genome.fa.s46.2.7.7.80.10.50.1000.3.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: Scaffold46
Parameters: 2 7 7 80 10 50 1000
Length:  2524624

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

This is table  3  of  15  ( 1780 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)
279239--279283	21	2.1	21	84	8	56	53	4	20	22	1.63
281087--281117	15	2.1	15	93	0	53	48	16	22	12	1.80
283322--283367	21	2.2	20	81	11	58	32	19	4	43	1.71
285761--285786	13	2.0	13	100	0	52	38	15	15	30	1.88
285840--285878	20	1.9	21	94	5	71	46	12	10	30	1.75
288735--288768	18	1.9	18	94	5	61	85	0	14	0	0.60
288779--288833	17	3.3	17	77	12	60	41	0	0	58	0.98
292893--293059	20	8.8	20	66	15	93	41	12	13	32	1.82
292890--293059	40	4.0	40	72	17	135	41	12	13	32	1.83
292862--293071	92	2.3	92	95	2	370	42	11	14	30	1.82
293388--293429	17	2.4	18	84	11	61	54	4	0	40	1.21
293452--293504	26	2.0	27	88	3	81	47	0	0	52	1.00
302363--302392	10	3.0	10	95	0	51	0	13	0	86	0.57
302364--302398	16	2.1	17	89	5	54	0	17	0	82	0.66
304530--304576	21	2.4	21	86	10	64	23	23	10	42	1.85
307543--307638	19	5.7	19	71	26	99	33	11	18	36	1.87
307563--307619	13	3.9	13	76	24	60	35	14	17	33	1.90
307544--307644	32	3.2	32	98	0	193	33	10	18	36	1.86
307670--307724	20	2.7	19	81	10	56	29	16	14	40	1.88
311848--311921	20	3.7	20	90	5	114	39	10	18	31	1.86
311848--311935	40	2.1	41	81	8	99	38	12	18	30	1.88
315607--315643	19	1.9	19	94	0	65	21	5	29	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
316814--317233	155	2.7	157	81	4	490	40	20	13	25	1.89
319036--319369	154	2.2	154	80	7	367	49	6	9	35	1.61
321203--321269	33	2.0	33	100	0	134	31	11	17	38	1.87
321268--321317	22	2.3	22	96	0	91	34	20	20	26	1.96
329199--329225	13	2.1	13	100	0	54	40	14	14	29	1.86
329177--329244	33	2.1	32	83	8	84	38	17	8	35	1.81
329273--329328	19	2.9	19	83	2	76	33	12	21	32	1.91
329313--329339	13	2.1	13	100	0	54	40	14	14	29	1.86
329325--329378	20	2.7	20	100	0	108	40	14	18	25	1.89
337723--337747	13	1.9	13	100	0	50	32	16	20	32	1.94
340656--340794	71	2.0	71	100	0	278	23	10	22	43	1.83
342236--342430	106	1.8	106	80	6	234	34	9	23	32	1.87
345226--345250	13	1.9	13	100	0	50	32	16	16	36	1.90
345340--345366	13	2.1	13	100	0	54	40	14	14	29	1.86
346765--346848	32	2.6	32	84	0	114	53	19	17	9	1.70
350645--350696	25	2.1	25	81	0	59	44	19	26	9	1.81
352373--353068	79	8.9	79	71	10	410	19	22	13	44	1.85
352649--352800	83	1.8	82	87	4	225	17	25	13	43	1.86
352584--352955	78	4.7	79	75	8	317	19	24	12	43	1.85
353148--353338	41	4.9	38	64	17	95	17	19	15	47	1.83
353098--353468	79	4.7	78	74	6	248	16	21	14	46	1.83
353097--353468	158	2.3	158	80	5	403	16	21	15	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
353828--353854	10	2.7	10	100	0	54	59	0	0	40	0.98
358623--358652	14	2.1	14	100	0	60	33	13	20	33	1.91
361713--361753	21	1.9	22	90	5	66	43	17	17	21	1.87
362689--362744	20	2.8	20	94	0	103	39	12	14	33	1.83
364249--364319	20	3.5	20	92	0	115	39	12	14	33	1.83
365114--365622	52	9.8	52	76	6	401	31	16	26	26	1.96
365219--365625	156	2.6	154	83	5	473	32	15	26	26	1.96
365620--365900	31	9.0	31	76	5	253	21	18	28	30	1.97
365619--365908	63	4.6	62	78	5	280	22	18	28	30	1.97
366074--366993	66	13.9	65	81	6	856	35	11	30	21	1.89
366038--366993	99	9.6	99	78	8	763	35	11	30	21	1.89
366050--366981	34	28.3	31	75	11	612	35	11	30	21	1.89
366995--367068	33	2.2	33	82	0	85	35	18	24	21	1.96
366075--367060	131	7.5	132	78	7	490	36	11	30	21	1.90
