genome.fa.s5.2.7.7.80.10.50.1000.35.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   

This is table  35  of  103  ( 12320 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)
13236636--13236691	5	11.2	5	90	0	85	35	21	3	39	1.71
13243311--13243383	35	2.1	35	84	5	94	28	35	12	23	1.91
13243344--13243502	44	3.6	44	93	3	266	28	35	10	25	1.89
13254703--13254810	42	2.6	42	85	2	137	28	20	25	25	1.99
13269635--13269665	2	15.5	2	100	0	62	0	0	48	51	1.00
13275345--13275405	2	30.0	2	83	3	77	45	3	1	47	1.28
13277806--13277865	23	2.6	23	92	5	95	35	40	1	23	1.65
13278720--13278779	23	2.6	22	84	5	75	46	8	30	15	1.74
13280755--13280791	19	1.9	19	100	0	74	13	21	32	32	1.92
13285999--13286039	22	1.9	22	85	5	57	26	17	4	51	1.65
13298298--13298420	43	2.9	43	85	0	156	22	34	15	27	1.94
13300598--13300744	60	2.5	60	84	4	181	27	23	22	26	2.00
13301103--13301212	43	2.6	43	83	2	123	21	35	15	27	1.94
13303331--13303371	21	2.0	21	85	0	55	36	19	17	26	1.94
13303949--13303986	2	19.0	2	88	0	58	47	2	2	47	1.30
13304601--13304671	36	2.0	36	91	5	117	35	9	21	33	1.86
13304676--13304744	36	1.9	36	91	5	113	30	11	21	36	1.89
13315702--13315753	5	9.8	5	79	10	50	23	15	3	57	1.54
13315695--13315755	11	5.6	11	77	13	56	21	16	6	55	1.63
13315773--13315928	82	1.9	82	95	0	285	18	19	16	45	1.86
13322786--13322820	2	17.5	2	93	0	61	0	48	2	48	1.16
13322820--13322858	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13328562--13328602	21	2.0	21	90	4	66	48	0	0	51	1.00
13330432--13330496	33	2.0	32	84	3	85	49	4	6	40	1.48
13330679--13330718	17	2.4	17	86	0	53	45	10	12	32	1.75
13334428--13334470	20	2.2	20	83	8	52	34	4	11	48	1.60
13337964--13338046	41	2.0	42	90	2	132	33	22	9	33	1.87
13343191--13343219	15	1.9	15	100	0	58	24	27	13	34	1.93
13344733--13344760	14	2.0	14	100	0	56	28	21	7	42	1.79
13346088--13346246	54	2.9	54	94	0	273	27	38	14	19	1.90
13346348--13346380	2	17.0	2	93	6	59	51	0	0	48	1.00
13350015--13350343	181	1.8	180	87	0	496	35	13	12	38	1.82
13351385--13351535	68	2.2	68	81	4	180	37	9	17	35	1.82
13352678--13352715	2	19.0	2	100	0	76	50	0	0	50	1.00
13352893--13352930	2	19.0	2	100	0	76	50	0	0	50	1.00
13352991--13353022	17	1.9	16	93	6	55	43	3	21	31	1.68
13355685--13356104	75	5.8	71	82	9	467	19	13	38	28	1.89
13355721--13356104	36	10.6	36	85	9	455	20	13	38	28	1.90
13357215--13357248	17	1.9	18	94	5	61	55	2	5	35	1.39
13358436--13358502	4	16.2	4	73	17	57	68	0	31	0	0.90
13358438--13358491	14	3.9	14	80	0	72	68	0	31	0	0.90
13358436--13358502	18	3.8	17	75	14	64	68	0	31	0	0.90
13358438--13358494	28	2.0	28	89	0	87	70	0	29	0	0.88
13358912--13358982	35	2.0	35	81	5	81	33	26	11	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13358921--13359052	67	2.0	67	82	5	160	35	25	13	25	1.93
13361214--13361271	20	2.6	23	76	18	68	36	20	5	37	1.75
13370607--13370684	33	2.3	33	82	6	95	69	1	2	26	1.09
13381664--13381764	38	2.6	40	85	3	134	22	41	14	20	1.89
13388140--13388238	19	5.1	19	66	9	74	20	17	41	21	1.90
13388136--13388238	38	2.6	40	87	6	149	19	16	41	22	1.90
13389254--13389284	15	2.1	15	100	0	62	35	19	12	32	1.90
13394646--13394687	2	21.0	2	100	0	84	0	50	0	50	1.00
13394956--13394998	21	2.0	21	86	0	59	51	4	25	18	1.66
13400847--13400910	19	3.4	19	68	8	58	21	17	40	20	1.91
13400843--13400945	38	2.6	40	87	3	138	20	19	39	20	1.92
13405119--13405158	20	2.0	20	95	0	71	15	37	10	37	1.80
13422673--13422722	23	2.2	23	92	0	82	26	16	6	52	1.66
13428462--13428527	8	7.4	8	75	20	51	78	4	3	13	1.02
13428466--13428526	27	2.4	25	81	10	61	78	4	3	13	1.03
13428488--13428528	19	2.2	19	86	0	55	82	4	2	9	0.89
