genome.fa.s6.2.7.7.80.10.50.1000.13.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: chr6
Parameters: 2 7 7 80 10 50 1000
Length:  26303135

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   

This is table  13  of  66  ( 7821 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)
4208115--4208156	2	22.5	2	81	13	54	52	0	2	45	1.13
4213976--4214018	20	2.1	21	86	4	61	37	6	6	48	1.57
4227243--4227306	29	2.2	29	85	0	92	45	10	25	18	1.82
4227255--4227306	17	3.4	17	72	25	60	46	11	25	17	1.81
4227589--4227705	35	3.3	35	92	0	180	20	21	16	41	1.90
4227564--4227716	70	2.2	70	79	2	164	20	19	15	44	1.87
4228016--4228147	41	3.2	41	75	6	133	32	4	6	56	1.46
4228104--4228232	66	2.0	66	93	3	224	36	4	6	51	1.50
4229214--4229298	35	2.4	35	82	0	98	21	21	28	29	1.98
4232552--4232606	26	2.1	27	86	3	76	40	16	14	29	1.88
4233780--4233818	18	2.2	17	86	4	51	58	0	28	12	1.34
4234066--4234115	17	3.2	17	68	26	56	44	12	30	14	1.81
4234053--4234126	29	2.6	29	95	0	130	43	9	29	17	1.81
4234369--4234486	35	3.5	34	75	11	100	21	16	16	45	1.85
4234405--4234461	30	1.9	30	92	0	96	19	15	22	42	1.89
4238916--4238940	13	1.9	13	100	0	50	60	0	0	40	0.97
4239006--4239050	16	2.9	16	78	15	58	13	0	15	71	1.15
4240261--4240298	12	3.2	12	81	7	51	63	0	5	31	1.17
4240968--4241070	34	3.2	34	67	13	108	45	2	3	47	1.36
4240961--4241058	29	3.2	29	64	18	72	44	4	5	45	1.44
4245428--4245526	49	2.0	49	100	0	198	29	20	14	36	1.91
4246980--4247028	17	2.8	17	81	12	55	61	10	0	28	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4258312--4258341	3	10.0	3	100	0	60	66	0	0	33	0.92
4259290--4259349	30	2.0	30	100	0	120	40	6	3	50	1.45
4263371--4263442	31	2.4	30	83	2	81	40	0	1	58	1.07
4264381--4264714	88	3.7	88	85	2	443	24	37	15	22	1.93
4268898--4268970	31	2.4	31	75	11	87	27	1	6	64	1.27
4278836--4278994	47	3.3	46	77	15	164	58	1	1	38	1.14
4278879--4278942	14	4.9	13	80	19	80	62	0	0	37	0.95
4278879--4278955	40	1.9	39	92	2	127	59	0	0	40	0.97
4278894--4278969	34	2.2	34	83	6	91	60	0	0	39	0.97
4279059--4279120	23	2.6	23	84	5	70	56	4	0	38	1.21
4280430--4280469	2	20.0	2	84	0	53	42	2	0	55	1.13
4285623--4285693	35	2.0	35	83	0	88	30	9	25	33	1.88
4286036--4286079	21	2.0	24	86	13	67	59	9	13	18	1.60
4286653--4286691	18	2.2	18	90	0	60	41	15	10	33	1.81
4286843--4286913	33	2.1	34	82	12	85	45	1	7	46	1.39
4286930--4286975	18	2.6	18	85	0	56	52	19	6	21	1.69
4287524--4287579	29	1.9	29	85	0	76	67	5	0	26	1.11
4287524--4287562	15	2.7	15	84	4	53	69	2	0	28	1.02
4287661--4287685	13	1.9	13	100	0	50	32	24	0	44	1.54
4287773--4287797	13	1.9	13	100	0	50	32	24	0	44	1.54
4288431--4288476	23	2.0	23	84	12	60	34	4	13	47	1.62
4289198--4289241	18	2.4	18	80	3	52	9	4	13	72	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4290853--4290955	38	2.7	38	83	3	100	32	17	17	33	1.93
4290872--4290956	38	2.2	38	87	0	116	30	15	18	35	1.92
4291110--4291140	16	1.9	16	100	0	62	38	25	0	35	1.56
4314617--4314683	34	2.0	34	100	0	134	37	32	8	20	1.84
4319759--4319790	2	16.0	2	100	0	64	50	0	50	0	1.00
4320894--4320928	17	2.1	17	88	0	52	31	5	0	62	1.18
4322161--4322241	25	3.1	25	77	10	65	56	1	1	40	1.15
4324539--4324614	30	2.5	30	83	8	84	30	6	6	56	1.50
4333076--4333240	62	2.6	60	75	11	152	40	20	12	26	1.88
4334852--4334908	22	2.8	20	84	10	62	22	0	15	61	1.34
4349590--4349743	64	2.4	64	85	0	200	34	22	14	29	1.93
4349703--4349763	27	2.3	27	88	0	86	36	22	14	26	1.93
4350302--4350418	58	2.0	58	94	0	207	28	11	22	38	1.88
4359154--4359188	18	2.0	17	94	5	61	42	0	0	57	0.99