367017--367081	33	2.0	33	84	6	87	40	15	26	18	1.90
368308--368372	25	2.6	25	83	11	87	0	4	12	83	0.80
368308--368366	13	4.8	12	74	22	52	0	1	13	84	0.69
368306--368366	20	3.2	20	82	15	67	0	1	13	85	0.68
373804--373859	20	2.7	20	86	5	67	46	10	12	30	1.76
373903--373929	13	2.1	13	100	0	54	29	14	14	40	1.86
374499--375174	61	11.1	61	81	3	582	29	17	25	27	1.98
374505--375174	122	5.5	123	80	5	675	28	17	25	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
374499--375176	183	3.7	183	83	1	790	29	17	25	27	1.98
375327--375397	21	3.4	21	92	0	115	32	21	26	19	1.97
379341--379395	19	2.8	20	84	13	78	34	16	16	32	1.91
379381--379406	13	2.0	13	100	0	52	38	15	15	30	1.88
379944--380036	22	4.2	22	67	22	68	26	30	3	39	1.72
388069--388117	13	4.2	13	75	24	63	36	18	12	32	1.88
388146--388203	19	3.1	19	74	16	66	32	15	15	36	1.89
397192--397320	52	2.5	52	96	0	240	27	17	18	35	1.94
397329--397353	13	1.9	13	100	0	50	36	16	16	32	1.90
397397--397449	20	2.7	20	85	2	72	39	16	11	32	1.85
397844--397896	26	2.0	26	100	0	106	20	22	22	33	1.97
401466--401612	51	2.9	51	82	0	168	37	8	23	30	1.85
401625--401682	29	2.0	30	96	3	109	27	13	34	24	1.93
401648--401767	50	2.4	50	82	8	138	35	7	25	30	1.84
401495--401811	158	2.0	160	85	3	435	33	11	26	29	1.91
401711--401909	79	2.5	79	90	0	301	34	11	26	28	1.91
407920--407974	20	2.7	21	72	13	60	43	12	18	25	1.85
408026--408074	20	2.3	20	86	6	62	30	16	10	42	1.81
408035--408075	20	2.0	21	90	4	66	29	14	7	48	1.71
410360--410881	75	7.0	75	78	6	450	28	22	13	36	1.92
410356--410881	76	7.0	75	77	8	442	27	22	13	36	1.92
410589--410721	69	1.9	70	89	4	207	27	22	12	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411106--411155	24	2.2	24	85	7	68	16	4	16	64	1.44
419663--419727	19	3.7	19	71	23	70	40	16	12	30	1.86
419655--419725	32	2.2	32	94	0	124	38	18	12	30	1.88
421176--421229	20	2.7	20	85	2	72	33	14	12	38	1.85
426460--426506	3	15.7	3	100	0	94	65	0	0	34	0.93
427912--427960	23	2.2	23	88	3	73	63	16	2	18	1.41
428188--428748	79	7.1	79	77	9	450	34	13	24	27	1.93
428198--428747	158	3.5	157	77	7	560	34	13	24	27	1.93
428203--428747	236	2.3	237	80	8	637	34	13	23	27	1.93
431113--431156	22	2.0	22	95	4	81	27	13	22	36	1.92
431699--431793	36	2.9	32	80	13	106	29	25	13	31	1.94
434815--434865	24	2.1	24	89	7	77	41	7	25	25	1.82
434937--435000	33	2.0	32	87	9	94	39	14	12	34	1.83
437207--437259	27	2.0	27	92	0	88	28	13	32	26	1.93
439442--439467	13	2.0	13	100	0	52	30	15	15	38	1.88
443600--443643	22	2.0	22	95	0	79	54	11	9	25	1.65
446019--446062	21	2.1	21	83	8	54	25	31	4	38	1.76
447869--447907	13	3.0	13	92	0	69	38	12	15	33	1.85
449985--450015	15	2.1	15	93	0	53	12	22	16	48	1.80
451819--451863	21	2.1	21	84	8	56	22	20	4	53	1.63
454475--454538	33	2.0	32	87	3	92	28	14	15	42	1.86
459965--459990	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)
462216--462260	21	2.1	21	84	8	56	53	4	20	22	1.63
464065--464095	15	2.1	15	93	0	53	48	16	22	12	1.80
466155--466203	13	3.9	13	78	10	66	28	16	12	42	1.84
470871--470910	9	4.3	9	83	3	53	2	87	2	7	0.71
472556--472591	18	2.0	18	100	0	72	22	27	5	44	1.75
475005--475039	18	1.9	18	88	11	54	37	0	0	62	0.95
475009--475068	18	3.6	18	72	21	58	40	0	3	56	1.16
478337--478759	155	2.7	155	82	3	476	37	20	17	24	1.94
479304--479334	5	6.0	5	92	7	53	22	0	0	77	0.77
480702--481059	166	2.1	167	80	6	404	46	8	13	31	1.72

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