genome.fa.s40.2.7.7.80.10.50.1000.5.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: Scaffold40
Parameters: 2 7 7 80 10 50 1000
Length:  3440810

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  5  of  24  ( 2833 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)
605044--605101	18	3.3	18	70	15	50	50	0	3	46	1.18
613324--613375	22	2.5	21	81	9	61	36	0	5	57	1.23
613401--613441	19	2.1	19	86	9	55	43	0	0	56	0.99
613401--613448	21	2.4	21	86	6	64	41	0	0	58	0.98
613442--613488	26	1.9	25	83	12	62	40	4	0	55	1.19
613718--613751	8	4.1	8	88	7	50	38	0	0	61	0.96
614131--614165	9	3.8	9	92	3	52	0	34	0	65	0.93
614132--614162	14	2.3	14	94	5	55	0	32	0	67	0.91
614092--614164	34	2.1	34	80	9	78	1	30	0	68	0.98
614250--614274	13	1.9	13	100	0	50	0	28	0	72	0.86
614471--614501	2	15.5	2	100	0	62	51	0	0	48	1.00
615928--615964	11	3.4	11	92	0	56	59	0	2	37	1.12
616586--616819	118	2.0	117	83	2	299	41	4	10	43	1.59
618664--618702	2	19.5	2	94	0	69	51	0	2	46	1.14
619512--619557	17	2.7	18	76	10	51	47	4	6	41	1.49
620506--620543	19	2.0	19	90	10	60	52	5	0	42	1.24
620602--620654	16	3.3	16	76	10	63	41	0	3	54	1.18
620587--620666	32	2.5	32	93	0	133	42	0	3	53	1.18
620613--620664	16	3.2	16	78	10	70	40	0	1	57	1.10
620620--620671	16	3.2	16	71	7	52	44	0	1	53	1.11
621356--621408	23	2.3	23	81	12	56	49	5	0	45	1.26
621432--621458	8	3.4	8	100	0	54	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
622374--622444	23	3.2	23	62	18	60	18	11	18	52	1.74
622372--622453	43	1.9	43	97	0	155	20	13	17	48	1.80
626373--626441	30	2.3	30	82	0	84	36	4	4	55	1.40
628032--628102	10	6.8	11	71	20	55	73	4	0	22	1.01
628033--628086	11	4.7	12	80	13	51	70	5	0	24	1.08
628027--628105	40	2.0	40	87	5	115	70	5	0	24	1.06
635608--635666	30	2.0	30	100	0	118	32	13	13	40	1.84
639776--639820	3	15.0	3	90	0	72	62	0	4	33	1.15
642282--642318	16	2.4	16	95	4	67	75	5	0	18	0.99
643189--643495	15	20.9	15	67	12	95	27	18	18	35	1.95
643416--643494	29	2.7	29	84	0	113	30	18	16	34	1.94
644044--644077	16	2.1	16	94	0	59	26	29	0	44	1.55
645534--645564	2	15.5	2	100	0	62	51	0	0	48	1.00
659590--659625	2	18.0	2	100	0	72	50	0	0	50	1.00
661345--661388	22	2.0	21	87	12	63	63	2	0	34	1.07
663014--663053	2	20.0	2	100	0	80	50	0	0	50	1.00
664193--664219	4	6.8	4	100	0	54	22	0	0	77	0.76
668536--668587	15	3.6	14	75	10	50	50	0	0	50	1.00
668778--668823	21	2.2	20	88	3	65	58	0	0	41	0.98
670169--670249	18	4.3	19	66	19	62	56	0	0	43	0.99
670175--670208	17	1.9	18	88	5	52	61	0	0	38	0.96
670172--670273	31	3.5	30	73	18	90	54	0	0	44	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670198--670246	19	2.6	19	90	6	73	53	0	0	46	1.00
670196--670254	19	2.7	22	80	19	63	52	0	0	47	1.00
670193--670270	40	2.0	40	83	11	101	52	1	0	46	1.08
670198--670283	40	2.2	40	81	10	97	53	1	0	45	1.07
670879--670910	9	3.4	9	95	4	55	65	0	0	34	0.93
678587--678618	6	5.3	6	92	0	55	65	0	0	34	0.93
678748--678875	34	3.9	34	68	24	112	41	13	9	35	1.76
678897--679043	34	4.3	34	71	13	86	39	21	7	31	1.81
680699--680731	13	2.6	13	90	4	50	9	12	3	75	1.14
685350--685392	20	2.2	20	86	0	59	44	11	11	32	1.77
685387--685424	19	2.0	19	100	0	76	31	15	5	47	1.68
686007--686031	9	2.8	9	100	0	50	44	0	0	56	0.99
687492--687534	20	2.2	20	95	0	77	16	4	0	79	0.90
690279--690316	16	2.3	16	82	17	51	36	0	0	63	0.95
