genome.fa.s56.2.7.7.80.10.50.1000.4.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: Scaffold56
Parameters: 2 7 7 80 10 50 1000
Length:  1793205

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

This is table  4  of  11  ( 1274 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)
509469--509771	79	3.8	79	80	1	304	29	27	12	31	1.93
509598--509656	28	2.0	30	87	9	86	27	28	15	28	1.96
509626--509901	130	2.1	129	82	4	331	29	25	11	32	1.92
509549--509940	210	1.9	210	90	2	635	28	25	12	33	1.92
509626--509901	131	2.1	130	82	4	333	29	25	11	32	1.92
509759--510082	79	4.1	78	83	4	391	27	24	14	34	1.93
511647--511867	88	2.5	88	83	2	219	44	15	17	22	1.86
511702--511934	88	2.6	88	88	0	331	48	12	16	23	1.79
511700--511936	44	5.4	44	69	7	158	48	12	16	23	1.80
512192--512520	112	3.0	109	80	6	344	35	13	15	34	1.87
516401--516928	153	3.4	153	82	4	591	39	20	15	24	1.91
517065--517209	56	2.4	58	82	7	168	37	20	4	38	1.72
517017--517209	29	6.6	28	69	15	106	37	19	4	38	1.73
522879--522995	20	5.7	20	77	6	117	31	16	15	36	1.90
523411--523446	13	2.9	13	92	8	58	63	27	0	8	1.23
536906--536992	11	7.6	11	76	14	54	82	13	2	1	0.82
536905--536992	21	4.4	20	80	9	92	81	14	2	1	0.84
536904--536992	40	2.3	39	86	5	117	82	14	2	1	0.84
540963--541088	52	2.4	52	90	0	207	26	18	18	36	1.94
540963--541108	52	2.8	52	87	2	177	28	17	18	34	1.94
541097--541121	13	1.9	13	100	0	50	36	16	16	32	1.90
541163--541225	19	3.7	18	68	25	55	38	17	11	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541848--542208	154	2.3	155	88	3	526	33	16	27	23	1.95
542158--542873	49	15.1	49	83	9	853	32	18	24	25	1.97
542216--542874	92	7.1	92	92	2	1039	32	18	24	25	1.97
542879--543006	32	4.0	32	86	2	184	21	18	32	27	1.97
542881--543004	65	1.9	65	95	3	223	22	19	30	27	1.98
543001--543099	31	3.0	34	79	13	100	36	12	32	19	1.88
547782--547846	32	2.0	32	87	3	94	26	16	15	41	1.88
547811--547867	19	2.9	19	86	5	78	33	15	15	35	1.90
547913--547976	13	5.4	13	76	17	68	37	14	15	32	1.87
547897--547996	33	3.0	32	92	5	148	37	12	18	33	1.87
547931--547996	20	3.7	20	73	26	83	39	12	18	30	1.87
548624--548661	17	2.1	19	85	9	53	13	15	7	63	1.51
554149--554176	13	2.2	13	100	0	56	28	14	14	42	1.84
556015--556050	19	1.9	19	88	5	56	58	0	27	13	1.36
556056--556102	15	2.9	16	84	9	51	36	2	36	25	1.68
556618--556691	19	3.7	19	85	8	87	28	16	18	36	1.93
557380--557417	17	2.1	19	85	9	53	13	15	7	63	1.51
561405--561606	29	7.0	29	81	5	230	33	24	6	35	1.82
561416--561606	86	2.2	87	87	2	269	34	24	6	35	1.81
561437--561609	57	3.0	55	81	11	188	35	22	5	36	1.78
562531--562987	144	3.2	144	80	5	503	43	17	10	27	1.82
563495--563533	11	3.6	11	86	3	53	2	17	0	79	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566032--566163	66	2.0	66	86	0	183	25	23	16	34	1.95
569533--569603	34	2.1	34	81	5	81	7	19	25	47	1.74
569670--569719	25	2.0	24	81	11	57	2	18	6	74	1.12
569672--569729	24	2.3	27	82	8	68	1	20	6	70	1.19
570170--570222	3	17.7	3	92	0	88	37	0	0	62	0.96
570170--570236	9	7.3	10	83	9	58	34	0	0	65	0.93
575187--575805	80	7.8	79	80	4	597	32	9	27	30	1.89
575187--575805	158	3.9	158	83	5	635	32	9	27	30	1.89
576820--576845	13	2.0	13	100	0	52	30	15	15	38	1.88
576800--576863	32	2.0	33	87	9	96	29	15	15	39	1.89
576884--576959	21	3.7	21	80	3	100	28	17	11	42	1.84
576905--576977	20	3.6	20	81	3	101	31	19	13	35	1.91
576884--576977	41	2.3	41	98	0	179	29	18	12	39	1.88
579420--579458	13	3.0	13	96	0	69	35	15	17	30	1.91
