genome.fa.s22.2.7.7.80.10.50.1000.3.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: Scaffold22
Parameters: 2 7 7 80 10 50 1000
Length:  1926927

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1216 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)
280956--281333	118	3.2	120	84	4	500	22	24	13	39	1.90
281144--281333	44	4.6	44	68	16	156	19	24	13	42	1.88
281268--281360	44	2.1	44	84	6	116	22	24	10	41	1.85
288666--288744	38	2.1	39	92	2	133	49	10	16	24	1.76
293470--293862	42	9.3	42	74	7	269	18	30	18	33	1.95
293470--293873	84	4.8	84	82	2	391	18	29	18	33	1.95
293546--293879	126	2.6	125	77	5	348	18	29	18	33	1.95
293755--293911	85	1.8	85	80	0	188	20	28	17	33	1.96
294492--294667	57	2.9	61	88	8	288	18	19	19	41	1.91
295617--295668	22	2.4	22	86	0	77	53	28	15	1	1.52
297078--297129	20	2.6	20	88	11	72	34	17	13	34	1.89
297136--297160	13	1.9	13	100	0	50	32	16	12	40	1.84
301889--301919	16	1.9	16	93	0	53	54	0	9	35	1.33
305910--305965	19	2.9	19	83	2	76	30	17	12	39	1.87
306014--306038	13	1.9	13	100	0	50	32	20	16	32	1.94
309252--309308	21	2.7	21	94	5	98	49	0	0	50	1.00
309253--309365	47	2.5	45	75	12	108	47	0	1	50	1.11
309392--309436	15	3.0	15	96	0	81	33	11	0	55	1.35
310895--310934	21	2.0	19	90	9	62	52	0	0	47	1.00
310900--310952	21	2.5	21	90	0	79	49	0	0	50	1.00
311837--311876	21	1.9	21	89	0	62	42	5	7	45	1.54
313712--313768	21	2.7	21	88	2	78	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
313729--313794	26	2.5	26	78	9	64	48	0	0	51	1.00
313850--313881	15	2.1	15	94	0	55	31	9	0	59	1.29
317090--317378	61	4.5	62	72	13	203	32	18	23	24	1.97
317388--317565	58	2.9	58	78	14	198	30	16	24	28	1.97
317434--317566	65	2.0	65	87	5	189	34	14	24	26	1.94
326221--326276	20	2.9	19	83	2	67	37	14	12	35	1.84
327941--327974	3	11.3	3	93	0	59	35	0	35	29	1.58
334491--334628	71	1.9	71	92	0	231	37	16	26	18	1.92
336224--338230	475	4.2	474	85	3	2407	31	17	14	36	1.91
336520--338128	159	10.1	161	66	12	425	31	17	14	36	1.91
343289--343341	20	2.7	20	100	0	106	39	15	11	33	1.83
343381--343434	20	2.7	20	85	5	65	37	20	11	31	1.88
343462--343536	20	3.8	19	84	11	89	38	18	13	29	1.89
344059--344132	36	2.1	36	82	14	91	39	18	2	39	1.65
348334--348369	15	2.4	15	95	0	63	55	22	0	22	1.44
352116--352148	13	2.5	13	90	0	57	36	18	15	30	1.91
352192--352245	19	2.8	19	86	10	74	35	18	12	33	1.89
358433--358487	20	2.7	21	85	2	76	27	16	14	41	1.87
359510--359562	20	2.7	20	81	0	70	37	15	13	33	1.86
359461--359595	71	1.9	70	84	4	182	41	14	14	29	1.85
359815--362859	476	6.4	475	85	3	3696	32	18	14	34	1.91
361573--362841	159	8.0	156	67	12	474	31	19	13	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
363719--363805	13	7.6	13	64	35	58	39	10	14	35	1.81
363729--363826	20	5.6	19	69	30	85	38	11	15	34	1.83
363697--363825	33	3.9	33	93	1	206	41	11	14	32	1.82
364458--364505	25	1.9	25	91	0	78	37	29	2	31	1.69
364714--364797	35	2.4	36	83	2	98	47	14	11	26	1.78
373210--373265	20	2.8	20	100	0	112	42	14	16	26	1.86
387075--387137	26	2.4	26	97	0	117	39	22	7	30	1.82
387416--388607	28	41.8	28	77	9	750	27	29	19	23	1.98
387843--387949	31	3.5	31	75	2	99	30	28	22	17	1.97
387889--387990	31	3.3	31	79	4	98	26	26	28	18	1.98
387996--388132	31	4.4	32	83	6	122	27	34	19	18	1.96
388010--388132	31	3.9	31	86	7	160	26	34	19	19	1.96
388507--388600	48	1.9	49	86	2	136	29	30	12	26	1.93
388647--388717	31	2.3	32	80	7	83	39	26	18	15	1.90
