genome.fa.s1.2.7.7.80.10.50.1000.81.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  81  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)
31085843--31085920	35	2.3	35	82	6	88	21	10	15	52	1.72
31113262--31113299	12	3.2	12	92	0	58	42	0	7	50	1.31
31127843--31127886	18	2.5	18	82	10	56	45	0	0	54	0.99
31127865--31127898	14	2.4	14	90	0	50	50	0	0	50	1.00
31127992--31128031	15	2.4	17	84	16	57	57	0	2	40	1.12
31132510--31132546	2	18.5	2	88	0	56	0	0	45	54	1.00
31142449--31142598	61	2.5	60	81	9	155	41	14	6	38	1.71
31142620--31142657	20	1.9	20	94	0	67	34	10	18	36	1.85
31142735--31142908	84	2.1	84	93	0	294	39	22	6	31	1.79
31143296--31143349	24	2.3	23	78	6	72	48	16	9	25	1.76
31149209--31149363	60	2.6	60	84	2	195	27	13	29	29	1.94
31159473--31159518	13	3.5	13	80	16	58	45	0	19	34	1.51
31160005--31160053	20	2.5	20	96	0	89	30	26	18	24	1.98
31176581--31176619	15	2.6	15	87	0	51	35	5	25	33	1.78
31176865--31176929	35	1.9	33	81	12	78	30	7	0	61	1.24
31176855--31176986	55	2.5	52	78	13	142	29	5	0	65	1.15
31176958--31176988	14	2.1	15	94	5	55	32	0	0	67	0.91
31178783--31178817	18	1.9	18	88	11	54	65	0	0	34	0.93
31186993--31187038	20	2.2	22	88	7	69	60	6	0	32	1.22
31189143--31189170	14	2.0	14	100	0	56	14	0	7	78	0.95
31204964--31206514	310	5.0	310	98	0	2958	34	16	20	28	1.94
31208796--31210279	310	4.8	310	97	0	2736	35	16	19	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31217325--31217367	22	2.0	22	100	0	86	37	16	9	37	1.81
31225166--31225212	12	3.9	12	85	0	58	8	36	36	19	1.82
31225160--31225206	24	2.0	24	86	0	67	8	36	36	19	1.82
31225166--31225214	18	2.7	18	83	0	62	8	36	34	20	1.82
31230469--31230577	56	2.0	56	85	1	148	55	10	11	23	1.65
31237633--31237691	15	3.9	15	81	2	73	38	6	18	35	1.78
31237640--31237710	30	2.4	30	85	2	90	42	5	19	32	1.75
31237633--31237700	15	4.5	15	76	9	57	39	7	19	33	1.79
31237663--31237709	15	3.1	15	75	9	51	46	6	17	29	1.72
31246184--31246230	2	24.0	2	95	4	87	48	0	0	51	1.00
31265549--31265578	2	15.0	2	100	0	60	50	0	0	50	1.00
31286829--31286895	34	2.0	34	87	0	98	40	1	20	37	1.62
31302316--31302342	14	1.9	14	100	0	54	7	25	0	66	1.17
31306498--31306592	2	49.5	2	87	8	135	45	0	1	52	1.07
31320888--31320958	31	2.3	30	87	2	97	39	14	15	30	1.87
31322171--31322214	2	22.0	2	100	0	88	50	0	0	50	1.00
31331837--31331889	27	2.0	27	88	7	81	64	0	1	33	1.05
31333351--31333425	26	2.9	26	82	7	82	52	0	1	46	1.09
31333348--31333449	8	12.4	8	75	9	80	51	0	0	47	1.07
31333545--31333618	15	5.2	15	73	17	59	54	0	1	44	1.08
31333560--31333613	25	2.2	25	90	3	83	51	0	1	46	1.11
31333590--31333650	15	4.3	15	69	23	51	45	0	3	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31333597--31333647	26	1.9	27	92	4	86	41	0	3	54	1.19
31335251--31335298	19	2.5	19	79	0	60	50	0	0	50	1.00
31338317--31338394	39	2.0	39	97	0	147	30	21	15	32	1.94
31347118--31347246	63	2.0	65	89	7	201	38	13	17	31	1.87
31347785--31347852	21	3.2	21	66	15	59	32	27	13	26	1.93
31356089--31356138	16	3.3	15	80	11	57	32	4	18	46	1.67
31356210--31356300	43	2.1	43	87	4	130	25	41	3	29	1.71
31358765--31358791	3	9.0	3	100	0	54	33	0	66	0	0.92
31372707--31372755	23	2.1	23	81	7	55	44	2	0	53	1.12
31373924--31373985	19	3.1	19	78	21	65	66	0	1	32	1.02
31374285--31374313	15	1.9	15	100	0	58	41	13	0	44	1.44
31374481--31374522	1	42.0	1	95	0	75	0	97	0	2	0.16
31376924--31377196	142	1.9	143	91	0	449	31	11	21	35	1.89
31379268--31379297	13	2.3	13	100	0	60	60	0	16	23	1.36
31381779--31381822	21	2.1	21	83	8	54	47	13	6	31	1.69
31382080--31382152	35	2.1	35	94	0	128	28	34	6	30	1.83
