genome.fa.s307.2.7.7.80.10.50.1000.4.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: Scaffold307
Parameters: 2 7 7 80 10 50 1000
Length:  622582

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 481 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)
442639--442691	18	3.0	18	75	8	56	66	5	0	28	1.15
442675--442722	24	2.0	24	84	8	62	58	4	0	37	1.18
442701--442745	17	2.7	17	86	3	65	55	2	2	40	1.24
443839--443870	3	10.7	3	100	0	64	34	0	0	65	0.93
449695--449855	82	1.9	83	88	7	247	44	2	2	50	1.28
449695--449855	84	1.9	82	88	7	245	44	2	2	50	1.28
449819--449856	15	2.4	16	82	8	51	50	0	0	50	1.00
452294--452354	22	2.8	22	76	0	68	54	4	8	32	1.52
452860--452893	16	2.1	16	89	10	52	35	2	0	61	1.11
454253--454395	53	2.7	54	83	4	182	35	30	1	32	1.67
454585--454616	13	2.3	15	89	10	50	25	0	28	46	1.53
460472--460514	16	2.5	18	81	14	63	72	0	2	25	0.97
461407--461446	2	20.0	2	100	0	80	50	0	0	50	1.00
462808--462871	33	1.9	33	83	0	83	46	4	6	42	1.49
462860--462900	18	2.2	18	86	4	55	63	0	2	34	1.08
462865--462910	20	2.3	20	78	10	51	58	0	2	39	1.10
462951--463018	34	2.0	34	83	11	86	48	5	0	45	1.26
464877--464913	19	2.0	19	89	5	58	45	0	8	45	1.32
470289--470333	16	2.8	16	78	15	56	66	0	0	33	0.92
471322--471619	148	2.0	149	85	0	400	53	11	5	29	1.59
472170--472207	13	2.8	14	84	4	51	65	0	0	34	0.93
472435--472542	52	2.1	52	81	8	123	52	0	0	46	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472468--472530	20	3.3	20	74	14	62	57	1	0	41	1.08
472528--472576	22	2.3	20	86	6	62	59	2	0	38	1.09
472817--472849	16	2.1	15	94	5	57	84	0	15	0	0.61
472817--472849	14	2.4	14	94	0	57	84	0	15	0	0.61
475744--475777	16	2.1	16	88	0	50	20	0	5	73	1.04
485241--485275	18	1.9	18	88	11	54	77	0	2	20	0.90
487137--487173	17	2.1	18	90	10	58	54	5	21	18	1.64
487595--487677	39	2.1	39	81	0	94	49	3	8	38	1.51
487673--488125	172	2.7	163	79	10	457	40	8	18	33	1.80
490821--490870	19	2.6	20	93	6	86	20	4	24	52	1.63
490595--491108	271	1.9	271	94	0	911	31	12	20	35	1.90
493030--493084	7	8.0	7	76	11	51	27	0	1	70	0.97
493031--493066	16	2.4	14	90	9	54	22	0	2	75	0.94
493022--493081	12	4.8	12	75	15	50	28	0	1	70	0.97
494931--495071	64	2.1	67	79	12	146	62	8	17	12	1.53
495215--495256	22	1.9	22	85	9	59	52	28	16	2	1.56
495441--495486	23	2.0	23	86	0	65	34	4	32	28	1.77
499565--500451	157	5.7	158	74	12	730	46	12	7	33	1.69
499695--499975	138	2.0	138	87	6	399	47	12	7	31	1.70
499835--500451	157	3.9	157	86	6	793	46	12	7	34	1.69
500586--500651	4	16.0	4	76	17	57	3	22	0	74	0.96
500590--500654	11	5.9	11	70	20	55	3	21	0	75	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500594--500662	29	2.4	29	80	9	79	2	23	1	72	1.06
501096--501469	109	3.2	109	63	20	264	54	11	4	30	1.55
500847--501587	246	3.0	246	98	0	1401	52	11	5	30	1.60
502959--502999	21	2.0	20	85	4	55	31	17	7	43	1.76
513980--514024	23	2.0	23	86	0	63	28	28	4	37	1.77
515088--515140	19	2.7	19	79	5	61	43	13	13	30	1.82
515191--515217	13	2.1	13	100	0	54	29	14	14	40	1.86
515193--515225	13	2.6	13	90	4	50	33	15	12	39	1.84
518394--518421	13	2.2	13	100	0	56	28	14	17	39	1.89
518427--518554	51	2.5	52	97	1	240	34	18	18	28	1.95
527124--527178	20	2.8	20	85	0	74	34	16	10	38	1.84
527806--527867	31	2.0	32	93	3	108	22	22	9	45	1.81
528319--528363	22	2.1	21	87	4	63	62	2	8	26	1.37
531379--531407	3	9.7	3	100	0	58	31	0	0	68	0.89
534331--534392	21	2.9	21	77	15	63	38	1	8	51	1.41
