genome.fa.s462.2.7.7.80.10.50.1000.4.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: Scaffold462
Parameters: 2 7 7 80 10 50 1000
Length:  1234098

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 854 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)
488475--488524	19	2.6	19	80	3	55	42	16	14	28	1.86
496786--496974	97	1.9	97	89	4	292	38	12	21	27	1.90
499403--499454	20	2.5	20	81	3	59	34	19	9	36	1.84
499423--499476	20	2.7	20	80	8	65	31	18	11	38	1.86
505233--505730	80	6.2	78	76	7	376	31	27	9	31	1.89
508333--509113	44	17.7	45	78	6	589	20	21	15	42	1.88
508341--509113	89	8.7	88	79	5	589	20	21	15	43	1.88
510224--510589	165	2.2	164	79	7	377	32	10	6	50	1.62
510410--510464	19	2.8	21	78	13	55	21	9	3	65	1.37
510351--510704	165	2.1	167	83	5	441	32	10	7	49	1.65
510569--510607	18	2.2	18	86	4	53	30	2	5	61	1.31
510359--510758	165	2.4	163	82	7	414	32	9	7	50	1.64
510675--511082	153	2.7	153	79	4	378	34	7	7	50	1.59
510741--511082	154	2.2	153	81	3	375	34	7	7	50	1.58
511203--511252	25	2.0	26	88	11	77	24	4	0	72	1.02
518065--518103	13	3.0	13	96	0	69	30	15	20	33	1.94
518223--518268	21	2.2	20	81	11	58	32	19	4	43	1.71
520633--520658	13	2.0	13	100	0	52	38	15	15	30	1.88
524485--524531	19	2.3	21	86	13	64	34	4	6	55	1.45
532530--532574	21	2.1	21	84	8	56	53	4	20	22	1.63
534369--534399	15	2.1	15	93	0	53	48	16	22	12	1.80
536617--536662	21	2.2	20	81	11	58	32	19	4	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539037--539062	13	2.0	13	100	0	52	38	15	15	30	1.88
540160--540205	23	2.0	24	86	4	67	71	10	13	4	1.27
541537--542844	27	48.0	27	89	2	1884	23	33	14	28	1.94
541537--542833	82	15.9	82	89	2	1898	23	33	14	28	1.94
542844--543231	32	12.1	32	91	2	618	31	32	18	17	1.94
544964--545015	25	2.1	24	83	16	63	44	3	7	44	1.51
547791--548560	312	2.5	311	80	5	849	37	19	16	26	1.93
547791--548547	156	4.9	157	77	5	694	37	19	17	26	1.93
549606--549660	25	2.3	24	84	12	69	9	10	1	78	1.05
549626--549674	23	2.0	24	88	7	73	12	6	4	77	1.09
550027--550534	164	3.1	163	77	5	497	48	8	11	32	1.69
555733--555858	52	2.4	52	97	0	234	26	19	18	35	1.94
555867--555891	13	1.9	13	100	0	50	36	16	16	32	1.90
556809--557332	141	3.7	142	82	5	567	29	17	26	25	1.97
556809--557329	49	10.8	49	77	11	434	29	17	26	25	1.97
557202--557272	21	3.3	21	63	18	56	29	16	23	29	1.97
557357--557628	28	9.4	28	77	10	219	20	16	29	34	1.94
557357--557628	57	4.7	56	79	8	253	20	16	29	34	1.94
557388--557658	29	9.4	29	79	9	195	20	15	29	34	1.94
557390--557664	85	3.2	87	83	7	287	20	15	29	34	1.93
559101--559193	1	93.0	1	71	0	69	1	3	9	86	0.74
559092--559190	11	9.5	10	80	15	96	1	3	11	84	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559101--559191	32	2.8	32	85	8	114	1	3	9	85	0.75
559092--559194	43	2.4	43	85	9	138	0	2	11	84	0.78
559101--559193	45	2.1	45	88	7	138	1	3	9	86	0.74
572896--573021	52	2.4	52	97	0	234	26	19	17	35	1.94
572896--573041	52	2.8	52	91	2	186	28	19	17	33	1.95
576108--576253	52	2.8	52	90	4	224	30	17	17	34	1.93
576294--576318	13	1.9	13	100	0	50	32	16	16	36	1.90
577009--577607	43	11.8	52	71	17	252	34	15	24	25	1.95
577119--577245	67	1.9	68	86	1	184	38	12	25	23	1.90
576904--577330	227	1.9	228	85	5	605	36	15	24	23	1.94
577258--577620	43	7.8	48	79	13	391	32	17	23	26	1.97
577415--577482	22	3.1	22	62	19	52	30	17	25	26	1.97
577249--577625	92	4.1	92	92	3	596	32	16	24	25	1.96
577613--577880	32	8.3	32	86	8	323	18	17	35	29	1.93
