genome.fa.s72.2.7.7.80.10.50.1000.26.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   

This is table  26  of  39  ( 4596 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)
3776115--3776154	19	2.1	19	86	9	55	30	2	0	67	1.04
3776597--3776645	22	2.3	21	86	10	64	40	0	0	59	0.98
3776616--3776650	16	2.2	16	85	5	54	45	0	0	54	0.99
3776589--3776647	15	3.9	15	75	16	59	40	0	0	59	0.97
3776581--3776645	6	10.5	6	75	15	53	38	0	0	61	0.96
3776629--3776721	32	2.8	32	86	4	123	46	2	1	50	1.20
3776684--3776737	27	2.0	27	85	3	74	42	3	1	51	1.30
3778453--3778481	15	1.9	15	100	0	58	17	27	13	41	1.87
3778986--3779040	19	2.9	19	72	20	53	41	5	0	52	1.24
3779383--3779878	212	2.4	210	90	3	750	45	5	11	37	1.64
3779869--3780949	208	5.3	208	84	8	1374	46	4	9	39	1.57
3779675--3780873	209	6.1	191	80	11	1101	45	5	9	39	1.60
3780256--3780950	212	3.3	207	89	3	1022	47	4	7	39	1.53
3780953--3780996	19	2.4	19	84	3	54	38	2	4	54	1.33
3781459--3781497	15	2.5	15	83	4	51	43	0	0	56	0.99
3781926--3782015	42	2.1	42	87	6	128	43	5	10	41	1.61
3783278--3783335	20	2.6	22	71	15	57	55	3	1	39	1.27
3783599--3783628	13	2.3	13	94	0	51	40	0	0	60	0.97
3787063--3787118	18	2.9	19	72	17	53	53	0	0	46	1.00
3791142--3791224	42	2.0	42	100	0	166	32	14	24	28	1.94
3796057--3796100	21	2.0	22	87	12	65	61	4	15	18	1.50
3799366--3799410	2	22.5	2	100	0	90	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3800453--3800495	23	1.9	22	90	4	68	51	0	2	46	1.13
3801304--3801366	3	21.0	3	87	12	94	63	3	33	0	1.10
3801663--3801687	12	2.1	12	100	0	50	60	0	40	0	0.97
3803638--3803675	20	1.9	20	88	0	58	50	2	0	47	1.15
3804780--3804857	37	2.2	35	82	13	90	47	0	0	52	1.00
3804835--3804878	19	2.3	19	84	4	52	56	0	0	43	0.99
3805009--3805038	11	2.7	11	94	0	51	33	0	0	66	0.92
3805428--3805466	11	3.4	11	83	13	51	35	0	0	64	0.94
3805425--3805457	13	2.4	14	95	5	59	33	0	0	66	0.92
3805498--3805533	18	2.1	17	89	5	54	36	5	0	58	1.22
3805474--3805531	27	2.2	27	84	6	75	34	3	1	60	1.24
3810003--3810063	31	2.0	31	90	0	95	47	14	13	24	1.80
3826013--3826050	13	2.8	14	84	8	51	57	0	2	39	1.12
3826441--3826480	19	2.1	19	85	0	53	50	12	0	37	1.41
3833128--3833156	2	14.5	2	100	0	58	48	0	0	51	1.00
3846688--3846716	3	9.7	3	100	0	58	31	0	0	68	0.89
3847853--3847899	2	23.5	2	91	0	76	46	0	4	48	1.21
3848948--3848980	15	2.1	16	88	5	50	30	0	0	69	0.88
3849148--3849194	20	2.3	20	78	7	51	51	4	2	42	1.33
3853531--3853568	2	19.0	2	88	0	58	0	50	5	44	1.24
3859282--3859324	22	1.9	23	90	4	70	34	0	2	62	1.08
3859681--3859715	16	2.1	17	89	5	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3859690--3859754	28	2.3	30	84	12	84	56	0	1	41	1.08
3859690--3859754	29	2.3	27	82	15	78	56	0	1	41	1.08
3859748--3859801	23	2.5	22	81	6	56	50	0	3	46	1.19
3859932--3859967	3	12.0	3	100	0	72	33	0	0	66	0.92
3867872--3867924	3	17.7	3	96	0	97	67	1	0	30	1.01
3870024--3870099	29	2.5	31	75	14	86	43	0	1	55	1.08
3871395--3871450	24	2.3	25	76	11	62	50	0	3	46	1.19
3874144--3874218	2	41.5	2	80	19	94	45	0	0	54	0.99
3874257--3874304	21	2.3	20	82	13	53	64	0	4	31	1.12
3874252--3874304	20	2.4	22	75	18	56	62	0	3	33	1.13
3875555--3875596	15	2.7	15	79	13	50	38	2	0	59	1.10
3876266--3876310	23	2.0	23	82	8	56	64	0	2	33	1.06
3876310--3876392	33	2.5	32	84	7	96	50	1	2	45	1.22
3876323--3876392	32	2.2	33	84	7	99	51	1	0	47	1.09
3876335--3876389	17	3.4	17	72	25	55	54	1	0	43	1.10
