genome.fa.s144.2.7.7.80.10.50.1000.5.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: Scaffold144
Parameters: 2 7 7 80 10 50 1000
Length:  3311329

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  5  of  21  ( 2468 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)
545558--545615	23	2.5	22	81	13	55	24	1	3	70	1.12
546096--546138	13	3.3	13	83	0	50	79	0	11	9	0.95
545309--546683	693	2.0	667	83	7	1685	43	4	6	45	1.49
546651--546693	21	2.2	21	84	12	56	55	0	0	44	0.99
549673--549713	19	2.1	20	86	4	57	65	0	2	31	1.05
550419--550457	21	1.9	19	85	10	51	43	0	2	53	1.14
550451--550489	20	2.0	20	85	5	53	51	2	2	43	1.29
550716--550777	22	2.7	22	80	12	63	56	1	0	41	1.09
552674--552707	17	2.0	17	88	0	50	58	0	2	38	1.13
553771--553806	2	18.0	2	88	0	54	47	0	5	47	1.25
555276--555305	3	10.0	3	92	0	51	63	0	0	36	0.95
555277--555340	6	10.7	6	94	0	56	46	0	0	53	1.00
555298--555338	3	13.7	3	94	0	73	36	0	0	63	0.95
555292--555340	9	5.4	9	92	0	62	40	0	0	59	0.98
555780--555838	22	3.0	19	79	20	68	52	0	0	47	1.00
556752--556794	2	21.5	2	100	0	86	0	48	0	51	1.00
558374--558411	16	2.2	18	90	9	62	0	2	7	89	0.57
562535--562612	32	2.4	32	84	0	102	39	1	8	50	1.42
575180--575261	41	2.0	41	100	0	164	29	21	9	39	1.86
581372--581424	17	3.1	17	80	0	70	33	0	0	66	0.92
581634--581676	9	4.4	9	80	13	50	74	2	2	20	1.04
582868--582917	18	2.7	19	75	12	59	48	2	0	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583454--583488	17	2.1	17	88	0	52	51	2	0	45	1.16
583588--583619	7	4.4	7	92	7	55	84	0	0	15	0.63
583590--583619	15	2.0	15	100	0	60	86	0	0	13	0.57
584253--584310	28	2.0	29	90	3	91	63	3	15	17	1.44
588901--588937	2	18.5	2	100	0	74	51	0	0	48	1.00
592208--592249	21	2.0	22	85	4	59	40	2	2	54	1.26
594469--594556	16	5.5	15	75	11	86	48	0	2	48	1.13
594468--594554	32	2.7	32	96	0	156	49	0	2	48	1.13
595037--595086	20	2.5	20	86	3	73	50	2	0	48	1.12
595996--596020	3	8.3	3	100	0	50	0	32	0	68	0.90
596102--596133	3	10.7	3	100	0	64	34	0	0	65	0.93
597258--597297	20	2.0	20	100	0	80	55	10	15	20	1.68
598300--598343	17	2.6	17	81	0	52	54	13	13	18	1.71
598544--598631	21	3.8	22	71	18	63	51	0	0	48	1.00
598548--598631	35	2.4	33	75	11	78	52	0	0	47	1.00
598599--598646	18	2.4	21	80	13	57	52	0	0	47	1.00
599673--599723	22	2.3	23	80	12	63	35	0	0	64	0.94
599883--599930	15	2.9	16	84	12	62	64	0	0	35	0.94
599883--599923	15	2.6	16	84	7	66	63	0	0	36	0.95
602798--602921	31	4.2	30	73	12	103	45	4	0	50	1.20
602795--602926	59	2.2	59	93	4	221	45	4	0	50	1.22
602813--602922	31	3.7	31	78	12	140	48	2	0	49	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
602878--602954	38	2.1	36	81	13	86	46	0	0	53	1.00
603255--603280	2	13.0	2	100	0	52	50	0	0	50	1.00
604740--604852	11	10.3	11	75	15	74	61	0	2	35	1.16
604837--604906	31	2.2	33	87	5	99	51	1	1	45	1.18
605108--605139	7	4.4	7	92	7	55	12	0	3	84	0.74
605108--605139	15	2.2	15	94	5	57	12	0	3	84	0.74
605103--605142	13	3.0	13	83	16	55	15	0	2	82	0.77
607254--607284	10	3.0	10	90	9	53	38	0	0	61	0.96
611845--611875	16	1.9	16	93	0	53	70	25	3	0	1.02
612170--612198	3	9.7	3	100	0	58	68	0	31	0	0.89
612402--612442	2	21.0	2	90	5	66	0	53	0	46	1.00
613197--613279	42	2.0	41	81	13	98	43	0	8	48	1.33
614807--614853	24	2.0	24	83	8	60	44	2	0	53	1.12
615177--615249	28	2.7	28	77	10	73	31	0	1	67	1.00
615177--615253	26	3.0	26	75	20	72	32	0	1	66	1.00
