genome.fa.s34.2.7.7.80.10.50.1000.4.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: Scaffold34
Parameters: 2 7 7 80 10 50 1000
Length:  1758877

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

This is table  4  of  12  ( 1352 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)
491705--491931	120	1.9	120	91	3	377	31	8	6	53	1.56
491985--492044	22	2.6	23	84	10	70	33	1	1	63	1.14
493694--493771	9	9.2	9	69	14	51	42	2	2	52	1.28
493686--493725	18	2.3	18	91	4	64	52	2	5	40	1.37
495685--495724	20	2.0	20	95	0	71	42	2	0	55	1.13
497459--497485	4	6.8	4	100	0	54	74	0	25	0	0.83
497508--497551	4	11.2	4	82	4	54	68	2	27	2	1.14
504362--504386	2	12.5	2	100	0	50	52	0	0	48	1.00
506050--506100	20	2.5	20	76	17	52	43	0	3	52	1.19
506146--506201	20	2.8	19	76	7	58	32	1	1	64	1.14
507007--507042	2	18.0	2	100	0	72	50	0	0	50	1.00
507722--507772	20	2.7	19	82	17	70	31	0	0	68	0.90
508817--508869	22	2.2	25	83	9	67	39	1	0	58	1.09
509596--509657	21	2.9	22	81	9	74	33	0	0	66	0.92
509868--509909	11	3.8	11	78	12	50	61	0	0	38	0.96
510329--510370	17	2.3	19	84	12	61	52	0	0	47	1.00
510333--510373	18	2.3	18	91	4	66	51	0	0	48	1.00
511008--511056	17	3.0	15	82	11	53	40	0	0	59	0.98
514031--514070	19	2.0	20	90	4	64	7	10	5	77	1.11
515468--515492	2	12.5	2	100	0	50	52	0	0	48	1.00
529113--529169	23	2.5	22	71	23	55	52	0	0	47	1.00
529531--529587	29	1.9	30	85	3	80	35	1	0	63	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529541--529585	15	3.1	15	80	3	56	31	2	0	66	1.04
530144--530186	21	2.1	21	86	4	61	39	0	2	58	1.11
530714--530746	15	2.1	17	88	11	52	66	0	0	33	0.92
530835--530862	13	2.2	13	100	0	56	50	7	0	42	1.30
531102--531192	12	7.7	12	73	9	62	31	5	1	61	1.26
531149--531193	23	2.0	22	87	8	65	26	2	0	71	0.98
531152--531200	23	2.2	22	82	7	55	28	2	4	65	1.22
531544--531586	21	2.0	20	82	8	50	53	0	2	44	1.13
536768--536804	2	18.5	2	94	0	65	48	2	0	48	1.15
536976--537014	16	2.5	15	87	8	51	43	0	5	51	1.24
543255--543323	24	2.8	24	74	20	63	47	0	1	50	1.09
543281--543368	16	5.0	17	78	15	72	52	0	1	46	1.08
543280--543377	32	2.7	36	77	17	96	53	0	1	45	1.07
543370--543404	14	2.4	14	95	4	61	37	0	0	62	0.95
543565--543608	19	2.3	18	82	17	54	45	2	0	52	1.13
543961--543997	3	12.3	3	100	0	74	32	0	0	67	0.91
544156--544212	18	3.2	18	81	16	66	54	3	1	40	1.28
544164--544218	18	3.2	16	79	7	56	50	3	1	43	1.30
544792--544845	21	2.6	21	82	8	67	38	5	3	51	1.43
546473--546504	3	10.7	3	100	0	64	68	0	0	31	0.90
548447--548483	17	2.2	17	100	0	74	21	16	16	45	1.84
549732--549780	22	2.2	23	85	10	66	83	6	6	4	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550038--550112	20	3.8	20	78	0	87	34	13	12	40	1.81
550038--550115	40	2.0	39	87	2	111	34	12	12	39	1.82
556748--557354	27	22.6	27	80	6	597	22	32	15	29	1.95
556748--557365	82	7.7	80	79	7	576	22	32	15	29	1.95
557279--557845	28	20.2	28	82	4	588	30	29	16	23	1.96
558027--558184	54	3.0	53	78	7	176	24	27	15	32	1.95
558412--558453	20	2.0	20	86	4	57	73	9	4	11	1.22
562100--562124	13	1.9	13	100	0	50	36	16	16	32	1.90
562165--562231	33	2.0	33	88	0	98	40	13	11	34	1.81
562187--562211	13	1.9	13	100	0	50	32	16	16	36	1.90
563122--563356	48	5.0	46	82	7	260	31	17	23	26	1.97
563374--563497	28	4.3	28	83	7	135	16	15	30	37	1.90
563400--563932	30	17.6	30	70	14	200	28	15	28	27	1.96
563599--563713	33	3.9	27	79	10	95	23	16	29	30	1.96
