genome.fa.s5.2.7.7.80.10.50.1000.32.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   

This is table  32  of  85  ( 10117 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)
10653196--10653715	259	2.0	260	99	0	1033	43	9	8	38	1.67
10659063--10659092	9	3.2	9	90	9	51	76	0	23	0	0.78
10659063--10659091	5	6.0	5	92	8	51	79	0	20	0	0.74
10661221--10661290	33	2.1	33	91	0	113	52	5	4	37	1.45
10662862--10662911	18	2.7	17	84	9	55	52	2	10	36	1.47
10663268--10663301	16	2.1	16	94	0	59	38	11	0	50	1.39
10663607--10663644	19	2.0	19	100	0	76	31	15	31	21	1.94
10665267--10665336	25	2.8	25	82	4	79	20	22	28	28	1.98
10668249--10668280	16	1.9	17	93	6	57	53	0	6	40	1.26
10671015--10671063	5	10.0	5	86	10	66	36	0	2	61	1.08
10671021--10671059	13	3.2	13	79	20	57	35	0	0	64	0.94
10671026--10671063	18	2.1	18	95	0	67	36	0	0	63	0.95
10674184--10674322	56	2.5	56	88	4	217	32	5	16	46	1.69
10679438--10679609	50	3.4	50	83	3	211	28	22	29	19	1.98
10679451--10679630	100	1.8	100	85	0	252	28	21	28	21	1.98
10680201--10680266	13	5.1	13	84	0	96	34	25	9	30	1.87
10680460--10680490	16	1.9	16	93	0	53	51	6	22	19	1.69
10680841--10680889	21	2.3	22	79	10	57	53	4	14	28	1.59
10681715--10681755	13	3.2	13	96	0	73	24	29	31	14	1.95
10682044--10682128	9	9.4	9	82	0	107	41	21	11	25	1.87
10682148--10682197	20	2.5	20	80	9	57	26	4	8	62	1.41
10682160--10682208	20	2.5	19	80	9	53	28	2	6	63	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10682947--10683312	176	2.1	176	98	0	705	23	27	27	21	1.99
10684277--10684374	25	4.0	25	68	6	65	34	18	25	21	1.96
10684470--10684519	26	1.9	26	84	15	68	38	20	20	22	1.94
10684478--10684552	26	2.9	26	81	13	75	40	20	18	21	1.92
10685016--10685099	42	2.0	42	100	0	168	33	30	16	19	1.94
10685541--10685580	20	2.0	20	85	0	53	17	5	2	75	1.10
10686326--10686389	3	21.7	3	79	9	69	29	3	1	65	1.17
10691188--10691225	13	2.9	13	85	14	60	36	0	15	47	1.46
10691196--10691301	56	1.9	56	90	3	169	32	7	12	48	1.69
10691218--10691336	56	2.1	57	80	13	129	33	10	9	47	1.69
10695937--10695971	13	2.7	13	90	0	52	42	11	0	45	1.40
10696142--10696405	132	2.0	132	100	0	528	30	22	15	31	1.95
10697313--10697375	14	4.8	13	72	18	51	6	15	1	76	1.07
10699004--10699195	96	2.0	96	93	0	330	46	12	10	30	1.75
10702853--10702985	41	3.2	41	83	6	162	22	24	23	30	1.99
10708277--10708406	41	3.1	41	82	10	131	25	16	27	30	1.97
10708290--10708429	43	3.3	43	86	6	171	20	17	30	31	1.96
10708706--10708858	20	7.6	20	71	12	98	41	13	5	39	1.67
10708795--10708859	21	3.1	21	84	4	87	40	13	4	41	1.66
10712436--10712499	20	3.2	20	69	8	58	34	18	29	17	1.94
10712417--10712518	40	2.5	40	90	0	150	38	18	28	14	1.90
10722256--10722434	40	4.5	40	82	0	187	35	17	29	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10722316--10722410	20	4.8	20	68	8	59	38	21	26	13	1.90
10728928--10728968	20	2.1	20	90	4	66	39	7	4	48	1.52
10733995--10734029	16	2.2	16	94	0	61	25	17	17	40	1.90
10736293--10736359	33	2.0	33	100	0	134	29	14	20	34	1.93
10737192--10737224	17	1.9	17	93	0	57	57	9	12	21	1.62
10748236--10748417	90	2.0	91	98	1	357	40	20	12	26	1.88
10750744--10750898	39	3.8	40	75	16	158	58	4	5	31	1.42
10750732--10750899	83	2.0	84	98	1	329	55	5	5	32	1.48
10757412--10757632	110	2.0	111	98	0	426	31	20	16	32	1.94
10757649--10757715	25	2.5	27	79	11	77	23	25	10	40	1.86
10758798--10758844	25	1.9	24	100	0	85	38	4	17	40	1.69
10759730--10759826	47	2.1	47	90	0	149	45	11	20	22	1.83
10765545--10765614	25	2.8	25	93	0	113	28	18	18	34	1.95
10777974--10778015	21	2.0	21	95	0	75	28	35	9	26	1.88
10783524--10783570	19	2.5	19	85	0	67	44	17	0	38	1.48
