genome.fa.s25.2.7.7.80.10.50.1000.44.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: Scaffold25
Parameters: 2 7 7 80 10 50 1000
Length:  9553305

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   

This is table  44  of  56  ( 6609 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)
7442489--7443203	246	2.9	246	86	1	934	24	29	15	31	1.95
7443539--7443624	32	2.6	32	83	3	100	36	32	10	20	1.87
7446736--7446981	97	2.5	97	83	0	323	29	29	10	30	1.90
7448337--7448377	22	1.9	22	95	5	75	34	9	14	41	1.79
7454895--7454943	17	3.0	15	73	21	53	69	0	0	30	0.89
7455753--7456014	88	3.0	87	86	2	353	37	9	11	41	1.73
7457312--7457357	23	1.9	25	91	8	78	34	0	4	60	1.16
7457287--7457401	57	2.0	60	86	5	164	39	0	5	54	1.29
7457405--7457443	18	2.2	18	86	4	53	41	10	5	43	1.61
7458417--7458470	26	2.1	26	92	0	90	31	12	5	50	1.64
7459858--7460023	82	2.0	82	95	0	296	27	18	14	39	1.89
7461556--7461610	25	2.2	26	83	9	69	52	0	10	36	1.37
7461568--7461659	48	1.9	48	88	0	139	52	1	18	28	1.53
7463182--7463220	3	13.0	3	100	0	78	33	0	0	66	0.92
7464297--7464513	34	6.4	34	85	2	267	25	7	26	41	1.81
7464297--7464512	102	2.1	102	90	0	335	25	7	25	41	1.81
7468922--7469140	34	6.5	34	85	2	280	25	7	26	40	1.82
7468922--7469140	102	2.2	101	89	1	339	25	7	26	40	1.82
7470818--7470852	18	1.9	18	88	0	52	48	22	5	22	1.72
7471196--7471234	14	2.8	14	84	0	51	20	10	25	43	1.83
7472001--7472043	22	2.0	22	90	0	68	41	13	11	32	1.81
7476683--7476720	20	1.9	20	100	0	76	39	5	18	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7477677--7477760	32	2.6	32	88	3	116	29	15	22	32	1.95
7477711--7477788	32	2.7	29	84	11	88	26	15	26	30	1.96
7477714--7478379	28	23.5	28	80	3	609	24	14	26	33	1.94
7479843--7480019	14	13.8	13	66	23	67	58	2	1	37	1.20
7479953--7480007	16	3.1	17	78	14	58	61	0	0	38	0.96
7481185--7481211	2	13.5	2	100	0	54	48	0	0	51	1.00
7486101--7486154	21	2.6	21	80	11	74	33	3	1	61	1.25
7486157--7486282	30	4.2	30	82	2	153	59	1	1	37	1.17
7486154--7486282	61	2.1	60	84	2	168	60	1	1	36	1.16
7489674--7489703	2	15.0	2	100	0	60	50	0	0	50	1.00
7490747--7490800	28	2.1	26	86	13	76	35	1	0	62	1.06
7492320--7492370	26	2.0	26	88	0	75	47	13	3	35	1.62
7492941--7493013	20	3.6	20	81	3	101	35	13	19	31	1.91
7492959--7493034	21	3.7	21	80	3	100	42	11	17	28	1.84
7492941--7493034	41	2.3	41	98	0	179	39	12	18	29	1.88
7493073--7493098	13	2.0	13	100	0	52	38	15	15	30	1.88
7497171--7497201	15	2.1	15	93	0	53	48	16	22	12	1.80
7499216--7499293	20	3.6	21	73	15	70	25	12	16	44	1.83
7499280--7499318	13	3.0	13	96	0	69	30	17	15	35	1.91
7501761--7501833	20	3.6	20	81	3	101	35	13	19	31	1.91
7501779--7501854	21	3.7	21	80	3	100	42	11	17	28	1.84
7501761--7501854	41	2.3	41	98	0	179	39	12	18	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7501893--7501918	13	2.0	13	100	0	52	38	15	15	30	1.88
7509398--7509432	17	2.1	17	88	0	52	60	0	0	40	0.97
7516151--7516198	21	2.2	22	82	14	64	68	6	0	25	1.12
7518249--7518308	17	3.3	17	81	11	66	41	3	1	53	1.27
7518256--7518318	21	3.2	20	76	14	69	44	4	1	49	1.33
7518658--7518726	29	2.4	29	80	9	79	44	2	2	49	1.32
7519851--7519901	25	2.0	25	81	7	59	47	1	3	47	1.32
7520231--7520285	21	2.6	21	82	2	65	10	7	1	80	0.99
7521644--7521677	7	4.9	7	96	0	59	58	0	0	41	0.98
7521923--7522007	28	3.0	28	83	8	102	42	1	5	50	1.34
7522047--7522092	20	2.2	22	88	7	69	47	0	6	45	1.28
7523499--7523537	2	19.5	2	100	0	78	51	0	0	48	1.00
7523917--7523988	30	2.4	30	76	2	83	47	2	8	41	1.48
7528074--7528121	24	2.0	24	100	0	96	33	4	20	41	1.72
