genome.fa.s52.2.7.7.80.10.50.1000.2.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: Scaffold52
Parameters: 2 7 7 80 10 50 1000
Length:  1774672

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1067 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)
296193--296238	23	2.0	24	82	4	58	34	6	4	54	1.46
301421--301473	3	17.7	3	100	0	106	33	0	0	66	0.92
306987--307018	2	16.0	2	100	0	64	50	0	50	0	1.00
309394--309421	3	9.3	3	100	0	56	32	32	0	35	1.58
310617--310645	15	2.0	15	93	6	51	0	0	86	13	0.58
320756--320799	3	14.7	3	90	0	52	2	56	0	40	1.11
320741--320793	24	2.2	24	93	0	88	7	50	0	41	1.30
320777--321294	159	3.1	161	80	9	452	17	38	6	38	1.75
321092--321117	3	8.7	3	100	0	52	0	65	0	34	0.93
320968--321296	174	1.9	174	85	0	460	18	38	5	37	1.74
322116--322145	2	14.5	2	93	6	51	50	0	3	46	1.18
323051--323090	19	2.1	19	85	0	53	45	0	0	55	0.99
323078--323131	27	2.0	27	82	13	67	46	0	0	53	1.00
323182--323209	2	14.0	2	100	0	56	50	0	0	50	1.00
323785--323829	3	15.0	3	100	0	90	33	33	0	33	1.58
324902--324946	2	22.5	2	100	0	90	48	0	0	51	1.00
327774--327806	2	16.5	2	100	0	66	51	0	0	48	1.00
327973--328044	26	2.7	27	81	12	78	43	0	2	54	1.15
329027--329081	29	1.9	28	85	3	74	58	0	1	40	1.09
331286--331316	12	2.5	13	94	5	55	77	0	12	9	0.99
339270--339313	14	3.1	14	87	12	72	52	0	0	47	1.00
342409--342440	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344086--344160	33	2.3	33	76	4	80	20	21	32	26	1.97
360214--360282	17	4.2	17	70	26	58	47	0	0	52	1.00
360584--360638	16	3.2	17	82	10	58	56	0	1	41	1.10
361135--361168	16	2.1	16	88	0	50	52	0	0	47	1.00
363889--363920	17	1.9	17	93	6	57	53	0	0	46	1.00
365719--365772	27	2.0	27	96	0	99	33	16	18	31	1.93
365732--365772	12	2.9	15	75	20	52	34	14	19	31	1.92
366382--366410	15	1.9	15	100	0	58	27	0	3	68	1.05
366516--366547	16	2.0	16	93	0	55	43	9	6	40	1.62
368582--368629	16	3.1	14	83	16	60	45	0	0	54	0.99
368598--368633	16	2.2	16	100	0	72	44	0	0	55	0.99
369037--369066	3	10.0	3	100	0	60	33	0	0	66	0.92
370319--370459	62	2.3	60	77	14	148	52	1	0	46	1.09
377389--377414	2	13.0	2	100	0	52	50	0	0	50	1.00
381137--381178	21	2.1	19	86	13	57	59	0	0	40	0.97
381117--381216	49	2.0	49	80	17	111	52	0	0	48	1.00
383727--383769	20	2.2	20	100	0	86	48	4	0	46	1.22
384611--384666	21	2.7	21	78	10	62	53	1	0	44	1.11
384647--384708	23	2.7	23	69	16	58	41	0	0	58	0.98
384688--384767	25	3.2	24	78	7	88	50	0	0	50	1.00
384704--384746	19	2.3	19	84	8	52	48	0	0	51	1.00
384713--384814	32	3.3	32	76	15	115	42	0	0	56	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384769--384849	16	4.9	16	77	10	74	37	1	0	61	1.04
384766--384843	24	3.4	24	79	11	85	38	1	0	60	1.05
384771--384843	11	6.6	11	75	17	55	36	1	0	61	1.05
392569--392635	28	2.3	30	89	7	111	38	0	0	61	0.96
392660--392771	30	3.7	31	76	4	113	49	1	5	43	1.36
393806--393842	2	18.5	2	100	0	74	48	0	0	51	1.00
395623--395667	14	3.3	14	82	17	51	46	2	2	48	1.26
395821--395894	36	2.0	37	82	12	91	48	0	1	50	1.09
400858--400886	3	9.7	3	100	0	58	31	0	0	68	0.89
403568--403729	81	2.0	80	93	1	279	47	8	25	18	1.77
405971--406032	19	3.2	19	77	15	65	54	0	3	41	1.16
405971--406013	17	2.4	19	85	14	56	55	0	0	44	0.99
406921--406962	21	2.0	21	86	9	59	26	4	2	66	1.23
408567--408598	2	16.0	2	100	0	64	50	0	0	50	1.00
