genome.fa.s1.2.7.7.80.10.50.1000.15.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  15  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)
6950577--6950629	9	6.1	8	82	10	52	28	5	0	66	1.15
6952043--6952351	120	2.6	119	86	4	426	35	15	14	34	1.88
6952043--6952351	59	5.2	59	84	4	379	35	15	14	34	1.88
6953005--6953665	77	8.9	73	75	10	527	32	21	20	25	1.98
6953009--6953437	72	5.8	79	74	15	248	32	23	20	24	1.98
6953005--6953665	149	4.4	146	79	7	525	32	21	20	25	1.98
6955168--6955387	49	4.4	50	87	3	327	25	25	17	32	1.97
6955167--6955387	100	2.2	100	94	0	379	24	24	18	32	1.97
6955375--6955427	23	2.3	23	87	6	81	16	24	20	37	1.93
6955464--6955496	17	1.9	17	93	0	57	30	30	6	33	1.82
6955771--6955996	82	2.8	81	91	2	353	41	8	11	39	1.71
6956315--6956414	28	3.4	28	74	22	105	44	6	14	36	1.69
6956297--6956414	61	1.9	61	91	3	193	43	5	14	36	1.70
6957571--6957638	34	2.0	34	94	0	118	42	25	13	19	1.87
6960211--6960256	21	2.2	21	88	0	65	19	17	4	58	1.55
6960394--6960799	36	10.8	35	74	16	289	22	18	20	37	1.94
6960365--6960763	76	5.2	76	90	0	575	23	18	19	38	1.93
6961161--6961188	2	14.0	2	100	0	56	50	0	0	50	1.00
6968593--6968806	49	4.3	50	88	3	315	21	24	20	33	1.97
6968593--6968806	100	2.1	100	92	0	347	21	24	20	33	1.97
6968793--6968861	23	2.9	23	82	4	84	21	23	17	37	1.94
6968819--6968871	23	2.3	23	90	0	79	18	26	18	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6968908--6968947	17	2.4	17	87	8	55	30	27	10	32	1.89
6969215--6969440	82	2.8	81	91	2	353	40	7	11	39	1.71
6970849--6970903	28	2.0	28	85	0	74	36	10	12	40	1.79
6973738--6973822	24	3.6	23	75	4	80	34	17	14	34	1.90
6981064--6981090	2	13.5	2	100	0	54	48	0	0	51	1.00
6985819--6985848	2	15.0	2	100	0	60	0	50	0	50	1.00
6992893--6992934	5	8.2	5	80	15	50	23	0	0	76	0.79
6993001--6993353	159	2.2	158	85	4	455	41	2	0	54	1.19
6993151--6993217	27	2.4	27	87	7	91	37	1	0	61	1.05
6993157--6993238	22	3.5	25	78	18	88	39	1	0	59	1.05
6993184--6993286	41	2.5	41	85	4	127	43	1	0	54	1.11
6997789--6997830	22	1.9	22	100	0	84	38	11	7	42	1.69
6997795--6998005	35	6.0	35	81	3	208	37	7	12	43	1.70
6997810--6998016	71	2.9	69	80	4	243	38	7	13	41	1.71
7011220--7011479	134	1.9	133	84	3	344	28	21	18	30	1.97
7036441--7036467	2	13.5	2	100	0	54	0	48	0	51	1.00
7039411--7039460	25	2.0	25	84	4	64	32	2	6	60	1.32
7047169--7047316	77	1.9	75	89	2	224	32	17	4	45	1.69
7047857--7047894	15	2.5	15	86	0	58	81	5	10	2	0.94
7047931--7047981	14	3.7	14	74	12	52	49	0	1	49	1.12
7047994--7048023	6	4.8	6	92	8	51	83	0	0	16	0.65
7047995--7048023	13	2.2	13	100	0	58	86	0	0	13	0.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7048154--7048209	22	2.5	22	91	0	85	26	14	10	48	1.76
7065477--7065609	64	2.1	64	100	0	266	27	6	37	28	1.80
7071257--7071305	25	2.0	25	87	0	71	8	22	34	34	1.84
7074802--7075193	196	2.0	196	91	1	642	35	9	21	32	1.87
7076753--7076798	24	1.9	24	81	0	56	30	15	41	13	1.85
7077429--7077531	54	1.9	54	88	4	154	35	14	27	22	1.93
7077442--7077568	54	2.4	54	86	0	164	30	14	29	25	1.94
7084202--7084292	2	45.5	2	85	0	110	49	5	3	41	1.42
7084959--7084984	2	13.0	2	100	0	52	0	50	0	50	1.00
7094890--7094933	2	22.0	2	100	0	88	0	50	0	50	1.00
7096184--7096220	2	18.5	2	100	0	74	51	0	0	48	1.00
7097262--7097355	36	2.6	36	80	9	111	27	43	7	21	1.79
7097310--7097655	168	2.1	168	96	1	631	28	47	7	16	1.74
7112846--7112909	25	2.5	25	78	14	69	59	3	1	35	1.23
7116757--7116795	17	2.2	17	86	4	51	53	0	0	46	1.00
