genome.fa.s9.2.7.7.80.10.50.1000.22.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: Scaffold9
Parameters: 2 7 7 80 10 50 1000
Length:  3883850

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   

This is table  22  of  24  ( 2830 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)
3428454--3429105	184	3.5	181	88	2	901	25	26	18	29	1.98
3428454--3429119	245	2.7	243	83	4	847	26	26	19	28	1.98
3428454--3429105	61	10.7	61	84	4	805	25	26	18	29	1.98
3429739--3429811	29	2.5	30	86	2	103	26	19	16	38	1.92
3432309--3432379	27	2.6	27	86	2	106	23	35	16	23	1.95
3432338--3432663	79	4.1	80	80	4	286	27	25	13	33	1.93
3432338--3432663	158	2.1	158	81	4	372	27	25	13	33	1.93
3437402--3437429	3	9.3	3	100	0	56	32	35	0	32	1.58
3439110--3439174	32	2.0	33	84	3	87	43	10	15	30	1.81
3441916--3441942	13	2.1	13	100	0	54	37	14	7	40	1.74
3442009--3442033	13	1.9	13	100	0	50	36	16	16	32	1.90
3445425--3445604	59	2.8	64	80	11	217	37	20	22	20	1.94
3445593--3446941	31	42.7	31	79	5	1117	20	18	30	31	1.96
3445593--3446941	64	21.4	64	76	7	1106	20	18	30	31	1.96
3446757--3446813	28	2.0	28	89	0	87	15	17	29	36	1.91
3446688--3446903	66	3.4	61	77	8	173	18	18	32	30	1.95
3445616--3446941	127	10.5	128	77	8	1041	20	17	30	31	1.96
3446927--3447079	62	2.4	62	86	6	202	32	14	26	27	1.95
3447101--3447201	34	3.0	34	81	5	107	39	10	29	19	1.86
3447069--3447256	95	2.0	92	82	9	227	39	11	28	20	1.87
3447235--3447345	29	3.8	29	87	1	132	30	17	25	27	1.97
3447267--3447345	29	2.7	29	96	0	140	27	18	25	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3454250--3454303	20	2.7	20	88	2	72	33	20	12	33	1.91
3456063--3456465	156	2.6	155	83	3	488	24	17	20	37	1.93
3458511--3458570	20	3.0	20	82	2	75	33	13	13	40	1.83
3462956--3463037	28	2.9	28	77	13	89	28	17	30	24	1.97
3463020--3463190	51	3.3	51	79	4	198	33	11	25	29	1.91
3463173--3463248	27	2.8	28	88	6	102	21	21	34	23	1.97
3462964--3463356	212	1.8	213	84	3	542	31	12	26	29	1.93
3465713--3465737	13	1.9	13	100	0	50	36	16	16	32	1.90
3465777--3465844	19	3.9	18	76	23	83	38	14	11	35	1.83
3465799--3465823	13	1.9	13	100	0	50	32	16	16	36	1.90
3465780--3465842	32	2.0	32	96	0	117	36	15	12	34	1.86
3476680--3476743	8	7.6	8	79	6	56	84	10	0	4	0.76
3476681--3476743	15	4.3	15	78	8	67	84	11	0	4	0.77
3476679--3476743	19	3.3	19	77	12	69	84	10	0	4	0.75
3476676--3476743	28	2.4	27	80	9	82	83	11	0	4	0.78
3477294--3477738	222	2.0	222	90	0	703	36	21	15	26	1.93
3478159--3479197	28	36.5	28	84	4	1215	30	29	17	23	1.97
3479284--3479403	49	2.6	47	84	5	136	20	25	20	32	1.97
3480326--3480502	50	3.7	50	68	20	146	30	15	10	43	1.80
3480389--3480460	20	3.6	20	75	0	72	31	13	9	44	1.77
3483964--3484013	20	2.5	20	90	0	73	32	18	8	42	1.79
3488703--3488959	80	3.2	80	82	7	265	30	24	10	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3488908--3488986	28	2.8	28	84	7	106	31	30	16	21	1.95
3488833--3489045	109	2.0	109	84	6	281	31	27	11	29	1.91
3489032--3489064	15	2.2	15	94	0	57	30	42	0	27	1.56
3488945--3489169	124	1.8	124	82	5	294	31	28	8	32	1.86
3489147--3489216	28	2.5	28	83	0	77	34	28	14	22	1.93
3490505--3490633	51	2.5	52	86	6	174	29	18	11	40	1.86
3495827--3495925	20	5.7	20	69	30	100	42	15	15	27	1.86
3495845--3495906	13	5.2	13	78	21	82	41	16	14	27	1.87
3495827--3495925	33	3.0	33	100	0	198	42	15	15	27	1.86
3495952--3495977	13	2.0	13	100	0	52	30	15	15	38	1.88
3498325--3498350	13	2.0	13	100	0	52	30	15	15	38	1.88
3498305--3498371	33	2.0	33	88	5	100	34	13	19	32	1.91
3499377--3499408	15	2.1	15	94	0	55	28	28	0	43	1.55
3502506--3502544	13	3.0	13	92	0	69	35	17	15	30	1.91
