genome.fa.s174.2.7.7.80.10.50.1000.5.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: Scaffold174
Parameters: 2 7 7 80 10 50 1000
Length:  2085601

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

This is table  5  of  15  ( 1687 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)
551231--551340	31	3.5	33	76	17	101	57	0	0	41	1.05
551263--551316	17	3.1	17	76	15	56	61	0	0	38	0.96
551538--551646	4	27.2	4	88	0	128	49	8	0	41	1.39
551538--551646	10	10.9	10	86	0	128	49	8	0	41	1.39
551546--551640	20	4.8	20	93	0	145	50	9	0	40	1.35
554865--554889	12	2.1	12	100	0	50	36	16	16	32	1.90
555580--555613	2	17.0	2	100	0	68	50	0	0	50	1.00
555694--555876	91	2.0	92	97	2	341	10	9	32	46	1.71
566938--566967	13	2.3	13	100	0	60	43	0	0	56	0.99
567672--567716	20	2.2	20	84	7	56	51	4	0	44	1.21
569861--569903	15	2.9	15	82	0	50	65	0	0	34	0.93
571702--571733	14	2.2	15	94	5	57	25	0	0	75	0.81
573462--573518	21	2.7	20	76	12	60	64	0	1	33	1.04
573566--573623	27	2.1	27	87	6	82	77	0	0	22	0.77
573739--573775	16	2.3	16	95	0	65	43	2	0	54	1.14
573811--573995	87	2.1	89	92	3	311	46	18	10	24	1.80
575889--575941	25	2.1	26	82	3	63	52	1	0	45	1.11
576823--576922	29	3.2	30	71	15	78	50	0	0	50	1.00
577660--577706	12	3.3	15	74	20	55	48	0	0	51	1.00
577695--577725	15	2.1	14	94	5	53	48	0	3	48	1.17
577734--577781	22	2.2	22	88	7	71	62	0	0	37	0.95
578396--578431	15	2.5	14	86	8	54	80	0	0	19	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579706--579731	3	8.7	3	100	0	52	69	0	30	0	0.89
580802--580842	18	2.2	18	91	8	64	41	0	0	58	0.98
581272--581303	15	2.2	14	94	5	55	62	0	0	37	0.95
581272--581303	7	4.4	7	92	7	55	62	0	0	37	0.95
583844--583882	18	2.2	18	86	9	53	38	0	2	58	1.12
585112--585153	16	2.7	16	85	10	52	38	2	0	59	1.10
587668--587754	10	8.4	10	72	15	61	60	4	0	34	1.17
587737--587785	25	2.0	25	87	0	71	51	0	0	48	1.00
587784--587838	27	2.0	27	89	0	83	45	20	1	32	1.61
588401--588463	31	2.0	33	84	6	85	60	0	0	39	0.97
588448--588473	13	2.0	13	100	0	52	69	0	0	30	0.89
588670--588716	22	2.1	22	84	4	58	57	0	2	40	1.11
589221--589255	16	2.2	16	90	10	54	22	0	0	77	0.78
591154--591213	13	4.8	12	78	12	59	31	1	0	66	1.01
591143--591234	25	3.9	25	79	12	97	35	2	0	61	1.08
591167--591227	11	5.2	11	71	13	50	36	1	0	62	1.05
591171--591232	18	3.4	18	69	10	54	37	1	0	61	1.06
591607--591661	28	2.0	28	82	7	67	50	0	0	49	1.00
591610--591653	21	2.0	22	86	4	63	50	0	0	50	1.00
592011--592075	32	2.0	32	85	5	87	55	0	0	44	0.99
592822--592850	12	2.5	12	94	5	51	58	0	0	41	0.98
592826--592894	29	2.3	30	80	5	86	49	4	0	46	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592882--592931	18	2.9	18	75	16	52	34	0	2	64	1.05
595147--595191	2	23.0	2	95	4	83	51	0	0	48	1.00
596462--596508	15	3.1	15	84	0	58	53	0	0	46	1.00
598565--598612	17	2.6	17	78	21	53	70	2	0	27	0.98
598564--598615	19	2.7	20	73	14	54	69	1	0	28	0.99
600415--600474	10	5.8	11	78	9	56	51	0	0	48	1.00
601547--601633	26	3.5	25	77	14	74	44	1	2	51	1.21
601589--601636	23	2.2	22	82	13	64	50	0	2	47	1.12
603512--603582	18	4.0	18	73	14	58	57	0	0	42	0.98
603508--603584	23	3.7	21	77	18	56	58	0	0	41	0.98
603507--603588	19	4.0	21	77	17	75	57	0	0	42	0.98
603510--603594	5	17.8	5	68	25	51	56	0	0	43	0.99
603533--603594	9	6.4	10	73	17	51	54	0	0	45	0.99
603828--603856	14	2.1	14	100	0	58	20	0	0	79	0.74
