genome.fa.s6.2.7.7.80.10.50.1000.83.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:  35726063

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   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  83  of  109  ( 13028 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)
26638758--26638821	32	2.0	32	96	0	119	18	10	43	26	1.83
26644398--26644483	43	2.0	41	88	4	127	48	11	3	36	1.57
26645213--26645281	20	3.5	20	69	16	56	28	10	2	57	1.46
26647079--26647264	42	4.4	42	89	6	252	32	22	21	23	1.98
26647698--26647745	21	2.3	21	88	0	69	2	43	20	33	1.64
26659211--26659371	74	2.2	74	84	4	200	31	23	15	29	1.95
26660882--26660938	3	20.3	3	81	13	68	66	0	33	0	0.92
26660882--26660938	29	2.0	28	83	6	71	66	0	33	0	0.92
26661631--26661673	20	2.2	20	91	0	68	30	25	18	25	1.98
26663417--26663471	12	4.7	12	77	11	60	40	5	0	54	1.23
26663813--26663862	24	2.0	24	88	7	73	32	12	0	56	1.36
26663923--26663995	6	12.0	6	95	2	128	49	15	0	35	1.44
26663923--26663993	37	1.9	37	97	0	133	49	14	0	36	1.43
26665669--26665722	15	3.3	15	74	18	54	46	0	1	51	1.11
26671315--26671363	16	3.1	16	77	14	57	42	8	0	48	1.32
26671312--26671360	24	2.0	24	85	14	66	42	6	0	51	1.27
26681500--26681542	19	2.2	20	84	12	63	32	18	0	48	1.48
26681732--26681968	45	5.3	45	93	0	366	39	18	20	21	1.92
26683131--26683157	13	2.1	13	100	0	54	55	7	7	29	1.55
26684056--26684124	26	2.6	26	88	2	102	26	23	13	37	1.91
26688038--26688094	28	2.0	28	86	6	80	47	14	24	14	1.80
26690963--26691133	86	2.0	86	91	0	279	35	17	11	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26701578--26701620	21	2.0	22	86	4	61	55	4	2	37	1.33
26710427--26710466	19	2.0	19	85	9	53	42	5	12	40	1.64
26716845--26717031	93	2.0	94	98	1	367	35	7	9	47	1.65
26722546--26722611	30	2.2	30	83	2	80	30	10	13	45	1.77
26728636--26728661	7	3.7	7	100	0	52	57	0	0	42	0.98
26738731--26738767	3	12.3	3	100	0	74	32	0	0	67	0.91
26740032--26740057	11	2.4	11	100	0	52	23	0	15	61	1.33
26742429--26742467	20	2.0	20	94	0	69	48	0	2	48	1.15
26742554--26742619	35	1.9	34	90	6	107	46	10	7	34	1.67
26742877--26742915	6	6.5	6	90	0	60	69	25	0	5	1.09
26742870--26742915	18	2.6	18	85	0	56	69	23	2	4	1.17
26742877--26742915	12	3.2	12	92	0	69	69	25	0	5	1.09
26756271--26756343	32	2.3	32	95	2	130	38	10	17	32	1.85
26761267--26761331	32	2.0	32	90	0	103	38	10	18	32	1.85
26771998--26772067	33	2.1	33	89	0	104	38	4	4	52	1.41
26773258--26773290	3	11.0	3	93	0	57	66	3	0	30	1.06
26780681--26780708	11	2.5	11	100	0	56	89	0	10	0	0.49
26786369--26786423	23	2.4	23	84	6	67	34	1	0	63	1.05
26787085--26787121	18	2.0	19	89	5	58	45	5	0	48	1.25
26790377--26790448	18	3.9	17	72	18	56	62	4	1	31	1.23
26790360--26790449	19	4.7	18	76	17	67	64	4	1	30	1.20
26793249--26793403	50	3.1	50	75	4	127	23	26	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26797095--26797314	75	2.9	75	91	3	354	34	4	15	45	1.65
26801626--26801658	3	11.0	3	100	0	66	66	0	0	33	0.92
26802341--26802378	20	1.9	20	88	0	58	36	15	10	36	1.82
26802463--26802565	10	10.2	10	67	17	52	59	1	1	36	1.20
26802520--26802585	29	2.3	28	80	10	71	57	4	6	31	1.43
26802844--26802908	22	3.0	22	75	11	62	24	7	1	66	1.27
26802814--26802930	20	5.7	19	70	18	67	28	5	1	64	1.24
26802892--26802931	10	3.9	10	80	6	53	35	2	0	62	1.09
26802813--26802934	9	12.1	9	68	17	55	30	4	1	63	1.25
26808639--26808784	78	1.9	78	81	8	181	31	15	12	40	1.85
26808741--26808836	49	2.0	49	87	4	140	25	21	11	41	1.86
26813878--26813964	25	3.5	25	90	0	138	25	12	22	39	1.90
26813878--26813983	25	4.2	25	84	7	117	27	13	21	37	1.91
26813878--26813983	50	2.1	50	84	3	133	27	13	21	37	1.91
26819852--26819906	14	3.9	14	76	4	56	45	38	0	16	1.47
