genome.fa.s142.2.7.7.80.10.50.1000.3.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: Scaffold142
Parameters: 2 7 7 80 10 50 1000
Length:  1427168

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 953 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)
504107--504194	4	23.0	4	82	9	85	50	17	0	32	1.46
504107--504194	16	5.5	16	84	10	108	50	17	0	32	1.46
504150--504198	22	2.2	22	96	0	89	51	16	0	32	1.45
507130--507338	105	2.0	107	83	6	264	13	34	20	31	1.91
513331--513389	26	2.2	26	85	8	75	44	0	0	55	0.99
514992--515045	17	3.2	17	74	7	56	31	0	3	64	1.11
516052--516241	95	2.0	95	98	0	371	38	8	6	46	1.61
517714--517758	2	22.5	2	95	0	81	48	2	0	48	1.13
525254--525293	2	19.5	2	94	5	71	50	2	0	47	1.14
525898--525957	21	2.9	21	76	18	63	60	1	0	38	1.07
526870--526917	2	23.5	2	87	4	69	52	2	0	45	1.12
527701--527741	2	20.5	2	94	0	73	46	2	0	51	1.14
532500--532541	22	1.9	22	90	0	66	47	2	9	40	1.49
532757--532782	2	13.0	2	100	0	52	50	0	0	50	1.00
533196--533229	2	17.0	2	100	0	68	50	0	0	50	1.00
533627--533668	22	1.9	22	90	9	68	61	0	0	38	0.96
539032--539075	17	2.5	18	81	7	63	27	0	0	72	0.85
539127--539180	28	1.9	27	88	7	81	48	0	1	50	1.11
539740--539947	50	4.2	50	88	0	299	31	17	19	31	1.95
542824--543005	98	1.9	98	94	0	319	31	13	16	37	1.88
558432--558468	17	2.2	17	95	0	65	48	0	0	51	1.00
564951--564993	20	2.2	20	84	16	54	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565099--565123	2	12.5	2	100	0	50	48	0	0	52	1.00
565692--565750	28	2.0	28	87	9	82	61	0	0	38	0.96
565696--565772	28	2.7	30	74	10	70	58	3	0	37	1.17
566966--567017	21	2.4	21	84	9	61	46	0	0	53	1.00
568434--568465	2	16.0	2	100	0	64	50	0	0	50	1.00
571034--571073	2	20.0	2	89	0	62	45	0	2	52	1.14
571354--571393	2	20.0	2	100	0	80	50	0	0	50	1.00
573645--573702	7	7.4	8	74	16	50	62	0	1	36	1.06
573662--573712	25	2.1	24	82	7	59	62	1	0	35	1.06
574240--574272	17	1.9	17	93	0	57	60	0	0	39	0.97
574225--574279	23	2.5	21	77	11	56	50	0	0	49	1.00
574835--574872	19	2.1	18	90	5	58	47	0	0	52	1.00
577117--577165	22	2.2	22	82	7	55	26	2	2	69	1.10
577184--577234	16	3.1	16	75	13	59	49	0	0	50	1.00
579516--579622	48	2.3	46	81	12	119	57	0	0	40	1.11
581078--581136	29	2.0	30	83	9	77	64	0	1	33	1.04
581108--581167	21	3.0	20	85	9	77	56	0	3	40	1.16
581232--581311	15	5.3	15	75	10	56	56	0	2	41	1.13
581742--581790	17	3.1	17	72	16	52	48	2	0	48	1.12
582022--582075	21	2.6	21	81	0	54	50	0	1	48	1.11
582070--582099	15	2.1	15	93	6	53	43	0	0	56	0.99
582409--582471	16	3.9	16	75	22	60	57	0	1	41	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582412--582464	17	3.2	17	79	12	65	60	0	1	37	1.08
586743--586830	31	2.7	34	72	19	87	57	3	0	38	1.15
586770--586821	20	2.7	18	80	14	59	53	3	0	42	1.19
587446--587473	6	4.7	6	100	0	56	17	0	0	82	0.68
588497--588558	27	2.3	29	78	16	78	46	0	0	53	1.00
590058--590084	14	1.9	14	100	0	54	44	3	0	51	1.19
590055--590105	24	2.2	23	85	3	66	43	1	0	54	1.11
589977--590093	42	2.6	43	77	15	121	49	1	1	47	1.21
594219--594253	2	17.5	2	100	0	70	0	51	0	48	1.00
595275--595314	19	2.1	19	85	0	53	35	5	0	60	1.19
595522--595572	21	2.6	20	80	19	63	39	0	0	60	0.97
603114--603143	3	10.0	3	100	0	60	66	0	33	0	0.92
605073--605101	3	9.7	3	100	0	58	31	0	0	68	0.89
607767--607803	18	2.1	18	89	0	56	35	0	5	59	1.20
