genome.fa.s260.2.7.7.80.10.50.1000.4.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: Scaffold260
Parameters: 2 7 7 80 10 50 1000
Length:  1006324

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 769 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)
494275--494791	123	4.2	123	85	1	639	29	18	25	26	1.98
495539--495591	21	2.6	21	85	8	65	50	7	11	30	1.65
495662--495688	13	2.1	13	100	0	54	29	14	14	40	1.86
499353--499378	13	2.0	13	100	0	52	38	15	15	30	1.88
505316--505341	8	3.2	8	100	0	52	15	0	23	61	1.33
505544--505581	13	2.9	13	92	0	58	31	18	15	34	1.92
505713--505754	22	2.0	20	86	13	59	38	21	0	40	1.53
508174--508199	13	2.0	13	100	0	52	38	15	15	30	1.88
509682--509759	36	2.2	36	81	4	86	33	14	12	39	1.84
509923--510166	36	6.8	35	74	10	163	34	18	9	38	1.83
509794--510143	36	9.8	35	73	11	160	35	19	8	36	1.83
509798--510123	108	3.0	106	75	9	302	37	19	8	34	1.83
509879--510145	72	3.7	70	73	9	209	35	16	9	37	1.81
510697--511070	51	7.3	51	78	2	329	35	20	18	24	1.95
510697--511067	102	3.6	102	78	2	386	35	20	19	24	1.95
510697--511070	153	2.4	153	78	2	403	35	20	18	24	1.95
511932--511982	22	2.3	22	93	0	84	31	17	17	33	1.94
517089--517133	21	2.1	21	84	8	56	53	4	20	22	1.63
520981--521060	20	3.8	20	75	15	79	26	15	15	43	1.85
521046--521084	13	3.0	13	96	0	69	30	17	15	35	1.91
524724--524922	77	2.6	77	81	4	213	53	2	9	34	1.47
525150--525183	2	17.5	2	93	6	61	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)
526428--526479	5	10.6	5	84	15	65	40	1	1	55	1.22
526429--526523	2	51.0	2	72	17	53	48	2	3	46	1.30
526428--526479	9	5.3	10	80	19	65	40	1	1	55	1.22
530011--530714	89	7.9	89	80	3	695	30	17	13	37	1.89
530011--530714	267	2.6	266	83	4	848	30	17	13	37	1.89
530806--530874	7	9.6	7	73	17	61	37	0	2	59	1.12
530810--530875	10	6.4	11	83	11	70	37	0	3	59	1.13
530918--530982	9	7.6	9	75	6	55	35	0	0	64	0.94
533452--533483	2	16.0	2	100	0	64	50	0	0	50	1.00
535218--535254	2	18.5	2	100	0	74	48	0	0	51	1.00
535880--535922	2	21.5	2	100	0	86	48	0	0	51	1.00
537377--537431	29	2.0	28	82	10	69	34	1	3	60	1.25
537481--537520	21	2.0	19	90	9	62	50	0	0	50	1.00
537480--537520	19	2.1	20	86	4	57	51	0	0	48	1.00
539908--539947	19	2.0	20	95	4	73	30	25	0	45	1.54
548811--548875	33	2.0	33	85	11	89	55	0	3	41	1.15
549322--549369	21	2.3	20	86	10	69	31	0	2	66	1.03
549959--550019	32	1.9	32	87	12	90	52	6	3	37	1.44
550127--550202	27	2.7	29	76	10	77	65	1	1	31	1.09
550151--550265	16	6.3	20	64	31	64	60	0	0	40	0.97
551103--551136	9	3.7	9	88	7	50	32	2	0	64	1.08
551134--551174	20	2.2	19	86	8	57	60	0	0	39	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551701--551732	2	16.0	2	100	0	64	0	50	0	50	1.00
554758--555385	311	2.0	311	100	0	1256	26	16	17	39	1.91
556349--556379	2	15.5	2	100	0	62	48	0	0	51	1.00
560710--560735	7	3.7	7	100	0	52	88	0	0	11	0.52
561932--561958	11	2.5	11	100	0	54	25	0	0	74	0.83
562200--562250	27	1.9	27	84	4	68	31	0	5	62	1.19
562948--562993	25	1.9	23	82	8	56	58	2	0	39	1.10
563176--563210	18	2.0	18	88	5	54	45	0	8	45	1.34
563761--563795	13	2.7	13	86	0	52	54	0	0	45	0.99
563784--563813	15	1.9	16	93	6	53	56	0	0	43	0.99
564015--564045	12	2.5	12	94	5	53	35	0	0	64	0.94
564041--564101	26	2.3	28	83	11	83	50	1	1	45	1.21
564152--564191	14	2.7	15	88	7	64	52	5	0	42	1.23
564354--564398	19	2.3	20	80	3	56	55	0	0	44	0.99
569127--569155	14	2.1	14	100	0	58	58	6	13	20	1.58
