genome.fa.s401.2.7.7.80.10.50.1000.5.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: Scaffold401
Parameters: 2 7 7 80 10 50 1000
Length:  1910012

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

This is table  5  of  13  ( 1464 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)
580959--580992	2	17.0	2	93	0	59	50	2	0	47	1.16
581931--581970	3	13.3	3	100	0	80	67	0	0	32	0.91
583409--583464	24	2.4	24	85	5	71	46	1	0	51	1.11
583410--583464	11	4.8	11	80	8	65	47	1	0	50	1.11
584174--584203	3	10.0	3	92	0	51	33	0	3	63	1.11
585205--585284	40	2.0	40	85	2	108	31	3	2	62	1.26
585440--585470	15	2.1	14	94	5	53	22	22	19	35	1.96
585612--585840	114	2.0	113	82	10	281	40	2	4	53	1.33
586071--586107	20	1.9	19	89	10	58	45	0	13	40	1.43
590379--590434	17	3.2	19	79	18	59	48	0	0	51	1.00
590410--590506	14	5.8	17	70	28	50	45	1	0	53	1.07
590475--590509	14	2.5	14	90	9	54	45	0	0	54	0.99
596241--596305	2	31.5	2	80	9	51	43	4	4	47	1.44
600736--600791	26	2.2	26	87	6	78	46	0	1	51	1.11
601418--601482	26	2.5	27	76	16	66	41	0	0	58	0.98
601415--601465	18	2.9	17	78	16	50	47	0	0	52	1.00
601419--601469	22	2.3	22	81	15	61	43	0	0	56	0.99
601503--601527	2	12.5	2	100	0	50	48	0	0	52	1.00
603385--603415	2	15.5	2	100	0	62	51	0	0	48	1.00
605483--605544	16	4.2	16	74	19	62	58	0	0	41	0.98
607008--607042	2	17.5	2	100	0	70	48	0	0	51	1.00
607555--607611	18	3.1	19	82	7	73	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)
607535--607610	19	3.8	20	80	11	84	47	0	0	52	1.00
607877--607928	20	2.5	22	73	17	58	46	1	0	51	1.12
609122--609176	6	9.7	6	76	11	62	34	0	1	63	1.05
609117--609186	28	2.6	28	77	8	65	38	0	1	60	1.06
611048--611096	21	2.4	20	82	3	62	40	0	0	59	0.98
611274--611316	21	2.0	21	100	0	86	58	4	9	27	1.49
611495--611547	17	3.2	17	82	10	58	33	0	1	64	1.05
611514--611547	15	2.1	16	89	10	52	29	0	0	70	0.87
611711--611756	15	2.9	16	81	15	51	71	0	0	28	0.86
618852--618929	24	3.1	25	72	9	70	43	20	3	32	1.70
618881--618969	28	3.2	29	85	9	105	50	22	5	21	1.69
618917--618971	28	2.0	28	100	0	110	49	21	10	18	1.78
623426--623471	24	1.9	24	86	0	65	41	26	6	26	1.80
623466--623550	28	3.0	28	94	3	136	51	21	8	18	1.72
631065--631089	2	12.5	2	100	0	50	52	0	0	48	1.00
642112--642153	20	2.1	20	86	8	59	42	0	2	54	1.13
648413--648455	16	2.7	15	83	16	52	2	20	0	76	0.89
648427--648455	4	7.5	4	92	7	51	0	24	0	75	0.80
653215--653259	2	23.0	2	90	4	74	51	0	0	48	1.00
653436--653553	6	20.5	6	75	20	60	48	0	0	51	1.00
653436--653553	21	5.4	21	73	16	62	48	0	0	51	1.00
653434--653492	10	5.7	10	77	15	57	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
653481--653527	19	2.5	19	82	0	58	55	0	0	44	0.99
653501--653551	14	3.6	14	82	12	61	50	0	0	49	1.00
653518--653561	15	3.0	15	90	3	63	43	0	0	56	0.99
653529--653664	59	2.3	58	77	7	141	34	5	2	57	1.36
653541--653620	44	1.9	43	85	10	112	35	2	2	60	1.24
655012--655054	2	21.5	2	100	0	86	48	0	0	51	1.00
655272--655308	16	2.3	17	86	13	60	40	0	0	59	0.97
655253--655329	23	3.2	24	73	15	70	40	0	1	58	1.06
655452--655478	3	9.0	3	100	0	54	33	0	0	66	0.92
656959--656986	14	2.0	14	100	0	56	14	7	35	42	1.73
660340--660378	20	2.0	20	85	9	55	58	0	0	41	0.98
660424--660472	14	3.5	14	75	10	55	38	0	0	61	0.96
660432--660474	9	4.7	9	77	5	50	39	0	0	60	0.97
660425--660474	5	10.6	5	75	12	52	38	0	0	62	0.96