7528764--7528951	88	2.1	88	89	2	281	45	5	4	44	1.47
7532253--7532326	22	3.2	23	73	11	71	45	0	0	54	1.00
7548451--7548503	23	2.3	23	83	9	63	39	1	1	56	1.21
7549083--7549115	17	2.0	17	94	5	59	51	6	6	36	1.51
7549293--7549448	78	2.0	78	93	0	267	36	16	17	29	1.92
7553196--7553222	2	13.5	2	100	0	54	51	0	0	48	1.00
7553492--7553536	19	2.3	19	81	14	56	51	0	2	46	1.13
7553499--7553553	26	2.1	26	83	6	67	47	1	3	47	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7554734--7554778	21	2.0	23	87	8	67	57	0	4	37	1.19
7554755--7554787	13	2.5	13	90	9	50	66	0	0	33	0.92
7555617--7555666	24	2.1	24	85	7	66	56	0	4	40	1.18
7556023--7556086	27	2.4	27	92	2	103	32	1	14	51	1.51
7556898--7556932	18	1.9	18	88	0	52	48	0	0	51	1.00
7559944--7560009	16	4.2	16	76	7	55	27	6	15	51	1.66
7560720--7560968	75	3.3	75	89	0	383	40	20	8	31	1.81
7561254--7561310	27	2.1	27	83	0	69	29	1	40	28	1.67
7562276--7562329	28	1.9	28	85	7	74	57	1	1	38	1.20
7566320--7566359	15	2.7	14	88	7	53	42	25	2	30	1.68
7569440--7569464	2	12.5	2	100	0	50	0	48	0	52	1.00
7573570--7573628	6	9.8	6	85	7	75	1	30	1	66	1.12
7573570--7573628	9	6.6	9	86	3	75	1	30	1	66	1.12
7576468--7576507	22	1.9	19	85	14	53	25	10	2	62	1.39
7576990--7577019	14	2.1	14	100	0	60	30	6	40	23	1.80
7576955--7577054	49	2.0	49	90	3	157	42	5	32	21	1.74
7576996--7577114	35	3.4	34	86	7	177	42	5	31	20	1.75
7578325--7578903	79	7.3	79	95	0	1032	26	25	15	32	1.95
7578843--7578990	53	2.8	50	76	10	145	26	22	13	37	1.92
7585052--7585372	61	5.3	60	90	3	477	26	28	19	25	1.99
7585051--7585372	121	2.7	120	90	4	504	26	28	19	25	1.99
7585393--7585703	116	2.6	117	90	6	459	26	27	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7585389--7585704	61	5.4	60	80	12	349	25	27	20	26	1.99
7585687--7585779	40	2.5	36	77	10	89	23	24	16	35	1.95
7585875--7586012	37	3.8	37	91	1	215	20	21	17	40	1.91
7585875--7586012	73	1.9	74	90	1	224	20	21	17	40	1.91
7586066--7586168	42	2.5	40	83	10	127	16	28	11	43	1.83
7586832--7586861	14	2.1	14	100	0	60	30	6	40	23	1.80
7586797--7586896	49	2.0	49	92	3	166	41	6	32	21	1.77
7586852--7586917	21	3.5	20	69	26	63	42	6	31	19	1.76
7586838--7586991	35	4.4	35	90	4	249	41	5	32	20	1.76
7588200--7588416	78	2.8	79	95	1	400	25	26	15	32	1.95
7588661--7588981	61	5.3	60	90	3	477	26	28	19	25	1.99
7588660--7588981	121	2.7	120	90	4	504	26	28	19	25	1.99
7589002--7589312	116	2.6	117	90	6	459	26	27	21	25	1.99
7588998--7589313	61	5.4	60	80	12	349	25	27	20	26	1.99
7589296--7589388	40	2.5	36	77	10	89	23	24	16	35	1.95
7589484--7589621	37	3.8	37	91	1	215	20	21	17	40	1.91
7589484--7589621	73	1.9	74	90	1	224	20	21	17	40	1.91
7589675--7589777	42	2.5	40	83	10	127	16	28	11	43	1.83
7590441--7590470	14	2.1	14	100	0	60	30	6	40	23	1.80
7590406--7590505	49	2.0	49	92	3	166	41	6	32	21	1.77
7590461--7590526	21	3.5	20	69	26	63	42	6	31	19	1.76
7590447--7590600	35	4.4	35	90	4	249	41	5	32	20	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7591810--7592395	79	7.4	79	93	0	994	26	25	15	32	1.95
7592327--7592474	53	2.8	50	77	10	154	26	22	13	37	1.91
7594139--7594194	6	9.0	6	76	7	58	75	1	1	21	0.99
7594140--7594194	18	2.9	18	83	5	65	74	1	1	21	1.01
7595398--7595437	2	20.0	2	100	0	80	50	0	0	50	1.00
7600944--7601021	30	2.5	31	87	2	113	44	8	19	26	1.80
7602209--7602459	122	2.1	122	93	0	421	36	13	20	29	1.90
7602557--7602611	21	2.6	22	80	8	69	36	12	16	34	1.87
7606774--7606827	20	2.7	20	88	8	74	31	16	11	40	1.84
7608950--7609013	32	2.0	32	87	6	94	31	12	14	42	1.82

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