genome.fa.s6.2.7.7.80.10.50.1000.44.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:  35726063

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   104   105   106   107   108   109   

This is table  44  of  109  ( 13028 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)
14424247--14424321	36	2.1	36	92	0	123	22	18	18	40	1.92
14427026--14427066	18	2.4	17	80	19	57	2	24	0	73	0.96
14434525--14434619	48	2.0	48	87	0	136	33	17	23	25	1.96
14434662--14434773	33	3.4	32	75	18	104	39	14	15	31	1.87
14434663--14434902	67	3.6	67	81	5	288	37	14	16	32	1.89
14436401--14436441	20	2.0	21	85	4	57	48	4	4	41	1.46
14438586--14438974	194	2.0	195	99	0	771	40	10	11	37	1.77
14439933--14439978	24	2.0	23	83	8	58	43	4	0	52	1.21
14439968--14440016	11	4.5	11	74	20	50	61	0	4	34	1.15
14449410--14449457	21	2.3	23	76	23	61	52	2	0	45	1.12
14459918--14460111	108	1.8	106	88	4	300	36	18	17	28	1.93
14462210--14462299	22	4.5	20	71	22	57	53	2	3	41	1.30
14462252--14462299	22	2.2	21	96	3	87	54	0	4	41	1.20
14465684--14465816	66	2.0	66	91	0	212	32	9	18	39	1.83
14471378--14471487	48	2.5	43	84	13	159	55	7	5	31	1.50
14471750--14471839	19	4.7	19	91	0	153	38	15	8	36	1.79
14472350--14472727	45	8.6	45	74	10	264	26	21	21	30	1.98
14472397--14472872	217	2.2	217	85	4	620	26	21	21	31	1.98
14473221--14473342	44	2.8	44	86	7	151	27	24	18	28	1.98
14473342--14473918	88	6.6	88	85	2	739	21	23	26	29	1.99
14473342--14473919	263	2.2	265	87	2	824	21	23	26	29	1.99
14473599--14473826	44	5.2	44	66	8	149	21	23	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14478599--14478685	19	4.6	19	91	0	147	39	13	9	37	1.77
14478599--14478685	38	2.3	38	97	0	165	39	13	9	37	1.77
14479136--14479308	86	2.0	86	98	0	337	32	10	29	26	1.91
14481001--14481040	20	2.1	19	85	4	53	57	7	10	25	1.57
14483300--14483346	14	3.4	14	77	11	51	70	2	21	6	1.20
14486265--14486314	16	3.1	16	76	2	55	38	2	2	58	1.21
14487044--14487084	19	2.1	20	86	4	57	68	2	2	26	1.15
14490798--14490857	28	2.1	28	90	0	93	26	25	18	30	1.98
14491104--14491140	9	4.1	9	92	0	65	45	13	10	29	1.77
14492394--14492443	23	2.2	23	89	3	75	34	22	10	34	1.87
14493710--14493743	16	2.1	16	100	0	68	55	0	26	17	1.42
14496605--14496637	4	8.2	4	100	0	66	48	27	24	0	1.51
14501393--14501421	15	1.9	15	100	0	58	3	6	34	55	1.44
14501392--14501460	24	3.3	21	84	11	81	14	10	30	44	1.78
14501408--14501463	24	2.3	24	93	6	96	17	8	28	44	1.79
14502710--14502742	11	2.8	12	86	9	50	45	3	0	51	1.16
14504715--14504757	21	2.0	23	81	9	54	32	11	11	44	1.77
14505650--14505680	15	2.1	15	100	0	62	25	12	6	54	1.62
14508979--14509016	14	2.8	13	88	7	58	52	2	7	36	1.45
14509254--14509343	34	2.6	34	89	1	126	20	25	14	40	1.90
14512414--14512462	23	2.1	23	100	0	98	20	18	8	53	1.70
14517762--14517807	5	9.2	5	100	0	92	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14518649--14518705	22	2.6	23	86	8	82	12	22	19	45	1.83
14525857--14525911	18	2.9	19	78	5	67	61	0	0	38	0.96
14530589--14530624	8	4.5	8	92	0	54	16	0	2	80	0.83
14531072--14531207	9	14.4	9	81	9	155	36	31	8	23	1.86
14531071--14531205	20	7.1	19	82	9	152	37	31	8	22	1.85
14531071--14531205	29	4.8	28	86	6	166	37	31	8	22	1.85
14531235--14531293	24	2.5	24	94	0	100	30	27	0	42	1.56
14534800--14534835	17	2.1	17	100	0	72	52	5	5	36	1.48
14535041--14535065	8	3.1	8	100	0	50	40	0	0	60	0.97
14535170--14535222	27	2.0	27	100	0	106	60	7	11	20	1.55
14536414--14536826	206	2.0	207	99	0	819	32	12	8	46	1.73
14549758--14549789	16	2.0	16	100	0	64	37	6	31	25	1.81
14549775--14549870	45	2.2	44	88	5	140	31	4	28	36	1.76
14549967--14550142	54	3.4	54	71	15	172	51	1	2	45	1.21
14549959--14550142	101	1.8	101	87	4	273	50	1	2	46	1.20
