genome.fa.s1.2.7.7.80.10.50.1000.25.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  25  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)
10742607--10742651	22	2.2	19	84	11	54	35	4	2	57	1.31
10743656--10743709	28	1.9	28	92	0	90	62	12	1	22	1.39
10747806--10747833	2	14.0	2	100	0	56	0	50	0	50	1.00
10760164--10760272	51	2.1	53	87	3	159	42	5	4	47	1.47
10760434--10760633	32	6.1	33	80	5	208	44	4	4	46	1.44
10760491--10760601	12	10.0	11	69	15	77	45	4	1	48	1.33
10760436--10760633	66	3.0	66	87	0	279	44	4	4	46	1.44
10760495--10760601	22	4.9	21	73	15	92	43	4	1	49	1.34
10764777--10764841	24	2.6	25	79	16	73	43	0	0	56	0.99
10765244--10765300	30	1.9	30	89	7	89	54	3	5	36	1.40
10769799--10769838	15	2.7	15	100	0	80	12	15	15	57	1.66
10769799--10769845	15	3.3	14	94	5	69	12	12	17	57	1.65
10772423--10772518	20	5.2	20	66	26	68	57	2	0	40	1.10
10772403--10772459	29	2.0	29	96	0	105	59	1	0	38	1.08
10772658--10772707	26	1.9	26	84	8	66	42	4	6	48	1.46
10783880--10783907	2	14.0	2	100	0	56	50	0	0	50	1.00
10793415--10793524	55	2.0	55	96	0	202	45	12	10	30	1.77
10793635--10793762	59	2.2	59	100	0	256	39	14	12	32	1.84
10794169--10794324	64	2.5	64	81	3	163	35	23	12	28	1.91
10794753--10794792	21	1.9	21	89	0	62	25	12	25	37	1.91
10795647--10795769	62	2.0	62	87	6	178	31	9	20	38	1.85
10798855--10798927	2	36.5	2	94	5	130	49	0	0	49	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10804117--10804151	2	17.0	2	94	5	61	48	0	48	2	1.16
10805998--10806035	4	9.5	4	94	0	67	47	26	0	26	1.52
10813475--10813506	2	16.0	2	100	0	64	50	0	0	50	1.00
10813534--10813571	2	18.5	2	94	5	67	47	2	0	50	1.15
10815707--10815754	21	2.3	21	78	7	53	60	0	20	18	1.36
10816467--10816491	2	12.5	2	100	0	50	52	0	0	48	1.00
10822120--10822151	2	16.0	2	100	0	64	50	0	0	50	1.00
10828394--10828501	35	3.1	35	95	0	198	28	33	7	30	1.85
10829769--10829810	19	2.2	19	91	0	66	38	4	35	21	1.75
10835219--10835312	45	2.1	45	83	0	116	44	5	5	44	1.49
10835350--10835425	23	3.3	22	71	16	73	51	3	2	42	1.34
10839416--10839501	1	86.0	1	95	0	145	0	1	2	96	0.25
10839719--10839766	21	2.3	21	85	0	69	35	12	31	20	1.90
10842843--10842896	28	2.0	26	89	7	81	75	1	7	14	1.09
10842856--10842896	14	2.9	14	79	13	57	78	0	7	14	0.96
10843566--10843595	2	15.0	2	100	0	60	50	0	50	0	1.00
10844808--10844832	10	2.5	10	100	0	50	92	0	0	8	0.40
10844949--10844986	8	4.5	8	87	12	58	76	0	0	23	0.79
10844949--10845005	18	3.1	18	80	12	71	75	0	1	22	0.90
10844920--10844986	28	2.5	28	82	4	84	71	1	1	25	1.03
10845105--10845157	24	2.2	25	93	3	90	73	0	0	26	0.83
10848153--10848484	165	2.0	163	97	2	619	40	12	13	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10848470--10848504	18	1.9	18	94	0	61	71	0	0	28	0.86
10848466--10848512	18	2.6	18	79	3	58	78	0	0	21	0.75
10852163--10852320	80	2.0	80	92	2	264	51	11	27	10	1.70
10853468--10853936	141	3.3	141	87	1	674	24	23	17	34	1.96
10853938--10854006	13	5.2	14	75	5	56	81	14	2	1	0.88
10853941--10854013	12	6.3	11	75	22	69	79	16	2	1	0.92
10853939--10854013	24	3.1	23	79	9	87	80	16	2	1	0.90
10853937--10854012	38	2.0	38	84	5	100	78	17	2	1	0.93
10853940--10854013	35	2.1	36	84	2	96	79	16	2	1	0.91
10853970--10854009	14	2.9	14	85	7	55	82	15	0	2	0.77
10853943--10854022	24	3.2	24	77	12	81	77	15	6	1	1.02
10854180--10854204	8	3.1	8	100	0	50	76	0	12	12	1.04
10854156--10854215	22	2.6	22	73	21	61	75	1	6	16	1.10
10855984--10856043	19	3.2	19	72	18	54	76	3	3	16	1.05
10855978--10856042	28	2.4	28	84	2	78	76	3	3	16	1.03
10856225--10856249	10	2.5	10	100	0	50	92	0	0	8	0.40
