genome.fa.s1.2.7.7.80.10.50.1000.90.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  90  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)
35746906--35747154	45	5.5	45	95	0	417	25	17	27	29	1.97
35752375--35752415	22	1.9	22	90	5	66	36	0	0	63	0.95
35752378--35752443	14	4.6	15	69	16	50	40	0	0	59	0.98
35752371--35752416	21	2.2	20	82	14	58	39	0	0	60	0.97
35752529--35752627	39	2.5	39	72	21	105	48	2	0	49	1.12
35753395--35753435	21	2.0	21	85	4	57	43	0	2	53	1.13
35754277--35754339	30	2.2	30	85	5	85	63	1	0	34	1.04
35759642--35759716	33	2.3	33	100	0	150	36	9	26	28	1.87
35772249--35772315	18	3.7	18	84	4	82	29	8	17	43	1.80
35772966--35772992	2	13.5	2	100	0	54	51	0	0	48	1.00
35775335--35775360	2	13.0	2	100	0	52	50	0	0	50	1.00
35794419--35794457	21	1.9	21	89	5	62	69	0	2	28	1.02
35794419--35794456	20	1.9	20	89	10	60	68	0	2	28	1.03
35795229--35795256	2	14.0	2	100	0	56	50	0	0	50	1.00
35800314--35800358	2	22.5	2	95	0	81	46	2	51	0	1.13
35801701--35801725	3	8.3	3	100	0	50	32	0	0	68	0.90
35831368--35831519	76	2.0	76	90	2	243	34	18	14	32	1.91
35840114--35840183	27	2.6	28	79	18	78	41	0	0	58	0.98
35840142--35840181	21	1.9	21	89	0	62	42	0	0	57	0.98
35842198--35842249	24	2.2	24	89	0	77	26	32	23	17	1.96
35846212--35846455	102	2.4	102	83	2	285	17	33	11	38	1.85
35870836--35870905	3	23.3	3	86	5	81	31	27	4	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35882698--35882740	21	2.0	21	86	8	61	30	0	0	69	0.88
35882647--35882755	29	3.7	30	80	11	95	38	0	0	61	0.96
35882666--35882751	26	2.8	32	75	21	85	37	0	0	62	0.95
35882821--35882885	33	2.0	33	90	0	103	49	10	1	38	1.47
35885314--35885347	17	2.1	17	88	5	52	14	85	0	0	0.60
35892005--35892065	17	3.5	17	80	8	52	42	1	3	52	1.27
35892028--35892069	19	2.2	19	87	8	59	47	2	2	47	1.28
35897260--35897284	3	8.3	3	100	0	50	0	0	36	64	0.94
35898859--35898883	2	12.5	2	100	0	50	52	0	48	0	1.00
35899365--35899405	2	20.5	2	89	0	64	0	48	4	46	1.23
35899613--35899650	2	19.0	2	94	0	67	52	0	47	0	1.00
35901896--35901946	25	2.0	26	88	3	77	39	0	0	60	0.97
35901896--35901937	12	3.4	13	78	21	54	35	0	0	64	0.94
35933424--35933460	12	3.1	12	88	0	56	40	24	35	0	1.55
35934037--35934181	45	3.2	45	93	0	236	31	20	24	22	1.98
35934324--35934354	12	2.6	12	100	0	62	19	16	51	12	1.76
35942443--35942547	55	1.9	55	84	1	140	24	21	9	43	1.82
35949979--35950017	2	19.5	2	100	0	78	51	0	48	0	1.00
35957473--35957517	19	2.4	18	77	3	54	46	8	4	40	1.55
35978229--35978270	22	1.9	22	90	0	66	0	16	0	83	0.65
35978244--35978277	12	2.8	12	86	0	50	2	11	0	85	0.71
35979721--35979819	50	2.0	48	88	7	155	34	3	0	61	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35979748--35979811	31	2.0	31	84	3	83	34	1	0	62	1.05
35984246--35984362	60	2.0	60	91	0	189	27	18	22	31	1.97
35988611--35988657	21	2.2	21	92	0	76	19	40	10	29	1.85
35990341--35990397	8	6.3	9	75	20	57	71	0	28	0	0.86
35990344--35990389	16	2.8	17	86	6	67	73	0	26	0	0.83
35990415--35990490	4	19.2	4	80	20	81	72	0	26	1	0.93
35990416--35990483	18	3.9	17	82	16	79	70	0	27	1	0.96
35990413--35990483	35	2.0	35	86	10	101	70	0	28	1	0.96
35990416--35990483	27	2.6	28	76	23	58	70	0	27	1	0.96
35990415--35990492	18	4.0	19	76	17	72	73	0	25	1	0.91
35990415--35990492	7	10.0	7	80	12	57	73	0	25	1	0.91
35999556--35999598	21	2.0	22	90	4	70	79	0	2	18	0.85
35999556--35999597	11	4.0	10	84	9	57	78	0	2	19	0.86
36000508--36000747	62	3.9	62	96	0	426	30	10	23	35	1.89
36000508--36000747	125	1.9	124	94	0	426	30	10	23	35	1.89
36005004--36005045	20	2.1	20	86	8	59	35	4	0	59	1.19
