genome.fa.s6.2.7.7.80.10.50.1000.1.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  1  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)
2--119	7	15.7	7	89	5	110	38	57	0	3	1.15
26--110	8	10.8	8	89	10	131	36	63	0	0	0.95
26--110	17	5.4	16	93	6	131	36	63	0	0	0.95
112--170	6	10.3	6	96	3	97	50	32	0	16	1.46
7399--7423	1	25.0	1	100	0	50	100	0	0	0	0.00
7424--7813	7	59.1	7	84	9	393	40	46	0	12	1.42
7421--7813	13	29.8	13	79	11	299	41	46	0	12	1.42
7809--7833	12	2.1	12	100	0	50	68	32	0	0	0.90
7768--7840	18	4.1	18	92	5	89	57	32	0	9	1.31
7853--7978	62	2.0	61	87	4	182	17	37	19	25	1.93
14804--15258	7	65.7	7	85	5	399	38	44	2	13	1.59
19933--19964	15	2.1	15	100	0	64	31	6	6	56	1.49
20203--20659	7	65.3	7	87	6	478	41	50	0	8	1.32
36966--37021	7	8.1	7	90	4	78	32	51	0	16	1.44
36966--37039	13	5.5	13	84	10	78	32	47	0	20	1.50
37014--37101	6	14.3	6	90	9	142	32	35	0	31	1.58
44422--44825	7	58.3	7	80	12	399	39	46	0	13	1.43
44450--44480	10	3.0	10	90	9	53	61	29	0	9	1.28
44450--44480	11	2.9	11	95	4	55	61	29	0	9	1.28
45073--45205	7	19.4	7	90	6	166	39	49	0	11	1.39
45206--45232	1	27.0	1	100	0	54	100	0	0	0	0.00
56776--57294	7	75.1	7	80	12	513	40	46	0	13	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56804--56834	10	3.0	10	90	9	53	61	29	0	9	1.28
56804--56834	11	2.9	11	95	4	55	61	29	0	9	1.28
73268--73400	35	3.9	34	69	6	90	31	23	13	31	1.93
73275--73410	67	2.0	67	88	0	200	35	23	13	27	1.92
73802--74008	73	2.8	73	85	0	288	22	15	13	47	1.81
78096--78184	2	44.0	2	88	10	128	46	2	1	49	1.21
80976--81088	59	1.9	59	85	0	154	35	3	15	46	1.63
92763--92799	20	2.0	19	85	15	51	37	16	10	35	1.83
92834--92890	9	6.3	9	83	0	60	40	15	10	33	1.82
92834--92890	18	3.2	18	89	0	87	40	15	10	33	1.82
97193--97249	28	2.1	28	86	3	80	29	17	15	36	1.91
102124--102183	30	2.1	29	81	6	68	31	8	21	38	1.83
109780--109804	11	2.3	11	100	0	50	32	8	44	16	1.76
110793--110831	20	2.0	20	89	0	60	61	2	12	23	1.43
119966--119994	9	3.0	10	90	10	51	79	0	0	20	0.74
133393--133481	35	2.5	35	85	7	110	48	13	12	25	1.77
133425--133493	35	2.0	35	85	5	95	49	18	10	21	1.77
144768--144827	24	2.5	24	97	2	111	41	21	11	25	1.87
156300--156334	9	3.9	9	92	0	52	17	42	2	37	1.64
159899--159928	2	15.0	2	100	0	60	50	0	0	50	1.00
160024--160076	2	26.5	2	100	0	106	49	0	0	50	1.00
173755--173869	49	2.3	49	81	1	131	31	13	18	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
173922--174132	48	4.4	47	72	16	155	19	13	20	46	1.83
173922--174132	96	2.2	97	83	8	254	19	13	20	46	1.83
175952--176064	58	1.9	58	87	0	163	30	22	11	36	1.89
175990--176031	21	2.0	22	85	4	59	26	26	11	35	1.91
176471--176532	29	2.2	29	85	2	81	16	14	14	54	1.71
181304--181347	21	2.1	21	100	0	88	38	11	13	36	1.81
199009--199107	37	2.7	37	80	3	119	23	17	24	35	1.95
212779--212906	66	1.9	66	92	3	213	42	11	13	32	1.80
219814--219838	2	12.5	2	100	0	50	0	0	52	48	1.00
219838--219865	2	14.0	2	100	0	56	50	0	50	0	1.00
219889--219913	2	12.5	2	100	0	50	0	0	52	48	1.00
219913--219942	2	15.0	2	100	0	60	50	0	50	0	1.00
245708--245763	25	2.3	24	81	6	67	28	10	16	44	1.80
248158--248186	3	9.7	3	100	0	58	65	0	0	34	0.93
248774--248852	21	4.0	20	74	11	65	41	0	54	3	1.18
248821--248874	6	8.5	6	86	8	54	42	0	57	0	0.98
248798--248845	13	3.6	13	83	11	62	45	0	54	0	0.99