4367719--4367744	12	2.2	12	100	0	52	15	30	11	42	1.82
4370748--4370782	5	7.0	5	90	0	52	40	20	0	40	1.52
4378542--4378582	15	2.5	17	75	25	52	46	0	9	43	1.36
4380621--4380709	43	2.1	43	93	0	151	23	16	15	43	1.87
4385521--4385553	16	2.1	16	100	0	66	51	6	18	24	1.68
4400730--4400767	15	2.5	15	83	12	51	63	10	13	13	1.53
4404377--4404503	62	2.0	64	86	6	179	38	16	11	33	1.85
4406861--4406946	41	2.1	41	93	0	145	26	9	6	56	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4408255--4408380	63	2.0	63	95	0	225	26	19	23	31	1.98
4415241--4415277	2	19.0	2	94	5	67	51	0	0	48	1.00
4417483--4417525	16	2.3	21	74	25	51	37	4	0	58	1.19
4417496--4417596	52	1.9	54	85	4	143	31	11	3	52	1.56
4417590--4417644	20	2.7	21	91	5	87	25	14	0	60	1.35
4423956--4423997	21	2.0	21	95	0	75	28	2	28	40	1.69
4428955--4429011	21	2.8	21	82	15	66	70	0	8	21	1.14
4428939--4429005	35	1.9	35	84	6	91	65	0	7	26	1.19
4439679--4439724	23	2.0	23	86	0	65	50	13	23	13	1.76
4439948--4439988	23	1.9	22	85	14	59	46	29	9	14	1.77
4440068--4440113	23	2.0	23	87	4	67	39	28	19	13	1.89
4439949--4440160	115	1.9	114	82	1	271	39	25	19	15	1.91
4446070--4446173	38	2.7	38	89	0	154	25	37	14	23	1.92
4447018--4447067	19	2.6	19	75	12	57	42	6	38	14	1.70
4452920--4452953	2	17.5	2	93	6	61	50	0	50	0	1.00
4454165--4454215	20	2.5	20	80	0	66	27	3	33	35	1.75
4454431--4454462	15	2.1	15	100	0	64	31	12	18	37	1.88
4454459--4454502	22	2.0	23	86	4	63	18	13	27	40	1.88
4454250--4454503	102	2.5	102	87	3	350	24	11	25	37	1.89
4455733--4456262	109	4.7	111	80	9	599	17	10	27	44	1.82
4455733--4456262	229	2.4	220	85	6	692	17	10	27	44	1.82
4456198--4456328	66	2.0	65	96	0	235	13	7	26	51	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4456088--4456439	177	2.0	175	87	1	499	15	10	26	46	1.78
4456264--4456610	117	3.0	116	87	3	472	17	11	25	44	1.82
4456264--4456653	117	3.4	116	83	5	380	17	11	25	45	1.82
4462124--4462282	70	2.3	70	92	2	257	34	23	10	31	1.89
4463209--4463247	21	1.9	21	89	5	62	43	7	35	12	1.72
4463879--4463931	23	2.3	23	87	6	72	30	26	24	18	1.98
4464624--4464686	32	2.0	32	100	0	126	57	3	12	26	1.51
4464624--4464674	16	3.2	16	69	20	52	58	3	11	25	1.50
4464656--4464721	26	2.8	23	79	18	73	57	6	13	22	1.58
4464663--4464714	26	2.0	26	96	0	95	57	7	13	21	1.61
4466293--4466341	24	2.2	22	82	10	55	28	28	10	32	1.90
4466465--4466516	24	2.2	24	82	0	59	36	9	42	11	1.74
4480070--4480131	15	4.3	15	72	12	58	51	0	0	48	1.00
4479998--4480131	42	3.2	40	73	16	114	50	1	0	47	1.15
4480090--4480147	27	2.2	26	84	12	73	55	0	3	41	1.17
4480749--4480811	22	2.5	26	82	12	80	44	1	1	52	1.20
4482070--4482163	47	2.0	47	93	0	161	35	23	19	22	1.96
4486506--4486553	2	24.0	2	91	0	78	47	4	0	47	1.21
4494197--4494290	45	2.1	45	83	0	116	43	4	6	45	1.49
4496038--4496266	126	1.8	126	87	0	341	34	29	14	21	1.93
4505627--4505677	22	2.3	22	80	6	59	35	17	13	33	1.89
4507467--4507510	23	1.9	23	85	0	61	36	6	11	45	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4510254--4510295	12	3.6	12	83	3	59	2	23	0	73	0.94
4515398--4515436	9	4.2	9	83	6	51	0	17	0	82	0.68
4515396--4515436	14	3.0	14	85	3	57	0	17	0	82	0.66
4519454--4519601	39	4.0	39	82	9	166	25	12	34	27	1.92
4533641--4533782	69	2.1	69	85	2	187	29	34	11	23	1.91
4533641--4533882	36	6.7	36	78	9	185	27	38	11	21	1.89
4540167--4540315	70	2.2	70	80	4	169	42	11	7	38	1.69
4540153--4540308	35	4.5	35	83	2	147	41	10	7	40	1.67
4547247--4547289	2	21.5	2	100	0	86	0	0	48	51	1.00
4559708--4559742	12	2.9	12	91	0	52	28	42	8	20	1.81

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