genome.fa.s344.2.7.7.80.10.50.1000.3.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: Scaffold344
Parameters: 2 7 7 80 10 50 1000
Length:  1758742

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

This is table  3  of  11  ( 1257 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)
419531--419577	23	2.0	24	91	8	78	59	0	0	40	0.97
422428--422465	2	19.0	2	100	0	76	50	0	0	50	1.00
422840--422874	18	1.9	18	88	0	52	14	0	22	62	1.31
426011--426203	79	2.5	77	79	5	190	31	17	26	24	1.97
426157--426231	28	2.7	27	83	4	78	26	18	30	24	1.98
426147--426554	213	1.9	212	89	1	629	31	13	27	28	1.94
426368--426443	27	2.8	27	86	6	100	22	19	32	25	1.97
426249--426549	52	5.7	51	69	13	171	31	12	26	29	1.93
428916--428941	13	2.0	13	100	0	52	38	15	15	30	1.88
428895--428961	33	2.0	33	85	0	89	41	16	14	26	1.87
433218--433292	26	2.9	26	85	0	105	36	13	5	45	1.66
433985--434048	12	5.1	12	72	22	51	46	3	1	48	1.27
433985--434075	39	2.3	39	81	9	105	46	2	2	49	1.26
434493--434535	2	21.5	2	100	0	86	51	0	0	48	1.00
436393--436568	81	2.2	81	83	6	225	34	17	12	35	1.88
441397--441790	75	5.3	75	88	1	565	39	20	8	31	1.83
447278--447323	21	2.1	21	84	11	58	73	2	0	23	0.94
447878--447911	17	2.1	16	88	5	50	23	2	20	52	1.60
453811--453964	31	4.9	32	73	18	110	44	11	12	31	1.79
453819--453964	63	2.3	64	82	8	183	44	10	12	32	1.77
453819--453961	32	4.5	32	77	7	134	44	11	11	32	1.76
456413--456444	15	2.1	16	88	11	50	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)
456514--456548	15	2.2	16	90	5	54	45	2	0	51	1.16
457051--457108	25	2.3	24	80	8	62	65	6	3	24	1.33
457098--457164	33	2.0	33	86	11	93	53	2	2	40	1.31
457192--457235	13	3.1	14	83	6	54	75	0	0	25	0.81
457192--457226	15	2.4	15	90	4	54	74	0	0	25	0.82
457196--457232	19	2.0	20	89	10	60	75	0	0	24	0.80
459297--459365	19	4.0	18	75	22	76	37	11	14	36	1.83
459300--459362	32	2.0	32	93	0	108	36	12	15	34	1.86
459319--459343	13	1.9	13	100	0	50	36	16	16	32	1.90
459385--459441	21	2.8	21	91	2	89	24	17	12	45	1.83
461839--461989	82	1.9	82	86	4	218	27	29	14	28	1.95
461960--462144	54	3.5	52	80	12	200	30	24	11	33	1.91
461921--462144	52	4.3	52	81	9	199	30	25	12	32	1.92
462127--462203	28	2.8	28	87	0	100	23	33	19	23	1.97
462158--462312	79	2.0	80	84	6	208	26	29	14	29	1.95
464588--464628	22	1.9	21	85	5	55	56	2	0	41	1.13
464503--464896	211	1.9	210	84	7	532	45	7	3	42	1.49
464474--464932	106	4.3	104	83	8	457	45	6	3	44	1.47
464752--464920	50	3.2	49	67	16	115	45	4	2	47	1.36
465764--465830	20	3.3	20	78	0	71	32	11	11	43	1.78
469962--470023	27	2.3	27	88	5	90	56	4	9	29	1.52
470354--470435	38	2.2	37	91	4	137	24	9	0	65	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470365--470435	20	3.7	20	73	16	69	26	9	0	63	1.26
475394--475431	5	7.6	5	100	0	76	81	0	18	0	0.69
476615--476713	22	4.3	22	66	16	65	52	3	12	32	1.54
477975--478004	2	15.0	2	100	0	60	50	0	0	50	1.00
478576--478615	16	2.6	15	80	7	53	62	0	2	35	1.09
478669--478733	22	2.9	22	84	6	69	56	6	4	32	1.44
478799--478864	32	2.0	33	82	8	82	50	0	1	48	1.10
484188--484264	15	4.9	16	72	9	61	31	0	0	68	0.90
484198--484263	26	2.5	27	79	20	77	31	0	0	68	0.90
485774--485803	2	15.0	2	100	0	60	50	0	0	50	1.00
487099--487146	14	3.4	14	83	8	62	43	6	6	43	1.54
489417--489469	24	2.2	24	79	0	61	47	0	1	50	1.12
489427--489472	24	1.9	24	95	0	83	41	0	2	56	1.11
490211--490307	20	4.3	20	73	25	86	25	15	12	46	1.81
