oyster.v9_M.fa.s8.2.7.7.80.10.50.500.2.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.04

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: scaffold86
Parameters: 2 7 7 80 10 50 500
Length:  1697160

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 603 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)
321089--321131	10	4.3	10	87	0	50	37	2	13	46	1.57
321228--321305	15	4.9	15	68	17	50	46	10	2	41	1.51
321254--321301	25	1.9	25	83	8	62	45	10	4	39	1.58
321720--321772	20	2.6	20	78	0	61	43	16	5	33	1.72
322299--322869	177	3.2	175	87	3	738	33	25	17	24	1.96
322299--322947	177	3.7	174	81	10	622	33	24	17	24	1.97
327861--327913	11	4.6	11	81	11	54	1	3	11	83	0.87
327860--327901	20	2.2	20	84	12	54	0	4	9	85	0.72
327861--327901	16	2.6	16	84	3	57	0	4	7	87	0.65
332624--332707	2	42.5	2	97	2	161	50	0	50	0	1.00
339021--339047	2	13.5	2	100	0	54	51	0	48	0	1.00
341932--342406	43	11.0	43	85	4	505	21	26	24	27	1.99
345560--345595	2	18.0	2	100	0	72	50	0	50	0	1.00
348355--348604	43	5.8	42	91	4	401	21	27	24	26	1.99
358111--358148	2	19.0	2	100	0	76	50	0	50	0	1.00
358281--358305	2	12.5	2	100	0	50	48	0	52	0	1.00
361977--362003	2	13.5	2	100	0	54	0	48	0	51	1.00
370813--370837	1	25.0	1	100	0	50	100	0	0	0	0.00
379317--379351	18	1.9	18	100	0	70	31	5	40	22	1.78
383313--383346	2	17.0	2	100	0	68	0	50	0	50	1.00
387126--387157	16	2.0	16	100	0	64	18	12	18	50	1.78
401624--401692	21	3.3	21	87	0	102	34	17	7	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
401645--401783	63	2.2	63	85	2	190	35	12	11	39	1.80
401710--401758	21	2.3	21	100	0	80	36	12	10	40	1.77
401624--401758	42	3.2	42	74	8	139	36	14	10	39	1.80
401761--401817	21	2.8	21	94	2	98	31	10	14	43	1.79
401669--401878	63	3.4	63	71	10	157	35	12	11	40	1.80
401840--401913	21	3.6	21	88	3	123	31	22	4	41	1.72
401911--401963	20	2.6	20	88	8	81	43	7	18	30	1.78
403551--403923	50	7.6	49	89	2	534	29	14	22	33	1.93
403556--403923	99	3.7	98	91	2	542	29	14	22	33	1.93
417001--417108	4	26.8	4	94	1	189	48	1	24	25	1.61
419110--419142	5	6.6	5	90	10	50	81	15	3	0	0.80
419110--419142	11	3.3	10	88	12	50	81	15	3	0	0.80
443838--444443	334	1.8	328	85	3	847	33	18	16	31	1.94
443733--444463	160	4.4	171	78	9	745	32	18	17	30	1.95
443837--444480	174	3.8	174	78	10	466	33	18	17	30	1.94
451931--452143	72	3.0	72	83	8	305	47	13	21	16	1.81
451938--452143	66	3.0	66	85	10	306	47	13	22	16	1.81
452797--452822	10	2.6	10	100	0	52	61	7	0	30	1.24
453056--453276	98	2.3	97	84	3	268	46	10	5	37	1.63
453338--453381	16	2.6	18	82	7	56	61	6	0	31	1.22
453509--453561	20	2.6	20	84	0	70	41	15	3	39	1.65
454499--454535	19	1.9	19	88	0	56	43	29	5	21	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454180--454616	177	2.4	177	85	4	531	33	26	16	23	1.96
454474--454779	155	2.0	156	91	0	497	34	27	13	24	1.93
454827--454868	19	2.2	19	86	0	57	40	33	4	21	1.74
454835--454872	19	2.1	19	90	5	60	36	36	2	23	1.69
454333--454956	332	1.9	331	84	4	844	33	27	14	24	1.95
454641--455055	177	2.4	176	85	4	550	32	27	15	24	1.95
454648--455080	176	2.5	176	84	4	507	32	27	15	24	1.96
454648--455140	176	2.8	173	80	8	467	31	26	16	24	1.96
458286--458335	21	2.4	21	96	0	91	24	6	30	40	1.79
458476--458509	15	2.3	15	94	0	59	26	8	23	41	1.83
458534--458588	21	2.6	21	97	0	101	27	10	23	38	1.88
461039--461650	179	3.4	179	85	4	783	38	16	13	31	1.87
464405--464443	19	2.1	19	85	0	51	41	35	2	20	1.66
