genome.fa.s1.2.7.7.80.10.50.1000.83.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:  37323695

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   

This is table  83  of  93  ( 11113 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)
32008076--32008118	2	22.0	2	80	4	52	0	46	2	51	1.13
32014024--32014229	107	1.9	107	81	3	245	39	12	26	21	1.88
32030953--32030985	2	16.5	2	100	0	66	51	0	0	48	1.00
32031224--32031282	7	8.4	7	73	14	50	40	0	11	47	1.40
32043751--32043792	20	2.1	20	100	0	84	28	33	11	26	1.92
32065573--32065617	22	2.1	23	84	12	60	60	8	2	28	1.39
32066030--32066066	13	2.8	14	84	12	51	72	0	2	24	0.97
32074236--32074282	21	2.2	21	88	0	67	44	46	6	2	1.40
32084779--32084898	51	2.3	50	78	5	132	11	2	59	26	1.45
32087650--32087674	12	2.1	12	100	0	50	16	8	44	32	1.76
32087896--32087978	24	3.5	24	80	6	114	13	10	48	27	1.75
32087885--32087981	48	2.0	48	100	0	194	14	10	45	29	1.78
32087992--32088037	23	2.0	24	82	4	58	17	10	52	19	1.74
32088072--32088166	48	2.0	48	85	0	127	17	5	49	27	1.68
32087963--32088161	24	8.6	24	71	7	108	17	5	49	28	1.68
32088217--32088333	57	2.1	57	86	0	162	21	3	49	25	1.65
32088313--32088373	24	2.5	24	75	0	68	13	6	49	31	1.67
32088412--32088478	30	2.2	30	83	0	89	26	2	52	17	1.59
32088438--32088501	33	1.9	33	81	12	78	20	3	57	18	1.53
32088455--32088531	36	2.2	33	86	6	100	18	3	57	20	1.56
32088653--32088718	24	2.8	24	85	0	96	21	9	45	24	1.80
32106610--32106648	13	3.2	13	85	7	55	56	5	0	38	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32106894--32106935	21	2.1	21	91	8	70	59	0	4	35	1.19
32112861--32112894	2	17.0	2	100	0	68	50	0	0	50	1.00
32117344--32117371	5	5.6	5	100	0	56	0	17	0	82	0.68
32118539--32118571	15	2.1	16	88	5	50	3	9	0	87	0.63
32120353--32120377	2	12.5	2	100	0	50	52	0	48	0	1.00
32177713--32177772	28	2.1	28	81	6	68	40	3	11	45	1.57
32177727--32177907	27	6.3	28	69	19	79	33	11	16	39	1.83
32177758--32177825	34	2.1	33	86	10	95	39	11	10	38	1.76
32177914--32177971	24	2.4	24	91	0	89	13	17	27	41	1.87
32177938--32178037	45	2.2	45	81	0	119	27	16	21	36	1.94
32178013--32178062	21	2.4	21	86	0	73	40	20	14	26	1.90
32178023--32178087	21	2.9	22	79	6	69	33	16	15	33	1.91
32179203--32179237	15	2.5	13	83	16	52	11	5	25	57	1.56
32179207--32179236	15	2.0	15	100	0	60	13	6	26	53	1.64
32179440--32179547	31	4.0	25	69	25	78	26	16	16	39	1.90
32179467--32179512	24	1.9	24	86	8	67	28	10	17	43	1.82
32179393--32179584	81	2.4	76	83	10	217	30	14	15	39	1.87
32179558--32179817	24	10.8	24	83	4	265	21	18	18	41	1.90
32179558--32179819	72	3.6	71	84	2	308	21	18	19	41	1.91
32179558--32179817	48	5.4	48	81	0	295	21	18	18	41	1.90
32183718--32183778	15	4.1	15	91	0	95	32	26	6	34	1.82
32184194--32184231	17	2.2	18	86	13	53	50	0	5	44	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32185970--32186190	111	2.0	111	97	0	415	24	23	14	38	1.92
32186311--32186761	223	2.0	225	88	3	667	35	14	8	41	1.76
32191020--32191046	13	2.1	13	100	0	54	55	0	0	44	0.99
32191081--32191196	36	3.3	35	79	4	126	46	12	4	37	1.61
32191081--32191189	35	3.1	35	78	1	119	45	11	4	37	1.62
32191870--32191928	9	6.3	10	73	11	54	74	0	0	25	0.82
32191867--32191936	27	2.6	26	80	8	68	74	0	1	24	0.90
32191868--32191945	13	6.5	12	74	14	54	75	0	1	23	0.87
32191895--32191946	13	3.8	13	82	5	59	78	0	1	19	0.84
32192175--32192212	13	3.1	12	82	17	51	81	2	15	0	0.80
32202023--32202204	58	3.0	62	85	5	282	32	11	18	36	1.87
32204120--32204159	3	13.0	3	94	5	71	67	0	0	32	0.91
32206668--32206756	33	2.6	34	87	3	144	37	30	11	21	1.88
32217372--32217591	73	3.0	73	91	0	359	23	23	20	32	1.98
