genome.fa.s110.2.7.7.80.10.50.1000.4.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: Scaffold110
Parameters: 2 7 7 80 10 50 1000
Length:  1159294

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 712 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)
481420--481490	19	4.0	18	72	25	62	26	12	21	39	1.89
484017--484041	13	1.9	13	100	0	50	32	16	16	36	1.90
487943--487987	21	2.1	21	84	8	56	22	20	4	53	1.63
490207--490232	13	2.0	13	100	0	52	30	15	15	38	1.88
490187--490250	32	2.0	33	90	3	103	28	14	18	39	1.90
490187--490257	19	4.0	18	72	25	62	26	12	21	39	1.89
492529--492568	20	2.0	20	85	0	53	67	5	10	17	1.37
492274--492799	166	3.2	162	83	6	569	50	8	10	31	1.66
493216--493269	20	2.7	20	91	0	81	25	14	16	42	1.87
495622--495792	51	3.3	51	85	1	225	28	28	12	30	1.93
508223--508265	21	2.1	21	91	4	70	88	6	2	2	0.68
508220--508279	9	6.8	9	76	5	52	83	5	10	1	0.87
509249--509703	62	7.3	63	85	1	609	25	26	18	29	1.98
509245--509703	125	3.7	124	86	2	629	25	26	18	29	1.98
509251--509703	187	2.4	186	90	2	696	25	26	18	29	1.98
509684--509889	88	2.5	83	79	10	197	20	20	13	45	1.84
509691--509890	41	4.8	42	76	12	164	21	20	13	46	1.84
509940--510094	61	2.5	62	90	2	240	22	27	19	30	1.98
510065--510156	38	2.4	38	90	0	148	18	33	18	29	1.95
510063--510437	42	9.0	41	73	10	184	19	25	13	41	1.87
510123--510455	83	3.9	84	76	9	311	20	23	12	43	1.85
511091--511144	20	2.7	20	82	0	72	29	14	9	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513606--513834	78	2.9	78	88	3	316	27	28	14	30	1.95
515750--515801	18	2.7	20	73	11	54	36	9	19	34	1.84
519647--519677	10	3.1	10	90	0	53	41	6	29	22	1.78
522998--523052	21	2.6	21	85	0	65	18	21	0	60	1.37
523013--523056	21	2.1	21	91	0	70	20	18	0	61	1.35
525115--525219	52	2.0	52	96	0	192	40	13	17	29	1.87
525283--525337	20	2.8	20	88	0	83	32	12	14	40	1.84
525324--525374	26	2.0	26	96	0	93	19	13	11	54	1.69
528497--528557	27	2.3	27	94	0	104	32	19	19	27	1.96
536833--536862	15	1.9	16	93	6	53	10	23	33	33	1.88
539091--539175	1	85.0	1	72	0	53	84	11	1	2	0.77
539091--539175	10	8.4	10	77	12	77	84	11	1	2	0.77
540403--541011	89	6.9	87	81	6	540	30	29	16	22	1.96
540442--541011	30	19.5	28	76	13	447	30	29	17	22	1.97
540777--541054	88	3.3	80	74	16	199	29	29	18	23	1.97
540455--541054	119	5.2	116	78	9	430	29	29	18	22	1.97
541125--541291	48	3.6	46	85	4	178	18	26	19	34	1.95
541159--541288	48	2.7	48	91	1	199	18	27	18	35	1.94
542025--542076	20	2.6	20	84	0	68	34	13	11	40	1.81
542093--542148	21	2.8	20	91	5	94	30	12	10	46	1.76
542011--542199	72	2.6	72	88	0	290	27	15	12	44	1.82
542113--542250	51	2.7	51	89	3	206	26	17	11	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544152--544176	11	2.3	11	100	0	50	60	8	8	24	1.52
546060--546127	33	2.1	32	88	2	100	33	13	17	35	1.89
546168--546220	20	2.6	21	82	8	65	28	16	16	37	1.91
546242--546280	20	2.0	19	90	5	60	33	10	20	35	1.86
548695--548759	33	2.0	33	93	0	112	35	15	21	27	1.94
554895--554920	13	2.0	13	100	0	52	38	15	15	30	1.88
554873--554940	33	2.1	33	88	2	102	32	11	19	36	1.88
556644--556706	17	3.7	17	72	8	56	7	25	11	55	1.62
557246--557303	13	4.5	13	79	16	59	32	0	0	67	0.91
557238--557308	20	3.8	18	75	14	54	29	0	0	70	0.88
557246--557310	12	5.4	12	78	12	62	32	0	0	67	0.91
557241--557318	28	2.9	28	87	9	92	30	0	1	67	0.98
557261--557318	26	2.2	26	87	6	82	29	0	1	68	0.99
557234--557320	42	2.1	42	81	12	99	29	0	1	68	0.96
