genome.fa.s1.2.7.7.80.10.50.1000.31.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  31  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)
12320356--12320505	70	2.1	70	91	2	239	32	23	12	32	1.92
12322725--12322785	26	2.5	23	80	17	77	59	6	13	21	1.57
12322732--12322784	26	2.0	26	96	0	97	58	7	13	20	1.59
12324357--12324474	24	5.0	24	76	6	134	21	28	18	31	1.97
12324357--12324485	69	1.9	69	91	0	213	20	28	18	31	1.97
12326369--12326432	23	2.9	21	77	11	65	42	23	10	23	1.86
12326996--12327033	20	2.0	20	89	5	60	31	42	10	15	1.81
12335416--12335495	23	3.6	23	78	13	76	25	30	13	31	1.94
12335618--12335679	23	2.7	23	82	5	72	25	35	11	27	1.90
12337166--12337216	18	2.8	18	79	5	50	33	7	7	50	1.60
12346785--12346821	3	12.7	3	88	5	58	67	2	0	29	1.04
12346864--12346915	4	13.0	4	77	22	56	75	0	0	25	0.81
12346873--12346913	11	3.9	11	79	20	52	75	0	0	24	0.80
12357325--12357364	21	1.9	21	90	10	64	57	0	5	37	1.21
12368180--12368209	14	2.1	14	93	0	51	66	0	0	33	0.92
12376847--12376893	22	2.1	22	84	0	58	25	10	14	48	1.76
12376934--12376975	22	1.9	22	85	0	57	19	11	23	45	1.83
12376986--12377060	23	3.3	23	80	0	96	36	22	12	29	1.90
12377171--12377229	22	2.7	22	86	0	73	47	20	8	23	1.77
12377356--12377472	60	1.9	59	81	10	139	41	17	8	33	1.79
12379318--12379461	29	5.0	28	81	10	164	37	12	9	40	1.76
12379296--12379460	59	2.8	58	84	6	208	40	11	9	38	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12379288--12379455	88	1.9	90	85	8	236	39	11	10	39	1.75
12388780--12388826	25	2.0	24	83	8	60	48	4	0	46	1.21
12393853--12393879	2	13.5	2	100	0	54	51	0	0	48	1.00
12393916--12393955	20	2.0	20	95	0	71	35	7	40	17	1.78
12394323--12394392	8	8.4	8	73	14	61	80	0	18	1	0.80
12394324--12394389	23	3.0	23	82	14	77	78	0	19	1	0.82
12394318--12394378	28	2.2	28	91	2	97	77	0	22	0	0.78
12394323--12394395	30	2.5	27	80	20	85	80	0	17	1	0.78
12394329--12394395	28	2.4	28	89	2	98	80	0	17	1	0.79
12405653--12405719	34	2.0	34	100	0	134	26	26	4	41	1.75
12407099--12407154	2	28.0	2	96	0	103	48	0	0	50	1.01
12409754--12410544	401	2.0	402	89	1	1221	27	21	13	37	1.92
12428578--12428642	22	3.0	22	83	0	76	24	10	18	46	1.81
12428632--12428681	23	2.2	23	88	0	73	22	12	28	38	1.89
12429879--12429927	22	2.2	22	85	0	62	26	8	30	34	1.86
12429893--12429971	22	3.6	21	79	6	86	21	10	27	40	1.85
12429886--12429971	44	2.0	44	84	9	113	23	10	27	38	1.87
12430776--12430817	22	1.9	22	95	0	75	33	4	23	38	1.76
12431025--12431078	22	2.5	22	85	11	83	16	11	25	46	1.80
12438388--12438483	40	2.5	37	81	10	102	21	36	16	25	1.94
12439278--12439419	42	3.4	41	86	3	178	23	32	21	21	1.98
12443258--12443305	19	2.6	19	83	3	62	56	0	4	39	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12445787--12445834	19	2.6	19	83	3	62	56	0	4	39	1.19
12447039--12447121	23	3.6	23	78	0	85	34	19	9	36	1.84
12447947--12447987	21	1.9	21	85	5	55	53	7	21	17	1.67
12447945--12447992	21	2.3	20	75	10	51	58	6	20	14	1.58
12450487--12450521	18	1.9	18	88	0	52	74	5	2	17	1.14
12451852--12451904	27	2.0	27	96	0	97	33	18	13	33	1.90
12452153--12452206	24	2.2	24	86	0	72	24	33	12	29	1.92
12454403--12454447	23	2.0	23	95	0	81	35	31	8	24	1.86
12454409--12454459	23	2.2	23	89	0	75	37	27	9	25	1.87
12460286--12460326	2	21.0	2	95	5	75	51	0	0	48	1.00
12462200--12462232	2	16.5	2	93	0	57	48	0	3	48	1.17
12463365--12463431	2	34.0	2	91	8	111	49	0	0	49	1.01
12465419--12465483	29	2.2	29	86	10	96	64	4	3	27	1.28
12467956--12467999	22	2.0	22	95	0	61	29	4	11	54	1.56
12478420--12478509	26	3.5	27	77	8	98	41	8	13	36	1.76
12480023--12480063	21	2.0	21	85	0	55	24	4	4	65	1.32
