genome.fa.s9.2.7.7.80.10.50.1000.22.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   

This is table  22  of  97  ( 11551 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)
9600530--9600599	30	2.3	30	97	0	131	37	15	5	41	1.71
9616641--9616669	6	4.8	6	100	0	58	17	0	65	17	1.27
9617360--9617403	23	2.0	22	86	4	61	68	0	0	31	0.90
9617699--9617735	12	3.0	13	84	11	51	62	0	0	37	0.96
9617751--9617801	18	2.7	19	82	14	61	41	0	5	52	1.25
9619740--9619987	26	10.3	26	71	12	113	26	14	23	35	1.93
9619834--9619990	52	3.2	49	78	13	173	26	13	24	36	1.92
9619710--9619896	94	2.0	92	86	1	221	26	13	22	36	1.92
9619781--9620009	23	9.7	23	75	12	157	25	13	25	35	1.92
9620021--9620077	22	2.6	22	83	10	64	49	14	10	26	1.75
9625062--9625102	3	13.7	3	100	0	82	31	0	0	68	0.90
9633209--9633252	23	1.9	23	100	0	88	31	13	13	40	1.84
9636277--9636462	92	2.0	92	92	1	311	46	12	23	17	1.82
9637970--9638020	16	3.1	16	75	22	52	35	0	9	54	1.33
9640058--9640083	3	8.7	3	100	0	52	65	0	0	34	0.93
9641086--9641115	5	5.8	5	96	4	51	43	16	0	40	1.48
9644819--9644895	18	4.4	19	75	15	76	46	6	2	44	1.43
9647205--9647336	67	2.0	64	95	4	237	34	18	6	40	1.75
9660096--9660327	105	2.2	104	88	3	333	18	15	40	26	1.90
9660268--9660368	36	2.8	36	85	5	141	19	16	37	25	1.93
9662541--9662586	2	23.0	2	91	8	76	50	0	47	2	1.13
9663158--9663208	2	26.5	2	84	15	72	50	0	1	47	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9663482--9663537	2	29.0	2	86	13	82	51	0	46	1	1.11
9663482--9663537	19	3.0	19	87	12	89	51	0	46	1	1.11
9662541--9664421	952	2.0	949	97	1	3569	36	13	17	32	1.89
9664112--9664165	2	28.5	2	83	10	69	48	1	1	48	1.23
9664385--9664483	50	2.0	50	90	4	155	47	15	15	22	1.82
9668606--9668638	15	2.1	16	88	5	50	48	0	0	51	1.00
9673416--9673479	26	2.5	26	87	5	85	53	15	21	9	1.70
9676618--9676647	2	15.5	2	93	6	53	46	0	0	53	1.00
9677308--9677391	37	2.2	39	83	8	111	8	27	10	53	1.64
9679642--9679716	30	2.5	30	93	0	132	25	25	26	22	2.00
9680641--9680721	8	10.1	8	68	15	51	23	0	1	75	0.88
9680657--9680712	12	4.5	13	79	18	57	25	0	1	73	0.93
9680645--9680712	25	2.8	25	84	8	79	25	0	1	73	0.92
9680932--9681348	59	6.9	59	84	4	460	38	18	9	33	1.84
9680932--9681348	121	3.4	121	84	4	527	38	18	9	33	1.84
9680931--9681348	180	2.3	183	85	2	565	38	18	9	33	1.83
9687864--9687974	49	2.3	49	90	0	177	22	33	18	26	1.96
9690254--9690278	12	2.1	12	100	0	50	24	36	16	24	1.94
9694611--9694730	49	2.4	49	84	2	170	25	30	17	27	1.97
9700395--9700432	19	2.0	19	89	0	58	15	5	0	78	0.91
9700811--9700843	16	2.1	15	89	10	57	18	0	0	78	0.72
9701284--9701360	38	2.0	38	87	0	109	5	31	12	50	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9701480--9701535	20	2.9	19	84	5	60	14	1	8	75	1.13
9701482--9701516	19	1.9	18	88	11	54	8	2	8	80	1.01
9707784--9707882	50	2.0	50	88	4	146	46	15	16	22	1.83
9712615--9712676	7	8.3	7	74	13	52	16	4	0	79	0.90
9712615--9712681	22	3.0	21	75	23	64	16	5	0	77	0.95
9712615--9712674	16	3.9	16	74	18	56	16	5	0	78	0.92
9713103--9713216	38	3.0	38	87	1	158	7	32	11	48	1.68
9713426--9713464	17	2.2	18	86	4	53	0	7	10	82	0.86
9713860--9713937	9	8.3	9	68	13	50	21	0	1	76	0.85
9713876--9713937	21	3.2	20	86	6	65	24	0	1	74	0.91
9713865--9713937	24	3.3	21	81	11	67	23	0	1	75	0.88
9713860--9713940	33	2.5	33	82	8	94	22	0	1	76	0.86
9714151--9714559	59	6.9	59	81	7	461	37	18	9	34	1.83
9714151--9714559	122	3.4	121	83	5	503	37	18	9	34	1.83
9727894--9728013	49	2.4	49	83	2	152	26	30	15	27	1.95
