genome.fa.s78.2.7.7.80.10.50.1000.3.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: Scaffold78
Parameters: 2 7 7 80 10 50 1000
Length:  2238306

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  3  of  15  ( 1751 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)
351122--351182	24	2.4	25	86	8	79	26	9	18	45	1.80
353380--353421	21	2.1	19	86	13	57	59	0	0	40	0.97
354920--354956	17	2.2	18	90	9	60	59	0	0	40	0.97
357234--357363	16	8.9	16	66	21	63	56	0	0	42	1.10
357240--357321	27	2.9	27	80	19	103	54	0	0	45	0.99
357235--357310	32	2.4	31	85	12	100	55	0	0	44	0.99
357259--357326	16	4.2	17	76	23	67	55	0	0	44	0.99
359467--359492	13	2.0	13	100	0	52	38	0	0	61	0.96
359610--359660	20	2.6	19	81	9	57	54	3	0	41	1.19
361637--361740	55	1.9	55	87	0	154	42	10	4	42	1.60
364712--364906	50	3.9	50	91	0	300	31	22	16	30	1.96
364710--364915	100	2.1	100	90	0	331	32	21	16	29	1.96
369142--369197	19	2.9	19	81	0	67	37	19	14	28	1.91
369451--369655	50	4.1	50	92	0	311	29	20	18	31	1.96
369683--369722	21	1.9	20	90	10	62	40	5	2	52	1.37
370564--370618	16	3.3	16	80	9	65	45	0	3	50	1.19
370563--370617	18	3.2	17	80	10	58	47	0	3	49	1.19
371759--371811	27	2.0	27	92	0	88	43	5	11	39	1.64
371757--371808	12	4.0	12	76	16	50	42	7	9	40	1.66
376475--376506	12	2.7	12	95	0	55	18	37	25	18	1.94
376505--376557	27	2.0	27	92	0	88	43	5	11	39	1.64
378991--379020	2	15.0	2	100	0	60	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)
382574--382623	12	3.9	13	76	19	52	40	6	10	44	1.63
382575--382626	27	2.0	26	96	3	95	40	3	11	44	1.59
382685--382717	9	3.7	9	95	0	57	45	18	33	3	1.65
386007--386056	12	3.9	13	76	19	52	40	6	10	44	1.63
386008--386059	27	2.0	26	96	3	95	40	3	11	44	1.59
386118--386150	9	3.7	9	95	0	57	45	18	33	3	1.65
389041--389087	17	2.6	17	83	10	58	53	0	0	46	1.00
389013--389090	20	3.9	20	75	6	68	56	1	2	39	1.21
390817--390869	24	2.3	23	78	15	65	37	0	7	54	1.29
390966--390990	4	6.2	4	100	0	50	24	0	0	76	0.80
397887--398001	44	2.6	45	71	9	108	55	3	0	40	1.17
400669--400739	27	2.6	28	88	2	99	23	5	22	47	1.72
400671--400760	27	3.4	27	81	6	94	25	6	21	46	1.75
403312--403357	21	2.1	22	84	4	58	30	17	30	21	1.96
412885--412981	5	19.8	5	67	18	53	40	2	0	57	1.10
412885--412981	10	9.4	11	72	22	68	40	2	0	57	1.10
412891--412949	18	3.2	19	77	22	63	37	1	0	61	1.07
412922--412990	18	4.1	17	74	22	56	44	1	0	53	1.09
412885--412973	44	2.0	47	82	14	116	40	2	0	57	1.11
412903--413007	30	3.4	31	78	10	108	41	0	0	57	1.05
413233--413286	25	2.1	26	83	16	69	40	1	5	51	1.36
413096--413300	107	1.9	108	92	1	349	38	13	5	42	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414298--414343	23	2.1	23	84	8	69	45	0	4	50	1.21
414675--414699	13	1.9	13	100	0	50	32	0	0	68	0.90
415353--415386	17	2.0	17	94	0	59	55	0	0	44	0.99
415392--415430	14	2.8	14	96	0	69	41	10	0	48	1.37
415430--415500	24	3.2	24	62	25	64	50	4	2	42	1.36
415409--415502	43	2.2	43	96	0	170	47	6	2	43	1.40
415529--415588	12	4.8	12	71	15	50	58	0	0	41	0.98
415529--415588	25	2.4	25	75	10	59	58	0	0	41	0.98
415533--415607	38	2.0	36	82	12	89	60	0	0	40	0.97
415938--415984	24	2.0	23	87	4	67	46	2	0	51	1.13
416097--416133	9	4.4	9	83	16	53	81	0	0	18	0.70
416116--416158	6	6.8	6	92	7	68	69	0	0	30	0.88
417172--417236	19	3.4	18	75	19	60	58	0	0	41	0.98
417172--417250	21	4.0	20	73	20	67	58	0	1	40	1.06
