genome.fa.s1.2.7.7.80.10.50.1000.29.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: chr1
Parameters: 2 7 7 80 10 50 1000
Length:  37323695

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   

This is table  29  of  93  ( 11113 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)
11818181--11818377	103	1.9	104	84	5	265	27	14	35	23	1.93
11818386--11818455	23	3.0	22	78	15	79	25	15	34	24	1.95
11818844--11819271	55	7.8	54	83	3	462	12	12	26	48	1.77
11819323--11819443	31	3.9	31	86	0	161	28	16	20	34	1.94
11821675--11821913	81	3.0	80	82	5	268	21	20	29	28	1.98
11823307--11823921	86	7.2	86	86	1	786	27	30	22	19	1.98
11827546--11827674	23	5.7	23	73	3	118	33	24	10	31	1.90
11827569--11827643	22	3.4	22	72	3	78	37	21	9	32	1.85
11827545--11827666	45	2.7	45	89	0	199	34	24	9	31	1.88
11829140--11829173	16	2.1	16	94	0	59	61	0	0	38	0.96
11829235--11829284	24	2.1	24	88	0	73	52	2	4	42	1.31
11829278--11829343	28	2.5	26	82	5	69	54	3	0	42	1.15
11829159--11829537	135	2.7	139	82	11	400	55	3	1	40	1.23
11829248--11829537	150	2.0	147	83	8	365	54	3	1	41	1.24
11829372--11829470	20	4.9	19	71	19	76	48	2	1	48	1.19
11829192--11829617	69	6.0	69	72	13	323	57	3	0	38	1.20
11829502--11829632	14	9.5	13	67	15	59	61	2	0	35	1.14
11829561--11829714	26	5.8	26	70	15	109	56	3	0	39	1.20
11829736--11829814	16	4.8	16	70	11	61	56	1	1	40	1.15
11829575--11829883	157	2.0	151	87	6	437	54	2	1	41	1.22
11830000--11830191	93	2.0	96	83	4	246	39	18	8	33	1.81
11830857--11830885	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11838117--11838157	2	21.5	2	82	9	50	48	2	48	0	1.14
11838879--11838919	15	2.4	18	80	11	52	43	0	4	51	1.23
11842396--11842435	18	2.2	18	86	0	53	37	2	7	52	1.43
11842995--11843082	45	2.0	44	82	6	106	43	9	11	36	1.72
11843791--11843884	29	3.2	29	80	8	86	38	9	11	40	1.74
11843811--11843885	29	2.7	29	87	4	100	40	12	10	37	1.77
11845101--11845192	30	2.9	32	72	18	86	51	1	2	45	1.20
11845114--11845186	26	2.6	27	82	8	85	50	1	1	46	1.18
11849302--11849573	82	3.2	82	61	19	185	32	5	11	50	1.62
11849257--11849610	176	2.0	175	98	0	681	33	5	12	48	1.64
11849541--11849614	35	2.1	34	87	2	103	25	1	13	59	1.42
11850878--11850968	28	3.2	28	90	3	130	28	7	18	45	1.77
11854399--11854466	17	4.0	17	67	17	52	51	1	1	45	1.19
11854620--11854685	23	3.0	20	73	16	60	48	1	1	48	1.20
11854171--11854680	188	2.6	190	88	5	722	51	1	3	43	1.29
11854324--11854724	201	2.0	203	88	4	605	52	1	2	42	1.27
11854724--11854777	27	2.0	27	82	7	65	46	1	0	51	1.11
11855539--11855589	25	2.2	23	86	10	68	19	19	3	56	1.57
11855895--11855933	21	2.0	20	85	14	55	58	5	0	35	1.20
11877192--11877270	31	2.5	31	82	8	97	21	13	34	30	1.92
11877075--11878166	117	9.4	117	83	3	1301	22	19	29	28	1.98
11877112--11878166	459	2.3	462	84	4	1329	22	19	29	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11881908--11881994	31	2.8	31	94	0	147	33	21	17	27	1.96
11882070--11882453	55	7.0	55	85	2	468	45	30	10	12	1.76
11882840--11882906	23	2.9	23	86	0	80	26	28	19	25	1.99
11882863--11882911	23	2.1	23	84	0	62	22	32	18	26	1.97
11882991--11883093	46	2.2	47	87	1	145	26	32	15	26	1.96
11883099--11883142	23	1.9	23	90	0	70	25	38	11	25	1.89
11883009--11883234	104	2.2	104	80	4	258	25	32	14	27	1.94
11883200--11883313	23	4.9	23	77	6	113	25	35	11	27	1.90
11886469--11886573	54	1.9	54	96	0	192	49	20	7	22	1.74
11887348--11887380	13	2.6	13	90	4	50	27	0	0	72	0.85
11888418--11888455	19	2.0	20	90	10	62	55	0	0	44	0.99
11888419--11888460	10	4.3	10	80	14	52	57	0	0	42	0.99
11892785--11892814	6	5.0	6	95	0	51	80	3	16	0	0.85
11895694--11895790	40	2.5	39	81	8	117	37	13	17	31	1.89
