genome.fa.s112.2.7.7.80.10.50.1000.4.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: Scaffold112
Parameters: 2 7 7 80 10 50 1000
Length:  1714866

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  4  of  11  ( 1240 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)
406994--407023	12	2.5	12	94	0	51	33	0	3	63	1.11
406931--407054	17	7.5	17	67	21	68	40	0	2	57	1.12
406980--407054	39	2.0	37	82	10	89	36	0	4	60	1.16
407810--407844	17	1.9	19	88	11	56	20	0	0	80	0.72
408159--408193	17	2.1	17	88	0	52	11	2	0	85	0.69
408712--408753	16	2.6	17	85	11	61	57	0	0	42	0.99
408724--408850	60	2.1	60	80	8	143	55	1	0	43	1.09
408719--408818	32	3.2	32	68	18	77	60	1	0	39	1.04
409754--409782	2	14.5	2	100	0	58	48	0	0	51	1.00
412706--412733	14	2.0	14	100	0	56	35	0	0	64	0.94
413062--413121	32	1.9	31	82	3	75	45	3	1	50	1.28
415811--415876	13	5.5	13	75	17	63	28	0	0	71	0.87
416110--416174	28	2.4	27	84	5	78	38	0	1	60	1.07
416307--416350	17	2.6	17	81	0	52	36	2	4	56	1.32
418628--418660	16	2.1	16	100	0	66	51	0	18	30	1.46
420952--420982	13	2.4	13	100	0	62	64	0	0	35	0.94
423271--423321	24	2.1	25	89	10	79	31	0	0	68	0.90
423271--423318	13	3.8	13	82	17	66	31	0	0	68	0.90
424261--424309	16	3.4	16	71	26	54	38	4	0	57	1.18
426443--426471	2	14.5	2	100	0	58	48	0	0	51	1.00
428681--428728	2	24.0	2	100	0	96	50	0	0	50	1.00
435374--435433	21	2.8	21	76	2	57	46	5	3	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
436817--436859	18	2.4	19	84	11	63	34	0	0	65	0.93
437890--437940	11	5.2	10	81	15	54	35	1	0	62	1.06
438225--438249	2	12.5	2	100	0	50	48	0	0	52	1.00
441539--441567	14	2.0	15	93	6	51	51	0	0	48	1.00
441690--441731	17	2.5	17	88	3	59	26	0	2	71	0.98
441836--441867	3	10.7	3	93	0	55	31	3	0	65	1.08
442705--442747	2	21.5	2	85	0	59	51	6	0	41	1.29
448375--448400	2	13.0	2	100	0	52	0	50	0	50	1.00
448400--448433	2	17.0	2	100	0	68	50	0	0	50	1.00
448902--448962	28	2.2	28	75	11	65	44	0	0	55	0.99
449630--449695	19	3.0	23	73	20	70	51	0	0	48	1.00
450109--450133	13	1.9	13	100	0	50	0	24	0	76	0.80
450150--450176	2	13.5	2	100	0	54	51	0	48	0	1.00
452436--452485	2	25.0	2	100	0	100	50	0	0	50	1.00
453652--453706	17	3.4	16	76	20	60	60	1	0	38	1.08
453653--453705	18	3.2	18	74	15	51	62	1	0	35	1.06
454640--454678	20	1.9	21	89	5	62	17	7	23	51	1.71
455384--455656	136	2.0	136	99	0	537	25	15	22	36	1.94
459769--459848	35	2.3	33	83	12	90	46	0	0	53	1.00
460697--460733	17	2.3	15	90	9	56	56	0	0	43	0.99
460789--460820	13	2.5	13	89	0	55	53	0	0	46	1.00
461092--461120	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461356--461406	15	3.4	15	78	10	50	62	0	0	37	0.95
461803--461827	4	6.2	4	100	0	50	76	0	24	0	0.80
461919--461957	3	13.0	3	100	0	78	66	0	0	33	0.92
462155--462253	40	2.5	39	79	8	110	47	1	2	49	1.19
462511--462543	16	2.1	16	94	5	59	42	0	0	57	0.98
463271--463312	22	1.9	22	90	9	68	66	0	0	33	0.92
463759--463785	4	6.8	4	100	0	54	77	0	0	22	0.76
463939--463988	18	2.6	19	87	9	66	38	0	2	60	1.09
464190--464232	20	2.1	20	83	12	52	60	0	0	39	0.97
464189--464246	7	7.8	8	78	16	54	58	0	0	41	0.98
464879--464926	10	4.7	10	80	19	55	70	0	0	29	0.87
464879--464927	20	2.4	21	93	6	91	69	0	0	30	0.89
464872--464927	25	2.3	26	84	9	73	69	0	0	30	0.89
465074--465102	2	14.5	2	100	0	58	0	48	0	51	1.00