408600--408624	2	12.5	2	100	0	50	0	0	48	52	1.00
410389--410441	24	2.2	24	86	6	72	52	0	0	47	1.00
412044--412114	2	35.5	2	94	0	97	43	0	7	49	1.29
412045--412113	18	3.8	18	92	0	111	42	0	7	50	1.30
418950--418983	6	5.5	6	86	6	50	32	2	2	61	1.26
418950--418983	13	2.8	12	82	8	50	32	2	2	61	1.26
419562--419589	2	14.0	2	100	0	56	50	0	50	0	1.00
424905--424949	2	22.5	2	100	0	90	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
427108--427150	2	21.5	2	100	0	86	51	0	0	48	1.00
427998--428023	12	2.2	12	100	0	52	19	23	34	23	1.96
430210--430242	15	2.2	15	100	0	66	24	24	15	36	1.93
436891--436971	41	2.0	41	84	13	107	46	0	1	51	1.08
441263--441315	22	2.4	21	76	14	54	37	3	0	58	1.16
442108--442132	4	6.2	4	100	0	50	48	0	0	52	1.00
447702--447757	2	29.0	2	83	7	71	55	0	0	44	0.99
451933--451973	2	21.0	2	90	5	66	46	0	2	51	1.14
455513--455564	22	2.4	22	72	15	54	40	0	3	55	1.18
456789--456927	29	4.9	28	77	16	101	58	0	0	41	1.03
456802--456926	32	4.1	32	67	21	88	58	0	0	40	1.04
456820--456884	20	3.6	19	69	26	61	55	0	0	44	0.99
456767--456852	25	3.5	24	72	22	65	63	0	1	34	1.02
456806--456935	18	7.3	18	70	20	62	56	0	0	43	1.04
456790--456916	27	4.9	26	69	20	54	57	0	0	41	1.04
457554--457599	19	2.3	20	81	7	58	60	4	6	28	1.40
457585--457625	15	2.6	16	84	7	57	65	0	2	31	1.05
459147--459203	22	2.6	22	81	13	73	50	0	0	49	1.00
461604--461717	53	2.2	53	80	0	129	36	9	12	41	1.75
462257--462282	11	2.4	11	100	0	52	88	0	11	0	0.52
463059--463129	5	14.8	5	80	11	51	1	32	0	66	1.01
463062--463101	21	2.0	20	85	5	53	2	40	0	57	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463480--463519	21	2.0	21	85	9	57	40	0	0	60	0.97
464447--464472	2	13.0	2	100	0	52	50	0	50	0	1.00
465639--465670	6	5.3	6	100	0	64	0	50	18	31	1.48
469020--469063	22	2.0	23	86	4	63	43	0	4	52	1.22
477427--477457	2	15.5	2	100	0	62	0	0	48	51	1.00
478590--478642	21	2.5	21	87	0	70	26	15	39	18	1.90
479824--479899	30	2.5	31	80	4	82	44	5	0	50	1.24
480541--480570	2	15.0	2	100	0	60	50	0	0	50	1.00
487632--487657	2	13.0	2	100	0	52	50	0	50	0	1.00
488070--488124	24	2.3	23	82	17	76	67	0	0	32	0.91
488045--488124	17	4.3	18	72	19	67	65	0	2	32	1.06
488066--488119	7	7.0	8	79	12	51	66	0	0	33	0.92
488638--488700	27	2.4	26	86	7	83	50	0	0	49	1.00
488657--488743	31	2.8	31	79	8	88	54	0	1	44	1.07
488647--488740	20	4.8	20	67	25	65	55	0	1	43	1.06
488638--488762	57	2.2	57	78	7	128	51	1	0	46	1.16
488771--488798	14	2.0	14	100	0	56	42	0	0	57	0.99
488751--488790	19	2.0	19	85	9	53	40	0	0	60	0.97
488875--488916	5	8.8	5	79	10	52	57	0	0	42	0.99
488878--488918	9	4.4	9	84	6	55	56	0	0	43	0.99
500279--500304	12	2.2	12	100	0	52	69	15	0	15	1.20
500792--500824	2	16.5	2	93	0	57	48	3	0	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503428--503452	13	1.9	13	100	0	50	36	16	16	32	1.90
503408--503474	33	2.0	33	85	0	89	34	11	13	40	1.81
503515--503539	13	1.9	13	100	0	50	32	16	16	36	1.90
505942--506417	238	2.0	238	98	0	916	29	19	12	38	1.89
507311--507348	18	2.1	18	85	9	51	50	0	0	50	1.00
507777--507859	29	2.8	29	81	9	87	51	2	1	44	1.22
507791--507841	15	3.5	15	73	10	52	50	0	0	49	1.00
507871--507906	2	18.0	2	100	0	72	50	0	0	50	1.00
508870--508912	22	2.0	22	86	9	61	41	0	0	58	0.98
509053--509081	2	14.5	2	100	0	58	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9