9730694--9730743	25	2.0	25	92	0	82	16	12	8	64	1.49
9733924--9733982	27	2.2	27	88	8	86	18	3	8	67	1.30
9733930--9733990	27	2.2	27	85	5	77	26	3	8	60	1.40
9734167--9734200	3	11.7	3	87	6	52	29	2	0	67	1.05
9734649--9734725	38	2.0	38	85	5	102	6	29	11	51	1.63
9735278--9735318	10	4.3	9	90	9	64	14	0	0	85	0.60
9735278--9735321	9	5.1	8	86	8	52	15	0	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9735281--9735321	19	2.1	20	95	4	75	17	0	0	82	0.66
9737933--9737994	5	12.4	5	84	8	74	0	20	0	79	0.74
9737934--9737991	21	2.6	22	83	10	82	0	20	0	79	0.74
9738303--9738385	34	2.4	34	85	0	121	38	33	12	15	1.85
9748367--9748503	59	2.3	59	85	6	170	25	29	16	29	1.96
9748877--9748901	2	12.5	2	100	0	50	52	48	0	0	1.00
9749152--9749181	14	2.2	13	94	5	51	40	16	6	36	1.75
9755718--9755887	79	2.2	78	86	1	232	31	15	26	25	1.96
9755908--9756451	30	18.5	30	73	3	250	29	13	25	31	1.94
9755871--9756085	88	2.4	89	79	3	218	27	15	25	31	1.95
9755909--9756336	148	2.9	147	82	2	498	29	13	25	32	1.93
9756299--9756359	28	2.2	28	87	0	86	29	14	24	31	1.95
9756437--9756508	31	2.3	31	83	9	85	30	12	18	38	1.87
9759584--9759641	18	2.9	20	75	15	57	22	6	48	22	1.74
9760267--9760339	33	2.2	33	87	2	103	31	24	20	23	1.98
9764001--9764056	29	1.9	29	92	0	94	46	14	12	26	1.80
9764074--9764126	26	2.0	26	100	0	106	50	26	3	18	1.64
9765183--9765225	19	2.3	19	83	0	50	37	9	11	41	1.74
9770211--9770267	29	2.0	29	96	0	105	45	17	14	22	1.84
9772152--9772181	2	15.0	2	92	0	51	46	0	3	50	1.18
9772222--9772384	42	3.9	42	83	0	173	23	30	22	24	1.99
9776391--9776484	31	3.0	31	74	0	98	39	23	10	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9776838--9777284	152	2.9	155	82	6	546	29	16	18	35	1.93
9776838--9777329	156	3.2	155	80	5	582	29	16	18	35	1.93
9778974--9779045	31	2.3	31	95	0	126	36	18	22	23	1.95
9778974--9779261	62	4.5	62	82	6	281	36	20	17	25	1.94
9779033--9779057	12	2.1	12	100	0	50	32	0	28	40	1.57
9779004--9779088	43	2.0	43	95	0	152	37	14	20	28	1.91
9779045--9779261	31	7.0	31	90	0	290	36	21	16	26	1.94
9778974--9779119	74	2.0	74	93	0	247	36	17	19	26	1.94
9779869--9780257	47	8.3	46	77	4	323	22	31	16	29	1.96
9779893--9780257	94	3.9	94	83	5	380	22	30	16	29	1.96
9779891--9780259	141	2.6	141	81	4	431	23	30	16	29	1.96
9781621--9781666	21	2.1	21	84	11	58	54	0	8	36	1.32
9790533--9790597	33	2.0	33	90	0	103	15	9	21	53	1.69
9792780--9792858	31	2.5	31	77	0	95	50	5	15	29	1.65
9794219--9794301	31	2.7	31	79	7	105	27	13	4	54	1.59
9802960--9802996	19	1.9	19	88	0	56	59	8	0	32	1.27
9807422--9807586	79	2.1	79	89	4	253	32	15	35	16	1.90
9807619--9807667	14	3.5	13	86	10	62	69	0	30	0	0.89
9807618--9807672	21	2.6	23	77	16	64	67	0	32	0	0.91
9807618--9807713	7	12.8	8	69	24	50	62	3	34	0	1.11
9807700--9807742	13	3.3	13	83	9	52	79	0	20	0	0.74
9807619--9807808	71	2.7	71	82	7	210	65	3	31	0	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9807749--9807796	13	3.1	16	72	27	50	60	0	39	0	0.97
9817160--9817800	59	10.9	59	84	6	820	32	12	19	35	1.89
9817669--9817853	51	3.4	51	70	15	163	32	12	18	35	1.89
9817160--9817898	113	6.3	114	84	7	705	32	12	18	35	1.89
9818012--9818075	17	3.6	17	78	4	65	71	0	0	28	0.86
9818027--9818052	12	2.2	12	100	0	52	73	0	0	26	0.84
9818491--9818658	79	2.1	79	86	2	230	33	15	34	16	1.91
9818689--9818741	17	2.8	19	86	11	65	62	0	37	0	0.96
9818697--9818815	52	2.2	52	83	8	139	59	4	35	0	1.22
9818805--9818862	26	2.1	29	84	12	77	65	0	32	1	1.03

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