genome.fa.s45.2.7.7.80.10.50.1000.4.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: Scaffold45
Parameters: 2 7 7 80 10 50 1000
Length:  1408018

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 944 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)
463494--463598	42	2.5	42	84	1	129	45	11	24	18	1.82
463615--463847	122	1.9	119	86	4	333	27	20	26	25	1.99
463615--463848	61	3.9	60	82	5	292	27	20	26	25	1.99
463785--463962	94	1.9	94	86	3	252	24	20	30	24	1.98
463891--464218	55	6.0	55	89	4	457	22	21	28	28	1.99
465237--465287	1	51.0	1	82	0	57	0	1	7	90	0.53
465220--465287	18	3.8	17	84	7	73	0	2	10	86	0.67
465219--465287	17	3.9	17	78	14	61	0	4	10	85	0.72
477780--477884	51	2.1	51	88	0	156	31	14	25	28	1.95
477869--477945	28	2.8	28	92	7	122	23	19	33	23	1.97
477929--478200	51	5.3	51	69	17	193	30	12	27	29	1.92
477739--478236	158	3.2	157	85	2	624	30	13	28	27	1.94
478034--478103	28	2.5	29	83	4	81	30	20	28	21	1.98
480641--480666	13	2.0	13	100	0	52	38	15	15	30	1.88
480699--480749	21	2.5	21	90	6	79	35	15	11	37	1.84
480789--480834	21	2.1	21	84	11	58	45	15	6	32	1.71
481176--481857	61	11.1	62	82	4	722	26	22	17	33	1.96
481176--481893	250	2.9	246	81	5	801	26	22	17	33	1.96
481975--482060	44	2.0	44	88	4	129	23	32	13	30	1.93
481911--482119	103	2.0	103	87	1	303	26	29	15	29	1.96
482019--482246	59	3.8	58	82	6	269	30	27	14	27	1.95
482021--482295	120	2.3	119	83	3	327	29	25	15	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482732--482883	70	2.2	70	92	0	250	42	12	13	32	1.81
482973--483030	20	2.8	20	86	5	80	29	15	12	43	1.83
488187--488314	52	2.5	52	98	1	249	31	17	17	33	1.93
488323--488347	13	1.9	13	100	0	50	36	16	16	32	1.90
489379--489569	78	2.4	78	85	4	251	27	27	12	32	1.92
494447--494565	51	2.3	52	85	1	150	32	26	10	30	1.89
494370--494641	128	2.1	128	81	7	302	28	24	12	34	1.92
494499--494696	79	2.5	79	83	9	253	27	24	13	35	1.92
504906--504966	21	2.9	22	76	16	74	40	0	47	11	1.40
504898--505020	42	2.9	42	86	2	158	44	1	44	8	1.45
515132--515939	61	13.1	60	84	5	898	25	26	17	29	1.98
515132--515866	307	2.4	307	86	3	1000	26	26	17	28	1.98
515905--516151	84	2.9	84	81	5	257	22	24	12	40	1.88
515944--516174	41	5.4	41	76	10	178	22	24	12	40	1.89
515947--516151	46	4.8	44	73	12	147	22	25	12	39	1.89
515944--516151	88	2.4	84	83	4	265	22	25	12	40	1.88
516344--516422	21	3.8	21	98	0	149	30	8	21	39	1.84
516342--516441	42	2.4	42	86	3	148	33	12	19	36	1.88
516477--516541	19	3.8	18	75	24	77	32	12	16	38	1.86
516479--516549	32	2.2	32	97	0	133	32	12	18	36	1.88
516498--516522	13	1.9	13	100	0	50	36	16	16	32	1.90
516573--516629	21	2.8	21	91	2	89	24	17	12	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519055--519225	51	3.3	50	79	7	166	28	27	12	31	1.93
518976--519488	182	2.8	182	91	2	802	27	28	13	31	1.94
519237--519408	51	3.4	50	82	4	200	28	27	12	30	1.93
519339--519516	80	2.2	79	83	4	214	24	27	16	31	1.96
519471--519544	28	2.6	28	100	0	148	21	28	22	27	1.99
519393--519623	107	2.1	108	87	0	329	25	25	16	32	1.96
519499--519679	79	2.3	79	79	1	211	25	26	14	33	1.94
521131--521859	61	11.8	62	82	3	783	24	23	18	33	1.97
521131--521821	123	5.6	123	83	4	786	25	22	18	33	1.96
521878--522271	59	6.6	58	74	9	301	27	27	17	27	1.98
521878--522271	120	3.3	119	83	3	463	27	27	17	27	1.98
522775--522848	21	3.6	20	83	7	78	40	13	16	29	1.86
525463--525589	48	2.6	48	90	8	186	29	23	9	37	1.86
525665--525719	28	1.9	28	92	3	92	29	25	16	29	1.97