26819852--26819916	22	3.0	21	88	2	85	46	38	0	15	1.46
26820329--26820982	114	5.8	114	82	5	693	25	23	19	31	1.98
26820324--26820982	227	2.9	225	83	4	754	25	23	19	31	1.98
26821057--26821148	40	2.3	38	78	10	103	17	20	25	36	1.94
26821756--26821881	44	2.9	43	83	4	155	29	34	14	22	1.93
26844608--26844650	18	2.4	18	100	0	86	13	51	23	11	1.74
26845392--26845622	72	3.2	72	83	3	268	25	24	23	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26845518--26845850	114	2.9	113	83	2	398	27	26	20	24	1.99
26845749--26845914	73	2.3	72	86	1	224	22	26	23	27	2.00
26845986--26846011	12	2.2	12	100	0	52	46	30	15	7	1.74
26852978--26853008	2	15.5	2	100	0	62	51	0	0	48	1.00
26861175--26861226	27	2.0	25	85	7	68	26	3	3	65	1.27
26862814--26862876	32	2.0	32	87	0	90	42	7	4	44	1.54
26866638--26866673	19	1.9	19	88	5	56	13	11	11	63	1.51
26872783--26872824	22	1.9	22	90	0	66	52	40	4	2	1.35
26873930--26873965	3	12.0	3	87	0	54	30	2	2	63	1.22
26873988--26874048	24	2.6	22	78	14	59	34	9	1	54	1.44
26874145--26874180	18	2.1	17	89	5	54	13	5	8	72	1.27
26874288--26874615	111	3.0	110	94	0	566	30	15	20	33	1.94
26874296--26874628	110	3.0	110	92	2	498	29	16	19	34	1.94
26877577--26877628	22	2.4	22	96	0	95	28	13	25	32	1.93
26878859--26878896	20	1.9	20	94	0	67	76	0	10	13	1.02
26878875--26878916	15	2.8	15	89	7	59	71	0	14	14	1.15
26879919--26881086	46	25.2	46	88	2	1647	27	16	27	29	1.97
26881553--26881594	22	1.9	22	90	0	66	52	40	4	2	1.35
26882632--26882673	20	2.1	20	86	0	57	33	7	2	57	1.39
26882632--26882713	24	3.6	23	73	15	64	34	13	2	50	1.55
26882647--26882713	24	2.8	24	74	14	66	32	13	1	52	1.50
26882996--26883031	18	2.1	17	89	5	54	13	5	8	72	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26883139--26883346	110	1.9	110	96	0	389	29	15	21	33	1.94
26890198--26890231	17	2.1	16	88	5	50	82	0	14	2	0.79
26892066--26892119	28	1.9	28	88	0	81	46	14	7	31	1.73
26896751--26896806	15	3.7	15	74	9	60	35	30	8	25	1.86
26897714--26897757	18	2.5	18	88	3	63	13	29	40	15	1.86
26898047--26898071	13	1.9	13	100	0	50	12	16	16	56	1.68
26902564--26902713	70	2.1	71	85	3	196	14	24	41	20	1.89
26915627--26915682	28	2.0	28	83	13	71	39	0	26	33	1.57
26916502--26916565	17	3.6	17	74	15	67	26	12	14	46	1.79
26916494--26916564	36	2.0	36	97	0	133	25	12	15	46	1.81
26916493--26916549	19	3.1	19	71	19	66	26	12	15	45	1.82
26921621--26921684	17	3.6	17	72	15	58	28	12	12	46	1.78
26921613--26921683	36	2.0	36	94	0	124	26	12	14	46	1.80
26921612--26921668	19	3.1	19	71	19	66	28	12	14	45	1.80
26921888--26921982	48	2.0	48	89	0	145	18	14	23	43	1.87
26936238--26936311	36	2.0	37	86	2	105	20	17	13	48	1.80
26939725--26939786	3	20.3	3	85	9	81	0	27	0	72	0.85
26945155--26945185	15	2.1	15	100	0	62	25	19	29	25	1.99
26954262--26954651	195	2.0	195	92	0	645	28	18	13	39	1.89
26960371--26960417	23	2.0	23	84	12	60	74	4	8	12	1.19
26960646--26960700	24	2.3	24	78	6	58	56	5	1	36	1.33
26960650--26960730	30	2.5	33	82	7	87	56	4	3	34	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26960668--26960745	26	2.8	26	72	25	70	61	3	2	32	1.27
26960771--26960796	12	2.2	12	100	0	52	84	0	0	15	0.62
26967633--26967675	22	2.0	22	100	0	86	18	6	9	65	1.44
26980050--26980091	20	2.1	20	86	0	57	66	9	0	23	1.21
26982837--26982903	22	3.0	22	77	0	71	41	16	25	16	1.88
26984236--26984301	31	2.1	31	86	5	89	25	12	33	28	1.92
26985087--26985153	23	2.9	23	95	0	116	29	29	4	35	1.77
26985517--26985578	24	2.6	24	69	19	56	64	1	14	19	1.37
26987648--26987691	20	2.2	21	88	8	65	77	2	13	6	1.07
26991035--26991100	31	2.1	31	91	0	105	24	12	34	28	1.91

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   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109