7116824--7116861	19	2.0	19	85	10	51	68	0	0	31	0.90
7116957--7117084	70	1.9	67	86	4	184	29	17	3	49	1.64
7121609--7121650	22	1.9	22	85	0	57	38	26	26	9	1.87
7129408--7129497	15	6.3	15	70	14	57	46	2	1	50	1.21
7129560--7129627	16	4.3	16	75	14	54	57	1	1	39	1.17
7138861--7138933	2	38.5	2	76	10	64	42	1	4	52	1.29
7145979--7146058	31	2.7	29	80	5	90	56	1	5	37	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7147044--7147259	110	2.0	109	98	1	407	38	6	3	51	1.44
7148647--7148681	16	2.1	17	89	5	54	2	2	11	82	0.88
7155812--7155851	10	4.2	10	78	21	50	67	0	0	32	0.91
7155815--7155850	17	2.1	17	100	0	72	69	0	0	30	0.89
7156853--7156888	18	2.0	18	88	0	54	41	13	8	36	1.75
7162594--7162642	2	25.5	2	81	8	57	46	2	2	48	1.25
7162860--7162893	16	2.1	16	88	0	50	38	2	5	52	1.41
7163507--7163572	34	1.9	34	90	0	105	30	10	21	37	1.87
7165012--7165066	18	2.8	19	75	10	58	21	0	5	72	1.04
7165048--7165082	15	2.4	15	90	4	54	31	0	8	60	1.27
7165048--7165088	14	2.9	14	85	7	55	36	0	7	56	1.27
7165254--7165459	108	1.9	108	94	0	367	44	4	15	34	1.68
7165732--7165813	31	2.7	29	83	5	92	23	19	8	48	1.76
7165732--7165813	30	2.7	32	83	9	100	23	19	8	48	1.76
7166670--7166703	2	17.5	2	93	6	61	50	0	0	50	1.00
7168551--7168753	40	5.0	40	77	5	210	58	18	2	20	1.51
7168602--7168679	20	3.8	21	71	20	65	61	16	2	19	1.45
7168594--7168654	20	3.0	20	72	25	65	59	16	0	24	1.37
7172041--7172315	133	2.1	133	87	0	388	27	15	42	14	1.86
7173677--7173710	2	17.0	2	93	0	59	47	0	2	50	1.16
7173787--7173855	23	3.0	22	81	12	68	47	4	5	42	1.47
7179959--7180031	27	2.7	27	76	19	80	43	10	9	35	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7186816--7187201	206	1.8	206	83	6	511	32	18	14	34	1.91
7199042--7199158	61	1.9	61	86	5	166	37	5	0	56	1.28
7199035--7199167	30	4.5	29	78	12	130	39	4	0	54	1.26
7210833--7210862	10	3.0	10	100	0	60	60	0	40	0	0.97
7210833--7210862	15	2.0	15	100	0	60	60	0	40	0	0.97
7211153--7211192	12	3.3	12	89	6	55	30	0	0	70	0.88
7222375--7222455	38	2.1	38	88	0	117	43	4	19	32	1.73
7223087--7223144	28	2.1	28	90	0	89	24	25	31	18	1.98
7232749--7232804	27	2.1	27	93	0	94	55	10	10	23	1.65
7238149--7238185	9	4.1	9	100	0	74	13	10	32	43	1.79
7242899--7242936	15	2.4	16	82	13	51	23	7	7	60	1.51
7242903--7242936	15	2.2	16	89	5	52	26	5	8	58	1.51
7246757--7246809	26	2.0	26	100	0	106	41	11	3	43	1.58
7250718--7251072	132	2.7	129	84	5	428	26	26	6	40	1.80
7252838--7252875	15	2.6	14	84	16	51	55	0	0	44	0.99
7253236--7253268	16	2.0	17	94	5	59	36	0	12	51	1.39
7253555--7253641	28	2.9	31	77	18	85	19	9	21	49	1.76
7255344--7255415	32	2.2	32	85	0	90	26	18	30	25	1.98
7274180--7274272	42	2.2	42	90	3	143	20	32	27	19	1.97
7275340--7275364	3	8.3	3	100	0	50	32	0	0	68	0.90
7279957--7279992	17	2.1	17	89	0	54	8	30	11	50	1.67
7286025--7286049	2	12.5	2	100	0	50	52	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7289683--7289719	3	12.3	3	94	0	65	35	32	32	0	1.58
7305144--7305263	61	2.0	61	91	0	195	46	15	19	19	1.84
7314127--7314205	26	3.0	26	100	0	158	43	3	18	34	1.69
7322112--7322198	33	2.6	33	83	7	95	66	3	3	26	1.23
7322347--7322383	12	3.2	12	81	11	51	27	0	0	72	0.84
7322340--7322397	23	2.5	22	77	5	71	36	3	0	60	1.14
7334545--7334592	16	2.9	17	72	12	55	29	16	4	50	1.64
7362983--7363013	15	2.1	15	94	5	55	87	0	0	12	0.55
7370397--7370545	74	2.0	74	96	0	271	30	15	9	44	1.78
7376133--7376212	29	2.7	29	77	11	90	38	3	8	48	1.52

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