577620--577880	65	4.0	65	84	7	334	18	17	35	28	1.94
577886--578128	27	8.0	28	74	19	170	31	14	34	20	1.92
577911--578269	34	11.0	34	77	11	315	32	14	34	19	1.91
577946--578097	28	5.2	28	78	15	130	29	15	34	20	1.93
578064--578266	69	2.9	69	88	0	316	33	13	33	19	1.91
578202--578286	34	2.9	27	72	21	80	32	12	34	20	1.90
578356--578542	30	5.8	33	74	17	162	29	16	29	24	1.96
578351--578543	64	3.1	64	90	2	293	29	16	29	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578622--578680	24	2.4	24	94	2	100	32	6	27	33	1.83
579513--579574	23	2.7	24	82	12	85	0	11	4	83	0.78
579512--579574	27	2.3	26	86	10	83	0	12	4	82	0.82
579519--579573	16	3.6	16	80	4	60	0	9	5	85	0.74
586626--586745	52	2.3	52	94	0	204	30	16	17	35	1.92
586621--586765	52	2.8	51	86	4	193	30	16	17	35	1.93
586754--586802	13	3.8	13	100	0	98	36	14	16	32	1.89
586843--586898	20	2.8	20	97	2	105	48	10	14	26	1.76
586887--586911	13	1.9	13	100	0	50	32	16	16	36	1.90
587493--587821	43	7.1	43	75	12	226	27	17	26	28	1.98
587552--587865	52	6.5	50	75	14	275	28	17	27	27	1.98
587552--587868	144	2.2	145	90	0	483	28	17	26	27	1.98
587642--587821	95	1.8	95	83	7	234	28	17	27	27	1.97
587689--587865	95	1.9	93	85	4	248	29	17	27	25	1.98
587939--588085	30	5.1	29	77	5	136	24	17	28	29	1.97
588031--588095	29	2.2	29	83	5	78	30	20	20	29	1.97
587926--588115	86	2.2	87	84	3	249	22	15	29	33	1.94
589560--589685	1	126.0	1	72	0	90	1	4	7	85	0.78
589551--589682	11	12.5	10	78	15	115	1	4	9	84	0.81
589568--589668	47	2.2	46	82	10	118	1	3	8	85	0.80
589551--589684	64	2.1	64	87	8	195	1	4	8	85	0.80
597236--597263	13	2.2	13	100	0	56	32	17	14	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
597219--597284	33	2.0	33	88	5	98	28	18	13	39	1.89
606683--606707	13	1.9	13	100	0	50	36	16	16	32	1.90
606749--606846	19	5.8	19	71	26	103	35	17	12	34	1.87
606770--606826	13	3.9	13	72	24	51	33	15	14	36	1.88
606751--606845	32	3.0	32	96	0	181	34	17	12	34	1.88
609554--609579	13	2.0	13	100	0	52	30	15	15	38	1.88
609537--609601	33	2.0	32	91	8	105	36	16	15	30	1.90
612322--612347	13	2.0	13	100	0	52	30	15	15	38	1.88
618757--618817	1	61.0	1	76	0	59	88	6	4	0	0.63
618748--618816	11	6.8	10	80	12	70	86	8	4	0	0.68
618748--618794	23	2.1	22	92	4	76	89	10	0	0	0.49
618748--618805	17	3.3	18	83	9	75	87	10	1	0	0.60
618757--618817	29	2.2	27	88	5	86	88	6	4	0	0.63
618748--618816	20	3.4	19	78	15	68	86	8	4	0	0.68
618748--618817	21	3.2	20	84	11	77	87	8	4	0	0.67
618758--618820	10	6.2	10	82	10	65	87	6	6	0	0.68
619785--620317	55	9.3	55	79	10	496	27	27	21	24	1.99
623736--623956	51	4.3	51	79	5	205	28	27	12	31	1.93
623775--623956	52	3.5	51	80	10	174	28	27	10	32	1.91
623890--624096	107	1.9	106	81	7	249	26	28	14	30	1.95
629565--629615	20	2.5	20	90	0	75	41	19	9	29	1.84
629718--629762	13	4.0	12	75	24	53	35	15	15	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
629947--630074	64	2.0	64	98	0	247	46	19	15	18	1.85
631043--631067	13	1.9	13	100	0	50	36	16	16	32	1.90
631058--631108	20	2.6	20	87	3	68	33	15	15	35	1.90
631052--631108	19	3.0	20	79	7	73	35	15	15	33	1.90
631943--632009	36	1.9	35	88	11	102	31	25	10	32	1.89
632379--632417	20	2.0	20	85	5	53	38	10	10	41	1.73
632468--632492	13	1.9	13	100	0	50	32	16	16	36	1.90
640872--640897	13	2.0	13	100	0	52	38	15	15	30	1.88
643114--643158	21	2.1	21	84	8	56	53	4	20	22	1.63
644614--644657	21	2.1	21	83	8	54	25	31	4	38	1.76

Tables:   1   2   3   4   5   6   7   8