609648--609678	2	15.5	2	100	0	62	48	0	0	51	1.00
610397--610454	29	2.0	29	96	0	107	25	15	10	48	1.77
611935--611986	27	1.9	27	100	0	104	19	25	11	44	1.84
613071--613133	31	2.0	31	93	0	108	50	9	4	34	1.56
613358--613472	55	2.1	55	93	0	194	49	5	3	41	1.42
613450--613501	28	1.9	28	88	7	81	51	0	0	48	1.00
621188--621258	27	2.6	27	88	6	99	22	7	23	46	1.76
624988--625017	3	10.0	3	100	0	60	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626947--626975	3	9.7	3	100	0	58	31	0	0	68	0.89
629268--629294	2	13.5	2	100	0	54	48	0	0	51	1.00
631793--631850	29	2.0	29	100	0	116	27	13	10	48	1.75
633331--633382	27	1.9	27	100	0	104	19	25	11	44	1.84
634466--634528	31	2.0	31	90	0	99	49	9	6	34	1.61
634783--634893	55	2.0	55	94	0	195	47	7	4	40	1.51
638509--638602	20	4.7	19	72	22	77	55	1	1	42	1.14
638544--638623	20	4.0	21	75	15	64	50	1	1	47	1.17
638532--638634	9	11.2	9	67	21	54	52	0	0	45	1.13
638587--638627	20	2.0	20	95	0	73	48	0	0	51	1.00
638590--638637	20	2.5	20	86	6	64	50	0	0	50	1.00
638788--638817	3	10.0	3	100	0	60	66	0	0	33	0.92
642535--642590	28	1.9	30	82	13	73	55	0	1	42	1.10
642565--642627	18	3.7	17	70	19	51	55	0	1	42	1.09
644180--644217	3	12.7	3	100	0	76	68	0	0	31	0.90
647954--648125	86	2.0	86	100	0	344	44	12	12	30	1.80
649927--649955	10	3.0	10	95	5	51	48	0	0	51	1.00
651786--651860	21	3.6	21	75	16	59	56	0	0	44	0.99
651787--651840	16	3.4	16	72	10	56	55	0	0	44	0.99
651800--651859	20	2.9	22	75	22	58	55	0	0	45	0.99
652100--652169	25	2.7	26	82	10	90	42	0	0	57	0.99
652076--652214	27	5.2	27	78	13	119	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
652164--652214	21	2.5	22	81	12	63	33	0	0	66	0.92
652175--652205	11	2.9	11	95	4	55	32	0	0	67	0.91
652129--652214	44	2.0	44	81	9	104	34	0	0	65	0.93
652581--652683	47	2.3	44	76	20	106	57	0	0	41	1.05
652594--652659	21	2.9	21	80	17	69	54	0	0	45	0.99
652594--652682	26	3.6	25	76	20	80	55	0	1	43	1.07
661205--661317	55	2.0	56	87	1	165	28	20	19	31	1.97
663604--663670	22	3.2	21	76	12	59	50	0	0	49	1.00
664557--664596	21	1.9	21	89	0	62	40	2	2	55	1.27
668736--668780	11	4.0	11	80	5	54	35	0	0	64	0.94
668763--668805	22	2.0	22	95	0	77	51	0	0	48	1.00
668854--668892	11	3.5	11	86	6	51	25	0	5	69	1.09
669304--669350	18	2.7	17	77	12	51	40	2	0	57	1.11
670812--670838	4	6.8	4	100	0	54	77	0	0	22	0.76
671258--671309	9	5.3	9	74	17	50	42	0	0	57	0.98
671258--671308	20	2.6	19	81	9	66	43	0	0	56	0.99
672230--672295	9	7.4	9	72	14	57	54	1	0	43	1.09
672213--672291	29	2.7	30	76	11	83	56	2	0	40	1.12
675118--675174	26	2.1	28	84	12	75	42	1	0	56	1.10
675774--675798	13	1.9	13	100	0	50	8	4	0	88	0.64
679319--679425	33	3.2	34	72	18	98	49	0	0	50	1.00
679356--679455	29	3.0	35	78	17	108	46	0	0	54	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679370--679452	24	3.3	24	72	25	73	45	0	0	54	0.99
679386--679420	11	3.3	11	88	4	54	48	0	0	51	1.00
679387--679466	29	2.8	28	77	17	85	46	0	0	53	1.00
679861--679900	3	13.3	3	94	0	71	32	2	0	65	1.06
680060--680092	15	2.2	15	94	0	57	51	0	0	48	1.00
685443--685497	16	3.4	16	76	20	60	41	0	1	56	1.10
685440--685522	33	2.5	32	84	3	94	42	0	1	56	1.07
691754--691788	17	2.0	18	88	5	54	74	0	2	22	0.95
692564--692629	20	3.2	21	70	18	59	48	0	0	51	1.00
692584--692642	32	1.9	31	86	6	84	49	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8