genome.fa.s4.2.7.7.80.10.50.1000.50.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:  31929104

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   

This is table  50  of  82  ( 9773 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)
18351560--18351586	4	6.8	4	100	0	54	22	0	0	77	0.76
18353113--18353137	13	1.9	13	100	0	50	52	0	0	48	1.00
18354255--18354295	19	2.2	19	90	0	64	36	14	7	41	1.74
18356555--18356604	8	6.2	8	88	6	66	42	0	10	48	1.37
18356552--18356595	12	3.7	12	90	0	70	40	0	9	50	1.34
18356559--18356595	2	18.5	2	88	0	56	43	0	5	51	1.24
18357380--18357432	15	3.4	15	80	15	63	41	3	9	45	1.54
18357380--18357416	19	1.9	19	88	0	56	43	2	5	48	1.40
18358472--18358505	2	17.0	2	100	0	68	0	50	0	50	1.00
18359131--18359156	2	13.0	2	100	0	52	0	50	0	50	1.00
18362206--18362481	138	2.0	138	96	0	507	28	16	15	39	1.89
18363299--18363333	16	2.2	16	94	0	61	65	20	0	14	1.26
18363619--18363830	106	2.0	104	93	2	363	20	27	10	40	1.86
18386051--18386089	20	2.0	20	85	10	53	30	0	2	66	1.05
18386469--18386520	21	2.4	21	87	6	68	21	11	1	65	1.34
18390486--18390548	32	2.0	32	100	0	126	57	15	3	23	1.53
18391182--18391271	35	2.6	35	87	1	128	45	17	15	21	1.85
18391498--18391571	29	2.6	29	84	0	103	18	28	4	48	1.66
18391802--18391838	18	2.1	17	90	5	56	16	18	0	64	1.29
18392854--18393111	50	5.1	50	68	14	141	21	19	15	43	1.88
18392839--18393111	102	2.7	102	81	0	296	21	20	15	42	1.88
18393887--18394050	50	3.2	50	68	13	136	21	19	14	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18393872--18394150	102	2.7	102	79	6	323	22	18	15	43	1.88
18394225--18394276	26	2.0	27	84	3	70	32	15	15	36	1.89
18395061--18395098	19	2.0	19	89	0	58	31	0	26	42	1.56
18397213--18397244	11	2.9	11	100	0	64	34	18	28	18	1.95
18400454--18400510	8	5.9	10	82	14	50	75	3	1	19	1.04
18400458--18400510	27	1.9	28	85	11	74	77	3	1	16	1.01
18401170--18401218	2	25.5	2	83	8	57	53	2	0	44	1.12
18401170--18401218	23	2.1	23	88	0	71	53	2	0	44	1.12
18401184--18401217	17	2.0	17	94	0	59	47	2	0	50	1.16
18401463--18401592	65	2.0	65	96	1	244	50	6	8	34	1.58
18401549--18401682	41	3.2	41	75	6	153	53	8	7	30	1.58
18402062--18402195	41	3.2	41	76	6	162	53	7	7	31	1.56
18402086--18402212	42	3.0	41	71	7	130	56	8	7	27	1.55
18401510--18402523	513	2.0	509	96	1	1852	43	12	12	31	1.78
18402493--18402608	35	3.3	35	84	2	144	47	18	14	19	1.83
18402854--18402929	29	2.6	29	85	0	98	17	26	6	50	1.70
18405028--18405065	20	1.9	20	88	0	58	31	2	13	52	1.54
18405070--18405116	20	2.2	21	77	11	51	48	8	19	23	1.75
18408684--18408742	32	1.9	30	89	6	91	50	3	27	18	1.62
18408684--18408742	30	1.9	32	86	6	86	50	3	27	18	1.62
18410203--18410261	6	10.5	6	87	10	63	81	0	18	0	0.69
18410857--18410898	18	2.3	19	84	8	61	38	0	59	2	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18420997--18421027	2	15.5	2	100	0	62	51	0	0	48	1.00
18421491--18421517	11	2.5	11	100	0	54	92	0	7	0	0.38
18422272--18422301	15	1.9	16	93	6	53	66	3	6	23	1.30
18426765--18426801	2	18.5	2	94	0	65	48	2	0	48	1.15
18433209--18433248	13	3.2	12	83	13	53	42	7	2	47	1.45
18435186--18435223	16	2.4	16	86	4	51	36	2	15	44	1.61
18446169--18446217	2	24.5	2	100	0	98	51	0	0	48	1.00
18446422--18446818	59	6.7	59	89	2	555	36	19	13	31	1.90
18449822--18450689	448	1.9	448	93	0	1475	27	19	15	37	1.92
18457066--18457112	14	3.4	14	88	11	78	6	40	0	53	1.27
18457153--18457188	17	2.1	18	89	5	56	2	22	0	75	0.94
18458040--18458478	217	2.0	217	94	0	779	42	10	20	26	1.84
18462116--18462168	18	2.8	19	77	11	56	69	1	3	24	1.15
18464614--18464896	66	4.3	66	98	0	539	13	52	6	28	1.63
18464614--18464896	33	8.6	33	87	0	406	13	52	6	28	1.63