569920--570004	41	2.1	41	88	0	125	30	2	20	47	1.63
571163--571205	13	3.1	14	81	18	54	65	2	2	30	1.18
571234--571259	3	8.7	3	100	0	52	34	0	0	65	0.93
574400--574427	14	2.0	14	100	0	56	42	21	0	35	1.53
575929--575965	19	1.9	19	94	0	65	27	13	13	45	1.81
578521--578742	97	2.3	97	85	3	288	37	11	22	27	1.89
578561--578824	97	2.7	96	82	1	303	39	12	21	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581232--581349	53	2.2	53	85	4	150	45	11	14	28	1.79
581390--581438	20	2.5	20	83	6	66	32	16	12	38	1.86
581487--581539	21	2.5	21	93	0	88	32	13	26	28	1.93
581520--581645	64	2.0	64	91	0	207	34	19	18	27	1.95
584741--584803	19	3.3	18	83	12	81	36	15	14	33	1.88
587323--587361	13	3.1	13	81	3	53	38	12	15	33	1.85
593634--593696	19	3.3	18	85	12	90	34	15	14	34	1.88
593680--593704	13	1.9	13	100	0	50	36	16	16	32	1.90
593661--593725	33	2.0	32	88	8	96	38	15	15	30	1.88
593854--593897	21	2.1	21	83	8	54	40	13	6	38	1.71
597948--598163	34	6.4	34	84	1	265	25	8	25	39	1.84
597948--598163	102	2.1	100	88	2	324	25	8	25	39	1.84
602571--602789	34	6.5	34	86	2	289	25	7	26	40	1.82
602571--602789	102	2.2	101	90	1	348	25	7	26	40	1.82
603871--603925	21	2.7	19	76	20	58	18	5	5	70	1.26
604106--604159	21	2.5	20	82	14	63	42	0	0	57	0.98
604859--604899	17	2.3	18	88	12	59	70	0	0	29	0.87
605870--605912	19	2.3	19	84	8	52	44	9	0	46	1.35
606228--606322	20	4.8	20	85	2	120	27	12	14	45	1.81
609692--609741	21	2.2	23	86	10	68	42	16	20	22	1.89
610707--610790	13	5.5	13	71	28	60	35	17	13	33	1.89
610715--610777	19	3.7	18	76	24	73	36	17	12	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610707--610792	32	2.7	32	96	0	163	37	17	12	32	1.88
611636--612473	43	18.1	43	76	13	640	31	19	24	23	1.98
611638--612373	95	7.8	92	85	7	619	32	19	24	23	1.97
611636--612473	138	6.0	136	77	12	721	31	19	24	23	1.98
612065--612473	91	4.5	91	91	3	637	31	19	25	23	1.98
612566--613558	33	29.8	33	81	7	935	34	12	32	19	1.89
612633--612692	30	2.0	29	87	3	84	33	8	31	26	1.86
612566--613474	203	4.5	200	84	5	1014	35	12	33	19	1.89
613441--613524	27	3.0	28	86	6	125	30	15	32	21	1.94
613441--613532	29	3.2	29	87	4	125	33	14	31	20	1.92
613498--613649	30	4.8	31	77	10	105	33	14	27	24	1.94
613497--613591	31	2.9	33	80	12	106	35	13	28	22	1.92
621982--622008	13	2.1	13	100	0	54	40	14	14	29	1.86
622040--622164	19	7.6	18	70	29	109	35	17	12	34	1.88
622032--622180	32	4.7	32	98	0	280	35	17	12	34	1.88
623782--623851	28	2.5	28	84	9	90	24	28	18	28	1.98
623733--624009	108	2.6	107	77	4	288	28	24	12	33	1.92
623948--624062	51	2.3	50	84	4	158	32	26	8	32	1.87
624017--624296	79	3.5	78	80	9	273	28	27	13	30	1.94
626062--626129	33	2.1	32	88	2	100	36	14	13	35	1.85
634852--634876	13	1.9	13	100	0	50	36	16	16	32	1.90
634829--634896	33	2.1	33	91	2	111	33	14	16	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635482--635554	13	5.7	13	71	14	53	41	0	1	57	1.07
636506--636546	21	2.0	21	85	9	57	39	12	9	39	1.76
636586--636656	20	3.6	19	77	7	70	39	16	14	29	1.88
636626--636762	53	2.6	53	95	1	238	37	17	17	27	1.92
636804--636859	21	2.6	22	94	5	105	26	25	10	37	1.88
636911--636935	13	1.9	13	100	0	50	32	16	20	32	1.94
637007--637050	20	2.2	20	83	0	52	29	9	20	40	1.83
638236--638292	20	2.7	22	81	15	75	45	3	0	50	1.18
638584--638620	18	2.1	18	94	0	65	40	5	5	48	1.49
638034--639464	430	3.3	426	80	6	1434	43	8	4	43	1.55

Tables:   1   2   3   4   5   6   7