sallet_3.scaffold.fasta.s109.2.7.7.80.10.50.500.1.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: scaffold20
Parameters: 2 7 7 80 10 50 500
Length:  668238

Tables:   1   2   

This is table  1  of  2  ( 179 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)
1047--1132	39	2.2	39	91	4	138	50	12	13	23	1.77
1631--1674	23	1.9	23	100	0	88	13	27	34	25	1.93
25223--25270	21	2.3	21	92	0	78	41	0	27	31	1.56
31694--31756	15	4.2	15	95	0	108	41	39	9	9	1.70
33284--33516	124	1.9	124	95	0	421	33	18	17	31	1.94
95876--95901	12	2.2	12	100	0	52	7	15	0	76	0.99
141069--141140	22	3.3	22	78	7	76	27	29	34	8	1.86
143134--143189	21	2.7	21	97	0	103	23	44	25	7	1.78
144771--144808	3	12.7	3	88	0	58	34	34	28	2	1.71
145279--145319	12	3.4	12	89	0	64	17	24	51	7	1.70
146907--146945	17	2.3	17	90	0	60	28	28	25	17	1.98
147762--147837	21	3.4	22	89	10	111	10	23	18	47	1.79
147938--147967	12	2.5	12	94	0	51	6	53	13	26	1.64
151253--151294	7	6.1	7	86	13	61	28	54	14	2	1.52
152674--152717	21	2.1	21	87	8	63	15	29	45	9	1.77
152793--152874	30	2.7	30	80	0	92	14	31	42	10	1.81
153546--153859	30	10.5	30	96	0	565	17	29	38	14	1.89
154116--154153	9	4.2	9	89	0	58	55	10	31	2	1.48
154152--154183	15	2.1	15	100	0	64	40	25	21	12	1.88
179359--179432	18	4.1	18	91	3	114	9	33	41	14	1.79
196986--197020	9	3.9	9	84	0	52	34	28	37	0	1.58
221787--221818	12	2.7	12	90	0	55	15	40	43	0	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
226086--226117	9	3.6	9	100	0	64	0	21	34	43	1.53
241400--241465	27	2.4	27	84	0	78	22	34	18	24	1.96
241416--241483	27	2.5	27	90	0	100	14	35	20	29	1.93
241520--241615	33	2.9	34	78	4	97	16	36	27	19	1.93
285625--285650	9	2.9	9	100	0	52	34	42	23	0	1.54
292303--292356	18	3.0	18	80	0	63	5	25	20	48	1.71
302183--302215	12	2.8	12	90	4	50	9	9	27	54	1.62
302475--302505	15	2.1	15	100	0	62	32	6	25	35	1.82
360180--360221	18	2.4	17	84	11	57	14	38	35	11	1.83
360191--360228	18	2.1	18	90	0	58	13	34	39	13	1.83
362326--362350	9	2.8	9	100	0	50	24	44	24	8	1.80
376919--376978	24	2.5	24	77	0	66	21	26	38	13	1.90
389571--389723	51	3.0	51	94	0	261	22	39	28	9	1.85
389605--389636	15	2.1	15	100	0	64	25	46	12	15	1.81
389656--389687	15	2.1	15	100	0	64	18	46	18	15	1.84
389669--389750	36	2.3	36	91	0	128	20	42	26	9	1.83
394458--394499	9	4.7	9	90	0	57	0	19	54	26	1.44
424367--424406	21	1.9	21	90	10	64	2	42	7	47	1.45
424390--424425	12	3.1	12	88	4	56	0	47	5	47	1.25
424381--424425	24	1.9	23	86	4	63	2	44	4	48	1.35
433011--433053	9	4.8	9	91	0	68	0	20	34	44	1.52
436161--436219	21	2.8	21	75	10	66	16	23	32	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486461--486609	45	3.4	45	78	7	153	18	40	25	16	1.90
486715--486742	12	2.3	12	100	0	56	0	32	35	32	1.58
502833--502873	11	3.8	11	80	6	57	9	46	0	43	1.36
503790--503841	24	2.2	24	96	0	95	26	38	19	15	1.91
503794--503849	24	2.5	22	85	8	69	26	41	16	16	1.88
504315--504461	45	3.3	46	81	13	168	24	30	27	17	1.97
504360--504584	123	1.8	125	86	2	328	23	30	29	16	1.96
504360--504630	123	2.2	122	80	7	278	23	31	29	15	1.95
506760--506836	6	12.8	6	83	5	75	24	45	29	0	1.54
506760--506821	18	3.4	18	88	0	88	24	46	29	0	1.53
506760--506852	18	5.2	17	82	7	69	27	44	27	0	1.55
507847--507924	24	3.4	24	73	20	76	26	46	23	3	1.69
507847--507924	21	3.6	21	76	11	68	26	46	23	3	1.69
508257--508338	12	6.8	12	94	0	137	17	9	24	48	1.76