579444--579522	20	3.7	20	75	18	70	45	15	13	25	1.83
585630--585655	13	2.0	13	100	0	52	30	15	15	38	1.88
585610--585673	32	2.0	33	87	9	96	29	15	15	39	1.89
585694--585769	21	3.7	21	80	3	100	28	17	11	42	1.84
585715--585787	20	3.6	20	81	3	101	31	19	13	35	1.91
585694--585787	41	2.3	41	98	0	179	29	18	12	39	1.88
588163--588211	20	2.5	20	86	10	73	34	10	24	30	1.89
588275--588328	20	2.7	20	88	2	81	33	14	11	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589162--589318	66	2.3	66	82	4	190	43	14	25	17	1.86
589428--589459	16	2.0	16	100	0	64	43	12	25	18	1.85
589632--589872	40	6.0	40	75	9	149	48	12	18	20	1.79
589614--589832	121	1.8	119	79	9	257	49	13	16	20	1.79
589774--589875	41	2.5	41	80	9	129	50	12	17	19	1.78
589657--589912	80	3.2	79	73	10	225	48	12	18	20	1.81
589852--589950	40	2.5	39	76	1	108	46	12	21	20	1.82
590733--590889	30	5.2	30	69	17	83	49	21	13	16	1.79
590737--591047	60	5.2	61	75	6	242	48	19	13	18	1.81
592065--592622	112	5.0	112	83	4	644	36	12	16	34	1.87
592065--592602	222	2.4	221	85	4	722	36	12	16	34	1.87
593223--593247	13	1.9	13	100	0	50	36	16	16	32	1.90
598405--598775	157	2.4	159	80	3	410	28	24	12	34	1.92
598423--598802	79	4.8	79	81	5	342	27	26	13	32	1.94
598737--598855	59	2.0	59	83	6	152	25	30	15	28	1.96
598796--599209	79	5.3	78	79	7	392	28	23	14	34	1.93
598796--599134	157	2.1	155	79	8	362	28	23	14	34	1.93
601879--601946	32	2.1	33	89	8	104	35	19	11	33	1.88
601975--602027	19	2.7	19	85	2	61	33	20	15	30	1.93
607252--607306	19	2.8	20	83	5	76	34	18	16	30	1.93
607292--607323	13	2.5	13	94	0	55	40	12	15	31	1.85
607922--607970	19	2.5	19	86	3	62	36	16	14	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612023--612053	15	2.1	15	93	0	53	48	16	22	12	1.80
614135--614173	13	3.0	13	92	0	69	35	17	15	30	1.91
614284--614329	21	2.2	20	81	11	58	32	19	4	43	1.71
616746--616771	13	2.0	13	100	0	52	38	15	15	30	1.88
616728--616791	32	2.0	33	87	3	94	40	17	14	28	1.88
618628--619197	156	3.7	155	76	6	472	41	19	14	24	1.89
619306--619418	55	2.0	58	84	5	151	32	23	5	38	1.78
619306--619418	29	4.0	29	78	10	117	32	23	5	38	1.78
623439--623474	15	2.4	15	90	0	54	77	0	5	16	0.94
624454--624545	6	16.2	6	69	15	52	46	0	2	51	1.13
624451--624513	23	2.9	21	88	7	90	44	0	3	52	1.17
624477--624507	16	1.9	16	100	0	62	51	0	3	45	1.17
624454--624523	22	3.1	22	80	10	70	45	0	2	51	1.16
624893--624924	2	16.0	2	93	0	55	53	0	46	0	1.00
627152--627189	2	19.5	2	83	5	51	47	2	2	47	1.30
628696--628728	8	4.2	8	88	3	50	51	0	0	48	1.00
628806--628918	3	38.7	3	78	15	121	64	0	3	31	1.10
635030--635188	60	2.7	59	78	5	169	40	13	12	32	1.83
635813--635846	13	2.8	12	91	8	52	0	17	5	76	0.98
637143--637176	15	2.3	15	89	0	50	35	2	0	61	1.11
637714--637829	35	3.3	34	73	15	85	55	0	3	40	1.23
638402--638434	17	1.9	17	93	0	57	24	0	0	75	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638394--638440	23	2.0	23	84	8	60	23	0	2	74	0.93
638399--638434	9	4.1	9	85	7	56	25	0	0	75	0.81
644195--644362	91	1.8	91	92	0	282	43	14	1	40	1.56
644971--645008	19	2.0	19	85	10	51	63	5	5	26	1.37
646723--646804	43	1.9	43	92	0	137	34	17	0	48	1.47
646767--647222	79	5.8	77	84	4	522	28	20	10	40	1.85
646763--647255	158	3.1	157	85	4	622	28	21	10	40	1.86
649681--649753	36	1.9	36	84	13	94	46	1	2	49	1.24
649666--649770	31	3.2	32	71	19	92	48	0	2	47	1.23
650172--650213	18	2.4	18	84	4	50	61	2	7	28	1.35

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