genome.fa.s57.2.7.7.80.10.50.1000.26.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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   

This is table  26  of  27  ( 3137 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)
3731296--3731335	18	2.2	19	86	4	55	50	0	2	47	1.14
3732936--3732975	17	2.4	17	87	4	55	52	0	2	45	1.14
3732947--3732985	20	2.0	20	85	5	53	56	2	0	41	1.13
3735012--3735046	18	1.9	18	100	0	70	28	0	0	71	0.86
3735179--3735218	16	2.5	16	95	0	71	72	0	2	25	0.97
3735464--3735499	18	2.1	18	89	5	56	27	5	8	58	1.50
3736115--3736165	3	17.7	3	78	8	52	70	1	1	25	1.08
3736112--3736153	22	2.0	20	86	9	57	76	2	0	21	0.90
3750021--3750076	19	3.0	19	74	10	62	62	0	0	37	0.95
3765189--3765260	30	2.4	31	86	6	103	59	1	2	36	1.20
3765204--3765260	29	1.9	28	89	10	87	63	1	3	31	1.22
3773610--3773640	10	3.1	10	100	0	62	9	48	0	41	1.36
3785697--3785723	2	13.5	2	100	0	54	51	0	0	48	1.00
3785806--3785844	3	13.0	3	100	0	78	66	0	0	33	0.92
3787486--3787524	18	2.1	18	85	4	51	53	0	0	46	1.00
3795240--3795279	21	1.9	21	90	10	64	60	0	0	40	0.97
3796888--3796913	7	3.7	7	100	0	52	84	0	0	15	0.62
3797201--3797265	22	2.7	24	70	11	62	56	0	3	40	1.15
3797877--3797919	22	2.0	22	90	0	68	39	0	2	58	1.11
3799719--3799764	2	22.5	2	86	4	65	50	0	4	45	1.21
3800574--3800677	36	2.9	36	80	7	104	50	0	1	48	1.12
3800676--3800780	14	8.1	14	67	25	52	48	0	0	49	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3800670--3800741	35	2.1	35	86	5	101	48	0	0	51	1.00
3800676--3800749	36	2.1	36	84	5	96	50	1	0	48	1.09
3803368--3803411	17	2.5	18	92	7	81	20	4	0	75	0.98
3803601--3803631	2	15.5	2	93	0	53	45	0	3	51	1.17
3805566--3805604	13	2.8	13	84	7	51	15	5	0	79	0.90
3805921--3805965	24	1.9	23	90	4	72	62	0	2	35	1.08
3806388--3806436	20	2.5	20	82	0	62	40	4	44	10	1.57
3806513--3806583	27	2.6	27	86	6	90	46	22	7	23	1.76
3808467--3808512	21	2.1	22	84	4	58	19	30	19	30	1.97
3810954--3811002	20	2.5	20	86	0	71	38	4	46	10	1.57
3811914--3811945	3	10.7	3	100	0	64	68	0	31	0	0.90
3814933--3814966	3	11.3	3	100	0	68	67	0	0	32	0.91
3815777--3815808	2	16.0	2	100	0	64	50	0	0	50	1.00
3819244--3819297	21	2.7	21	77	11	60	33	0	3	62	1.12
3820142--3820168	2	13.5	2	100	0	54	51	0	0	48	1.00
3820207--3820266	21	3.0	21	83	9	63	50	1	0	48	1.11
3829585--3829612	1	28.0	1	100	0	56	0	0	100	0	0.00
3831857--3831906	3	17.0	3	95	4	93	0	32	0	68	0.90
3832199--3832226	2	14.0	2	100	0	56	50	0	0	50	1.00
3836106--3836139	16	2.1	16	94	0	59	47	17	2	32	1.63
3842599--3842665	28	2.4	28	73	16	66	61	1	4	32	1.25
3842758--3842801	20	2.2	20	88	8	63	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3843981--3844019	2	19.5	2	100	0	78	51	0	0	48	1.00
3844306--3844337	2	16.0	2	93	0	55	3	46	0	50	1.17
3848955--3849019	34	1.9	34	81	6	78	44	3	4	47	1.39
3858819--3858845	3	9.0	3	100	0	54	66	0	33	0	0.92
3859185--3859214	13	2.3	13	94	0	51	3	0	16	80	0.85
3862167--3862210	2	22.0	2	85	0	61	0	54	2	43	1.12
3865502--3865593	42	2.3	40	85	9	125	51	0	0	48	1.00
3865569--3865638	17	4.2	16	74	5	59	51	0	0	48	1.00
3865503--3865608	42	2.6	42	83	8	121	53	0	0	46	1.00
3865561--3865639	33	2.4	33	86	0	113	54	0	0	45	0.99
3865561--3865638	16	4.7	17	74	6	79	53	0	0	46	1.00
3866183--3866223	21	2.0	21	85	4	57	39	2	2	56	1.26
3867913--3867973	27	2.3	27	75	11	63	52	0	6	40	1.27
3867947--3867999	22	2.4	22	81	6	63	50	0	1	47	1.12
3876547--3876579	3	11.0	3	100	0	66	33	0	33	33	1.58