604675--604718	4	11.0	4	85	0	52	45	0	6	47	1.29
604675--604718	14	3.1	14	86	0	61	45	0	6	47	1.29
604681--604719	10	3.9	10	89	0	60	41	0	10	48	1.37
605193--605226	18	1.9	17	88	5	50	47	0	2	50	1.16
606026--606055	16	1.9	15	93	6	51	36	0	0	63	0.95
606372--606418	21	2.3	21	77	3	51	55	4	0	40	1.19
606719--606773	21	2.3	21	82	17	56	60	0	0	40	0.97
606740--606786	16	2.9	16	87	0	58	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607171--607205	16	2.2	16	89	0	52	40	0	0	60	0.97
608881--608906	3	8.7	3	100	0	52	69	30	0	0	0.89
611104--611140	20	1.9	18	89	10	56	29	0	5	64	1.15
611443--611501	29	2.0	29	81	12	68	49	0	6	44	1.29
611867--611910	2	22.0	2	100	0	88	50	0	0	50	1.00
612092--612118	3	9.0	3	100	0	54	66	0	0	33	0.92
612096--612144	12	4.3	11	80	15	55	67	0	2	30	1.02
613872--613908	13	2.8	13	100	0	74	45	0	0	54	1.00
614412--614452	20	2.0	20	100	0	82	48	14	0	36	1.44
615578--615615	20	2.0	20	89	5	60	34	2	0	63	1.09
615757--615824	30	2.3	30	82	12	79	42	11	13	32	1.80
616838--616895	29	2.0	30	89	3	91	55	1	3	39	1.27
620359--620387	5	5.8	5	100	0	58	41	0	0	58	0.98
622516--622555	19	2.2	18	86	4	53	32	0	5	62	1.17
623102--623150	17	2.8	17	90	3	80	77	2	2	18	0.96
623102--623150	6	8.3	6	86	4	73	77	2	2	18	0.96
625386--625419	16	2.1	16	100	0	68	32	11	17	38	1.86
633010--633848	417	2.0	417	100	0	1678	25	10	17	45	1.81
634056--634140	1	85.0	1	78	0	71	87	7	5	0	0.68
634054--634139	29	3.0	29	88	11	133	84	6	8	0	0.76
636675--636736	30	2.1	30	84	6	81	53	1	4	40	1.32
636975--637006	2	16.0	2	100	0	64	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)
638376--638448	26	2.8	26	85	6	94	52	0	0	47	1.00
640307--640364	30	1.9	31	85	3	82	50	0	1	48	1.11
640494--640534	19	2.0	21	86	9	59	41	2	0	56	1.13
642852--642919	21	3.3	20	76	15	68	35	0	0	64	0.94
642871--642981	33	3.5	32	71	23	110	37	0	0	61	1.02
642897--642946	26	2.0	26	88	4	75	40	0	0	60	0.97
642850--642976	9	14.3	9	69	17	70	37	0	0	61	1.02
645511--645545	18	1.9	18	88	0	52	48	2	0	48	1.16
646447--646489	16	2.6	17	89	7	63	46	2	2	48	1.27
646572--646657	24	3.5	24	71	13	77	56	1	0	41	1.06
646559--646630	6	12.0	6	75	16	51	54	0	0	45	0.99
646577--646627	13	4.0	12	85	10	66	62	0	0	37	0.95
646994--647022	2	14.5	2	100	0	58	51	0	48	0	1.00
647160--647214	27	2.0	27	82	6	67	52	1	1	43	1.22
647835--647884	18	2.7	19	81	12	59	58	2	2	38	1.21
647868--647938	32	2.2	33	84	5	90	56	1	0	42	1.08
647888--647946	18	3.5	17	73	19	61	59	1	0	38	1.08
647940--647966	12	2.2	12	100	0	54	51	0	0	48	1.00
647926--647985	28	2.2	27	82	8	77	61	0	0	38	0.96
648154--648193	3	13.3	3	100	0	80	32	0	0	67	0.91
648238--648282	22	2.1	22	83	4	56	55	0	42	2	1.12
648320--648367	24	2.0	24	84	8	62	18	0	6	75	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
649777--649829	16	3.3	16	84	10	72	58	9	3	28	1.47
651345--651383	2	19.5	2	100	0	78	48	0	0	51	1.00
662453--662550	1	98.0	1	77	0	79	86	5	8	0	0.69
662451--662539	30	3.0	29	82	14	103	84	4	11	0	0.76
662452--662550	41	2.4	41	88	8	139	85	5	9	0	0.72
662468--662551	29	2.9	28	85	8	107	85	4	9	0	0.72
666276--666322	3	16.0	3	91	4	78	68	2	0	29	1.02
668799--668839	13	3.2	13	83	10	50	53	4	4	36	1.44
670168--670202	17	2.1	17	88	0	52	45	8	2	42	1.49
674503--674546	17	2.6	17	88	0	61	47	0	2	50	1.13

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