417202--417263	15	3.5	19	71	24	55	59	0	3	37	1.13
417630--417664	11	3.0	12	87	8	54	45	0	2	51	1.16
417630--417669	11	3.5	11	89	3	53	42	0	2	55	1.13
428781--429130	193	1.8	193	96	0	655	31	20	14	33	1.93
433800--433849	21	2.3	23	79	10	59	60	2	0	38	1.09
433903--433949	18	2.7	17	77	6	58	34	0	2	63	1.06
433921--433952	13	2.4	14	90	10	50	34	0	0	65	0.93
435290--435374	8	10.4	8	71	22	61	38	1	0	60	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435289--435387	18	6.2	15	70	24	69	39	1	0	59	1.04
435286--435379	30	3.3	29	83	15	117	39	1	0	59	1.04
435289--435380	20	4.3	21	71	22	68	39	1	0	59	1.04
435286--435379	38	2.6	37	78	18	99	39	1	0	59	1.04
435337--435408	32	2.2	32	82	7	81	43	0	2	54	1.15
436958--437057	39	2.6	38	76	12	98	44	0	1	55	1.06
436982--437029	17	2.7	17	87	6	60	45	0	2	52	1.12
438899--438965	32	2.1	32	85	0	89	65	5	4	23	1.34
439808--439992	34	5.5	34	88	0	273	26	7	25	40	1.82
444406--444590	34	5.5	34	88	0	273	26	7	25	40	1.82
444996--445025	13	2.2	14	94	5	53	30	0	6	63	1.20
445701--445742	20	2.0	21	86	9	59	61	0	2	35	1.09
445701--445743	22	2.0	22	82	13	54	62	0	2	34	1.08
446134--446198	21	3.2	20	74	10	60	53	10	23	12	1.69
450194--450223	14	2.1	14	93	0	51	66	0	0	33	0.92
450748--450795	22	2.2	22	96	0	87	27	10	14	47	1.76
450914--450950	2	18.5	2	100	0	74	48	0	0	51	1.00
453280--453322	20	2.2	20	100	0	86	11	16	23	48	1.78
459720--459799	20	4.0	20	75	12	83	60	1	1	37	1.13
459720--459794	9	7.7	9	72	16	60	60	1	1	37	1.14
489288--489322	8	4.2	8	96	3	61	77	0	0	22	0.78
489349--489423	15	5.8	13	70	20	50	45	1	2	50	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491193--491225	16	2.1	16	94	0	57	57	0	0	42	0.98
491163--491224	26	2.3	24	75	20	61	58	3	0	38	1.15
491996--492050	17	3.4	17	72	25	55	54	1	0	43	1.10
492669--492738	25	2.8	26	72	16	67	44	0	0	55	0.99
497354--497423	27	2.5	28	82	13	83	25	7	22	44	1.78
499998--500043	21	2.1	22	84	4	58	30	19	30	19	1.97
503537--503589	16	3.3	16	76	23	58	41	0	0	58	0.98
503539--503611	32	2.2	33	80	9	87	39	1	4	54	1.28
503769--503829	32	1.9	32	83	12	81	44	1	1	52	1.20
503538--504212	223	3.0	223	98	0	1314	32	4	9	52	1.54
503992--504052	32	1.9	32	83	6	79	42	1	3	52	1.27
506389--506422	11	3.0	11	91	4	50	26	2	2	67	1.19
507240--507269	13	2.3	13	94	0	51	43	10	0	46	1.37
508496--508555	22	2.7	22	82	5	77	43	1	0	55	1.10
508544--508601	15	4.0	15	73	15	50	60	0	1	37	1.07
508542--508593	12	4.1	12	73	22	52	55	0	1	42	1.10
508775--508811	19	1.9	20	88	5	58	48	2	5	43	1.40
509218--509292	20	3.5	20	77	15	71	66	1	0	32	1.00
509218--509298	34	2.3	35	89	4	119	65	1	0	33	1.01
509562--509634	35	2.1	35	82	9	89	53	0	1	45	1.09
510446--510496	25	2.0	25	82	14	61	74	5	5	13	1.19
511505--511604	38	2.6	38	82	0	119	39	11	18	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511632--511731	50	2.0	50	100	0	200	26	18	14	42	1.87
516370--516394	13	1.9	13	100	0	50	36	16	16	32	1.90
517262--518021	49	16.0	49	85	8	866	30	17	26	25	1.97
517444--517512	22	3.2	22	62	25	56	30	17	28	23	1.97
517466--517533	21	3.2	21	62	25	52	27	17	29	25	1.97
517447--517517	24	3.2	24	61	19	62	28	19	28	23	1.99
517262--518021	92	8.0	94	83	9	761	30	17	26	25	1.97
517262--518026	189	4.0	191	85	8	926	30	17	26	24	1.97
518014--518181	33	5.2	32	85	5	225	17	17	34	30	1.93
518014--518183	65	2.6	64	87	5	236	17	17	35	30	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15