genome.fa.s4.2.7.7.80.10.50.1000.66.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   

This is table  66  of  82  ( 9773 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)
23794875--23794957	30	2.8	30	75	3	78	31	25	33	9	1.88
23794884--23794926	15	2.9	15	85	0	59	34	25	32	6	1.83
23797934--23797969	3	12.0	3	93	0	63	33	2	0	63	1.08
23800340--23800383	2	22.0	2	100	0	88	50	0	0	50	1.00
23801706--23801757	26	2.0	25	85	10	70	32	0	3	63	1.12
23809557--23809595	20	2.0	20	84	0	51	23	10	17	48	1.78
23810966--23811018	22	2.6	20	88	11	65	35	16	3	43	1.67
23810976--23811025	22	2.2	22	96	3	91	34	20	4	42	1.70
23813563--23813622	29	2.1	29	81	6	68	41	6	1	50	1.39
23813705--23813767	33	1.9	33	86	0	90	36	6	15	41	1.73
23813716--23813782	33	2.0	33	82	0	80	41	8	11	37	1.73
23813747--23813792	25	1.9	24	83	16	60	45	8	8	36	1.66
23833197--23833248	25	2.2	23	86	6	68	32	11	1	53	1.48
23834546--23834581	18	2.0	18	100	0	72	33	16	11	38	1.84
23846008--23846041	18	1.9	18	88	5	52	82	0	14	2	0.79
23849743--23849849	51	2.1	51	87	6	155	46	7	8	37	1.62
23863554--23863584	2	16.0	2	93	6	55	51	0	0	48	1.00
23865263--23865302	21	1.9	21	89	0	62	50	2	5	42	1.37
23865543--23865593	2	25.5	2	100	0	102	50	0	0	49	1.00
23874858--23874882	2	12.5	2	100	0	50	52	48	0	0	1.00
23895621--23895666	20	2.3	20	85	7	58	52	0	0	47	1.00
23898692--23898830	70	2.0	66	84	14	185	40	4	44	10	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23906541--23906589	4	12.2	4	93	0	71	28	0	18	53	1.45
23918428--23918463	2	18.0	2	100	0	72	50	0	50	0	1.00
23925463--23925505	16	2.6	16	82	13	52	55	0	0	44	0.99
23925592--23925638	24	2.0	22	84	8	58	38	2	6	53	1.39
23928741--23928852	59	1.9	59	92	0	188	33	19	9	36	1.85
23932033--23932109	37	2.1	37	97	0	145	42	14	5	37	1.68
23932929--23932977	22	2.2	22	92	0	80	48	6	10	34	1.62
23932936--23932978	22	2.0	22	100	0	86	41	6	9	41	1.64
23935583--23935611	2	14.5	2	100	0	58	51	0	48	0	1.00
23946590--23946720	35	3.8	35	72	11	119	24	10	29	35	1.89
23946584--23946720	67	2.0	67	92	0	229	24	10	28	37	1.88
23948460--23948499	18	2.2	18	100	0	80	37	10	20	32	1.85
23957893--23957949	2	31.0	2	80	16	70	0	50	0	47	1.01
23961580--23961642	28	2.4	24	82	15	72	0	17	6	76	0.99
23991235--23991311	35	2.2	35	83	0	100	42	20	18	18	1.89
23991607--23991680	29	2.5	28	78	20	80	20	25	8	45	1.78
23991627--23991686	29	2.1	29	90	3	95	16	25	6	51	1.68
23998034--23998058	9	2.8	9	100	0	50	8	20	0	72	1.10
24003528--24003708	64	2.9	63	88	1	263	41	15	11	31	1.82
24005892--24005947	29	1.9	29	88	0	85	46	8	1	42	1.45
24007838--24007888	25	2.0	25	100	0	102	27	7	15	49	1.72
24015403--24015506	32	3.1	33	76	8	95	32	11	19	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24015435--24015509	34	2.2	33	79	9	80	32	12	18	37	1.88
24015628--24015728	52	2.0	49	83	7	123	27	10	13	47	1.77
24018593--24018647	2	28.0	2	96	3	103	50	0	0	49	1.00
24025861--24025893	4	8.0	4	93	6	57	75	0	0	24	0.80
24025861--24025893	13	2.6	13	95	4	59	75	0	0	24	0.80
24025861--24025893	17	2.0	17	94	5	59	75	0	0	24	0.80
24028308--24028359	4	12.0	4	84	8	50	69	0	0	30	0.89
24028321--24028361	5	8.8	5	86	10	52	65	0	0	34	0.93
24029404--24029476	27	2.6	27	77	10	76	71	0	0	28	0.87
24032039--24032089	25	2.0	25	100	0	102	27	7	15	49	1.72
24032277--24032327	25	2.0	25	100	0	102	27	7	15	49	1.72
24031898--24032372	238	2.0	237	99	0	923	23	20	14	41	1.89
24041544--24041572	4	7.2	4	100	0	58	24	0	48	27	1.51
24041597--24041694	48	2.0	48	92	0	160	33	10	18	37	1.84
24045555--24045609	15	3.5	15	76	23	51	54	0	0	45	0.99
24045552--24045636	25	3.2	27	80	11	97	51	0	1	47	1.08