18464878--18465124	36	6.6	38	88	4	308	15	47	9	27	1.77
18464614--18464932	66	4.8	64	94	1	395	14	51	6	27	1.66
18464614--18464932	132	2.4	130	92	2	449	14	51	6	27	1.66
18464875--18465124	114	2.2	111	92	2	410	15	47	9	27	1.77
18464875--18465126	75	3.4	75	86	6	357	15	47	9	27	1.76
18465177--18465206	3	10.0	3	92	0	51	33	63	0	3	1.11
18470015--18470099	36	2.2	39	84	12	106	24	5	0	69	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18471981--18472022	17	2.4	18	76	15	52	16	7	2	73	1.15
18471974--18472022	21	2.2	21	82	17	55	14	8	2	75	1.12
18471984--18472040	24	2.4	24	82	8	64	17	5	5	71	1.23
18472212--18472290	38	2.1	38	88	4	117	43	21	13	21	1.87
18472267--18472315	22	2.2	23	81	7	64	48	20	2	28	1.60
18472274--18472315	22	1.9	22	90	0	66	52	21	2	23	1.59
18472236--18472353	58	2.0	58	85	6	157	44	20	11	24	1.84
18472293--18472666	38	9.9	38	85	3	387	42	18	16	22	1.88
18484473--18484518	17	2.5	19	83	16	62	23	0	0	76	0.79
18485687--18485930	82	3.1	78	80	7	294	17	43	15	24	1.87
18485822--18485856	14	2.6	14	91	8	56	0	51	2	45	1.16
18486281--18486314	15	2.4	14	90	5	50	8	8	0	82	0.85
18487713--18487819	35	3.3	34	71	22	104	23	19	19	37	1.94
18488106--18488271	79	2.1	80	82	7	196	37	10	9	42	1.72
18493824--18493854	4	8.0	4	92	7	55	0	22	0	77	0.77
18494648--18494695	2	24.0	2	100	0	96	50	0	0	50	1.00
18495239--18495267	2	14.5	2	100	0	58	51	0	0	48	1.00
18496475--18496502	2	14.0	2	100	0	56	50	0	0	50	1.00
18499395--18499444	17	2.9	17	85	8	57	56	2	36	6	1.36
18503852--18503922	30	2.4	30	85	0	88	50	5	8	35	1.56
18509555--18509634	39	2.1	39	97	0	151	15	22	13	48	1.79
18520313--18520384	29	2.4	29	88	2	99	37	11	11	40	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18520465--18520569	45	2.3	45	85	3	131	26	20	18	34	1.96
18520360--18520533	77	2.2	79	81	8	201	29	14	14	40	1.86
18520495--18520716	69	3.2	68	85	2	266	26	18	18	36	1.94
18526127--18526201	25	3.0	25	78	9	73	29	0	5	65	1.15
18526159--18526195	19	1.9	19	89	10	58	32	0	2	64	1.07
18527127--18527164	13	2.9	13	88	0	58	57	0	0	42	0.98
18527834--18527872	16	2.6	15	88	11	62	48	0	0	51	1.00
18527827--18527935	57	1.9	56	85	10	152	43	0	0	55	1.05
18529575--18529626	19	2.8	18	77	16	52	42	0	1	55	1.10
18530977--18531008	3	10.7	3	100	0	64	68	0	31	0	0.90
18550886--18550910	4	6.2	4	100	0	50	24	0	24	52	1.48
18553960--18554022	2	32.0	2	89	9	94	46	1	0	50	1.11
18554514--18554552	20	2.0	20	89	0	60	38	12	5	43	1.65
18561103--18561136	3	11.3	3	100	0	68	67	0	0	32	0.91
18574205--18574243	12	3.2	12	85	0	51	41	2	30	25	1.69
18579219--18579317	50	2.0	48	96	3	180	46	4	23	25	1.69
18581160--18581227	34	2.0	34	100	0	136	23	17	14	44	1.86
18581489--18581518	14	2.1	15	93	6	53	30	13	0	56	1.37
18602183--18602271	44	2.0	44	95	0	160	50	12	7	29	1.68
18610276--18610338	34	1.9	34	84	12	87	52	1	3	42	1.27
18610408--18610452	23	2.0	23	82	8	56	42	2	2	53	1.25
18617702--18617897	78	2.5	78	84	2	250	33	16	12	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18620585--18620621	19	1.9	19	89	10	58	64	0	18	16	1.29
18620880--18620962	41	2.0	42	85	2	114	36	15	10	37	1.83
18622353--18622405	24	2.1	25	86	6	72	11	13	0	75	1.05
18622387--18622421	16	2.2	16	89	0	52	14	14	0	71	1.15
18647730--18647772	19	2.1	20	83	16	61	4	9	9	76	1.14
18648125--18648154	2	15.0	2	100	0	60	50	0	0	50	1.00
18648226--18648257	2	16.0	2	100	0	64	50	0	0	50	1.00
18649846--18649873	2	14.0	2	100	0	56	50	0	0	50	1.00
18650505--18650534	15	2.0	15	93	0	51	36	6	10	46	1.64
18650477--18650607	69	1.9	69	96	0	244	43	4	10	41	1.60

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