36009028--36009128	38	2.6	40	82	7	136	24	37	15	21	1.93
36009024--36009126	40	2.7	38	83	4	136	24	36	15	23	1.93
36009068--36009308	109	2.2	107	88	3	347	24	39	13	23	1.90
36009353--36009402	2	25.0	2	95	0	91	50	2	0	48	1.12
36012506--36012575	27	2.7	26	80	8	88	28	11	14	45	1.79
36015531--36015953	216	2.0	216	97	0	792	32	17	20	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36016068--36016874	72	11.2	72	88	1	961	39	16	20	23	1.92
36028514--36028563	18	2.8	19	87	6	61	26	10	20	44	1.82
36028810--36028848	9	4.3	9	90	0	60	28	10	20	41	1.85
36028810--36028848	18	2.2	18	100	0	78	28	10	20	41	1.85
36028832--36028901	31	2.2	31	85	7	88	21	14	24	40	1.90
36029292--36029340	19	2.7	18	80	3	53	51	0	4	44	1.20
36030358--36030416	13	4.8	12	76	17	59	79	0	18	1	0.81
36030361--36030398	11	3.5	11	82	7	51	84	0	15	0	0.63
36030359--36030417	17	3.4	17	71	17	50	81	0	16	1	0.78
36030362--36030417	20	2.8	20	83	5	60	80	0	17	1	0.80
36031237--36031405	60	2.9	60	82	2	191	25	17	30	26	1.98
36032594--36032831	72	3.3	72	88	0	350	39	15	21	23	1.91
36033529--36033584	24	2.4	24	96	3	105	32	14	23	30	1.94
36035924--36036574	216	3.0	216	93	0	1086	32	18	18	30	1.95
36036686--36036828	72	2.0	72	87	0	205	37	13	24	24	1.92
36036666--36037131	162	3.0	161	87	7	632	37	14	24	24	1.92
36036848--36037149	72	4.2	72	89	1	444	35	14	25	24	1.94
36043286--36043318	13	2.4	14	85	10	50	72	3	12	12	1.23
36045410--36045612	101	2.0	100	87	2	291	25	33	8	33	1.86
36045739--36045797	24	2.5	24	94	0	100	8	23	47	20	1.77
36045756--36045796	12	3.4	12	80	12	57	7	21	51	19	1.71
36045756--36045796	18	2.3	18	86	0	64	7	21	51	19	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36045756--36045798	6	7.2	6	86	0	50	6	25	48	18	1.73
36045756--36045809	18	3.0	18	83	0	54	11	24	46	18	1.81
36045755--36045804	24	2.1	24	92	0	82	12	24	46	18	1.82
36047042--36047076	2	17.5	2	93	0	61	45	0	0	54	0.99
36047098--36047130	14	2.4	14	94	0	57	60	0	0	39	0.97
36067451--36067531	38	2.1	38	93	0	135	18	11	16	54	1.70
36091061--36091114	15	3.6	15	89	0	90	31	16	24	27	1.96
36093689--36093723	18	1.9	18	94	0	61	14	28	2	54	1.54
36093710--36093777	30	2.3	30	92	0	109	13	30	5	50	1.65
36101743--36101821	18	4.3	19	72	24	71	63	0	36	0	0.95
36101754--36101806	16	3.6	15	77	10	56	60	0	39	0	0.97
36102017--36102064	21	2.4	21	86	6	64	72	0	22	4	1.01
36102108--36102153	23	2.0	23	91	0	74	45	19	28	6	1.75
36102720--36102962	58	4.1	58	86	1	288	26	16	32	24	1.96
36122968--36123005	2	19.5	2	94	5	69	52	0	0	47	1.00
36128591--36130294	851	2.0	852	99	0	3367	34	15	15	34	1.89
36132206--36132415	88	2.4	91	86	6	288	27	20	10	41	1.85
36134480--36134536	24	2.3	26	82	11	66	54	5	0	40	1.23
36141138--36141186	24	2.0	24	88	0	71	30	12	14	42	1.82
36148923--36148972	24	2.0	25	88	11	77	26	18	14	42	1.87
36149762--36149809	15	3.4	15	73	26	59	37	18	8	35	1.81
36149760--36149814	27	2.0	27	100	0	110	32	21	7	38	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36156857--36156933	31	2.5	31	85	4	102	25	20	7	45	1.78
36158459--36158558	35	2.8	36	80	3	130	34	24	7	35	1.82
36174778--36174806	12	2.3	13	94	5	51	20	79	0	0	0.74
36189717--36189779	28	2.2	28	100	0	126	41	22	12	23	1.88
36197184--36197213	15	1.9	15	93	6	51	76	0	0	23	0.78
36199170--36199203	14	2.3	15	90	5	52	55	5	8	29	1.54
36201580--36201615	15	2.5	15	90	4	56	52	0	0	47	1.00
36216161--36216202	21	2.0	22	90	4	68	52	9	9	28	1.65
36228354--36228410	30	1.9	30	92	0	96	43	21	21	14	1.87
36234215--36234281	27	2.5	28	72	15	70	37	4	1	56	1.29

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