genome.fa.s43.2.7.7.80.10.50.1000.5.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: Scaffold43
Parameters: 2 7 7 80 10 50 1000
Length:  2559314

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  5  of  19  ( 2200 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)
552959--553032	25	3.0	24	71	11	60	51	0	4	44	1.20
553192--553236	15	3.0	15	83	9	65	37	4	0	57	1.19
553370--553414	21	2.0	22	83	8	56	53	0	0	46	1.00
555711--555742	2	16.0	2	100	0	64	0	50	0	50	1.00
557904--557936	2	16.5	2	100	0	66	51	0	0	48	1.00
558138--558170	2	16.5	2	100	0	66	51	0	0	48	1.00
559509--559540	2	16.0	2	100	0	64	50	0	0	50	1.00
559588--559615	2	14.0	2	100	0	56	50	0	50	0	1.00
560051--560095	2	22.5	2	86	0	63	42	0	6	51	1.28
560289--560321	2	16.0	2	93	6	57	3	48	0	48	1.17
578977--579759	208	3.8	206	87	4	1100	44	19	13	23	1.86
580408--580446	20	2.0	19	85	5	51	51	0	2	46	1.14
581706--581744	20	2.1	19	90	9	62	43	0	7	48	1.31
583413--583455	19	2.3	19	79	0	50	58	0	0	41	0.98
583406--583471	26	2.4	28	73	19	75	60	0	0	39	0.97
583695--583938	122	2.0	124	86	1	348	45	6	4	43	1.50
587875--587931	14	3.9	15	81	9	57	63	0	1	35	1.05
588098--588139	17	2.4	18	80	7	52	73	0	0	26	0.83
588191--588240	20	2.5	19	77	6	55	46	0	0	54	1.00
588706--588748	18	2.2	20	80	12	54	58	4	0	37	1.19
589848--589891	22	2.0	21	83	12	54	40	0	0	59	0.98
592551--592601	22	2.3	23	82	3	59	54	5	1	37	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593135--593170	17	2.1	17	89	0	54	0	16	0	83	0.65
594413--594854	32	13.8	32	93	1	699	16	18	33	31	1.93
594837--596040	27	44.0	27	91	2	1895	28	14	34	22	1.94
597093--597127	1	35.0	1	94	0	52	0	0	5	94	0.32
597091--597122	16	2.0	16	100	0	64	0	0	12	87	0.54
603860--603895	17	2.1	17	89	0	54	0	16	0	83	0.65
612507--612539	3	11.0	3	100	0	66	0	0	33	66	0.92
617436--617478	19	2.3	19	88	4	61	48	0	9	41	1.35
619411--619442	2	16.0	2	93	0	55	53	0	0	46	1.00
623291--623338	21	2.2	22	88	3	71	56	0	0	43	0.99
624599--624728	68	1.9	70	88	3	201	54	4	3	36	1.39
627000--627059	29	2.2	29	85	8	81	61	0	0	38	0.96
627616--627662	14	3.1	15	75	9	51	34	0	2	63	1.06
627943--627984	6	7.0	6	91	0	57	42	0	7	50	1.30
628294--628324	7	4.4	7	91	0	53	58	0	0	41	0.98
629244--629290	16	2.9	16	83	3	58	46	2	0	51	1.13
629600--629664	32	2.0	32	82	5	78	55	1	1	41	1.18
631833--631874	17	2.5	17	88	3	59	38	9	0	52	1.34
631313--632294	498	2.0	499	89	2	1528	37	7	6	48	1.59
635465--635507	19	2.3	18	88	11	61	44	2	0	53	1.13
635847--635878	14	2.4	14	90	10	50	43	0	0	56	0.99
636268--636293	12	2.2	12	100	0	52	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)
636297--636330	12	2.7	13	86	9	52	61	0	0	38	0.96
637191--637233	23	1.9	22	90	4	68	23	0	2	74	0.93
638868--638911	14	3.2	14	77	6	54	47	0	0	52	1.00
639617--639676	25	2.5	25	82	12	72	60	3	0	36	1.14
641096--641273	98	1.8	98	98	0	347	32	13	17	37	1.89
644583--644628	23	2.0	23	91	0	74	56	0	0	43	0.99
646228--646503	76	3.6	76	76	5	254	33	25	16	24	1.96
646252--646425	77	2.3	76	81	3	197	35	23	16	25	1.95
648024--648049	2	13.0	2	100	0	52	0	0	50	50	1.00
650619--650656	14	2.8	14	96	4	69	42	0	0	57	0.98
652355--652389	19	1.9	19	88	11	56	37	5	0	57	1.23
652600--652639	19	2.1	19	86	9	55	50	0	0	50	1.00
652924--652989	32	2.1	32	83	11	82	60	0	3	36	1.12
666898--666928	15	2.1	15	100	0	62	35	51	0	12	1.40
