genome.fa.s8.2.7.7.80.10.50.1000.11.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:  48574783

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   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   

This is table  11  of  135  ( 16172 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)
5150204--5150237	17	2.0	17	88	11	52	41	0	0	58	0.98
5150592--5150650	25	2.5	25	76	17	63	50	1	10	37	1.46
5155313--5155344	3	10.7	3	100	0	64	34	0	0	65	0.93
5160566--5160600	15	2.3	15	90	0	52	45	0	22	31	1.53
5161954--5162099	30	4.9	30	96	0	265	13	38	24	23	1.91
5174275--5174529	126	2.0	127	97	0	485	40	8	10	41	1.70
5189386--5189449	31	2.1	31	100	0	128	42	12	28	17	1.85
5197014--5197048	18	2.0	17	88	5	52	45	0	0	54	0.99
5197038--5197084	12	3.8	12	79	17	51	48	0	4	46	1.21
5197226--5197313	45	2.0	45	84	6	117	35	25	5	34	1.79
5197294--5197326	16	2.1	16	94	0	57	24	36	6	33	1.80
5212728--5212766	16	2.6	14	84	15	51	79	0	2	17	0.84
5221209--5221255	18	2.8	16	78	12	58	19	21	10	48	1.78
5230604--5230633	2	15.0	2	92	0	51	46	0	3	50	1.18
5231536--5231580	23	2.0	23	86	8	65	37	2	2	57	1.23
5238896--5238922	5	5.4	5	100	0	54	81	0	18	0	0.69
5239136--5239179	21	2.1	21	86	0	61	59	0	9	31	1.29
5245188--5245235	15	2.9	17	79	17	57	33	2	4	60	1.27
5246160--5246186	14	1.9	14	100	0	54	40	0	14	44	1.46
5246211--5246257	22	2.3	21	79	13	53	46	8	17	27	1.76
5246523--5246586	33	1.9	33	90	0	101	21	12	12	53	1.71
5249014--5249056	21	2.2	19	83	8	50	48	2	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5249116--5249202	33	2.9	29	74	22	81	24	14	10	50	1.74
5249124--5249189	33	2.0	33	88	5	98	22	13	13	50	1.77
5249828--5249886	19	2.9	22	63	17	54	28	32	20	18	1.96
5250096--5250193	11	8.3	11	71	20	56	23	30	3	42	1.69
5250077--5250147	22	3.1	21	78	15	63	25	28	1	45	1.62
5250096--5250204	22	5.1	22	69	14	68	23	29	2	44	1.68
5250646--5250687	21	2.0	21	85	0	57	50	38	0	11	1.40
5257446--5257492	24	2.0	24	82	0	58	57	4	2	36	1.30
5257643--5257681	17	2.4	16	83	8	51	69	5	0	25	1.09
5266256--5266337	32	2.6	32	76	23	93	30	25	14	29	1.95
5266278--5266336	28	2.0	29	90	9	93	30	25	13	30	1.94
5276273--5276310	2	19.0	2	100	0	76	0	50	0	50	1.00
5278451--5278879	106	4.1	106	92	2	704	32	17	18	31	1.94
5279416--5281335	809	2.4	809	98	0	3698	27	13	26	32	1.93
5283474--5283508	15	2.3	15	90	0	52	85	0	11	2	0.69
5284574--5284613	21	1.9	21	84	0	53	22	25	12	40	1.89
5291297--5291505	104	2.0	105	99	0	411	43	33	7	15	1.75
5291990--5292014	3	8.3	3	100	0	50	0	0	32	68	0.90
5298665--5298732	25	2.8	24	86	13	86	72	7	10	10	1.29
5300198--5300401	87	2.4	85	78	7	198	29	20	22	27	1.98
5299976--5301147	218	5.4	217	89	1	1645	30	20	21	26	1.98
5300853--5301403	260	2.1	259	92	1	915	29	20	23	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5301113--5301581	217	2.2	216	89	5	705	30	20	22	27	1.98
5300670--5301785	477	2.3	477	87	3	1529	30	19	22	27	1.98
5300680--5301800	44	25.9	44	72	8	423	30	19	22	27	1.98
5301423--5301831	85	4.8	85	73	8	317	32	17	21	28	1.96
5301419--5301793	129	2.9	129	96	0	687	32	18	21	28	1.97
5303284--5303308	3	8.3	3	100	0	50	0	0	32	68	0.90
5303436--5303492	23	2.5	24	80	5	64	40	3	0	56	1.17
5305468--5305538	12	5.8	12	72	6	52	18	4	9	67	1.35
5305496--5305548	26	2.0	26	82	7	63	16	3	13	66	1.39
5323130--5323617	171	2.8	170	78	8	463	47	9	12	31	1.72
5323306--5323617	174	1.8	171	81	4	394	47	9	10	31	1.71
5324063--5324106	20	2.3	19	84	11	54	68	2	2	27	1.14
5326985--5327028	21	2.1	21	100	0	88	38	27	9	25	1.86
5329205--5329236	7	4.6	7	96	0	55	31	15	0	53	1.43
5329694--5329766	37	1.9	38	83	8	96	31	23	1	43	1.62