11897268--11897318	24	2.2	23	92	3	84	31	9	31	27	1.89
11898472--11898520	25	2.1	22	81	11	53	36	2	0	61	1.08
11907386--11907434	2	25.5	2	87	8	75	51	0	2	46	1.12
11907386--11907434	19	2.6	19	93	0	89	51	0	2	46	1.12
11911661--11911916	128	2.0	128	93	1	433	31	9	14	43	1.78
11916925--11916949	2	12.5	2	100	0	50	0	52	0	48	1.00
11918684--11918875	99	1.9	98	100	0	375	29	10	5	53	1.57
11919035--11919158	60	2.1	57	85	7	160	33	7	10	49	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11919698--11919926	27	8.4	27	75	3	174	44	16	5	33	1.71
11919698--11919844	55	2.7	55	81	1	161	45	16	4	33	1.68
11920968--11921081	45	2.5	45	82	0	138	42	14	16	25	1.87
11921126--11921168	23	1.9	22	85	4	59	74	2	11	11	1.17
11921123--11921180	18	3.2	18	68	22	50	72	1	10	15	1.19
11924094--11924128	16	2.2	16	89	0	52	20	11	14	54	1.70
11925494--11925535	22	1.9	22	90	0	66	38	2	19	40	1.64
11936858--11936927	36	1.9	37	88	8	108	34	17	12	35	1.88
11947697--11947728	13	2.6	13	85	14	50	59	0	0	40	0.97
11949409--11949438	2	15.5	2	93	6	53	50	0	0	50	1.00
11950285--11950365	22	3.7	21	72	9	65	28	11	17	43	1.83
11950467--11950595	66	2.0	66	92	0	213	43	25	12	18	1.85
11950561--11950626	22	3.0	22	84	0	69	46	15	12	25	1.80
11950575--11950629	22	2.5	22	87	0	74	49	12	12	25	1.76
11950763--11950888	60	2.1	59	85	1	171	42	17	5	34	1.73
11953873--11953907	7	5.0	7	96	0	61	25	14	28	31	1.95
11955782--11955862	40	2.1	39	86	4	110	29	18	6	45	1.73
11960978--11961003	3	8.7	3	100	0	52	30	0	34	34	1.58
11972221--11972245	6	4.2	6	100	0	50	52	16	16	16	1.76
11973077--11973103	4	6.8	4	100	0	54	77	0	22	0	0.76
11973372--11973410	2	20.0	2	89	5	62	51	0	0	48	1.00
11976191--11976367	72	2.5	72	81	0	201	36	20	19	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11984326--11984372	24	1.9	25	86	4	69	14	31	31	21	1.94
11984411--11984460	22	2.3	21	79	3	55	54	0	0	46	1.00
11985281--11985305	6	4.2	6	100	0	50	68	0	0	32	0.90
11985659--11985684	3	8.7	3	100	0	52	65	0	0	34	0.93
11986327--11986368	10	4.1	10	84	9	50	9	7	7	76	1.17
11986337--11986368	10	3.2	10	95	0	55	9	9	6	75	1.20
11990819--11990861	19	2.3	19	100	0	86	13	9	34	41	1.77
11994834--11994906	36	2.0	36	94	0	128	24	20	21	32	1.97
11998509--11998545	10	3.8	10	83	16	51	78	0	2	18	0.87
12002868--12002909	22	1.9	22	85	9	59	69	0	2	28	1.01
12006405--12006466	31	2.0	31	96	0	115	43	20	6	29	1.77
12030304--12030481	90	2.0	91	89	1	277	38	15	17	28	1.91
12038217--12038245	2	15.0	2	92	7	51	48	0	51	0	1.00
12040033--12040079	21	2.2	22	92	3	78	19	4	2	74	1.09
12044138--12044195	23	2.5	24	81	15	70	13	12	12	62	1.56
12048538--12048577	20	1.9	22	90	10	66	40	0	0	60	0.97
12048594--12048624	2	15.5	2	93	0	53	54	0	0	45	0.99
12052003--12052028	3	8.7	3	100	0	52	65	0	0	34	0.93
12054361--12054396	2	18.0	2	100	0	72	50	0	0	50	1.00
12060730--12060773	20	2.2	20	87	0	61	65	6	4	22	1.35
12071020--12071203	28	6.7	27	78	3	134	40	12	8	38	1.74
12071045--12071260	27	7.9	27	79	2	135	42	13	8	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12071047--12071242	55	3.6	55	80	5	184	40	13	7	37	1.74
12072427--12072727	47	6.4	47	80	3	311	26	14	34	23	1.94
12072425--12072727	93	3.2	93	83	5	355	26	15	34	23	1.94
12072643--12072724	24	3.5	24	70	21	64	28	18	32	20	1.96
12072722--12072825	53	2.0	52	84	1	136	25	20	27	26	1.99
12073299--12073520	31	7.2	31	86	5	281	26	16	18	38	1.92
12075156--12075648	156	3.2	156	84	1	621	34	18	18	28	1.95
12075995--12076386	31	12.6	31	76	3	369	21	19	18	40	1.92
12075995--12076352	93	3.8	93	88	2	495	21	19	18	40	1.92
12077871--12077918	16	3.1	16	78	6	53	33	14	6	45	1.70

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