genome.fa.s8.2.7.7.80.10.50.1000.74.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  74  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)
29019122--29019149	6	4.7	6	100	0	56	50	14	0	35	1.43
29029855--29029922	23	3.2	23	62	30	60	44	5	23	26	1.76
29029848--29029927	40	2.0	40	100	0	160	45	5	25	25	1.73
29041654--29041705	7	7.4	7	93	0	77	0	32	0	67	0.91
29041654--29041705	21	2.5	21	93	0	86	0	32	0	67	0.91
29050727--29050770	20	2.1	22	83	8	56	29	2	2	65	1.16
29053041--29053101	29	2.1	30	96	3	115	26	3	11	59	1.48
29053216--29053248	11	2.9	12	86	13	52	66	0	0	33	0.92
29054323--29054366	23	1.9	23	90	0	70	56	20	11	11	1.64
29054319--29054375	23	2.5	23	79	0	69	61	15	8	14	1.56
29054699--29054736	19	2.1	19	85	5	51	47	0	2	50	1.15
29060604--29060634	9	3.4	9	90	0	53	25	12	22	38	1.90
29060687--29060714	9	3.1	9	100	0	56	46	10	10	32	1.73
29061665--29061690	5	5.2	5	100	0	52	19	19	19	42	1.90
29065672--29065740	21	3.3	21	79	0	75	42	20	23	14	1.89
29065666--29065768	42	2.5	42	88	0	143	42	18	24	14	1.87
29065683--29065799	42	2.8	42	82	2	119	41	17	24	16	1.90
29065784--29065836	20	2.5	20	76	11	54	39	13	24	22	1.90
29066319--29066562	121	2.0	122	98	0	472	24	26	19	30	1.98
29068370--29069215	47	18.0	47	98	0	1647	33	12	14	38	1.84
29072119--29072187	21	3.3	21	77	0	66	42	18	23	15	1.89
29072104--29072190	42	2.1	42	84	0	111	39	18	26	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29072113--29072221	42	2.6	42	85	1	128	44	17	23	14	1.86
29082929--29082980	3	17.0	3	96	4	95	34	0	0	65	0.93
29083917--29083957	18	2.2	20	82	8	50	65	12	2	19	1.36
29084040--29084102	30	2.1	30	90	0	99	58	14	1	25	1.45
29084132--29084174	22	2.0	22	85	0	59	55	9	13	20	1.66
29089531--29089566	12	2.8	13	87	8	56	36	0	0	63	0.94
29090312--29090346	12	2.9	12	95	0	61	8	45	0	45	1.34
29090954--29090989	12	2.8	13	87	8	56	36	0	0	63	0.94
29091739--29091778	20	2.0	20	90	0	62	50	5	10	35	1.58
29091727--29091793	34	1.9	35	87	3	100	46	8	8	35	1.67
29092397--29092499	27	3.8	27	88	5	147	19	21	35	23	1.96
29092561--29092610	18	2.6	19	81	9	66	66	2	32	0	1.03
29092557--29092612	13	4.7	11	74	21	51	66	1	32	0	1.03
29092561--29092613	12	4.2	12	76	13	54	67	1	30	0	1.01
29097893--29098070	89	2.0	89	96	0	329	23	29	18	29	1.98
29106348--29106407	16	3.5	16	72	22	50	38	3	8	50	1.49
29106414--29106489	26	2.9	26	92	0	125	34	5	7	52	1.53
29109873--29110000	57	2.2	57	90	0	202	16	13	27	42	1.85
29114154--29114195	14	2.9	14	80	16	50	64	4	0	30	1.14
29114154--29114199	16	3.0	16	84	12	53	63	4	0	32	1.14
29115882--29116048	83	2.0	84	97	1	318	49	8	7	34	1.60
29122161--29122194	17	1.9	18	88	5	52	5	23	0	70	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29133875--29133941	33	2.0	33	88	0	98	52	0	38	8	1.33
29133892--29133946	3	18.3	3	88	0	65	56	0	38	5	1.23
29153201--29153248	17	2.7	18	87	6	71	35	4	4	56	1.38
29156552--29156593	20	2.1	20	86	0	57	47	0	7	45	1.30
29157974--29158264	144	2.0	144	99	0	573	23	17	15	43	1.87
29159100--29159149	16	3.2	15	82	5	64	36	18	20	26	1.95
29160177--29160226	20	2.5	21	80	9	59	4	12	4	80	1.00
29174363--29174507	45	3.3	44	79	3	139	28	20	24	25	1.99
29174363--29174534	44	3.9	44	76	4	159	30	19	25	25	1.98
29174363--29174534	88	2.0	88	88	0	254	30	19	25	25	1.98
29174388--29174534	44	3.3	44	77	3	170	34	17	25	23	1.96
29175699--29175755	29	2.0	27	86	6	78	3	10	5	80	0.98
29181147--29181200	26	2.1	26	96	3	101	44	14	3	37	1.63
29205574--29205654	44	1.9	43	85	7	112	55	8	2	33	1.44
29207340--29207540	107	1.9	107	84	2	269	33	13	24	28	1.94
29207732--29207774	16	2.7	16	92	0	68	34	4	4	55	1.41
