genome.fa.s13.2.7.7.80.10.50.1000.13.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: Chr11
Parameters: 2 7 7 80 10 50 1000
Length:  47972186

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   136   137   138   139   140   141   142   143   144   
          145   

This is table  13  of  145  ( 17310 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)
5174085--5174140	28	2.0	28	92	0	94	35	28	10	25	1.89
5174206--5174251	23	2.0	23	100	0	92	34	17	21	26	1.95
5175192--5175229	5	7.6	5	85	11	51	21	13	21	44	1.85
5175192--5175237	20	2.3	20	88	7	67	23	13	21	41	1.88
5182174--5182234	21	3.0	21	61	29	51	47	4	27	19	1.70
5186074--5186115	22	1.9	22	95	0	75	9	21	28	40	1.84
5186179--5186405	43	5.3	43	81	9	236	28	30	18	23	1.97
5186179--5186428	86	2.9	85	82	5	267	30	30	17	22	1.97
5188228--5188260	17	1.9	17	93	0	57	57	24	0	18	1.40
5190485--5190532	24	2.0	24	84	8	62	27	6	8	58	1.51
5191096--5191135	21	1.9	21	89	0	62	42	37	0	20	1.52
5191142--5191170	15	1.9	15	100	0	58	44	34	0	20	1.52
5191123--5191176	22	2.5	21	81	3	63	48	29	0	22	1.51
5192493--5192724	41	5.7	40	84	2	198	31	25	21	22	1.98
5192493--5192724	40	5.7	41	82	8	212	31	25	21	22	1.98
5192525--5192729	83	2.5	84	87	3	283	29	27	21	21	1.98
5192525--5192728	41	5.0	42	84	7	251	29	26	21	21	1.99
5192906--5192930	12	2.1	12	100	0	50	44	32	16	8	1.76
5208177--5208767	296	2.0	296	97	1	1114	38	15	13	31	1.87
5210709--5210805	31	3.2	31	68	19	87	27	20	9	42	1.83
5210642--5210834	59	3.2	58	79	10	194	26	17	10	45	1.81
5213341--5213437	31	3.2	31	68	19	87	27	20	9	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5213274--5213466	59	3.2	58	79	10	194	26	17	10	45	1.81
5213800--5213927	31	4.2	30	69	17	75	46	9	17	26	1.78
5214166--5214301	63	2.2	63	84	7	172	36	16	5	41	1.73
5216328--5216376	20	2.7	18	77	22	57	51	4	2	42	1.32
5216328--5216425	37	2.6	38	77	17	100	52	4	3	40	1.36
5220038--5220385	105	3.4	104	84	5	447	36	12	18	31	1.89
5220221--5220421	37	5.6	37	71	11	159	38	14	17	28	1.90
5220221--5220527	142	2.2	142	98	0	596	38	14	17	28	1.90
5222116--5222161	19	2.4	21	79	17	55	36	0	17	45	1.49
5223370--5223406	15	2.5	15	90	0	56	35	8	10	45	1.69
5235291--5235334	22	2.0	23	86	4	63	68	0	0	31	0.90
5236692--5237401	44	15.6	45	68	15	268	29	20	18	31	1.96
5236876--5237213	137	2.5	134	84	4	423	29	20	18	31	1.96
5237057--5237403	184	1.9	187	87	4	515	30	21	17	30	1.96
5236945--5237598	321	2.0	328	86	6	927	29	21	17	31	1.96
5237281--5237550	147	1.8	149	87	4	404	31	21	16	31	1.95
5242410--5242457	20	2.5	18	83	12	60	58	12	12	16	1.63
5243786--5243830	23	1.9	24	86	4	65	68	0	0	31	0.89
5247708--5247875	43	3.9	43	88	3	225	30	27	16	25	1.97
5247669--5247875	86	2.4	85	80	6	229	30	26	16	27	1.97
5258493--5258544	17	2.9	18	77	8	54	53	0	25	21	1.45
5262144--5262224	40	2.0	41	85	7	112	30	25	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5264570--5264627	30	2.0	30	86	3	82	37	1	3	56	1.26
5266307--5266339	14	2.3	15	89	5	50	57	3	0	39	1.14
5271421--5271451	3	10.3	3	92	0	53	29	0	3	67	1.06
5274446--5274507	27	2.3	27	94	2	106	46	14	16	22	1.83
5283278--5283322	24	1.9	23	81	4	54	20	8	17	53	1.70
5285146--5285294	57	2.6	58	86	6	196	49	6	17	26	1.69
5285249--5285278	14	2.2	13	94	5	51	70	0	16	13	1.18
5290981--5291006	5	5.2	5	100	0	52	38	19	19	23	1.93
5290955--5291006	26	2.0	26	81	7	61	34	15	26	23	1.94
5291666--5291702	9	4.1	9	92	0	65	29	10	13	45	1.77
5294977--5295046	28	2.4	29	81	9	90	32	1	8	57	1.38
5306287--5306323	14	2.6	14	91	0	56	67	2	2	27	1.17
5327877--5327910	16	2.1	16	89	10	52	41	20	2	35	1.68
5330517--5330558	13	3.3	13	81	15	52	71	0	4	23	1.05