24045578--24045690	39	3.0	39	80	10	112	42	0	0	56	1.05
24045702--24045762	16	3.9	16	75	16	56	52	3	1	42	1.27
24045770--24045830	26	2.3	26	83	5	79	47	3	0	49	1.18
24045788--24045843	29	2.0	28	83	10	71	53	1	0	44	1.11
24046436--24046470	17	2.1	17	100	0	70	28	17	5	48	1.69
24055913--24055990	38	2.1	38	95	0	138	21	24	11	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24069434--24069464	14	2.2	14	100	0	62	29	29	0	41	1.56
24076053--24076084	2	16.0	2	100	0	64	0	50	0	50	1.00
24078617--24078656	3	13.3	3	94	0	71	67	2	0	30	1.04
24079018--24079109	31	3.0	31	62	23	77	20	33	19	26	1.96
24078983--24079207	60	3.7	59	79	4	218	23	29	20	26	1.99
24081101--24081125	2	12.5	2	100	0	50	0	0	48	52	1.00
24089256--24089318	27	2.4	27	84	7	78	77	1	3	17	0.97
24090123--24090175	26	2.0	28	85	14	76	73	0	26	0	0.83
24090975--24091009	2	17.5	2	100	0	70	51	0	0	48	1.00
24092531--24092591	32	1.9	32	86	3	88	54	8	1	36	1.40
24094238--24094271	14	2.5	13	85	4	50	38	8	0	52	1.33
24095253--24095300	21	2.3	22	78	10	55	60	10	4	25	1.47
24098683--24098712	2	15.0	2	100	0	60	50	0	0	50	1.00
24100164--24100204	19	2.2	19	90	0	64	36	14	7	41	1.74
24104567--24104680	57	2.0	57	96	0	210	47	10	18	23	1.79
24129889--24129927	20	2.0	20	84	0	51	53	0	5	41	1.23
24129935--24129973	20	2.0	20	90	5	62	48	0	0	51	1.00
24132845--24133330	243	2.0	243	95	1	886	40	21	12	26	1.88
24134653--24134792	66	2.1	66	92	6	230	43	5	10	40	1.63
24136528--24136556	2	14.5	2	100	0	58	0	48	0	51	1.00
24139089--24139139	2	25.5	2	91	0	84	49	3	0	47	1.20
24141734--24141778	22	2.0	22	95	0	81	35	20	13	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24142693--24142732	21	2.0	20	85	14	55	27	7	15	50	1.70
24149765--24149835	32	2.3	29	80	7	88	38	12	9	39	1.77
24149950--24149998	24	2.0	24	92	0	80	18	18	22	40	1.91
24149968--24150088	45	2.7	45	83	5	138	28	18	16	37	1.92
24158667--24158705	2	19.5	2	100	0	78	0	51	0	48	1.00
24179919--24179980	30	2.1	30	93	0	106	41	19	24	14	1.88
24191680--24191719	18	2.2	18	90	0	62	42	0	0	57	0.98
24204155--24204185	15	2.1	15	93	0	53	64	0	0	35	0.94
24214191--24214230	21	1.9	21	85	10	55	65	0	30	5	1.14
24233351--24233703	169	2.1	169	83	1	429	25	34	13	25	1.93
24241421--24241670	31	7.8	31	88	5	347	25	16	18	40	1.90
24241421--24241728	62	4.7	62	81	12	355	25	16	18	39	1.91
24241627--24241712	43	2.0	42	97	2	163	26	16	18	38	1.92
24241670--24241728	31	1.9	31	96	0	109	28	16	20	33	1.95
24245270--24245626	86	4.2	86	86	2	484	21	19	30	29	1.97
24245270--24245626	172	2.1	172	89	1	545	21	19	30	29	1.97
24245595--24245650	24	2.3	24	96	0	103	23	25	32	19	1.98
24245508--24245736	110	2.1	110	92	0	386	20	21	31	25	1.98
24245423--24245822	196	2.0	196	89	0	611	21	20	32	26	1.98
24245619--24246012	86	4.6	86	88	0	554	21	20	31	26	1.98
24245336--24245908	282	2.0	282	90	1	898	21	20	30	26	1.98
24245270--24245990	368	2.0	368	87	0	1057	21	19	30	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24247389--24247658	81	3.3	81	81	1	272	25	30	20	23	1.98
24249932--24250021	31	2.9	31	83	0	108	34	18	17	28	1.94
24250065--24250589	55	9.8	55	78	9	474	44	29	12	13	1.80
24250126--24250207	42	2.0	42	87	0	119	45	30	10	13	1.78
24250165--24250589	110	3.9	109	84	3	532	44	29	13	12	1.81
24250567--24250606	17	2.4	17	100	0	80	52	32	5	10	1.56
24251013--24251077	23	2.8	23	83	0	67	23	30	18	27	1.97
24251111--24251772	104	6.5	105	75	8	568	23	33	14	28	1.93
24251333--24251388	23	2.4	23	78	0	58	25	33	10	30	1.90
24251434--24251485	23	2.3	23	82	0	59	25	34	9	30	1.88

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