genome.fa.s291.2.7.7.80.10.50.1000.4.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: Scaffold291
Parameters: 2 7 7 80 10 50 1000
Length:  742724

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 567 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)
435539--435655	22	5.2	22	71	25	102	21	0	40	38	1.53
435573--435684	56	2.0	56	96	0	206	21	0	39	39	1.54
440359--440528	34	5.0	34	99	0	331	20	0	38	41	1.52
440383--440484	25	4.4	25	66	28	80	20	0	38	41	1.53
440468--440579	56	2.0	56	94	0	197	20	1	40	37	1.63
440359--440579	68	3.4	66	90	7	309	20	0	38	40	1.59
442464--442542	16	4.9	16	78	3	77	55	3	1	39	1.26
442462--442542	33	2.5	32	88	4	110	54	3	1	40	1.26
442480--442548	16	4.2	16	85	7	95	56	1	1	40	1.17
443036--443091	22	2.3	26	79	11	66	48	0	3	48	1.19
443219--443273	24	2.2	25	84	12	69	58	3	0	38	1.16
443862--443886	2	12.5	2	100	0	50	48	0	0	52	1.00
451512--451600	30	3.0	30	74	0	88	40	15	3	40	1.64
452011--452057	2	23.5	2	100	0	94	51	0	48	0	1.00
452080--452148	34	2.0	34	97	0	129	13	14	34	37	1.85
452562--452615	18	2.9	18	77	2	54	31	3	1	62	1.23
455124--455158	3	11.7	3	100	0	70	68	0	0	31	0.90
456351--456497	73	2.0	73	94	2	260	40	7	20	31	1.80
458784--458814	2	15.5	2	100	0	62	0	0	48	51	1.00
458844--458868	2	12.5	2	100	0	50	52	0	0	48	1.00
458868--458902	2	17.5	2	100	0	70	51	0	48	0	1.00
460309--460367	31	1.9	31	92	0	100	27	13	1	57	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461234--461451	34	6.5	34	86	1	278	25	7	26	40	1.82
461234--461453	67	3.3	66	85	2	296	25	7	26	40	1.82
461234--461449	101	2.1	102	90	1	337	25	7	25	41	1.82
461757--461803	19	2.5	19	85	0	58	27	19	19	34	1.96
465867--466084	34	6.5	34	87	1	287	25	7	26	40	1.82
465867--466086	67	3.3	67	87	1	314	25	7	26	40	1.82
467464--467530	31	2.1	32	86	2	91	20	11	4	62	1.46
476116--476176	30	2.0	30	96	0	113	19	14	9	55	1.67
477875--477918	19	2.4	17	82	14	52	72	4	2	20	1.13
478061--478107	16	3.0	16	84	6	60	0	23	0	76	0.78
478061--478112	15	3.4	16	77	17	56	0	25	0	75	0.81
478610--478644	9	4.0	9	85	7	54	31	0	0	68	0.90
478641--478683	21	2.1	20	82	4	50	79	6	2	11	1.02
479346--479398	22	2.3	24	83	9	74	30	1	1	66	1.13
490219--490254	2	18.0	2	100	0	72	50	0	0	50	1.00
491663--491687	3	8.3	3	100	0	50	36	32	0	32	1.58
498332--498370	19	2.1	19	95	0	69	41	12	10	35	1.77
501102--501163	18	3.5	18	70	12	56	37	11	20	30	1.88
501097--501166	35	2.0	35	91	0	113	35	11	20	32	1.88
503861--503952	11	8.5	11	70	13	66	42	0	0	57	0.98
503903--503963	16	4.1	16	72	20	51	37	0	1	60	1.07
504097--504162	21	3.0	22	75	16	66	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504436--504539	48	2.2	47	78	18	108	56	0	0	43	0.99
505508--505572	24	2.8	23	76	15	71	72	4	9	13	1.26
505608--505684	37	2.1	36	83	7	93	42	0	0	57	0.99
505664--505714	19	2.5	21	84	6	70	49	0	0	50	1.00
507473--507497	13	1.9	13	100	0	50	48	12	0	40	1.40
509184--509253	5	14.4	5	74	16	58	44	0	0	55	0.99
509181--509252	24	3.0	24	80	12	67	45	0	0	54	0.99
509182--509253	29	2.6	29	85	8	89	45	0	0	54	0.99
509984--510026	19	2.3	19	84	8	52	27	4	6	60	1.43
510129--510159	14	2.3	14	94	5	55	54	0	0	45	0.99
510918--510956	20	2.0	20	90	9	64	64	0	0	35	0.94
510953--510998	17	2.8	16	80	12	58	43	0	2	54	1.12
511754--511817	19	3.0	22	75	17	62	53	0	0	46	1.00
511775--511829	25	2.2	26	81	15	71	56	0	0	43	0.99
