genome.fa.s32.2.7.7.80.10.50.1000.25.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: Scaffold32
Parameters: 2 7 7 80 10 50 1000
Length:  5587194

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   

This is table  25  of  33  ( 3877 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)
3557230--3557258	3	9.7	3	100	0	58	65	0	0	34	0.93
3561698--3561774	20	3.8	20	83	6	102	41	12	14	31	1.83
3562560--3562615	20	2.9	19	84	5	69	28	16	19	35	1.93
3568772--3568812	20	2.0	20	86	9	57	43	9	14	31	1.78
3568985--3569024	20	2.0	20	85	14	55	30	22	0	47	1.52
3571375--3571431	19	3.0	20	79	7	73	31	15	17	35	1.92
3573320--3573365	15	3.1	15	100	0	92	6	19	0	73	1.04
3574543--3574638	47	2.0	47	97	0	183	30	20	22	26	1.99
3579683--3579720	18	2.1	18	95	0	67	44	5	26	23	1.74
3580707--3580776	29	2.4	29	100	0	140	38	27	11	22	1.89
3582750--3582805	28	2.0	28	89	0	85	37	7	17	37	1.78
3587053--3587252	79	2.6	76	81	6	199	36	13	23	27	1.92
3587207--3587279	27	2.7	27	97	0	137	30	19	26	24	1.98
3587234--3587565	79	4.2	80	82	5	401	39	12	21	27	1.89
3587234--3587565	157	2.1	157	87	2	461	39	12	21	27	1.89
3587497--3587652	51	3.0	51	83	0	195	46	10	18	25	1.80
3592889--3593990	551	2.0	551	100	0	2204	30	17	20	31	1.96
3594150--3594270	51	2.3	52	84	5	147	42	11	15	29	1.82
3595201--3595256	21	2.8	21	72	5	62	39	10	14	35	1.81
3595244--3595269	13	2.0	13	100	0	52	38	15	15	30	1.88
3595903--3595927	13	1.9	13	100	0	50	32	16	16	36	1.90
3595936--3596056	52	2.3	52	97	0	224	34	18	18	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3596630--3596658	15	1.9	15	100	0	58	51	27	20	0	1.47
3601130--3601339	95	2.2	95	89	0	312	27	22	14	36	1.93
3602975--3603000	13	2.0	13	100	0	52	38	15	15	30	1.88
3609968--3610156	52	3.7	51	82	3	238	43	14	13	28	1.83
3610193--3610249	20	2.8	20	86	2	78	33	15	10	40	1.82
3619158--3619233	20	3.7	20	80	13	100	35	17	14	32	1.90
3619159--3619241	42	2.0	42	97	0	157	34	16	15	32	1.91
3619179--3619241	20	3.0	21	73	15	67	34	15	17	31	1.92
3621984--3622019	16	2.1	18	90	10	58	61	16	0	22	1.35
3622692--3622735	21	2.1	21	91	0	70	20	18	0	61	1.35
3627395--3627459	19	3.7	19	75	23	79	40	16	10	32	1.84
3627387--3627457	32	2.2	32	94	0	124	38	18	11	32	1.86
3632030--3632090	27	2.3	27	85	0	77	24	32	16	26	1.96
3632079--3632298	102	2.2	101	87	4	318	28	25	12	33	1.92
3634732--3634786	20	2.8	20	86	5	76	29	12	14	43	1.82
3638904--3639081	52	3.4	52	80	4	173	28	25	12	33	1.92
3638900--3639119	104	2.1	104	81	5	248	27	24	14	33	1.94
3638949--3639119	52	3.3	51	78	6	175	29	26	14	30	1.95
3645767--3645825	23	2.5	22	75	17	57	74	11	10	3	1.18
3647226--3647774	169	3.3	166	87	3	769	27	11	9	51	1.68
3648350--3648386	12	2.9	13	88	8	58	72	0	24	2	0.97
3656064--3656382	156	2.0	157	98	1	631	30	18	22	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3662096--3662212	20	5.7	20	79	6	117	37	12	17	32	1.87
3663242--3663350	49	2.3	48	81	6	116	33	17	26	22	1.96
3663461--3663821	117	3.1	116	88	4	500	22	17	31	28	1.97
3663410--3663821	175	2.4	176	88	5	606	23	17	30	27	1.97
3663461--3663821	28	12.5	28	82	7	436	22	17	31	28	1.97
3665509--3665551	20	2.1	20	82	4	50	9	27	44	18	1.80
3665983--3666018	13	2.8	13	95	0	63	33	13	19	33	1.91
3668065--3668095	15	2.1	15	93	0	53	12	22	16	48	1.80
3672143--3672168	13	2.0	13	100	0	52	30	15	15	38	1.88
3672123--3672187	33	2.0	33	84	6	87	26	13	18	41	1.88
3672217--3672271	21	2.7	21	82	2	67	30	16	12	40	1.86
3683518--3683543	8	3.2	8	100	0	52	61	26	0	11	1.30
3684340--3684456	20	5.7	20	71	11	85	35	12	18	32	1.89
3684340--3684507	20	7.7	20	68	17	75	38	12	18	30	1.88