12480754--12480840	42	2.1	42	95	0	165	20	57	10	11	1.63
12480754--12480861	42	2.6	42	87	0	135	20	55	10	13	1.67
12480787--12480866	33	2.4	33	80	18	94	17	57	12	12	1.65
12486403--12486463	2	30.5	2	96	0	113	50	1	0	47	1.10
12486500--12486626	43	3.0	43	90	2	184	22	33	18	25	1.97
12499646--12499683	19	2.0	19	94	0	67	42	28	0	28	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12502709--12502821	57	2.0	57	89	3	174	24	10	15	48	1.77
12511072--12511101	1	30.0	1	93	0	51	0	0	3	96	0.21
12518392--12518424	2	16.5	2	93	0	57	48	0	3	48	1.17
12518856--12519004	80	1.9	76	94	4	253	40	10	18	29	1.85
12536070--12536107	18	2.1	18	85	9	51	34	5	2	57	1.35
12549803--12549836	14	2.4	14	95	0	59	64	0	0	35	0.94
12550310--12550358	23	2.0	25	84	7	66	59	0	6	34	1.22
12557623--12557680	7	8.6	7	85	7	68	25	1	0	72	0.94
12567600--12567681	42	2.0	42	83	6	107	40	21	13	24	1.89
12567682--12567713	9	3.6	9	91	0	55	40	21	9	28	1.84
12567682--12567720	18	2.2	18	95	0	69	41	17	10	30	1.83
12567682--12567720	9	4.3	9	86	0	51	41	17	10	30	1.83
12570558--12570605	17	2.8	17	87	3	60	27	0	0	72	0.84
12573675--12573850	73	2.4	74	80	6	191	38	20	18	23	1.94
12578518--12578568	24	2.1	25	85	3	68	33	13	19	33	1.91
12582503--12582620	33	3.6	33	73	2	112	42	7	5	44	1.55
12582491--12582620	65	2.0	65	86	0	179	42	10	4	43	1.59
12584363--12584408	24	1.9	24	86	8	67	32	10	23	32	1.90
12585236--12585314	23	3.4	23	81	6	88	27	10	39	22	1.86
12585340--12585457	23	5.1	23	73	4	76	26	11	36	26	1.89
12585410--12585678	104	2.6	103	82	1	326	27	14	35	22	1.93
12585768--12585926	81	2.0	81	82	0	192	27	14	34	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12585914--12585970	23	2.5	23	80	8	64	22	19	33	24	1.97
12585930--12585991	23	2.7	23	87	0	79	24	17	29	29	1.97
12586403--12586895	55	9.0	55	80	5	489	13	12	29	45	1.79
12586940--12587028	31	2.9	31	82	0	115	29	14	19	37	1.91
12589284--12589470	81	2.3	81	85	5	236	19	20	32	27	1.97
12590909--12591329	86	4.9	86	84	1	549	26	31	19	22	1.98
12591578--12591616	19	2.1	19	85	9	53	33	0	7	58	1.26
12591768--12591815	15	3.4	14	77	11	53	58	4	2	35	1.29
12595266--12595499	31	7.5	31	89	1	326	41	18	14	25	1.88
12595730--12595850	63	1.9	63	88	3	181	32	15	33	19	1.93
12596371--12596432	30	2.1	30	87	0	88	35	9	8	46	1.66
12599619--12599732	2	58.0	2	80	10	119	42	1	3	50	1.29
12603230--12603293	2	32.0	2	93	0	110	0	46	0	53	1.00
12603365--12603407	2	21.5	2	100	0	86	48	0	0	51	1.00
12607906--12607971	30	2.3	30	84	10	84	33	4	1	60	1.26
12609123--12609180	23	2.6	22	75	20	57	18	10	8	62	1.53
12618806--12618871	22	3.0	22	93	0	114	50	4	36	9	1.55
12623362--12623410	22	2.2	21	80	16	55	55	4	28	12	1.55
12632734--12632965	117	2.0	116	88	4	351	31	25	10	33	1.89
12643585--12643665	40	2.0	40	100	0	162	38	29	2	29	1.70
12654928--12655132	109	1.9	109	82	4	261	28	14	21	35	1.93
12657620--12657669	25	2.0	26	88	4	75	2	32	4	62	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12657626--12657681	25	2.3	24	82	8	69	1	30	3	64	1.21
12658653--12659062	59	7.0	59	83	2	427	37	14	14	33	1.87
12670431--12670464	11	3.1	11	86	0	50	0	17	0	82	0.67
12677749--12677777	9	3.0	10	90	10	51	51	6	0	41	1.28
12680333--12680372	15	2.7	15	84	0	53	42	7	15	35	1.75
12681158--12681203	24	2.0	24	91	8	78	67	4	8	19	1.35
12685750--12685790	15	2.6	16	84	3	57	29	12	17	41	1.85
12690278--12690328	26	2.0	26	88	7	77	21	15	7	54	1.66
12690674--12690727	24	2.2	24	86	0	72	5	44	9	40	1.60
12690863--12690912	24	2.1	24	88	0	73	30	18	28	24	1.97

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