genome.fa.s1.2.7.7.80.10.50.1000.43.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  43  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)
16475977--16476125	49	3.1	49	75	16	168	42	8	6	43	1.58
16475954--16476275	93	3.5	93	85	5	455	40	7	7	44	1.61
16476609--16476806	58	3.4	58	84	2	254	36	22	15	25	1.94
16476801--16477102	58	5.2	58	81	1	354	27	18	22	31	1.97
16478696--16478744	15	3.2	15	79	2	53	42	10	14	32	1.79
16478753--16479086	167	2.0	167	87	0	472	39	7	11	40	1.71
16479130--16479215	32	2.6	33	83	5	111	29	2	0	68	1.02
16479074--16479220	72	2.1	72	80	5	165	29	4	0	64	1.19
16479241--16479292	25	2.1	25	85	7	70	26	0	1	71	0.97
16479242--16479308	34	2.0	33	88	8	100	26	0	1	71	0.94
16483686--16483856	83	2.1	83	89	2	263	49	9	18	22	1.76
16487783--16487812	14	2.1	14	93	0	51	83	0	16	0	0.65
16489600--16489654	26	2.1	27	90	10	87	10	52	0	34	1.37
16493865--16493932	2	34.5	2	94	2	120	48	0	51	0	1.00
16502458--16502498	21	2.0	21	85	9	57	65	0	2	31	1.05
16502456--16502518	25	2.5	26	82	5	76	65	1	1	31	1.12
16503462--16503505	22	2.0	22	95	0	79	22	25	31	20	1.98
16504951--16504986	3	12.0	3	100	0	72	66	0	33	0	0.92
16506757--16506879	43	2.8	43	83	2	165	24	15	21	38	1.92
16507874--16508078	73	2.8	73	81	7	229	38	16	20	25	1.93
16515869--16515979	55	2.0	54	87	1	159	36	3	28	31	1.75
16528723--16528847	29	4.3	28	77	6	115	34	24	12	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16528734--16528847	57	2.0	58	86	5	160	34	23	13	28	1.92
16543584--16543616	14	2.4	14	94	0	57	15	6	9	69	1.34
16556716--16556762	19	2.5	19	96	0	85	46	14	4	34	1.64
16572531--16572588	21	2.8	21	97	0	107	37	13	17	31	1.89
16574166--16574351	66	2.8	66	79	3	178	25	15	26	32	1.95
16594223--16594273	26	2.0	26	84	0	66	41	7	7	43	1.63
16594365--16594389	2	12.5	2	100	0	50	48	0	0	52	1.00
16594563--16594596	14	2.3	15	90	5	52	23	8	2	64	1.36
16594586--16594834	126	2.0	126	88	1	374	32	13	5	49	1.64
16596388--16596441	27	2.0	27	96	0	99	37	20	16	25	1.93
16604693--16604769	9	8.6	9	83	0	100	31	9	19	40	1.83
16604686--16604761	18	4.2	18	94	0	125	32	10	17	39	1.83
16608084--16608576	182	2.7	182	84	5	627	37	20	14	28	1.92
16618684--16618760	39	2.0	39	97	0	145	23	27	23	25	2.00
16619968--16620020	27	1.9	27	88	3	79	45	9	20	24	1.81
16620522--16620547	12	2.2	12	100	0	52	34	30	0	34	1.58
16627833--16627873	10	3.8	11	87	6	50	46	9	0	43	1.36
16631258--16631322	32	2.0	32	94	5	114	24	7	13	53	1.66
16648227--16648303	35	2.2	35	86	6	104	27	1	12	58	1.43
16653735--16653819	41	2.1	41	90	0	134	45	7	24	22	1.77
16658984--16659034	23	2.2	23	89	0	75	25	5	43	25	1.77
16658995--16659062	23	3.0	23	84	0	91	26	10	39	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16659088--16659185	23	4.2	23	73	7	72	27	10	34	27	1.89
16659316--16659364	22	2.2	22	85	7	64	22	12	36	28	1.90
16659212--16659475	126	2.1	126	86	2	359	26	14	35	23	1.93
16659171--16659607	230	1.9	227	82	5	540	27	13	35	23	1.93
16659603--16659653	23	2.2	23	82	0	57	25	21	27	25	1.99
16660094--16660460	55	6.7	56	82	5	419	12	12	29	45	1.78
16660252--16660333	27	3.0	27	69	26	82	7	10	35	46	1.67
16660494--16660558	25	2.6	25	90	0	94	29	24	24	21	1.99
16660535--16660623	30	2.9	31	79	3	108	29	17	17	34	1.94
16662867--16663032	81	2.0	81	86	4	228	23	19	29	27	1.98
16664491--16664797	86	3.6	86	87	0	434	27	31	19	22	1.98
16665272--16665319	15	3.4	14	77	11	53	58	4	2	35	1.29
16665679--16665764	25	3.4	25	98	0	163	58	4	15	22	1.55
16669087--16669411	31	10.5	31	85	4	401	39	16	17	26	1.91
16672458--16672540	43	1.9	43	92	0	139	18	20	22	38	1.93