3685589--3686237	157	4.2	155	83	3	678	22	18	21	37	1.94
3687031--3687061	13	2.4	13	94	0	53	41	12	12	32	1.81
3687687--3687729	22	2.0	20	86	8	59	39	20	4	34	1.74
3689467--3689516	22	2.4	21	83	9	59	48	0	20	32	1.50
3689474--3689516	22	2.0	22	86	4	61	51	0	20	27	1.48
3695335--3695381	19	2.4	20	85	3	60	36	14	14	34	1.88
3695352--3695415	33	1.9	34	87	9	96	40	9	15	34	1.80
3695706--3696662	462	2.1	462	84	2	1233	22	21	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3695706--3696662	154	6.2	154	81	2	1019	22	21	20	35	1.96
3698693--3699234	165	3.3	164	86	5	728	26	13	9	51	1.71
3698708--3699300	329	1.8	323	81	5	746	27	13	9	50	1.71
3700954--3701240	149	1.9	149	82	9	361	35	10	12	41	1.77
3701493--3701542	25	2.0	25	100	0	100	28	32	16	24	1.96
3703768--3703838	34	2.0	37	84	13	96	28	25	21	25	1.99
3703806--3703988	31	5.8	31	78	7	163	28	22	21	27	1.99
3703806--3703967	63	2.6	62	79	7	175	27	22	22	27	1.99
3703987--3704178	31	6.3	31	74	5	151	25	21	22	30	1.99
3703987--3704178	92	2.1	91	83	7	239	25	21	22	30	1.99
3704046--3704178	62	2.2	61	83	1	167	23	20	24	32	1.98
3708431--3708614	63	2.9	63	80	1	172	15	21	43	19	1.88
3717485--3717654	63	2.7	63	87	1	243	18	18	42	20	1.89
3718478--3718524	24	2.0	24	84	16	62	38	8	51	2	1.45
3724525--3724684	44	3.6	44	76	4	135	29	15	31	23	1.95
3724661--3724883	44	5.1	44	74	7	166	36	16	30	17	1.91
3724674--3724883	88	2.4	88	80	1	224	36	15	30	17	1.91
3725363--3725549	78	2.4	78	76	12	195	27	16	27	28	1.97
3726290--3726391	53	2.0	52	80	3	116	22	22	9	45	1.82
3726546--3726595	19	2.6	19	90	0	82	20	6	28	46	1.74
3738275--3738737	151	3.0	150	84	6	527	41	11	11	35	1.77
3742204--3742257	20	2.7	20	94	0	90	37	11	12	38	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3742297--3742321	13	1.9	13	100	0	50	36	16	16	32	1.90
3742385--3742409	13	1.9	13	100	0	50	32	16	16	36	1.90
3743191--3743239	25	1.9	26	87	4	73	6	24	0	69	1.11
3743729--3743769	19	2.2	20	82	8	50	63	4	0	31	1.15
3743788--3744181	164	2.4	163	79	8	397	50	10	10	28	1.70
3743872--3744181	164	1.9	165	83	6	405	52	9	9	28	1.66
3746629--3746818	97	2.0	97	82	6	233	28	24	11	35	1.89
3750808--3750872	19	3.8	18	75	24	77	32	12	16	38	1.86
3750810--3750879	32	2.2	32	97	0	131	32	12	17	37	1.87
3750829--3750853	13	1.9	13	100	0	50	36	16	16	32	1.90
3750925--3750949	13	1.9	13	100	0	50	32	16	16	36	1.90
3750958--3751086	52	2.5	52	92	0	213	36	17	17	28	1.93
3756738--3756762	13	1.9	13	100	0	50	36	16	16	32	1.90
3756784--3756880	19	5.8	18	72	27	97	37	17	12	32	1.87
3756779--3756878	32	3.1	32	98	0	191	36	18	12	34	1.87
3756803--3756859	13	3.9	13	76	24	60	33	17	14	35	1.90
3757669--3757961	52	5.7	55	78	14	197	31	18	28	22	1.97
3757779--3758150	92	4.0	92	90	2	546	29	18	27	25	1.98
3757713--3758145	43	9.1	49	79	10	470	30	18	26	24	1.97
3758145--3758345	32	6.2	33	91	2	313	19	17	34	28	1.94
3758360--3758667	31	9.2	33	80	7	277	31	13	34	19	1.91
3758419--3758734	31	9.7	31	76	12	258	29	15	35	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3758450--3758741	100	2.9	100	91	3	437	30	15	35	19	1.92
3758364--3758672	131	2.3	131	88	5	449	31	13	34	20	1.92
3766540--3766637	19	5.8	18	68	28	72	37	16	11	34	1.84
3766535--3766635	32	3.1	32	92	1	166	36	16	10	35	1.84
3766559--3766615	13	3.9	13	72	24	51	35	17	12	35	1.87
3768207--3768328	20	5.6	20	70	19	91	40	13	16	30	1.86
3768749--3769234	245	2.0	245	99	0	963	36	15	20	26	1.93
3769470--3770066	28	20.9	28	88	2	780	22	16	31	29	1.96
3771149--3771218	8	8.8	8	76	16	65	2	2	11	82	0.88
3771152--3771215	10	6.9	9	82	8	67	3	3	10	82	0.89

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