248798--248859	21	3.0	21	81	11	76	43	0	56	0	0.99
250568--250594	3	9.0	3	100	0	54	0	33	0	66	0.92
254097--254144	6	7.7	6	95	2	78	2	64	0	33	1.05
258456--258493	2	19.0	2	100	0	76	50	0	0	50	1.00
265529--265706	87	2.1	86	93	4	306	41	14	16	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
273154--273193	21	2.0	20	85	5	53	0	32	7	60	1.25
286338--286435	37	2.6	37	80	0	97	35	7	13	43	1.71
288404--288429	10	2.6	10	100	0	52	34	26	0	38	1.57
303232--303269	2	19.0	2	88	0	58	55	0	0	44	0.99
304514--304547	15	2.2	16	89	5	52	29	0	2	67	1.05
304984--306373	250	5.5	248	78	6	1254	32	11	8	48	1.69
305415--305444	16	1.9	16	93	6	53	20	3	0	76	0.92
304984--306336	503	2.7	500	82	4	1519	32	11	8	47	1.69
322440--322472	11	2.8	12	82	17	50	51	0	6	42	1.26
323122--323167	23	2.0	23	83	8	58	17	30	8	43	1.79
323533--323628	29	3.3	29	81	9	108	38	8	13	39	1.75
323814--323871	24	2.4	24	85	0	80	20	17	24	37	1.93
323618--323847	45	5.1	45	87	0	325	29	20	16	33	1.95
323735--324050	158	2.0	157	94	0	560	28	16	18	36	1.92
323893--323999	45	2.4	46	82	4	146	28	21	15	33	1.94
323975--324028	23	2.3	24	77	3	65	20	12	25	40	1.88
327272--327412	40	3.5	41	80	4	144	21	1	17	59	1.45
327446--327491	15	3.0	15	87	3	56	26	0	4	69	1.07
330106--330145	21	2.0	21	90	5	64	60	5	22	12	1.52
334452--334722	151	1.8	147	84	8	372	50	7	8	33	1.60
334785--334916	66	2.0	66	94	1	230	49	7	9	33	1.64
347616--347661	2	22.5	2	95	4	83	50	0	2	47	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
348848--348894	15	2.8	17	84	12	53	53	0	4	42	1.20
348852--348894	17	2.4	17	80	7	50	55	0	4	39	1.20
352439--352631	97	2.0	97	94	0	341	35	15	15	33	1.89
374671--374716	2	23.5	2	95	4	85	47	0	0	52	1.00
375281--375318	3	12.7	3	94	0	67	65	0	2	31	1.06
379069--379098	2	15.0	2	100	0	60	50	0	0	50	1.00
394805--394867	21	3.0	21	85	0	90	22	17	26	33	1.96
402598--402660	2	32.5	2	84	6	85	46	3	0	50	1.17
402986--403031	23	2.0	23	86	0	65	41	8	10	39	1.71
406489--406534	23	2.0	23	91	0	74	39	10	10	39	1.76
432917--432951	16	2.2	16	89	0	52	54	0	2	42	1.15
434931--434991	31	2.0	31	93	0	104	16	22	21	39	1.92
442695--442723	15	1.9	15	100	0	58	55	17	13	13	1.70
449588--449958	141	2.7	140	80	6	396	38	9	11	40	1.74
453956--454008	25	2.1	25	89	6	81	33	0	0	66	0.92
453997--454031	15	2.3	15	90	0	52	42	0	0	57	0.99
454004--454033	15	2.0	15	100	0	60	40	0	0	60	0.97
454072--454111	21	1.9	21	89	0	62	45	12	5	37	1.64
481044--481073	2	15.0	2	92	0	51	46	0	3	50	1.18
488044--488080	2	18.5	2	100	0	74	0	48	0	51	1.00
489590--489626	2	18.5	2	89	10	58	48	2	48	0	1.15
502226--502256	15	2.1	15	93	0	53	41	9	32	16	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504838--504911	37	2.0	38	82	12	91	21	0	6	71	1.09
504838--504896	19	3.1	18	80	9	64	22	0	8	69	1.15
505979--506005	14	1.9	14	100	0	54	29	0	11	59	1.32
509941--512001	251	8.2	251	85	4	2421	48	7	10	33	1.66
514483--514548	28	2.3	29	84	2	80	43	19	7	28	1.78
527183--527668	96	5.1	96	87	1	679	46	2	26	23	1.66
533627--533812	68	2.8	66	72	8	173	17	22	36	24	1.95
539398--541966	252	10.3	249	83	5	2868	47	7	12	32	1.69
540732--540771	21	2.0	21	90	5	64	62	2	0	35	1.09
539399--541941	995	2.6	979	84	5	3272	47	7	12	32	1.69

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