525673--525856	78	2.4	79	84	4	232	26	25	14	33	1.94
528745--528848	20	4.8	20	74	19	91	25	12	16	45	1.83
528745--528897	69	2.2	69	86	0	216	26	15	14	43	1.85
531330--531527	79	2.5	78	77	7	202	29	24	11	34	1.91
531204--531480	131	2.1	131	80	7	314	28	24	12	34	1.92
531334--531559	79	2.8	76	75	9	193	28	25	12	33	1.93
532563--533133	154	3.7	154	78	5	596	38	19	17	24	1.93
542937--543678	152	4.9	150	76	11	557	25	18	17	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542943--543678	303	2.4	299	78	7	704	25	18	17	38	1.92
549941--550205	52	5.1	52	78	2	239	26	23	14	35	1.93
552396--552452	20	2.8	21	72	17	57	26	15	14	43	1.85
556200--556509	165	1.9	164	84	6	421	30	9	10	49	1.70
556489--556523	18	2.0	18	88	5	54	22	8	8	60	1.54
556202--556588	165	2.4	165	80	6	385	30	9	10	49	1.69
558650--559126	150	3.2	148	84	5	620	27	17	18	36	1.93
563007--563059	21	2.6	21	81	3	63	73	1	11	13	1.18
563692--563762	35	2.0	35	88	0	106	43	11	5	39	1.64
563745--563948	111	1.8	111	82	4	259	33	14	12	39	1.84
564158--564419	89	3.0	89	77	3	253	26	19	12	41	1.87
565391--566438	85	12.5	85	78	7	810	18	22	13	45	1.84
565439--566438	43	23.9	42	65	12	222	19	22	12	45	1.84
565828--565971	74	1.9	74	90	0	225	19	20	10	50	1.76
565742--566399	159	4.0	158	75	10	464	19	22	12	45	1.83
565405--566438	328	3.1	327	81	5	1060	18	22	13	45	1.84
565900--566382	169	2.8	171	79	3	426	20	21	12	45	1.84
566568--566600	16	2.1	16	94	0	57	12	15	15	57	1.65
567447--567936	166	3.0	166	80	7	548	28	10	9	50	1.68
571503--571547	21	2.1	21	84	8	56	53	4	20	22	1.63
573215--573334	61	2.0	61	100	0	240	35	13	18	33	1.89
573412--573442	15	2.1	15	93	0	53	48	16	22	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575455--575534	20	3.8	20	75	15	79	26	15	15	43	1.85
575520--575545	13	2.0	13	100	0	52	30	15	15	38	1.88
577807--577837	13	2.4	13	94	0	53	35	16	12	35	1.87
586353--586406	19	2.7	21	77	11	67	33	12	16	37	1.87
586455--586485	13	2.4	13	94	0	53	35	16	12	35	1.87
586439--586502	33	1.9	32	87	12	94	35	12	18	32	1.89
588043--588505	150	3.1	150	83	3	513	26	19	17	36	1.93
590692--590743	21	2.4	22	84	9	63	34	7	15	42	1.75
592575--592604	3	10.0	3	92	0	51	36	0	33	30	1.58
599613--599666	20	2.7	20	85	5	74	37	11	12	38	1.79
601944--601970	13	2.1	13	100	0	54	29	14	14	40	1.86
602023--602072	20	2.5	20	87	6	66	36	14	16	34	1.88
603663--603696	9	3.8	9	84	0	50	44	0	23	32	1.54
610734--610785	19	2.7	20	82	8	63	26	17	15	40	1.89
610854--610878	13	1.9	13	100	0	50	32	8	16	44	1.76
611255--611279	13	1.9	13	100	0	50	32	16	16	36	1.90
611379--611404	13	2.0	13	100	0	52	38	15	15	30	1.88
611361--611424	33	2.0	32	87	9	94	37	20	14	28	1.91
612172--612223	19	2.7	19	90	0	86	36	11	17	34	1.86
612211--612235	13	1.9	13	100	0	50	36	16	16	32	1.90
612192--612260	31	2.2	32	92	2	113	34	11	15	37	1.84
618157--618215	31	1.9	31	89	0	91	35	18	8	37	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619848--619876	12	2.3	13	94	5	51	31	0	24	44	1.54
619899--619948	21	2.4	21	83	9	59	48	0	20	32	1.50
619906--619948	21	2.0	22	86	4	61	51	0	20	27	1.48
626203--626260	19	3.0	20	80	7	75	34	18	15	31	1.93
626244--626268	13	1.9	13	100	0	50	32	16	16	36	1.90
632978--633276	156	1.9	156	85	5	408	38	20	14	27	1.91
632995--633328	156	2.1	155	80	5	345	40	17	14	26	1.89
637307--637350	23	1.9	23	90	0	70	4	4	13	77	1.08
637799--638491	166	4.2	164	77	9	615	48	9	11	30	1.70
645769--645849	28	2.9	28	83	1	108	62	12	12	12	1.54

Tables:   1   2   3   4   5   6   7   8