490260--490307	20	2.4	20	96	0	87	27	14	10	47	1.76
491830--491856	13	2.1	13	100	0	54	29	14	18	37	1.91
494489--494746	141	1.8	141	90	1	419	35	15	13	34	1.88
496039--496104	23	3.0	23	78	10	66	48	7	7	36	1.60
497797--497857	4	14.8	4	73	13	52	70	0	1	27	0.97
497784--497857	39	1.9	38	88	2	112	67	0	1	31	0.99
497789--497857	17	3.9	17	76	20	61	71	0	1	27	0.95
499488--499536	17	2.7	19	78	15	59	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
499476--499526	17	2.9	17	77	11	57	37	0	0	62	0.95
499699--499762	33	1.9	34	84	9	87	34	4	4	56	1.41
506012--506042	2	15.5	2	100	0	62	0	0	48	51	1.00
511589--511624	2	18.0	2	100	0	72	50	0	0	50	1.00
518244--518268	8	3.1	8	100	0	50	52	24	0	24	1.48
522227--522303	20	3.9	19	77	5	82	44	10	11	33	1.75
523372--523413	9	4.7	9	87	0	66	11	2	0	85	0.68
524991--525196	78	2.6	78	79	2	207	29	16	29	25	1.96
525148--525219	28	2.6	28	86	0	90	25	19	33	22	1.97
525207--525592	52	7.4	51	73	11	253	32	12	25	29	1.93
525102--525597	263	1.9	263	89	2	782	31	13	26	28	1.94
525411--525486	27	2.8	26	88	9	100	22	22	32	22	1.98
527959--527984	13	2.0	13	100	0	52	38	15	15	30	1.88
527938--528004	33	2.0	33	88	0	98	43	14	14	26	1.85
528024--528091	19	3.9	18	76	23	83	38	14	11	35	1.83
528046--528070	13	1.9	13	100	0	50	32	16	16	36	1.90
528027--528089	32	2.0	32	96	0	117	36	15	12	34	1.86
528127--528182	21	2.7	21	100	0	112	39	17	10	32	1.84
528816--529823	55	18.3	55	91	3	1572	20	20	30	28	1.97
528890--529805	28	33.2	28	59	18	158	20	19	31	28	1.97
530830--530861	12	2.7	12	100	0	64	0	12	0	87	0.54
533858--533893	16	2.2	16	90	0	54	52	16	5	25	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534138--534169	17	2.0	17	88	11	50	62	12	21	3	1.43
534252--534716	42	11.2	42	79	7	407	35	19	31	13	1.91
534692--534741	25	2.0	25	100	0	100	40	20	28	12	1.87
534653--534783	67	2.0	67	92	0	217	37	19	29	12	1.90
534719--535098	42	9.0	43	82	5	452	37	18	30	13	1.89
543306--543354	19	2.4	19	80	13	53	44	4	20	30	1.70
547647--547687	18	2.5	15	85	14	55	19	0	2	78	0.87
549265--549298	15	2.3	15	90	10	52	23	2	0	73	0.97
554796--555204	135	3.0	136	97	1	784	49	14	8	27	1.72
561239--561273	2	17.5	2	100	0	70	51	0	0	48	1.00
563783--563833	25	2.0	24	82	14	59	23	0	13	62	1.31
564097--564138	21	2.0	21	90	0	66	40	21	11	26	1.88
566989--567213	79	2.9	79	84	4	276	31	14	27	26	1.95
567114--567393	52	5.4	51	67	12	163	33	13	25	27	1.94
567108--567501	107	3.7	108	72	9	367	32	13	26	27	1.94
567376--567452	28	2.8	28	85	0	91	22	19	35	23	1.96
567117--567561	211	2.1	211	94	0	775	32	13	26	28	1.93
567436--567568	52	2.6	52	85	3	187	31	10	26	31	1.90
569926--569951	13	2.0	13	100	0	52	38	15	15	30	1.88
570901--571079	78	2.3	78	80	1	189	30	12	16	40	1.86
572673--572700	13	2.2	13	100	0	56	39	17	7	35	1.78
572655--572722	33	2.1	33	88	0	100	30	17	10	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575046--575244	51	3.9	51	77	3	213	28	23	11	36	1.90
575051--575242	102	1.9	102	87	2	269	29	23	10	36	1.88
575249--575304	28	2.0	28	89	0	85	23	28	16	32	1.96
575255--575323	28	2.5	28	82	0	84	24	33	15	26	1.95
575202--575461	110	2.4	108	78	5	292	28	23	13	34	1.93
575419--575537	51	2.3	51	86	0	166	31	26	11	30	1.92
577792--577841	12	3.9	13	76	19	52	40	6	10	44	1.63
577793--577844	27	2.0	26	96	3	95	40	3	11	44	1.59
577903--577935	9	3.7	9	95	0	57	45	18	33	3	1.65
582533--582560	14	2.0	14	100	0	56	35	35	28	0	1.58

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