43	3.4	43	70	12	111	27	18	30	23	1.98
12440666--12440746	30	2.7	29	86	1	108	33	17	14	34	1.90
12441974--12442026	25	2.2	24	83	9	65	30	18	13	37	1.89
12441900--12442174	148	1.9	148	87	0	406	27	20	14	36	1.92
12443760--12443932	36	5.0	36	71	14	132	22	16	22	38	1.92
12443796--12443920	65	1.9	67	86	6	184	20	16	24	38	1.93
12449986--12450094	54	2.0	54	94	0	191	31	22	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12452537--12452564	5	5.6	5	100	0	56	0	17	0	82	0.68
12453172--12453211	19	2.0	20	86	13	57	62	22	7	7	1.47
12455501--12455534	14	2.4	14	90	0	50	8	5	5	79	1.05
12455487--12455534	25	1.9	25	83	8	62	10	8	4	77	1.12
12473353--12473390	2	19.0	2	88	0	58	50	5	0	44	1.24
12473353--12473390	12	3.2	12	96	0	67	50	5	0	44	1.24
12478610--12478648	20	2.0	20	85	10	53	66	7	2	23	1.30
12479517--12479619	31	3.4	31	89	2	147	21	28	17	33	1.96
12479517--12479635	31	4.0	29	86	2	130	20	26	17	35	1.95
12479670--12479714	18	2.6	18	85	3	56	26	26	11	35	1.90
12481221--12481258	2	19.0	2	88	0	58	55	0	44	0	0.99
12484459--12484642	74	2.5	74	81	12	202	45	2	1	51	1.23
12492456--12492579	36	3.5	36	81	3	144	23	26	13	36	1.92
12498461--12498560	38	2.5	40	83	3	123	22	16	39	23	1.92
12501101--12501232	43	3.1	43	83	2	140	25	16	36	21	1.94
12501564--12501711	60	2.5	60	84	0	179	26	22	19	31	1.98
12515059--12515102	2	22.0	2	90	0	61	43	2	4	50	1.35
12515156--12515296	42	3.4	42	85	2	185	21	30	21	26	1.98
12522535--12522578	2	22.0	2	90	0	61	43	2	4	50	1.35
12522632--12522772	42	3.4	42	85	2	185	21	29	21	26	1.99
12527107--12527203	32	2.9	33	70	13	92	34	30	10	24	1.89
12527085--12527235	67	2.3	67	87	2	223	36	28	12	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12527087--12527234	35	4.4	32	71	14	111	35	29	12	22	1.91
12537029--12537120	43	2.2	42	88	2	130	26	16	30	27	1.97
12537134--12537168	2	17.5	2	100	0	70	51	0	0	48	1.00
12537169--12537199	2	15.5	2	100	0	62	0	0	51	48	1.00
12537205--12537241	2	18.5	2	100	0	74	48	0	0	51	1.00
12537241--12537275	2	17.5	2	100	0	70	0	0	48	51	1.00
12541623--12541720	49	2.1	47	83	9	121	40	20	14	24	1.89
12561287--12561323	19	1.9	19	89	10	58	21	16	27	35	1.94
12573768--12573812	2	22.5	2	95	0	81	51	2	0	46	1.13
12574603--12574633	10	3.0	10	90	9	53	29	0	32	38	1.57
12574898--12575063	90	1.8	90	81	7	203	28	10	10	49	1.72
12576315--12576364	25	2.0	25	84	7	66	48	12	4	36	1.59
12581230--12581285	24	2.3	24	81	0	67	50	0	12	37	1.41
12582104--12582213	57	2.0	53	92	7	184	35	1	39	22	1.65
12582169--12582210	22	2.0	22	85	4	59	33	2	45	19	1.63
12588948--12588972	13	1.9	13	100	0	50	44	0	8	48	1.32
12591358--12591421	27	2.4	27	76	10	67	32	23	10	32	1.89
12595063--12595102	21	2.0	19	85	9	53	50	7	10	32	1.64
12602848--12602936	45	2.0	45	82	4	108	42	13	11	32	1.80
12604118--12604169	20	2.5	20	78	3	59	42	17	9	30	1.81
12605376--12605562	78	2.4	79	80	3	198	36	22	7	32	1.83
12605399--12605620	79	2.8	79	81	6	220	36	22	8	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12612876--12612932	29	2.0	29	86	6	80	43	1	10	43	1.49
12613952--12614012	29	2.1	29	87	0	86	29	9	13	47	1.74
12614997--12615081	34	2.4	36	86	3	111	37	0	3	58	1.15
12614997--12615081	36	2.5	32	81	12	89	37	0	3	58	1.15
12616810--12616851	17	2.4	18	84	11	52	16	4	2	76	1.07
12617427--12617465	16	2.4	17	86	4	53	74	2	5	17	1.12
12619496--12619544	13	3.6	13	76	10	53	53	12	0	34	1.39
12619671--12619730	2	30.0	2	100	0	120	50	0	0	50	1.00
12623281--12623343	31	2.0	31	90	0	99	42	7	9	39	1.67
12626541--12626600	29	2.1	29	83	0	75	43	3	31	21	1.69

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