10785398--10785430	15	2.1	17	88	11	52	9	9	0	81	0.87
10790577--10790623	23	2.0	25	91	8	80	40	0	0	59	0.97
10792025--10792061	20	2.0	19	85	15	51	67	8	10	13	1.41
10796803--10796850	17	2.7	18	87	12	64	62	4	2	31	1.26
10797332--10797537	114	1.8	113	89	5	326	27	8	16	47	1.76
10798922--10799092	82	2.1	82	90	2	263	51	16	6	25	1.68
10799067--10799106	13	3.2	13	89	3	64	52	22	0	25	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10799238--10799500	140	1.9	140	89	2	402	33	12	17	37	1.86
10801674--10801782	54	2.0	54	92	0	182	28	46	2	22	1.65
10804339--10804374	9	3.9	9	88	3	54	22	2	8	66	1.31
10805749--10805834	43	2.0	43	84	4	111	24	9	16	50	1.74
10808872--10808925	28	2.0	27	85	3	72	18	3	16	61	1.49
10814044--10814071	14	2.0	14	100	0	56	35	14	28	21	1.92
10814721--10814761	21	2.0	21	90	0	64	56	12	12	19	1.67
10815697--10815723	13	2.1	13	100	0	54	22	22	7	48	1.75
10822051--10822080	13	2.2	14	94	5	53	56	0	36	6	1.26
10840685--10840714	15	2.0	15	100	0	60	26	46	0	26	1.53
10842003--10842201	50	3.8	50	82	7	229	22	28	21	27	1.99
10861899--10861980	25	3.3	25	84	3	103	29	25	23	21	1.99
10863122--10863151	12	2.5	12	94	0	51	23	40	30	6	1.80
10870882--10870919	18	2.1	18	95	0	67	31	5	13	50	1.63
10870987--10871036	16	3.1	16	77	5	64	30	0	0	70	0.88
10873355--10873409	16	3.4	16	89	0	65	23	16	30	29	1.96
10873368--10873409	8	5.2	8	97	0	75	23	11	35	28	1.91
10873399--10873508	4	27.5	4	96	0	202	25	0	25	48	1.57
10874952--10875017	34	1.9	34	93	0	114	60	1	0	37	1.06
10882416--10882482	34	1.9	35	87	3	100	44	13	10	31	1.77
10882860--10883003	9	15.7	9	68	18	57	61	1	4	31	1.25
10882856--10883004	65	2.3	64	77	16	157	60	2	6	31	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10883284--10883321	20	2.0	20	89	5	60	23	2	5	68	1.23
10884577--10884634	27	2.1	27	84	12	75	25	0	5	68	1.10
10884542--10884617	35	2.3	34	82	8	86	30	1	3	64	1.20
10884558--10884620	19	3.5	19	74	23	57	30	1	4	63	1.24
10884616--10884654	20	2.0	20	94	0	69	25	5	0	69	1.09
10884614--10884656	10	4.3	10	80	11	52	23	4	0	72	1.04
10886765--10886809	22	2.1	21	84	12	56	51	4	6	37	1.49
10889049--10889073	8	3.1	8	100	0	50	48	0	0	52	1.00
10890225--10890263	6	6.3	6	93	3	60	12	66	2	17	1.35
10893439--10893485	23	2.0	24	83	4	60	31	10	4	53	1.55
10894675--10894726	26	2.0	27	88	7	81	65	0	3	30	1.10
10899566--10899657	38	2.4	37	83	16	109	41	1	5	52	1.32
10900567--10900609	22	2.0	20	86	8	59	67	18	0	13	1.23
10900599--10900652	17	3.1	17	71	10	54	61	16	9	12	1.56
10903553--10903587	14	2.4	14	85	4	52	31	5	20	42	1.75
10905885--10905982	25	3.9	25	77	8	83	21	28	19	30	1.97
10907705--10907757	26	2.0	26	92	0	88	28	20	20	30	1.98
10908717--10908767	21	2.4	21	90	0	84	23	21	31	23	1.98
10910533--10910575	16	2.7	16	85	0	50	51	18	0	30	1.47
10924883--10924958	31	2.5	31	84	0	98	30	13	13	43	1.81
10937114--10937195	16	5.1	16	96	0	155	26	0	35	37	1.57
10956578--10956617	21	1.9	20	85	10	53	67	10	2	20	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10974199--10974300	40	2.5	40	88	0	141	25	23	26	24	2.00
10974061--10974550	154	3.2	153	81	4	567	27	19	23	28	1.99
10974061--10974550	152	3.2	153	82	3	529	27	19	23	28	1.99
10974957--10975017	20	3.0	21	82	4	79	18	1	31	49	1.57
10974954--10975029	14	5.5	13	73	16	55	18	1	30	50	1.55
10975003--10975078	15	5.1	15	76	12	68	21	0	30	48	1.50
10975002--10975080	22	3.6	22	72	6	70	21	0	31	46	1.51
10975002--10975079	7	10.7	7	77	13	59	21	0	30	47	1.51
10975258--10975787	195	2.8	185	86	3	621	27	13	18	39	1.89
10975318--10975787	195	2.4	195	89	0	697	27	14	18	39	1.90

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