3877734--3877788	2	28.5	2	81	7	69	45	0	5	49	1.25
3878128--3878152	3	8.3	3	100	0	50	32	36	32	0	1.58
3884014--3884076	26	2.4	27	86	10	94	46	0	0	53	1.00
3884014--3884074	9	7.0	8	73	15	50	45	0	0	54	1.00
3885067--3885124	24	2.3	25	82	11	73	25	6	18	48	1.73
3889561--3889636	27	2.8	27	77	0	89	25	7	21	46	1.78
3890553--3890582	7	4.3	7	100	0	60	13	60	0	26	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3891185--3891221	2	18.5	2	100	0	74	48	0	0	51	1.00
3891422--3891478	18	3.1	18	75	9	53	50	0	1	47	1.11
3891953--3891986	3	11.0	3	87	6	50	61	0	2	35	1.11
3892853--3892896	20	2.2	21	80	11	58	56	0	2	40	1.11
3897388--3897448	31	2.0	31	84	9	81	47	0	3	49	1.18
3897643--3897672	15	1.9	16	93	6	53	30	0	0	70	0.88
3898117--3898175	19	3.1	18	76	13	55	57	0	1	40	1.09
3898335--3898384	11	4.2	12	75	12	50	70	2	2	26	1.09
3898336--3898365	16	1.9	15	93	6	51	73	0	0	26	0.84
3898339--3898386	24	2.0	24	87	0	69	70	2	2	25	1.09
3899668--3899708	19	2.2	19	86	8	57	53	0	0	46	1.00
3899762--3899911	14	10.1	14	69	21	76	56	0	0	42	1.04
3899762--3899929	28	6.2	27	70	18	84	57	0	1	41	1.06
3899795--3899949	20	7.8	20	72	20	103	57	0	1	40	1.12
3899809--3899946	36	3.7	37	73	18	110	57	0	1	40	1.13
3899908--3899947	17	2.3	17	95	4	71	57	2	5	35	1.34
3899802--3899949	47	3.2	44	75	20	142	57	0	1	40	1.12
3901248--3901288	21	2.0	21	100	0	82	39	4	0	56	1.21
3901774--3901831	22	2.6	23	84	10	68	22	3	5	68	1.24
3902605--3902659	17	3.3	16	75	19	51	38	0	1	60	1.08
3903145--3903204	30	2.0	29	81	12	68	70	3	1	25	1.12
3903160--3903205	15	3.1	15	81	3	58	76	2	0	21	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3903251--3903306	5	12.0	5	71	21	50	39	1	0	58	1.08
3903232--3903286	23	2.4	23	81	3	67	49	1	0	49	1.11
3903500--3903596	22	4.3	21	75	17	81	44	0	0	55	0.99
3903602--3903647	20	2.2	22	85	11	62	54	0	0	45	0.99
3903499--3903631	65	2.0	65	83	8	164	48	0	0	51	1.00
3903936--3903986	11	4.5	11	75	15	50	35	1	0	62	1.06
3904707--3904792	25	3.4	26	77	12	74	61	0	1	37	1.04
3905374--3905409	17	2.1	18	94	5	65	41	11	16	30	1.83
3906242--3906288	20	2.3	20	88	0	67	61	0	0	38	0.96
3906748--3906788	18	2.3	18	91	0	64	60	0	0	39	0.96
3906770--3906796	12	2.2	12	100	0	54	55	0	0	44	0.99
3907122--3907190	23	2.9	25	72	14	65	39	0	0	60	0.97
3907132--3907230	29	3.5	28	72	18	80	38	2	2	57	1.22
3910704--3910738	2	17.5	2	93	0	61	48	48	0	2	1.16
3911511--3911551	3	13.0	3	90	10	64	31	0	0	68	0.90
3912209--3912235	12	2.2	12	100	0	54	48	0	0	51	1.00
3916457--3916487	16	1.9	16	100	0	62	38	12	16	32	1.86
3918640--3918715	18	4.7	16	70	16	50	60	1	1	36	1.13
3918657--3918719	22	2.9	22	79	11	67	58	1	1	38	1.17
3918904--3919114	109	1.9	109	86	0	296	48	9	3	37	1.53
3919079--3919125	5	9.8	5	77	9	53	55	2	0	42	1.12
3919079--3919128	9	5.3	9	76	9	55	54	2	0	44	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3919079--3919128	19	2.6	20	84	6	68	54	2	0	44	1.11
3919071--3919125	14	3.7	15	80	11	60	54	1	0	43	1.10
3919249--3919307	17	3.4	18	77	17	63	52	1	0	45	1.10
3919231--3919290	17	3.6	17	73	20	56	50	0	1	48	1.11
3919275--3919342	24	2.8	26	84	8	90	50	7	0	42	1.30
3919617--3919650	16	2.1	17	88	5	52	47	2	0	50	1.16
3919808--3919855	11	4.1	11	84	7	51	37	0	0	62	0.95
3919819--3919881	24	2.7	24	81	13	69	42	0	0	57	0.99
3919853--3919905	25	2.0	27	85	7	74	52	0	0	47	1.00
3920145--3920238	37	2.5	38	80	13	113	53	2	3	41	1.29

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