3879763--3879819	24	2.4	24	80	13	73	26	1	7	64	1.28
3884945--3885062	61	1.9	61	89	6	186	36	1	11	50	1.48
3889649--3889684	3	12.0	3	100	0	72	66	0	0	33	0.92
3897816--3897855	19	2.1	19	86	9	55	75	0	0	25	0.81
3898232--3898258	2	13.5	2	100	0	54	0	48	0	51	1.00
3899310--3899389	35	2.2	37	93	4	137	27	21	7	43	1.79
3904654--3904684	2	16.0	2	93	6	55	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)
3909128--3909169	17	2.4	18	84	8	59	59	0	0	40	0.97
3909123--3909170	18	2.6	19	77	16	55	56	0	0	43	0.99
3909168--3909194	3	9.0	3	100	0	54	33	0	0	66	0.92
3920322--3920366	16	3.0	15	79	20	58	44	0	0	55	0.99
3923063--3923136	37	2.0	36	84	7	96	18	10	24	45	1.81
3926072--3926097	3	8.7	3	100	0	52	69	0	0	30	0.89
3926261--3926289	14	2.0	15	93	6	51	0	10	0	89	0.48
3926328--3926361	3	11.3	3	100	0	68	32	0	0	67	0.91
3932863--3932895	2	16.5	2	93	0	57	48	0	48	3	1.17
3934408--3934433	2	13.0	2	100	0	52	50	0	0	50	1.00
3938484--3938511	5	5.6	5	100	0	56	42	0	17	39	1.50
3939633--3939675	3	14.7	3	85	4	61	30	0	2	67	1.03
3941228--3941260	2	16.5	2	100	0	66	51	0	0	48	1.00
3943034--3943109	28	2.7	28	93	0	125	21	7	21	50	1.74
3943038--3943129	28	3.4	26	81	12	80	22	8	20	47	1.77
3943187--3943232	20	2.3	20	84	0	56	13	47	4	34	1.62
3945685--3945730	21	2.1	22	84	4	58	30	19	30	19	1.97
3947634--3947711	28	2.8	28	96	0	138	20	11	20	47	1.81
3947640--3947731	28	3.4	26	81	12	89	22	9	20	46	1.80
3947789--3947834	20	2.3	20	84	0	56	13	47	4	34	1.62
3948199--3948232	14	2.4	14	90	0	50	52	5	0	41	1.25
3948199--3948232	16	2.2	16	90	10	54	52	5	0	41	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3955271--3955305	3	11.7	3	100	0	70	65	0	0	34	0.93
3956123--3956165	2	21.5	2	100	0	86	51	0	0	48	1.00
3956165--3956197	2	16.5	2	93	0	57	54	45	0	0	0.99
3956956--3956994	2	19.5	2	100	0	78	48	0	0	51	1.00
3961829--3961853	2	12.5	2	100	0	50	0	52	0	48	1.00
3961917--3961955	2	19.5	2	89	0	60	0	56	0	43	0.99
3965272--3965296	5	5.0	5	100	0	50	20	20	40	20	1.92
3966693--3966726	2	17.5	2	93	6	61	50	0	0	50	1.00
3967746--3967776	6	5.0	6	96	4	53	64	0	0	35	0.94
3968152--3968178	2	13.5	2	100	0	54	51	0	0	48	1.00
3968178--3968204	2	13.5	2	100	0	54	51	0	48	0	1.00
3968329--3968353	2	12.5	2	100	0	50	48	0	0	52	1.00
3968644--3968700	28	2.0	28	89	0	87	22	10	1	64	1.34
3970167--3970207	2	20.5	2	89	0	64	46	0	4	48	1.23
3976440--3976482	2	22.0	2	85	4	61	44	0	0	55	0.99
3977207--3977234	2	14.0	2	100	0	56	0	0	50	50	1.00
3978432--3978457	3	8.7	3	100	0	52	34	0	0	65	0.93
3984361--3984447	13	7.2	12	67	14	54	52	1	0	45	1.08
4001959--4001994	2	18.0	2	100	0	72	50	0	50	0	1.00
4005328--4005363	15	2.5	15	90	4	56	27	0	5	66	1.13
4005403--4005441	14	2.7	14	88	11	53	30	0	5	64	1.15
4005413--4005468	16	3.5	16	80	7	69	30	1	3	64	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4005931--4005963	16	2.0	17	88	5	50	69	3	0	27	1.03
4006584--4006639	17	3.4	16	80	9	60	46	0	0	53	1.00
4015674--4015763	27	3.4	26	82	11	96	24	6	23	45	1.76
4017563--4017601	2	19.5	2	100	0	78	0	48	0	51	1.00
4020584--4020611	14	2.0	14	100	0	56	35	21	7	35	1.81
4022241--4022309	30	2.3	29	92	2	111	28	21	10	39	1.86
4022337--4022396	31	1.9	31	83	6	77	38	5	23	33	1.76
4024118--4024147	2	15.0	2	100	0	60	50	0	0	50	1.00
4024147--4024171	2	12.5	2	100	0	50	52	0	48	0	1.00
4028089--4028130	2	22.0	2	85	9	61	50	0	2	47	1.14

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