genome.fa.s6.2.7.7.80.10.50.1000.38.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  38  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)
12273168--12273230	31	2.1	31	84	3	83	46	4	3	46	1.40
12276407--12276457	14	3.6	14	78	21	54	58	3	0	37	1.16
12284506--12284772	68	3.9	68	84	0	327	38	15	21	24	1.92
12284506--12284772	136	2.0	136	85	0	363	38	15	21	24	1.92
12287156--12287231	40	1.9	40	91	0	125	32	22	17	27	1.96
12287271--12287379	40	2.7	40	85	0	155	27	21	23	27	1.99
12287769--12287820	21	2.4	21	90	3	77	30	1	21	46	1.62
12289997--12290042	21	2.2	21	100	0	92	17	8	23	50	1.74
12299361--12299494	68	1.9	71	86	8	195	50	2	3	42	1.35
12299392--12299488	17	5.7	17	68	22	60	52	2	2	43	1.24
12300460--12300495	18	2.0	18	100	0	72	33	5	11	50	1.61
12304239--12304277	18	2.2	18	95	0	69	48	12	0	38	1.42
12305306--12305344	18	2.2	18	95	0	69	48	12	0	38	1.42
12307270--12307358	11	8.4	11	70	19	73	23	32	0	43	1.54
12307269--12307323	23	2.4	23	80	19	71	23	32	0	43	1.54
12307283--12307382	51	2.0	51	90	4	157	25	29	0	46	1.53
12307338--12307374	11	3.2	12	88	7	51	27	24	0	48	1.51
12309723--12309770	11	4.2	12	75	19	50	27	29	2	41	1.67
12311608--12311647	18	2.2	18	86	0	53	17	30	7	45	1.76
12312173--12312295	22	5.4	22	69	25	78	46	31	1	20	1.60
12312166--12312224	28	2.1	27	87	12	84	49	30	0	20	1.49
12312288--12312317	6	5.0	6	91	0	51	36	46	0	16	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12312975--12313542	125	4.5	125	95	0	940	29	23	16	31	1.96
12317729--12317771	22	2.0	22	90	0	68	55	11	4	27	1.55
12322357--12322390	9	3.9	9	92	3	52	47	5	0	47	1.26
12322376--12322413	15	2.5	15	95	4	67	60	0	0	39	0.97
12322367--12322426	25	2.4	23	84	15	68	56	5	0	38	1.21
12322357--12322405	4	12.0	4	79	12	55	51	4	0	44	1.20
12331785--12331822	3	12.7	3	94	0	58	39	0	34	26	1.57
12338093--12338147	25	2.2	24	78	12	58	21	5	12	60	1.53
12341161--12341196	17	2.1	17	89	0	54	38	16	11	33	1.84
12341335--12341904	70	8.1	70	79	3	430	25	18	25	29	1.98
12341335--12341904	140	4.1	140	83	1	640	25	18	25	29	1.98
12341355--12341904	210	2.6	209	82	2	645	25	18	25	29	1.98
12347868--12347917	20	2.5	20	90	0	73	22	30	12	36	1.90
12350054--12350096	22	2.0	22	95	0	77	44	11	4	39	1.62
12350098--12350420	163	2.0	163	100	0	646	31	15	11	42	1.82
12360442--12360475	18	1.9	17	88	5	50	23	2	5	67	1.26
12360615--12360657	22	2.0	22	95	0	77	44	11	4	39	1.62
12360792--12361183	193	2.0	195	98	1	770	42	17	13	26	1.87
12365211--12365428	50	4.4	50	85	1	161	22	28	21	27	1.99
12365247--12365494	50	4.8	50	85	3	271	23	29	20	26	1.99
12365830--12365887	30	1.9	30	89	0	89	31	24	3	41	1.71
12367846--12367914	17	4.1	17	70	12	61	75	4	5	14	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12367869--12367932	6	10.8	6	81	3	58	75	6	3	15	1.14
12367870--12367932	29	2.1	30	83	13	78	76	6	3	14	1.11
12367849--12367926	23	3.4	22	76	15	70	74	6	3	15	1.17
12369249--12369310	23	2.7	23	75	9	63	67	3	4	24	1.25
12369502--12369998	248	2.0	249	99	0	987	46	7	27	18	1.76
12371872--12372148	51	5.5	51	84	1	396	20	30	23	26	1.98
12371865--12372174	101	3.1	101	99	0	611	20	30	23	25	1.98
12380902--12380944	22	2.0	22	90	9	70	44	11	6	37	1.68
12381221--12381275	24	2.2	25	80	6	67	45	7	16	30	1.74
12391568--12391614	24	1.9	25	91	4	78	38	0	36	25	1.56
12391568--12391617	12	4.0	13	80	15	61	38	0	38	24	1.56
12392299--12392525	27	8.4	27	81	0	211	41	19	18	20	1.91
12403103--12403140	20	1.9	20	89	10	60	26	15	10	47	1.78
12403379--12403427	22	2.2	23	78	7	57	28	2	2	67	1.13
12416219--12416271	14	3.8	14	85	5	63	22	9	13	54	1.67
