genome.fa.s59.2.7.7.80.10.50.1000.22.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

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   

This is table  22  of  25  ( 2913 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)
3184053--3184106	25	2.2	25	96	0	99	14	11	18	55	1.68
3189456--3189525	22	3.3	21	70	20	56	20	4	5	70	1.26
3189476--3189525	23	2.2	22	82	10	57	20	2	6	72	1.16
3191848--3191885	13	3.0	13	88	3	51	55	0	0	44	0.99
3191845--3191900	16	3.8	16	75	20	50	57	0	0	42	0.99
3196497--3196528	16	1.9	17	93	6	57	75	3	0	21	0.95
3197989--3198018	2	15.0	2	92	0	51	53	0	0	46	1.00
3198614--3198675	32	1.9	33	83	9	83	50	0	0	50	1.00
3198970--3199004	15	2.3	15	90	9	54	82	2	14	0	0.77
3198970--3199004	8	4.7	7	86	13	52	82	2	14	0	0.77
3199017--3199095	25	3.2	25	77	13	83	32	0	1	65	1.00
3199015--3199095	24	3.4	24	77	13	87	32	0	1	66	0.99
3199073--3199119	16	2.8	17	75	15	53	29	2	2	65	1.15
3200305--3200336	14	2.3	14	100	0	64	81	0	18	0	0.70
3200306--3200339	18	1.9	17	94	5	59	82	0	17	0	0.67
3200353--3200437	33	2.4	37	83	15	108	29	0	2	68	1.02
3200353--3200444	37	2.7	33	81	11	96	29	0	3	67	1.06
3200353--3200437	38	2.4	37	84	11	108	29	0	2	68	1.02
3200737--3200763	2	13.5	2	100	0	54	51	0	0	48	1.00
3204865--3204927	33	1.9	33	83	6	83	55	3	0	41	1.16
3205063--3205093	14	2.2	14	94	0	53	32	0	0	67	0.91
3207341--3207372	16	2.0	16	100	0	64	31	18	6	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3211869--3211980	34	3.3	34	87	0	143	37	28	3	30	1.74
3212688--3212746	28	2.1	28	81	6	66	32	3	0	64	1.10
3213565--3213602	16	2.3	17	90	4	60	52	0	0	47	1.00
3213565--3213614	17	3.0	16	88	5	64	54	0	0	46	1.00
3213579--3213755	71	2.6	67	79	11	196	48	1	1	48	1.21
3213699--3213757	24	2.5	25	72	10	61	50	0	0	49	1.00
3215200--3215238	20	2.0	19	90	5	60	48	0	0	51	1.00
3215469--3215522	25	2.1	27	86	6	76	27	1	0	70	0.98
3215635--3215687	25	2.0	25	85	7	70	54	0	5	39	1.24
3215721--3215789	15	4.7	15	74	15	54	43	1	1	53	1.18
3215736--3215786	15	3.3	15	83	5	66	41	1	1	54	1.22
3215881--3215936	14	4.4	13	79	14	55	48	0	0	51	1.00
3215917--3215963	23	2.0	23	87	0	67	44	0	2	53	1.12
3215896--3215949	14	3.9	14	79	15	60	44	0	0	55	0.99
3216276--3216317	20	2.0	20	82	13	50	4	64	0	30	1.14
3221949--3221981	14	2.2	16	89	10	52	54	0	0	45	0.99
3222239--3222285	22	2.3	22	85	10	64	51	0	0	48	1.00
3222743--3222780	9	4.2	9	89	0	58	78	0	21	0	0.74
3223028--3223088	22	2.8	22	83	11	72	59	0	1	39	1.08
3223986--3224019	17	2.0	17	88	0	50	47	0	0	52	1.00
3223995--3224063	29	2.6	25	72	16	68	42	0	0	57	0.98
3224005--3224075	30	2.4	32	77	15	80	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3225449--3225474	2	13.0	2	100	0	52	50	0	0	50	1.00
3226514--3226608	15	5.8	16	69	15	61	42	2	0	55	1.11
3226514--3226566	18	2.9	18	76	15	56	37	1	0	60	1.08
3226579--3226650	20	3.3	21	75	16	67	44	0	0	55	0.99
3226596--3226668	14	5.5	14	73	22	68	49	0	0	50	1.00
3226596--3226668	33	2.4	29	84	13	85	49	0	0	50	1.00
3226593--3226671	27	3.0	27	80	7	74	49	0	0	50	1.00
3231588--3231630	22	2.0	22	90	0	68	41	0	0	58	0.98
3231655--3231710	22	2.4	23	85	5	78	39	0	0	60	0.97
3231686--3231724	15	2.6	15	91	0	60	43	0	0	56	0.99
3231689--3231738	15	3.4	14	83	10	55	42	0	0	58	0.98
3231715--3231761	24	2.0	24	83	8	60	40	0	0	59	0.97
3231782--3231822	13	3.2	13	83	16	50	39	0	0	60	0.96
3231787--3231845	30	1.9	30	82	6	73	44	1	0	54	1.10
3232862--3232930	37	1.9	34	82	8	84	31	0	2	65	1.08
