genome.fa.s9.2.7.7.80.10.50.1000.42.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  42  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)
17224439--17224960	126	4.1	125	79	6	493	39	13	16	31	1.87
17224713--17224765	26	2.0	27	88	7	81	41	13	13	32	1.82
17224835--17224890	27	2.0	28	82	3	69	44	8	14	32	1.76
17226434--17226469	2	18.0	2	94	0	63	47	0	2	50	1.15
17229991--17230249	138	1.9	138	81	1	322	32	20	20	27	1.97
17234295--17234340	15	3.1	15	78	6	58	76	2	19	2	1.00
17234295--17234335	14	2.9	14	88	3	55	78	2	19	0	0.87
17235355--17235408	27	1.9	29	85	14	78	29	14	5	50	1.66
17242196--17242264	34	2.0	35	97	2	131	31	0	28	39	1.57
17242671--17242750	26	3.1	26	80	7	90	41	12	11	35	1.79
17242802--17242966	56	2.9	56	78	8	158	32	10	14	41	1.81
17243621--17243658	20	1.9	20	100	0	76	28	5	21	44	1.73
17243621--17243666	20	2.3	20	92	0	74	28	4	23	43	1.73
17249706--17249886	32	5.6	31	71	18	102	28	3	0	67	1.06
17249706--17249879	26	6.8	25	70	20	105	28	3	0	67	1.06
17249736--17249880	15	10.2	14	67	22	65	28	3	0	68	1.06
17249706--17249793	34	2.6	34	85	5	108	29	1	0	69	0.96
17249818--17249894	5	15.2	5	70	12	50	24	2	1	71	1.06
17249772--17249883	30	4.0	27	70	16	84	28	4	0	66	1.10
17249765--17249870	55	1.9	57	84	9	148	29	4	0	66	1.12
17249834--17249886	12	4.3	12	79	11	63	24	1	0	73	0.93
17249709--17249883	37	4.6	37	69	23	64	28	3	0	68	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17252576--17252621	16	2.6	18	77	22	53	34	2	21	41	1.66
17253048--17253206	53	2.9	54	84	3	185	40	16	13	28	1.87
17257711--17257752	16	2.5	17	81	18	52	33	0	23	42	1.55
17262034--17262149	43	2.7	43	84	5	137	20	38	18	22	1.93
17265419--17265462	22	2.0	22	95	0	79	27	6	18	47	1.73
17270867--17270910	22	2.0	22	82	4	54	63	4	0	31	1.14
17272024--17272181	61	2.5	63	87	2	221	24	30	19	25	1.98
17284313--17284357	18	2.5	18	78	7	56	75	0	22	2	0.91
17286517--17286555	20	2.0	20	89	0	60	15	28	2	53	1.55
17287534--17287588	28	2.0	27	83	16	69	29	21	23	25	1.99
17288716--17288740	13	1.9	13	100	0	50	44	0	8	48	1.32
17290929--17291114	84	2.2	84	81	5	232	32	23	7	36	1.83
17292143--17292214	20	3.6	20	92	0	99	26	20	19	33	1.97
17292183--17292240	20	2.8	20	82	5	62	31	15	15	37	1.89
17292275--17292327	21	2.5	21	84	0	70	52	7	9	30	1.61
17295752--17295801	23	2.1	24	92	3	84	28	36	8	28	1.85
17315335--17315401	28	2.4	28	87	5	91	23	8	32	34	1.86
17320332--17320372	21	1.9	22	90	5	66	51	7	24	17	1.70
17320332--17320376	20	2.2	21	84	11	58	55	6	22	15	1.63
17320330--17320377	21	2.3	20	79	10	60	56	6	22	14	1.61
17324701--17324794	45	2.1	45	82	4	109	44	4	5	45	1.45
17325372--17325430	30	2.0	30	86	0	82	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17325808--17325857	26	2.0	26	88	11	79	36	0	10	54	1.34
17331511--17331625	60	1.9	60	83	5	151	31	7	19	41	1.79
17331743--17332138	26	16.5	25	71	13	180	24	13	26	36	1.92
17331743--17331996	95	2.7	95	90	1	402	24	13	25	36	1.92
17331863--17332069	73	2.9	73	86	2	269	24	14	25	35	1.93
17332081--17332139	23	2.6	23	83	0	73	20	15	27	37	1.92
17332166--17332228	21	2.9	21	74	9	56	46	20	9	23	1.80
17336254--17336304	25	2.0	25	85	7	68	25	5	0	68	1.12
17337736--17337768	17	1.9	17	100	0	66	21	36	12	30	1.90
17338399--17338450	20	2.6	20	90	0	77	13	40	11	34	1.81
17342500--17342546	2	23.5	2	100	0	94	48	0	0	51	1.00
17342573--17342698	42	3.0	42	85	1	144	20	30	20	28	1.98
17343251--17343278	3	9.3	3	100	0	56	67	0	32	0	0.91
17354917--17354992	31	2.5	31	82	4	93	40	9	18	31	1.82
17354917--17355009	31	3.1	30	78	6	91	44	8	17	30	1.78
17357299--17357378	2	40.0	2	97	0	151	50	1	0	48	1.08