615244--615294	18	3.0	16	74	20	50	60	0	0	39	0.97
618052--618561	164	3.1	162	83	8	629	29	10	9	50	1.69
621540--621634	50	1.9	50	91	0	154	36	15	21	26	1.93
632429--632466	17	2.1	19	85	9	53	52	5	15	26	1.64
632460--632587	65	2.0	66	88	1	195	53	10	17	18	1.71
633236--633404	77	2.2	78	85	1	223	31	30	12	25	1.92
633236--633470	78	3.0	77	80	4	213	30	30	13	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
633958--635165	43	28.5	43	77	4	812	20	27	19	32	1.97
633997--634997	128	7.8	127	78	4	888	20	26	20	32	1.97
633958--635054	85	12.9	85	76	5	797	20	27	19	32	1.97
636146--636662	175	3.0	173	86	5	662	28	11	9	51	1.68
636146--636793	338	1.9	334	80	6	718	27	12	9	50	1.71
637325--637362	20	1.9	20	89	10	60	78	0	21	0	0.74
638347--638576	128	1.8	127	90	2	372	33	12	12	41	1.80
648554--648668	52	2.2	52	81	6	126	33	17	24	25	1.96
648541--648958	132	3.2	132	87	6	543	33	15	25	26	1.95
648814--648927	49	2.3	51	86	3	151	29	14	25	30	1.94
651300--651373	20	3.7	19	87	7	103	41	13	16	28	1.86
651412--651470	13	5.0	13	73	23	67	38	13	15	32	1.86
651392--651490	33	3.0	33	92	2	137	39	13	16	31	1.86
651424--651492	20	3.8	20	75	25	89	39	11	14	34	1.82
651392--651492	53	1.9	53	85	4	141	38	12	15	32	1.86
655972--656002	2	15.5	2	100	0	62	48	0	0	51	1.00
656214--656337	31	3.9	31	72	15	103	55	0	0	42	1.11
656266--656342	30	2.6	29	80	15	95	58	0	0	41	0.98
657778--657815	4	9.5	4	100	0	76	73	0	0	26	0.83
657884--657923	18	2.2	18	95	4	71	62	10	12	15	1.54
661055--661086	2	16.0	2	100	0	64	50	0	0	50	1.00
664263--664303	2	20.5	2	100	0	82	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664617--664674	18	3.3	18	80	4	66	36	0	1	62	1.06
664627--664686	22	2.7	21	75	12	57	36	0	1	61	1.06
664728--664778	16	3.1	16	76	17	50	47	0	0	52	1.00
665057--665108	16	3.2	17	75	20	58	50	0	0	50	1.00
665956--665996	3	13.7	3	94	0	73	63	0	2	34	1.08
669308--669360	20	2.9	18	76	13	54	45	1	0	52	1.11
669511--669535	13	1.9	13	100	0	50	88	0	12	0	0.53
670163--670249	43	2.0	44	84	10	117	48	0	0	51	1.00
670498--670522	2	12.5	2	100	0	50	48	0	52	0	1.00
671390--671460	32	2.2	32	82	7	83	49	1	0	49	1.09
678591--678664	13	5.9	13	71	15	50	67	1	0	31	0.99
678613--678662	18	2.9	17	73	5	55	66	2	0	32	1.03
678709--678768	22	2.7	24	78	21	60	38	0	1	60	1.07
679305--679376	27	2.6	27	77	20	69	47	0	0	52	1.00
679321--679358	19	2.0	20	89	5	60	42	0	0	57	0.98
680367--680406	17	2.3	18	86	4	55	47	0	5	47	1.24
682324--682354	16	1.9	16	93	0	53	48	6	3	41	1.45
683399--683456	18	3.2	18	72	20	57	48	0	1	50	1.11
684615--684642	4	7.0	4	100	0	56	0	25	50	25	1.50
687576--687609	2	17.0	2	88	11	52	50	2	0	47	1.16
687705--687769	31	2.1	31	85	0	85	56	9	4	29	1.50
687834--687914	43	1.9	41	92	5	135	50	3	16	29	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
688175--688342	58	3.0	55	79	6	156	46	4	21	27	1.71
688878--688990	56	2.0	57	87	1	165	52	3	15	28	1.60
691362--691400	21	2.0	20	85	10	53	43	0	2	53	1.14
693456--693484	15	2.0	15	93	6	51	37	0	0	62	0.96
697093--697147	22	2.6	22	86	11	71	54	0	0	45	0.99
698600--698635	3	12.0	3	100	0	72	33	0	0	66	0.92
700502--700536	14	2.4	15	95	4	63	17	0	2	80	0.84
703075--703226	72	2.1	74	88	3	229	48	3	3	44	1.35
713751--713804	16	3.2	16	78	5	54	46	3	1	48	1.30
713767--713817	22	2.4	22	80	9	61	49	1	1	47	1.24

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21