genome.fa.s7.2.7.7.80.10.50.1000.16.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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

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   

This is table  16  of  79  ( 9388 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)
5342310--5342379	34	2.1	34	100	0	140	60	2	17	20	1.49
5342632--5342683	24	2.2	24	89	0	77	55	9	1	32	1.43
5347476--5347518	20	2.0	22	86	8	63	37	6	11	44	1.68
5347784--5347865	42	2.0	42	85	0	110	24	15	10	48	1.77
5348329--5348353	6	4.2	6	100	0	50	64	0	0	36	0.94
5348715--5348743	12	2.4	12	100	0	58	27	0	0	72	0.85
5350651--5350764	57	2.0	58	96	3	212	24	15	17	42	1.88
5351358--5351536	89	2.0	89	95	0	322	24	9	26	39	1.86
5354980--5355266	154	1.9	152	90	1	457	32	7	6	53	1.55
5355401--5355782	153	2.5	152	84	6	511	32	9	7	50	1.62
5359419--5359786	125	3.0	124	85	3	515	32	16	21	30	1.95
5362979--5363008	14	2.1	15	93	6	53	16	0	26	56	1.40
5362985--5364031	22	47.0	22	71	13	557	21	0	33	44	1.56
5363004--5363094	15	5.8	15	66	19	51	17	0	36	46	1.49
5362984--5363930	21	43.8	21	70	16	428	21	0	33	44	1.55
5362984--5364031	43	24.6	43	77	11	768	21	0	33	44	1.56
5363132--5363237	15	7.4	14	70	13	63	19	0	33	47	1.50
5363201--5363398	7	28.4	7	66	23	64	23	0	31	44	1.57
5363341--5363451	57	2.0	56	85	5	152	23	0	32	44	1.54
5363340--5363419	35	2.3	36	85	14	107	22	0	32	45	1.53
5363698--5363772	30	2.6	29	87	4	98	25	0	29	45	1.54
5363727--5363939	65	3.3	64	85	4	239	19	0	34	46	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5363843--5364020	94	1.9	94	86	4	252	19	0	31	48	1.53
5363983--5364034	21	2.4	21	80	3	59	25	0	30	44	1.54
5364618--5364655	18	2.1	18	90	0	58	42	7	28	21	1.81
5375779--5376133	76	4.9	75	70	13	258	56	3	9	30	1.48
5375789--5376133	145	2.4	145	96	0	629	56	3	9	30	1.47
5375782--5376162	69	5.3	69	71	8	280	57	3	9	29	1.47
5378391--5378415	12	2.1	12	100	0	50	44	0	0	56	0.99
5384147--5384187	4	10.2	4	100	0	82	24	0	48	26	1.51
5385782--5385809	2	14.0	2	100	0	56	50	0	50	0	1.00
5387040--5387078	15	2.6	15	79	0	51	0	53	2	43	1.14
5393271--5393317	18	2.5	19	83	16	71	63	6	29	0	1.19
5393275--5393314	19	2.2	17	91	8	62	62	5	32	0	1.17
5396174--5396207	15	2.3	15	94	0	59	20	8	0	70	1.13
5401648--5401884	50	4.6	51	88	4	318	24	22	29	22	1.99
5403245--5403283	19	2.0	20	85	5	53	66	7	10	15	1.43
5403510--5403534	2	12.5	2	100	0	50	52	0	0	48	1.00
5403730--5403786	28	2.0	29	86	10	82	63	3	1	31	1.22
5408594--5408627	7	5.0	7	89	7	52	44	0	8	47	1.34
5413624--5413673	20	2.5	20	90	0	73	30	16	12	42	1.84
5416012--5416059	25	2.0	24	87	4	69	35	14	14	35	1.87
5424545--5424596	28	1.9	26	84	7	68	15	21	25	38	1.92
5427645--5427699	11	4.6	11	80	14	65	60	0	3	36	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5427641--5427686	15	3.4	15	72	27	57	63	0	4	32	1.14
5427641--5427697	25	2.3	25	96	0	105	61	0	3	35	1.13
5437096--5437133	19	2.0	20	85	15	53	47	2	5	44	1.39
5443124--5443192	33	2.1	33	91	5	113	42	37	5	14	1.70
5446524--5446560	14	2.4	16	86	13	51	62	5	0	32	1.18
5454637--5454691	29	2.0	28	92	7	94	52	10	9	27	1.66
5454635--5454696	29	2.2	29	85	8	92	50	12	12	24	1.76
5455569--5455663	26	3.4	26	68	22	68	43	2	0	54	1.12
5456537--5456844	168	1.8	169	88	0	474	48	9	4	37	1.54
5456769--5456928	79	2.0	81	97	2	306	49	7	0	43	1.31
5456884--5456933	23	2.2	22	82	10	57	56	2	0	42	1.11
5460759--5460862	38	2.9	37	84	5	133	29	17	18	34	1.94
5461225--5461266	18	2.3	18	84	8	50	40	0	21	38	1.53
5466452--5468525	156	13.2	156	85	4	2610	31	15	14	38	1.88