31382834--31382861	2	14.0	2	100	0	56	0	50	0	50	1.00
31384036--31384062	6	4.5	6	100	0	54	70	0	14	14	1.17
31386644--31386682	4	9.2	4	83	10	51	69	5	2	23	1.21
31386634--31386675	9	4.8	9	85	5	59	69	7	0	23	1.13
31386634--31386677	13	3.4	13	81	12	54	70	6	0	22	1.11
31387510--31387573	15	4.2	17	74	20	52	71	1	25	1	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31406728--31406795	7	10.1	7	71	28	51	55	0	0	44	0.99
31406716--31406929	27	7.6	27	71	19	127	57	2	1	39	1.20
31406735--31407028	117	2.7	110	83	11	345	56	1	1	40	1.18
31406933--31407105	30	5.5	30	69	15	109	57	0	0	41	1.07
31406945--31407462	19	25.9	19	65	26	99	54	1	1	42	1.19
31406962--31407201	44	5.5	42	74	19	199	53	1	0	44	1.14
31406945--31407158	68	3.3	68	74	11	257	55	0	0	43	1.10
31406898--31407182	127	2.3	127	98	0	545	56	1	0	42	1.11
31407152--31407210	27	2.1	28	90	3	93	54	3	0	42	1.17
31407025--31407486	151	3.0	151	87	4	629	53	2	1	42	1.21
31407303--31407358	27	2.1	26	96	3	103	50	3	0	46	1.19
31407243--31407489	23	11.0	22	67	20	95	52	2	1	43	1.24
31407549--31407584	18	2.2	18	85	14	51	13	8	0	77	0.98
31407677--31407707	16	1.9	16	93	0	53	19	19	0	61	1.35
31408449--31408532	33	2.5	33	78	0	87	41	9	13	35	1.76
31411343--31411387	10	4.7	10	83	10	58	15	0	0	84	0.62
31411342--31411382	7	5.9	7	83	11	57	14	0	0	85	0.60
31411342--31411387	17	2.7	16	84	15	65	15	0	0	84	0.62
31411940--31412309	140	2.7	140	82	3	431	34	17	16	32	1.92
31413530--31413598	34	2.0	34	88	5	104	36	14	17	31	1.90
31427641--31427795	71	2.2	71	79	5	161	30	14	3	50	1.61
31429268--31429299	17	2.0	17	88	11	50	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31429340--31429393	28	1.9	28	85	7	74	59	12	3	24	1.50
31432431--31432473	11	3.6	12	80	20	54	55	0	0	44	0.99
31432435--31432483	14	3.6	14	78	18	59	53	0	0	46	1.00
31442155--31442189	18	1.9	18	94	0	61	54	0	0	45	0.99
31442907--31443107	89	2.2	89	81	4	235	22	35	13	28	1.92
31443729--31443760	16	2.0	16	93	0	55	25	21	12	40	1.88
31453023--31453053	2	15.5	2	100	0	62	51	48	0	0	1.00
31456316--31456342	14	1.9	14	100	0	54	29	0	11	59	1.32
31461606--31461716	57	1.9	57	90	0	177	36	12	9	40	1.77
31464755--31464793	20	2.0	19	90	5	60	56	2	0	41	1.13
31464786--31464860	29	2.5	30	80	2	98	36	0	4	60	1.16
31466960--31466998	20	2.0	20	90	5	62	17	12	0	69	1.19
31483461--31483528	29	2.3	31	75	12	72	35	10	2	51	1.51
31483657--31483730	33	2.2	33	80	4	87	39	9	4	47	1.55
31494754--31494842	42	2.1	42	85	0	115	20	17	19	42	1.89
31494789--31494995	105	2.0	105	83	3	265	21	20	15	42	1.89
31494786--31494995	54	4.0	52	81	7	212	20	20	15	42	1.88
31494968--31495022	27	2.0	27	96	0	101	25	16	20	38	1.92
31494914--31495076	81	2.0	81	92	0	272	22	21	16	39	1.92
31494995--31495321	54	5.8	54	82	10	393	18	24	13	42	1.87
31495070--31495099	3	10.0	3	92	0	51	0	36	0	63	0.95
31494995--31495349	57	6.2	57	83	7	434	19	24	13	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31495016--31495349	117	2.9	117	86	6	473	18	25	13	43	1.86
31496548--31496574	12	2.2	12	100	0	54	59	0	40	0	0.98
31497607--31497669	18	3.5	18	73	4	56	28	33	9	28	1.88
31504849--31504902	23	2.4	22	76	14	56	38	11	7	42	1.68
31505148--31505180	17	2.0	17	88	5	50	51	9	3	36	1.49
31507075--31507214	57	2.5	57	76	6	131	12	22	15	49	1.78
31507299--31507461	57	2.9	54	78	8	164	11	17	20	49	1.78
31507287--31507535	114	2.2	114	81	2	286	12	19	21	46	1.83
31515373--31515535	57	2.9	54	78	8	155	11	20	20	47	1.80
31515343--31515609	114	2.3	114	80	2	277	11	22	21	44	1.84

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