508470--508560	22	4.0	22	85	5	110	17	7	25	49	1.73
508468--508556	12	7.6	12	74	12	69	17	7	23	50	1.72
508480--508560	12	7.1	12	75	10	71	17	8	25	48	1.76
508480--508570	44	2.1	43	81	8	103	17	9	26	46	1.79
508628--508652	12	2.1	12	100	0	50	24	8	20	48	1.76
508937--509009	24	3.0	25	91	4	121	36	31	10	20	1.87
508935--509013	25	3.2	25	90	3	133	36	30	12	20	1.90
509049--509203	18	8.7	18	85	11	187	27	24	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509050--509180	33	3.9	34	85	11	180	25	24	18	32	1.97
509048--509180	51	2.6	51	98	0	257	25	24	18	31	1.97
509164--509218	23	2.4	23	93	0	92	32	23	16	27	1.96
509167--509226	23	2.7	23	87	7	81	31	25	16	26	1.96
511037--511071	12	2.9	12	91	0	61	34	8	42	14	1.76
511232--511297	24	2.7	24	83	6	89	34	39	15	10	1.82
511311--511406	16	6.0	16	82	0	102	31	37	11	19	1.88
511311--511406	48	2.0	48	83	0	120	31	37	11	19	1.88
511412--511494	20	4.4	19	74	18	84	21	60	2	15	1.47
511477--511543	20	3.5	20	74	12	68	23	58	1	16	1.47
511486--511554	17	3.9	17	69	12	50	24	53	1	20	1.54
511638--511662	13	1.9	13	100	0	50	0	72	4	24	1.02
512719--512744	12	2.2	12	100	0	52	15	23	46	15	1.83
524202--524250	21	2.3	21	79	6	55	16	48	28	6	1.69
529791--529903	12	9.9	12	72	11	94	11	17	43	27	1.84
529902--529955	18	3.0	18	80	0	63	27	27	18	25	1.98
531780--531815	12	2.9	13	92	8	58	13	38	16	30	1.88
532656--532708	10	5.3	10	95	0	97	9	0	58	32	1.30
532659--532748	20	4.4	20	83	12	85	13	1	56	28	1.44
532922--532963	17	2.5	17	100	0	84	19	9	50	21	1.75
532922--533018	17	6.1	15	78	10	70	20	16	41	21	1.90
532945--533007	31	2.1	30	84	3	81	20	17	41	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532967--533018	15	3.4	15	81	2	59	21	23	34	21	1.97
532945--533036	46	2.0	46	82	4	114	22	19	36	20	1.95
533059--533093	18	1.9	18	88	0	52	20	14	40	25	1.90
533177--533217	18	2.3	18	87	8	57	34	12	19	34	1.89
533297--533353	18	3.2	18	87	0	78	31	10	19	38	1.86
536678--536759	12	6.4	13	80	8	80	15	40	8	35	1.78
536685--536734	13	3.8	13	84	7	66	16	40	8	36	1.77
536685--536759	39	1.9	39	91	0	123	16	40	8	36	1.77
537987--538030	16	2.8	16	92	0	79	9	18	45	27	1.79
538393--538440	14	3.4	14	97	0	87	22	50	0	27	1.50
538381--538448	28	2.3	31	75	17	81	17	44	1	36	1.58
543273--543304	14	2.3	14	100	0	64	21	6	31	40	1.78
543307--543337	9	3.4	9	95	0	53	16	12	38	32	1.86
584303--584346	12	3.7	12	96	0	79	0	40	15	43	1.47
585432--585480	16	3.1	16	90	0	71	24	6	22	46	1.74
585453--585485	16	2.1	16	94	0	57	21	6	24	48	1.72
587621--587663	21	2.0	21	86	0	59	13	25	46	13	1.81
588124--588169	19	2.3	20	81	3	58	4	2	52	41	1.33
590047--590176	9	14.4	9	78	0	80	28	19	30	22	1.98
590112--590185	36	2.1	36	81	0	85	27	18	31	22	1.98
590171--590227	9	6.8	8	91	4	69	36	15	36	10	1.82
590181--590211	8	3.9	8	95	0	53	38	19	38	3	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593303--593329	13	2.1	13	100	0	54	29	7	14	48	1.71
593341--593389	16	3.1	16	81	0	62	28	20	22	28	1.98
599066--599127	12	5.2	12	84	7	81	27	1	56	14	1.48
599166--599196	12	2.6	12	94	0	53	16	0	48	35	1.46
599133--599256	64	2.0	63	81	1	149	20	0	47	30	1.56
599274--599346	21	3.5	21	81	7	87	13	6	50	28	1.67
601564--601637	20	3.9	17	78	16	58	35	40	8	16	1.78
601582--601734	11	14.6	11	76	19	102	33	41	9	16	1.80
601605--601679	20	3.8	20	92	0	123	30	40	9	20	1.84
601582--601729	20	7.2	19	77	17	106	33	40	9	16	1.80

Tables:   1   2