466774--467172	146	2.7	144	84	3	505	28	20	20	30	1.97
467178--467213	8	4.5	8	92	0	54	33	25	41	0	1.55
467175--467213	12	3.2	12	88	0	60	35	25	38	0	1.56
467182--467212	4	7.8	4	92	0	53	29	25	45	0	1.54
475903--475971	2	34.5	2	88	0	93	0	44	1	53	1.09
476189--476474	142	2.0	142	88	0	428	30	13	20	36	1.91
480539--480660	4	30.8	4	96	1	228	24	26	0	49	1.51
481879--481911	14	2.4	14	100	0	66	27	24	21	27	1.99
481893--481985	37	2.5	37	85	3	125	35	17	23	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481965--481999	14	2.5	14	100	0	70	25	22	22	28	1.99
481930--482036	51	2.1	51	87	3	153	34	17	23	24	1.96
481872--482041	88	1.9	88	97	0	322	36	16	23	23	1.94
505307--505685	190	2.0	189	100	0	749	29	17	21	31	1.96
506757--506791	17	2.1	16	89	5	52	40	11	11	37	1.77
509795--509842	4	12.0	4	81	0	51	39	25	35	0	1.56
509798--509842	8	5.6	8	89	0	72	37	24	37	0	1.56
509795--509842	12	4.0	12	88	0	69	39	25	35	0	1.56
512545--512574	14	2.1	14	100	0	60	30	23	20	26	1.98
513881--513905	13	1.9	13	100	0	50	84	16	0	0	0.63
513987--514043	18	3.3	16	77	20	53	50	7	8	33	1.60
519723--519770	4	12.0	4	81	0	51	39	25	35	0	1.56
519726--519770	8	5.6	8	89	0	72	37	24	37	0	1.56
519723--519770	12	4.0	12	88	0	69	39	25	35	0	1.56
529440--529479	19	2.0	20	85	4	55	30	2	2	65	1.19
529828--529863	2	18.0	2	94	0	63	52	0	47	0	1.00
541566--541595	2	15.0	2	100	0	60	0	50	0	50	1.00
543020--543062	22	2.0	22	85	0	59	30	16	46	6	1.73
543021--543078	30	1.9	30	93	6	100	31	17	44	6	1.75
543025--543113	8	12.4	7	70	20	51	31	16	43	7	1.77
543051--543107	21	2.6	22	86	5	80	31	17	42	8	1.80
543073--543113	14	2.8	15	78	14	50	31	17	43	7	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543781--543833	22	2.4	23	81	9	65	26	16	47	9	1.77
543781--543842	22	2.8	22	80	9	56	29	16	46	8	1.75
545143--545190	14	3.3	14	75	11	51	8	43	16	31	1.78
545157--545217	22	2.8	22	77	5	70	13	40	13	32	1.82
546857--546924	34	2.0	34	94	0	118	52	10	13	23	1.70
549918--549974	21	2.7	22	79	15	66	29	17	33	19	1.95
550224--550258	17	2.1	17	100	0	70	28	25	17	28	1.97
552514--552557	11	4.0	11	81	18	56	9	43	18	29	1.80
558114--558139	1	26.0	1	100	0	52	0	0	100	0	0.00
569790--569814	13	1.9	13	100	0	50	8	16	36	40	1.77
577632--577912	141	2.0	140	100	0	553	32	24	9	34	1.87
579857--579940	42	2.0	42	93	4	143	23	15	20	40	1.90
583317--583969	146	4.5	146	85	4	840	31	21	18	28	1.97
583974--584007	12	2.8	12	95	0	59	38	26	35	0	1.57
584378--584428	2	25.5	2	100	0	102	0	50	0	49	1.00
588326--588355	11	2.7	11	94	0	51	66	10	0	23	1.21
595346--595412	2	33.5	2	96	0	125	50	0	49	0	1.00
596858--596904	2	23.5	2	95	0	85	0	46	0	53	1.00
600277--600470	37	5.2	37	93	0	325	35	12	7	44	1.71
601111--601325	112	1.9	111	83	3	279	39	9	13	38	1.77
609111--609283	42	4.1	42	100	0	346	25	32	17	24	1.97
614793--614830	2	19.0	2	100	0	76	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616603--616735	69	1.9	69	93	3	232	27	20	28	23	1.99
616604--616752	69	2.2	69	90	2	228	30	19	27	22	1.98
661809--661848	21	1.9	21	84	0	53	17	27	5	50	1.67
667494--667552	21	2.8	21	94	0	100	37	32	18	11	1.87
667494--667549	11	5.3	11	78	8	62	37	30	19	12	1.89
671953--672027	37	2.0	38	94	2	134	30	14	13	41	1.84
677932--678319	163	2.4	160	82	3	429	36	13	17	33	1.88
677956--678319	160	2.3	162	82	3	421	37	13	16	32	1.87
680242--680629	163	2.4	160	82	3	429	36	13	17	33	1.88
680266--680629	160	2.3	162	82	3	421	37	13	16	32	1.87

Tables:   1   2   3   4   5   6