29209028--29209078	18	2.7	19	81	6	59	58	7	0	33	1.27
29214235--29214797	3	187.7	3	99	0	1108	66	0	0	33	0.94
29215482--29215521	20	2.0	20	85	9	55	2	15	5	77	1.04
29215685--29215722	14	2.4	17	87	12	55	52	0	0	47	1.00
29216341--29216391	19	2.5	20	78	9	59	39	0	3	56	1.18
29222123--29222179	22	2.5	22	76	18	55	56	3	0	40	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29226325--29226397	30	2.4	31	88	2	112	46	10	13	28	1.77
29227806--29227857	27	1.9	27	84	7	70	50	3	0	46	1.20
29247169--29247212	23	1.9	23	100	0	88	45	0	18	36	1.49
29261944--29262004	29	2.1	28	87	3	86	40	18	14	26	1.89
29268700--29268733	3	11.3	3	100	0	68	67	0	32	0	0.91
29277439--29277489	25	2.1	24	82	10	59	60	3	21	13	1.49
29279931--29279955	13	1.9	13	100	0	50	56	0	16	28	1.41
29286001--29286287	94	3.0	95	80	6	314	39	4	15	40	1.67
29286082--29286287	93	2.2	94	86	3	279	42	4	15	37	1.67
29297050--29297120	35	2.0	35	100	0	142	30	16	19	32	1.95
29299503--29299534	12	2.6	13	85	14	50	0	21	0	78	0.76
29310648--29310732	44	1.9	44	92	0	143	45	12	14	27	1.81
29312597--29312687	44	2.1	44	93	4	157	49	12	9	28	1.72
29313934--29314360	103	4.1	104	96	1	745	20	19	29	30	1.97
29313934--29314360	207	2.1	208	94	2	745	20	19	29	30	1.97
29317076--29317119	17	2.5	17	85	3	52	40	34	18	6	1.77
29318176--29318271	25	3.8	25	74	15	81	35	7	5	52	1.52
29318197--29318268	28	2.6	27	79	14	74	34	6	5	52	1.52
29318207--29318270	29	2.2	30	88	2	94	39	6	6	48	1.54
29321531--29321572	22	1.9	22	90	0	66	11	14	7	66	1.43
29322520--29322562	13	3.2	14	83	6	54	69	2	13	13	1.28
29323982--29324723	132	5.6	132	96	0	1270	29	19	22	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29324864--29325057	44	4.5	43	73	8	162	27	22	22	27	1.99
29325409--29325452	17	2.5	17	85	3	52	40	34	18	6	1.77
29326449--29326477	3	9.7	3	100	0	58	34	0	0	65	0.93
29326499--29326592	27	3.6	26	74	14	86	36	8	5	50	1.56
29326523--29326582	29	2.1	29	87	6	88	30	10	6	53	1.60
29326531--29326594	29	2.2	30	91	2	103	39	7	6	46	1.58
29330561--29330586	11	2.4	11	100	0	52	65	7	7	19	1.43
29337271--29337314	21	2.2	20	92	8	72	54	4	2	38	1.33
29345453--29345495	10	4.1	10	79	8	50	58	2	0	39	1.11
29345453--29345495	21	2.0	21	86	0	59	58	2	0	39	1.11
29345569--29345607	16	2.5	16	87	4	53	53	0	0	46	1.00
29345853--29345885	16	1.9	18	88	11	52	39	0	0	60	0.97
29347104--29347143	18	2.2	19	90	4	64	40	0	5	55	1.22
29348991--29349153	81	2.0	82	98	1	319	39	6	4	49	1.49
29358210--29358276	23	2.9	23	80	4	73	67	4	1	26	1.19
29358241--29358274	14	2.4	14	85	0	50	73	0	0	26	0.83
29358465--29358545	26	3.1	26	77	7	76	61	4	1	32	1.25
29358506--29358558	23	2.3	23	86	3	70	66	3	0	30	1.10
29358468--29358545	36	2.1	37	83	4	95	61	5	1	32	1.26
29360706--29360743	20	1.9	20	88	0	58	28	21	7	42	1.81
29369696--29369734	2	19.5	2	94	0	69	0	46	2	51	1.14
29377919--29379308	216	6.5	215	79	2	1339	15	30	12	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29377919--29379308	72	19.4	72	78	4	1153	15	30	12	41	1.84
29377919--29379308	144	9.7	143	80	3	1402	15	30	12	41	1.84
29379241--29380283	117	8.9	117	78	10	1087	14	29	15	41	1.86
29379241--29383195	363	11.3	340	74	13	2183	14	28	14	42	1.85
29379937--29380170	129	1.8	129	85	7	332	14	29	13	42	1.84
29379241--29380295	240	4.5	231	85	7	1078	14	29	14	41	1.86
29380292--29380673	72	5.4	72	80	5	436	14	30	13	41	1.84
29380336--29380615	138	2.0	138	85	1	373	15	31	12	41	1.84
29380187--29380700	72	7.2	72	75	9	367	14	30	14	40	1.86
29380606--29383313	117	22.9	117	78	9	2521	14	28	14	42	1.85

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