genome.fa.s1.2.7.7.80.10.50.1000.44.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  44  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)
16816183--16816234	15	3.8	13	79	16	61	78	17	0	3	0.89
16821065--16821108	12	3.4	12	77	17	52	40	13	11	34	1.81
16827506--16827531	3	8.7	3	100	0	52	34	34	30	0	1.58
16827679--16827715	6	6.2	6	87	0	56	43	37	18	0	1.51
16830391--16830423	17	1.9	17	93	0	57	21	6	21	51	1.69
16831400--16831426	6	4.5	6	100	0	54	66	0	0	33	0.92
16831656--16831680	3	8.3	3	100	0	50	68	0	0	32	0.90
16833750--16833782	2	16.5	2	93	0	57	51	3	0	45	1.16
16837838--16837863	1	26.0	1	100	0	52	0	0	100	0	0.00
16841339--16841377	21	2.0	21	90	10	64	64	0	2	33	1.08
16863024--16863116	27	3.5	27	79	2	80	23	18	33	24	1.97
16863003--16863119	53	2.2	54	79	1	128	25	18	32	23	1.97
16863159--16863335	27	6.5	27	74	3	113	24	24	34	16	1.95
16863135--16863350	54	4.0	54	73	5	159	25	24	33	16	1.96
16863000--16863350	81	4.4	79	75	6	215	27	21	32	18	1.97
16864378--16864402	12	2.1	12	100	0	50	8	32	0	60	1.26
16865763--16865904	71	2.0	71	91	0	230	38	12	21	27	1.89
16869308--16869395	21	3.9	21	74	21	79	37	10	15	36	1.82
16885581--16885706	63	2.0	63	95	4	229	50	1	11	36	1.48
16886425--16886470	22	2.1	22	100	0	92	28	13	30	28	1.94
16888806--16888973	23	7.5	23	78	9	159	39	1	32	26	1.67
16888806--16888973	44	3.8	44	77	4	185	39	1	32	26	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16892548--16892576	2	14.5	2	100	0	58	48	0	51	0	1.00
16894625--16894658	17	2.0	17	94	0	59	8	35	23	32	1.86
16894953--16894981	14	2.0	15	93	6	51	41	20	20	17	1.90
16909853--16909977	36	3.6	35	79	6	110	26	13	32	27	1.94
16909853--16909947	33	2.7	36	77	8	106	26	13	32	27	1.94
16913166--16913201	9	4.1	9	96	3	65	58	30	0	11	1.33
16920403--16920465	16	4.0	16	79	6	67	1	34	1	61	1.15
16928877--16928935	30	2.0	30	90	6	93	35	6	6	50	1.55
16938405--16938479	38	2.0	38	100	0	150	40	16	16	28	1.89
16943721--16943767	3	15.7	3	95	0	85	31	31	2	34	1.70
16949632--16949656	13	1.9	13	100	0	50	48	0	0	52	1.00
16954726--16954767	20	2.2	19	83	12	50	28	28	9	33	1.88
16956600--16956637	9	4.3	9	83	6	51	13	2	84	0	0.73
16956600--16956632	16	1.9	18	88	11	52	12	3	84	0	0.72
16964562--16964653	30	3.1	30	93	3	150	50	10	8	30	1.68
16969518--16969669	61	2.5	61	84	3	182	43	20	5	30	1.75
16969572--16969611	21	1.9	21	94	0	71	47	15	5	32	1.66
16969639--16969715	20	3.7	20	72	13	73	37	19	9	33	1.83
16969630--16969716	44	2.0	44	95	0	156	39	19	8	33	1.81
16978712--16978863	61	2.5	60	86	3	196	39	18	12	29	1.87
16989152--16989193	2	21.0	2	100	0	84	50	0	0	50	1.00
16996642--16996688	2	25.0	2	87	12	73	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16996645--16996688	17	2.6	17	92	3	72	50	0	0	50	1.00
16998287--16998341	2	27.5	2	100	0	110	50	0	0	49	1.00
17014493--17014548	25	2.2	25	77	0	58	57	1	1	39	1.20
17017510--17017903	133	3.0	133	89	1	594	44	13	17	24	1.84
17020990--17021175	93	2.0	93	96	0	345	31	17	16	34	1.92
17024639--17024723	42	2.0	42	90	4	136	27	25	11	35	1.91
17033114--17033183	32	2.3	29	81	13	88	24	11	10	54	1.66
17033242--17033284	21	2.0	21	100	0	86	37	25	4	32	1.77
17042225--17042295	32	2.3	31	74	13	74	32	4	7	56	1.46
17044448--17044505	28	2.0	28	90	6	89	48	0	3	48	1.18
17046537--17046678	57	2.5	58	83	1	169	26	16	33	23	1.96
17046581--17046736	58	2.7	58	84	1	179	26	17	30	25	1.97
17046697--17046809	47	2.4	47	89	2	165	26	20	30	23	1.98
17046730--17046835	24	4.5	24	67	19	69	26	20	30	22	1.98
17046730--17046948	71	3.1	71	88	2	316	27	21	29	21	1.99
17046848--17046952	24	4.5	24	69	17	69	30	24	25	19	1.98
