genome.fa.s103.2.7.7.80.10.50.1000.4.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: Scaffold103
Parameters: 2 7 7 80 10 50 1000
Length:  2633873

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  4  of  21  ( 2458 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)
373529--373611	42	2.0	42	92	0	139	40	1	9	48	1.44
375730--375800	35	2.0	35	100	0	142	16	25	14	43	1.86
378494--378538	21	2.1	21	84	8	56	40	8	24	26	1.84
379843--379900	24	2.4	25	81	16	68	39	1	0	58	1.08
380304--380339	16	2.3	16	90	4	56	44	0	2	52	1.15
380698--380759	19	3.3	19	71	24	51	41	0	1	56	1.09
383258--383291	2	17.0	2	100	0	68	50	0	50	0	1.00
387438--387464	12	2.2	12	100	0	54	59	22	0	18	1.38
387832--387906	38	2.0	37	86	2	105	44	17	17	21	1.87
388084--388143	15	3.9	15	72	23	54	45	0	0	55	0.99
388133--388172	21	1.9	21	90	10	64	67	0	0	32	0.91
388289--388335	21	2.2	20	82	10	58	38	0	0	61	0.96
388303--388337	11	3.3	11	84	8	54	40	0	0	60	0.97
388278--388337	22	2.8	21	80	7	66	40	0	0	60	0.97
389265--389329	27	2.4	26	84	7	76	73	3	3	20	1.10
389953--389996	24	1.9	24	90	9	74	52	0	0	47	1.00
389944--390006	32	2.0	32	87	6	92	49	0	0	50	1.00
390002--390052	25	2.1	25	85	7	70	21	0	5	72	1.05
390970--391032	24	2.7	23	80	11	65	0	25	1	73	0.93
392079--392134	22	2.6	21	77	11	60	53	0	1	44	1.11
395735--395827	16	6.0	16	69	29	60	41	0	1	56	1.06
397014--397053	17	2.4	17	83	8	55	2	22	0	75	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399585--399623	21	1.9	21	89	5	62	48	0	0	51	1.00
400072--400130	19	3.1	18	79	16	57	25	1	1	71	1.05
400197--400243	24	2.0	23	87	4	67	44	0	2	53	1.12
400339--400423	29	3.0	28	77	14	70	58	1	2	37	1.18
402369--402445	31	2.5	31	83	6	95	36	1	2	59	1.19
402794--402877	28	3.1	27	81	6	91	26	5	22	45	1.75
402933--402978	20	2.3	20	84	0	56	8	47	6	36	1.60
405301--406468	594	2.0	594	98	0	2264	35	17	22	23	1.95
407952--408022	27	2.6	27	88	6	99	22	7	23	46	1.76
408106--408144	20	2.0	20	89	0	60	12	46	5	35	1.65
410928--410952	5	5.0	5	100	0	50	0	20	0	80	0.72
412057--412128	36	2.0	37	82	15	89	51	0	1	47	1.09
412099--412140	22	1.9	22	90	9	68	66	0	0	33	0.92
412302--412361	31	1.9	31	93	0	102	43	6	16	33	1.74
412773--412910	63	2.2	63	80	7	163	50	7	8	34	1.61
413298--413330	2	16.5	2	100	0	66	51	0	0	48	1.00
413330--413363	2	17.5	2	93	6	61	50	0	50	0	1.00
416648--416677	14	2.1	14	93	0	51	23	0	0	76	0.78
418055--418112	9	7.2	8	75	16	50	55	0	0	44	0.99
418292--418347	30	1.9	28	85	7	76	41	1	5	51	1.35
418881--418920	18	2.3	18	86	4	55	35	12	2	50	1.54
419839--419910	35	2.1	34	82	7	83	44	0	4	51	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419889--419952	27	2.5	24	76	16	74	42	0	3	54	1.16
421437--421483	12	3.8	12	76	15	51	59	2	0	38	1.09
423274--423335	23	2.7	22	71	14	54	56	1	4	37	1.30
423274--423334	24	2.6	23	70	15	61	55	1	4	37	1.31
425117--425155	17	2.3	17	91	8	62	64	0	5	30	1.15
425158--425223	32	2.0	33	85	2	89	50	1	4	43	1.32
425566--425619	19	2.8	19	79	17	67	44	0	0	55	0.99
425581--425699	32	3.8	31	74	19	97	47	0	0	50	1.12
425581--425634	15	3.5	15	77	20	58	46	0	0	53	1.00
425578--425670	47	2.0	47	81	8	109	47	0	0	52	1.00
426391--426421	16	1.9	16	93	0	53	38	0	0	61	0.96
429262--429306	13	3.5	13	81	6	56	73	4	0	22	1.01
434186--434220	14	2.6	13	90	4	52	34	2	2	60	1.26
435183--435271	16	5.7	15	78	15	83	50	0	0	49	1.00