14550038--14550248	91	2.3	90	75	18	202	50	3	2	44	1.31
14550091--14550276	61	3.1	61	72	9	218	51	3	2	42	1.32
14550082--14550337	120	2.1	120	100	0	512	51	3	2	42	1.33
14550199--14550262	28	2.4	28	86	5	87	56	0	0	43	0.99
14550125--14550308	59	3.1	59	68	20	182	49	4	3	42	1.40
14550120--14550312	61	3.2	61	73	8	232	49	4	3	42	1.39
14550335--14550373	20	2.0	20	84	0	51	43	2	12	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14551558--14551632	19	3.8	19	89	6	114	38	8	16	37	1.78
14551559--14551621	21	3.1	21	95	4	112	38	9	14	38	1.78
14551611--14551655	23	2.0	23	86	4	65	40	2	17	40	1.62
14551621--14551665	23	2.0	23	82	4	56	35	2	15	46	1.58
14556172--14556316	50	2.9	50	84	3	184	20	29	24	25	1.99
14591985--14592074	23	4.1	23	71	11	98	45	6	26	21	1.76
14592004--14592087	42	2.0	42	92	0	141	45	8	21	25	1.79
14606960--14606992	8	4.2	8	88	3	50	39	3	12	45	1.57
14612277--14612344	29	2.3	31	80	9	81	25	17	20	36	1.94
14614710--14614803	45	2.1	45	91	0	152	43	10	4	41	1.59
14616447--14616472	2	13.0	2	100	0	52	50	0	0	50	1.00
14617382--14617445	31	2.1	31	93	0	110	25	25	18	31	1.98
14619228--14619660	213	2.0	214	97	0	814	27	11	6	54	1.61
14621200--14621237	18	2.0	19	85	10	51	65	0	0	34	0.93
14622700--14622753	23	2.3	23	84	6	65	27	31	14	25	1.95
14624095--14624148	23	2.3	23	81	6	65	33	18	14	33	1.92
14624275--14624319	19	2.4	19	85	7	65	64	4	0	31	1.13
14625043--14625075	15	2.1	16	88	5	50	66	0	0	33	0.92
14625782--14625814	14	2.3	15	94	5	59	24	0	0	75	0.80
14633421--14633506	21	4.0	23	80	11	110	37	24	22	16	1.93
14633421--14633507	44	2.0	41	86	6	120	36	24	21	17	1.94
14639854--14639878	6	4.2	6	100	0	50	16	48	20	16	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14642880--14642911	9	3.6	9	91	0	55	9	0	0	90	0.45
14644989--14645209	43	5.2	42	83	5	250	29	31	18	20	1.96
14644985--14645166	43	4.3	43	88	4	260	30	32	17	19	1.95
14651275--14651784	255	2.0	255	100	0	1020	34	9	18	38	1.82
14655958--14656000	17	2.5	17	88	0	68	16	30	30	23	1.96
14657112--14657139	14	2.0	14	100	0	56	21	7	21	50	1.72
14657668--14657692	13	1.9	13	100	0	50	20	0	32	48	1.50
14657791--14658009	109	2.0	109	98	0	420	33	17	16	32	1.93
14659225--14659281	28	2.0	28	100	0	114	24	17	29	28	1.97
14659917--14659981	3	21.7	3	90	0	94	32	4	1	61	1.26
14664866--14664890	12	2.1	12	100	0	50	60	8	8	24	1.52
14680019--14680051	17	1.9	17	93	0	57	36	18	18	27	1.94
14684201--14684535	43	7.8	43	77	10	206	40	23	12	22	1.89
14684201--14684535	86	3.9	86	75	9	292	40	23	12	22	1.89
14684222--14684539	128	2.5	129	80	8	360	41	23	13	22	1.88
14684473--14684613	72	2.0	71	83	5	176	41	20	16	21	1.90
14688517--14688609	35	2.6	35	89	1	141	44	35	9	10	1.72
14689902--14690078	35	5.2	35	75	9	159	33	2	29	33	1.72
14689990--14690117	35	3.7	35	79	0	103	32	5	29	32	1.80
14689902--14690081	100	1.8	100	81	4	229	33	2	29	33	1.72
14701143--14701312	60	2.9	59	79	6	175	47	18	13	20	1.82
14702017--14702062	24	1.9	24	91	8	76	52	8	17	21	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14709791--14709851	26	2.3	26	83	5	70	13	26	22	37	1.91
14713647--14713743	42	2.3	42	89	3	151	15	26	36	21	1.93
14714526--14714550	13	1.9	13	100	0	50	32	0	0	68	0.90
14714818--14714858	3	13.7	3	94	0	73	70	0	0	29	0.87
14718301--14718619	88	3.6	88	89	0	496	27	26	25	20	1.99
14720037--14720363	174	1.9	174	82	5	410	27	24	24	24	2.00
14722544--14722574	16	2.0	16	93	6	55	25	6	3	64	1.33
14726383--14726425	2	21.5	2	100	0	86	0	48	0	51	1.00
14743149--14743191	2	21.5	2	95	0	77	0	46	0	53	1.00
14753380--14753613	30	7.9	30	90	2	323	33	8	16	41	1.80

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   104   105   106   107   108   109