17365134--17365174	2	21.0	2	90	5	66	46	0	2	51	1.14
17365549--17365607	28	2.1	28	93	0	100	27	23	11	37	1.90
17366198--17366236	19	2.1	19	100	0	78	48	0	0	51	1.00
17368026--17368060	18	1.9	18	88	0	52	28	20	25	25	1.99
17369108--17369174	30	2.2	30	89	0	98	31	26	16	25	1.96
17370718--17370776	29	2.0	29	83	6	75	18	25	22	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17375760--17375788	2	14.5	2	100	0	58	51	0	0	48	1.00
17379310--17379419	43	2.6	43	88	2	159	22	35	18	23	1.96
17385129--17385169	2	21.0	2	95	5	75	51	0	0	48	1.00
17386968--17387126	29	5.5	28	71	11	90	33	22	20	23	1.97
17387138--17387200	28	2.2	28	83	8	74	34	33	7	23	1.84
17387199--17387263	29	2.2	29	75	0	67	30	27	21	20	1.98
17387361--17387450	29	3.1	29	74	6	85	37	30	10	22	1.87
17391205--17391247	23	1.9	23	85	4	61	76	0	2	20	0.89
17403305--17403350	19	2.4	20	82	10	60	54	0	2	43	1.12
17417385--17417471	3	30.0	3	70	19	51	31	41	3	24	1.71
17417385--17417471	26	3.3	26	100	0	174	31	41	3	24	1.71
17417481--17417633	43	3.6	42	91	1	234	22	35	17	23	1.95
17418749--17419076	164	2.0	164	98	0	629	34	18	14	32	1.91
17421986--17422127	49	2.9	49	96	0	257	28	22	12	36	1.91
17422630--17422734	6	16.5	6	74	11	66	46	13	0	40	1.43
17422635--17422731	14	7.4	14	73	13	80	47	13	0	39	1.43
17422635--17422731	40	2.5	39	94	3	169	47	13	0	39	1.43
17422685--17422739	26	2.1	26	93	0	92	47	9	1	41	1.46
17422625--17422731	20	5.4	20	77	4	119	46	14	0	38	1.50
17422647--17422739	6	15.5	6	80	0	69	47	10	1	40	1.45
17422647--17422742	20	4.8	20	80	0	93	46	11	1	40	1.47
17422769--17422900	2	67.0	2	86	5	189	50	1	46	1	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17426086--17426218	67	2.0	67	96	0	248	22	23	12	41	1.88
17426994--17427101	42	2.5	43	86	1	146	24	19	37	19	1.94
17433875--17433925	21	2.4	21	83	6	68	29	15	15	39	1.89
17438183--17438688	231	2.2	231	82	5	603	33	10	24	31	1.90
17445573--17445611	19	2.1	19	90	0	60	17	15	10	56	1.66
17450333--17450367	17	2.1	17	100	0	70	34	5	0	60	1.21
17452508--17452605	38	2.5	38	76	3	97	23	35	14	26	1.93
17457118--17457175	27	2.1	27	100	0	116	29	10	17	43	1.82
17458077--17458150	23	3.2	23	64	21	64	31	8	16	44	1.76
17458062--17458155	46	2.0	46	95	0	170	31	9	13	44	1.76
17458191--17458232	21	2.0	21	86	9	59	38	7	19	35	1.79
17458184--17458310	50	2.6	50	87	1	175	35	7	16	40	1.78
17458241--17458282	21	2.0	21	90	0	66	33	9	21	35	1.86
17458264--17458357	28	3.4	28	86	5	120	37	10	13	38	1.80
17480501--17480537	17	2.2	18	90	9	60	29	0	5	64	1.15
17495319--17495378	2	30.0	2	100	0	120	50	0	0	50	1.00
17495510--17495615	38	2.7	38	88	2	149	21	16	39	22	1.92
17500525--17500611	29	2.9	29	82	3	120	62	1	1	35	1.11
17506298--17506376	2	38.0	2	82	7	95	45	3	5	45	1.43
17506300--17506367	29	2.3	29	100	0	136	45	2	5	45	1.42
17506333--17506383	25	2.0	25	84	0	66	43	3	9	43	1.56
17510200--17510253	20	2.8	18	76	17	56	25	1	9	62	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17510818--17510973	54	2.9	54	93	0	267	19	16	42	22	1.89
17515800--17515947	40	3.7	40	95	0	269	21	37	19	21	1.95
17515861--17515928	19	3.2	23	60	23	58	23	32	23	20	1.98
17519755--17519794	18	2.2	18	95	0	71	22	2	50	25	1.62
17520794--17520853	25	2.4	25	85	0	75	26	31	13	28	1.94
17524734--17525094	179	2.0	179	98	0	695	31	12	22	33	1.91
17527118--17527146	12	2.3	13	94	5	51	6	3	0	89	0.57
17527159--17527197	17	2.2	18	90	4	62	51	0	0	48	1.00
17527847--17527893	22	2.0	24	88	8	71	78	0	19	2	0.85
17528861--17528919	26	2.3	26	93	0	100	33	28	8	28	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