genome.fa.s407.2.7.7.80.10.50.1000.4.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: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

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   25   26   27   28   

This is table  4  of  28  ( 3302 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)
564538--564776	92	2.5	95	84	8	306	26	24	16	32	1.96
564677--564798	52	2.3	55	84	4	169	26	24	13	36	1.92
570433--570486	20	2.7	20	85	0	72	29	11	14	44	1.80
570529--570553	13	1.9	13	100	0	50	32	16	16	36	1.90
570542--570690	52	2.9	52	89	2	228	31	18	18	31	1.95
575599--575640	11	3.9	10	85	14	57	88	9	2	0	0.61
575597--575642	17	2.6	17	87	12	67	89	8	2	0	0.57
575597--575640	22	2.0	23	90	4	72	88	9	2	0	0.59
575600--575642	9	4.9	9	80	5	52	88	9	2	0	0.60
576613--576801	94	1.9	95	87	8	274	24	29	19	27	1.98
576725--577169	61	7.5	61	84	6	533	25	27	19	27	1.99
577139--577929	85	9.3	84	81	7	827	20	25	12	41	1.87
577165--577816	258	2.5	255	86	3	883	19	25	12	42	1.86
577137--577929	258	3.1	257	81	8	878	20	25	12	41	1.87
578570--578595	13	2.0	13	100	0	52	30	15	15	38	1.88
580928--581207	130	2.1	129	84	3	364	27	26	15	31	1.95
581009--581128	51	2.4	51	85	2	170	28	25	14	31	1.94
581060--581357	79	3.8	80	78	5	309	27	24	15	32	1.95
581060--581348	158	1.8	158	84	4	395	27	24	14	33	1.95
583890--583986	19	5.8	18	72	27	97	32	12	17	37	1.87
583892--583994	32	3.2	32	98	0	197	33	12	18	35	1.89
583911--583967	13	3.9	13	76	24	60	35	14	17	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584039--584063	13	1.9	13	100	0	50	32	16	16	36	1.90
587742--587825	20	3.7	20	70	27	69	42	9	16	30	1.80
587742--587856	50	2.3	50	93	0	194	43	9	16	30	1.80
588896--588983	31	2.8	32	85	10	103	26	19	27	27	1.99
588906--589264	28	12.5	28	81	8	312	24	17	28	29	1.97
588938--589265	57	5.8	57	78	6	308	25	17	28	29	1.97
589324--589361	14	2.7	14	91	0	58	31	21	7	39	1.82
593655--593761	56	1.9	56	96	0	196	25	19	24	30	1.98
593800--593864	32	2.0	32	100	0	130	21	18	21	38	1.93
596500--596688	97	2.0	96	84	3	245	37	11	20	30	1.88
601249--601364	52	2.3	51	84	1	142	43	13	13	28	1.83
601250--601381	51	2.6	52	82	1	158	43	14	13	28	1.83
601443--601495	20	2.6	21	84	3	63	32	11	11	45	1.76
602671--602722	20	2.5	21	93	3	88	32	19	9	38	1.84
604345--604406	32	1.9	33	96	3	117	33	9	19	37	1.84
604344--604427	19	4.7	19	80	18	108	33	10	17	38	1.85
604503--604631	52	2.5	52	97	0	240	34	17	18	28	1.94
613168--613240	20	3.7	20	79	3	76	39	12	13	34	1.82
613165--613240	40	1.9	39	86	2	107	39	13	13	34	1.83
613718--614954	28	43.2	29	89	4	1691	22	17	32	28	1.96
613718--614954	57	21.6	57	88	4	1699	22	17	32	28	1.96
616175--616250	11	6.9	11	81	15	68	2	2	10	84	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616189--616251	1	63.0	1	74	0	54	0	1	11	87	0.62
616172--616249	17	4.1	19	80	9	63	2	3	10	83	0.87
616189--616251	12	5.5	11	83	10	81	0	1	11	87	0.62
616189--616252	23	2.8	23	86	9	87	0	1	12	85	0.66
616196--616252	11	4.8	12	87	10	82	0	0	14	85	0.59
616197--616252	23	2.4	24	91	5	89	0	0	14	85	0.59
628227--628299	20	3.7	20	79	3	76	39	12	13	34	1.82
628224--628299	40	1.9	39	86	2	107	39	13	13	34	1.83
630193--630265	20	3.6	20	81	3	101	35	13	19	31	1.91
630211--630286	21	3.7	21	80	3	100	42	11	17	28	1.84
630193--630286	41	2.3	41	98	0	179	39	12	18	29	1.88
630325--630350	13	2.0	13	100	0	52	38	15	15	30	1.88
636456--636534	20	3.7	21	75	15	72	26	13	15	44	1.84
636521--636559	13	3.0	13	96	0	69	30	17	15	35	1.91