467763--467819	28	2.0	28	83	6	71	36	0	0	63	0.95
467881--467927	8	5.6	8	80	9	58	44	2	0	53	1.12
467879--467928	18	2.9	17	85	8	66	44	2	0	54	1.11
468056--468096	22	1.9	22	85	5	57	29	2	2	65	1.18
468576--468614	13	3.1	12	82	10	51	51	0	0	48	1.00
473261--473330	30	2.3	30	78	7	79	57	0	1	41	1.08
473268--473342	19	4.0	19	71	19	59	53	0	1	45	1.08
473742--473843	53	1.9	53	90	4	161	52	5	0	40	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473818--473852	15	2.3	15	90	9	54	62	0	0	37	0.95
473832--473981	72	2.1	71	83	10	182	46	4	0	50	1.20
474362--474457	19	5.1	19	73	20	69	59	0	0	40	0.97
474376--474455	31	2.8	27	70	24	74	57	0	0	42	0.98
474368--474482	48	2.3	49	74	15	112	57	0	0	41	1.05
474390--474470	17	5.0	16	70	24	55	56	0	0	43	0.99
474363--474484	58	2.1	58	76	14	128	58	0	0	40	1.04
475900--475942	12	3.5	12	75	6	50	25	0	2	72	0.97
476257--476289	17	1.9	17	93	0	57	39	0	3	57	1.14
481563--481597	11	3.2	11	83	0	52	57	0	0	42	0.99
481970--482018	17	2.9	17	75	24	50	46	0	2	51	1.12
481999--482062	19	3.2	20	75	20	62	40	0	0	59	0.97
491612--491663	18	2.6	20	79	17	63	42	0	0	57	0.98
491693--491737	15	2.9	15	86	3	54	28	0	0	71	0.87
491690--491727	16	2.4	17	82	13	53	23	0	0	76	0.79
491714--491762	17	2.8	17	84	9	55	40	2	0	57	1.10
491727--491762	18	2.1	17	89	5	54	44	2	0	52	1.15
491964--492019	25	2.2	25	84	6	78	48	0	0	51	1.00
492011--492057	18	2.6	19	80	16	55	72	2	0	25	0.96
492143--492185	21	2.0	21	82	8	52	23	2	0	74	0.93
492681--492726	16	2.9	16	87	6	58	54	0	0	45	0.99
492681--492733	16	3.5	15	82	7	54	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492744--492788	20	2.2	20	92	0	72	60	0	0	40	0.97
492747--492785	10	3.9	10	79	0	51	58	0	0	41	0.98
492790--492956	93	1.8	90	87	3	244	45	2	3	47	1.35
493625--493668	19	2.7	15	75	24	52	63	0	4	31	1.14
493627--493664	19	2.0	19	100	0	76	63	0	5	31	1.17
493955--493992	17	2.3	17	86	4	51	28	0	5	65	1.14
494467--494565	50	2.0	50	80	11	114	54	2	0	43	1.11
494654--494704	14	3.7	14	75	15	61	56	0	0	43	0.99
494646--494704	27	2.1	28	87	6	84	54	0	0	45	0.99
495422--495493	30	2.4	30	88	0	108	8	6	48	36	1.60
495524--495634	48	2.3	48	76	0	114	11	10	47	29	1.74
495655--495750	48	2.0	48	87	0	138	18	10	46	23	1.80
495532--495778	117	2.1	117	81	1	289	14	10	46	28	1.77
497003--497055	27	2.0	27	85	7	72	54	0	1	43	1.11
496879--497255	183	2.1	183	97	0	709	46	4	4	44	1.43
497170--497233	32	2.0	33	87	3	94	51	0	0	48	1.00
497176--497243	16	4.2	17	77	20	58	54	0	0	45	0.99
497720--497745	13	2.0	13	100	0	52	15	0	0	84	0.62
497900--497962	15	3.9	16	73	10	56	46	1	1	50	1.20
499506--499628	53	2.4	53	79	5	135	51	5	4	38	1.47
500023--500047	13	1.9	13	100	0	50	32	0	0	68	0.90
502122--502161	2	20.0	2	100	0	80	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503076--503192	59	2.0	59	98	0	225	46	13	17	22	1.83
504469--504524	28	2.0	28	100	0	112	39	25	17	17	1.92
505437--505481	2	22.5	2	100	0	90	48	0	0	51	1.00
511336--511426	19	5.3	19	75	19	60	53	0	2	43	1.12
511353--511422	16	4.0	18	76	12	58	55	0	2	41	1.14
511558--511589	2	16.5	2	93	6	57	50	0	0	50	1.00
512223--512257	6	5.8	6	93	0	61	14	34	34	17	1.90
513139--513205	19	3.3	19	76	23	57	37	0	1	61	1.05
513374--513435	26	2.3	27	74	17	67	37	0	1	61	1.06
513405--513467	30	2.1	29	82	8	74	42	0	0	57	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11