557879--558104	97	2.3	97	83	0	265	28	23	11	35	1.91
559024--559341	164	1.9	164	90	1	512	28	19	25	26	1.99
560327--560357	15	2.1	15	100	0	62	35	0	38	25	1.56
566415--566488	38	2.0	37	86	2	103	18	25	25	29	1.98
566991--567056	13	5.2	13	83	7	91	34	16	13	34	1.88
566991--567056	24	2.6	26	83	7	91	34	16	13	34	1.88
567368--567457	28	3.3	27	79	3	72	17	18	27	35	1.94
567389--567511	28	4.4	28	84	1	140	24	20	24	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571745--571803	21	2.8	21	80	12	75	76	3	5	15	1.10
572651--572739	28	3.2	28	83	0	97	30	25	17	25	1.98
572685--572746	28	2.2	28	82	0	79	32	27	20	19	1.97
573115--573161	13	3.8	12	81	13	60	36	17	12	34	1.87
573115--573162	12	4.0	11	84	15	60	35	18	12	33	1.89
573119--573176	27	2.3	24	82	8	62	37	20	10	31	1.86
573559--573613	28	2.0	27	86	10	76	32	29	14	23	1.94
576311--576374	20	3.7	18	74	25	66	43	15	12	28	1.83
576329--576354	13	2.0	13	100	0	52	38	15	15	30	1.88
576311--576374	32	2.0	33	93	3	112	43	15	12	28	1.83
580413--580443	15	2.1	15	93	0	53	48	16	22	12	1.80
582518--582555	13	2.9	13	96	0	67	34	18	15	31	1.92
582667--582712	21	2.2	20	81	11	58	32	19	4	43	1.71
584957--585050	20	4.7	20	94	2	154	30	17	19	32	1.94
585080--585143	20	3.7	18	74	25	66	43	15	12	28	1.83
585098--585123	13	2.0	13	100	0	52	38	15	15	30	1.88
585080--585143	32	2.0	33	93	3	112	43	15	12	28	1.83
590922--591345	79	5.4	79	90	2	645	33	14	24	26	1.94
590827--591345	158	3.3	158	88	3	721	33	13	25	27	1.93
591280--591514	51	4.6	51	84	4	303	32	11	25	30	1.91
591279--591514	103	2.3	103	86	4	334	32	11	25	30	1.91
593155--593180	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594078--594710	55	10.9	60	86	5	662	26	19	27	26	1.99
595706--595755	1	50.0	1	79	0	55	0	6	4	90	0.57
595703--595755	18	3.0	17	86	5	70	0	7	3	88	0.61
595706--595755	14	3.7	13	85	15	66	0	6	4	90	0.57
595703--595754	25	2.1	25	89	7	79	0	7	3	88	0.62
599167--599217	20	2.6	20	90	3	77	39	17	13	29	1.88
607163--607197	4	8.8	4	100	0	70	77	0	0	22	0.78
609263--609706	79	5.6	78	85	3	577	34	15	24	26	1.95
609266--609706	158	2.8	157	88	2	643	34	14	24	26	1.94
609271--609706	237	1.8	237	88	1	669	34	15	23	26	1.94
609717--609949	51	4.6	51	84	3	308	32	11	26	30	1.91
609713--609949	102	2.3	102	88	2	352	31	11	27	29	1.92
612302--612338	12	3.0	12	92	4	56	29	21	16	32	1.95
612307--612344	13	3.0	13	88	3	51	36	18	13	31	1.89
612383--612554	32	5.4	32	97	0	326	34	18	12	35	1.88
614293--614327	15	2.3	15	95	0	61	42	0	28	28	1.56
618662--618701	13	3.1	13	81	0	53	35	12	12	40	1.81
620550--620603	20	2.8	20	88	2	74	35	12	11	40	1.79
620632--620705	20	3.7	20	89	7	98	32	16	17	33	1.92
625510--625578	35	2.0	35	82	5	86	21	21	11	44	1.84
628452--628486	10	3.5	10	88	0	52	22	22	20	34	1.97
628509--628534	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
628489--628552	33	2.0	33	90	3	103	26	14	17	42	1.87
630840--630891	21	2.5	19	79	14	59	42	3	19	34	1.69
637193--637256	33	2.0	33	87	3	94	28	14	15	42	1.86
642614--642649	18	2.0	18	88	0	54	19	16	30	33	1.94
649272--649320	20	2.5	19	80	6	53	51	0	2	46	1.12
651130--651262	69	1.9	68	87	4	196	24	16	8	51	1.72
652056--652115	23	2.7	22	84	2	66	28	3	20	48	1.65
652067--652115	22	2.2	23	85	3	64	30	4	18	46	1.67
655480--656116	158	4.1	156	73	6	475	39	12	19	29	1.88
655536--655896	157	2.3	157	78	4	370	40	13	16	28	1.87

Tables:   1   2   3   4   5   6