genome.fa.s4.2.7.7.80.10.50.1000.56.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  56  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)
20345344--20345386	14	3.0	14	81	15	52	34	0	0	65	0.93
20346415--20346458	22	2.0	23	90	4	72	38	27	15	18	1.91
20346437--20346515	39	2.0	40	85	2	106	35	29	12	22	1.91
20348034--20348074	21	2.0	21	100	0	82	34	17	9	39	1.82
20364265--20364307	21	2.0	21	81	0	50	30	9	34	25	1.87
20371094--20372820	252	6.9	251	81	4	1772	34	13	7	44	1.71
20371093--20372820	503	3.4	502	84	2	2107	34	13	7	44	1.71
20374181--20374230	24	2.1	23	82	10	57	60	8	0	32	1.26
20374875--20374915	20	2.0	20	100	0	82	24	14	12	48	1.78
20374878--20374923	20	2.3	20	92	0	74	26	17	10	45	1.81
20374930--20375795	251	3.4	249	76	10	860	33	12	8	45	1.72
20375445--20375488	21	2.1	21	91	0	70	20	13	6	59	1.57
20374409--20375794	521	2.7	514	81	5	1533	33	12	8	45	1.72
20375194--20375741	273	2.0	272	82	2	670	32	12	8	46	1.72
20375790--20376849	249	4.2	250	79	4	1010	44	5	13	36	1.68
20376995--20377128	68	2.0	68	85	5	182	23	10	7	58	1.56
20378029--20378077	26	1.9	25	83	4	62	16	8	4	71	1.26
20385060--20385638	295	2.0	288	87	2	843	26	15	16	41	1.88
20394319--20394412	47	2.0	47	87	4	136	20	15	25	38	1.92
20400656--20400695	20	2.0	20	95	0	71	62	10	0	27	1.27
20407134--20407169	18	2.0	18	100	0	72	33	11	16	38	1.84
20410385--20410427	15	2.9	15	78	0	50	39	11	18	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20410605--20410637	17	1.9	17	88	11	50	36	6	0	57	1.23
20410647--20410717	32	2.2	32	84	2	88	25	7	2	64	1.32
20413586--20413638	27	2.0	27	100	0	106	47	0	3	49	1.19
20413608--20413700	41	2.2	41	81	9	109	43	0	2	54	1.12
20413471--20413698	112	2.0	111	80	8	257	42	1	2	53	1.21
20413527--20413813	155	1.9	154	91	3	470	41	0	3	54	1.21
20413648--20414048	114	3.6	108	81	11	404	39	0	4	55	1.24
20413884--20413927	21	2.0	22	82	4	54	36	2	6	54	1.40
20413968--20414057	23	3.9	22	78	14	92	45	0	3	51	1.18
20413980--20414048	19	3.4	20	79	18	72	46	0	1	52	1.09
20413982--20414058	25	3.1	26	85	10	101	44	0	1	54	1.08
20414011--20414065	25	2.2	26	90	3	85	45	0	0	54	0.99
20419227--20419299	30	2.4	30	75	4	76	36	0	1	61	1.05
20420756--20420830	15	5.3	15	70	20	63	52	1	0	46	1.09
20420759--20420808	26	1.9	26	95	0	91	56	0	0	44	0.99
20420763--20420812	7	7.4	7	78	17	61	54	0	0	46	1.00
20420934--20421050	8	14.5	8	70	16	55	51	1	0	46	1.17
20420958--20420990	15	2.1	16	88	5	50	51	3	0	45	1.16
20420964--20421052	15	6.0	15	68	21	55	49	1	1	48	1.16
20421006--20421062	24	2.4	25	76	8	64	49	0	1	49	1.11
20424079--20424354	141	2.0	141	93	0	471	31	12	21	34	1.90
20426059--20426089	16	1.9	16	100	0	62	51	0	3	45	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20426117--20426574	228	2.0	227	99	0	907	37	15	10	36	1.82
20429435--20429476	3	14.0	3	100	0	84	33	0	0	66	0.92
20443032--20443100	29	2.4	27	79	15	68	28	11	2	56	1.49
20445189--20445229	21	2.0	21	85	9	57	48	4	7	39	1.52
20474919--20474990	2	36.0	2	88	0	108	55	0	0	44	0.99
20476077--20476168	46	2.0	45	95	2	166	33	6	18	41	1.76
20477906--20477968	3	21.0	3	83	0	72	0	42	0	57	0.99
20477906--20477968	12	5.2	12	84	0	81	0	42	0	57	0.99
20478802--20478865	33	1.9	33	93	0	110	43	15	0	40	1.47
20478924--20478990	30	2.2	29	84	7	89	55	2	7	34	1.43
20480084--20480137	26	2.1	26	96	0	99	38	14	12	33	1.85
20480087--20480143	26	2.4	24	85	11	73	40	14	12	33	1.83
20487297--20487323	12	2.2	12	100	0	54	7	62	11	18	1.50
20497689--20497732	15	2.9	15	86	0	61	36	4	22	36	1.75
20498666--20498797	24	5.6	24	77	5	108	38	20	16	24	1.92