435191--435268	10	7.5	10	72	12	50	52	0	0	47	1.00
435848--435873	2	13.0	2	100	0	52	50	0	0	50	1.00
436523--436711	104	1.9	99	86	5	270	50	4	1	43	1.33
437264--437324	22	2.9	21	72	18	54	62	0	1	36	1.05
442958--442990	11	3.1	11	86	4	50	69	0	0	30	0.88
444219--444262	19	2.3	20	84	7	65	63	2	0	34	1.07
444557--444608	26	2.0	26	88	0	77	44	3	5	46	1.45
447840--447896	14	3.8	14	78	17	69	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
447831--447919	16	5.7	16	75	20	73	53	0	1	44	1.07
447831--447909	32	2.5	30	86	11	106	53	0	1	45	1.08
447830--447919	14	5.5	17	75	24	56	54	0	1	44	1.07
449971--450051	42	1.9	42	85	9	112	39	0	0	60	0.97
449992--450051	19	3.1	19	76	16	61	38	0	0	61	0.96
450780--450839	14	4.4	15	76	21	69	63	0	0	36	0.95
450801--450858	23	2.6	23	80	17	68	62	0	0	37	0.96
450785--450856	25	2.8	25	82	14	85	61	0	0	38	0.96
450822--450896	29	2.4	31	80	10	82	53	2	0	44	1.14
450883--450957	8	8.8	8	71	23	55	58	1	0	40	1.06
450878--450919	20	2.1	20	82	13	59	57	0	0	42	0.99
450876--450919	19	2.3	20	88	7	65	59	0	0	40	0.98
451145--451217	29	2.6	27	77	16	76	46	1	0	52	1.09
451204--451249	17	2.7	17	77	9	58	50	0	0	50	1.00
451932--451976	17	2.6	17	86	6	56	62	0	0	37	0.96
452771--452810	15	2.5	17	88	8	57	37	2	0	60	1.11
453047--453089	18	2.3	18	84	4	50	23	4	6	65	1.37
453656--453688	16	2.0	17	88	5	50	27	0	3	69	1.03
454274--454360	44	2.0	44	100	0	174	40	18	13	27	1.88
456979--457015	15	2.5	15	90	0	56	51	0	0	48	1.00
457006--457062	23	2.4	24	82	11	73	35	3	0	61	1.13
457029--457100	29	2.5	29	76	14	78	40	2	0	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457047--457110	34	1.9	34	87	9	96	46	3	0	50	1.17
457132--457167	12	3.1	12	88	4	56	30	2	0	66	1.06
458224--458279	25	2.2	25	78	6	60	62	0	3	33	1.12
459136--459164	6	4.8	6	100	0	58	34	0	0	65	0.93
460024--460070	22	2.1	22	88	7	69	65	6	0	27	1.16
460202--460245	22	2.0	23	86	4	63	52	4	2	40	1.34
460451--460494	20	2.2	20	100	0	88	38	0	0	61	0.96
461362--461391	14	2.1	14	100	0	60	50	6	6	36	1.55
467207--467249	20	2.1	20	82	4	50	51	4	2	41	1.35
467236--467280	15	3.1	14	81	12	56	51	0	0	48	1.00
467230--467334	35	2.9	35	87	5	131	41	2	0	54	1.21
467426--467452	2	13.5	2	100	0	54	48	0	0	51	1.00
468442--468471	2	15.0	2	100	0	60	50	0	0	50	1.00
468552--468593	2	21.0	2	85	0	57	47	4	0	47	1.23
468586--468633	25	1.9	24	83	8	60	45	0	4	50	1.21
469056--469101	3	15.3	3	100	0	92	67	0	0	32	0.91
469547--469578	14	2.1	16	88	11	50	40	3	0	56	1.15
471691--471747	25	2.2	27	82	17	68	57	1	0	40	1.09
471704--471781	13	5.5	14	72	17	54	58	0	0	41	0.98
471965--472018	20	2.8	19	83	10	65	37	0	0	62	0.95
471978--472040	14	4.0	15	78	17	65	41	0	0	58	0.98
472032--472073	18	2.3	19	84	15	54	57	2	0	40	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472018--472068	23	2.2	22	80	10	57	54	1	0	43	1.11
472062--472109	20	2.5	20	82	3	62	33	0	0	66	0.92
479490--479527	19	2.1	19	85	5	51	57	0	0	42	0.98
479568--479613	23	2.0	23	86	0	65	45	2	0	52	1.13
480578--480617	21	1.9	21	84	0	53	22	0	5	72	1.04
481207--481252	20	2.3	19	85	7	56	43	0	2	54	1.12
481946--481982	3	12.7	3	94	5	67	64	0	0	35	0.94
482355--482428	29	2.5	29	76	10	78	56	1	2	39	1.22
483211--483259	21	2.4	20	80	10	55	24	0	6	69	1.11
483226--483267	11	3.6	12	81	15	52	23	2	7	66	1.28

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21