5467733--5467772	21	1.9	21	100	0	80	35	15	10	40	1.80
5467577--5467928	177	2.0	177	88	2	519	30	16	13	38	1.87
5466953--5468525	801	2.0	801	90	1	2481	30	15	15	38	1.89
5469603--5469665	7	9.4	7	75	6	51	58	0	3	38	1.14
5469583--5469645	27	2.2	28	91	8	110	60	0	3	36	1.13
5470474--5470506	10	3.4	10	91	4	50	90	0	3	6	0.52
5470955--5471366	156	2.6	156	87	1	583	30	15	15	38	1.88
5471247--5471503	137	1.9	137	90	1	417	32	13	15	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5471384--5472775	156	8.9	156	91	0	2144	30	15	15	38	1.88
5477306--5477330	6	4.2	6	100	0	50	52	0	0	48	1.00
5483011--5483055	18	2.5	18	79	10	56	31	4	2	62	1.27
5483301--5483337	13	2.8	14	88	8	51	75	0	0	24	0.80
5483545--5483581	13	2.8	14	88	8	51	75	0	0	24	0.80
5483290--5483778	244	2.0	245	99	0	971	43	10	14	31	1.80
5485489--5485572	3	28.7	3	78	4	91	34	4	1	59	1.26
5488062--5488108	20	2.3	20	78	10	51	51	8	25	14	1.71
5490578--5490604	10	2.7	10	100	0	54	77	11	0	11	0.99
5491587--5491620	7	5.0	7	92	7	61	70	0	14	14	1.17
5491591--5491624	13	2.7	13	95	4	61	73	0	14	11	1.10
5496309--5496892	131	4.5	131	92	0	927	31	20	23	24	1.98
5496883--5497117	44	5.3	43	75	8	177	28	21	22	26	1.99
5496882--5497138	88	2.9	88	73	7	250	28	20	24	26	1.99
5500334--5500393	14	4.2	14	70	10	50	26	1	38	33	1.67
5521685--5521777	25	3.6	25	77	5	96	38	19	23	18	1.93
5529610--5529647	20	1.9	20	88	0	58	42	10	10	36	1.74
5529680--5530113	17	24.3	17	69	13	117	45	10	11	32	1.75
5529662--5530112	18	25.3	18	69	14	256	45	10	11	31	1.75
5530901--5530949	20	2.5	20	93	0	80	0	18	0	81	0.69
5530920--5530949	12	2.6	12	94	5	53	0	13	0	86	0.57
5531045--5531112	1	68.0	1	82	0	55	0	8	4	86	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5531045--5531112	16	4.5	15	82	12	70	0	8	4	86	0.69
5531044--5531106	28	2.3	28	89	5	94	0	11	4	84	0.77
5531044--5531108	30	2.3	30	84	10	84	0	10	4	84	0.75
5531504--5531604	30	3.4	29	76	10	78	42	2	18	35	1.66
5531863--5531889	14	1.9	14	100	0	54	14	0	7	77	0.97
5531931--5532138	75	2.8	73	82	7	231	40	19	12	26	1.87
5531961--5532138	75	2.4	75	88	2	250	42	19	12	25	1.86
5532603--5532703	30	3.4	29	76	10	78	42	2	18	35	1.66
5532962--5532988	14	1.9	14	100	0	54	14	0	7	77	0.97
5533060--5533688	75	8.3	74	78	9	503	36	18	15	29	1.92
5533060--5533688	302	2.1	299	81	7	725	36	18	15	29	1.92
5533060--5533688	150	4.2	152	78	11	612	36	18	15	29	1.92
5534536--5534581	17	2.8	17	87	12	62	0	6	8	84	0.77
5544978--5545002	9	2.8	9	100	0	50	44	0	8	48	1.32
5545419--5545456	20	1.9	20	84	10	51	42	10	7	39	1.69
5545419--5545900	18	27.1	18	72	13	245	45	10	11	32	1.74
5545481--5545899	35	11.8	35	76	9	309	45	10	12	32	1.75
5545540--5545579	19	2.1	19	86	9	55	40	7	10	42	1.67
5545481--5545899	53	7.9	52	74	12	291	45	10	12	32	1.75
5545422--5545902	35	13.5	35	73	12	306	45	10	12	32	1.75
5546319--5546351	7	4.9	7	85	7	50	0	15	0	84	0.61
5546320--5546350	13	2.4	13	94	0	53	0	16	0	83	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5546309--5546352	23	1.9	23	86	9	63	0	13	2	84	0.73
5546643--5546702	4	14.8	4	76	10	59	0	25	0	75	0.81
5546643--5546702	24	2.7	22	87	7	77	0	25	0	75	0.81
5546795--5546851	23	2.4	23	82	11	71	0	15	5	78	0.91
5546798--5546851	22	2.4	23	90	3	83	0	14	5	79	0.90
5547266--5547348	30	2.8	29	81	9	78	40	3	21	33	1.71
5556569--5556667	21	4.8	20	71	15	67	17	21	14	47	1.82
5556631--5556709	41	1.9	42	87	7	117	17	21	13	46	1.83
5556570--5556723	62	2.5	63	73	4	150	17	21	14	46	1.84
5556576--5556725	42	3.6	41	77	7	124	18	22	14	44	1.86

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