388756--389218	32	14.6	32	79	3	409	31	29	15	22	1.95
388765--389218	127	3.6	127	87	3	576	31	29	15	22	1.95
388756--389216	95	4.8	93	77	5	431	32	29	16	22	1.95
389276--389378	52	2.0	52	88	3	154	28	22	11	37	1.89
390324--390381	9	6.4	9	81	15	50	72	5	1	20	1.13
390320--390383	28	2.3	30	78	15	82	71	6	1	20	1.15
391294--391340	20	2.3	21	74	3	51	48	17	23	10	1.77
391563--391600	9	4.2	9	93	6	60	86	0	13	0	0.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
391563--391606	8	5.4	8	89	5	70	86	0	13	0	0.57
391563--391615	25	2.1	25	89	0	79	83	1	15	0	0.74
391552--391615	16	3.8	16	84	12	76	79	1	17	1	0.89
394648--395274	157	4.0	156	81	3	643	39	19	16	25	1.92
397437--397472	10	3.6	10	92	0	54	8	8	0	83	0.82
397431--397472	10	4.0	11	84	12	52	7	9	0	83	0.81
400007--400197	78	2.4	79	84	4	235	33	17	25	23	1.96
400150--400224	27	2.7	28	89	6	109	22	20	33	24	1.97
400208--400330	51	2.4	51	84	6	149	34	10	21	33	1.87
402690--402715	13	2.0	13	100	0	52	38	15	15	30	1.88
402669--402735	33	2.0	33	88	0	98	43	16	14	25	1.86
402755--402820	19	3.8	18	77	22	79	34	15	12	37	1.84
402777--402802	13	2.0	13	100	0	52	30	15	15	38	1.88
402758--402820	32	2.0	32	93	6	110	34	15	12	36	1.86
403451--403518	33	2.1	32	86	2	91	38	17	11	32	1.86
406716--406831	51	2.3	51	86	5	164	32	11	27	28	1.91
406667--406908	130	1.9	129	84	9	332	35	10	24	29	1.89
406768--407444	79	8.6	78	79	9	583	35	11	24	27	1.91
406766--407444	236	2.9	232	81	9	738	35	11	25	27	1.91
406767--407444	315	2.2	315	82	7	790	35	11	25	27	1.91
411396--411449	20	2.7	20	91	5	83	37	18	12	31	1.89
411478--411533	19	2.9	19	91	2	85	35	19	16	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411518--411544	13	2.1	13	100	0	54	40	14	14	29	1.86
411499--411562	32	2.0	33	87	9	96	40	15	15	28	1.88
416697--416751	19	2.8	20	86	5	76	32	12	18	36	1.88
421070--421095	13	2.0	13	100	0	52	30	15	15	38	1.88
421956--422093	39	3.7	39	71	14	130	27	20	26	25	1.99
421995--422054	31	1.9	31	89	0	93	31	23	26	18	1.97
421953--422091	70	2.0	70	89	0	215	28	20	26	25	1.99
422111--422196	43	2.0	43	88	0	127	31	17	25	25	1.97
422218--422482	27	9.5	27	78	8	212	20	16	27	35	1.94
423891--423943	14	3.5	16	78	17	60	0	0	16	83	0.66
423891--423949	26	2.4	24	88	5	82	0	0	16	83	0.66
423891--423948	28	2.0	28	90	9	91	0	0	15	84	0.62
423893--423944	16	3.2	16	86	8	70	0	0	17	82	0.66
423891--423946	22	2.5	22	85	8	78	0	0	16	83	0.64
439511--439549	21	1.9	20	85	15	53	38	0	0	61	0.96
440256--440335	30	2.7	30	84	9	101	32	1	2	63	1.15
440256--440320	31	2.2	31	88	5	98	33	1	1	63	1.13
441369--441445	11	7.4	11	72	16	56	62	0	3	33	1.14
441369--441412	23	1.9	23	95	0	79	61	0	6	31	1.22
441371--441446	29	2.7	28	80	11	75	63	0	3	32	1.13
441813--441914	38	2.6	40	80	9	113	56	0	0	42	1.05
441850--441890	13	2.9	15	78	14	50	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441868--441929	18	3.4	19	78	14	69	56	0	0	43	0.99
442222--442255	2	17.0	2	100	0	68	0	50	0	50	1.00
450110--450152	2	21.5	2	90	0	68	51	4	0	44	1.22
457802--457862	19	3.4	19	70	21	67	42	3	19	34	1.68
457804--457873	35	2.0	35	100	0	140	42	2	20	34	1.66
457813--457870	19	3.2	19	68	22	61	46	1	20	31	1.61
458606--458748	70	2.0	70	93	0	241	30	17	16	35	1.92
463339--463714	188	2.0	187	97	0	707	27	17	17	37	1.92
463709--463750	13	2.9	14	80	19	59	35	14	16	33	1.89
468562--468677	56	2.1	55	83	3	144	62	12	12	12	1.56

Tables:   1   2   3   4   5   6   7   8   9   10   11