638343--638449	53	2.0	53	98	0	205	35	5	25	33	1.79
639054--639126	20	3.6	20	79	3	92	35	15	19	30	1.92
639072--639147	21	3.7	21	76	3	91	42	13	17	27	1.86
639054--639147	41	2.3	41	96	0	170	39	13	18	28	1.89
639186--639211	13	2.0	13	100	0	52	38	15	15	30	1.88
650103--650147	9	4.9	9	84	15	65	88	11	0	0	0.50
650101--650147	13	3.4	14	88	11	71	89	10	0	0	0.49
651528--652098	29	18.9	30	77	9	341	28	28	16	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651524--652103	119	4.8	118	76	11	333	28	27	15	28	1.96
652076--652168	35	2.7	34	78	8	107	20	29	11	38	1.88
651582--652214	275	2.3	277	93	2	1076	28	27	15	28	1.96
652141--652230	28	3.1	28	90	3	126	35	28	16	18	1.93
652141--652264	28	4.3	28	83	7	108	36	29	16	18	1.92
652381--652469	43	2.1	43	93	0	151	26	23	17	31	1.97
652284--652522	92	2.5	95	85	6	304	26	24	16	32	1.96
652423--652643	52	3.9	55	75	12	180	23	24	14	37	1.93
653408--653432	13	1.9	13	100	0	50	36	16	16	32	1.90
653388--653454	33	2.0	33	88	0	98	32	11	14	40	1.83
653495--653519	13	1.9	13	100	0	50	32	16	16	36	1.90
659784--659838	23	2.6	20	78	15	65	61	9	7	21	1.50
659791--659846	23	2.5	23	94	2	96	60	8	10	19	1.55
660756--660809	17	2.9	18	84	12	74	37	14	14	33	1.88
661975--662287	79	3.9	79	86	3	425	32	14	26	26	1.95
662243--662320	27	2.9	27	84	5	95	24	17	32	25	1.97
664810--664867	13	4.0	13	74	23	53	29	17	17	36	1.92
664824--664957	19	7.7	19	80	18	166	32	19	14	33	1.92
664811--664956	32	4.4	32	87	10	211	31	19	15	33	1.93
664824--664957	70	1.9	70	96	0	250	32	19	14	33	1.92
664913--664937	13	1.9	13	100	0	50	32	16	16	36	1.90
664994--665051	21	2.7	22	81	7	75	32	15	15	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
665948--666550	28	20.7	28	82	8	667	22	17	31	28	1.97
666551--666898	27	12.7	27	88	5	452	29	14	31	24	1.94
665992--666914	28	32.5	28	81	8	525	25	16	31	26	1.96
666551--666898	109	3.2	109	85	5	488	29	14	31	24	1.94
669522--669563	21	2.0	21	95	0	75	40	9	21	28	1.84
669550--669575	13	2.0	13	100	0	52	30	15	15	38	1.88
671615--672001	52	7.4	53	70	13	203	29	26	11	32	1.92
671781--672001	51	4.3	51	82	5	185	29	25	11	33	1.91
671984--672060	28	2.8	28	86	7	95	24	35	18	22	1.96
671614--672110	262	1.9	261	91	1	816	28	27	12	30	1.93
672172--672231	28	2.0	30	87	9	88	28	26	15	30	1.96
672017--672267	79	3.2	79	80	2	281	26	29	13	29	1.95
674471--674495	13	1.9	13	100	0	50	36	16	16	32	1.90
674451--674517	33	2.0	33	88	0	98	32	11	14	40	1.83
674558--674582	13	1.9	13	100	0	50	32	16	16	36	1.90
674591--674719	52	2.5	52	96	0	231	34	18	17	29	1.94
678864--678890	10	2.7	10	100	0	54	0	0	22	77	0.76
688584--688710	1	127.0	1	78	0	83	85	11	3	0	0.76
688584--688710	23	5.5	23	75	3	121	85	11	3	0	0.76
688588--688673	44	1.9	44	85	4	118	83	11	4	0	0.78
690181--690715	33	15.9	35	82	10	487	20	32	12	34	1.90
690163--690702	34	16.1	33	81	11	403	20	32	12	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
690416--690511	27	3.3	27	73	18	75	18	35	14	31	1.91
690717--690802	33	2.6	34	88	5	131	32	34	15	17	1.91
690726--690832	33	3.3	32	79	11	112	34	30	16	17	1.93
690839--690924	27	2.9	31	81	13	92	31	33	17	17	1.93
690921--691125	49	4.0	50	78	9	189	24	24	16	34	1.96
690932--691125	52	3.7	52	81	8	200	24	23	17	34	1.96
691912--691936	13	1.9	13	100	0	50	36	16	16	32	1.90
691892--691958	33	2.0	33	88	0	98	32	11	14	40	1.83
691999--692023	13	1.9	13	100	0	50	32	16	16	36	1.90
692032--692160	52	2.5	52	96	0	231	34	18	17	29	1.94

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   25   26   27   28