3232918--3232988	22	3.2	21	84	11	81	56	0	0	43	0.99
3232936--3232972	19	1.9	19	88	0	56	56	0	0	43	0.99
3235013--3235088	12	6.4	12	75	15	52	73	0	23	2	0.95
3235109--3235184	20	3.5	20	70	19	55	35	0	0	64	0.94
3235129--3235154	10	2.6	10	100	0	52	30	0	0	69	0.89
3235094--3235219	35	3.6	35	78	16	104	34	0	3	61	1.17
3235508--3235549	17	2.5	17	84	0	57	80	0	19	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3235510--3235565	26	2.1	27	87	9	80	80	1	17	0	0.80
3236498--3236534	15	2.5	14	87	12	56	83	0	16	0	0.64
3240496--3240657	79	2.1	79	93	0	279	22	25	20	30	1.98
3243523--3243650	43	3.0	43	83	0	157	39	25	17	17	1.92
3247377--3247409	9	3.6	9	92	8	57	87	0	12	0	0.53
3247377--3247409	10	3.4	10	87	4	50	87	0	12	0	0.53
3247930--3247971	16	2.8	15	82	10	59	42	0	0	57	0.99
3248084--3248116	17	2.0	17	88	5	50	45	6	0	48	1.27
3248658--3248718	22	2.9	21	83	13	65	36	0	0	63	0.94
3248713--3248769	23	2.7	21	78	10	55	61	1	3	33	1.23
3252845--3252873	13	2.1	14	93	6	51	34	0	0	65	0.93
3254373--3254420	14	3.4	14	81	16	62	35	0	0	64	0.94
3254374--3254421	15	3.3	15	75	16	55	33	0	0	66	0.92
3255421--3255455	14	2.6	13	86	8	52	42	5	0	51	1.25
3255474--3255507	17	2.0	17	94	0	59	55	0	5	38	1.24
3256193--3256234	3	14.0	3	100	0	84	33	0	0	66	0.92
3256679--3256865	93	2.0	94	91	5	308	18	20	24	36	1.95
3257024--3257077	26	2.1	26	82	6	65	44	0	3	51	1.19
3257382--3257451	28	2.5	28	80	15	76	61	0	2	35	1.11
3259554--3259593	19	2.1	19	90	0	62	57	0	0	42	0.98
3259631--3259673	22	2.0	20	82	8	50	65	0	4	30	1.13
3259667--3259703	19	2.0	19	94	5	67	35	5	0	59	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3260811--3260868	18	3.2	18	80	9	64	5	13	1	79	0.98
3263278--3263336	2	29.5	2	96	0	109	50	0	49	0	1.00
3263780--3263831	19	2.7	19	80	8	61	32	0	1	65	1.04
3267682--3267723	21	2.0	21	85	0	57	42	4	19	33	1.72
3267688--3267731	21	2.1	21	82	0	52	40	4	15	38	1.68
3268745--3268780	14	2.5	15	91	8	58	66	0	0	33	0.92
3269029--3269053	6	4.2	6	100	0	50	0	52	16	32	1.44
3272646--3272680	2	17.5	2	100	0	70	48	0	0	51	1.00
3279456--3279495	3	13.3	3	89	0	62	27	5	0	67	1.11
3279836--3279880	22	2.0	23	83	12	58	53	6	4	35	1.47
3279952--3279984	2	16.5	2	100	0	66	48	0	0	51	1.00
3280880--3280922	20	2.2	20	87	8	61	27	6	6	58	1.50
3281953--3282043	47	1.9	47	93	0	155	45	9	14	30	1.77
3282930--3283344	213	1.9	216	82	5	527	38	9	14	37	1.79
3288391--3288434	2	22.0	2	100	0	88	50	0	0	50	1.00
3291517--3291594	25	3.2	24	68	21	63	43	2	3	50	1.34
3292282--3292316	2	17.5	2	93	0	61	51	2	0	45	1.16
3293592--3293665	24	3.2	23	67	21	55	36	2	12	48	1.55
3299575--3299648	24	3.2	23	67	21	55	36	2	12	48	1.55
3301432--3301476	20	2.2	20	84	11	56	46	2	0	51	1.13
3301451--3301481	16	2.0	16	93	6	55	54	0	0	45	0.99
3304423--3304456	18	1.9	17	88	5	50	67	0	26	5	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3315346--3315393	24	2.1	23	85	11	64	39	0	0	60	0.97
3587254--3587279	13	2.0	13	100	0	52	15	0	0	84	0.62
3587526--3587576	23	2.2	24	85	3	68	49	0	9	41	1.36
3588395--3588427	2	16.5	2	100	0	66	48	0	0	51	1.00
3588743--3588776	6	5.5	6	86	6	50	79	0	20	0	0.73
3590124--3590149	2	13.0	2	100	0	52	0	0	50	50	1.00
3592849--3592878	2	15.0	2	100	0	60	50	50	0	0	1.00
3593445--3593470	2	13.0	2	100	0	52	50	0	0	50	1.00
3593463--3593506	21	2.1	21	91	0	70	43	15	0	40	1.47
3594083--3594130	19	2.5	19	83	10	53	54	4	2	39	1.32

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