511815--511859	18	2.6	18	78	3	56	48	0	0	51	1.00
512575--512617	21	2.1	20	87	12	61	48	0	0	51	1.00
514528--514607	30	2.6	31	82	9	94	47	0	0	52	1.00
516542--516643	36	2.7	38	79	8	120	45	15	8	30	1.77
516733--516767	5	7.0	5	93	0	61	80	17	0	2	0.84
519155--519217	27	2.3	26	84	10	74	61	0	1	36	1.05
519184--519260	15	5.1	15	81	9	77	62	0	0	37	0.96
519151--519234	34	2.4	35	80	9	100	59	0	1	39	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519241--519320	31	2.5	32	78	10	83	60	2	0	37	1.11
519991--520133	18	7.7	18	69	18	71	40	0	0	58	1.03
520005--520074	19	3.6	19	82	3	77	50	0	0	50	1.00
520067--520138	30	2.3	30	86	9	92	34	0	0	65	0.93
519969--520138	32	5.4	31	73	16	100	40	1	0	58	1.10
520261--520309	20	2.6	18	81	9	62	26	4	4	65	1.29
521353--521407	23	2.6	20	79	20	67	36	3	3	56	1.34
523083--523132	18	2.8	18	82	8	59	40	4	2	54	1.31
523538--523587	3	16.7	3	95	0	91	70	0	0	30	0.88
523845--523917	26	2.8	27	73	10	71	34	0	2	63	1.09
524061--524133	36	2.0	38	82	15	91	54	6	5	32	1.50
524369--524414	18	2.5	18	82	3	65	28	4	15	52	1.61
524767--524809	20	2.1	20	83	12	52	53	0	4	41	1.21
525812--525863	19	2.7	20	81	6	61	44	0	5	50	1.26
531082--531126	12	3.9	11	82	8	54	66	2	0	31	1.04
531082--531125	23	1.9	23	90	0	70	65	2	0	31	1.05
532246--532284	18	2.2	18	90	4	62	48	0	0	51	1.00
533867--533905	21	1.9	21	84	5	53	58	2	5	33	1.33
534051--534117	29	2.2	31	84	10	86	53	4	1	40	1.30
535259--535311	16	3.3	16	86	0	70	64	1	0	33	1.05
535665--535718	23	2.3	23	84	6	65	46	9	3	40	1.54
537290--537341	19	2.7	19	84	0	68	30	34	11	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541488--541641	81	1.9	82	93	1	265	36	18	11	34	1.86
544128--544192	32	2.0	34	84	6	89	50	0	4	44	1.22
544138--544290	57	2.7	58	79	13	167	56	0	1	41	1.10
544138--544279	27	4.9	31	79	12	133	58	0	1	40	1.07
544417--544441	11	2.3	11	100	0	50	52	0	0	48	1.00
544440--544516	24	2.9	27	77	14	81	63	0	2	33	1.08
544435--544493	21	2.9	22	75	12	63	61	0	1	37	1.07
544422--544516	11	8.2	11	70	15	57	63	0	2	34	1.07
544672--544700	2	14.5	2	100	0	58	0	51	0	48	1.00
550190--550229	21	1.9	21	89	0	62	2	7	7	82	0.92
551370--551394	12	2.1	12	100	0	50	32	16	0	52	1.44
559472--559506	2	18.5	2	88	11	56	48	0	0	51	1.00
560889--562158	209	6.1	210	78	5	1146	29	21	15	33	1.94
563236--563553	159	2.0	159	94	1	557	30	20	23	25	1.98
564464--564506	17	2.4	19	81	18	56	44	0	2	53	1.13
564728--564791	20	3.3	20	79	14	80	39	1	0	59	1.07
564728--564797	11	6.9	10	76	14	72	38	1	0	60	1.06
564749--564806	22	2.7	22	79	12	66	37	1	0	60	1.07
564729--564783	28	2.0	28	85	7	76	40	1	0	58	1.09
565032--565108	11	7.4	11	71	22	51	33	2	0	63	1.08
565044--565084	17	2.5	16	92	4	64	36	0	0	63	0.95
565058--565106	10	4.7	11	76	20	52	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565044--565123	33	2.4	33	76	19	87	33	0	2	63	1.08
565022--565106	31	2.8	30	78	14	93	34	2	1	62	1.16
565357--565401	19	2.4	18	85	10	63	44	0	0	55	0.99
569373--569445	38	1.9	38	88	0	110	31	13	17	36	1.89
572070--572130	16	3.9	16	76	8	63	47	3	0	49	1.18
572640--572689	19	2.7	19	78	3	57	36	2	0	62	1.07
572669--572741	32	2.3	32	81	11	96	30	0	1	68	0.98
572659--572741	39	2.2	40	83	14	104	30	1	1	67	1.06
572634--572737	22	4.8	22	69	14	74	31	0	0	66	1.05
573503--573641	16	7.9	17	69	22	83	60	0	0	38	1.02

Tables:   1   2   3   4   5