541671--541845	30	5.9	30	79	4	185	28	26	14	30	1.95
541671--541849	59	3.0	59	92	0	286	27	27	14	30	1.95
541875--542506	31	19.8	31	78	6	471	31	30	16	22	1.96
541879--542506	64	9.8	62	77	7	418	31	30	16	22	1.95
541945--542506	33	17.5	32	76	7	227	31	30	15	22	1.95
541879--542491	95	6.4	95	75	7	363	30	30	16	22	1.96
553073--553126	20	2.6	21	82	2	65	37	18	11	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553167--553225	20	3.0	20	87	0	82	35	13	5	45	1.66
554100--554124	13	1.9	13	100	0	50	32	16	16	36	1.90
554079--554142	33	2.0	32	90	3	101	34	15	12	37	1.85
559851--559912	28	2.3	27	82	2	70	35	16	24	24	1.95
559900--560015	51	2.3	51	83	3	144	36	8	22	32	1.85
559953--560206	79	3.2	79	80	3	278	32	12	25	29	1.93
560161--560230	28	2.5	28	81	4	88	28	15	30	25	1.96
560221--560361	51	2.8	51	76	0	147	33	10	24	31	1.90
562680--562754	20	3.8	20	77	13	82	44	12	13	30	1.80
562769--562798	13	2.3	13	100	0	60	40	13	16	30	1.87
565178--565238	19	3.6	18	72	25	60	34	14	14	36	1.87
565165--565251	32	2.7	32	92	0	138	34	14	14	35	1.88
565163--565252	13	6.0	13	70	26	54	34	14	15	35	1.88
565291--565315	13	1.9	13	100	0	50	32	16	16	36	1.90
565324--565452	52	2.5	52	93	0	222	36	17	17	28	1.93
573705--573741	17	2.2	17	100	0	74	24	0	16	59	1.37
575887--576029	77	1.9	77	84	0	196	33	18	16	32	1.93
576196--576335	52	2.7	52	87	1	210	30	17	12	40	1.85
583903--584028	52	2.4	52	91	0	216	35	18	19	26	1.94
590867--590901	10	3.5	10	88	0	52	88	8	2	0	0.61
590856--590903	21	2.2	22	85	14	64	81	12	4	2	0.93
591152--591188	12	2.9	13	84	15	51	83	16	0	0	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592123--592645	34	16.6	31	77	12	163	21	30	14	32	1.94
592188--592233	23	2.0	23	91	0	74	28	36	19	15	1.92
592211--592421	30	6.7	31	82	9	241	22	28	17	31	1.96
592247--592421	62	2.8	62	93	0	298	22	26	18	32	1.97
592429--592675	34	7.3	34	91	0	395	21	33	11	32	1.90
592664--592744	31	2.5	32	86	4	101	33	39	14	12	1.84
592760--592827	22	3.1	22	62	19	52	26	25	17	30	1.97
592760--592941	43	4.1	43	82	8	229	27	24	16	31	1.96
592748--592981	92	2.6	94	87	5	329	26	25	16	32	1.96
592911--593039	49	2.5	55	81	7	162	24	25	16	34	1.95
593688--593754	32	2.1	33	91	2	109	34	13	17	34	1.89
593794--593818	13	1.9	13	100	0	50	32	16	16	36	1.90
597209--597259	23	2.2	23	78	0	57	74	9	7	7	1.22
598548--598621	30	2.5	30	86	4	98	28	29	10	31	1.91
598626--598814	30	6.3	30	85	3	256	24	32	13	30	1.93
598643--598814	89	1.9	88	90	1	272	25	33	12	29	1.93
599047--599071	13	1.9	13	100	0	50	36	16	16	32	1.90
599060--599109	19	2.6	19	96	0	91	32	12	18	38	1.87
606474--607101	33	19.5	33	73	7	394	32	26	15	25	1.96
606470--607101	64	9.8	64	77	7	485	32	26	15	26	1.96
606534--606826	32	9.1	32	75	10	195	29	24	16	29	1.96
606501--607056	130	4.3	128	76	11	440	31	25	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607278--607503	52	4.3	52	81	1	229	24	23	15	37	1.93
607278--607475	104	1.9	104	85	0	270	24	24	14	36	1.93
609394--609427	12	2.8	12	90	0	50	44	20	8	26	1.81
613222--613288	20	3.3	21	77	4	57	35	11	13	38	1.82
613244--613292	21	2.4	21	82	3	64	36	14	10	38	1.80
619834--619899	32	2.1	31	88	8	98	13	4	4	77	1.08
620971--620998	9	3.1	9	100	0	56	21	0	0	78	0.75
621203--621244	16	2.4	18	80	11	52	38	0	0	61	0.96
621214--621266	18	3.2	18	70	26	53	37	0	0	62	0.96
621865--621911	20	2.3	20	88	0	67	44	0	4	51	1.21

Tables:   1   2   3   4   5