genome.fa.s6.2.7.7.80.10.50.1000.78.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  78  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)
25031306--25031344	7	5.3	7	82	11	51	0	12	2	84	0.72
25031308--25031343	15	2.3	16	90	4	56	0	8	2	88	0.59
25031642--25031678	17	2.2	17	90	4	58	2	13	2	81	0.92
25053045--25053126	23	3.6	23	76	0	74	42	25	21	9	1.84
25053045--25053137	46	2.0	46	80	0	105	43	23	22	10	1.85
25053803--25053829	3	9.0	3	100	0	54	0	33	0	66	0.92
25068604--25069132	131	4.0	131	84	1	630	37	13	16	33	1.87
25069056--25069203	67	2.2	67	80	4	165	35	12	17	35	1.87
25080108--25080154	20	2.3	20	86	13	62	59	4	2	34	1.29
25083561--25083586	2	13.0	2	100	0	52	50	0	0	50	1.00
25088273--25088318	20	2.2	21	88	3	67	69	0	6	23	1.11
25088613--25088752	28	5.1	26	71	16	95	32	2	2	62	1.19
25088601--25088719	46	2.3	52	82	14	135	35	1	2	60	1.20
25088628--25088739	29	4.0	29	79	11	99	35	1	2	59	1.22
25091625--25091712	3	29.3	3	85	4	115	30	2	2	64	1.18
25092299--25092342	16	2.8	16	80	12	56	18	2	2	77	0.98
25097072--25097096	5	5.0	5	100	0	50	40	20	0	40	1.52
25105368--25105640	127	2.1	127	90	1	431	29	24	23	23	1.99
25105368--25105913	40	12.8	40	69	15	244	30	22	23	23	1.99
25105535--25105741	93	2.3	86	88	9	324	29	22	24	23	1.99
25105582--25105727	44	3.2	44	65	22	120	29	22	21	26	1.99
25105550--25105733	93	2.0	93	98	0	359	31	22	23	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25105421--25105860	220	2.0	220	89	2	670	32	21	23	22	1.98
25105645--25105965	127	2.5	127	87	4	452	33	20	22	24	1.97
25119505--25119530	3	8.7	3	100	0	52	0	30	0	69	0.89
25130402--25130671	49	5.5	49	99	0	531	35	20	20	22	1.96
25134458--25134593	40	3.4	40	76	3	132	36	21	22	20	1.96
25134625--25134814	41	4.6	41	88	2	281	24	20	22	32	1.98
25140977--25141082	43	2.5	43	85	1	142	24	19	27	28	1.99
25149831--25149873	19	2.2	20	80	12	54	32	20	0	46	1.51
25150227--25150280	18	3.1	17	78	7	63	35	22	0	42	1.54
25151050--25151093	16	2.8	17	83	13	58	4	18	9	68	1.34
25161800--25161873	34	2.2	34	85	7	98	39	1	12	47	1.49
25165645--25165681	18	2.1	18	94	0	65	54	13	5	27	1.61
25167718--25167755	2	19.0	2	84	10	51	2	2	44	50	1.30
25172657--25172710	20	2.8	20	76	18	60	48	1	1	48	1.23
25189425--25189483	22	2.6	22	89	2	82	20	25	22	32	1.98
25189425--25189505	22	3.4	23	81	11	76	20	25	24	28	1.99
25189659--25189778	34	3.5	34	94	0	204	38	9	15	37	1.79
25194753--25195386	315	2.0	315	94	0	1106	37	13	22	26	1.91
25197562--25197654	9	10.8	9	67	9	50	38	9	13	37	1.78
25197544--25197660	34	3.4	34	98	0	225	37	8	14	39	1.77
25202092--25202198	54	2.0	55	81	1	126	23	27	23	26	2.00
25209616--25209744	60	2.2	60	81	6	147	43	2	10	44	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25212174--25212198	6	4.2	6	100	0	50	0	0	16	84	0.63
25213287--25213379	9	10.3	9	88	0	132	34	24	9	31	1.88
25213287--25213379	27	3.4	27	92	0	159	34	24	9	31	1.88
25214516--25214549	15	2.4	14	90	5	50	67	5	20	5	1.33
25216597--25216795	99	2.0	99	89	0	299	21	29	19	30	1.97
25219822--25219859	17	2.2	18	85	4	51	78	2	7	10	1.04
25226915--25227026	56	2.0	56	96	0	206	33	17	16	32	1.92
25227621--25227663	23	1.9	22	81	13	52	72	4	6	16	1.24
25230289--25230368	39	2.1	39	97	0	151	25	22	27	25	2.00
25237935--25238272	177	1.9	177	83	4	432	29	20	29	20	1.98
25237925--25238324	177	2.3	177	77	5	423	28	20	29	21	1.98
25238425--25238462	19	2.0	20	89	5	60	23	2	0	73	0.95
25238426--25238464	12	3.3	12	82	7	53	25	2	0	71	0.98
25256147--25256338	44	4.5	44	70	18	127	26	20	20	31	1.98
25256089--25256343	127	2.0	129	84	4	338	26	19	20	32	1.97