563402--563923	216	2.4	215	94	2	910	27	15	29	27	1.96
563778--563928	29	5.1	29	78	9	153	24	17	29	28	1.98
563820--563932	61	1.9	59	88	3	172	24	16	26	31	1.96
564147--564176	12	2.5	12	94	0	51	33	13	20	33	1.91
565303--565387	1	85.0	1	76	0	80	0	0	11	88	0.52
565303--565387	16	5.2	16	90	9	136	0	0	11	88	0.52
577867--577909	21	2.0	21	86	8	61	18	2	4	74	1.10
583881--583922	18	2.3	18	95	0	75	30	14	2	52	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585665--585710	19	2.5	19	89	3	67	34	6	8	50	1.59
585699--585730	2	16.0	2	100	0	64	50	0	0	50	1.00
586730--587288	280	2.0	281	86	2	788	42	11	7	38	1.70
587490--587523	8	4.2	8	84	0	50	32	0	0	67	0.91
588455--588502	22	2.1	23	84	3	62	33	0	0	66	0.92
588728--588813	32	2.9	29	76	13	86	44	0	0	55	0.99
588741--588821	15	5.4	15	74	8	67	44	0	0	55	0.99
588720--588833	40	2.9	38	73	15	99	40	0	0	58	1.04
589210--589300	32	2.6	34	79	8	87	58	0	2	39	1.10
589268--589351	16	5.2	16	66	24	52	53	0	0	46	1.00
589313--589380	29	2.5	27	83	7	75	45	0	0	54	0.99
589317--589378	19	3.4	19	70	24	53	46	0	0	53	1.00
589532--589590	31	1.9	31	86	6	84	50	18	0	30	1.47
597534--597584	16	3.2	16	77	0	57	15	7	25	50	1.71
598018--598050	8	4.2	8	88	7	50	75	0	0	24	0.80
599700--599772	24	3.1	25	81	13	75	42	2	1	53	1.23
600405--600434	15	2.0	15	93	0	51	60	3	0	36	1.14
600836--600882	18	2.6	18	83	6	51	59	2	0	38	1.09
609828--609867	19	2.1	19	86	9	55	40	0	0	60	0.97
609836--609894	19	3.1	19	78	9	59	35	0	3	61	1.13
611215--611247	2	16.5	2	100	0	66	51	0	48	0	1.00
612261--612334	15	4.9	15	71	17	55	36	0	1	62	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
613987--614043	20	2.8	20	84	10	71	56	0	0	43	0.99
614167--614207	22	1.9	21	85	5	55	78	2	4	14	1.03
614902--614952	15	3.1	16	83	16	61	47	5	0	47	1.26
615302--615341	20	2.0	20	90	5	62	55	2	0	42	1.13
615634--615694	30	2.0	30	96	0	113	39	0	3	57	1.15
615866--615913	20	2.4	20	89	6	71	66	2	0	31	1.03
617909--617961	25	2.1	26	82	3	63	43	1	1	52	1.23
617921--617967	17	2.7	18	73	6	51	44	0	0	55	0.99
617933--618005	28	2.6	28	80	10	78	45	0	1	53	1.09
617965--618007	13	3.2	13	75	12	50	48	0	2	48	1.14
617976--618031	21	2.7	20	86	8	67	50	0	1	48	1.11
620892--620993	8	12.8	8	70	12	57	41	0	1	56	1.10
620877--620917	19	2.2	18	86	4	55	34	0	2	63	1.08
620882--620982	16	6.5	16	69	17	63	42	0	1	55	1.11
620882--620997	32	3.7	32	82	13	127	42	0	1	56	1.09
620925--620986	15	3.6	18	72	28	53	46	0	0	53	1.00
621701--621725	13	1.9	13	100	0	50	84	0	16	0	0.63
621845--621872	2	14.0	2	100	0	56	50	0	0	50	1.00
621979--622004	13	2.0	13	100	0	52	53	0	0	46	1.00
622292--622322	16	2.0	16	93	6	55	32	0	3	64	1.09
623709--623753	5	9.4	5	79	18	51	42	0	2	55	1.12
624613--624666	20	3.0	17	78	19	56	46	0	1	51	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624657--624687	13	2.3	14	94	5	55	51	0	0	48	1.00
629732--629945	41	5.2	41	82	3	236	38	12	14	35	1.83
629729--629945	82	2.6	82	85	2	285	39	12	13	34	1.83
630049--630128	42	1.9	42	86	0	115	37	12	10	40	1.77
630890--630928	2	20.0	2	94	5	71	51	0	0	48	1.00
637630--637670	20	2.0	20	90	0	64	26	17	12	43	1.84
639359--639539	81	2.3	79	81	7	206	35	12	24	27	1.92
639359--639620	79	3.3	79	78	8	239	34	13	24	27	1.93
639634--639749	51	2.3	51	86	5	173	33	12	25	29	1.92
639750--639858	51	2.2	49	80	7	130	35	8	24	31	1.85

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