690602--690650	25	1.9	26	84	12	66	46	0	0	53	1.00
691961--691985	10	2.5	10	100	0	50	32	0	0	68	0.90
695231--695267	18	2.1	17	95	5	65	56	0	0	43	0.99
695848--695935	39	2.2	39	91	2	140	29	21	13	35	1.92
695855--695922	20	3.5	19	78	11	75	30	19	14	35	1.92
699389--699430	19	2.2	19	83	12	50	64	0	0	35	0.94
702296--702449	28	5.6	26	70	12	85	38	9	5	46	1.61
702357--702500	28	5.1	28	70	17	93	38	9	4	48	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
703520--703564	23	2.0	23	86	0	63	48	4	6	40	1.49
703519--703582	31	2.1	29	85	5	83	45	4	7	42	1.54
703591--703625	16	2.2	16	89	0	52	40	0	8	51	1.33
703578--703628	16	3.6	14	75	12	50	41	0	7	50	1.31
703572--703628	30	2.0	29	89	6	89	42	0	7	50	1.29
703680--703717	2	19.0	2	88	0	58	44	0	2	52	1.14
704609--704683	23	3.3	23	71	17	66	41	6	1	50	1.37
704772--704796	2	12.5	2	100	0	50	48	0	0	52	1.00
708252--708285	17	2.1	17	94	5	61	47	0	0	52	1.00
708237--708287	23	2.3	22	82	3	57	49	0	1	49	1.12
708669--708712	23	1.9	23	85	0	61	36	0	9	54	1.32
708732--708769	19	2.0	19	85	10	51	50	0	0	50	1.00
709265--709316	16	3.5	16	85	10	67	36	3	3	55	1.36
709245--709301	19	3.4	16	85	14	71	35	7	5	52	1.51
709279--709321	22	2.0	22	85	0	59	34	2	2	60	1.22
711357--711421	33	1.9	34	84	6	87	50	3	1	44	1.26
712363--712418	21	2.7	21	78	8	62	44	3	0	51	1.18
712395--712437	15	2.8	16	82	10	54	46	6	0	46	1.30
712764--712810	15	3.1	15	76	11	51	48	0	0	51	1.00
713122--713168	17	2.6	18	80	10	51	34	0	0	65	0.93
722583--722628	24	2.0	23	83	12	58	50	0	0	50	1.00
722640--722705	34	1.9	35	81	9	82	33	1	4	60	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
723264--723361	10	9.7	10	68	20	53	50	2	0	47	1.12
723645--723723	29	2.7	28	79	11	70	41	1	0	56	1.07
723638--723724	17	5.5	16	72	20	58	40	1	0	58	1.05
723684--723727	17	2.6	17	82	13	63	38	0	0	61	0.96
724065--724114	16	3.1	16	85	2	55	66	4	0	30	1.10
724802--724854	17	3.4	17	77	15	60	67	0	0	32	0.91
724798--724868	30	2.4	28	76	21	72	66	2	0	30	1.06
726017--726047	4	7.8	4	100	0	62	22	0	0	77	0.77
727128--727160	15	2.3	15	89	5	50	39	0	0	60	0.97
728039--728103	26	2.5	26	97	0	121	36	3	13	46	1.60
728043--728117	26	2.8	26	89	2	87	37	5	12	45	1.64
730660--730748	31	2.9	31	71	18	80	50	1	1	47	1.15
730872--730899	4	7.0	4	100	0	56	75	0	0	25	0.81
731390--731489	36	2.8	35	77	10	98	62	2	0	36	1.07
731500--731533	16	2.1	17	88	5	52	0	32	0	67	0.91
731691--731748	21	2.5	22	81	13	73	44	0	0	55	0.99
733929--733985	27	2.1	27	87	12	82	59	0	0	40	0.97
734048--734096	25	2.0	25	84	8	64	67	2	0	30	1.02
736316--736351	13	2.6	14	91	4	56	36	0	0	63	0.94
736524--736609	38	2.2	40	85	10	115	51	3	3	41	1.36
736965--737154	72	2.7	71	78	8	174	35	2	7	54	1.42
737936--737982	12	3.7	12	81	15	58	65	0	2	31	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
738181--738220	15	2.7	15	92	0	71	32	0	12	55	1.38
738265--738312	16	3.0	16	76	11	62	31	12	12	43	1.80
746909--746964	28	2.0	29	82	10	71	37	1	3	57	1.27
747007--747058	11	4.5	11	75	15	52	30	1	1	65	1.14
747628--747745	58	2.0	59	81	4	141	38	9	4	47	1.55
747981--748048	28	2.2	32	80	12	81	45	1	0	52	1.09
747993--748053	14	4.1	14	76	17	52	50	0	0	49	1.00
747994--748041	14	3.2	16	77	14	57	52	0	0	47	1.00
749571--749653	21	4.2	20	70	11	64	46	2	13	37	1.56
754475--754533	25	2.4	25	85	0	82	74	3	3	18	1.10

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24