13431496--13431671	86	2.0	86	96	0	325	37	15	15	30	1.90
13435976--13436101	35	3.5	34	80	13	135	46	10	9	34	1.71
13435995--13436111	39	3.1	37	82	9	130	44	11	9	35	1.72
13441255--13441507	47	5.4	47	85	2	330	28	17	33	20	1.95
13441251--13441507	94	2.7	94	90	1	399	28	17	33	21	1.96
13441498--13441634	51	2.6	53	91	3	224	29	17	24	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13441496--13441664	53	3.2	53	86	3	225	28	18	24	27	1.98
13442172--13442354	31	5.9	31	90	0	258	25	18	19	37	1.94
13443934--13444258	156	2.1	156	84	3	422	32	18	19	28	1.96
13444618--13444971	31	11.4	31	82	0	339	24	17	21	37	1.94
13446504--13446568	14	4.4	14	75	17	60	35	9	3	52	1.49
13446518--13446590	30	2.4	31	81	2	85	38	9	5	46	1.60
13446536--13446668	52	2.6	50	78	4	140	37	9	5	47	1.59
13447281--13447524	31	7.8	32	74	6	169	25	14	22	38	1.92
13447314--13447532	93	2.4	93	82	2	244	24	14	21	39	1.91
13447268--13447533	62	4.3	62	76	3	239	25	15	21	37	1.93
13451581--13451689	43	2.5	43	86	0	155	22	18	38	20	1.93
13451583--13451704	43	2.8	43	78	2	129	22	17	40	19	1.91
13451701--13451760	23	2.6	23	86	0	75	26	3	38	31	1.73
13454276--13454357	31	2.6	31	86	3	103	31	21	18	28	1.97
13454338--13454398	23	2.7	23	92	0	104	24	31	22	21	1.98
13454436--13454511	35	2.2	35	88	4	109	44	30	10	14	1.79
13455573--13455608	18	2.0	18	100	0	72	27	16	11	44	1.82
13457387--13457485	33	3.0	33	82	4	103	29	17	26	27	1.97
13458221--13458280	30	2.1	29	81	6	68	31	8	21	38	1.83
13467610--13467648	20	2.0	20	94	0	69	17	20	35	25	1.95
13474809--13474881	36	2.1	35	82	12	87	54	0	2	42	1.14
13475027--13475081	24	2.2	26	90	6	87	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13475041--13475085	19	2.4	19	81	11	56	40	0	0	60	0.97
13475108--13475188	27	3.0	27	98	0	153	45	2	3	48	1.33
13475680--13475751	12	5.9	12	68	20	51	40	0	1	58	1.07
13475710--13475779	19	3.5	19	67	19	52	45	0	0	54	0.99
13477909--13477981	32	2.3	32	82	0	92	19	27	23	30	1.98
13482127--13482158	2	16.0	2	93	0	55	46	0	0	53	1.00
13483039--13483085	20	2.3	21	81	3	60	51	0	8	40	1.33
13485240--13485312	28	2.6	28	95	0	128	34	20	15	30	1.93
13486384--13486527	37	3.8	37	78	8	139	34	25	11	29	1.90
13487084--13487180	37	2.6	36	90	3	140	38	24	11	25	1.89
13487084--13487199	37	3.1	37	85	4	128	37	23	12	27	1.90
13487256--13487329	30	2.4	30	86	10	98	31	18	18	31	1.96
13488717--13488759	11	3.6	11	81	12	50	74	2	6	16	1.14
13491578--13491610	17	1.9	17	88	11	50	81	9	9	0	0.87
13496389--13496437	17	2.9	17	76	11	55	79	4	6	10	1.03
13496390--13496444	17	3.2	17	75	14	51	81	5	5	7	0.97
13497414--13497779	60	6.1	60	86	0	482	32	13	19	34	1.90
13497416--13497782	180	2.0	180	88	1	538	32	13	19	34	1.90
13497944--13497991	15	3.3	14	76	5	51	18	2	6	72	1.15
13498477--13498535	20	3.3	20	65	30	60	67	11	6	13	1.40
13498473--13498548	33	2.3	33	100	0	152	72	10	5	11	1.27
13500997--13501021	5	5.0	5	100	0	50	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13501399--13501481	34	2.4	34	85	2	103	24	12	32	31	1.91
13501418--13501510	34	2.7	34	89	0	141	20	12	31	35	1.90
13505034--13505082	25	2.0	25	88	8	73	46	14	22	16	1.82
13505043--13505091	25	2.0	24	84	11	64	48	14	20	16	1.80
13507073--13507097	13	1.9	13	100	0	50	48	8	0	44	1.32
13519992--13520032	21	2.0	21	90	0	64	36	21	9	31	1.86
13524103--13524140	19	2.0	19	100	0	76	42	31	0	26	1.56
13525171--13525200	15	2.1	15	93	6	53	13	0	20	66	1.24
13527090--13527431	53	6.2	52	71	13	245	32	20	14	33	1.92
13527152--13527431	115	2.5	114	95	1	499	33	20	13	32	1.91

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