660425--660464	19	2.1	19	86	9	55	35	0	0	65	0.93
660425--660483	28	2.1	29	87	3	84	37	0	0	62	0.95
673070--673094	6	4.2	6	100	0	50	36	48	16	0	1.46
677167--677212	11	4.7	11	75	25	50	50	0	0	50	1.00
677298--677358	17	3.4	18	76	21	56	40	0	0	59	0.98
677302--677360	18	3.3	17	75	17	57	42	0	0	57	0.98
677851--677904	22	2.5	21	77	14	56	42	0	5	51	1.25
678298--678346	16	2.9	16	82	11	62	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679560--679675	53	2.2	53	92	0	187	31	16	19	32	1.94
686167--686196	14	2.2	14	94	5	53	50	0	0	50	1.00
686424--686532	50	2.3	47	81	12	116	50	0	7	41	1.36
692599--692632	17	2.0	17	94	0	59	61	2	0	35	1.11
692607--692673	26	2.5	26	78	11	64	59	4	1	34	1.26
692780--692821	6	7.2	6	81	5	50	26	0	0	73	0.83
694851--694878	3	9.3	3	100	0	56	32	35	32	0	1.58
696000--696040	22	1.9	22	90	5	66	65	2	0	31	1.05
697251--697313	26	2.4	27	79	12	78	49	0	0	50	1.00
699931--699967	2	18.0	2	94	5	65	48	0	2	48	1.15
700631--700664	2	17.0	2	100	0	68	50	0	0	50	1.00
700834--700864	3	10.3	3	100	0	62	67	0	32	0	0.91
701254--701302	19	2.6	20	75	12	59	51	0	0	48	1.00
701397--701432	18	2.0	18	88	0	54	61	0	5	33	1.19
705301--705327	2	13.5	2	100	0	54	48	0	0	51	1.00
722389--722425	17	2.2	16	90	4	56	59	0	0	40	0.97
730384--730613	116	2.0	115	94	0	406	27	29	12	30	1.93
730643--730677	2	17.5	2	100	0	70	0	51	0	48	1.00
732418--732454	18	2.1	18	100	0	74	0	18	16	64	1.29
742048--742131	44	1.9	43	85	2	114	51	1	1	46	1.16
742047--742135	22	4.0	22	77	11	83	49	1	1	48	1.16
742028--742134	55	2.0	53	80	12	119	52	0	0	45	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
742463--742510	22	2.2	23	85	7	64	45	0	0	54	0.99
743226--743293	25	2.6	26	81	11	68	52	1	1	44	1.19
744256--744291	18	2.0	18	94	0	63	30	11	2	55	1.49
744547--744586	19	2.1	20	90	9	66	52	0	0	47	1.00
744546--744588	18	2.3	18	85	14	61	55	0	0	44	0.99
747711--747754	2	22.0	2	100	0	88	50	0	0	50	1.00
751810--751848	2	19.5	2	100	0	78	51	0	48	0	1.00
753467--753521	28	2.0	28	85	7	76	60	1	0	38	1.08
754178--754220	22	2.0	22	90	9	70	58	0	0	41	0.98
754587--754656	14	4.6	14	72	10	50	42	1	2	52	1.24
756541--756574	2	17.0	2	100	0	68	0	0	50	50	1.00
763890--763940	21	2.6	19	79	11	59	45	0	0	54	0.99
764112--764157	13	3.4	13	82	8	56	60	4	4	30	1.35
764138--764166	12	2.3	13	94	5	51	55	0	10	34	1.34
764714--765022	50	6.2	50	90	0	474	29	21	19	30	1.97
769414--769672	50	5.2	50	92	0	392	31	20	17	30	1.96
770059--770097	17	2.2	17	86	13	53	33	2	0	64	1.08
770245--770286	3	14.0	3	100	0	84	33	0	0	66	0.92
770579--770817	124	1.9	124	96	0	444	48	7	6	37	1.59
771173--771251	32	2.4	32	85	10	106	50	2	2	44	1.29
771962--772027	18	3.6	18	74	12	62	43	1	0	54	1.09
771953--772003	26	2.0	26	84	7	68	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
772461--772507	18	2.7	18	87	12	64	61	0	0	38	0.96
772507--772531	9	2.8	9	100	0	50	88	0	0	12	0.53
772520--772611	48	1.9	47	82	12	116	52	1	0	46	1.07
777982--778056	32	2.4	31	75	16	82	38	0	0	61	0.96
777991--778052	32	1.9	33	86	3	90	40	0	0	59	0.97
777991--778057	29	2.2	31	86	7	93	38	0	0	61	0.96
778094--778134	17	2.3	19	79	12	50	56	0	2	41	1.13
778109--778174	30	2.2	29	86	2	96	57	0	3	39	1.14
778131--778185	22	2.4	23	81	9	67	60	0	1	38	1.08
778092--778185	23	4.1	22	71	14	66	58	0	2	39	1.10

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