16672497--16672641	51	2.9	50	83	3	157	21	15	22	40	1.91
16673436--16673477	16	2.7	16	85	10	52	50	2	4	42	1.36
16674932--16675004	38	1.9	39	86	5	105	6	12	15	65	1.45
16675379--16675631	76	3.3	76	75	11	187	38	13	16	30	1.88
16680899--16680944	12	3.6	13	86	11	60	26	0	0	73	0.83
16681134--16681846	59	12.0	60	86	2	897	32	15	16	35	1.91
16694622--16694667	22	2.1	22	83	0	56	2	45	6	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16694672--16694719	14	3.4	14	83	11	53	2	43	0	54	1.12
16694676--16694714	18	2.2	18	90	0	60	0	48	0	51	1.00
16694684--16694719	18	2.0	18	88	0	54	2	44	0	52	1.15
16694812--16694893	35	2.3	35	89	4	130	20	43	9	25	1.82
16695711--16695770	2	30.0	2	100	0	120	50	0	0	50	1.00
16695868--16695945	2	39.0	2	97	0	147	50	1	0	48	1.09
16701434--16701477	7	6.3	7	91	0	70	63	0	36	0	0.95
16701434--16701477	14	3.1	14	93	0	79	63	0	36	0	0.95
16706438--16706476	2	19.5	2	100	0	78	48	0	0	51	1.00
16708033--16708071	9	4.3	9	83	0	51	30	10	17	41	1.83
16708033--16708071	18	2.2	18	95	0	69	30	10	17	41	1.83
16716771--16716813	20	2.2	20	83	8	52	34	2	9	53	1.46
16719939--16721741	250	7.2	252	83	4	2085	49	6	10	33	1.63
16719939--16721745	750	2.4	753	84	4	2406	49	6	10	33	1.64
16721597--16721641	21	2.1	22	84	8	58	60	2	4	33	1.29
16733321--16733446	30	4.3	30	68	17	75	37	11	8	42	1.73
16733465--16733511	24	2.0	23	84	8	60	31	8	14	44	1.76
16735859--16735934	27	3.0	23	78	12	71	56	0	5	38	1.22
16748372--16748434	25	2.5	25	80	17	69	33	3	0	63	1.10
16748559--16748789	119	1.9	119	89	0	354	43	8	14	34	1.75
16749033--16749063	15	2.0	16	93	6	55	9	25	6	58	1.54
16753690--16753727	3	12.7	3	88	0	58	0	65	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16755097--16755141	21	2.2	20	84	7	56	2	17	11	68	1.29
16755307--16755335	2	14.5	2	100	0	58	48	0	0	51	1.00
16763814--16763881	29	2.4	28	76	16	75	57	10	11	20	1.63
16767927--16768049	46	2.7	46	79	13	112	48	2	3	44	1.32
16768043--16768136	45	2.1	45	88	4	136	45	5	2	46	1.37
16770719--16770756	19	2.0	20	89	5	60	23	5	13	57	1.56
16776183--16776299	49	2.4	49	94	0	198	21	14	21	42	1.88
16777724--16777800	33	2.3	33	97	0	145	5	54	7	32	1.51
16778739--16778779	22	1.9	21	90	5	64	4	12	2	80	0.97
16780148--16780219	35	2.1	35	100	0	144	20	23	5	50	1.69
16780157--16780231	35	2.1	35	85	4	98	24	24	6	45	1.77
16780231--16780260	2	15.0	2	100	0	60	50	0	0	50	1.00
16780277--16780308	2	16.0	2	100	0	64	50	0	0	50	1.00
16787177--16787246	35	2.0	35	86	5	97	28	22	14	34	1.93
16798199--16798231	17	1.9	17	88	11	50	66	18	0	15	1.25
16798386--16798449	18	3.6	18	67	0	56	42	15	12	29	1.84
16800156--16800184	14	2.0	15	93	6	51	79	0	6	13	0.93
16800189--16800238	25	2.0	25	84	3	66	34	0	2	64	1.05
16800209--16800285	20	3.8	19	72	14	57	41	5	0	53	1.23
16800225--16800320	42	2.3	42	80	14	108	44	6	3	45	1.44
16800319--16800364	20	2.3	20	75	20	51	50	0	0	50	1.00
16800422--16800485	20	3.1	20	75	16	67	40	1	0	57	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16800520--16800575	22	2.6	21	78	13	53	42	3	0	53	1.18
16800861--16800891	16	1.9	16	93	0	53	48	0	3	48	1.17
16800871--16800950	28	2.8	29	75	7	74	47	0	2	50	1.14
16803618--16803673	17	3.8	14	80	19	69	76	0	1	21	0.87
16803616--16803655	17	2.3	17	95	4	71	77	0	0	22	0.77
16808303--16808330	2	14.0	2	100	0	56	50	0	0	50	1.00
16812861--16812905	22	2.0	22	82	0	54	31	13	28	26	1.94
16813007--16813141	31	4.3	32	80	10	145	20	20	4	54	1.61
16813340--16813454	44	2.6	44	84	8	137	31	16	13	38	1.88
16816170--16816211	21	2.0	22	90	4	68	83	11	0	4	0.79

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