genome.fa.s1.2.7.7.80.10.50.1000.22.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  22  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)
9656075--9656120	24	2.0	24	82	4	58	36	2	21	39	1.66
9658218--9658283	26	2.6	25	76	4	80	39	3	0	57	1.14
9661189--9661217	4	7.2	4	100	0	58	24	0	0	75	0.80
9663248--9663316	27	2.6	27	77	11	79	34	0	0	65	0.93
9663269--9663304	17	2.1	17	94	0	63	27	0	0	72	0.85
9663268--9663306	9	4.3	10	78	21	50	28	0	0	71	0.86
9669906--9669945	2	20.0	2	100	0	80	50	0	0	50	1.00
9670006--9670045	2	20.0	2	100	0	80	50	0	0	50	1.00
9669900--9670099	100	2.0	99	97	0	373	43	13	4	39	1.62
9672232--9672628	200	2.0	197	98	1	767	43	7	9	40	1.63
9673259--9673296	20	1.9	20	88	0	58	73	0	0	26	0.83
9673364--9673393	12	2.4	13	94	5	53	66	0	0	33	0.92
9673453--9673488	18	2.0	18	94	0	63	50	19	11	19	1.77
9675403--9675438	2	18.0	2	100	0	72	50	0	0	50	1.00
9675554--9675589	2	18.0	2	100	0	72	50	0	0	50	1.00
9675302--9675594	151	1.9	150	99	0	568	36	9	19	34	1.85
9685917--9685996	24	3.3	24	85	0	115	23	30	26	20	1.98
9688749--9688781	2	16.5	2	100	0	66	51	0	48	0	1.00
9693419--9693504	42	2.0	43	86	2	120	27	12	10	48	1.74
9693771--9693882	29	3.9	29	75	11	88	29	12	17	40	1.87
9694351--9694390	20	2.1	19	85	4	53	70	5	10	15	1.32
9710900--9710972	17	4.4	17	67	17	55	49	1	0	49	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9710900--9710972	33	2.2	33	82	4	85	49	1	0	49	1.09
9711805--9711841	2	18.5	2	94	0	65	45	0	0	54	1.00
9712070--9712112	2	21.5	2	100	0	86	51	0	0	48	1.00
9722318--9722377	29	2.1	28	87	9	86	41	16	0	41	1.48
9728289--9728317	3	9.7	3	100	0	58	68	0	0	31	0.89
9728427--9728460	17	2.0	17	100	0	68	41	17	17	23	1.90
9732376--9732410	14	2.5	14	90	0	52	31	0	5	62	1.18
9733315--9733376	27	2.3	27	85	0	79	35	19	8	37	1.81
9736820--9736850	7	4.4	7	100	0	62	29	29	12	29	1.94
9744120--9744182	30	2.1	30	100	0	126	46	12	9	31	1.74
9745769--9745816	2	24.0	2	91	0	78	0	45	0	54	0.99
9752422--9752467	22	2.1	23	84	8	60	47	10	21	19	1.80
9762103--9762154	12	4.5	11	76	11	50	55	1	40	1	1.22
9762103--9762154	23	2.2	23	83	16	63	55	1	40	1	1.22
9763294--9763325	3	10.3	3	93	6	55	34	0	31	34	1.58
9763449--9763473	12	2.1	12	100	0	50	32	0	0	68	0.90
9766909--9766953	16	2.9	16	80	3	56	6	40	17	35	1.76
9766955--9767030	35	2.2	35	100	0	152	22	0	21	56	1.42
9767057--9767109	25	2.0	27	85	7	74	41	5	3	49	1.44
9767990--9768031	20	2.1	20	90	0	66	50	0	7	42	1.30
9768170--9768434	134	2.0	134	87	2	385	44	6	4	44	1.49
9771284--9771315	17	1.9	16	93	6	55	37	0	3	59	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9773485--9773510	13	2.0	13	100	0	52	53	0	0	46	1.00
9776229--9776316	28	3.2	28	83	4	108	29	19	20	30	1.97
9776345--9776396	27	1.9	27	84	0	68	36	23	19	21	1.95
9781810--9781842	15	2.1	17	88	11	52	75	3	0	21	0.93
9786453--9786484	15	2.1	15	94	0	55	37	18	3	40	1.67
9789223--9789276	25	2.2	25	83	6	65	33	5	12	48	1.65
9789904--9789967	29	2.2	28	86	2	83	29	4	18	46	1.69
9791827--9791856	13	2.2	14	94	5	53	83	0	16	0	0.65
9819781--9819984	105	2.0	105	84	1	266	42	13	13	31	1.82
9819855--9819916	24	2.6	24	81	0	79	40	14	9	35	1.79
9819763--9819925	80	2.0	80	81	3	186	44	11	11	32	1.76
9819949--9820026	24	2.9	28	74	14	92	42	12	8	35	1.75
9819881--9820034	81	1.9	83	85	8	217	42	12	12	33	1.80
9819775--9820014	105	2.3	105	81	2	252	41	12	12	33	1.80
9821647--9821710	2	31.5	2	84	9	85	48	3	3	45	1.34
9821647--9821710	15	4.5	14	84	9	85	48	3	3	45	1.34