25256376--25256617	50	4.8	49	72	6	189	26	24	20	28	1.99
25256368--25256664	100	3.0	100	89	1	434	27	23	19	29	1.98
25256941--25257074	45	3.0	45	84	1	171	29	24	17	28	1.98
25257829--25258615	391	2.0	392	97	0	1504	35	17	17	29	1.93
25258612--25258651	21	1.9	21	89	0	62	25	10	20	45	1.81
25258735--25258782	7	6.7	7	77	13	53	14	14	0	70	1.16
25258735--25258782	15	3.4	14	80	13	53	14	14	0	70	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25258726--25258772	21	2.2	21	85	7	69	14	14	0	70	1.18
25265771--25265801	7	4.4	7	100	0	62	87	0	0	12	0.55
25271845--25271926	40	2.0	40	88	4	121	37	18	21	21	1.94
25272471--25272495	2	12.5	2	100	0	50	48	0	0	52	1.00
25272754--25272812	20	3.0	20	78	12	59	37	1	0	61	1.07
25272739--25272799	9	6.7	9	83	9	70	31	4	0	63	1.15
25273747--25273772	6	4.3	6	100	0	52	84	0	0	15	0.62
25275977--25276214	117	2.0	117	96	0	440	27	13	20	37	1.91
25279464--25279495	16	2.0	16	93	0	55	59	6	9	25	1.52
25281196--25281237	22	1.9	22	90	0	66	47	11	0	40	1.40
25281227--25281411	9	21.9	9	69	22	100	45	15	0	38	1.51
25281214--25281311	34	2.9	34	95	0	178	47	10	0	41	1.37
25281297--25281328	16	2.0	16	93	0	55	43	21	0	34	1.53
25281314--25281342	14	2.1	14	93	6	51	41	17	0	41	1.49
25281327--25281396	25	2.7	26	82	10	81	44	18	0	37	1.50
25281448--25281497	16	3.2	15	80	8	55	44	16	2	38	1.59
25281480--25281592	19	5.9	19	68	23	67	46	13	3	37	1.60
25281532--25281572	9	4.8	9	79	11	50	46	17	0	36	1.48
25281541--25281575	16	2.2	16	94	0	61	48	17	0	34	1.47
25281465--25281636	78	2.2	77	87	5	247	44	12	4	37	1.63
25286963--25287108	21	6.8	21	69	16	75	34	17	39	8	1.80
25287416--25287802	43	9.0	43	92	1	591	21	21	26	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25287416--25287802	128	3.0	128	89	3	591	21	21	26	31	1.98
25297537--25297563	6	4.5	6	100	0	54	44	37	0	18	1.50
25299426--25299464	3	13.0	3	83	0	51	61	2	5	30	1.31
25299422--25299460	12	3.2	12	85	0	51	58	2	7	30	1.39
25299447--25299506	21	2.9	20	74	16	59	65	6	1	26	1.27
25299804--25299851	21	2.4	20	93	6	80	37	14	10	37	1.81
25300150--25300196	24	2.0	24	83	8	60	38	2	2	57	1.23
25301855--25301890	5	7.2	5	100	0	72	19	61	19	0	1.35
25305161--25305221	32	1.9	32	89	0	95	44	0	0	55	0.99
25309369--25309417	24	2.0	24	96	0	89	16	18	12	53	1.73
25324313--25324374	30	2.1	30	96	0	115	22	9	32	35	1.87
25331947--25332013	33	2.0	33	100	0	134	26	14	11	46	1.80
25335735--25335772	16	2.3	17	90	4	60	47	5	18	28	1.70
25338328--25338486	81	2.0	81	93	0	273	32	15	20	32	1.94
25351594--25351626	6	5.7	6	92	7	59	36	0	15	48	1.45
25357583--25357642	3	20.0	3	100	0	120	66	0	0	33	0.92
25360572--25360762	59	3.2	60	78	4	183	28	19	6	45	1.75
25360572--25360777	30	6.9	29	74	6	135	28	20	6	44	1.77
25361079--25361133	24	2.2	24	84	12	67	72	12	12	1	1.20
25361092--25361162	24	3.1	22	81	15	74	71	7	19	1	1.16
25361092--25361162	23	3.1	21	79	18	72	71	7	19	1	1.16
25361607--25361647	22	2.0	22	90	9	68	78	0	21	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25362150--25362206	18	3.3	18	70	18	50	40	14	10	35	1.80
25362183--25362230	21	2.2	22	92	3	80	47	8	8	35	1.64
25368491--25368533	21	2.0	22	82	13	54	55	4	2	37	1.33
25379883--25379965	24	3.4	24	73	18	89	51	3	4	39	1.40
25379867--25379970	50	2.0	52	96	3	194	51	3	4	39	1.41
25380421--25380456	9	4.0	9	85	0	54	38	2	2	55	1.29
25381941--25381979	19	2.1	19	85	4	53	33	12	15	38	1.85
25393037--25393077	12	3.4	12	96	0	73	70	17	12	0	1.16
25410358--25410387	6	5.0	6	100	0	60	16	33	0	50	1.46
25415603--25415822	48	4.5	49	79	5	207	34	13	20	31	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   104   105   106   107   108   109