32220990--32221048	30	2.0	30	89	0	91	52	8	8	30	1.61
32222388--32222530	51	2.9	51	85	3	193	41	13	12	31	1.82
32222388--32222537	25	5.9	26	73	7	103	41	13	14	31	1.84
32222692--32222730	18	2.2	18	90	0	60	43	23	17	15	1.87
32223073--32223144	37	1.9	37	81	10	85	29	5	8	56	1.51
32227376--32227430	26	2.2	26	78	12	62	47	5	5	41	1.49
32227555--32227618	22	2.9	21	73	13	56	28	3	0	68	1.04
32227540--32227614	33	2.3	33	90	0	114	28	2	0	69	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32227542--32227632	26	3.4	27	73	16	75	26	2	0	71	0.97
32244212--32244252	18	2.3	18	84	12	50	21	0	4	73	1.02
32244194--32244238	17	2.6	18	79	10	58	24	0	0	75	0.80
32244196--32244287	17	5.3	17	67	23	50	26	0	2	71	0.97
32244617--32244928	127	2.6	117	82	12	403	37	13	20	28	1.90
32244677--32244914	127	1.9	126	93	3	417	38	14	19	27	1.90
32244959--32245027	15	4.6	15	90	0	102	39	5	20	34	1.76
32245246--32245331	33	2.6	33	88	5	120	29	3	0	67	1.07
32245247--32245343	11	8.1	12	72	17	60	27	4	0	68	1.08
32245308--32245352	19	2.2	21	80	11	58	24	2	0	73	0.95
32249082--32249142	18	3.2	18	73	15	59	21	0	0	78	0.75
32249087--32249144	27	2.1	28	81	9	75	22	0	0	77	0.77
32249081--32249144	13	4.8	13	75	12	60	21	0	0	78	0.76
32256938--32256998	2	30.0	2	73	3	50	42	6	6	44	1.56
32256963--32257000	18	2.1	19	90	5	60	42	10	5	42	1.62
32266481--32266552	35	2.1	35	94	0	126	48	15	12	23	1.79
32279573--32279604	3	10.7	3	100	0	64	0	31	0	68	0.90
32281359--32281404	23	2.0	23	83	8	58	45	4	2	47	1.34
32281375--32281425	17	2.9	17	80	8	50	47	3	1	47	1.32
32281441--32281473	15	2.1	17	88	11	52	54	6	0	39	1.25
32281870--32282008	40	3.5	40	81	1	170	23	0	16	58	1.42
32290005--32290084	2	41.0	2	82	9	94	48	0	3	46	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32291108--32291299	62	3.1	61	78	5	197	58	2	4	34	1.31
32293261--32293353	27	3.3	28	77	14	95	68	1	0	30	0.96
32293269--32293354	20	4.4	20	71	20	67	68	1	0	30	0.97
32293311--32293358	5	9.4	5	80	10	53	77	2	0	20	0.88
32293311--32293361	22	2.3	22	82	0	66	78	1	0	19	0.85
32293386--32293410	11	2.3	11	100	0	50	12	64	0	24	1.27
32294381--32294407	8	3.4	8	100	0	54	88	0	0	11	0.50
32294812--32294841	7	4.3	7	100	0	60	70	0	0	30	0.88
32306953--32306977	12	2.1	12	100	0	50	0	0	16	84	0.63
32325851--32325976	63	2.0	63	100	0	252	33	9	22	34	1.86
32337338--32337396	25	2.4	25	94	0	100	47	6	10	35	1.64
32353848--32353881	14	2.5	14	90	4	52	47	0	0	52	1.00
32354668--32354692	2	12.5	2	100	0	50	52	0	0	48	1.00
32363903--32363946	13	3.4	13	84	9	63	43	0	2	54	1.12
32365199--32365235	11	3.6	11	79	20	53	43	5	5	45	1.49
32365196--32365247	19	2.9	17	86	11	61	42	5	5	46	1.51
32365196--32365241	19	2.4	19	100	0	92	43	4	4	47	1.42
32365547--32365619	28	2.6	28	89	6	103	30	6	5	57	1.47
32367735--32367773	3	13.3	3	94	5	71	69	0	0	30	0.89
32371696--32371773	24	3.2	24	77	0	93	44	21	14	19	1.85
32371842--32371927	29	2.8	29	85	7	100	40	16	12	30	1.86
32371843--32371939	29	3.3	29	84	8	99	39	16	11	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32372507--32372543	10	3.6	10	88	3	56	59	0	0	40	0.97
32374008--32374035	2	14.0	2	100	0	56	50	0	50	0	1.00
32378613--32378665	21	2.5	20	74	17	54	41	0	5	52	1.25
32380638--32380711	21	3.5	21	70	7	60	32	6	18	41	1.77
32380754--32380806	20	2.6	21	72	3	54	24	3	22	49	1.66
32380831--32380883	21	2.5	22	78	9	65	32	5	15	47	1.68
32384593--32384657	24	2.7	24	88	4	87	24	15	41	18	1.89
32390443--32390483	4	10.8	4	89	10	68	26	0	21	51	1.48
32390437--32390493	18	3.3	18	82	9	73	33	0	15	50	1.44
32401318--32401438	52	2.4	50	84	14	160	43	7	6	41	1.59

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