9823511--9823557	24	2.0	24	91	0	76	36	8	4	51	1.52
9824111--9824173	33	1.9	33	96	0	117	30	7	0	61	1.24
9825567--9825787	60	3.7	59	80	4	237	24	30	18	27	1.98
9832683--9832747	34	1.9	34	93	0	112	27	6	21	44	1.76
9832822--9832911	40	2.2	40	82	3	101	26	11	21	41	1.86
9833209--9833243	18	1.9	18	88	0	52	62	2	11	22	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9833390--9833453	27	2.4	27	76	7	69	35	4	12	46	1.62
9850521--9850555	6	5.8	6	96	0	61	11	68	20	0	1.20
9851089--9851124	10	3.6	10	89	10	56	16	0	0	83	0.65
9854266--9854303	18	2.1	18	90	0	58	60	0	0	39	0.97
9864424--9864502	2	40.5	2	92	5	135	50	0	1	48	1.08
9865583--9865678	48	2.0	48	95	0	174	36	16	16	30	1.91
9886794--9886819	2	13.0	2	100	0	52	50	0	0	50	1.00
9900431--9900471	14	2.9	14	88	0	55	39	0	9	51	1.35
9908647--9908675	2	14.5	2	100	0	58	51	0	48	0	1.00
9915454--9915504	2	25.5	2	100	0	102	50	0	0	49	1.00
9915703--9915735	14	2.4	14	90	5	50	6	30	0	63	1.18
9916811--9916902	21	4.4	21	77	9	71	47	18	5	28	1.70
9916869--9916965	22	4.5	22	81	10	94	53	22	2	21	1.56
9917449--9917476	5	5.6	5	100	0	56	82	17	0	0	0.68
9971415--9971450	13	2.8	13	95	0	63	38	2	5	52	1.39
9971498--9971559	22	2.8	22	72	15	56	48	3	0	48	1.17
9971660--9971733	35	2.1	34	87	7	105	29	0	10	59	1.31
9977163--9977872	239	2.9	241	79	9	633	51	3	8	36	1.51
9976449--9977876	763	1.9	762	80	7	1647	50	4	8	35	1.54
9977821--9977885	31	2.0	33	82	11	82	61	1	3	33	1.21
9978048--9978092	24	2.0	23	91	8	74	62	0	0	37	0.96
9978074--9978150	39	2.0	39	85	10	104	54	3	3	37	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9984855--9984884	2	15.0	2	100	0	60	0	50	0	50	1.00
9997565--9997614	22	2.3	22	86	6	66	40	8	6	46	1.58
9997572--9997617	22	2.1	22	92	8	76	39	6	4	50	1.48
10008775--10008802	3	9.3	3	100	0	56	67	0	0	32	0.91
10019706--10019736	1	31.0	1	93	0	53	96	0	0	0	0.05
10020963--10021138	90	2.0	90	94	2	309	29	16	17	36	1.92
10034464--10034488	6	4.2	6	100	0	50	16	64	0	20	1.30
10035975--10036011	15	2.3	17	81	13	51	51	13	8	27	1.69
10038721--10038926	108	1.9	108	85	4	288	36	17	3	41	1.67
10039292--10039354	33	1.9	33	83	0	81	23	15	31	28	1.96
10039327--10039378	19	2.7	19	87	0	68	25	21	28	25	1.99
10040001--10040080	31	2.6	31	84	7	92	26	15	6	52	1.66
10055208--10055237	7	4.1	7	95	4	51	13	0	3	83	0.77
10065546--10065601	20	2.7	21	75	13	62	42	0	3	53	1.18
10073498--10073555	18	3.5	17	78	17	59	34	0	0	65	0.93
10080721--10080759	9	4.3	9	83	0	51	41	17	10	30	1.83
10080721--10080759	18	2.2	18	95	0	69	41	17	10	30	1.83
10085354--10085548	105	1.9	104	84	3	266	37	14	13	34	1.86
10089440--10089480	18	2.3	18	86	0	55	48	4	9	36	1.58
10089576--10089623	18	2.7	17	78	9	51	47	8	0	43	1.33
10094416--10094455	17	2.2	20	86	13	59	57	0	12	30	1.36
10094548--10094597	19	2.4	21	75	21	52	52	2	0	46	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10094611--10094650	2	20.0	2	94	0	71	47	0	0	52	1.00
10095450--10095492	21	2.0	21	82	13	52	58	0	0	41	0.98
10095454--10095509	29	1.9	29	82	7	69	60	0	0	39	0.97
10096780--10097325	275	2.0	274	97	1	1042	29	12	23	34	1.91
10105263--10105303	21	1.9	22	90	5	66	51	7	24	17	1.70
10105263--10105307	20	2.2	21	84	11	58	55	6	22	15	1.63
10105261--10105308	21	2.3	20	79	10	60	56	6	22	14	1.61
10116148--10116178	15	2.0	16	93	6	55	83	0	16	0	0.64
10116149--10116178	11	2.9	10	95	5	51	86	0	13	0	0.57
10116831--10116874	2	22.0	2	85	0	61	47	45	2	4	1.35

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