669120--669177	16	3.7	16	74	4	64	31	3	0	65	1.09
669116--669177	31	2.0	31	100	0	124	29	6	0	64	1.18
670570--670633	24	2.6	25	78	14	62	37	0	1	60	1.06
670825--670855	3	10.3	3	100	0	62	67	0	0	32	0.91
671125--671183	22	2.5	24	81	13	68	42	3	3	50	1.35
680523--680567	22	2.0	22	95	0	81	33	6	22	37	1.80
685441--686015	157	3.7	158	85	2	748	25	16	21	36	1.94
687025--687090	29	2.3	29	79	7	73	27	3	9	60	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
689419--689483	34	1.9	34	93	0	112	33	18	13	33	1.90
689787--689813	2	13.5	2	100	0	54	0	0	48	51	1.00
690406--690448	2	21.5	2	85	0	59	51	4	0	44	1.22
691766--691801	2	18.0	2	100	0	72	50	0	0	50	1.00
692899--692957	15	3.8	16	82	13	70	59	0	0	40	0.97
695701--695774	12	6.2	12	75	17	57	32	0	1	66	1.00
695999--696032	18	2.0	18	88	11	54	50	0	2	47	1.16
696902--696984	42	2.0	41	88	2	121	51	3	2	42	1.32
697334--697399	33	2.0	34	87	3	98	39	16	1	42	1.58
697570--697634	33	2.0	34	90	6	107	43	0	6	50	1.27
698564--698596	2	16.5	2	93	0	57	54	0	0	45	0.99
701258--701310	25	2.1	25	82	6	63	52	1	0	45	1.11
701905--701972	22	3.2	21	76	17	59	57	1	0	41	1.08
701926--701977	23	2.3	24	81	18	67	55	1	0	42	1.10
702619--702676	23	2.4	24	85	5	73	31	3	5	60	1.35
702638--702679	20	2.1	20	86	0	57	28	2	7	61	1.35
704244--704270	2	13.5	2	100	0	54	51	0	0	48	1.00
704470--704495	2	13.0	2	100	0	52	50	0	0	50	1.00
704677--704727	21	2.3	23	80	9	63	50	0	0	49	1.00
706562--706629	35	1.9	35	93	0	118	27	11	13	47	1.78
706710--706768	24	2.5	23	86	2	91	38	6	13	40	1.71
706982--707068	8	11.0	8	73	17	67	63	1	0	35	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
706982--707056	33	2.4	30	79	16	80	64	1	0	34	1.02
706982--707068	15	5.5	16	72	18	67	63	1	0	35	1.02
708746--708792	23	2.0	23	91	0	76	42	8	4	44	1.54
711127--711161	2	17.5	2	100	0	70	48	0	0	51	1.00
713076--713132	18	2.9	20	82	12	64	47	1	10	40	1.48
713462--713515	24	2.3	24	81	9	67	31	1	0	66	1.02
713658--713692	5	6.8	5	90	3	52	20	0	2	77	0.90
713659--713687	15	1.9	15	100	0	58	24	0	0	75	0.80
714180--714265	44	1.9	45	81	6	104	41	2	3	52	1.31
714478--714526	18	2.8	18	79	11	57	48	0	2	48	1.12
714782--714813	2	16.0	2	100	0	64	50	0	50	0	1.00
719388--719429	15	2.9	14	83	13	50	66	0	0	33	0.92
719284--719545	132	2.0	131	86	5	366	43	4	3	47	1.41
719998--720102	21	4.7	21	72	18	70	34	0	1	63	1.05
719988--720058	29	2.5	29	80	8	83	36	0	1	61	1.05
720043--720101	11	5.5	11	75	17	52	33	0	1	64	1.04
720043--720144	48	2.1	48	78	3	107	31	0	4	62	1.23
720173--720212	12	3.4	12	79	6	55	30	0	0	70	0.88
720279--720326	23	2.0	23	84	8	60	37	2	0	60	1.09
720449--720496	23	2.2	22	78	10	55	18	6	8	66	1.39
720607--720663	17	3.2	18	80	7	64	29	5	1	63	1.27
732346--732377	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)
733230--733263	18	1.9	17	88	5	50	17	5	0	76	0.98
734220--734248	12	2.3	13	94	5	51	55	0	0	44	0.99
734248--734291	5	8.4	5	80	9	52	40	0	0	59	0.98
734267--734313	17	2.8	17	75	15	53	36	0	0	63	0.94
734427--734488	5	13.0	5	71	21	53	61	0	3	35	1.12
734442--734492	11	4.7	11	75	22	54	66	0	0	33	0.92
734444--734488	13	3.6	13	83	16	60	68	0	0	31	0.89
734472--734551	31	2.5	31	75	4	79	51	1	2	45	1.22
734443--734606	26	5.9	27	69	18	97	54	0	1	43	1.15
734552--734607	20	2.8	21	74	17	57	51	0	3	44	1.18

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19