20498804--20498967	29	5.8	29	72	17	112	40	15	12	31	1.85
20498883--20498980	32	3.3	29	84	7	101	37	16	12	33	1.86
20500820--20500916	29	3.3	29	77	5	97	47	7	23	21	1.75
20501086--20501120	18	2.0	18	88	5	54	17	5	28	48	1.69
20502163--20502210	18	2.6	19	78	18	57	33	0	0	66	0.92
20504746--20505029	92	3.1	93	93	4	468	27	17	16	38	1.92
20510132--20510166	2	17.5	2	93	0	61	48	0	2	48	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20510684--20510742	29	2.0	29	100	0	118	28	44	6	20	1.77
20517306--20517345	15	2.6	15	85	14	55	45	0	2	52	1.14
20522301--20522368	15	4.4	16	73	15	63	70	1	4	23	1.13
20524149--20524207	25	2.5	24	83	5	66	47	1	3	47	1.29
20523792--20524625	337	2.5	325	81	11	948	45	6	7	40	1.59
20535025--20535090	31	2.2	30	86	5	89	36	10	15	37	1.82
20535275--20535459	27	6.8	27	77	4	165	41	14	9	34	1.78
20535278--20535459	55	3.3	54	77	5	195	42	14	8	34	1.76
20535219--20535456	27	8.8	27	73	9	146	39	13	10	36	1.78
20535241--20535460	82	2.7	82	82	2	271	41	13	9	35	1.77
20538428--20538488	24	2.5	24	86	7	88	44	9	4	40	1.59
20545032--20545057	6	4.3	6	100	0	52	34	15	19	30	1.93
20548099--20548140	21	2.0	21	81	9	50	26	14	9	50	1.73
20554483--20554509	4	6.8	4	100	0	54	0	22	0	77	0.76
20559377--20559422	23	2.0	23	100	0	92	39	13	8	39	1.75
20561369--20561413	22	2.2	20	84	8	54	40	2	0	57	1.11
20561520--20561586	28	2.5	28	73	4	66	41	2	2	52	1.32
20561569--20561635	16	4.5	15	72	20	52	47	1	0	50	1.10
20561602--20561635	17	2.0	17	88	0	50	50	2	0	47	1.16
20563480--20563595	42	2.8	41	81	9	112	78	5	4	11	1.05
20563479--20563549	1	71.0	1	77	0	61	87	0	4	8	0.66
20563480--20563550	7	10.0	7	77	8	72	85	0	4	9	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20563482--20563595	35	2.9	39	82	12	112	78	5	4	11	1.06
20564667--20564743	24	3.2	24	60	10	57	45	15	6	32	1.72
20564661--20564759	49	2.0	49	100	0	198	44	14	8	33	1.74
20564661--20564737	25	3.1	25	60	10	59	48	14	6	31	1.69
20569526--20569603	31	2.5	31	93	0	129	25	14	20	39	1.90
20573632--20573765	62	2.2	62	88	0	196	23	16	32	27	1.96
20573519--20573732	117	1.8	117	79	4	252	24	18	30	27	1.98
20573631--20573763	31	4.3	31	66	6	90	24	16	32	27	1.96
20573694--20573966	117	2.3	117	91	0	429	23	16	31	28	1.96
20573519--20573880	179	2.0	179	85	0	490	22	17	30	29	1.96
20576010--20576330	145	2.2	144	81	3	374	29	20	21	28	1.98
20577725--20578079	31	11.5	31	85	2	423	38	19	14	28	1.90
20578710--20579036	47	7.0	46	81	3	314	24	28	16	30	1.97
20578693--20579025	94	3.6	93	80	4	348	25	28	16	30	1.96
20578802--20578880	23	3.4	23	68	3	68	21	29	20	29	1.98
20578691--20579036	141	2.5	141	82	2	410	25	28	15	29	1.96
20579048--20579091	23	1.9	23	85	0	61	29	31	13	25	1.94
20580939--20580980	2	21.0	2	100	0	84	50	0	0	50	1.00
20581154--20581259	23	4.6	23	84	0	149	31	27	13	28	1.94
20581154--20581259	46	2.3	46	91	0	167	31	27	13	28	1.94
20581154--20581279	46	2.7	46	86	2	155	32	26	12	27	1.93
20581196--20581420	22	10.1	22	72	8	98	39	23	12	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20583174--20583376	108	1.9	108	90	2	327	43	5	15	35	1.69
20589217--20589261	2	22.5	2	95	0	81	46	2	0	51	1.13
20596769--20596819	21	2.4	21	86	0	75	84	0	3	11	0.75
20596771--20596819	7	7.0	7	77	9	55	83	0	4	12	0.77
20597767--20597872	2	53.0	2	87	7	135	48	2	0	48	1.16
20599739--20599817	25	3.2	25	74	15	76	46	0	3	49	1.19
20599878--20599942	21	3.0	21	66	18	53	44	1	1	52	1.19
20599865--20599982	44	2.8	42	88	3	164	45	1	0	51	1.17
20601935--20601997	21	3.0	21	76	2	63	50	15	4	28	1.64
20602268--20602338	9	7.4	9	72	17	54	80	2	4	12	0.97

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