genome.fa.s9.2.7.7.80.10.50.1000.43.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  43  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)
17530987--17531160	28	6.1	28	86	3	206	31	26	14	27	1.95
17532875--17532964	34	2.6	34	80	3	110	31	14	23	31	1.94
17534201--17534378	88	2.0	88	87	0	257	35	17	15	32	1.91
17539023--17539065	22	2.0	22	86	9	61	9	18	6	65	1.44
17539023--17539065	23	2.0	21	86	9	59	9	18	6	65	1.44
17543397--17543440	22	2.0	22	91	4	72	45	15	9	29	1.77
17549573--17549711	36	3.9	36	79	0	116	27	27	15	29	1.96
17565698--17565749	14	3.0	19	69	30	53	50	0	0	50	1.00
17565713--17565742	11	2.7	11	89	0	51	56	0	0	43	0.99
17567891--17567929	19	2.1	19	85	0	51	56	0	0	43	0.99
17568389--17568425	18	2.0	19	85	15	51	5	18	5	70	1.27
17569596--17569830	42	5.6	42	86	6	323	23	21	31	23	1.98
17569596--17569830	126	1.9	126	88	3	357	23	21	31	23	1.98
17570807--17570835	15	1.9	15	100	0	58	44	13	6	34	1.71
17572335--17572364	16	1.9	16	93	6	53	13	3	16	66	1.37
17574314--17574386	20	3.6	20	75	1	65	39	9	13	36	1.78
17579236--17579332	35	2.7	35	82	1	104	37	16	13	32	1.88
17584019--17584089	35	2.0	35	83	5	90	28	11	25	35	1.90
17595994--17596036	21	2.0	21	81	0	50	30	9	34	25	1.87
17603296--17603331	17	2.1	17	89	0	54	36	19	36	8	1.82
17608296--17608330	17	1.9	19	88	11	56	34	11	17	37	1.85
17608293--17608336	18	2.3	20	77	14	58	36	15	15	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17608853--17608900	14	3.4	14	78	16	55	66	0	31	2	1.03
17608841--17608921	28	3.0	28	84	8	107	69	0	29	1	0.97
17608883--17608921	21	1.9	20	89	5	60	66	0	33	0	0.92
17613109--17613227	43	2.8	43	85	0	148	26	15	32	25	1.96
17617891--17618038	60	2.5	60	95	1	262	26	21	17	34	1.96
17619723--17619777	27	2.0	27	100	0	110	38	10	25	25	1.88
17621293--17621411	42	2.8	42	83	0	139	24	20	31	23	1.98
17624427--17624484	19	2.9	20	84	5	64	68	5	3	22	1.24
17629718--17629780	28	2.2	29	85	2	83	73	0	25	1	0.93
17629749--17629803	18	3.1	17	77	12	58	72	0	25	1	0.94
17629742--17629794	25	2.1	26	82	10	65	77	0	22	0	0.77
17632376--17632436	30	2.0	30	84	12	81	1	22	0	75	0.89
17635002--17635176	88	2.0	88	81	2	208	34	17	15	32	1.91
17644792--17644844	23	2.3	23	83	6	63	54	0	41	3	1.18
17645173--17645227	25	2.2	25	100	0	110	45	16	12	25	1.83
17651957--17652000	22	2.0	22	100	0	88	36	22	4	36	1.75
17652329--17652423	49	1.9	49	93	0	163	29	14	15	40	1.88
17655043--17655248	105	2.0	105	91	0	331	33	13	19	33	1.90
17657242--17657336	49	1.9	49	93	0	163	29	14	15	40	1.88
17661449--17661496	10	4.4	10	78	19	51	29	2	18	50	1.59
17661455--17661484	14	2.1	14	93	0	51	23	0	20	56	1.42
17661921--17662903	360	2.8	358	85	3	1278	45	4	9	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17669674--17669776	38	2.6	40	83	9	131	21	20	37	20	1.94
17675897--17675977	42	1.9	42	87	5	119	18	22	35	23	1.95
17684169--17684417	35	7.1	35	82	4	272	35	7	13	43	1.71
17684189--17684417	107	2.2	106	86	3	309	35	7	13	43	1.73
17688505--17688618	42	2.7	42	87	5	160	23	19	33	23	1.97
17696705--17697879	586	2.0	586	97	0	2206	28	25	17	28	1.97
17700324--17700514	70	2.7	70	78	4	188	27	19	18	34	1.95
17704397--17704427	2	15.5	2	93	0	53	48	3	0	48	1.17
17716183--17716384	72	2.8	73	82	1	253	37	16	22	22	1.94
17725181--17725383	73	2.8	73	84	0	253	38	15	20	25	1.92
17728328--17728471	29	5.0	28	78	10	137	38	11	9	40	1.73
17728306--17728468	59	2.8	59	81	4	179	41	11	8	38	1.71
17732901--17732936	18	1.9	19	88	5	56	25	30	22	22	1.99
17733195--17733318	35	3.5	35	89	3	185	25	37	8	27	1.86
17738156--17738299	29	5.0	29	81	10	127	37	11	10	40	1.76