12417238--12417288	26	1.9	27	84	11	70	19	13	13	52	1.73
12424042--12424137	39	2.5	39	82	3	113	43	18	17	19	1.88
12424173--12424377	82	2.5	80	87	4	284	24	20	25	29	1.99
12424173--12424381	41	5.1	40	83	5	249	24	20	26	28	1.99
12427955--12428159	43	4.8	43	85	4	254	24	19	26	29	1.98
12428651--12429104	227	2.0	227	98	1	876	29	17	8	43	1.79
12430464--12430540	33	2.3	32	80	6	82	25	22	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12447479--12447662	62	3.0	62	82	1	217	22	27	24	25	2.00
12453938--12453982	22	2.0	22	86	0	63	46	15	20	17	1.84
12456460--12456508	16	3.1	15	82	8	62	53	12	10	24	1.69
12457771--12457845	23	3.3	23	92	0	123	34	26	21	17	1.95
12473444--12473473	7	4.3	7	95	0	51	50	0	0	50	1.00
12473684--12473722	18	2.2	18	100	0	78	51	5	15	28	1.64
12477091--12477131	20	2.0	20	100	0	82	14	4	17	63	1.47
12479562--12479589	3	9.3	3	100	0	56	67	32	0	0	0.91
12479910--12479948	3	13.3	3	89	5	62	2	33	0	64	1.08
12482890--12482928	20	2.0	20	89	0	60	69	0	10	20	1.17
12485677--12485719	11	3.9	11	81	0	50	13	2	11	72	1.22
12485804--12486143	170	2.0	170	98	1	664	32	2	10	53	1.50
12486079--12486125	18	2.6	18	77	16	51	29	0	6	63	1.19
12486998--12487045	26	1.9	26	83	8	64	37	0	8	54	1.31
12487749--12487800	25	2.0	28	88	11	83	34	11	0	53	1.37
12487873--12487951	27	2.9	27	88	0	122	31	21	31	15	1.94
12488025--12488094	19	3.7	19	78	3	88	38	8	0	52	1.32
12488308--12488377	19	3.7	19	78	3	88	38	8	0	52	1.32
12488383--12488441	27	2.2	27	90	0	91	18	33	18	28	1.95
12488383--12488450	27	2.5	27	85	0	73	17	30	22	29	1.97
12488513--12488577	27	2.4	27	87	7	87	50	1	9	38	1.44
12490591--12490665	22	3.4	21	83	7	87	25	30	1	42	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12490591--12490665	33	2.2	32	80	17	82	25	30	1	42	1.63
12490591--12490667	11	6.9	11	79	16	72	25	29	1	42	1.63
12490629--12490726	51	1.9	51	87	4	144	27	23	3	45	1.67
12490735--12490769	18	2.0	18	88	5	54	51	0	0	48	1.00
12492751--12492844	43	2.2	44	90	5	147	35	0	10	54	1.35
12492758--12492844	44	2.0	44	93	4	149	35	0	10	54	1.35
12492812--12492858	25	1.9	24	95	4	85	46	0	12	40	1.42
12499639--12499697	29	2.0	29	83	6	75	20	8	35	35	1.83
12500920--12500963	18	2.4	18	85	10	63	36	6	0	56	1.26
12500922--12500962	19	2.2	19	91	4	66	34	7	0	58	1.26
12500932--12500969	19	2.0	19	89	0	58	47	5	0	47	1.24
12519055--12519103	25	2.0	25	96	4	91	55	0	8	36	1.30
12519068--12519131	34	2.0	34	84	9	89	51	0	9	39	1.34
12531528--12531561	3	11.0	3	93	6	59	32	67	0	0	0.91
12547440--12547550	21	5.3	21	73	7	64	45	17	21	16	1.86
12551000--12551059	30	2.0	31	86	3	86	20	40	0	40	1.52
12555358--12555408	21	2.4	22	75	18	54	41	13	0	45	1.44
12555796--12555939	74	1.9	74	98	0	279	27	18	14	40	1.89
12559003--12559056	20	2.6	22	77	19	62	48	16	20	14	1.81
12559106--12559173	25	2.8	25	88	2	102	27	26	4	41	1.75
12560364--12560587	114	2.0	114	93	0	385	31	16	14	37	1.89
12561993--12562063	37	1.9	37	82	0	88	38	25	21	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12566766--12566842	38	2.0	38	97	0	145	29	16	3	49	1.64
12568953--12569028	23	3.3	23	73	14	84	21	10	21	47	1.80
12568939--12569058	46	2.6	45	90	3	179	20	15	18	45	1.85
12572900--12572950	19	2.9	17	78	13	59	64	3	0	31	1.11
12572905--12572949	19	2.3	20	88	7	67	64	4	0	31	1.13
12572900--12572958	27	2.2	26	79	8	64	64	3	1	30	1.20
12574822--12574873	22	2.4	22	79	17	63	61	7	1	28	1.34
12579879--12579963	22	3.9	22	79	3	100	40	16	28	15	1.89
12581362--12581398	18	2.0	19	85	15	51	56	8	0	35	1.29
12582748--12582806	3	19.7	3	92	0	100	64	1	0	33	1.04

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