5330517--5330566	25	2.0	26	84	4	66	70	0	4	26	1.05
5331865--5331922	25	2.3	25	96	0	107	50	12	12	25	1.74
5332458--5332521	29	2.2	29	88	0	92	29	9	17	43	1.80
5338125--5338152	12	2.3	12	100	0	56	28	50	21	0	1.49
5342747--5342867	3	40.7	3	73	4	93	59	2	5	32	1.34
5344000--5344099	43	2.3	43	81	3	121	27	30	18	25	1.98
5344443--5344669	43	5.3	43	83	3	273	26	30	17	25	1.97
5344443--5344680	127	1.9	127	83	6	313	27	30	16	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5345056--5345148	21	4.4	21	87	0	123	4	43	16	36	1.67
5344970--5345206	129	1.8	129	86	0	339	11	31	17	40	1.85
5350246--5350315	12	6.0	12	70	18	58	40	0	15	44	1.47
5350279--5350343	9	7.7	9	71	13	57	40	0	16	43	1.49
5350278--5350347	25	2.8	25	87	8	99	40	0	15	44	1.47
5352384--5352425	19	2.2	19	91	0	66	14	2	2	80	0.90
5352403--5352427	13	1.9	13	100	0	50	12	0	0	88	0.53
5352683--5352724	14	2.9	14	80	16	50	35	45	0	19	1.50
5352897--5352947	23	2.1	26	82	10	63	56	5	1	35	1.35
5353018--5353054	15	2.6	14	87	8	56	40	40	0	18	1.51
5353610--5353711	40	2.6	38	83	10	123	27	20	20	31	1.98
5353462--5353930	196	2.4	193	81	8	563	29	24	20	26	1.99
5353810--5353907	40	2.5	40	85	6	119	26	28	23	21	1.99
5353966--5354114	40	3.7	40	79	10	117	25	23	19	31	1.98
5357499--5358869	50	27.4	50	69	4	699	22	19	25	32	1.97
5357775--5358869	100	11.0	100	87	2	1387	22	19	25	32	1.97
5359952--5360034	44	1.9	44	90	2	132	28	28	13	28	1.94
5359952--5360061	43	2.5	44	85	2	134	26	28	12	32	1.93
5360148--5360208	11	5.4	11	76	11	52	0	19	1	78	0.83
5361187--5361230	20	2.3	19	80	4	52	2	20	0	77	0.88
5361193--5361269	9	8.4	9	75	12	50	7	7	1	83	0.88
5361238--5361275	8	4.6	8	93	6	67	10	0	0	89	0.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5361236--5361275	17	2.4	17	100	0	80	12	0	0	87	0.54
5373329--5373371	18	2.4	18	96	0	77	23	20	27	27	1.99
5376278--5376317	20	2.0	20	85	0	53	50	2	2	45	1.28
5382245--5382331	25	3.5	24	78	10	95	33	4	5	56	1.44
5385578--5385991	132	3.1	132	86	1	571	28	24	17	29	1.98
5385808--5385989	44	4.1	44	67	13	104	28	26	17	28	1.97
5385983--5386631	89	7.3	89	85	0	803	25	22	23	28	1.99
5386133--5386661	45	11.9	44	65	14	156	26	23	22	28	1.99
5386647--5387800	44	25.8	43	69	13	489	27	22	18	31	1.98
5386593--5387798	89	13.5	88	71	10	597	27	22	19	30	1.98
5386611--5387128	225	2.3	224	81	6	564	28	21	19	30	1.97
5386596--5387710	178	6.2	178	74	8	685	27	22	19	30	1.98
5387064--5387810	312	2.4	313	83	4	886	26	23	19	30	1.98
5386870--5387756	134	6.6	134	76	7	659	27	23	18	30	1.98
5386824--5387835	134	7.5	132	75	9	559	27	23	18	31	1.97
5391722--5391767	24	1.9	24	86	8	67	54	15	13	17	1.71
5394855--5394913	30	2.0	30	83	3	75	50	11	5	32	1.61
5401597--5401633	20	1.9	18	89	10	56	54	5	0	40	1.24
5402564--5402600	20	1.9	18	89	10	56	54	5	0	40	1.24
5401261--5403194	967	2.0	967	100	0	3868	37	15	17	29	1.91
5404267--5404502	88	2.7	89	81	6	266	29	25	13	32	1.93
5404267--5404477	90	2.4	89	83	6	250	27	25	14	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5413096--5413318	89	2.5	89	83	3	261	25	23	16	34	1.95
5413193--5413360	90	1.9	90	82	0	210	27	20	14	38	1.91
5416508--5416565	28	2.0	28	83	12	73	58	1	6	32	1.35
5416936--5416977	21	2.0	21	85	0	57	33	0	4	61	1.17
5418024--5418063	20	2.0	21	85	14	57	35	42	10	12	1.76
5432005--5432072	9	7.4	9	79	9	66	27	10	19	42	1.83
5432030--5432081	18	2.9	18	85	0	68	28	7	23	40	1.82
5432005--5432081	27	2.8	27	78	5	75	27	9	20	42	1.82
5432030--5432081	9	5.8	9	86	0	50	28	7	23	40	1.82
5434310--5434525	39	5.5	39	89	2	317	46	21	4	27	1.71

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   136   137   138   139   140   141   142   143   144   
          145