5336559--5336678	41	2.9	41	88	0	177	30	22	20	25	1.98
5340638--5340689	27	1.9	27	84	0	68	17	19	25	38	1.93
5341349--5341428	40	2.0	40	92	0	133	30	16	25	28	1.96
5344593--5344640	3	16.3	3	81	12	55	62	4	2	31	1.26
5344548--5344762	106	2.0	107	99	0	423	48	6	12	33	1.66
5344699--5344746	3	16.3	3	81	12	55	62	4	2	31	1.26
5344870--5344913	4	11.0	4	85	0	52	68	0	6	25	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5345061--5345091	8	3.9	8	95	0	53	83	0	0	16	0.64
5346945--5346973	14	2.1	14	100	0	58	31	20	13	34	1.92
5349045--5349088	3	14.7	3	82	0	52	29	4	4	61	1.36
5349046--5349088	15	2.9	14	89	6	59	30	4	4	60	1.37
5349045--5349088	18	2.4	18	92	0	70	29	4	4	61	1.36
5349231--5349281	3	17.0	3	95	0	93	35	0	0	64	0.94
5349505--5349540	19	1.9	18	88	5	54	27	8	5	58	1.50
5352691--5352744	21	2.6	21	96	0	99	22	29	14	33	1.94
5360128--5360154	2	13.5	2	100	0	54	48	0	0	51	1.00
5363499--5363572	36	2.0	37	97	2	141	37	27	8	27	1.84
5363499--5363566	20	3.6	21	68	24	69	39	27	7	25	1.82
5364356--5364455	29	3.4	29	91	0	155	19	38	24	19	1.94
5372019--5372092	29	2.5	31	80	12	102	18	36	22	21	1.95
5374437--5374889	50	9.0	50	79	6	524	32	21	19	26	1.97
5374429--5374889	100	4.6	100	91	0	762	32	21	19	26	1.97
5376009--5376181	47	3.6	47	73	9	170	34	24	17	23	1.96
5375967--5376487	96	5.3	97	80	6	509	33	23	20	23	1.97
5376009--5376481	49	9.7	48	69	7	204	33	23	19	24	1.97
5375967--5376487	194	2.7	191	79	5	483	33	23	20	23	1.97
5377864--5377913	3	16.7	3	87	0	64	34	8	0	58	1.28
5378866--5378890	8	3.1	8	100	0	50	48	12	16	24	1.79
5383340--5383383	23	1.9	23	90	0	70	43	4	9	43	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5383442--5383480	19	2.2	18	86	9	53	74	2	12	10	1.17
5384540--5384588	23	2.1	23	88	0	71	24	20	16	38	1.92
5392851--5392917	34	1.9	35	87	3	100	37	22	22	17	1.94
5395906--5395959	20	2.7	20	88	0	72	46	1	29	22	1.62
5397493--5397568	38	2.0	38	97	0	143	31	26	17	25	1.97
5402125--5402258	68	2.0	68	96	0	250	29	11	18	40	1.85
5404295--5404336	10	4.2	10	76	11	50	30	0	2	66	1.04
5406232--5406264	7	4.7	7	96	0	57	48	0	21	30	1.50
5406213--5406264	14	3.7	14	84	5	52	50	1	15	32	1.55
5406225--5406264	21	1.9	21	84	0	53	50	0	17	32	1.47
5406246--5406300	21	2.7	20	83	8	65	47	0	16	36	1.47
5413910--5413934	13	1.9	13	100	0	50	92	0	0	8	0.40
5415381--5416147	45	17.7	46	69	19	238	26	23	20	28	1.99
5415521--5415630	43	2.5	45	82	5	136	28	20	22	28	1.99
5415333--5416147	44	18.8	45	70	13	320	26	23	20	28	1.99
5415596--5416145	89	6.3	89	68	16	296	26	23	21	28	1.99
5415347--5416147	216	3.7	216	92	1	1311	26	23	21	28	1.99
5428675--5428906	116	2.0	116	98	0	446	33	28	15	21	1.95
5430326--5430408	10	7.9	10	70	12	51	60	6	4	28	1.41
5430615--5430653	19	2.0	21	90	10	64	51	0	5	43	1.24
5432968--5433027	11	5.4	11	73	9	50	45	0	1	53	1.10
5443424--5443466	9	4.9	9	78	16	54	72	2	0	25	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5443424--5443454	16	1.9	16	93	0	53	70	0	0	29	0.87
5444454--5444479	12	2.2	12	100	0	52	38	7	7	46	1.61
5447814--5447848	18	1.9	18	88	0	52	51	2	0	45	1.16
5455927--5456159	76	3.1	76	100	0	466	37	22	7	32	1.83
5461546--5461570	12	2.1	12	100	0	50	24	36	24	16	1.94
5461729--5461796	9	7.4	9	85	9	84	41	26	10	22	1.85
5475880--5476073	96	2.0	98	97	2	374	32	11	15	40	1.83
5479566--5479657	45	2.0	45	85	0	121	38	20	16	25	1.93
5483948--5484007	31	2.0	30	90	3	93	33	11	10	45	1.74
5489590--5489654	26	2.3	29	82	7	73	40	6	0	53	1.26

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   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135