17738134--17738298	59	2.8	58	83	4	197	41	10	9	38	1.72
17745658--17745692	2	17.5	2	100	0	70	51	0	48	0	1.00
17745738--17745775	2	18.5	2	94	5	67	50	0	47	2	1.15
17747156--17747232	33	2.3	33	90	0	127	24	19	16	38	1.92
17749301--17749378	30	2.6	31	84	9	101	37	1	1	60	1.13
17749621--17749716	30	3.2	30	83	4	104	53	2	5	39	1.35
17749636--17749716	30	2.8	29	86	5	110	55	1	4	38	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17752992--17753156	67	2.5	66	78	10	167	32	16	15	35	1.90
17754715--17754741	2	13.5	2	100	0	54	48	0	51	0	1.00
17757282--17757327	17	2.6	18	83	13	51	60	8	4	26	1.44
17762706--17762745	20	2.0	20	85	0	53	25	20	5	50	1.68
17762845--17762895	21	2.4	20	78	18	50	27	9	0	62	1.26
17778190--17778217	12	2.3	12	100	0	56	50	10	0	39	1.37
17781679--17781704	13	2.0	13	100	0	52	46	7	0	46	1.31
17783768--17783801	13	2.6	13	100	0	68	61	0	11	26	1.30
17792494--17792539	18	2.4	19	85	7	58	69	6	6	17	1.32
17798785--17798861	28	2.8	28	91	0	118	35	25	10	28	1.89
17798785--17798870	28	3.1	28	83	5	95	36	26	9	27	1.87
17815159--17815204	25	1.9	25	82	8	60	30	34	0	34	1.58
17816566--17816676	2	54.0	2	81	7	100	45	1	8	44	1.44
17819772--17819929	63	2.5	63	86	4	230	22	18	33	25	1.97
17823863--17823985	43	2.9	43	86	2	158	21	36	16	25	1.94
17829014--17829052	20	2.0	20	95	5	71	33	20	15	30	1.94
17829666--17829695	2	15.0	2	100	0	60	50	0	0	50	1.00
17830936--17831197	73	3.6	73	81	4	278	39	17	19	24	1.92
17831605--17831725	35	3.5	35	74	6	113	29	9	25	34	1.88
17836297--17836355	31	1.9	31	82	6	75	47	20	16	15	1.83
17841201--17841354	76	2.0	76	92	0	254	23	16	16	43	1.87
17856449--17856590	29	4.9	28	85	6	185	38	10	13	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17856449--17856623	59	3.0	58	84	5	226	38	10	12	38	1.77
17856449--17856600	28	5.3	28	83	10	173	39	9	12	38	1.76
17856765--17856797	17	1.9	17	88	11	50	39	3	15	42	1.62
17861933--17861999	23	2.9	23	70	14	66	43	4	4	47	1.43
17862052--17862122	32	2.2	32	87	5	99	38	5	2	53	1.39
17862841--17862874	12	2.8	12	86	0	50	67	8	14	8	1.41
17867073--17867117	16	2.8	16	80	12	56	24	6	6	62	1.44
17870054--17870135	34	2.4	35	89	2	121	26	8	26	37	1.85
17870075--17870147	34	2.2	34	80	2	85	34	9	23	32	1.87
17870601--17870643	20	2.1	21	86	4	61	23	4	18	53	1.63
17873300--17873331	16	2.0	16	100	0	64	31	12	12	43	1.80
17873690--17873747	27	2.1	27	93	0	98	39	5	18	36	1.74
17873700--17873758	27	2.2	27	87	0	82	38	3	18	38	1.68
17876280--17876347	35	1.9	35	93	0	118	29	17	45	7	1.75
17876280--17876369	35	2.5	35	87	3	108	30	16	43	10	1.81
17876384--17876507	33	3.6	33	89	4	149	34	13	44	7	1.72
17879709--17879829	60	2.0	59	84	4	154	29	17	30	22	1.96
17880441--17880894	28	16.7	27	73	9	190	38	15	11	34	1.84
17880443--17880896	55	8.4	55	75	9	351	38	15	11	34	1.84
17880478--17880873	161	2.5	159	79	6	388	38	15	11	34	1.83
17880443--17880896	134	3.4	134	85	3	527	38	15	11	34	1.84
17887586--17887953	183	2.0	183	90	3	589	33	19	20	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17888456--17888504	2	24.0	2	91	4	80	46	2	0	51	1.12
17889231--17889279	20	2.5	20	86	3	73	55	8	24	12	1.64
17905418--17905464	23	2.1	23	88	4	69	44	19	6	29	1.75
17905440--17905628	70	2.7	71	81	4	233	42	13	7	35	1.73
17905440--17905621	35	5.2	35	83	3	208	42	13	8	36	1.74
17910818--17911166	180	1.9	180	83	3	452	33	14	11	41	1.81
17912242--17912511	35	7.7	35	81	4	269	42	12	6	37	1.70
17912263--17912511	107	2.4	105	81	6	301	44	12	6	36	1.68
17912242--17912518	142	2.0	139	85	6	380	43	12	6	37	1.69
17913942--17913966	13	1.9	13	100	0	50	52	0	0	48	1.00

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