17046898--17046971	23	3.2	23	69	17	62	31	22	25	20	1.98
17046872--17046987	47	2.5	46	85	1	160	26	21	29	22	1.99
17047220--17047244	7	3.6	7	100	0	50	12	44	0	44	1.41
17047644--17048001	31	11.5	31	86	0	473	23	18	19	38	1.93
17049379--17049691	145	2.2	145	79	5	346	30	19	21	28	1.97
17051730--17052041	62	5.2	59	66	16	180	30	29	19	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17051644--17052127	118	4.1	117	87	4	611	29	28	20	21	1.98
17051819--17051994	56	3.0	58	65	15	137	31	28	18	20	1.96
17051966--17052041	31	2.4	32	82	6	93	28	32	15	22	1.95
17052085--17052186	31	3.3	31	73	5	98	28	28	17	25	1.98
17052437--17052461	3	8.3	3	100	0	50	32	0	0	68	0.90
17055775--17055894	31	3.9	31	91	0	186	37	19	18	25	1.94
17056250--17056372	63	2.0	63	83	3	158	33	12	30	23	1.91
17064657--17064691	16	2.2	16	89	0	52	40	2	8	48	1.49
17066248--17066292	21	2.1	21	95	0	81	33	17	13	35	1.89
17066376--17066433	30	1.9	30	85	0	80	44	6	13	34	1.71
17069650--17069690	20	2.0	20	90	0	64	39	17	19	24	1.92
17082036--17082062	2	13.5	2	100	0	54	51	0	0	48	1.00
17083659--17083715	2	29.5	2	92	7	100	50	0	0	49	1.00
17087243--17087295	6	8.7	6	85	4	52	22	0	43	33	1.54
17089874--17089918	2	22.5	2	100	0	90	51	0	0	48	1.00
17091599--17091639	20	2.1	20	90	4	66	36	0	0	63	0.95
17097332--17097388	18	3.2	18	76	0	60	19	17	24	38	1.93
17097659--17097772	59	2.0	57	82	6	140	40	13	12	34	1.81
17118052--17118089	19	2.0	19	89	0	58	42	31	0	26	1.56
17124420--17124677	129	2.0	130	93	0	437	27	31	17	22	1.97
17126258--17126295	20	1.9	20	100	0	76	44	21	5	28	1.73
17127840--17127939	50	2.0	50	94	0	173	23	24	13	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17131505--17131552	25	1.9	25	100	0	96	22	12	20	43	1.86
17138466--17138575	57	1.9	57	86	0	157	20	37	20	22	1.95
17138793--17138830	2	19.0	2	100	0	76	50	0	0	50	1.00
17140865--17141004	69	2.0	69	98	0	271	32	20	8	38	1.83
17144398--17144449	23	2.3	23	100	0	104	3	25	11	59	1.49
17153673--17153729	28	2.0	28	90	6	89	29	21	22	26	1.99
17154839--17154863	13	1.9	13	100	0	50	44	0	8	48	1.32
17163885--17163926	22	2.0	22	90	4	68	61	0	2	35	1.09
17181450--17181520	3	22.7	3	80	11	56	26	1	0	71	0.94
17181457--17181504	4	13.5	4	79	20	54	25	0	0	75	0.81
17181451--17181520	7	10.6	7	74	19	62	25	1	0	72	0.92
17181450--17181520	10	7.2	10	86	9	85	26	1	0	71	0.94
17194577--17194615	18	2.2	18	90	0	60	43	17	7	30	1.77
17194883--17194922	18	2.2	18	95	0	71	50	12	10	27	1.72
17195711--17195785	15	4.7	16	74	21	68	50	1	0	48	1.09
17195910--17195967	29	2.0	29	83	12	75	51	0	1	46	1.11
17197203--17197415	39	5.7	37	75	7	171	26	40	12	20	1.87
17200220--17200262	19	2.3	19	84	8	52	34	2	13	48	1.56
17202976--17203035	30	2.1	29	81	6	68	31	8	21	38	1.83
17212816--17212851	17	2.0	19	89	10	58	25	30	11	33	1.90
17213930--17214018	45	2.0	45	91	2	144	44	8	2	43	1.48
17214065--17214111	23	2.0	24	83	4	60	65	4	0	29	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17222167--17222211	2	22.5	2	88	0	63	46	4	0	48	1.22
17223956--17224003	19	2.5	19	100	0	96	27	12	14	45	1.81
17224497--17224552	2	28.0	2	96	0	103	48	0	1	50	1.11
17224646--17224695	2	26.5	2	84	11	70	48	0	0	52	1.00
17224640--17224695	21	2.7	21	91	2	96	48	0	0	51	1.00
17231134--17231171	20	1.9	20	84	10	51	21	0	10	68	1.19
17233870--17234261	173	2.3	173	78	4	405	36	11	13	38	1.80
17237218--17237289	2	35.5	2	91	8	119	48	0	1	48	1.10
17241859--17241898	21	2.0	21	85	5	55	47	5	2	45	1.38
17244260--17244286	2	13.5	2	100	0	54	48	0	0	51	1.00

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