10856366--10856403	8	4.5	8	87	12	58	76	0	0	23	0.79
10856366--10856422	18	3.1	18	80	12	71	75	0	1	22	0.90
10856337--10856403	28	2.5	28	82	4	84	71	1	1	25	1.03
10858486--10858533	22	2.2	22	84	0	60	41	4	8	45	1.53
10858807--10858849	21	2.1	20	83	12	52	65	0	16	18	1.28
10863606--10863652	22	2.2	22	92	3	78	14	8	0	74	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10867736--10867784	2	24.5	2	100	0	98	51	0	0	48	1.00
10871093--10871125	16	2.1	16	94	0	57	12	60	12	15	1.59
10872151--10872194	20	2.2	20	87	0	61	38	2	0	59	1.10
10873803--10873927	13	9.2	13	72	11	81	26	0	0	72	0.96
10873788--10873847	28	2.1	27	84	9	75	25	1	1	71	1.04
10873803--10873927	7	18.3	7	69	10	55	26	0	0	72	0.96
10873799--10873942	27	5.1	28	72	16	88	29	0	0	68	0.99
10873803--10873933	40	3.2	41	77	12	121	27	0	0	70	0.97
10879452--10879524	36	2.0	36	91	0	119	39	21	6	31	1.80
10883261--10883336	40	1.9	40	83	0	98	43	5	6	44	1.52
10898132--10898208	39	2.0	39	84	5	102	27	15	12	44	1.83
10898374--10898440	27	2.5	26	81	13	73	35	7	23	32	1.83
10898426--10898572	54	2.8	54	81	5	140	34	12	24	28	1.92
10898478--10898550	27	2.8	25	86	8	101	34	13	23	28	1.93
10904386--10904431	20	2.3	20	88	7	67	45	21	4	28	1.71
10905183--10905276	27	3.5	27	80	0	107	39	12	19	28	1.88
10905235--10905325	27	3.4	28	80	8	100	35	17	20	26	1.95
10905180--10905409	27	8.5	27	72	2	79	37	14	17	30	1.90
10905408--10905525	27	4.4	27	81	2	112	33	15	21	29	1.94
10908780--10908846	29	2.3	28	82	10	73	28	0	8	62	1.25
10918709--10918744	17	2.1	17	94	0	63	27	5	13	52	1.63
10918818--10918848	2	15.5	2	93	0	53	48	3	0	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10926956--10927226	137	2.0	137	97	0	506	36	22	8	31	1.85
10948535--10948560	12	2.2	12	100	0	52	23	0	7	69	1.14
10948540--10948580	18	2.2	19	83	12	50	34	0	7	58	1.26
10949217--10949269	27	2.0	27	85	14	74	75	1	5	16	1.08
10949479--10949573	48	2.0	46	95	4	163	34	4	6	53	1.46
10955491--10955532	15	2.9	15	85	3	59	71	0	0	28	0.86
10955482--10955538	20	2.8	20	83	5	60	68	0	0	31	0.90
10955493--10955561	26	2.6	25	82	14	86	71	0	0	28	0.87
10968017--10968121	2	53.0	2	77	12	74	48	3	2	43	1.35
10968012--10968148	69	2.0	68	98	1	265	48	5	4	40	1.47
10979106--10979135	12	2.6	11	90	10	51	53	6	0	40	1.27
10982506--10982531	2	13.0	2	100	0	52	50	0	0	50	1.00
10982814--10983052	126	2.0	120	93	5	408	38	3	2	53	1.34
10982962--10983115	81	1.9	81	81	6	186	37	3	3	55	1.35
10982820--10983101	126	2.3	123	84	9	342	40	3	3	51	1.35
10983144--10983217	25	2.7	27	80	12	80	43	2	2	51	1.30
10991212--10991255	18	2.4	18	84	0	61	38	0	29	31	1.58
10991159--10991254	15	6.4	15	73	4	59	39	2	27	31	1.68
10991263--10991303	18	2.3	18	91	0	64	68	2	24	4	1.22
10994967--10995037	21	3.3	21	64	12	54	30	1	38	29	1.66
10994969--10995060	44	2.1	45	95	2	168	32	2	34	30	1.70
10998212--10998258	23	2.0	23	91	0	76	55	0	31	12	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10998354--10998420	34	2.0	34	93	0	116	37	1	23	37	1.65
11004453--11004517	3	21.7	3	96	0	121	33	30	0	35	1.58
11005985--11006037	8	6.8	8	84	2	63	26	0	43	30	1.55
11005985--11006037	16	3.4	15	82	7	70	26	0	43	30	1.55
11006309--11006354	12	3.6	12	86	13	65	15	0	10	73	1.08
11006327--11006360	10	3.2	10	91	8	50	17	0	8	73	1.08
11008031--11008145	57	2.0	57	96	3	214	26	17	11	45	1.82
11010930--11011228	145	2.1	145	87	3	433	27	19	22	29	1.98
11012649--11012820	31	5.5	31	89	1	256	38	18	15	27	1.91
11013425--11013468	23	1.9	23	90	0	70	25	29	18	27	1.98

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