3502832--3502949	53	2.2	54	93	1	202	27	17	17	36	1.93
3503030--3503070	21	2.0	21	85	9	57	39	9	12	39	1.76
3503731--3503755	13	1.9	13	100	0	50	36	16	16	32	1.90
3503804--3503854	20	2.6	20	84	3	68	37	11	19	31	1.88
3507024--3507159	72	1.9	72	82	0	173	38	10	6	44	1.65
3512282--3512321	20	2.0	20	85	9	55	67	0	22	10	1.20
3512717--3512743	7	3.9	7	100	0	54	55	0	0	44	0.99
3513114--3513163	25	2.0	25	84	11	66	56	0	2	42	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3515187--3515216	2	15.0	2	100	0	60	50	0	0	50	1.00
3519732--3519773	18	2.3	19	83	4	50	33	2	2	61	1.21
3520574--3520601	13	2.2	13	100	0	56	21	21	14	42	1.88
3523785--3524063	138	2.0	138	98	0	540	36	20	15	27	1.93
3528141--3529457	156	8.5	156	84	2	1565	39	20	16	23	1.92
3528141--3529643	312	4.9	312	83	3	1651	39	20	15	23	1.91
3530594--3530678	31	2.7	31	96	0	161	37	21	8	32	1.83
3531191--3531231	16	2.6	16	88	11	66	90	7	0	2	0.54
3531190--3531256	14	4.9	14	81	1	64	85	8	2	2	0.81
3531190--3531234	22	2.1	22	92	8	76	91	6	0	2	0.50
3531190--3531234	1	45.0	1	81	0	54	91	6	0	2	0.50
3532477--3532970	28	17.5	28	85	4	600	29	29	16	24	1.97
3532477--3532970	85	5.8	85	87	2	645	29	29	16	24	1.97
3532477--3532970	141	3.5	142	88	2	735	29	29	16	24	1.97
3541075--3541113	20	1.9	21	94	5	71	38	20	20	20	1.94
3541103--3541140	20	1.9	19	94	5	67	36	15	10	36	1.82
3541189--3541213	13	1.9	13	100	0	50	32	8	16	44	1.76
3542609--3542645	13	2.8	13	91	0	56	32	13	16	37	1.87
3550533--3550674	34	4.0	35	82	9	180	45	1	23	29	1.62
3550534--3550697	73	2.3	73	97	1	312	43	1	23	31	1.61
3550690--3550714	13	1.9	13	100	0	50	32	0	12	56	1.36
3553312--3553669	84	4.2	85	82	8	410	34	13	29	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3553605--3553747	76	1.9	77	85	4	200	35	13	27	22	1.92
3553846--3554033	42	4.5	42	73	12	145	42	18	24	15	1.88
3553824--3554003	83	2.2	84	82	3	220	41	16	23	18	1.90
3553872--3554034	83	2.0	83	81	4	195	41	17	23	16	1.89
3553899--3554178	42	6.5	41	74	12	163	40	15	26	18	1.89
3554096--3554579	43	11.3	43	72	11	172	36	16	28	18	1.92
3553938--3554520	216	2.7	214	79	6	601	38	15	27	18	1.91
3554248--3554601	127	2.8	125	81	6	336	38	15	28	18	1.91
3554376--3554601	86	2.6	85	83	5	262	37	16	29	16	1.91
3554954--3555413	78	5.9	77	79	5	457	28	13	27	30	1.94
3554954--3555385	230	1.9	230	85	0	594	27	14	27	30	1.95
3554973--3555414	152	2.9	150	81	6	420	28	13	27	30	1.94
3555976--3556114	68	2.0	68	85	0	188	43	11	18	25	1.84
3559587--3559633	24	2.0	24	91	0	76	21	29	17	31	1.96
3560493--3561203	156	4.6	156	82	1	764	39	19	16	24	1.92
3560493--3561203	312	2.3	312	82	3	851	39	19	16	24	1.92
3561596--3561995	165	2.4	167	84	5	510	48	12	10	28	1.73
3561630--3562057	166	2.6	163	81	5	407	50	11	10	28	1.71
3564138--3564210	20	3.5	20	78	7	74	32	16	10	39	1.83
3565009--3565034	13	2.0	13	100	0	52	30	23	15	30	1.95
3565121--3565176	21	2.6	22	94	5	105	37	10	25	26	1.88
3565164--3565193	10	3.0	10	90	0	51	40	6	30	23	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3565219--3565355	53	2.6	53	95	1	238	26	17	18	37	1.93
3565325--3565395	20	3.5	20	77	11	74	29	12	16	40	1.86
3565435--3565475	21	2.0	21	85	9	57	39	9	12	39	1.76
3566169--3566351	79	2.3	79	80	3	208	26	25	12	35	1.91
3568495--3568520	13	2.0	13	100	0	52	30	15	15	38	1.88
3568475--3568538	32	2.0	33	90	3	103	28	14	18	39	1.90
3568475--3568545	19	4.0	18	72	25	62	26	12	21	39	1.89
3570091--3570116	13	2.0	13	100	0	52	38	15	15	30	1.88
3572185--3572215	15	2.1	15	93	0	53	12	22	16	48	1.80
3574018--3574062	21	2.1	21	84	8	56	22	20	4	53	1.63

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